Citrus Sinensis ID: 029142

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------20
Protein Sequence
MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKITPLRERVEVVEGGDAMEE
Secondary Structure (PSIPRED)
ccccEEEEccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccEEEEEEEEEEccccEEEEEcccccEEEccEEEEcccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHcccccccccEEEEEEccccEEEEccccccccccccccccccccccccEEEEEEEEEEEEEEEEEccccccc
Secondary Structure Prediction (SSPRO)
EEccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccEEEEEEEEEccEEEEEEEcccccEEEccEEEEcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccccEEEEEEEccEEEEEcccccccccccEcccEEcccccccEEEEEEEEcEEEEEEEEccccccc
Coil and Loop (DISEMBL)
mapniyccgagtaadtEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLggvdctgphlhtiyphgstdtlpfatmgsgSLAAMAMFESKYkegltkdeGIQLVVDAICSGIfndlgsgsnvdvCVITKGHKEYLrnhllpnprtfvnakgysfpkktEVLLTKitplrervevveggdamee
Flexible Loop (DISEMBL)
MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIfndlgsgsNVDVCVITKGHKEYlrnhllpnprtfvnakgysfpkktevlltkitplrervevveggdamee
Low Complexity Region (SEG)
MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKITPLRERVEVVEGGDAMEE
Disordered region (IsUnstruct)
****IYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKITPLRERV***********
Disordered Region (DISOPRED)
MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVN***YSFPKKTEVLLTKITPLRERVEVV*G******
Disordered Region (DISEMBL)
MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKITPLRERVEVVEGGDAMEE
Disordered Region (DISPRO)
MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKITPLRERVEVVEGGD****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKITPLRERVEVVEGGDAMEE
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	198	2.2.26 [Sep-21-2011]
Q7DLS1	274	Proteasome subunit beta t	yes	no	1.0	0.722	0.864	2e-99
O23710	273	Proteasome subunit beta t	yes	no	1.0	0.725	0.848	1e-98
Q54QR2	266	Proteasome subunit beta t	yes	no	0.954	0.710	0.614	1e-61
Q99436	277	Proteasome subunit beta t	yes	no	0.954	0.682	0.575	3e-58
Q9JHW0	277	Proteasome subunit beta t	yes	no	0.979	0.700	0.561	6e-58
P70195	277	Proteasome subunit beta t	yes	no	0.954	0.682	0.570	9e-58
A1XQU1	277	Proteasome subunit beta t	yes	no	0.954	0.682	0.570	1e-57
Q2TBP0	277	Proteasome subunit beta t	yes	no	0.949	0.678	0.572	3e-57
P25043	261	Proteasome subunit beta t	yes	no	0.888	0.674	0.567	5e-53
Q09841	267	Probable proteasome subun	yes	no	0.888	0.659	0.536	2e-49

>sp|Q7DLS1|PSB7B_ARATH Proteasome subunit beta type-7-B OS=Arabidopsis thaliana GN=PBB2 PE=1 SV=2

 Score =  361 bits (926), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 172/199 (86%), Positives = 190/199 (95%), Gaps = 1/199 (0%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGR+SRVVTALTLLKKHLF+YQG+V A
Sbjct: 76  MAPNIYCCGAGTAADTEAVTDMVSSQLRLHRYQTGRDSRVVTALTLLKKHLFSYQGHVSA 135

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM++FE+KYKEGLT+DEGI+LV 
Sbjct: 136 ALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFEAKYKEGLTRDEGIKLVA 195

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AICSGIFNDLGSGSNVD+CVITKGHKEYLRN++ PNPRT+V++KGYSF KKTEVLLTKI
Sbjct: 196 EAICSGIFNDLGSGSNVDICVITKGHKEYLRNYMEPNPRTYVSSKGYSFTKKTEVLLTKI 255

Query: 181 TPLRERVEVVE-GGDAMEE 198
           TPL ERVE+VE  G+AMEE
Sbjct: 256 TPLLERVEIVEVAGEAMEE 274

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

>sp|O23710|PSB7A_ARATH Proteasome subunit beta type-7-A OS=Arabidopsis thaliana GN=PBB1 PE=1 SV=2

 Score =  358 bits (920), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 168/198 (84%), Positives = 189/198 (95%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGR+SRV+TALTLLKKHLF+YQG+V A
Sbjct: 76  MAPNIYCCGAGTAADTEAVTDMVSSQLRLHRYQTGRDSRVITALTLLKKHLFSYQGHVSA 135

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM++FE+KYKEGLT+DEGI+LV 
Sbjct: 136 ALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFEAKYKEGLTRDEGIKLVA 195

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           ++ICSGIFNDLGSGSNVD+CVITKG+KEYLRN++ PNPRT+V++KGYSF KKTEVLLTKI
Sbjct: 196 ESICSGIFNDLGSGSNVDICVITKGNKEYLRNYMEPNPRTYVSSKGYSFTKKTEVLLTKI 255

Query: 181 TPLRERVEVVEGGDAMEE 198
           TPL ERVE+ E G+AMEE
Sbjct: 256 TPLLERVEITEVGEAMEE 273

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|Q54QR2|PSB7_DICDI Proteasome subunit beta type-7 OS=Dictyostelium discoideum GN=psmB7 PE=3 SV=1

 Score =  236 bits (601), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 118/192 (61%), Positives = 145/192 (75%), Gaps = 3/192 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +A NIYCCGAGTAADTE+ T ++SS+L+LH+  TG+++RV+TALT+LK+ LF YQG++ A
Sbjct: 71  IADNIYCCGAGTAADTESATALISSKLKLHKLSTGKQTRVITALTMLKQMLFKYQGHISA 130

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           AL+LGG+D  GP LHTIYPHGSTD LP+ TMGSGSLAAMA+FE+KYK  +TK+E I LV 
Sbjct: 131 ALILGGIDINGPSLHTIYPHGSTDQLPYVTMGSGSLAAMAVFEAKYKNDMTKEEAIALVA 190

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPK-KTEVLLTK 179
           +AI SGIFNDLGSGSNVDV VI       LRN+  PN R F N   Y F +  T VL   
Sbjct: 191 EAISSGIFNDLGSGSNVDVTVIEPSGVTVLRNYQTPNERKFRN-NPYIFKQGTTPVLKQD 249

Query: 180 ITPLRERVEVVE 191
           I PL  +V V+E
Sbjct: 250 IAPLSTKV-VIE 260

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|Q99436|PSB7_HUMAN Proteasome subunit beta type-7 OS=Homo sapiens GN=PSMB7 PE=1 SV=1

 Score =  224 bits (571), Expect = 3e-58,   Method: Compositional matrix adjust.
 Identities = 110/191 (57%), Positives = 141/191 (73%), Gaps = 2/191 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct: 80  ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E   LV 
Sbjct: 140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVS 199

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     +       T VL  KI
Sbjct: 200 EAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKGTRLGRYRCEKGTTAVLTEKI 259

Query: 181 TPLRERVEVVE 191
           TPL   +EV+E
Sbjct: 260 TPL--EIEVLE 268

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 trypsin-like activity.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9JHW0|PSB7_RAT Proteasome subunit beta type-7 OS=Rattus norvegicus GN=Psmb7 PE=1 SV=1

 Score =  223 bits (569), Expect = 6e-58,   Method: Compositional matrix adjust.
 Identities = 110/196 (56%), Positives = 143/196 (72%), Gaps = 2/196 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct: 80  ISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E  +LV 
Sbjct: 140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVS 199

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     +       T VL  K+
Sbjct: 200 EAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGRYRCEKGTTAVLTEKV 259

Query: 181 TPLRERV--EVVEGGD 194
           TPL   V  E+V+  D
Sbjct: 260 TPLELEVLEEIVQTMD 275

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|P70195|PSB7_MOUSE Proteasome subunit beta type-7 OS=Mus musculus GN=Psmb7 PE=1 SV=1

 Score =  223 bits (567), Expect = 9e-58,   Method: Compositional matrix adjust.
 Identities = 109/191 (57%), Positives = 141/191 (73%), Gaps = 2/191 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct: 80  ISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E  +LV 
Sbjct: 140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVS 199

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AI +GIFNDLGSGSN+D+CVI+K   ++LR   +PN +     +       T VL  K+
Sbjct: 200 EAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPFSVPNKKGTRLGRYRCEKGTTAVLTEKV 259

Query: 181 TPLRERVEVVE 191
           TPL   +EV+E
Sbjct: 260 TPL--EIEVLE 268

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 trypsin-like activity of the proteasome.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|A1XQU1|PSB7_PIG Proteasome subunit beta type-7 OS=Sus scrofa GN=PSMB7 PE=2 SV=2

 Score =  222 bits (565), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 109/191 (57%), Positives = 141/191 (73%), Gaps = 2/191 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct: 80  ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E  QLV 
Sbjct: 140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPEMEEEEAKQLVS 199

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     +       T VL  K+
Sbjct: 200 EAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGRYRCEKGTTAVLTEKV 259

Query: 181 TPLRERVEVVE 191
           T L   +EV+E
Sbjct: 260 TAL--DIEVLE 268

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.

Sus scrofa (taxid: 9823)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q2TBP0|PSB7_BOVIN Proteasome subunit beta type-7 OS=Bos taurus GN=PSMB7 PE=1 SV=1

 Score =  221 bits (562), Expect = 3e-57,   Method: Compositional matrix adjust.
 Identities = 110/192 (57%), Positives = 144/192 (75%), Gaps = 4/192 (2%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct: 80  ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E  +LV 
Sbjct: 140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVS 199

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLT-K 179
           +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y   K T  +LT K
Sbjct: 200 EAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGR-YRCEKGTNAVLTEK 258

Query: 180 ITPLRERVEVVE 191
           +T L   +EV+E
Sbjct: 259 VTTL--EIEVLE 268

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

Bos taurus (taxid: 9913)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P25043|PSB2_YEAST Proteasome subunit beta type-2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PUP1 PE=1 SV=1

 Score =  207 bits (526), Expect = 5e-53,   Method: Compositional matrix adjust.
 Identities = 101/178 (56%), Positives = 132/178 (74%), Gaps = 2/178 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK+HLF YQG++ A
Sbjct: 66  ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGA 125

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
            L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMA+ ES +K+ LTK+E I+L  
Sbjct: 126 YLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLAS 185

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHK-EYLRNHLLPNPRTFVNAKGYSFPKKTEVLL 177
           DAI +GI+NDLGSGSNVDVCV+  G   EYLRN+L PN R     K Y FP+ T  +L
Sbjct: 186 DAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVRE-EKQKSYKFPRGTTAVL 242

The proteasome degrades poly-ubiquitinated proteins in the cytoplasm and in the nucleus. It is essential for the regulated turnover of proteins and for the removal of misfolded proteins. The proteasome is a multicatalytic proteinase complex that 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. It has an ATP-dependent proteolytic activity.

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

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q09841|PSB2_SCHPO Probable proteasome subunit beta type-2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pup1 PE=2 SV=1

 Score =  195 bits (495), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 95/177 (53%), Positives = 128/177 (72%), Gaps = 1/177 (0%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNI+C GAGTAADTE VT M+SS ++LH  +T R+ RVVTALT+LK+HLF YQG++ A
Sbjct: 72  ISPNIWCAGAGTAADTEFVTSMISSNIELHSLYTNRKPRVVTALTMLKQHLFRYQGHIGA 131

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
            LVLGG DC GPHL TI  HGS+D LP+  +GSGSLAA+++ E+KY+  L + E ++LV 
Sbjct: 132 YLVLGGYDCKGPHLFTIAAHGSSDKLPYVALGSGSLAAISVLETKYQPDLERHEAMELVK 191

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLL 177
           +AI +GIFNDLGSGSN D+ VI +      R +  PN R    +K Y++ + T  +L
Sbjct: 192 EAIEAGIFNDLGSGSNCDLVVIDEEKATPYRGYSKPNERATKQSK-YTYDRGTTAVL 247

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

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	198
339777225	268	20S proteasome beta subunit [Dimocarpus	1.0	0.738	0.934	1e-106
224140867	274	predicted protein [Populus trichocarpa]	1.0	0.722	0.919	1e-105
449443766	273	PREDICTED: proteasome subunit beta type-	1.0	0.725	0.909	1e-104
224078968	274	predicted protein [Populus trichocarpa]	1.0	0.722	0.898	1e-103
359473123	267	PREDICTED: proteasome subunit beta type-	1.0	0.741	0.909	1e-103
225424598	273	PREDICTED: proteasome subunit beta type-	1.0	0.725	0.909	1e-103
449492703	273	PREDICTED: proteasome subunit beta type-	1.0	0.725	0.904	1e-103
388510952	272	unknown [Lotus japonicus]	1.0	0.727	0.883	1e-102
356501624	271	PREDICTED: proteasome subunit beta type-	0.994	0.726	0.904	1e-102
255570177	278	proteasome subunit beta type 7,10, putat	1.0	0.712	0.881	1e-101

>gi|339777225|gb|AEK05509.1| 20S proteasome beta subunit [Dimocarpus longan]

 Score =  389 bits (998), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 185/198 (93%), Positives = 194/198 (97%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLF+YQGYVQA
Sbjct: 71  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFSYQGYVQA 130

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLT+DEGI+LVV
Sbjct: 131 ALVLGGVDVTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTRDEGIKLVV 190

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFV++KGYSF KKTEVL TKI
Sbjct: 191 EAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVSSKGYSFSKKTEVLSTKI 250

Query: 181 TPLRERVEVVEGGDAMEE 198
            PL+ERVE++EGGDAMEE
Sbjct: 251 IPLKERVEIIEGGDAMEE 268

Source: Dimocarpus longan

Species: Dimocarpus longan

Genus: Dimocarpus

Family: Sapindaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224140867|ref|XP_002323800.1| predicted protein [Populus trichocarpa] gi|118484467|gb|ABK94109.1| unknown [Populus trichocarpa] gi|222866802|gb|EEF03933.1| predicted protein [Populus trichocarpa]

 Score =  387 bits (994), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 182/198 (91%), Positives = 194/198 (97%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG+V A
Sbjct: 76  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGHVSA 135

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMA+FESKYKEGL++DEGI+LV 
Sbjct: 136 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYKEGLSRDEGIKLVS 195

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +A+CSGIFNDLGSGSNVDVCVITKGHKEYLRNH+LPNPRT+V  +GYSFPKKTEVL+TKI
Sbjct: 196 EAVCSGIFNDLGSGSNVDVCVITKGHKEYLRNHMLPNPRTYVTERGYSFPKKTEVLMTKI 255

Query: 181 TPLRERVEVVEGGDAMEE 198
           TPLRERVEV+EGGDAMEE
Sbjct: 256 TPLRERVEVIEGGDAMEE 273

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449443766|ref|XP_004139648.1| PREDICTED: proteasome subunit beta type-7-B-like [Cucumis sativus] gi|449475427|ref|XP_004154453.1| PREDICTED: proteasome subunit beta type-7-B-like [Cucumis sativus]

 Score =  382 bits (980), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 180/198 (90%), Positives = 192/198 (96%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLF YQGYV A
Sbjct: 76  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFGYQGYVSA 135

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAMA+FESKYKEGLT+DEGI+LV 
Sbjct: 136 ALVLGGVDVTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYKEGLTRDEGIRLVT 195

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AICSGIFNDLGSGSNVDVCVITKG K+YLRNHLLPNPRT+V++KGYSFPKKTEVLLTKI
Sbjct: 196 EAICSGIFNDLGSGSNVDVCVITKGQKDYLRNHLLPNPRTYVSSKGYSFPKKTEVLLTKI 255

Query: 181 TPLRERVEVVEGGDAMEE 198
            PL+E+VE++EGGDAMEE
Sbjct: 256 MPLKEKVEIIEGGDAMEE 273

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224078968|ref|XP_002305699.1| predicted protein [Populus trichocarpa] gi|118486666|gb|ABK95170.1| unknown [Populus trichocarpa] gi|222848663|gb|EEE86210.1| predicted protein [Populus trichocarpa]

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 178/198 (89%), Positives = 193/198 (97%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG+V A
Sbjct: 77  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGHVSA 136

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAM++FESKYKEGL++DEGI++V 
Sbjct: 137 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFESKYKEGLSRDEGIKIVS 196

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AICSGIFNDLGSGSNVDVCVITKGHKEYLRNH+LPNPRT+V+ +GYSF KKTEVL+TKI
Sbjct: 197 EAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHMLPNPRTYVSERGYSFAKKTEVLMTKI 256

Query: 181 TPLRERVEVVEGGDAMEE 198
           TPL+E+VEV EGGDAMEE
Sbjct: 257 TPLKEKVEVTEGGDAMEE 274

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359473123|ref|XP_002285417.2| PREDICTED: proteasome subunit beta type-7-B isoform 2 [Vitis vinifera]

 Score =  380 bits (975), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 180/198 (90%), Positives = 191/198 (96%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLK HLF+YQGYVQA
Sbjct: 70  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFSYQGYVQA 129

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMA+FESKY EGLT++EGI LV 
Sbjct: 130 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYHEGLTREEGINLVS 189

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AICSGIFNDLGSGSNVDVCVITKGHKEYLRNH LPNPRT+V+AKGYSFPK  EVLLTK+
Sbjct: 190 EAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHQLPNPRTYVSAKGYSFPKPIEVLLTKV 249

Query: 181 TPLRERVEVVEGGDAMEE 198
           TPL+E+VEV+EGGDAMEE
Sbjct: 250 TPLKEKVEVIEGGDAMEE 267

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225424598|ref|XP_002285415.1| PREDICTED: proteasome subunit beta type-7-B isoform 1 [Vitis vinifera] gi|296081387|emb|CBI16820.3| unnamed protein product [Vitis vinifera]

 Score =  379 bits (973), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 180/198 (90%), Positives = 191/198 (96%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLK HLF+YQGYVQA
Sbjct: 76  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFSYQGYVQA 135

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMA+FESKY EGLT++EGI LV 
Sbjct: 136 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYHEGLTREEGINLVS 195

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AICSGIFNDLGSGSNVDVCVITKGHKEYLRNH LPNPRT+V+AKGYSFPK  EVLLTK+
Sbjct: 196 EAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHQLPNPRTYVSAKGYSFPKPIEVLLTKV 255

Query: 181 TPLRERVEVVEGGDAMEE 198
           TPL+E+VEV+EGGDAMEE
Sbjct: 256 TPLKEKVEVIEGGDAMEE 273

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449492703|ref|XP_004159076.1| PREDICTED: proteasome subunit beta type-7-A-like [Cucumis sativus]

 Score =  379 bits (973), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 179/198 (90%), Positives = 192/198 (96%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLF+YQGYV A
Sbjct: 76  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFSYQGYVSA 135

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM++FESKYKEGLT+DEGI+LV 
Sbjct: 136 ALVLGGVDVTGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFESKYKEGLTRDEGIRLVT 195

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AICSGIFNDLGSGSNVDVCVITKG K+YLRNHLLPNPRT+V++KGYSFPKKTEVLLTKI
Sbjct: 196 EAICSGIFNDLGSGSNVDVCVITKGEKDYLRNHLLPNPRTYVSSKGYSFPKKTEVLLTKI 255

Query: 181 TPLRERVEVVEGGDAMEE 198
            PL+E+VEV+E GDAMEE
Sbjct: 256 MPLKEKVEVIERGDAMEE 273

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388510952|gb|AFK43542.1| unknown [Lotus japonicus]

 Score =  375 bits (963), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 175/198 (88%), Positives = 192/198 (96%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLK+HLFNYQG+V A
Sbjct: 75  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKRHLFNYQGHVSA 134

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM++FESKYKE LT+DEG+++VV
Sbjct: 135 ALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFESKYKESLTRDEGVKIVV 194

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AIC+G+FNDLGSGSNVDVCVITKGHKEYLRNHL PNPRT+VN KG++F KKTEVLLTKI
Sbjct: 195 EAICAGVFNDLGSGSNVDVCVITKGHKEYLRNHLTPNPRTYVNPKGFTFSKKTEVLLTKI 254

Query: 181 TPLRERVEVVEGGDAMEE 198
           TPL+E+VEV+EGGDAMEE
Sbjct: 255 TPLKEKVEVIEGGDAMEE 272

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356501624|ref|XP_003519624.1| PREDICTED: proteasome subunit beta type-7-B-like [Glycine max] gi|356552635|ref|XP_003544669.1| PREDICTED: proteasome subunit beta type-7-B-like isoform 1 [Glycine max] gi|356552637|ref|XP_003544670.1| PREDICTED: proteasome subunit beta type-7-B-like isoform 2 [Glycine max]

 Score =  375 bits (963), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 179/198 (90%), Positives = 192/198 (96%), Gaps = 1/198 (0%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG+V A
Sbjct: 75  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGHVSA 134

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM++FESKYKE L++DEGI+LVV
Sbjct: 135 ALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFESKYKESLSRDEGIKLVV 194

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AIC+GIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRT+VN KG+ FPKKTEVLLTKI
Sbjct: 195 EAICAGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTYVNPKGFDFPKKTEVLLTKI 254

Query: 181 TPLRERVEVVEGGDAMEE 198
           TPL+E+VEV+E GDAMEE
Sbjct: 255 TPLKEKVEVIE-GDAMEE 271

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570177|ref|XP_002526049.1| proteasome subunit beta type 7,10, putative [Ricinus communis] gi|223534630|gb|EEF36326.1| proteasome subunit beta type 7,10, putative [Ricinus communis]

 Score =  373 bits (957), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 178/202 (88%), Positives = 190/202 (94%), Gaps = 4/202 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV+TALTLLKKHLFNYQGYVQA
Sbjct: 77  MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVITALTLLKKHLFNYQGYVQA 136

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMA+FESKY+EGL +DEGI+LV 
Sbjct: 137 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAIFESKYREGLNRDEGIKLVT 196

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AICSG+FNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRT++N KGY F KKTEVLLTKI
Sbjct: 197 EAICSGVFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTYINPKGYVFSKKTEVLLTKI 256

Query: 181 TPL----RERVEVVEGGDAMEE 198
           TPL    +E+  V EGG+AMEE
Sbjct: 257 TPLKEPSKEKEGVSEGGEAMEE 278

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	198
TAIR|locus:2168718	274	PBB2 "20S proteasome beta subu	1.0	0.722	0.864	2.7e-91
TAIR|locus:2086681	273	PBB1 [Arabidopsis thaliana (ta	1.0	0.725	0.848	2.5e-90
DICTYBASE|DDB_G0283679	266	psmB7 "proteasome subunit beta	0.954	0.710	0.614	2.8e-57
FB|FBgn0023174	272	Prosbeta2 "Proteasome beta2 su	0.954	0.694	0.601	3.7e-55
UNIPROTKB|Q99436	277	PSMB7 "Proteasome subunit beta	0.949	0.678	0.583	9.9e-55
ZFIN|ZDB-GENE-001208-4	286	psmb7 "proteasome (prosome, ma	0.954	0.660	0.57	1.6e-54
MGI|MGI:107637	277	Psmb7 "proteasome (prosome, ma	0.949	0.678	0.578	3.4e-54
RGD|621093	277	Psmb7 "proteasome (prosome, ma	0.949	0.678	0.578	3.4e-54
UNIPROTKB|Q2TBP0	277	PSMB7 "Proteasome subunit beta	0.949	0.678	0.572	8.9e-54
UNIPROTKB|A1XQU1	277	PSMB7 "Proteasome subunit beta	0.949	0.678	0.578	8.9e-54

TAIR|locus:2168718 PBB2 "20S proteasome beta subunit PBB2" [Arabidopsis thaliana (taxid:3702)]

 Score = 910 (325.4 bits), Expect = 2.7e-91, P = 2.7e-91
 Identities = 172/199 (86%), Positives = 190/199 (95%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             MAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGR+SRVVTALTLLKKHLF+YQG+V A
Sbjct:    76 MAPNIYCCGAGTAADTEAVTDMVSSQLRLHRYQTGRDSRVVTALTLLKKHLFSYQGHVSA 135

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM++FE+KYKEGLT+DEGI+LV 
Sbjct:   136 ALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFEAKYKEGLTRDEGIKLVA 195

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
             +AICSGIFNDLGSGSNVD+CVITKGHKEYLRN++ PNPRT+V++KGYSF KKTEVLLTKI
Sbjct:   196 EAICSGIFNDLGSGSNVDICVITKGHKEYLRNYMEPNPRTYVSSKGYSFTKKTEVLLTKI 255

Query:   181 TPLRERVEVVE-GGDAMEE 198
             TPL ERVE+VE  G+AMEE
Sbjct:   256 TPLLERVEIVEVAGEAMEE 274

GO:0004175 "endopeptidase activity" evidence=IEA

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

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0000502 "proteasome complex" evidence=IDA

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

GO:0009407 "toxin catabolic process" evidence=RCA

GO:0009853 "photorespiration" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

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

GO:0080129 "proteasome core complex assembly" evidence=RCA

TAIR|locus:2086681 PBB1 [Arabidopsis thaliana (taxid:3702)]

 Score = 901 (322.2 bits), Expect = 2.5e-90, P = 2.5e-90
 Identities = 168/198 (84%), Positives = 189/198 (95%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             MAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGR+SRV+TALTLLKKHLF+YQG+V A
Sbjct:    76 MAPNIYCCGAGTAADTEAVTDMVSSQLRLHRYQTGRDSRVITALTLLKKHLFSYQGHVSA 135

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM++FE+KYKEGLT+DEGI+LV 
Sbjct:   136 ALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFEAKYKEGLTRDEGIKLVA 195

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
             ++ICSGIFNDLGSGSNVD+CVITKG+KEYLRN++ PNPRT+V++KGYSF KKTEVLLTKI
Sbjct:   196 ESICSGIFNDLGSGSNVDICVITKGNKEYLRNYMEPNPRTYVSSKGYSFTKKTEVLLTKI 255

Query:   181 TPLRERVEVVEGGDAMEE 198
             TPL ERVE+ E G+AMEE
Sbjct:   256 TPLLERVEITEVGEAMEE 273

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0000502 "proteasome complex" evidence=IDA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0006096 "glycolysis" evidence=RCA

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

GO:0009407 "toxin catabolic process" evidence=RCA

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

GO:0009853 "photorespiration" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

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

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

GO:0080129 "proteasome core complex assembly" evidence=RCA

DICTYBASE|DDB_G0283679 psmB7 "proteasome subunit beta type 7" [Dictyostelium discoideum (taxid:44689)]

 Score = 589 (212.4 bits), Expect = 2.8e-57, P = 2.8e-57
 Identities = 118/192 (61%), Positives = 145/192 (75%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             +A NIYCCGAGTAADTE+ T ++SS+L+LH+  TG+++RV+TALT+LK+ LF YQG++ A
Sbjct:    71 IADNIYCCGAGTAADTESATALISSKLKLHKLSTGKQTRVITALTMLKQMLFKYQGHISA 130

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             AL+LGG+D  GP LHTIYPHGSTD LP+ TMGSGSLAAMA+FE+KYK  +TK+E I LV 
Sbjct:   131 ALILGGIDINGPSLHTIYPHGSTDQLPYVTMGSGSLAAMAVFEAKYKNDMTKEEAIALVA 190

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPK-KTEVLLTK 179
             +AI SGIFNDLGSGSNVDV VI       LRN+  PN R F N   Y F +  T VL   
Sbjct:   191 EAISSGIFNDLGSGSNVDVTVIEPSGVTVLRNYQTPNERKFRN-NPYIFKQGTTPVLKQD 249

Query:   180 ITPLRERVEVVE 191
             I PL  +V V+E
Sbjct:   250 IAPLSTKV-VIE 260

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|FBgn0023174 Prosbeta2 "Proteasome beta2 subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 569 (205.4 bits), Expect = 3.7e-55, P = 3.7e-55
 Identities = 116/193 (60%), Positives = 145/193 (75%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             +A NIYCCGAGTAADTE  TD++SSQL+LHR  T RE RVV A T+LK+ LF YQG++ A
Sbjct:    76 LAKNIYCCGAGTAADTEMTTDLISSQLELHRLQTDREVRVVAANTMLKQMLFRYQGHISA 135

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ALVLGGVD TGPH+++I+PHGS+D LP+ATMGSGSLAAM +FES++K  L+++EG +LV 
Sbjct:   136 ALVLGGVDKTGPHIYSIHPHGSSDKLPYATMGSGSLAAMTVFESRWKPDLSEEEGKKLVR 195

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLL-TK 179
             DA  +G+FNDLGSGSN+D+CVI KG  EYLRN+ L N +       Y F   T  +L T 
Sbjct:   196 DADPTGVFNDLGSGSNIDLCVIRKGSVEYLRNYELANKKG-KRQLDYRFKTGTSTVLHTN 254

Query:   180 ITPL--RERVEVV 190
             I  L   ERV+ V
Sbjct:   255 IKDLLVTERVQAV 267

GO:0005839 "proteasome core complex" evidence=ISS

GO:0004175 "endopeptidase activity" evidence=ISS

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

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

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

UNIPROTKB|Q99436 PSMB7 "Proteasome subunit beta type-7" [Homo sapiens (taxid:9606)]

 Score = 565 (203.9 bits), Expect = 9.9e-55, P = 9.9e-55
 Identities = 112/192 (58%), Positives = 143/192 (74%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct:    80 ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E   LV 
Sbjct:   140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVS 199

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLT-K 179
             +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +       Y   K T  +LT K
Sbjct:   200 EAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKG-TRLGRYRCEKGTTAVLTEK 258

Query:   180 ITPLRERVEVVE 191
             ITPL   +EV+E
Sbjct:   259 ITPLE--IEVLE 268

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

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

GO:0005839 "proteasome core complex" evidence=ISS

GO:0000502 "proteasome complex" evidence=TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

GO:0000082 "G1/S transition of mitotic cell cycle" evidence=TAS

GO:0000084 "S phase of mitotic cell cycle" evidence=TAS

GO:0000209 "protein polyubiquitination" evidence=TAS

GO:0000216 "M/G1 transition of mitotic cell cycle" evidence=TAS

GO:0000278 "mitotic cell cycle" evidence=TAS

GO:0002474 "antigen processing and presentation of peptide antigen via MHC class I" evidence=TAS

GO:0002479 "antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent" evidence=TAS

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006521 "regulation of cellular amino acid metabolic process" evidence=TAS

GO:0006915 "apoptotic process" evidence=TAS

GO:0006977 "DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

GO:0031145 "anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process" evidence=TAS

GO:0034641 "cellular nitrogen compound metabolic process" evidence=TAS

GO:0042590 "antigen processing and presentation of exogenous peptide antigen via MHC class I" evidence=TAS

GO:0042981 "regulation of apoptotic process" evidence=TAS

GO:0044281 "small molecule metabolic process" evidence=TAS

GO:0051436 "negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051437 "positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0051439 "regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

ZFIN|ZDB-GENE-001208-4 psmb7 "proteasome (prosome, macropain) subunit, beta type, 7" [Danio rerio (taxid:7955)]

 Score = 563 (203.2 bits), Expect = 1.6e-54, P = 1.6e-54
 Identities = 114/200 (57%), Positives = 144/200 (72%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             ++PNIYCCGAGTAADTE  T ++SS L+LH   TGR  RV TA  +LK+ LF YQGY+ A
Sbjct:    80 ISPNIYCCGAGTAADTEMTTQIISSNLELHSLSTGRLPRVATANRMLKQMLFRYQGYIGA 139

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ALVLGGVDCTGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE +Y+  + +++   LV 
Sbjct:   140 ALVLGGVDCTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDRYRPDMEEEDAKSLVR 199

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAK--------GYSFPKK 172
             DAI +GIFNDLGSGSN+DVCVITKG  +YLR H + N +     K         Y +   
Sbjct:   200 DAIAAGIFNDLGSGSNIDVCVITKGKVDYLRPHDIANKKGVREDKLDGRPVTGSYRYKHG 259

Query:   173 TEVLLTK-ITPLRERVEVVE 191
             T  +L+K +TPL   +++VE
Sbjct:   260 TTGVLSKAVTPLN--LDMVE 277

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

MGI|MGI:107637 Psmb7 "proteasome (prosome, macropain) subunit, beta type 7" [Mus musculus (taxid:10090)]

 Score = 560 (202.2 bits), Expect = 3.4e-54, P = 3.4e-54
 Identities = 111/192 (57%), Positives = 143/192 (74%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct:    80 ISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E  +LV 
Sbjct:   140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVS 199

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLT-K 179
             +AI +GIFNDLGSGSN+D+CVI+K   ++LR   +PN +       Y   K T  +LT K
Sbjct:   200 EAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPFSVPNKKG-TRLGRYRCEKGTTAVLTEK 258

Query:   180 ITPLRERVEVVE 191
             +TPL   +EV+E
Sbjct:   259 VTPLE--IEVLE 268

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

RGD|621093 Psmb7 "proteasome (prosome, macropain) subunit, beta type 7" [Rattus norvegicus (taxid:10116)]

 Score = 560 (202.2 bits), Expect = 3.4e-54, P = 3.4e-54
 Identities = 111/192 (57%), Positives = 145/192 (75%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct:    80 ISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E  +LV 
Sbjct:   140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVS 199

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLT-K 179
             +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y   K T  +LT K
Sbjct:   200 EAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGR-YRCEKGTTAVLTEK 258

Query:   180 ITPLRERVEVVE 191
             +TPL   +EV+E
Sbjct:   259 VTPLE--LEVLE 268

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|Q2TBP0 PSMB7 "Proteasome subunit beta type-7" [Bos taurus (taxid:9913)]

 Score = 556 (200.8 bits), Expect = 8.9e-54, P = 8.9e-54
 Identities = 110/192 (57%), Positives = 144/192 (75%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct:    80 ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E  +LV 
Sbjct:   140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVS 199

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLT-K 179
             +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y   K T  +LT K
Sbjct:   200 EAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGR-YRCEKGTNAVLTEK 258

Query:   180 ITPLRERVEVVE 191
             +T L   +EV+E
Sbjct:   259 VTTLE--IEVLE 268

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|A1XQU1 PSMB7 "Proteasome subunit beta type-7" [Sus scrofa (taxid:9823)]

 Score = 556 (200.8 bits), Expect = 8.9e-54, P = 8.9e-54
 Identities = 111/192 (57%), Positives = 144/192 (75%)

Query:     1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
             ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct:    80 ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYQGYIGA 139

Query:    61 ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E  QLV 
Sbjct:   140 ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPEMEEEEAKQLVS 199

Query:   121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLT-K 179
             +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y   K T  +LT K
Sbjct:   200 EAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGR-YRCEKGTTAVLTEK 258

Query:   180 ITPLRERVEVVE 191
             +T L   +EV+E
Sbjct:   259 VTALD--IEVLE 268

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

---

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)
Q54QR2	PSB7_DICDI	3, ., 4, ., 2, 5, ., 1	0.6145	0.9545	0.7105	yes	no
Q09841	PSB2_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5367	0.8888	0.6591	yes	no
Q9JHW0	PSB7_RAT	3, ., 4, ., 2, 5, ., 1	0.5612	0.9797	0.7003	yes	no
Q2TBP0	PSB7_BOVIN	3, ., 4, ., 2, 5, ., 1	0.5729	0.9494	0.6787	yes	no
Q7DLS1	PSB7B_ARATH	3, ., 4, ., 2, 5, ., 1	0.8643	1.0	0.7226	yes	no
P25043	PSB2_YEAST	3, ., 4, ., 2, 5, ., 1	0.5674	0.8888	0.6743	yes	no
O23710	PSB7A_ARATH	3, ., 4, ., 2, 5, ., 1	0.8484	1.0	0.7252	yes	no
P70195	PSB7_MOUSE	3, ., 4, ., 2, 5, ., 1	0.5706	0.9545	0.6823	yes	no
A1XQU1	PSB7_PIG	3, ., 4, ., 2, 5, ., 1	0.5706	0.9545	0.6823	yes	no
Q99436	PSB7_HUMAN	3, ., 4, ., 2, 5, ., 1	0.5759	0.9545	0.6823	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	0.991
3rd Layer	3.4.25	0.976

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	198
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	1e-105
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	9e-57
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	4e-44
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	3e-37
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	4e-36
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	2e-31
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	5e-26
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	1e-25
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	4e-25
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	7e-14
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	8e-14
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	3e-12
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	2e-11
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	8e-09
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	3e-08
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-06
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	2e-06
cd03759	195	cd03759, proteasome_beta_type_3, proteasome beta t	3e-05
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	4e-05
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	3e-04
cd03760	197	cd03760, proteasome_beta_type_4, proteasome beta t	0.003
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	0.003

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

 Score =  299 bits (767), Expect = e-105
 Identities = 111/153 (72%), Positives = 134/153 (87%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +APNIYCCGAGTAADTEAVT+M+SS L+LHR +TGR+ RVVTALT+LK+HLF YQG++ A
Sbjct: 37  IAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQGHIGA 96

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LPF TMGSGSLAAM++ E +YK  +T++E  +LV 
Sbjct: 97  ALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVC 156

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
           +AI +GIFNDLGSGSNVD+CVITK   EYLRN+
Sbjct: 157 EAIEAGIFNDLGSGSNVDLCVITKDGVEYLRNY 189

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

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

 Score =  177 bits (451), Expect = 9e-57
 Identities = 64/153 (41%), Positives = 88/153 (57%), Gaps = 2/153 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQ 59
           ++ NI    AG+AADT+A+T ++   L+L+    GRE  V  A  LL   L++Y+G+   
Sbjct: 37  ISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYY 96

Query: 60  AALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQL 118
            +L++GGVD   GP L+ + P GS    PF   GSGS  A  + +  YK  +T +E ++L
Sbjct: 97  VSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVEL 156

Query: 119 VVDAICSGIFNDLGSGSNVDVCVITKGHKEYLR 151
           V  AI S I  DL SG  VDV VITK   E LR
Sbjct: 157 VKKAIDSAIERDLSSGGGVDVAVITKDGVEELR 189

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

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  144 bits (366), Expect = 4e-44
 Identities = 48/144 (33%), Positives = 74/144 (51%), Gaps = 4/144 (2%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV---Q 59
            +I C  AG AAD + + + +  + QL+R   G    V     LL   L+ Y   +    
Sbjct: 39  DHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLG 98

Query: 60  AALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQL 118
            +L++ GVD   GP L+++ P GS        +GSGS  A+ + E  YK  +T +E I+L
Sbjct: 99  VSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIEL 158

Query: 119 VVDAICSGIFNDLGSGSNVDVCVI 142
            + A+ S +  DL SG N++V VI
Sbjct: 159 ALKALKSALERDLYSGGNIEVAVI 182

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

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

 Score =  127 bits (321), Expect = 3e-37
 Identities = 47/145 (32%), Positives = 69/145 (47%), Gaps = 5/145 (3%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV----VTALTLLKKHLFNYQGYV 58
            +I    AG AAD + + D   ++ QL+R   GR   V      A  L     ++ +   
Sbjct: 44  DHIGMAFAGLAADAQTLVDYARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRPY 103

Query: 59  QAALVLGGVDCTG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQ 117
             +L++ G D  G PHL++I P GS        +GSGS  A    E  YK  +T +E ++
Sbjct: 104 GVSLLIAGYDEDGGPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVE 163

Query: 118 LVVDAICSGIFNDLGSGSNVDVCVI 142
           L V A+   I  D  SG N++V VI
Sbjct: 164 LAVKALKEAIERDALSGGNIEVAVI 188

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

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

 Score =  125 bits (317), Expect = 4e-36
 Identities = 48/146 (32%), Positives = 70/146 (47%), Gaps = 3/146 (2%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV---Q 59
            +I    AG AAD + +     ++ QL+R   G    V     LL   L  Y        
Sbjct: 69  DHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYG 128

Query: 60  AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
            +L++ GVD  GP L++  P GS +      +GSGS  A    E +Y+E L+ +E I+L 
Sbjct: 129 VSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELA 188

Query: 120 VDAICSGIFNDLGSGSNVDVCVITKG 145
           V A+ + I  D  SG  ++V VITK 
Sbjct: 189 VKALRAAIERDAASGGGIEVAVITKD 214

Length = 236

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

 Score =  111 bits (281), Expect = 2e-31
 Identities = 49/145 (33%), Positives = 76/145 (52%), Gaps = 1/145 (0%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +   IYCC +G+AADT+A+ D V   L +H    G    V TA +L K   +NY+  + A
Sbjct: 37  LHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYKEMLSA 96

Query: 61  ALVLGGVDCT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
            +++ G D   G  +++I   G     PFA  GSGS       ++ YK G+T +E I+ V
Sbjct: 97  GIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFV 156

Query: 120 VDAICSGIFNDLGSGSNVDVCVITK 144
            +A+   +  D  SG  + + +ITK
Sbjct: 157 KNALSLAMSRDGSSGGVIRLVIITK 181

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|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit

 Score = 98.5 bits (246), Expect = 5e-26
 Identities = 53/152 (34%), Positives = 81/152 (53%), Gaps = 6/152 (3%)

Query: 2   APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY---V 58
              I    AG+  D +++  ++ ++ +L+    GR   +    TLL   L + + +   V
Sbjct: 38  DDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIV 97

Query: 59  QAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQL 118
           Q  L++GGVD  GPHL+++ P GS     +   GSGS  A  + E +YKE +T +E  +L
Sbjct: 98  Q--LLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKL 155

Query: 119 VVDAICSGIFNDLGSGSNVDVCVITK-GHKEY 149
            + AI S I  D  SG  +DV VITK G+KE 
Sbjct: 156 AIRAIKSAIERDSASGDGIDVVVITKDGYKEL 187

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

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

 Score = 97.1 bits (242), Expect = 1e-25
 Identities = 39/124 (31%), Positives = 55/124 (44%), Gaps = 3/124 (2%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV--QA 60
             I    AG AAD + +   +   LQL+R   G    VV     L K L  Y        
Sbjct: 39  DGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGV 98

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATM-GSGSLAAMAMFESKYKEGLTKDEGIQLV 119
            L++ GVD  G +L+ I P G     P A   GS S  A ++ E  YK  +T +E ++L 
Sbjct: 99  NLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELA 158

Query: 120 VDAI 123
           + A+
Sbjct: 159 LKAL 162

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|234287 TIGR03634, arc_protsome_B, proteasome endopeptidase complex, archaeal, beta subunit

 Score = 96.1 bits (240), Expect = 4e-25
 Identities = 48/139 (34%), Positives = 77/139 (55%), Gaps = 5/139 (3%)

Query: 9   GAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY---VQAALVLG 65
            AG+  D +++  ++ ++ +L+    GR   V    TLL   L + + +   VQ  L++G
Sbjct: 46  IAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQ--LLVG 103

Query: 66  GVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICS 125
           GVD  GPHL+++ P G      +   GSGS  A  + E +Y+E ++ +E  +L V AI S
Sbjct: 104 GVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKS 163

Query: 126 GIFNDLGSGSNVDVCVITK 144
            I  D+ SG+ +DV VITK
Sbjct: 164 AIERDVASGNGIDVAVITK 182

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|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score = 67.0 bits (164), Expect = 7e-14
 Identities = 40/148 (27%), Positives = 66/148 (44%), Gaps = 12/148 (8%)

Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ---- 59
           ++    +G  AD   + D    + Q+HR   G    V     L+KK     Q Y Q    
Sbjct: 67  HVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEV---LVKKICDLKQQYTQHGGV 123

Query: 60  ----AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEG 115
                AL++ GVD  GP L    P G+ +      +GSG  A     E +YKE ++ +E 
Sbjct: 124 RPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEA 183

Query: 116 IQLVVDAICSGIFNDLGSGSNVDVCVIT 143
           I+L + A+ + +  +  +  NV++  +T
Sbjct: 184 IELALKALYAAL-EENETPENVEIAYVT 210

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

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

 Score = 66.9 bits (164), Expect = 8e-14
 Identities = 45/153 (29%), Positives = 68/153 (44%), Gaps = 12/153 (7%)

Query: 5   IYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ----- 59
           I    +G  AD   + D    + Q++R   G     +   TL KK     Q Y Q     
Sbjct: 69  IGAATSGLVADARVLIDRARIEAQINRLTYGEP---IDVETLAKKICDLKQQYTQHGGVR 125

Query: 60  ---AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGI 116
               AL++ GVD  GP L    P G+        +G+G  A     E +Y+E L+ DE I
Sbjct: 126 PFGVALLIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAI 185

Query: 117 QLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY 149
           +L + A+ S + + L +  NV+V  IT   K++
Sbjct: 186 ELALKALYSAVEDKL-TPENVEVAYITVEDKKF 217

This protein family describes the archaeal proteasome alpha subunit, homologous to both the beta subunit and to the alpha and beta subunits of eukaryotic proteasome subunits. This family is universal in the first 29 complete archaeal genomes but occasionally is duplicated [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 224

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

 Score = 62.9 bits (154), Expect = 3e-12
 Identities = 44/150 (29%), Positives = 64/150 (42%), Gaps = 16/150 (10%)

Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ--------A 60
           AG  AD   + D    + Q++R   G E   V  LT   K + ++ Q Y Q         
Sbjct: 81  AGLVADARVLIDRARVEAQINRLTYG-EPIGVETLT---KKICDHKQQYTQHGGVRPFGV 136

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
           AL++ GVD  GP L    P G       AT +G+G    M   E  YKE L+ +E I+L 
Sbjct: 137 ALLIAGVDDGGPRLFETDPSG-AYLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELA 195

Query: 120 VDAICSGIFNDLGSGSNVDVCVITKGHKEY 149
           + A+            NV++  I    K++
Sbjct: 196 LKALAKAN-EGKLDPENVEIAYIDVETKKF 224

Length = 241

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

 Score = 60.0 bits (146), Expect = 2e-11
 Identities = 37/137 (27%), Positives = 62/137 (45%), Gaps = 1/137 (0%)

Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQAALVLGGVD 68
           AG AAD +    ++  + +L+         V  A  LL   L+ Y+G  +    ++ G D
Sbjct: 46  AGGAADCQYWERVLGRECRLYELRNKERISVAAASKLLSNMLYQYKGMGLSMGTMICGWD 105

Query: 69  CTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIF 128
            TGP L+ +   G+       ++GSGS  A  + +S Y+  L+ +E   L   AI     
Sbjct: 106 KTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATH 165

Query: 129 NDLGSGSNVDVCVITKG 145
            D  SG NV++  + + 
Sbjct: 166 RDAYSGGNVNLYHVRED 182

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

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

 Score = 52.6 bits (127), Expect = 8e-09
 Identities = 28/114 (24%), Positives = 52/114 (45%), Gaps = 4/114 (3%)

Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY---QGYVQAALVLGG 66
           +G A D     + +   +QL++   G E     A    ++ L      +   Q  L+L G
Sbjct: 47  SGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAG 106

Query: 67  VD-CTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
            D   GP L+ I   G+   +P+A  G G+   +++ +  YK  +T +E ++L+
Sbjct: 107 YDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELM 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|239726 cd03757, proteasome_beta_type_1, proteasome beta type-1 subunit

 Score = 51.5 bits (124), Expect = 3e-08
 Identities = 35/151 (23%), Positives = 71/151 (47%), Gaps = 19/151 (12%)

Query: 9   GAGTAADTEAVTDMVSSQLQLHRYHTGRE--SRVVTAL---TLLKKHLFNYQGYVQAALV 63
            +G  AD  A+T  + +++++++Y   +E  +  +  L    L  +  F Y  YV    +
Sbjct: 53  SSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPY--YVFN--I 108

Query: 64  LGGVDCTG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFES---------KYKEGLTKD 113
           L G+D  G   +++  P GS +   ++  GS S     + ++           +  L+ +
Sbjct: 109 LAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLE 168

Query: 114 EGIQLVVDAICSGIFNDLGSGSNVDVCVITK 144
           E + LV DA  S    D+ +G ++++ +ITK
Sbjct: 169 EAVSLVKDAFTSAAERDIYTGDSLEIVIITK 199

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

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

 Score = 46.7 bits (112), Expect = 1e-06
 Identities = 42/151 (27%), Positives = 67/151 (44%), Gaps = 17/151 (11%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            +I C  AG  AD   + +    + Q +RY  G    V     +L K + +  Q Y Q  
Sbjct: 65  DHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPV----EVLVKRIADLAQVYTQYG 120

Query: 60  ------AALVLGGVD-CTGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAMFESKYKEGLT 111
                  +L++ G D   GP L+   P G+      AT +G GS  A    E +YK+ LT
Sbjct: 121 GVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGY-KATAIGKGSQEAKTFLEKRYKKDLT 179

Query: 112 KDEGIQLVVDAICSGIFNDLGSGSNVDVCVI 142
            +E I+L + A+   +  D     N+++ V+
Sbjct: 180 LEEAIKLALKALKEVLEEDK-KAKNIEIAVV 209

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

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

 Score = 46.9 bits (111), Expect = 2e-06
 Identities = 35/131 (26%), Positives = 57/131 (43%), Gaps = 1/131 (0%)

Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQAALVLGGVD 68
           AG AAD       ++ Q +L+    G    V  A  +L   ++NY+G  +    ++ G D
Sbjct: 85  AGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWD 144

Query: 69  CTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIF 128
             GP L  +   G+       + GSGS  A  + ++ +K  L  +E   L   AI    F
Sbjct: 145 KKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATF 204

Query: 129 NDLGSGSNVDV 139
            D  SG  +++
Sbjct: 205 RDAYSGGAINL 215

Length = 247

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

 Score = 42.6 bits (101), Expect = 3e-05
 Identities = 39/151 (25%), Positives = 65/151 (43%), Gaps = 11/151 (7%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL----TLLKKHLFN-YQ 55
           +   +Y   AG A D + +   +  ++ L+R    RE +  T      +LL +  F  Y 
Sbjct: 40  IGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPY- 98

Query: 56  GYVQAALVLGGVDCTG-PHLHTIYPHGSTDTL-PFATMGSGSLAAMAMFESKYKEGLTKD 113
            +V+   V+ G+D  G P + T+   G       F   G+ S     M ES ++  +  D
Sbjct: 99  -FVEP--VVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPD 155

Query: 114 EGIQLVVDAICSGIFNDLGSGSNVDVCVITK 144
           E  + +  A+ S +  D  SG    V +ITK
Sbjct: 156 ELFETISQALLSAVDRDALSGWGAVVYIITK 186

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|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 42.3 bits (100), Expect = 4e-05
 Identities = 38/149 (25%), Positives = 63/149 (42%), Gaps = 13/149 (8%)

Query: 5   IYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA---- 60
           I C  +G  AD   + D    + Q HR+ T  E   V ++T     L    G        
Sbjct: 67  IGCAMSGLIADARTLIDHARVEAQNHRF-TYNEPMTVESVTQAVSDLALQFGEGDDGKKA 125

Query: 61  -------ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKD 113
                  AL++ GVD  GP L    P G+        +GSGS  A +  + KY + +T +
Sbjct: 126 MSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLE 185

Query: 114 EGIQLVVDAICSGIFNDLGSGSNVDVCVI 142
           E  +L + +I   +  +  + +NV++  +
Sbjct: 186 EAEKLAL-SILKQVMEEKLNSTNVELATV 213

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

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

 Score = 39.8 bits (93), Expect = 3e-04
 Identities = 30/151 (19%), Positives = 63/151 (41%), Gaps = 6/151 (3%)

Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE---SRVVTALTLLKKHLFNYQGY--V 58
           +I+C  AG  AD   + +      Q +RY  G      ++V  +  LK+    + G    
Sbjct: 71  HIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPF 130

Query: 59  QAALVLGGVDCT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQ 117
             + +  G D   G  L+   P G+        +G  +  A ++ + ++KE LT ++G+ 
Sbjct: 131 GVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLL 190

Query: 118 LVVDAICSGIFNDLGSGSNVDVCVITKGHKE 148
           L    +   + +       ++V +++ G  +
Sbjct: 191 LAAKVLTKSMDSTSPKADKIEVGILSHGETD 221

Length = 253

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

 Score = 36.8 bits (86), Expect = 0.003
 Identities = 24/87 (27%), Positives = 40/87 (45%), Gaps = 3/87 (3%)

Query: 61  ALVLGGVDCTG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMF--ESKYKEGLTKDEGIQ 117
            LV+GGVD  G P L  +   G+    P    G G+  A+ +     + K  LT++E   
Sbjct: 103 TLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARA 162

Query: 118 LVVDAICSGIFNDLGSGSNVDVCVITK 144
           L+ + +    + D  S +   + V+TK
Sbjct: 163 LIEECMKVLYYRDARSINKYQIAVVTK 189

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

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score = 36.9 bits (86), Expect = 0.003
 Identities = 19/83 (22%), Positives = 37/83 (44%), Gaps = 1/83 (1%)

Query: 62  LVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVD 121
           L++ G D  GP+L+ + P GS  T     +G     A    E +Y E L  ++ I   + 
Sbjct: 129 LLIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELEDAIHTAIL 188

Query: 122 AICSGIFNDLGSGSNVDVCVITK 144
            +  G    + +  N+++ +  +
Sbjct: 189 TLKEGFEGQM-TEKNIEIGICGE 210

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	198
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
PRK03996	241	proteasome subunit alpha; Provisional	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
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	99.98
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	99.97
KOG0181	233	consensus 20S proteasome, regulatory subunit alpha	99.97
KOG0183	249	consensus 20S proteasome, regulatory subunit alpha	99.97
KOG0175	285	consensus 20S proteasome, regulatory subunit beta	99.96
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	99.96
KOG0178	249	consensus 20S proteasome, regulatory subunit alpha	99.96
KOG0863	264	consensus 20S proteasome, regulatory subunit alpha	99.95
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	99.94
KOG0180	204	consensus 20S proteasome, regulatory subunit beta	99.94
KOG0182	246	consensus 20S proteasome, regulatory subunit alpha	99.94
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.92
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.92
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	99.92
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.91
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.9
COG3484	255	Predicted proteasome-type protease [Posttranslatio	98.71
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	98.54
PF12465	38	Pr_beta_C: Proteasome beta subunits C terminal ; I	97.84
KOG3361	157	consensus Iron binding protein involved in Fe-S cl	94.4
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	91.01

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

Probab=100.00  E-value=7.6e-49  Score=314.24  Aligned_cols=185  Identities=64%  Similarity=0.995  Sum_probs=181.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      |.++||||++|.+||..++++++.+++++|+++.++.++|..+.+++.|+||+|++.+|+++|+||+|..|||||.+.|+
T Consensus        74 ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R~~rVv~A~~mlkQ~LFrYqG~IgA~LiiGGvD~TGpHLy~i~ph  153 (271)
T KOG0173|consen   74 IAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGRKPRVVTALRMLKQHLFRYQGHIGAALILGGVDPTGPHLYSIHPH  153 (271)
T ss_pred             cccceEEccCCchhhHHHHHHHHHHHHHHHHhccCCCCceeeHHHHHHHHHHHhcCcccceeEEccccCCCCceEEEcCC
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccCCCccc
Q 029142           81 GSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRT  160 (198)
Q Consensus        81 Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~~~~~~  160 (198)
                      |+....+|+++|||+..|+++||++|+|||++|||++|+++|+.+++.+|+.||+|+++|||++.+.+++|+|..++.+.
T Consensus       154 GStd~~Pf~alGSGslaAmsvlEsr~k~dlt~eea~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~~~~~lr~~~~~~~~~  233 (271)
T KOG0173|consen  154 GSTDKLPFTALGSGSLAAMSVLESRWKPDLTKEEAIKLVCEAIAAGIFNDLGSGSNVDLCVITKKGVEYLRNYSRPNEKG  233 (271)
T ss_pred             CCcCccceeeeccchHHHHHHHHHhcCcccCHHHHHHHHHHHHHhhhccccCCCCceeEEEEeCCCccccccCCCCCCCc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             ccCCCCCCCCc-cceeeeeEeEeccce
Q 029142          161 FVNAKGYSFPK-KTEVLLTKITPLRER  186 (198)
Q Consensus       161 ~~~~~~~~~~~-~~~~~~~~~~~~~~~  186 (198)
                       .|...|.||+ +|.||+++|.|+.+.
T Consensus       234 -~r~~~y~~~~gtT~VL~~~v~~l~~~  259 (271)
T KOG0173|consen  234 -ERTGRYKFKPGTTAVLKEKVYPLLVE  259 (271)
T ss_pred             -cccceeeeCCCceEEEeeeeeeeeee
Confidence             7999999999 999999999999733

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=1.1e-38  Score=254.05  Aligned_cols=150  Identities=25%  Similarity=0.321  Sum_probs=145.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |++|++||+||..+|++.+.++++.+++.|++.++++|+++.++++++++++.++ .||++++|+||+|.+||+||++||
T Consensus        37 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la~~ls~~l~~~~~~~~~v~~li~G~D~~g~~L~~~dp  116 (188)
T cd03761          37 INPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDKTGPGLYYVDS  116 (188)
T ss_pred             ccCcEEEEeCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeEEEEEEEEEeCCCCEEEEEcC
Confidence            6899999999999999999999999999999999999999999999999999886 489999999999998999999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEe
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYL  150 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~  150 (198)
                      +|++.+++++|+|+|+..++++||+.|+++||.+||++++.+||+.+++||..++++++|++|+++|++.+
T Consensus       117 ~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~~~~l~~~~~rd~~sg~~~~v~ii~~~g~~~~  187 (188)
T cd03761         117 DGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATHRDAYSGGNVNLYHVREDGWRKI  187 (188)
T ss_pred             CceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEcCCceEEc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999764

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

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=1.5e-38  Score=253.45  Aligned_cols=153  Identities=73%  Similarity=1.150  Sum_probs=149.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      |+++++|+++|..+|++.+.+.++.+++.|+++++++++++.++++++++++.|+.||+|++|+||+|.+||+||.+||+
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~p~~v~~ivaG~d~~g~~ly~~d~~  116 (189)
T cd03763          37 IAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQGHIGAALVLGGVDYTGPHLYSIYPH  116 (189)
T ss_pred             ecCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHcCCccceeEEEEeEcCCCCEEEEECCC
Confidence            68999999999999999999999999999999999999999999999999999988999999999999889999999999


Q ss_pred             CceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccc
Q 029142           81 GSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNH  153 (198)
Q Consensus        81 Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~  153 (198)
                      |++.+++|+|+|+|+..++++||++|+|+||.+||++++++||+.+.+||+.++++++|++|+++|++..+||
T Consensus       117 G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~l~~~~l~~~~~rd~~~~~~~~v~ii~~~g~~~~~~~  189 (189)
T cd03763         117 GSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDLGSGSNVDLCVITKDGVEYLRNY  189 (189)
T ss_pred             CCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCcCCCceEEEEEcCCcEEEecCC
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999886

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

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=1e-37  Score=249.47  Aligned_cols=150  Identities=23%  Similarity=0.298  Sum_probs=143.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc---CCccceEEEEEEEeC-CCCEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY---QGYVQAALVLGGVDC-TGPHLHT   76 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~---~~p~gv~~ivaG~D~-~gp~Ly~   76 (198)
                      |+++++||+||..||++.+.++++.+++.|++.++++++++.++++++++++.|   ++||++++|+||||+ .||+||+
T Consensus        38 I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~rP~~~~~li~G~d~~~~p~Ly~  117 (193)
T cd03758          38 LSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYY  117 (193)
T ss_pred             eCCCeEEEEccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCcEEEE
Confidence            689999999999999999999999999999999999999999999999988543   359999999999996 6899999


Q ss_pred             ECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEe
Q 029142           77 IYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYL  150 (198)
Q Consensus        77 idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~  150 (198)
                      +||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++.+|++.+.+||..++++++|++|+++|++.+
T Consensus       118 ~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~a~~~~~~rd~~~~~~i~i~ii~~~g~~~~  191 (193)
T cd03758         118 IDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMKKCIKELKKRFIINLPNFTVKVVDKDGIRDL  191 (193)
T ss_pred             ECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEEcCCCeEeC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999998764

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

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=100.00  E-value=3.3e-37  Score=246.94  Aligned_cols=150  Identities=24%  Similarity=0.287  Sum_probs=143.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-CCccceEEEEEEEeCC-CCEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQAALVLGGVDCT-GPHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-~~p~gv~~ivaG~D~~-gp~Ly~id   78 (198)
                      |++|++||+||..+|++.+.++++.+++.|++.++++|+++.+++++++++|.+ .+||++++||||||++ ||+||++|
T Consensus        40 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~la~~l~~~ly~~r~~P~~v~~ii~G~D~~~~p~Ly~~D  119 (195)
T cd03759          40 IGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFICTMD  119 (195)
T ss_pred             eCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEcCCCCEEEEEEc
Confidence            689999999999999999999999999999999999999999999999999866 4799999999999964 59999999


Q ss_pred             CCCceeecC-eEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEe
Q 029142           79 PHGSTDTLP-FATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYL  150 (198)
Q Consensus        79 p~Gs~~~~~-~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~  150 (198)
                      |+|++..++ ++|+|+|+..++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|++..
T Consensus       120 ~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~~  192 (195)
T cd03759         120 LIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQALLSAVDRDALSGWGAVVYIITKDKVTTR  192 (195)
T ss_pred             CCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHhhCcccCCceEEEEEcCCcEEEE
Confidence            999998887 999999999999999999999999999999999999999999999999999999999998753

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=7.2e-37  Score=243.38  Aligned_cols=149  Identities=34%  Similarity=0.521  Sum_probs=145.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeC-CCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC-TGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~-~gp~Ly~idp   79 (198)
                      |++|++|++||..+|++.+.++++.+++.|++.++++++++.++++++++++++++||++++||||+|+ +||+||.+||
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~~~~~~ii~G~d~~~gp~ly~~d~  116 (188)
T cd03762          37 LHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNYKEMLSAGIIVAGWDEQNGGQVYSIPL  116 (188)
T ss_pred             ccCCEEEEecccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHhccccceeeEEEEEEcCCCCcEEEEECC
Confidence            689999999999999999999999999999999999999999999999999999999999999999996 7899999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEE
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY  149 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~  149 (198)
                      +|++.+++++++|+|+..++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|++.
T Consensus       117 ~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~al~~~~~rd~~~~~~~~i~~i~~~g~~~  186 (188)
T cd03762         117 GGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSGGVIRLVIITKDGVER  186 (188)
T ss_pred             CCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhccccCCCEEEEEECCCCEEE
Confidence            9999999999999999999999999999999999999999999999999999999999999999999874

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=5e-37  Score=252.48  Aligned_cols=156  Identities=31%  Similarity=0.419  Sum_probs=149.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC---CccceEEEEEEEeCCCCEEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ---GYVQAALVLGGVDCTGPHLHTI   77 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~---~p~gv~~ivaG~D~~gp~Ly~i   77 (198)
                      |+|||+|++||+.||++.++++++.+++.|++.++++|+++.+++++++++++++   +||++++|+||+|++||+||++
T Consensus        67 I~d~i~~~~sG~~aDa~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~~rP~gv~~iiaG~d~~~p~Ly~~  146 (236)
T COG0638          67 IDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDDGGPRLYST  146 (236)
T ss_pred             ecCCEEEEeccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCcccceEEEEEEEEcCCCCeEEEE
Confidence            6899999999999999999999999999999999999999999999999999885   6999999999999877999999


Q ss_pred             CCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEec-CCeEEeccccCC
Q 029142           78 YPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK-GHKEYLRNHLLP  156 (198)
Q Consensus        78 dp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k-~g~~~~~~~~~~  156 (198)
                      ||+|++.+++++|+|+|+..++++||+.|+++|+.|||++++++||+.+++||..++++++|++|++ +|.+.+.+.++.
T Consensus       147 Dp~G~~~~~~~~a~Gsgs~~a~~~Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~~~~~~~~~  226 (236)
T COG0638         147 DPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIK  226 (236)
T ss_pred             CCCCceeecCEEEEcCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeEEcCHHHHH
Confidence            9999999999999999999999999999999999999999999999999999998999999999999 788888766543

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=8.1e-37  Score=250.67  Aligned_cols=153  Identities=18%  Similarity=0.225  Sum_probs=140.6

Q ss_pred             CcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCC-CCCHHHHHHHHHHHHhc----c-------CCccceEEEEEEEeC-
Q 029142            3 PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGR-ESRVVTALTLLKKHLFN----Y-------QGYVQAALVLGGVDC-   69 (198)
Q Consensus         3 ~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~-~i~v~~la~~l~~~l~~----~-------~~p~gv~~ivaG~D~-   69 (198)
                      +||+||.||..||++.+++++|.+++.|++.+|+ +++++.+|+++++++++    +       .+||+|++|+||||+ 
T Consensus        42 ~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~  121 (236)
T cd03765          42 RVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPTMFDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKG  121 (236)
T ss_pred             CEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCHHHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECC
Confidence            7899999999999999999999999999999999 89999999999887544    3       269999999999994 


Q ss_pred             CCCEEEEECCCCceeec----CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC
Q 029142           70 TGPHLHTIYPHGSTDTL----PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG  145 (198)
Q Consensus        70 ~gp~Ly~idp~Gs~~~~----~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~  145 (198)
                      .||+||++||+|++.++    +|+|+|+ +..++++||++|+++||++||+++|++||..++.||..+|++++|++|+|+
T Consensus       122 ~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek~yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~  200 (236)
T cd03765         122 EEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDRVITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERD  200 (236)
T ss_pred             CCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECC
Confidence            78999999999999998    5689996 699999999999999999999999999999999999999999999999999


Q ss_pred             CeEEeccccCC
Q 029142          146 HKEYLRNHLLP  156 (198)
Q Consensus       146 g~~~~~~~~~~  156 (198)
                      |.+...-..++
T Consensus       201 G~~~~~~~~~~  211 (236)
T cd03765         201 SLQVGHYRRIE  211 (236)
T ss_pred             CeeeeeeEEec
Confidence            99875544443

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=9.5e-37  Score=244.56  Aligned_cols=152  Identities=20%  Similarity=0.275  Sum_probs=143.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHH-hhhhhcCCCCCHHHHHHHHHHHHhccC---CccceEEEEEEEeC-CCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQ-LHRYHTGRESRVVTALTLLKKHLFNYQ---GYVQAALVLGGVDC-TGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~-~~~~~~~~~i~v~~la~~l~~~l~~~~---~p~gv~~ivaG~D~-~gp~Ly   75 (198)
                      |++|++||++|..+|++.+.++++.+++ .+++.++.+++++.+++++++++|.++   +||++++|+||||+ .||+||
T Consensus        39 i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~i~~~~y~~~~~~rP~~v~~iiaG~D~~~gp~Ly  118 (197)
T cd03760          39 VGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPKEIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNEGEPFLG  118 (197)
T ss_pred             ecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCEEEE
Confidence            6899999999999999999999999987 566789999999999999999987653   69999999999997 689999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccC--CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEecc
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE--GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRN  152 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~--~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~  152 (198)
                      ++||+|++.+++++|+|+|+..++++||+.|++  +||++||++++++||+.+.+||..++++++|++|+++|++...|
T Consensus       119 ~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~eea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~~~~  197 (197)
T cd03760         119 YVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEECMKVLYYRDARSINKYQIAVVTKEGVEIEGP  197 (197)
T ss_pred             EEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEECCCCEEeCCC
Confidence            999999999999999999999999999999999  99999999999999999999999999999999999999986544

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

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=1.7e-36  Score=241.28  Aligned_cols=150  Identities=33%  Similarity=0.440  Sum_probs=145.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |+++++|+++|..+|++.+.+.++.+++.|++.++++++++.+++++++++|.++ +||++++|+||+|.+||+||.+||
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~P~~~~~lvaG~d~~~~~ly~~D~  116 (188)
T cd03764          37 IDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQLLIGGVDEEGPHLYSLDP  116 (188)
T ss_pred             ccCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEEEEeCCCCEEEEECC
Confidence            6899999999999999999999999999999999999999999999999998874 699999999999987899999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEe
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYL  150 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~  150 (198)
                      +|++.+++++|+|+|+..++++||+.|+++|+.+||++++++||+.+.+||..++++++|++++++|++.+
T Consensus       117 ~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l~~~~l~~~~~rd~~~~~~i~i~iv~~~g~~~~  187 (188)
T cd03764         117 LGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDGIDVVVITKDGYKEL  187 (188)
T ss_pred             CCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEECCCCeEeC
Confidence            99999999999999999999999999999999999999999999999999999999999999999998765

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.

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=1.7e-36  Score=240.54  Aligned_cols=147  Identities=32%  Similarity=0.453  Sum_probs=142.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |+++++|+++|..+|++.+.++++.+++.|++.++++++++.++++++++++.++ +||++++|+||+|.+||+||.+||
T Consensus        38 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~rP~~v~~ivaG~d~~g~~Ly~~d~  117 (185)
T TIGR03634        38 IDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVDEEGPHLYSLDP  117 (185)
T ss_pred             cCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeEEEEEEEEEeCCCCEEEEECC
Confidence            6899999999999999999999999999999999999999999999999998874 699999999999998999999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK  147 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~  147 (198)
                      +|++.+++++|+|+|+..++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|+
T Consensus       118 ~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~r~~~~~~~~~v~ii~~~g~  185 (185)
T TIGR03634       118 AGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASGNGIDVAVITKDGV  185 (185)
T ss_pred             CCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999985

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

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=1.7e-36  Score=245.82  Aligned_cols=150  Identities=21%  Similarity=0.283  Sum_probs=143.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCC-CCEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCT-GPHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~-gp~Ly~id   78 (198)
                      |+++++||+||..||++.++++++.+++.|++.++++++++.+++++++++|.+| +||++++||||+|++ +|+||++|
T Consensus        45 I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~ly~~R~~P~~~~~iiaG~D~~~~p~Ly~~D  124 (212)
T cd03757          45 LTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVYSYD  124 (212)
T ss_pred             cCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCCHHHHHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCEEEEEEc
Confidence            6899999999999999999999999999999999999999999999999998765 599999999999974 59999999


Q ss_pred             CCCceeecCeEEEecChHHHHHHHHhhcc---------CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEE
Q 029142           79 PHGSTDTLPFATMGSGSLAAMAMFESKYK---------EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY  149 (198)
Q Consensus        79 p~Gs~~~~~~~a~G~gs~~a~~~Le~~~~---------~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~  149 (198)
                      |+|++.+++++|+|+|+..++++||+.|+         ++||++||++++++||+.+.+||..++++++|++|+++|++.
T Consensus       125 ~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~~~~~ms~eea~~l~~~~l~~~~~rd~~sg~~i~i~iit~~g~~~  204 (212)
T cd03757         125 PVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDGIEE  204 (212)
T ss_pred             CccCeeecCEEEEeecHHHHHHHHHHHHHhhccCcCCCCCCCHHHHHHHHHHHHHHHHHhCcccCCCEEEEEEcCCCEEE
Confidence            99999999999999999999999999985         899999999999999999999999999999999999999865


Q ss_pred             e
Q 029142          150 L  150 (198)
Q Consensus       150 ~  150 (198)
                      .
T Consensus       205 ~  205 (212)
T cd03757         205 E  205 (212)
T ss_pred             E
Confidence            4

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

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=1.7e-36  Score=250.82  Aligned_cols=155  Identities=24%  Similarity=0.299  Sum_probs=147.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCC-ccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG-YVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~-p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |++|++|++||..+|++.+.++++.+++.|++.++++|+++.++++|+++++++|. |+.+++|+||+|.+||+||++||
T Consensus        76 I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~isv~~la~~ls~~l~~~R~~~~~v~~iiaG~D~~gp~Ly~vDp  155 (247)
T PTZ00488         76 INPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKKGPGLFYVDN  155 (247)
T ss_pred             cCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeeEEEEEEEEeCCCCEEEEEcC
Confidence            68999999999999999999999999999999999999999999999999998853 56666899999998999999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      +|++.+++++|+|+|+..++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|++.+++.++
T Consensus       156 ~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms~eEai~l~~kal~~~~~Rd~~sg~~~ei~iI~k~g~~~l~~~ei  231 (247)
T PTZ00488        156 DGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDGWKKISADDC  231 (247)
T ss_pred             CcceeecCCEEEccCHHHHHHHHHhcCcCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCccEECCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999988876544

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=5.8e-36  Score=244.96  Aligned_cols=154  Identities=18%  Similarity=0.247  Sum_probs=144.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++|++||+||..+|++.+.++++.+++.|++.++++++++.++++|++++++|     .+||++++|+||||..||+||
T Consensus        63 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~g~~Ly  142 (227)
T cd03750          63 ITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLY  142 (227)
T ss_pred             EcCCEEEEEeEcHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCCCCEEE
Confidence            689999999999999999999999999999999999999999999999988544     369999999999998899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC-CeEEecccc
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG-HKEYLRNHL  154 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~-g~~~~~~~~  154 (198)
                      ++||+|++.+++++|+|+|+..++++||++|+++||++||++++++||+.+.+||+ ++++++|++++++ |.+.+.|.+
T Consensus       143 ~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~~~l-~~~~iev~iv~~~~~~~~~~~~e  221 (227)
T cd03750         143 QVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQM-TEKNIEIGICGETKGFRLLTPAE  221 (227)
T ss_pred             EECCCCCEEeeeEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEECCCCEEECCHHH
Confidence            99999999999999999999999999999999999999999999999999998885 8999999999995 788776654


Q ss_pred             C
Q 029142          155 L  155 (198)
Q Consensus       155 ~  155 (198)
                      +
T Consensus       222 i  222 (227)
T cd03750         222 I  222 (227)
T ss_pred             H
Confidence            3

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=3.6e-35  Score=233.39  Aligned_cols=150  Identities=42%  Similarity=0.587  Sum_probs=145.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCC-ccceEEEEEEEeC-CCCEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG-YVQAALVLGGVDC-TGPHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~-p~gv~~ivaG~D~-~gp~Ly~id   78 (198)
                      |+++++|++||..+|++.+.++++.+++.|++.++++++++.+++++++++|.+++ ||++++||||+|+ ++|+||.+|
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~P~~~~~iv~G~d~~~~~~l~~id  116 (189)
T cd01912          37 ISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVD  116 (189)
T ss_pred             ccCCEEEEccccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCCCCeEEEEEEEEEcCCCCeEEEEEC
Confidence            68999999999999999999999999999999999999999999999999998875 9999999999997 679999999


Q ss_pred             CCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEe
Q 029142           79 PHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYL  150 (198)
Q Consensus        79 p~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~  150 (198)
                      |+|++.+++++|+|+++..++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|++..
T Consensus       117 ~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi~~~g~~~~  188 (189)
T cd01912         117 PLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVDVAVITKDGVEEL  188 (189)
T ss_pred             CCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhcCccCCcEEEEEECCCCEEEc
Confidence            999999999999999999999999999999999999999999999999999999999999999999998753

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

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=1.7e-34  Score=235.79  Aligned_cols=146  Identities=28%  Similarity=0.375  Sum_probs=139.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |+++++||+||..+|++.+.+.++.++..|++.++++++++.++++++++++.|     ++||+|++||||+|..||+||
T Consensus        65 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~~~~~Ly  144 (224)
T TIGR03633        65 IDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLF  144 (224)
T ss_pred             ECCCEEEEEeecHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeCCcCEEE
Confidence            689999999999999999999999999999999999999999999999987544     469999999999998889999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK  147 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~  147 (198)
                      ++||.|++.+++++|+|+|+..++++||+.|+++|+.+||++++++||..+.+ |..++++++|++|+++|.
T Consensus       145 ~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~eeai~l~~~al~~~~~-d~~~~~~i~i~ii~~~g~  215 (224)
T TIGR03633       145 ETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAVE-DKLTPENVEVAYITVEDK  215 (224)
T ss_pred             EECCCCCeecceEEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhc-ccCCCCcEEEEEEEcCCC
Confidence            99999999999999999999999999999999999999999999999999887 888999999999999884

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.

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=1.2e-34  Score=235.93  Aligned_cols=155  Identities=18%  Similarity=0.185  Sum_probs=142.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc----CCccceEEEEEEEeC--CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY----QGYVQAALVLGGVDC--TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~----~~p~gv~~ivaG~D~--~gp~L   74 (198)
                      |++|++||+||..+|++.+.++++.+++.|++.++++++++.++++|+++++++    .+||++++||||||.  .+|+|
T Consensus        39 i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~rp~~v~~iiaG~D~~~~~~~L  118 (219)
T TIGR03690        39 TDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDGKANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAGRI  118 (219)
T ss_pred             cCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhhhhccCCceEEEEEEEECCCCCCcEE
Confidence            689999999999999999999999999999999999999999999999988654    579999999999996  46999


Q ss_pred             EEECCCC-ceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCc-------EEEEEEecCC
Q 029142           75 HTIYPHG-STDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSN-------VDVCVITKGH  146 (198)
Q Consensus        75 y~idp~G-s~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~-------iei~ii~k~g  146 (198)
                      |++||+| ++..++++|+|+|+..++++||+.|+++||.+||++++++||..+.+||..+++.       ++|++|+++|
T Consensus       119 y~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~g  198 (219)
T TIGR03690       119 FSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITADG  198 (219)
T ss_pred             EEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHHHHHHHHHHHHHHHhcccccCCcccccccccEEEEEccCc
Confidence            9999999 5777899999999999999999999999999999999999999999999877764       3999999999


Q ss_pred             eEEeccccC
Q 029142          147 KEYLRNHLL  155 (198)
Q Consensus       147 ~~~~~~~~~  155 (198)
                      ++.+.+.++
T Consensus       199 ~~~l~~~ei  207 (219)
T TIGR03690       199 ARRVPESEL  207 (219)
T ss_pred             eEEcCHHHH
Confidence            988765543

Members of this family are the beta subunit of the 20S proteasome as found in Actinobacteria such as Mycobacterium, Rhodococcus, and Streptomyces. In Streptomyces, maturation during proteasome assembly was shown to remove a 53-amino acid propeptide. Most of the length of the propeptide is not included in this model.

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=1.4e-34  Score=234.39  Aligned_cols=143  Identities=18%  Similarity=0.235  Sum_probs=135.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |+++++|++||..+|++.+.++++.+++.|+++++++++++.+++.++..++.+     ++||+|++||||||..||+||
T Consensus        61 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~gp~Ly  140 (211)
T cd03749          61 VDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLF  140 (211)
T ss_pred             eCCCEEEEEEeChHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCCCCeEE
Confidence            689999999999999999999999999999999999999999999999877542     469999999999998899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhcc--CCCCHHHHHHHHHHHHHHHHhccC-CCCCcEEEEEEe
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYK--EGLTKDEGIQLVVDAICSGIFNDL-GSGSNVDVCVIT  143 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~--~~ms~eeai~la~~al~~~~~~d~-~sg~~iei~ii~  143 (198)
                      ++||+|++.+++++|+|+|+..++++||++|+  ++||.+||+++++++|+.++.+|. .+++++||++|+
T Consensus       141 ~~Dp~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         141 QTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             EECCCcCEeeeeEEEECCCcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            99999999999999999999999999999999  599999999999999999999887 899999999984

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

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=4.7e-34  Score=235.55  Aligned_cols=150  Identities=26%  Similarity=0.340  Sum_probs=139.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |+++++||+||..+|++.+.++++.+++.|++.++++++++.+++++++.++.|     .+||++++||||+|..||+||
T Consensus        72 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~~gp~Ly  151 (241)
T PRK03996         72 IDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLF  151 (241)
T ss_pred             EcCCEEEEEcccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeCCcCEEE
Confidence            689999999999999999999999999999999999999999999999987544     469999999999998899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC--eEEec
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH--KEYLR  151 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g--~~~~~  151 (198)
                      .+||+|++.+++++|+|+|+..++++||+.|+++|+++||++++++||..+.++ ..++++++|++++++|  .+.+.
T Consensus       152 ~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~~~-~~~~~~i~i~ii~~~~~~~~~~~  228 (241)
T PRK03996        152 ETDPSGAYLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKANEG-KLDPENVEIAYIDVETKKFRKLS  228 (241)
T ss_pred             EECCCCCeecceEEEECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEECCCCcEEECC
Confidence            999999999999999999999999999999999999999999999999999876 4689999999999987  44443

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=5.1e-34  Score=231.31  Aligned_cols=142  Identities=20%  Similarity=0.173  Sum_probs=134.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++|++|++||+++|++.+.++++.+++.|++.++++++++.++++|+++++.|     .+||++++|+||+|..||+||
T Consensus        66 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~gp~Ly  145 (212)
T cd03751          66 VDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLY  145 (212)
T ss_pred             ecCcEEEEEEEChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCCcCEEE
Confidence            689999999999999999999999999999999999999999999999876443     479999999999998899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      ++||+|++.+++++|+|+|+..++++||++|+++||++||++++++||..+++.+..++.++||+++
T Consensus       146 ~~D~~Gs~~~~~~~a~G~g~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         146 MIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             EECCCCCEEeeEEEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            9999999999999999999999999999999999999999999999999999877678889999874

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=9.8e-34  Score=229.68  Aligned_cols=142  Identities=18%  Similarity=0.243  Sum_probs=134.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHh---cc--CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLF---NY--QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~---~~--~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |+++++||+||..+|++.+.++++.+++.|++.++++|+++.++++++..++   ++  .|||+|++|+||||. .||+|
T Consensus        66 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~l  145 (213)
T cd03752          66 IDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQL  145 (213)
T ss_pred             ecCCEEEEEecChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEE
Confidence            6899999999999999999999999999999999999999999999997653   32  469999999999995 78999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      |.+||+|++.+++++|+|+|+..++++||+.|+++||++||++++++||..+.+||..++.+++|+++
T Consensus       146 y~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~y~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         146 YQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             EEECCCCCeeeeeEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            99999999999999999999999999999999999999999999999999999999889999999875

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=1.1e-33  Score=234.87  Aligned_cols=146  Identities=19%  Similarity=0.334  Sum_probs=138.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |+++|+||++|..+|++.+.+.++.++..|++.++.+++++.+++.++..++.|     .+||+|++||||||+ .||+|
T Consensus        68 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~L  147 (253)
T PTZ00246         68 IDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQL  147 (253)
T ss_pred             ecCCEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEE
Confidence            689999999999999999999999999999999999999999999999775432     369999999999995 78999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH  146 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g  146 (198)
                      |++||+|++.+++++|+|+|+..++++||+.|+++|+.+||++++++||+.+..||..++++++|++|+++|
T Consensus       148 y~~D~~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~  219 (253)
T PTZ00246        148 YHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGE  219 (253)
T ss_pred             EEECCCCCEecceEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC
Confidence            999999999999999999999999999999999999999999999999999999999999999999999886

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=1.8e-33  Score=227.83  Aligned_cols=142  Identities=25%  Similarity=0.403  Sum_probs=135.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |+++++|++||..+|++.+.++++.+++.|+++++++++++.+++.+++.++.|     .+||++++||||+|+.||+||
T Consensus        64 I~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~~~ly  143 (211)
T cd03756          64 IDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLF  143 (211)
T ss_pred             EcCCEEEEEecCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCCCCEEE
Confidence            689999999999999999999999999999999999999999999999887543     359999999999999899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEe
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVIT  143 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~  143 (198)
                      ++||+|++.+++++|+|+|+..++++||+.|+|+|+.+||++++++||..+.++|. ++++++|++|+
T Consensus       144 ~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l~~~~~~~~-~~~~~~v~ii~  210 (211)
T cd03756         144 ETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKALYAALEENE-TPENVEIAYVT  210 (211)
T ss_pred             EECCCCCeeeeEEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEe
Confidence            99999999999999999999999999999999999999999999999999998886 99999999986

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

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=100.00  E-value=1.4e-33  Score=227.82  Aligned_cols=139  Identities=20%  Similarity=0.290  Sum_probs=131.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |++|++|++||.++|++.+.++++.+++.|++.++++|+++.++++++++++.|     .+||++++|+||+|+ .||+|
T Consensus        63 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~L  142 (207)
T cd03755          63 LDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRL  142 (207)
T ss_pred             ECCCEEEEEecchhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEE
Confidence            689999999999999999999999999999999999999999999999988544     369999999999997 48999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      |++||+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+.+   .++.++||+++
T Consensus       143 y~iD~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~---~~~~~~e~~~~  207 (207)
T cd03755         143 YQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVVQ---SGSKNIELAVM  207 (207)
T ss_pred             EEECCCcCEEcceEEEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhC---CCCCeEEEEEC
Confidence            999999999999999999999999999999999999999999999999999986   57899999985

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=2.2e-33  Score=227.56  Aligned_cols=141  Identities=23%  Similarity=0.364  Sum_probs=133.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc----------CCccceEEEEEEEeCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY----------QGYVQAALVLGGVDCT   70 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~----------~~p~gv~~ivaG~D~~   70 (198)
                      |++|++|++||..+|++.+.+.++.+++.|++.++++++++.++++++++++++          .+||+|++||||+|..
T Consensus        63 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~  142 (213)
T cd03753          63 IDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDEN  142 (213)
T ss_pred             EcCCEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCC
Confidence            689999999999999999999999999999999999999999999999988754          2699999999999998


Q ss_pred             CCEEEEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           71 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        71 gp~Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      ||+||.+||+|++.+++++|+|+|+..++++|+++|+++||.+||++++++||+.+..++ .++++++|+++
T Consensus       143 gp~Ly~vd~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~-~~~~~~ei~~~  213 (213)
T cd03753         143 GPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVMEEK-LNSTNVELATV  213 (213)
T ss_pred             CCEEEEECCCCCeecccEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEC
Confidence            999999999999999999999999999999999999999999999999999999988766 68899999985

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

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

Probab=100.00  E-value=1.3e-33  Score=219.61  Aligned_cols=153  Identities=22%  Similarity=0.310  Sum_probs=142.7

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc----------CCccceEEEEEEEeCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY----------QGYVQAALVLGGVDCT   70 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~----------~~p~gv~~ivaG~D~~   70 (198)
                      |++||+|++||+.||++.++++.|.++++|++.|+++++|+.+.+.++++-.++          .|||||++|+||+|.+
T Consensus        70 id~HIgca~SGl~aDarTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~  149 (241)
T KOG0176|consen   70 IDDHIGCAMSGLIADARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDET  149 (241)
T ss_pred             hhhceeeeccccccchHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCC
Confidence            689999999999999999999999999999999999999999999999987554          4699999999999999


Q ss_pred             CCEEEEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC-CeEE
Q 029142           71 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG-HKEY  149 (198)
Q Consensus        71 gp~Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~-g~~~  149 (198)
                      ||+||..||+|++.++++-|+|+|+.-|.+.|++.|+++|+++||+.+++..|+.+++.. .+.+|+++.++++. +.++
T Consensus       150 gpqL~h~dPSGtf~~~~AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVMeeK-l~~~Nvev~~vt~e~~f~~  228 (241)
T KOG0176|consen  150 GPQLYHLDPSGTFIRYKAKAIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVMEEK-LNSNNVEVAVVTPEGEFHI  228 (241)
T ss_pred             CceEEEeCCCCceEEecceeccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHh-cCccceEEEEEcccCceEe
Confidence            999999999999999999999999999999999999999999999999999999999765 46789999999997 5777


Q ss_pred             ecccc
Q 029142          150 LRNHL  154 (198)
Q Consensus       150 ~~~~~  154 (198)
                      ..|.+
T Consensus       229 ~t~EE  233 (241)
T KOG0176|consen  229 YTPEE  233 (241)
T ss_pred             cCHHH
Confidence            66544

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=1.4e-32  Score=224.97  Aligned_cols=152  Identities=16%  Similarity=0.178  Sum_probs=137.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcC-CCCCHHHHHHHHHHHHhc----cCCccceEEEEEEEeC--CCCE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKKHLFN----YQGYVQAALVLGGVDC--TGPH   73 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-~~i~v~~la~~l~~~l~~----~~~p~gv~~ivaG~D~--~gp~   73 (198)
                      |+|||+||+||+.+|++.+++.++.+++.|++.++ .+++++.+++.+++.+..    +.+||+|++|+||||+  .||+
T Consensus        56 I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~~~~~~~~~~~v~~la~~~tq~~~~~~~~~~RP~gvs~Li~G~d~~~~gp~  135 (228)
T TIGR03691        56 LYDRIGFAAVGKYNEFENLRRAGIRYADMRGYSYDRRDVTGRGLANAYAQTLGTIFTEQQKPYEVEICVAEVGETPDQDQ  135 (228)
T ss_pred             ecCCEEEEEcCCHHHHHHHHHHHHHHHHHHhhhcCCCCccHHHHHHHHHhhcccccccccCcceEEEEEEEEcCCCCCCE
Confidence            78999999999999999999999999999999997 789999999988887643    3589999999999984  6899


Q ss_pred             EEEECCCCceeecC-eEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHH--hccCCCCCcEEEEEEecCC----
Q 029142           74 LHTIYPHGSTDTLP-FATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGI--FNDLGSGSNVDVCVITKGH----  146 (198)
Q Consensus        74 Ly~idp~Gs~~~~~-~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~--~~d~~sg~~iei~ii~k~g----  146 (198)
                      ||.+||+|++.+++ ++|+|+|+..++++||++|+++||.+||++++++||+.++  ++|..++.++||+++++++    
T Consensus       136 Ly~vDpsG~~~~~~~~~aiG~gs~~a~~~Lek~y~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~  215 (228)
T TIGR03691       136 LYRITFDGSIVDERGFVVMGGTTEPIATALKESYRDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRA  215 (228)
T ss_pred             EEEECCCCCceeccceEEECCChHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccc
Confidence            99999999999976 8999999999999999999999999999999999999995  4667899999999999764    


Q ss_pred             eEEecc
Q 029142          147 KEYLRN  152 (198)
Q Consensus       147 ~~~~~~  152 (198)
                      .+.+.+
T Consensus       216 f~~l~~  221 (228)
T TIGR03691       216 FRRITG  221 (228)
T ss_pred             eEECCH
Confidence            555443

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=1.8e-32  Score=216.11  Aligned_cols=142  Identities=34%  Similarity=0.505  Sum_probs=137.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC---CccceEEEEEEEeC-CCCEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ---GYVQAALVLGGVDC-TGPHLHT   76 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~---~p~gv~~ivaG~D~-~gp~Ly~   76 (198)
                      |+++++||++|..+|++.+.+.++.++..|++.++++++++.++++++++++.++   +||++++|+||+|. .||+||.
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~p~~~~~lv~G~d~~~~~~Ly~  116 (182)
T cd01906          37 IDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYS  116 (182)
T ss_pred             ECCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCCccChheEEEEEEEeCCCCcEEEE
Confidence            6889999999999999999999999999999999999999999999999998875   79999999999997 7899999


Q ss_pred             ECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           77 IYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        77 idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      +||+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+.++|..++.+++|++|
T Consensus       117 id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~l~~~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         117 VDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             ECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHcccCCCCCCEEEEEC
Confidence            999999999999999999999999999999999999999999999999999999989999999885

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

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=1e-32  Score=224.12  Aligned_cols=141  Identities=20%  Similarity=0.301  Sum_probs=131.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHH--h-cc--CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHL--F-NY--QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l--~-~~--~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |+++++|++||+.+|++.+.++++.++..|+++++++|+++.+|+++++++  | ++  .|||++++|+||+|+ +||+|
T Consensus        65 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~L  144 (215)
T cd03754          65 ITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQL  144 (215)
T ss_pred             EcCCEEEEEEechhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEE
Confidence            689999999999999999999999999999999999999999999999863  3 22  359999999999996 68999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCC--C--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG--L--TKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~--m--s~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      |++||+|++.+++++|+|+|+..++++||+.|+++  |  |.+||++++++||..+++||. ++.++||+|+
T Consensus       145 y~~Dp~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~-~~~~~ei~~~  215 (215)
T cd03754         145 YKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDF-KATEIEVGVV  215 (215)
T ss_pred             EEEcCCccEEeEEEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEC
Confidence            99999999999999999999999999999999995  7  999999999999999999996 5899999885

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

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=1.1e-32  Score=222.74  Aligned_cols=141  Identities=26%  Similarity=0.381  Sum_probs=134.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCC-CCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCT-GPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~-gp~L   74 (198)
                      |+++++||++|..+|++.+.+.++..+..|++.++++++++.+++++++++++|     .+|+++++||||+|++ ||+|
T Consensus        63 i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~L  142 (209)
T cd01911          63 IDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQL  142 (209)
T ss_pred             ecCCeEEEeccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEE
Confidence            689999999999999999999999999999999999999999999999987543     3599999999999975 8999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      |.+||.|++.+++++++|+|+..++++||+.|+++|+.+||++++++||..+.+||. ++++++|+++
T Consensus       143 y~iD~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~l~~~~~~d~-~~~~~~i~i~  209 (209)
T cd01911         143 YQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVLEEDK-KAKNIEIAVV  209 (209)
T ss_pred             EEECCCCCeeeeeEEEeCCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHhccC-CCCcEEEEEC
Confidence            999999999999999999999999999999999999999999999999999999998 9999999985

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.

>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=99.98  E-value=1.7e-31  Score=211.86  Aligned_cols=142  Identities=29%  Similarity=0.383  Sum_probs=131.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHH----Hh-ccCCccceEEEEEEEeCCC-CEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKH----LF-NYQGYVQAALVLGGVDCTG-PHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~----l~-~~~~p~gv~~ivaG~D~~g-p~L   74 (198)
                      |++|++|++||..+|++.+.++++.++..|++.++++++++.+++.+++.    ++ .+++|+++++|+||+|++| |+|
T Consensus        42 i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l  121 (190)
T PF00227_consen   42 INDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPISPEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQL  121 (190)
T ss_dssp             EETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTCHHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEE
T ss_pred             ccCcceeeccccccchHHHHhhhcccchhhhhccCccccchhhhhhhHHHHhhhcccccccCccccceeeeeccccccce
Confidence            57999999999999999999999999999999999999999666665544    33 3367999999999999866 999


Q ss_pred             EEECCCCceeec-CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           75 HTIYPHGSTDTL-PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        75 y~idp~Gs~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      |.+||+|++.++ +++|+|+|+..++++||+.|+++||.+||++++++||+.+.++|..++++++|+||
T Consensus       122 ~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  122 YSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPDLSLEEAIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             EEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTTSSHHHHHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             eeeccccccccccccccchhcchhhhHHHHhhccCCCCHHHHHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            999999999999 69999999999999999999999999999999999999999999999999999987

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 ....

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

Probab=99.97  E-value=1.9e-31  Score=206.98  Aligned_cols=150  Identities=31%  Similarity=0.508  Sum_probs=145.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeC-CCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC-TGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~-~gp~Ly~idp   79 (198)
                      |+|||+||-||.+||.|.+.+.++..+..|....+.+++|...|+.++++.|+|+.-+.+.+||||||+ .|.++|.+-.
T Consensus        56 itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~v~~aA~l~r~~~Y~~re~L~AgliVAGwD~~~gGqVY~ipl  135 (224)
T KOG0174|consen   56 ITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPLVHTAASLFREICYNYREMLSAGLIVAGWDEKEGGQVYSIPL  135 (224)
T ss_pred             ccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCchHHHHHHHHHHHHHhCHHhhhcceEEeecccccCceEEEeec
Confidence            689999999999999999999999999999999999999999999999999999999999999999998 7899999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEe
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYL  150 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~  150 (198)
                      .|+..+.++..-||||.+++++++..|+|+||+||+++++.+|+..++.||-.||+.|.+.+|+++|+++.
T Consensus       136 GG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~EE~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver~  206 (224)
T KOG0174|consen  136 GGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTLEECVRFVKNAVSLAIERDGSSGGVIRLVIINKAGVERR  206 (224)
T ss_pred             CceEeecceeeccCCceeeeeeehhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEEccCCceEE
Confidence            99999999999999999999999999999999999999999999999999999999999999999999843

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

Probab=99.97  E-value=5.9e-31  Score=203.43  Aligned_cols=155  Identities=21%  Similarity=0.278  Sum_probs=147.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc---CCccceEEEEEEEeC-CCCEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY---QGYVQAALVLGGVDC-TGPHLHT   76 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~---~~p~gv~~ivaG~D~-~gp~Ly~   76 (198)
                      |++++.|+.+|..+|+-+++++++..+++|++++|.+++|+.+|++.++.+..+   +.||.|++|+||+|+ .||.||+
T Consensus        38 ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aahFtR~~La~~LRsr~~yqV~~LvaGYd~~~gp~L~~  117 (200)
T KOG0177|consen   38 LSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAHFTRRELAESLRSRTPYQVNILVAGYDPEEGPELYY  117 (200)
T ss_pred             eccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHHHHHHHHHHHHhcCCCceEEEEEeccCCCCCCceee
Confidence            689999999999999999999999999999999999999999999999998765   569999999999998 6799999


Q ss_pred             ECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           77 IYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        77 idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      +|..|+..+.+|++.|.|+.++.++|++.|+|+||.+||+++..+|+.++..|-..+-.++.|.||+|||++.+.++..
T Consensus       118 iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~lmkKCv~El~kRlvin~~~f~v~IVdkdGir~~~~i~~  196 (200)
T KOG0177|consen  118 IDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDLMKKCVLELKKRLVINLPGFIVKIVDKDGIRKLDDINF  196 (200)
T ss_pred             ehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHhcccCCCCcEEEEEcCCCceecccccc
Confidence            9999999999999999999999999999999999999999999999999999998888999999999999998886644

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

Probab=99.97  E-value=3.6e-31  Score=205.57  Aligned_cols=154  Identities=18%  Similarity=0.267  Sum_probs=145.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc---C--CccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY---Q--GYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~---~--~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |.++|+|.+||+.+|++.+.+..|+.++.|...|+++|++..+++.++..++.|   .  +|||++++++|||..+|.||
T Consensus        68 i~~~IG~vYSGmgpD~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~~~p~Ly  147 (233)
T KOG0181|consen   68 ITPHIGCVYSGMGPDYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDEGGPLLY  147 (233)
T ss_pred             ccCCcceEEecCCCceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCCCceeEE
Confidence            689999999999999999999999999999999999999999999999988766   2  59999999999999999999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      ++||+|++..|+++|+|.+...+.++||++|.++|.+++++..|+..|++..+... +.+|+||+++..++++.+.|-++
T Consensus       148 QvdPSGsyf~wkatA~Gkn~v~aktFlEkR~~edleldd~ihtailtlkE~fege~-~~~nieigv~~~~~F~~lt~~eI  226 (233)
T KOG0181|consen  148 QVDPSGSYFAWKATAMGKNYVNAKTFLEKRYNEDLELDDAIHTAILTLKESFEGEM-TAKNIEIGVCGENGFRRLTPAEI  226 (233)
T ss_pred             EECCccceeehhhhhhccCcchHHHHHHHHhccccccchHHHHHHHHHHHHhcccc-ccCceEEEEecCCceeecCHHHH
Confidence            99999999999999999999999999999999999999999999999999998774 67999999999999998876544

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

Probab=99.97  E-value=1.9e-30  Score=204.18  Aligned_cols=150  Identities=22%  Similarity=0.318  Sum_probs=139.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCC-CEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTG-PHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~g-p~L   74 (198)
                      +++|++|++||+.||++.+++++|.+|+.|+++.+.|++++.+.++++++-++|     ++|||++.|++|+|++| |+|
T Consensus        66 ld~hV~mafaGl~aDArilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~l  145 (249)
T KOG0183|consen   66 LDDHVVMAFAGLTADARILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRL  145 (249)
T ss_pred             ecceeeEEecCCCccceeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeee
Confidence            578999999999999999999999999999999999999999999999987665     56999999999999987 999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCC--CCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC-eEEec
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG--LTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH-KEYLR  151 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~--ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g-~~~~~  151 (198)
                      |++||+|.+.+|++.|+|.+++.+..+||+.|++.  .+..++++|++++|......   .+.|++++|+++++ .+++.
T Consensus       146 yqtePsG~f~ewka~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvqs---~~~nie~aVm~~~~~~~~l~  222 (249)
T KOG0183|consen  146 YQTEPSGIFSEWKANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQS---GGKNIEVAVMKRRKDLKMLE  222 (249)
T ss_pred             EeeCCCcchhhhhccccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhhc---CCCeeEEEEEecCCceeecC
Confidence            99999999999999999999999999999999976  78899999999999998874   45899999999987 77776


Q ss_pred             cc
Q 029142          152 NH  153 (198)
Q Consensus       152 ~~  153 (198)
                      +-
T Consensus       223 ~~  224 (249)
T KOG0183|consen  223 SE  224 (249)
T ss_pred             HH
Confidence            44

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

Probab=99.96  E-value=7.8e-30  Score=205.33  Aligned_cols=155  Identities=24%  Similarity=0.344  Sum_probs=150.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCc-cceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p-~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      ||+++.-+.||.+||++..-+.+..+|.+|++.+++.|+|..++++|++++++|++. +.+...|+|||..||.||+||.
T Consensus       108 In~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSVsaASKllsN~~y~YkGmGLsmGtMi~G~Dk~GP~lyYVDs  187 (285)
T KOG0175|consen  108 INPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISVSAASKLLSNMVYQYKGMGLSMGTMIAGWDKKGPGLYYVDS  187 (285)
T ss_pred             echhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceehHHHHHHHHHHHhhccCcchhheeeEeeccCCCCceEEEcC
Confidence            789999999999999999999999999999999999999999999999999999985 8999999999999999999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      .|+-.+-+-.++|||+.+|+++|++.|++|||.|||.+|+++||..+..||..||+.++++.|+.+|...+.+..+
T Consensus       188 eG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls~eEA~~L~rrAI~hAThRDaySGG~vnlyHv~edGW~~v~~~Dv  263 (285)
T KOG0175|consen  188 EGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLSDEEAYDLARRAIYHATHRDAYSGGVVNLYHVKEDGWVKVSNTDV  263 (285)
T ss_pred             CCCEecCceEeecCCCceeEEeeccCCCCCCCHHHHHHHHHHHHHHHHhcccccCceEEEEEECCccceecCCccH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998887655

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

Probab=99.96  E-value=2.2e-28  Score=191.90  Aligned_cols=150  Identities=23%  Similarity=0.322  Sum_probs=141.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCC-CEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTG-PHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~g-p~Ly~id   78 (198)
                      ++|++.++.+|++||+..+...++..+..|++.+++.|++..+|++|+.+||..| .||.+..|+||+|++| +.+|+.|
T Consensus        66 l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~~s~A~lls~~LY~kRFFPYYv~~ilaGiDeeGKG~VySyD  145 (235)
T KOG0179|consen   66 LGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKMSIHSAAQLLSTILYSKRFFPYYVFNILAGIDEEGKGAVYSYD  145 (235)
T ss_pred             ccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHhhcccccceeeeeeecccccCceeEEeec
Confidence            5799999999999999999999999999999999999999999999999999776 4999999999999977 9999999


Q ss_pred             CCCceeecCeEEEecChHHHHHHHHhhcc-----------CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe
Q 029142           79 PHGSTDTLPFATMGSGSLAAMAMFESKYK-----------EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK  147 (198)
Q Consensus        79 p~Gs~~~~~~~a~G~gs~~a~~~Le~~~~-----------~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~  147 (198)
                      |.|++.+.-+.|.|+++..++++|++...           +.+|+|+|+.|+.+++..+.+||+.+|++++|+|++|+|+
T Consensus       146 PvGsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~~e~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~tk~gV  225 (235)
T KOG0179|consen  146 PVGSYERVTCRAGGSAASMIQPFLDNQIGHKNQNLENAERTPLSLERAIRLVKDAFTSAAERDIYTGDKLEICIITKDGV  225 (235)
T ss_pred             CCcceeeeeeecCCcchhhhhhhhhhhccCcCcccccCcccccCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEecCCE
Confidence            99999999999999999999999997642           3589999999999999999999999999999999999998


Q ss_pred             EEe
Q 029142          148 EYL  150 (198)
Q Consensus       148 ~~~  150 (198)
                      +..
T Consensus       226 ~~e  228 (235)
T KOG0179|consen  226 EVE  228 (235)
T ss_pred             EEE
Confidence            743

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

Probab=99.96  E-value=3e-28  Score=191.36  Aligned_cols=149  Identities=20%  Similarity=0.261  Sum_probs=139.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHH---hccC--CccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHL---FNYQ--GYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l---~~~~--~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |+|||+|+++|+.+|+..+++.+|..++.|.+.+++++|.+++++.++++-   +||.  ||||||+|.+|||. .|.+|
T Consensus        68 l~d~iaC~vaGlt~DAnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqL  147 (249)
T KOG0178|consen   68 LNDNIACAVAGLTSDANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQL  147 (249)
T ss_pred             cCCceEEEEecccccHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEE
Confidence            689999999999999999999999999999999999999999999999774   5664  69999999999998 68999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCC-CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEE
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGL-TKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY  149 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~m-s~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~  149 (198)
                      |+.||+|++..|++.++|.++.+++++|+..|+++. +++||..+|++.|...++.+..+...+|++.++++..+.
T Consensus       148 y~SdPSGny~gWka~ciG~N~~Aa~s~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k~  223 (249)
T KOG0178|consen  148 YQSDPSGNYGGWKATCIGANSGAAQSMLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNKT  223 (249)
T ss_pred             EecCCCCCccccceeeeccchHHHHHHHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCce
Confidence            999999999999999999999999999999999875 599999999999999999988889999999999986554

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

Probab=99.95  E-value=9e-28  Score=190.85  Aligned_cols=146  Identities=23%  Similarity=0.294  Sum_probs=136.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHh---c-c-CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLF---N-Y-QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~---~-~-~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++|+++++||+++|++.+.++++++|..+++.+++++++..++..|.+.++   | | +|||||.++++|+|+.|||||
T Consensus        66 iD~h~g~siAGLt~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~G~hl~  145 (264)
T KOG0863|consen   66 IDDHIGISIAGLTADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDESGPHLY  145 (264)
T ss_pred             cccccceEEeccCcchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCCCceeE
Confidence            6899999999999999999999999999999999999999999999987664   3 3 679999999999999999999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhcc--CCCCHHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEecCC
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYK--EGLTKDEGIQLVVDAICSGIFND-LGSGSNVDVCVITKGH  146 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~--~~ms~eeai~la~~al~~~~~~d-~~sg~~iei~ii~k~g  146 (198)
                      +++|+|.+.+++..++|+.|+.++++||+...  ++++.||.+..+++||+.....| ..++.|++|+|+.||.
T Consensus       146 e~~Psg~v~e~~g~sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~  219 (264)
T KOG0863|consen  146 EFCPSGNVFECKGMSIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDE  219 (264)
T ss_pred             EEcCCccEEEEeeeecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCC
Confidence            99999999999999999999999999999876  58999999999999999999643 6788999999999985

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

Probab=99.94  E-value=8.1e-27  Score=185.81  Aligned_cols=162  Identities=17%  Similarity=0.284  Sum_probs=151.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhh-hhcCCCCCHHHHHHHHHHHHhccC---CccceEEEEEEEeCCC-CEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHR-YHTGRESRVVTALTLLKKHLFNYQ---GYVQAALVLGGVDCTG-PHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~-~~~~~~i~v~~la~~l~~~l~~~~---~p~gv~~ivaG~D~~g-p~Ly   75 (198)
                      ++||+.+|++|..+|+|.+.+.+.....+.. +..++.+.|+.++.+|.+.||.+|   +|++.+++|||+|.+| |+|.
T Consensus        78 VgdntllG~sGdisD~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvlY~rRsKmnPlwntlvVgGv~~~g~~~lg  157 (256)
T KOG0185|consen   78 VGDNTLLGASGDISDFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVLYARRSKMNPLWNTLVVGGVDNTGEPFLG  157 (256)
T ss_pred             ecCceEEecCccHHHHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHHHHhhhccCchhhheeEeeecCCCCeeEE
Confidence            5899999999999999999999987776644 556799999999999999999875   5999999999999966 9999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhcc---CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEecc
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYK---EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRN  152 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~---~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~  152 (198)
                      .+|..|..++.+..|+|.|...|.++|++.|.   ++++.+||.+++.+||+...+||+.+.+.++|++|+++|+++..|
T Consensus       158 ~V~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~eGv~i~~p  237 (256)
T KOG0185|consen  158 YVDLLGVAYESPVVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQVATVDEEGVTISKP  237 (256)
T ss_pred             EEeeccccccCchhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceEEEEEcccceEecCc
Confidence            99999999999999999999999999999998   579999999999999999999999999999999999999999999


Q ss_pred             ccCCCccccc
Q 029142          153 HLLPNPRTFV  162 (198)
Q Consensus       153 ~~~~~~~~~~  162 (198)
                      +++...|.|+
T Consensus       238 ~qv~~~W~fa  247 (256)
T KOG0185|consen  238 YQVKTNWDFA  247 (256)
T ss_pred             eeeeecchhh
Confidence            9999999874

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

Probab=99.94  E-value=4.2e-26  Score=174.27  Aligned_cols=148  Identities=22%  Similarity=0.284  Sum_probs=142.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCC-CEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTG-PHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~g-p~Ly~id   78 (198)
                      |+|++++|.+|++.|+|.+.++++....+|+++.+++|.++.+++++|.++|++| +||.+..++||+|+++ |+++..|
T Consensus        45 igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~~~s~mvS~~lYekRfgpYf~~PvVAGl~~~~kPfIc~mD  124 (204)
T KOG0180|consen   45 IGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPETFSSMVSSLLYEKRFGPYFTEPVVAGLDDDNKPFICGMD  124 (204)
T ss_pred             cCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcHHHHHHHHHHHHHhhcCCcccceeEeccCCCCCeeEeecc
Confidence            5789999999999999999999999999999999999999999999999999887 7999999999999865 9999999


Q ss_pred             CCCceee-cCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeE
Q 029142           79 PHGSTDT-LPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKE  148 (198)
Q Consensus        79 p~Gs~~~-~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~  148 (198)
                      ..|+... .+|++.|.++...++++|..|+|||..++.++.+.+||-.+.+||..||....+.||+||.+.
T Consensus       125 ~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~LFetisQa~Lna~DRDalSGwGa~vyiI~kdkv~  195 (204)
T KOG0180|consen  125 LIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDELFETISQALLNAVDRDALSGWGAVVYIITKDKVT  195 (204)
T ss_pred             cccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhHhhhhhhccCCeEEEEEccchhh
Confidence            9999876 589999999999999999999999999999999999999999999999999999999999764

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

Probab=99.94  E-value=4.3e-26  Score=179.33  Aligned_cols=146  Identities=23%  Similarity=0.271  Sum_probs=135.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHh---cc--CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLF---NY--QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~---~~--~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |+.+|+|+++|..+|++....+++.++.++++++|.+||++.|++.++++.+   |+  +||+||.+++.|+|+ .||.+
T Consensus        72 itk~ig~v~tG~~aDar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~v  151 (246)
T KOG0182|consen   72 ITKKIGCVITGMIADARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSV  151 (246)
T ss_pred             eeccceEEEecCCcchHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcce
Confidence            5789999999999999999999999999999999999999999999887654   33  689999999999998 68999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCC--CCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG--LTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK  147 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~--ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~  147 (198)
                      |.+||.|.+..++++|.|-....+.++||++||++  +|.+|++++|+.||..++.-|. ..+.+||++++++..
T Consensus       152 Yk~DpAGyy~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Df-k~se~EVgvv~~~~p  225 (246)
T KOG0182|consen  152 YKTDPAGYYYGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDF-KSSELEVGVVTVDNP  225 (246)
T ss_pred             EeecCccccccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhccc-CCcceEEEEEEcCCc
Confidence            99999999999999999999999999999999987  7799999999999999999896 558999999999864

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.92  E-value=2.3e-24  Score=169.19  Aligned_cols=129  Identities=19%  Similarity=0.172  Sum_probs=113.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHH-hccCCccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHL-FNYQGYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l-~~~~~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      -+++++||.||..||+|.+.+.++.+++.|+...     ++.++++++.++ ++|+.|+.+.+|++  |.  |+||.+||
T Consensus        39 ~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~~~-----~~~~a~l~~~l~~~~~~~~l~~~~lv~--d~--~~ly~id~  109 (172)
T PRK05456         39 YNGKVLAGFAGSTADAFTLFERFEAKLEEHQGNL-----LRAAVELAKDWRTDRYLRRLEAMLIVA--DK--EHSLIISG  109 (172)
T ss_pred             CCCCEEEEEeccHHHHHHHHHHHHHHHHHccCcc-----HHHHHHHHHHHHhccCCCccEEEEEEE--cC--CcEEEECC
Confidence            1899999999999999999999999999998322     577777665553 45667888999994  43  79999999


Q ss_pred             CCceeec--CeEEEecChHHHHHHHHhhcc-CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q 029142           80 HGSTDTL--PFATMGSGSLAAMAMFESKYK-EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCV  141 (198)
Q Consensus        80 ~Gs~~~~--~~~a~G~gs~~a~~~Le~~~~-~~ms~eeai~la~~al~~~~~~d~~sg~~iei~i  141 (198)
                      .|++.+.  ++.|+|||+.+++++||+.|+ |+|   ||++|+++|++.+.+||..||++++|-.
T Consensus       110 ~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---eA~~la~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        110 NGDVIEPEDGIIAIGSGGNYALAAARALLENTDL---SAEEIAEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             CCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---CHHHHHHHHHHHHHHhCeeCCCcEEEEE
Confidence            9999766  799999999999999999999 999   9999999999999999999999998854

>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=99.92  E-value=3.3e-24  Score=167.58  Aligned_cols=129  Identities=19%  Similarity=0.151  Sum_probs=112.5

Q ss_pred             CCC-cEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHH-hccCCccceEEEEEEEeCCCCEEEEEC
Q 029142            1 MAP-NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHL-FNYQGYVQAALVLGGVDCTGPHLHTIY   78 (198)
Q Consensus         1 I~~-~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l-~~~~~p~gv~~ivaG~D~~gp~Ly~id   78 (198)
                      |++ |++||+||..||++.+.++++.++++|+++.++     .+++++++++ +++++++.+.+|++++    ++||.+|
T Consensus        37 i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~aa~l~~~l~~~~~~~~l~a~~iv~~~----~~ly~id  107 (171)
T cd01913          37 LYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR-----AAVELAKDWRTDRYLRRLEAMLIVADK----EHTLLIS  107 (171)
T ss_pred             eCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH-----HHHHHHHHHHhccCcCceEEEEEEeCC----CcEEEEC
Confidence            567 999999999999999999999999999998774     5567666664 5666556677777644    3999999


Q ss_pred             CCCceeec--CeEEEecChHHHHHHHHhhccCC-CCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q 029142           79 PHGSTDTL--PFATMGSGSLAAMAMFESKYKEG-LTKDEGIQLVVDAICSGIFNDLGSGSNVDVCV  141 (198)
Q Consensus        79 p~Gs~~~~--~~~a~G~gs~~a~~~Le~~~~~~-ms~eeai~la~~al~~~~~~d~~sg~~iei~i  141 (198)
                      |.|++.+.  ++.++|||+.+|+++||..|+++ ||   +.++|.+|++.+++||..||++|+|-.
T Consensus       108 ~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms---~~~la~~Av~~A~~rd~~tg~~i~~~~  170 (171)
T cd01913         108 GNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDLS---AEEIARKALKIAADICIYTNHNITVEE  170 (171)
T ss_pred             CCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCC---HHHHHHHHHHHHHhhCcccCCCEEEEe
Confidence            99999998  49999999999999999999995 99   559999999999999999999998754

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.

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

Probab=99.92  E-value=3.3e-24  Score=169.75  Aligned_cols=144  Identities=18%  Similarity=0.143  Sum_probs=130.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhc-----cCCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFN-----YQGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~-----~~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++||+|+++|+.+|.+.+.+++|.++..|+-+++.++|...++..++++.+-     ..||||++.++++||.+||+||
T Consensus        70 V~r~iG~avaGl~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~~g~~Ly  149 (254)
T KOG0184|consen   70 VDRHIGMAVAGLIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDDEGPQLY  149 (254)
T ss_pred             ecccccEEEeccccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeCCCceEE
Confidence            57899999999999999999999999999999999999999999999997643     3579999999999999999999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEec
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK  144 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k  144 (198)
                      .++|+|..+.++++|+|.|.+.|.+.||+.--..|+.+|+++.+.+.|..+-+......-.+|+.|+..
T Consensus       150 miepSG~~~~Y~~aaiGKgrq~aKtElEKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~  218 (254)
T KOG0184|consen  150 MIEPSGSSYGYKGAAIGKGRQAAKTELEKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGE  218 (254)
T ss_pred             EEcCCCCccceeeeeccchhHHHHHHHHhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEe
Confidence            999999999999999999999999999999888999999999999999887654333334578888875

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.91  E-value=1.7e-23  Score=163.60  Aligned_cols=128  Identities=17%  Similarity=0.135  Sum_probs=112.6

Q ss_pred             CCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHH-HhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            2 APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKH-LFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         2 ~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~-l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      ++|++||.||..||++.+.++++.++++|++..     .+.+++.++++ .+++.+.+.+.+|++|+    ++||.+||.
T Consensus        39 ~d~i~~~~aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~a~l~~~~~~~~~~~~l~a~~iv~~~----~~ly~i~~~  109 (171)
T TIGR03692        39 NGKVLAGFAGSTADAFTLFERFEAKLEEYQGNL-----TRAAVELAKDWRTDRYLRRLEAMLIVADK----ETSLLISGT  109 (171)
T ss_pred             CCCEEEEecchHHHHHHHHHHHHHHHHHccCch-----HHHHHHHHHHHhhcccccccEEEEEEEcC----CCEEEEcCC
Confidence            489999999999999999999999999998843     47778888885 35665567788887644    499999999


Q ss_pred             Cceeec--CeEEEecChHHHHHHHHhhc-cCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q 029142           81 GSTDTL--PFATMGSGSLAAMAMFESKY-KEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCV  141 (198)
Q Consensus        81 Gs~~~~--~~~a~G~gs~~a~~~Le~~~-~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~i  141 (198)
                      |.+.+.  ++.++|||+.+++++||..| +++|+   |+++|++|++.+++||..||++|+|-.
T Consensus       110 G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s---a~~la~~Av~~A~~rd~~sg~~i~v~~  170 (171)
T TIGR03692       110 GDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS---AEEIAREALKIAADICIYTNHNITIEE  170 (171)
T ss_pred             CcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC---HHHHHHHHHHHHHhhCccCCCCEEEEe
Confidence            999996  69999999999999999999 57787   999999999999999999999998854

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

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

Probab=99.90  E-value=1.5e-22  Score=154.74  Aligned_cols=124  Identities=30%  Similarity=0.325  Sum_probs=119.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC--CccceEEEEEEEeCCCCEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ--GYVQAALVLGGVDCTGPHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~--~p~gv~~ivaG~D~~gp~Ly~id   78 (198)
                      ++++++++++|..+|++.+.++++.+++.|++.++.++++..+++.+++.++.++  +|+++++|+||+|.++|+||.+|
T Consensus        37 ~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~iiag~~~~~~~l~~id  116 (164)
T cd01901          37 NEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYID  116 (164)
T ss_pred             ecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCcceEEEEEEEcCCCCEEEEEC
Confidence            4679999999999999999999999999999999999999999999999988774  79999999999998889999999


Q ss_pred             CCCceeec-CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHH
Q 029142           79 PHGSTDTL-PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAIC  124 (198)
Q Consensus        79 p~Gs~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~  124 (198)
                      |+|++.+. +++++|+++..+.++|++.|+++|+.+||++++.+||.
T Consensus       117 ~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~  163 (164)
T cd01901         117 PSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALK  163 (164)
T ss_pred             CCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            99999999 99999999999999999999999999999999999985

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

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

Probab=98.71  E-value=2.8e-07  Score=73.13  Aligned_cols=151  Identities=19%  Similarity=0.232  Sum_probs=117.5

Q ss_pred             EEEEecCchHHHHHHHHHHHHHHHhhhhhc-CCCCCHHHHHHHHHHHHh----ccC-------CccceEEEEEEEeCCC-
Q 029142            5 IYCCGAGTAADTEAVTDMVSSQLQLHRYHT-GRESRVVTALTLLKKHLF----NYQ-------GYVQAALVLGGVDCTG-   71 (198)
Q Consensus         5 i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~-~~~i~v~~la~~l~~~l~----~~~-------~p~gv~~ivaG~D~~g-   71 (198)
                      +.+|.+|..|-.|.+.+.+....+...... -.-+++-..+.++.....    +-.       --|.|++|+||-=..+ 
T Consensus        45 lvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~sm~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~p  124 (255)
T COG3484          45 LVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIPSMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEP  124 (255)
T ss_pred             EEEEecCccHHHHHHHHHHHHHhhccchhhhhcchhHHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCC
Confidence            578999999999999999887775332211 223455555555554332    211       1489999999976554 


Q ss_pred             CEEEEECCCCceee----cCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe
Q 029142           72 PHLHTIYPHGSTDT----LPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK  147 (198)
Q Consensus        72 p~Ly~idp~Gs~~~----~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~  147 (198)
                      |.||.|-|.|++.+    .+|.-+|. +.+-.++|++.+..+++++||.++|+-.+...+..++.-|-.+++.++.+|..
T Consensus       125 p~Ly~IYpqGNFIqaT~etpf~QiGE-tKYGKPildR~i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds~  203 (255)
T COG3484         125 PRLYLIYPQGNFIQATPETPFLQIGE-TKYGKPILDRTITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADSF  203 (255)
T ss_pred             ceeEEEccCCCeeecCCCCceeEccc-cccCchhhhhhhhccCCHHHHhhheEEecchhhhccccccCCceeEEEeccce
Confidence            89999999999986    47999998 45778999999999999999999999999999998988888999999999987


Q ss_pred             EEeccccCC
Q 029142          148 EYLRNHLLP  156 (198)
Q Consensus       148 ~~~~~~~~~  156 (198)
                      ..-..+++.
T Consensus       204 ~v~~~~ri~  212 (255)
T COG3484         204 SVRHTLRIR  212 (255)
T ss_pred             eeeeeeEec
Confidence            665555543

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

Probab=98.54  E-value=1.6e-06  Score=66.48  Aligned_cols=130  Identities=17%  Similarity=0.149  Sum_probs=95.4

Q ss_pred             CCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHh-ccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            2 APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLF-NYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         2 ~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~-~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      +..+..+++|..||+..+.+++..+++.|.-+-     .+.++.+..++.. ++.+-+.+-+|++  |+  -+++-+...
T Consensus        43 ~gkvlaGFAGstADaftLfe~fe~kle~~~g~L-----~raavelaKdwr~Dk~lr~LEAmllVa--d~--~~il~isG~  113 (178)
T COG5405          43 NGKVLAGFAGSTADAFTLFERFEAKLEQYQGDL-----FRAAVELAKDWRTDKYLRKLEAMLLVA--DK--THILIITGN  113 (178)
T ss_pred             CCcEEEEecccchhHHHHHHHHHHHHHHccCcH-----HHHHHHHHHhhhhhhHHHHHhhheeEe--CC--CcEEEEecC
Confidence            357899999999999999999999999886221     2344444444432 2234566777777  44  457777788


Q ss_pred             Cceee--cCeEEEecChHHHHHHHHhhccC-CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEe
Q 029142           81 GSTDT--LPFATMGSGSLAAMAMFESKYKE-GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVIT  143 (198)
Q Consensus        81 Gs~~~--~~~~a~G~gs~~a~~~Le~~~~~-~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~  143 (198)
                      |-+.+  .+..|+|||..+|.+.....++. ++|   |.++|.++|..+.+-+.+++.++.|-.+.
T Consensus       114 gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~ls---A~eIa~~sl~iA~eiciyTN~ni~ve~l~  176 (178)
T COG5405         114 GDVIEPEDDIIAIGSGGNYALSAARALMENTELS---AREIAEKSLKIAGDICIYTNHNIVVEELR  176 (178)
T ss_pred             cceecCCCCeEEEcCCchHHHHHHHHHHhccCCC---HHHHHHHHHhhhheEEEecCCcEEEEEee
Confidence            87765  35999999999999998888763 665   55688999998887777777777776543

>PF12465 Pr_beta_C: Proteasome beta subunits C terminal ; InterPro: IPR024689 This domain is found in the C terminus of beta-type subunits of the proteasome, a multimeric complex that degrades proteins into peptides as part of the MHC class I-mediated Ag-presenting pathway []

Probab=97.84  E-value=1e-05  Score=47.64  Aligned_cols=32  Identities=38%  Similarity=0.638  Sum_probs=11.7

Q ss_pred             CCcccccCCCCCCCCc-cceeeeeEeEecc-ceeee
Q 029142          156 PNPRTFVNAKGYSFPK-KTEVLLTKITPLR-ERVEV  189 (198)
Q Consensus       156 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~  189 (198)
                      ||+|+ +|...|+||+ ||+||+++| ++. +.+++
T Consensus         1 pN~kg-~r~~~Ykf~~GTTaVL~e~V-~~~~~v~eE   34 (38)
T PF12465_consen    1 PNEKG-ERQGSYKFKRGTTAVLKEKV-PLKLDVVEE   34 (38)
T ss_dssp             TT------SS-----TT-S-EEEEEE-E--------
T ss_pred             CCcCc-ccccccccCCCceeeEEEEe-ccEeEEEEE
Confidence            57888 8999999999 999999999 554 44443

This domain is approximately 40 amino acids in length. It is found in association with PF00227 from PFAM. It contains a conserved GTT sequence motif and a single completely conserved residue Y that may be functionally important.; PDB: 3UN8_H 2GPL_V 3E47_H 3OEV_H 3SDK_V 3BDM_H 3GPJ_H 3DY3_H 3NZW_H 3OEU_V ....

>KOG3361 consensus Iron binding protein involved in Fe-S cluster formation [Energy production and conversion]

Probab=94.40  E-value=0.14  Score=38.31  Aligned_cols=43  Identities=26%  Similarity=0.423  Sum_probs=40.3

Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHH
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQ  117 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~  117 (198)
                      ..+|-+|.+...+|-..|-||..|-+-+-..|-.++|.+||..
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgkt~dea~k  113 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGKTLDEALK  113 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccccHHHHHh
Confidence            4788899999999999999999999999999999999999985

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

Probab=91.01  E-value=1.1  Score=35.78  Aligned_cols=50  Identities=10%  Similarity=0.043  Sum_probs=41.8

Q ss_pred             HHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC
Q 029142           96 LAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG  145 (198)
Q Consensus        96 ~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~  145 (198)
                      +.|...|.++|++.|+.+++.++..++|..+...-..-+..+++...++.
T Consensus       131 ~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~~~~~~~  180 (194)
T PF09894_consen  131 EIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDIYITTKK  180 (194)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEEEEeccc
Confidence            56888999999999999999999999999987666555677888776654

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	198
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		6e-59
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		7e-59
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		4e-54
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		5e-54
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		6e-54
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		5e-45
3unb_N	205	Mouse Constitutive 20s Proteasome In Complex With P		6e-15
1iru_H	205	Crystal Structure Of The Mammalian 20s Proteasome A		2e-14
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		1e-13
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		1e-13
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		1e-13
3nzj_N	215	Crystal Structure Of Yeast 20s Proteasome In Comple		7e-13
1vsy_H	196	Proteasome Activator Complex Length = 196		8e-13
1g65_N	196	Crystal Structure Of Epoxomicin:20s Proteasome Reve		8e-13
1ryp_H	205	Crystal Structure Of The 20s Proteasome From Yeast		8e-13
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		7e-11
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		4e-10
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		5e-10
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		1e-06
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		1e-06
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		1e-06
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		1e-06
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		2e-06
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		2e-06
3unf_N	199	Mouse 20s Immunoproteasome In Complex With Pr-957 L		2e-06
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		3e-06
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		3e-06
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		4e-06
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		4e-06
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		2e-05
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		3e-05
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		5e-05
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		3e-04
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		3e-04

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

Iteration: 1
 Score =  223 bits (568), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 109/191 (57%), Positives = 141/191 (73%), Gaps = 2/191 (1%)
Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF Y+GY+ A
Sbjct: 37  ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGA 96
Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E   LV 
Sbjct: 97  ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVS 156
Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     +       T VL  KI
Sbjct: 157 EAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKGTRLGRYRCEKGTTAVLTEKI 216
Query: 181 TPLRERVEVVE 191
           TPL   +EV+E
Sbjct: 217 TPL--EIEVLE 225

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

Iteration: 1
 Score =  223 bits (567), Expect = 7e-59,   Method: Compositional matrix adjust.
 Identities = 109/191 (57%), Positives = 141/191 (73%), Gaps = 2/191 (1%)
Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF YQGY+ A
Sbjct: 37  ISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQMLFRYQGYIGA 96
Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E  +LV 
Sbjct: 97  ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVS 156
Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTEVLLTKI 180
           +AI +GIFNDLGSGSN+D+CVI+K   ++LR   +PN +     +       T VL  K+
Sbjct: 157 EAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPFSVPNKKGTRLGRYRCEKGTTAVLTEKV 216
Query: 181 TPLRERVEVVE 191
           TPL   +EV+E
Sbjct: 217 TPL--EIEVLE 225

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

Iteration: 1
 Score =  207 bits (526), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 101/178 (56%), Positives = 132/178 (74%), Gaps = 2/178 (1%)
Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK+HLF YQG++ A
Sbjct: 66  ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGA 125
Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
            L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMA+ ES +K+ LTK+E I+L  
Sbjct: 126 YLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLAS 185
Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHK-EYLRNHLLPNPRTFVNAKGYSFPKKTEVLL 177
           DAI +GI+NDLGSGSNVDVCV+  G   EYLRN+L PN R     K Y FP+ T  +L
Sbjct: 186 DAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVRE-EKQKSYKFPRGTTAVL 242

>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 =  206 bits (525), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 101/178 (56%), Positives = 132/178 (74%), Gaps = 2/178 (1%)
Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK+HLF YQG++ A
Sbjct: 37  ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGA 96
Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
            L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMA+ ES +K+ LTK+E I+L  
Sbjct: 97  YLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLAS 156
Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHK-EYLRNHLLPNPRTFVNAKGYSFPKKTEVLL 177
           DAI +GI+NDLGSGSNVDVCV+  G   EYLRN+L PN R     K Y FP+ T  +L
Sbjct: 157 DAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVRE-EKQKSYKFPRGTTAVL 213

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

Iteration: 1
 Score =  206 bits (524), Expect = 6e-54,   Method: Compositional matrix adjust.
 Identities = 101/178 (56%), Positives = 132/178 (74%), Gaps = 2/178 (1%)
Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK+HLF YQG++ A
Sbjct: 37  ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGA 96
Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
            L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMA+ ES +K+ LTK+E I+L  
Sbjct: 97  YLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLAS 156
Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHK-EYLRNHLLPNPRTFVNAKGYSFPKKTEVLL 177
           DAI +GI+NDLGSGSNVDVCV+  G   EYLRN+L PN R     K Y FP+ T  +L
Sbjct: 157 DAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVRE-EKQKSYKFPRGTTAVL 213

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

Iteration: 1
 Score =  176 bits (447), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 90/185 (48%), Positives = 120/185 (64%), Gaps = 4/185 (2%)
Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +AP IYCCGAG AADTE  T M +S+++LH   TGRE RV T   +L++ LF YQG+V A
Sbjct: 37  IAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRYQGHVGA 96
Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           +LV+GGVD  GP L+ ++PHGS   LPF  +GSG  AA+A+ E +++  +T +   +L+V
Sbjct: 97  SLVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLV 156
Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKG-YSF-PKKTEVLLT 178
           +AI +GI +DLGSG NVD CVIT G  +  R   L  P   V   G Y F P  T VL  
Sbjct: 157 EAITAGILSDLGSGGNVDACVITAGGAKLQRA--LSTPTEPVQRAGRYRFAPGTTPVLTR 214
Query: 179 KITPL 183
           ++ PL
Sbjct: 215 EVRPL 219

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

Iteration: 1
 Score = 77.0 bits (188), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 46/146 (31%), Positives = 75/146 (51%), Gaps = 1/146 (0%)
Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALV 63
           +I+CC +G+AADT+AV D V+ QL  H         V TA +L K+  + Y+  + A ++
Sbjct: 40  HIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGII 99
Query: 64  LGGVDCT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDA 122
           + G D   G  ++++   G      FA  GSGS       ++ Y+EG+TKDE +Q   +A
Sbjct: 100 IAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECLQFTANA 159
Query: 123 ICSGIFNDLGSGSNVDVCVITKGHKE 148
           +   +  D  SG  + +  I +   E
Sbjct: 160 LALAMERDGSSGGVIRLAAIQESGVE 185

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

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/146 (30%), Positives = 74/146 (50%), Gaps = 1/146 (0%)
Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALV 63
            I+CC +G+AADT+AV D V+ QL  H         V TA +L K+  + Y+  + A ++
Sbjct: 40  RIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGII 99
Query: 64  LGGVDCT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDA 122
           + G D   G  ++++   G      FA  GSGS       ++ Y+EG+TK+E +Q   +A
Sbjct: 100 IAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANA 159
Query: 123 ICSGIFNDLGSGSNVDVCVITKGHKE 148
           +   +  D  SG  + +  I +   E
Sbjct: 160 LALAMERDGSSGGVIRLAAIAESGVE 185

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

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/137 (32%), Positives = 74/137 (54%), Gaps = 4/137 (2%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV--QAALVLGGV 67
           AG   D + +   + ++L+L+R    R +  + A+  L  ++ N   Y+     L++GG+
Sbjct: 46  AGLVGDAQVLVRYMKAELELYRLQR-RVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGI 104
Query: 68  DCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGI 127
           D T PH+ +I   G +    +A+ GSGS     + ES+Y E +T DEG+ LV+ AI +  
Sbjct: 105 D-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAK 163
Query: 128 FNDLGSGSNVDVCVITK 144
             D  SG  +DV VIT+
Sbjct: 164 QRDSASGGMIDVAVITR 180

>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 = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/137 (32%), Positives = 74/137 (54%), Gaps = 4/137 (2%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV--QAALVLGGV 67
           AG   D + +   + ++L+L+R    R +  + A+  L  ++ N   Y+     L++GG+
Sbjct: 54  AGLVGDAQVLVRYMKAELELYRLQR-RVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGI 112
Query: 68  DCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGI 127
           D T PH+ +I   G +    +A+ GSGS     + ES+Y E +T DEG+ LV+ AI +  
Sbjct: 113 D-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAK 171
Query: 128 FNDLGSGSNVDVCVITK 144
             D  SG  +DV VIT+
Sbjct: 172 QRDSASGGMIDVAVITR 188

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

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/137 (32%), Positives = 74/137 (54%), Gaps = 4/137 (2%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV--QAALVLGGV 67
           AG   D + +   + ++L+L+R    R +  + A+  L  ++ N   Y+     L++GG+
Sbjct: 54  AGLVGDAQVLVRYMKAELELYRLQR-RVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGI 112
Query: 68  DCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGI 127
           D T PH+ +I   G +    +A+ GSGS     + ES+Y E +T DEG+ LV+ AI +  
Sbjct: 113 D-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAK 171
Query: 128 FNDLGSGSNVDVCVITK 144
             D  SG  +DV VIT+
Sbjct: 172 QRDSASGGMIDVAVITR 188

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

Iteration: 1
 Score = 70.1 bits (170), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 43/147 (29%), Positives = 76/147 (51%), Gaps = 2/147 (1%)
Query: 5   IYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVL 64
           I+CC +G+AADT+A+ D+V   L+L+    G  S   TA ++ K+  +  +  + A +++
Sbjct: 60  IWCCRSGSAADTQAIADIVQYHLELYTSQYGTPS-TETAASVFKELCYENKDNLTAGIIV 118
Query: 65  GGVDCTGP-HLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAI 123
            G D      ++TI   GS   LP+A  GSGS       +  ++E ++K+E +  +  ++
Sbjct: 119 AGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSL 178
Query: 124 CSGIFNDLGSGSNVDVCVITKGHKEYL 150
              I  D  SG  + + V+T    E L
Sbjct: 179 SQAIKWDGSSGGVIRMVVLTAAGVERL 205

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

Iteration: 1
 Score = 70.1 bits (170), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 43/147 (29%), Positives = 76/147 (51%), Gaps = 2/147 (1%)
Query: 5   IYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVL 64
           I+CC +G+AADT+A+ D+V   L+L+    G  S   TA ++ K+  +  +  + A +++
Sbjct: 41  IWCCRSGSAADTQAIADIVQYHLELYTSQYGTPS-TETAASVFKELCYENKDNLTAGIIV 99
Query: 65  GGVDCTGP-HLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAI 123
            G D      ++TI   GS   LP+A  GSGS       +  ++E ++K+E +  +  ++
Sbjct: 100 AGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSL 159
Query: 124 CSGIFNDLGSGSNVDVCVITKGHKEYL 150
              I  D  SG  + + V+T    E L
Sbjct: 160 SQAIKWDGSSGGVIRMVVLTAAGVERL 186

>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 = 70.1 bits (170), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 43/147 (29%), Positives = 76/147 (51%), Gaps = 2/147 (1%)
Query: 5   IYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVL 64
           I+CC +G+AADT+A+ D+V   L+L+    G  S   TA ++ K+  +  +  + A +++
Sbjct: 41  IWCCRSGSAADTQAIADIVQYHLELYTSQYGTPS-TETAASVFKELCYENKDNLTAGIIV 99
Query: 65  GGVDCTGP-HLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAI 123
            G D      ++TI   GS   LP+A  GSGS       +  ++E ++K+E +  +  ++
Sbjct: 100 AGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSL 159
Query: 124 CSGIFNDLGSGSNVDVCVITKGHKEYL 150
              I  D  SG  + + V+T    E L
Sbjct: 160 SQAIKWDGSSGGVIRMVVLTAAGVERL 186

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

Iteration: 1
 Score = 70.1 bits (170), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 43/148 (29%), Positives = 76/148 (51%), Gaps = 2/148 (1%)
Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALV 63
            I+CC +G+AADT+A+ D+V   L+L+    G  S   TA ++ K+  +  +  + A ++
Sbjct: 49  KIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPS-TETAASVFKELCYENKDNLTAGII 107
Query: 64  LGGVDCTGP-HLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDA 122
           + G D      ++TI   GS   LP+A  GSGS       +  ++E ++K+E +  +  +
Sbjct: 108 VAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHS 167
Query: 123 ICSGIFNDLGSGSNVDVCVITKGHKEYL 150
           +   I  D  SG  + + V+T    E L
Sbjct: 168 LSQAIKWDGSSGGVIRMVVLTAAGVERL 195

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

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 42/148 (28%), Positives = 73/148 (49%), Gaps = 6/148 (4%)
Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR-VVTALTLLKKHLFNYQGYVQ 59
           +A  +    AG+  D + +  ++  +++ + Y   RE +  V A+  L  +L N   Y  
Sbjct: 37  IADRMAMTTAGSVGDAQFLARII--KIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFP 94
Query: 60  --AALVLGGVDCTGPHLHTIYP-HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGI 116
               L++GG+D  G  +++I P  G+ +       GSGSL A  + E ++   +  DE +
Sbjct: 95  YLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAV 154
Query: 117 QLVVDAICSGIFNDLGSGSNVDVCVITK 144
           +L V AI S +  D  SG  +DV  IT+
Sbjct: 155 ELAVRAIYSAMKRDSASGDGIDVVKITE 182

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

Iteration: 1
 Score = 61.2 bits (147), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 40/138 (28%), Positives = 73/138 (52%), Gaps = 3/138 (2%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQAALVLGGVD 68
           AG+  D +A+  ++ ++ +L++  TGR    +   TLL   L + + +     +++GG D
Sbjct: 47  AGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLACATLLSNILHSSRMFPFLTQIIIGGYD 106
Query: 69  C-TGPHLHTIYPHGS-TDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSG 126
              G  L ++ P G   +   F   GSGS  A  + E+ Y   ++ +EGI+L ++A+ S 
Sbjct: 107 LLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSA 166
Query: 127 IFNDLGSGSNVDVCVITK 144
           +  D  SG+ + + VITK
Sbjct: 167 MERDTFSGNGISLAVITK 184

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

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 40/148 (27%), Positives = 66/148 (44%), Gaps = 13/148 (8%)
Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ---- 59
           ++    +G  AD   + D    + Q++R   G E   ++   L KK     Q Y Q    
Sbjct: 77  HVAAATSGLVADARVLIDRARLEAQIYRLTYGEE---ISIEMLAKKICDIKQAYTQHGGV 133
Query: 60  ----AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEG 115
                +L++ G+D     L    P G+        +GSG    M + E +Y++ +T DEG
Sbjct: 134 RPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDITLDEG 193
Query: 116 IQLVVDAICSGIFNDLGSGSNVDVCVIT 143
           ++L + A+     N+     NVDVC+IT
Sbjct: 194 LELAITALTKA--NEDIKPENVDVCIIT 219

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 53/126 (42%), Gaps = 11/126 (8%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ--------AA 61
           +G  AD   + D      Q  +   G    +V    L+K+     Q Y Q         +
Sbjct: 73  SGLVADARVLVDFARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVS 129
Query: 62  LVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVD 121
           L+  G+D  GP L    P G+ +      +GSG  A ++  E +YKE L + E + L + 
Sbjct: 130 LIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIK 189
Query: 122 AICSGI 127
           A+ S +
Sbjct: 190 ALKSSL 195

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 53/126 (42%), Gaps = 11/126 (8%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ--------AA 61
           +G  AD   + D      Q  +   G    +V    L+K+     Q Y Q         +
Sbjct: 79  SGLVADARVLVDFARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVS 135
Query: 62  LVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVD 121
           L+  G+D  GP L    P G+ +      +GSG  A ++  E +YKE L + E + L + 
Sbjct: 136 LIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIK 195
Query: 122 AICSGI 127
           A+ S +
Sbjct: 196 ALKSSL 201

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 53/126 (42%), Gaps = 11/126 (8%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ--------AA 61
           +G  AD   + D      Q  +   G    +V    L+K+     Q Y Q         +
Sbjct: 79  SGLVADARVLVDFARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVS 135
Query: 62  LVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVD 121
           L+  G+D  GP L    P G+ +      +GSG  A ++  E +YKE L + E + L + 
Sbjct: 136 LIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIK 195
Query: 122 AICSGI 127
           A+ S +
Sbjct: 196 ALKSSL 201

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 53/126 (42%), Gaps = 11/126 (8%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ--------AA 61
           +G  AD   + D      Q  +   G    +V    L+K+     Q Y Q         +
Sbjct: 79  SGLVADARVLVDFARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVS 135
Query: 62  LVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVD 121
           L+  G+D  GP L    P G+ +      +GSG  A ++  E +YKE L + E + L + 
Sbjct: 136 LIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIK 195
Query: 122 AICSGI 127
           A+ S +
Sbjct: 196 ALKSSL 201

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 53/126 (42%), Gaps = 11/126 (8%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ--------AA 61
           +G  AD   + D      Q  +   G    +V    L+K+     Q Y Q         +
Sbjct: 83  SGLVADARVLVDFARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVS 139
Query: 62  LVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVD 121
           L+  G+D  GP L    P G+ +      +GSG  A ++  E +YKE L + E + L + 
Sbjct: 140 LIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIK 199
Query: 122 AICSGI 127
           A+ S +
Sbjct: 200 ALKSSL 205

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

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 53/126 (42%), Gaps = 11/126 (8%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ--------AA 61
           +G  AD   + D      Q  +   G    +V    L+K+     Q Y Q         +
Sbjct: 83  SGLVADARVLVDFARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVS 139
Query: 62  LVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVD 121
           L+  G+D  GP L    P G+ +      +GSG  A ++  E +YKE L + E + L + 
Sbjct: 140 LIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIK 199
Query: 122 AICSGI 127
           A+ S +
Sbjct: 200 ALKSSL 205

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 44/155 (28%), Positives = 72/155 (46%), Gaps = 5/155 (3%)
Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALV 63
            I+C  +G+AAD +A+ DM + QL+LH         V+ A  ++K   + Y+  + A L+
Sbjct: 40  RIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKYREDLLAHLI 99
Query: 64  LGGVDCT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDA 122
           + G D   G  ++     G     PF   GSGS       ++ YK G+T +E  +   +A
Sbjct: 100 VAGWDQREGGQVYGTM-GGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNA 158
Query: 123 ICSGIFNDLGSGSNVDVCVITKG---HKEYLRNHL 154
           I   +  D  SG  + +  IT     H+  L + L
Sbjct: 159 ITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDEL 193

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

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 39/149 (26%), Positives = 66/149 (44%), Gaps = 8/149 (5%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC 69
           AG AAD +     + SQ +LH         V  A  +L   ++ Y+G   A L +G + C
Sbjct: 121 AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG---AGLSMGTMIC 177
Query: 70  -----TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAIC 124
                 GP ++ +   G+        +GSG   A  + +S YK  L+ ++ + L   +I 
Sbjct: 178 GYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSIL 237
Query: 125 SGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
           +    D  SG +V++  +T+    Y  NH
Sbjct: 238 AAAHRDAYSGGSVNLYHVTEDGWIYHGNH 266

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 39/149 (26%), Positives = 66/149 (44%), Gaps = 8/149 (5%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC 69
           AG AAD +     + SQ +LH         V  A  +L   ++ Y+G   A L +G + C
Sbjct: 121 AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG---AGLSMGTMIC 177
Query: 70  -----TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAIC 124
                 GP ++ +   G+        +GSG   A  + +S YK  L+ ++ + L   +I 
Sbjct: 178 GYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSIL 237
Query: 125 SGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
           +    D  SG +V++  +T+    Y  NH
Sbjct: 238 AAAHRDAYSGGSVNLYHVTEDGWIYHGNH 266

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 39/149 (26%), Positives = 66/149 (44%), Gaps = 8/149 (5%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC 69
           AG AAD +     + SQ +LH         V  A  +L   ++ Y+G   A L +G + C
Sbjct: 46  AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG---AGLSMGTMIC 102
Query: 70  -----TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAIC 124
                 GP ++ +   G+        +GSG   A  + +S YK  L+ ++ + L   +I 
Sbjct: 103 GYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSIL 162
Query: 125 SGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
           +    D  SG +V++  +T+    Y  NH
Sbjct: 163 AAAHRDAYSGGSVNLYHVTEDGWIYHGNH 191

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

Iteration: 1
 Score = 47.8 bits (112), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 39/149 (26%), Positives = 66/149 (44%), Gaps = 8/149 (5%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC 69
           AG AAD +     + SQ +LH         V  A  +L   ++ Y+G   A L +G + C
Sbjct: 46  AGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG---AGLSMGTMIC 102
Query: 70  -----TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAIC 124
                 GP ++ +   G+        +GSG   A  + +S YK  L+ ++ + L   +I 
Sbjct: 103 GYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSIL 162
Query: 125 SGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
           +    D  SG +V++  +T+    Y  NH
Sbjct: 163 AAAHRDAYSGGSVNLYHVTEDGWIYHGNH 191

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/131 (25%), Positives = 61/131 (46%), Gaps = 1/131 (0%)
Query: 10  AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQAALVLGGVD 68
           +G AAD +    +++ + +L+    G    V  A  LL   +  Y+G  +    ++ G D
Sbjct: 46  SGCAADCQYWERLLAKECRLYYLRNGERISVSAASKLLSNMMLQYRGMGLSMGSMICGWD 105
Query: 69  CTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIF 128
             GP L+ +  +G+  +    + GSG+  A  + +S Y++ L+ +E   L   AI     
Sbjct: 106 KKGPGLYYVDDNGTRLSGQMFSTGSGNTYAYGVMDSGYRQDLSPEEAYDLGRRAIAYATH 165
Query: 129 NDLGSGSNVDV 139
            D  SG  V++
Sbjct: 166 RDNYSGGVVNM 176

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 36/139 (25%), Positives = 61/139 (43%), Gaps = 3/139 (2%)
Query: 4   NIYCCG--AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQA 60
           N Y  G  AG AAD      +++ Q +++         V  A  LL   ++ Y+G  +  
Sbjct: 38  NPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSM 97
Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ++ G D  GP L+ +   G+  +    ++GSGS+ A  + +  Y   L  +E   L  
Sbjct: 98  GTMICGWDKRGPGLYYVDSEGNRISGTAFSVGSGSVYAYGVMDRGYSYDLKVEEAYDLAR 157
Query: 121 DAICSGIFNDLGSGSNVDV 139
            AI    + D  SG  V++
Sbjct: 158 RAIYQATYRDAYSGGAVNL 176

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

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 35/139 (25%), Positives = 61/139 (43%), Gaps = 3/139 (2%)
Query: 4   NIYCCG--AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQA 60
           N Y  G  AG AAD      +++ Q +++         V  A  LL   ++ Y+G  +  
Sbjct: 38  NPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSM 97
Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
             ++ G D  GP L+ +   G+  +    ++GSGS+ A  + +  Y   L  ++   L  
Sbjct: 98  GTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLAR 157
Query: 121 DAICSGIFNDLGSGSNVDV 139
            AI    + D  SG  V++
Sbjct: 158 RAIYQATYRDAYSGGAVNL 176

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 37/154 (24%), Positives = 65/154 (42%), Gaps = 13/154 (8%)
Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA--- 60
           +I C  +G  AD + + D    + Q H + T  E+  V ++T    +L    G   A   
Sbjct: 73  HIGCAMSGLIADAKTLIDKARVETQNH-WFTYNETMTVESVTQAVSNLALQFGEEDADPG 131
Query: 61  --------ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTK 112
                   AL+ GGVD  GP L  + P G+        +GS S  A +  +  Y + +T 
Sbjct: 132 AMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTL 191
Query: 113 DEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH 146
            E I+  +  I   +  +  + +N+++  +  G 
Sbjct: 192 KEAIKSSL-IILKQVMEEKLNATNIELATVQPGQ 224

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 37/154 (24%), Positives = 65/154 (42%), Gaps = 13/154 (8%)
Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA--- 60
           +I C  +G  AD + + D    + Q H + T  E+  V ++T    +L    G   A   
Sbjct: 73  HIGCAMSGLIADAKTLIDKARVETQNH-WFTYNETMTVESVTQAVSNLALQFGEEDADPG 131
Query: 61  --------ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTK 112
                   AL+ GGVD  GP L  + P G+        +GS S  A +  +  Y + +T 
Sbjct: 132 AMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQEVYHKSMTL 191
Query: 113 DEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH 146
            E I+  +  I   +  +  + +N+++  +  G 
Sbjct: 192 KEAIKSSL-IILKQVMEEKLNATNIELATVQPGQ 224

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	198
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	2e-81
1iru_I	234	20S proteasome; cell cycle, immune response, prote	9e-79
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	4e-76
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	9e-76
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	1e-66
1iru_H	205	20S proteasome; cell cycle, immune response, prote	2e-66
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	1e-64
1iru_L	204	20S proteasome; cell cycle, immune response, prote	2e-64
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	1e-63
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	1e-63
1iru_K	201	20S proteasome; cell cycle, immune response, prote	2e-62
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	3e-62
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	3e-62
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	3e-61
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	4e-61
1iru_N	219	20S proteasome; cell cycle, immune response, prote	9e-60
1iru_M	213	20S proteasome; cell cycle, immune response, prote	1e-59
1iru_J	205	20S proteasome; cell cycle, immune response, prote	4e-59
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	4e-54
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	1e-52
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	3e-51
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	1e-50
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	7e-49
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	3e-47
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	2e-46
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	2e-27
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	7e-23
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	1e-13
1iru_B	233	20S proteasome; cell cycle, immune response, prote	2e-13
1iru_E	241	20S proteasome; cell cycle, immune response, prote	7e-13
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	2e-12
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	4e-12
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	1e-11
1iru_F	263	20S proteasome; cell cycle, immune response, prote	1e-11
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-11
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	2e-11
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	2e-11
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	2e-11
1iru_C	261	20S proteasome; cell cycle, immune response, prote	9e-11
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	2e-10
1iru_A	246	20S proteasome; cell cycle, immune response, prote	3e-10
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	3e-10
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	6e-10
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	2e-09
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	5e-09
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-08
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	4e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-06
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	8e-04

>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 =  241 bits (616), Expect = 2e-81
 Identities = 91/197 (46%), Positives = 122/197 (61%), Gaps = 3/197 (1%)

Query: 2   APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAA 61
           AP IYCCGAG AADTE  T M +S+++LH   TGRE RV T   +L++ LF YQG+V A+
Sbjct: 38  APKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRYQGHVGAS 97

Query: 62  LVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVD 121
           LV+GGVD  GP L+ ++PHGS   LPF  +GSG  AA+A+ E +++  +T +   +L+V+
Sbjct: 98  LVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVE 157

Query: 122 AICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKK-TEVLLTKI 180
           AI +GI +DLGSG NVD CVIT G  +  R    P       A  Y F    T VL  ++
Sbjct: 158 AITAGILSDLGSGGNVDACVITAGGAKLQRALSTPTEP-VQRAGRYRFAPGTTPVLTREV 216

Query: 181 TPLRERVEVVEGGDAME 197
            PL   + + E   AME
Sbjct: 217 RPLTLEL-LEETVQAME 232

>1iru_I 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_H* 3une_H Length = 234

 Score =  234 bits (598), Expect = 9e-79
 Identities = 111/198 (56%), Positives = 143/198 (72%), Gaps = 3/198 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF Y+GY+ A
Sbjct: 37  ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGA 96

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E   LV 
Sbjct: 97  ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVS 156

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKK-TEVLLTK 179
           +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y   K  T VL  K
Sbjct: 157 EAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKGTRLGR-YRCEKGTTAVLTEK 215

Query: 180 ITPLRERVEVVEGGDAME 197
           ITPL   V + E    M+
Sbjct: 216 ITPLEIEV-LEETVQTMD 232

>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 =  227 bits (580), Expect = 4e-76
 Identities = 102/187 (54%), Positives = 134/187 (71%), Gaps = 3/187 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK+HLF YQG++ A
Sbjct: 37  ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGA 96

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
            L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMA+ ES +K+ LTK+E I+L  
Sbjct: 97  YLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLAS 156

Query: 121 DAICSGIFNDLGSGSNVDVCVITK-GHKEYLRNHLLPNPRTFVNAKGYSFPKK-TEVLLT 178
           DAI +GI+NDLGSGSNVDVCV+      EYLRN+L PN R     K Y FP+  T VL  
Sbjct: 157 DAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVRE-EKQKSYKFPRGTTAVLKE 215

Query: 179 KITPLRE 185
            I  + +
Sbjct: 216 SIVNICD 222

>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 =  227 bits (580), Expect = 9e-76
 Identities = 103/190 (54%), Positives = 135/190 (71%), Gaps = 3/190 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK+HLF YQG++ A
Sbjct: 66  ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGA 125

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
            L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMA+ ES +K+ LTK+E I+L  
Sbjct: 126 YLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLAS 185

Query: 121 DAICSGIFNDLGSGSNVDVCVITK-GHKEYLRNHLLPNPRTFVNAKGYSFPKK-TEVLLT 178
           DAI +GI+NDLGSGSNVDVCV+      EYLRN+L PN R     K Y FP+  T VL  
Sbjct: 186 DAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVRE-EKQKSYKFPRGTTAVLKE 244

Query: 179 KITPLRERVE 188
            I  + +  E
Sbjct: 245 SIVNICDIQE 254

>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 =  202 bits (515), Expect = 1e-66
 Identities = 42/159 (26%), Positives = 68/159 (42%), Gaps = 2/159 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +   I+C  +G+AAD +A+ DM + QL+LH         V+ A  ++K   + Y+  + A
Sbjct: 37  LHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKYREDLLA 96

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
            L++ G D            G     PF   GSGS       ++ YK G+T +E  +   
Sbjct: 97  HLIVAGWDQREGGQVYGTMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTT 156

Query: 121 DAICSGIFNDLGSGSNVDVCVITKG--HKEYLRNHLLPN 157
           +AI   +  D  SG  + +  IT        +    LP 
Sbjct: 157 NAITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELPK 195

>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 =  201 bits (514), Expect = 2e-66
 Identities = 46/163 (28%), Positives = 79/163 (48%), Gaps = 3/163 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +   I+CC +G+AADT+AV D V+ QL  H         V TA +L K+  + Y+  + A
Sbjct: 37  IHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMA 96

Query: 61  ALVLGGVDCT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
            +++ G D   G  ++++   G      FA  GSGS       ++ Y+EG+TK+E +Q  
Sbjct: 97  GIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFT 156

Query: 120 VDAICSGIFNDLGSGSNVDVCVITKG--HKEYLRNHLLPNPRT 160
            +A+   +  D  SG  + +  I +    ++ L    +P    
Sbjct: 157 ANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFAV 199

>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 =  197 bits (503), Expect = 1e-64
 Identities = 37/155 (23%), Positives = 66/155 (42%), Gaps = 2/155 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG--YV 58
           + P +    AG AAD +     + SQ +LH         V  A  +L   ++ Y+G    
Sbjct: 37  INPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLS 96

Query: 59  QAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQL 118
              ++ G     GP ++ +   G+        +GSG   A  + +S YK  L+ ++ + L
Sbjct: 97  MGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL 156

Query: 119 VVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
              +I +    D  SG +V++  +T+    Y  NH
Sbjct: 157 GKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNH 191

>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 =  196 bits (501), Expect = 2e-64
 Identities = 33/158 (20%), Positives = 67/158 (42%), Gaps = 1/158 (0%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQ 59
           + P +    AG AAD      +++ Q +++         V  A  LL   ++ Y+G  + 
Sbjct: 37  INPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLS 96

Query: 60  AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
              ++ G D  GP L+ +   G+  +    ++GSGS+ A  + +  Y   L  ++   L 
Sbjct: 97  MGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLA 156

Query: 120 VDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPN 157
             AI    + D  SG  V++  + +     + +  + +
Sbjct: 157 RRAIYQATYRDAYSGGAVNLYHVREDGWIRVSSDNVAD 194

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

 Score =  194 bits (496), Expect = 1e-63
 Identities = 40/155 (25%), Positives = 70/155 (45%), Gaps = 2/155 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQ 59
           +A  +    AG+  D + +  ++  +  L+     R+  V    TL    L +Y+ +   
Sbjct: 37  IADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYL 96

Query: 60  AALVLGGVDCTGPHLHTIYP-HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQL 118
             L++GG+D  G  +++I P  G+ +       GSGSL A  + E ++   +  DE ++L
Sbjct: 97  VQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL 156

Query: 119 VVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
            V AI S +  D  SG  +DV  IT+         
Sbjct: 157 AVRAIYSAMKRDSASGDGIDVVKITEDEFYQYSPE 191

>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 =  197 bits (503), Expect = 1e-63
 Identities = 37/155 (23%), Positives = 66/155 (42%), Gaps = 2/155 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG--YV 58
           + P +    AG AAD +     + SQ +LH         V  A  +L   ++ Y+G    
Sbjct: 112 INPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLS 171

Query: 59  QAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQL 118
              ++ G     GP ++ +   G+        +GSG   A  + +S YK  L+ ++ + L
Sbjct: 172 MGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL 231

Query: 119 VVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
              +I +    D  SG +V++  +T+    Y  NH
Sbjct: 232 GKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNH 266

>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 =  191 bits (487), Expect = 2e-62
 Identities = 32/161 (19%), Positives = 62/161 (38%), Gaps = 4/161 (2%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHL---FNYQGY 57
           M+  I     G A DT    + +   +QL++   G E     A    +++L      +  
Sbjct: 38  MSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTP 97

Query: 58  VQAALVLGGVD-CTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGI 116
               L+L G D   GP L+ +    +    PFA  G G+   +++ +  Y   ++++  +
Sbjct: 98  YHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAV 157

Query: 117 QLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPN 157
           +L+   +       + +     V +I K     L N   P 
Sbjct: 158 ELLRKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNISFPK 198

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

 Score =  191 bits (488), Expect = 3e-62
 Identities = 12/177 (6%), Positives = 23/177 (12%), Gaps = 6/177 (3%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQ 59
               I                              +    V A T              +
Sbjct: 38  GTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRAR 97

Query: 60  AALVLGGVD-CTGPHLHTIYPHGS-TDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQ 117
               +  +       +  +               G        +     K      E   
Sbjct: 98  LEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDP 157

Query: 118 LVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKTE 174
                         G    +++          L   L             +   K E
Sbjct: 158 SGALIEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELA---ITALTKANEDIKPE 211

>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 =  190 bits (486), Expect = 3e-62
 Identities = 43/154 (27%), Positives = 78/154 (50%), Gaps = 2/154 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +   I+CC +G+AADT+A+ D+V   L+L+    G  S   TA ++ K+  +  +  + A
Sbjct: 46  VHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPS-TETAASVFKELCYENKDNLTA 104

Query: 61  ALVLGGVDCT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
            +++ G D      ++TI   GS   LP+A  GSGS       +  ++E ++K+E +  +
Sbjct: 105 GIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFI 164

Query: 120 VDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
             ++   I  D  SG  + + V+T    E L  +
Sbjct: 165 KHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFY 198

>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 =  188 bits (481), Expect = 3e-61
 Identities = 44/145 (30%), Positives = 70/145 (48%), Gaps = 2/145 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQ 59
           +        AG   D + +   + ++L+L+R        +    TLL   L   +     
Sbjct: 45  IDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYM 104

Query: 60  AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
             L++GG+D T PH+ +I   G +    +A+ GSGS     + ES+Y E +T DEG+ LV
Sbjct: 105 VQLLVGGID-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLV 163

Query: 120 VDAICSGIFNDLGSGSNVDVCVITK 144
           + AI +    D  SG  +DV VIT+
Sbjct: 164 IRAISAAKQRDSASGGMIDVAVITR 188

>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 =  188 bits (479), Expect = 4e-61
 Identities = 29/157 (18%), Positives = 60/157 (38%), Gaps = 5/157 (3%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY--- 57
           ++P+     AG A DT    + + + +QL+      E       + +++ L         
Sbjct: 38  LSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRP 97

Query: 58  VQAALVLGGVDC--TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEG 115
            Q  +++GG D     P L+ I   G+   LP+   G       ++ +  Y+  +T +EG
Sbjct: 98  YQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEG 157

Query: 116 IQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRN 152
           + L+   +             V V ++ K     + +
Sbjct: 158 LDLLKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDD 194

>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 =  185 bits (471), Expect = 9e-60
 Identities = 23/174 (13%), Positives = 54/174 (31%), Gaps = 7/174 (4%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYH-TGRESRVVTALTLLKKHLFNYQGY-- 57
           +  +     +G  AD + +  ++   +        G         + L + +++ +    
Sbjct: 45  VNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMN 104

Query: 58  -VQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG--LTKDE 114
            +   +V+GG       L  +   G     P    G G+  A  +     ++   L++ E
Sbjct: 105 PLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTE 164

Query: 115 GIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNA-KGY 167
              LV   +    + D  S +      +T+   E              +   G+
Sbjct: 165 ARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTETNWDIAHMISGF 218

>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 =  184 bits (470), Expect = 1e-59
 Identities = 28/155 (18%), Positives = 64/155 (41%), Gaps = 11/155 (7%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV-Q 59
           +        +G   D   +T ++ ++L+++++   +         +L   L++ + +   
Sbjct: 46  LTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYY 105

Query: 60  AALVLGGVDCTG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFES---------KYKEG 109
              ++GG+D  G   +++  P GS     F   GS S     + ++              
Sbjct: 106 VYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVP 165

Query: 110 LTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK 144
           L+ D  ++LV D   S    D+ +G  + +C++TK
Sbjct: 166 LSLDRAMRLVKDVFISAAERDVYTGDALRICIVTK 200

>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 =  183 bits (466), Expect = 4e-59
 Identities = 34/148 (22%), Positives = 62/148 (41%), Gaps = 4/148 (2%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ 59
           M   +Y   AG A D + V   +  +L L+    GR+ +  T ++++   L+    G   
Sbjct: 45  MGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYY 104

Query: 60  AALVLGGVDCT--GPHLHTIYPHG-STDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGI 116
              V+ G+D     P + ++   G    T  F   G+ +     M ES ++  +  D   
Sbjct: 105 TEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLF 164

Query: 117 QLVVDAICSGIFNDLGSGSNVDVCVITK 144
           + +  A+ + +  D  SG  V V +I K
Sbjct: 165 ETISQAMLNAVDRDAVSGMGVIVHIIEK 192

>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 =  170 bits (434), Expect = 4e-54
 Identities = 28/164 (17%), Positives = 67/164 (40%), Gaps = 20/164 (12%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-HTGRESRVVTALTLLKKHLFNYQGY-V 58
              NI     G AAD +A+     + ++ + + H  ++  + +A   ++  L+  + +  
Sbjct: 46  CGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPY 105

Query: 59  QAALVLGGVDCTG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYK---------- 107
               ++ G+D  G   +++  P GS +       G+ +   M   +++            
Sbjct: 106 YVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTN 165

Query: 108 -------EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK 144
                  + L+ +E I+LV D+  S     +  G  +++ ++TK
Sbjct: 166 GKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTK 209

>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 =  167 bits (425), Expect = 1e-52
 Identities = 26/174 (14%), Positives = 57/174 (32%), Gaps = 15/174 (8%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYH-----TGRESRVVTALTLLKKHLFNYQ 55
           +  N     +G  +D + +  ++   +  + Y                   L   ++  +
Sbjct: 45  VGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRR 104

Query: 56  GYVQ---AALVLGGVDCTGPH-LHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE--- 108
             +     A+++ GV   G   L  +   G T + P    G G+  A  +          
Sbjct: 105 SKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESD 164

Query: 109 --GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK-GHKEYLRNHLLPNPR 159
               T     + +V+A+    + D  S  N  + +I K     + +N  + N +
Sbjct: 165 IPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMK 218

>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 =  164 bits (418), Expect = 3e-51
 Identities = 26/174 (14%), Positives = 57/174 (32%), Gaps = 15/174 (8%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYH-----TGRESRVVTALTLLKKHLFNYQ 55
           +  N     +G  +D + +  ++   +  + Y                   L   ++  +
Sbjct: 78  VGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRR 137

Query: 56  GYVQ---AALVLGGVDCTGPH-LHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYK---- 107
             +     A+++ GV   G   L  +   G T + P    G G+  A  +          
Sbjct: 138 SKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESD 197

Query: 108 -EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK-GHKEYLRNHLLPNPR 159
               T     + +V+A+    + D  S  N  + +I K     + +N  + N +
Sbjct: 198 IPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMK 251

>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 =  162 bits (412), Expect = 1e-50
 Identities = 23/171 (13%), Positives = 51/171 (29%), Gaps = 19/171 (11%)

Query: 2   APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ-- 59
                   AGTA     +  + + +L+ +    G           L   +    G     
Sbjct: 38  DEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQG 97

Query: 60  --AALVLGGVDC------TGPHLHTIYPHGS--TDTLPFATMGSGSLAAMAMFESKYKEG 109
                +L G D           + +    G    +   +  +GSGSL A +  +  Y   
Sbjct: 98  LAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPD 157

Query: 110 LTKDEGIQLVVDAICSGIFNDLGSG-------SNVDVCVITKGHKEYLRNH 153
             ++  ++  ++++     +D  +G              IT+    ++   
Sbjct: 158 SDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEE 208

>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 =  156 bits (398), Expect = 7e-49
 Identities = 29/146 (19%), Positives = 53/146 (36%), Gaps = 4/146 (2%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQAA 61
            +++    G A D   + +M   +  L++    R     T   L+   L+  +       
Sbjct: 46  GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVG 105

Query: 62  LVLGGVDCTG--PHLHTIYPHGSTDTLP-FATMGSGSLAAMAMFESKYKEGLTKDEGIQL 118
            V+ G++     P +      G  D    F   G+ S     M ES Y+  L  ++  + 
Sbjct: 106 PVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFET 165

Query: 119 VVDAICSGIFNDLGSGSNVDVCVITK 144
           +  A+ +    D  SG    V +I K
Sbjct: 166 ISQALLNAADRDALSGWGAVVYIIKK 191

>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 =  155 bits (394), Expect = 3e-47
 Identities = 23/171 (13%), Positives = 51/171 (29%), Gaps = 19/171 (11%)

Query: 2   APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ-- 59
                   AGTA     +  + + +L+ +    G           L   +    G     
Sbjct: 103 DEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQG 162

Query: 60  --AALVLGGVDC------TGPHLHTIYPHGS--TDTLPFATMGSGSLAAMAMFESKYKEG 109
                +L G D           + +    G    +   +  +GSGSL A +  +  Y   
Sbjct: 163 LAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPD 222

Query: 110 LTKDEGIQLVVDAICSGIFNDLGSG-------SNVDVCVITKGHKEYLRNH 153
             ++  ++  ++++     +D  +G              IT+    ++   
Sbjct: 223 SDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEE 273

>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 =  153 bits (388), Expect = 2e-46
 Identities = 28/163 (17%), Positives = 55/163 (33%), Gaps = 19/163 (11%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLL----KKHLFNYQG 56
                    AGTAA       + + +L+ +    G        +  L    + +L     
Sbjct: 94  TDDYTATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQ 153

Query: 57  YVQAALVLGGVDC------TGPHLHTIYPHGST--DTLPFATMGSGSLAAMAMFESKYKE 108
            + A  +L G D       +   + +    G    +   +  +GSGSL A +  +  Y +
Sbjct: 154 GLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQ 213

Query: 109 GLTKDEGIQLVVDAICSGIFNDLGSGSNV-------DVCVITK 144
               D G+++ V+A+     +D  +G             +I  
Sbjct: 214 VTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIIDA 256

>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 =  103 bits (257), Expect = 2e-27
 Identities = 24/160 (15%), Positives = 48/160 (30%), Gaps = 14/160 (8%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALT---------LLKKHLFN 53
             +     G   + E +         +  Y   R      +L          +  +    
Sbjct: 58  DRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKP 117

Query: 54  YQGYVQAALVLGGVDCTGPHLHTIYPHGS-TDTLPFATMGSGSLAAMAMFESKYKEGLTK 112
           Y+  +  A V        P L+ I   GS  D   F  MG  +          Y+  L  
Sbjct: 118 YEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDL 177

Query: 113 DEGIQLVVDAICSGIFNDLGSG----SNVDVCVITKGHKE 148
           +  + + V+A+  G   +        ++++V V+ +    
Sbjct: 178 EAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPR 217

>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 = 91.2 bits (226), Expect = 7e-23
 Identities = 25/159 (15%), Positives = 51/159 (32%), Gaps = 16/159 (10%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES----RVVTALTLLKKHLFNYQGY- 57
             +    AG   + + +            Y   R      ++          +F  Q   
Sbjct: 58  DRVGFAAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKP 117

Query: 58  VQAALVLGGV----DCTGPHLHTIYPHGS-TDTLPFATMGSGSLAAMAMFESKYKEGLTK 112
            +  L +  V    +   P L+ I   GS  D   F  MG  +       +  Y E  + 
Sbjct: 118 YEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASL 177

Query: 113 DEGIQLVVDAICSGIFNDLGSG------SNVDVCVITKG 145
            + +++ V A+ +G  +  G        ++++V V+   
Sbjct: 178 TDALRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDAN 216

>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 = 66.1 bits (162), Expect = 1e-13
 Identities = 38/155 (24%), Positives = 62/155 (40%), Gaps = 16/155 (10%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
             +    +G  AD   + D      Q  +   G    +      L K + +  Q Y Q  
Sbjct: 72  DYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNI----ENLVKRVADQMQQYTQYG 127

Query: 60  ------AALVLGGVDCTGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAMFESKYKEGLTK 112
                  +L+  G+D  GP L    P G+ +    AT +GSG  A ++  E +YKE L +
Sbjct: 128 GVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEY-KATAIGSGKDAVVSFLEREYKENLPE 186

Query: 113 DEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
            E + L + A+ S +          ++  IT G+K
Sbjct: 187 KEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNK 220

>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 = 65.3 bits (160), Expect = 2e-13
 Identities = 23/152 (15%), Positives = 47/152 (30%), Gaps = 14/152 (9%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            +I    +G   D   +        Q +                L + + +  Q Y Q  
Sbjct: 69  KHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPT----AQLVQRVASVMQEYTQSG 124

Query: 60  ------AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKD 113
                  +L++ G +   P+L    P G+        MG   +      E +Y E L  +
Sbjct: 125 GVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELE 184

Query: 114 EGIQLVVDAICSGIFNDLGSGSNVDVCVITKG 145
           + I   +  +       +    N++V +  + 
Sbjct: 185 DAIHTAILTLKESFEGQMTE-DNIEVGICNEA 215

>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 = 64.1 bits (157), Expect = 7e-13
 Identities = 34/162 (20%), Positives = 62/162 (38%), Gaps = 25/162 (15%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE---SRVVTALTLLKKHLFNYQGYVQ 59
            +I C  +G  AD + + D    + Q H +          V  A++ L         + +
Sbjct: 72  AHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA------LQFGE 125

Query: 60  -------------AALVLGGVDCTGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAMFESK 105
                         AL+ GGVD  GP L  + P G+      A  +GS S  A +  +  
Sbjct: 126 EDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQC-DARAIGSASEGAQSSLQEL 184

Query: 106 YKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
           Y + +T  E I+  +  +   +   L + +N+++  +  G  
Sbjct: 185 YHKSMTLKEAIKSSLIILKQVMEEKLNA-TNIELATVQPGQN 225

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

 Score = 62.7 bits (153), Expect = 2e-12
 Identities = 34/156 (21%), Positives = 66/156 (42%), Gaps = 15/156 (9%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            +I    +G  AD   + D    + Q++R        V      L K + ++ Q Y Q  
Sbjct: 72  EHICAATSGLVADARVLIDRARIEAQINRLTYDIPITV----KELAKKICDFKQQYTQYG 127

Query: 60  ------AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKD 113
                  +L++ GV+   P L+   P G+        +G G +A    FE +Y++ L+ D
Sbjct: 128 GVRPFGVSLLIAGVN-EVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFD 186

Query: 114 EGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY 149
           + + L + A+   I ++L    N++V  +    + +
Sbjct: 187 DAMVLGLVAMGLSIESEL-VPENIEVGYVKVDDRTF 221

>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 = 60.8 bits (148), Expect = 1e-11
 Identities = 33/157 (21%), Positives = 60/157 (38%), Gaps = 16/157 (10%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
             I    AG  AD E + +      Q +      +  V     +L + L +  QGY Q  
Sbjct: 70  DKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPV----EILVRRLSDIKQGYTQHG 125

Query: 60  ------AALVLGGVDC-TGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAMFESKYKEGLT 111
                  + +  G D   G  L+T  P G+      A  +G+ + AA  + +  YK+ + 
Sbjct: 126 GLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGW-KAISVGANTSAAQTLLQMDYKDDMK 184

Query: 112 KDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKE 148
            D+ I+L +  +     +   +   ++   I KG  +
Sbjct: 185 VDDAIELALKTLSKTTDSSALTYDRLEFATIRKGAND 221

>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 = 60.8 bits (148), Expect = 1e-11
 Identities = 29/159 (18%), Positives = 58/159 (36%), Gaps = 20/159 (12%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE---SRVVTALTLLKKHLFNYQGYVQ 59
            +I    AG  AD   + + +  +    R+   R    SR+V+ +          Q   Q
Sbjct: 68  NHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKT------QIPTQ 121

Query: 60  --------AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG-- 109
                     L++ G D  GPH+    P  +       ++G+ S +A    E    E   
Sbjct: 122 RYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFME 181

Query: 110 LTKDEGIQLVVDAICSGIFNDLG-SGSNVDVCVITKGHK 147
              +E ++  + A+   +  +   +  NV + ++ K  +
Sbjct: 182 CNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLE 220

>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 = 60.4 bits (147), Expect = 1e-11
 Identities = 24/155 (15%), Positives = 48/155 (30%), Gaps = 14/155 (9%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            ++    AG  AD  ++ D+   +    R + G    +      L   +  Y   Y    
Sbjct: 71  RHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPL----KHLADRVAMYVHAYTLYS 126

Query: 60  ------AALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTK 112
                  + +LG      G  L+ I P G +       +G    AA    E    + +T 
Sbjct: 127 AVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTC 186

Query: 113 DEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
            + ++ V   I             +++  + +   
Sbjct: 187 RDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTN 221

>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 = 60.3 bits (147), Expect = 2e-11
 Identities = 29/165 (17%), Positives = 59/165 (35%), Gaps = 16/165 (9%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQL-HRYHTGRESRVVTALTLLKKHLFNY-QGYVQ- 59
           P+I    +G   D   + D         ++   G          LL   +    Q   Q 
Sbjct: 69  PDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPT----KLLVSEVAKIMQEATQS 124

Query: 60  -------AALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLT 111
                   +L++ G D   G  L+ + P GS        +G GS+AA    E ++ + L 
Sbjct: 125 GGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELE 184

Query: 112 KDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLP 156
            ++ I + +  +   +  +      +++ +I   + + L    +P
Sbjct: 185 LEDAIHIALLTLKESVEGEFNG-DTIELAIIGDENPDLLGYTGIP 228

>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 = 60.0 bits (146), Expect = 2e-11
 Identities = 31/163 (19%), Positives = 56/163 (34%), Gaps = 25/163 (15%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE---SRVVTALTLLKKHLFNYQGYVQ 59
            +I C  +G  AD  ++ +   +    H  +   +     +  ++  L         + +
Sbjct: 64  RHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA------LRFGE 117

Query: 60  --------------AALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFES 104
                          AL++ G D   G  L    P G+        +GSGS  A A   +
Sbjct: 118 GASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLN 177

Query: 105 KYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
           ++   LT  E   LV+  +   +   L   +N  +  ITK   
Sbjct: 178 EWHSSLTLKEAELLVLKILKQVMEEKLDE-NNAQLSCITKQDG 219

>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 = 59.6 bits (145), Expect = 2e-11
 Identities = 32/159 (20%), Positives = 57/159 (35%), Gaps = 19/159 (11%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            ++    AG A D   +++ +  Q         R+  V          L +  Q   Q  
Sbjct: 67  EHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAV----ERAGHLLCDKAQKNTQSY 122

Query: 60  ------AALVLGGVDCTGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAMFESKYKEG--- 109
                   L++ G D +G HL    P G+   L + T +G+ S  A    E         
Sbjct: 123 GGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTEL-YGTAIGARSQGAKTYLERTLDTFIKI 181

Query: 110 -LTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
               DE I+  V+AI   + ++  +  N+ + ++ K   
Sbjct: 182 DGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTP 220

>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 = 58.5 bits (142), Expect = 9e-11
 Identities = 32/157 (20%), Positives = 60/157 (38%), Gaps = 15/157 (9%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            ++ C  AG  +D   +T+ +    Q +                L   L +  Q Y Q  
Sbjct: 70  EDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPC----EQLVTALCDIKQAYTQFG 125

Query: 60  ------AALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG-LT 111
                  +L+  G D   G  L+   P G+        +G+ S AA++M +  YKEG +T
Sbjct: 126 GKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMT 185

Query: 112 KDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKE 148
               + L +  +   +     S   V++  +T+ + +
Sbjct: 186 LKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGK 222

>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 = 57.2 bits (139), Expect = 2e-10
 Identities = 28/161 (17%), Positives = 51/161 (31%), Gaps = 24/161 (14%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
             I     G   D         ++    RY  G +        +L K + N  Q Y Q  
Sbjct: 68  RTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPC----DVLAKRMANLSQIYTQRA 123

Query: 60  ------AALVLGGVDC-TGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAMFESKYKEG-- 109
                   L    VD   GP ++   P G       AT  G          E+ +K+   
Sbjct: 124 YMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGY-KATATGPKQQEITTNLENHFKKSKI 182

Query: 110 -----LTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG 145
                 + ++ ++  +  +   +  +    ++++V V TK 
Sbjct: 183 DHINEESWEKVVEFAITHMIDALGTEFSK-NDLEVGVATKD 222

>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 = 56.8 bits (138), Expect = 3e-10
 Identities = 32/159 (20%), Positives = 61/159 (38%), Gaps = 17/159 (10%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            NI C   G  AD+ +       +    +Y  G E  V     +L K + +  Q Y Q  
Sbjct: 74  ENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPV----DMLCKRIADISQVYTQNA 129

Query: 60  ------AALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG--L 110
                   ++L G+D   GP ++   P G          G     + +  E K K+    
Sbjct: 130 EMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDW 189

Query: 111 TKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY 149
           T ++ ++  +  + + +  D    S ++V V+T  + ++
Sbjct: 190 TFEQTVETAITCLSTVLSIDF-KPSEIEVGVVTVENPKF 227

>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 = 56.9 bits (138), Expect = 3e-10
 Identities = 28/157 (17%), Positives = 51/157 (32%), Gaps = 16/157 (10%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            +I C  +G   D   + +    +    +        +          L  Y Q +    
Sbjct: 68  RHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPI----PAFADRLGQYVQAHTLYN 123

Query: 60  ------AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFE---SKYKEGL 110
                  + + GGVD  G HL+ + P GS      A  G G  +A A  E     + EGL
Sbjct: 124 SVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGL 183

Query: 111 TKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
           +  E ++     I     ++      +++   +    
Sbjct: 184 SAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSET 220

>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 = 55.8 bits (135), Expect = 6e-10
 Identities = 29/159 (18%), Positives = 56/159 (35%), Gaps = 21/159 (13%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            ++    +G  AD+  + +    + Q HR        V      L +++    Q Y Q  
Sbjct: 67  SHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTV----EYLTRYVAGVQQRYTQSG 122

Query: 60  ------AALVLGGVDC--TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE--- 108
                  + ++ G D     P L+   P G   +    T+G  S       E  Y     
Sbjct: 123 GVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEP 182

Query: 109 GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
             T +E ++L V ++   +    G+  N+++ V+     
Sbjct: 183 PATVEECVKLTVRSLLEVV--QTGA-KNIEITVVKPDSD 218

>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 = 54.7 bits (132), Expect = 2e-09
 Identities = 28/157 (17%), Positives = 51/157 (32%), Gaps = 16/157 (10%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQ-- 59
            +I C  +G   D   + +    +    +        +          L  Y Q +    
Sbjct: 72  RHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPI----PAFADRLGQYVQAHTLYN 127

Query: 60  ------AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFE---SKYKEGL 110
                  + + GGVD  G HL+ + P GS      A  G G  +A A  E     + EGL
Sbjct: 128 SVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGL 187

Query: 111 TKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
           +  E ++     I     ++      +++   +    
Sbjct: 188 SAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSET 224

>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 = 52.3 bits (125), Expect = 5e-09
 Identities = 19/126 (15%), Positives = 43/126 (34%), Gaps = 9/126 (7%)

Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALV 63
            +    AG  AD   + ++   +L++H+ H  + +  +       + L   +  +  A  
Sbjct: 41  KVLAGFAGGTADAFTLFELFERKLEMHQGHLLKSAVELAKDWRTDRALRKLEAMLIVADE 100

Query: 64  LGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDA- 122
              +  TG                   +GSG   A++   +  +   T+    ++V  + 
Sbjct: 101 KESLIITGIGDVVQPEED-----QILAIGSGGNYALSAARALVEN--TELSAHEIVEKSL 153

Query: 123 -ICSGI 127
            I   I
Sbjct: 154 RIAGDI 159

>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 = 52.2 bits (126), Expect = 1e-08
 Identities = 34/159 (21%), Positives = 58/159 (36%), Gaps = 23/159 (14%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE---SRVVTALTLLKKHLFNYQGYVQ 59
            N+    AG  AD   V +    + Q HR           +   +  LK      Q Y Q
Sbjct: 67  DNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLK------QRYTQ 120

Query: 60  --------AALVLGGVDCTG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE-- 108
                    + ++ G D  G P L+   P G+        +G G+ +     E  Y +  
Sbjct: 121 SNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEA 180

Query: 109 GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
             T D  I+LV+ A+   + +    G N+++ V+ +   
Sbjct: 181 IETDDLTIKLVIKALLEVVQSG---GKNIELAVMRRDQS 216

>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 = 50.0 bits (119), Expect = 4e-08
 Identities = 19/138 (13%), Positives = 43/138 (31%), Gaps = 10/138 (7%)

Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALV 63
            +    AG+ AD   + +   ++L+ +  +  R +  +       K L   +  +     
Sbjct: 47  KVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAMLIVMNQ 106

Query: 64  LGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDA- 122
              +  +G     I P           +GSG   A+A   +  K         ++   A 
Sbjct: 107 DTLLLVSG-TGEVIEPDD-----GILAIGSGGNYALAAGRALKKHAGESMSASEIARAAL 160

Query: 123 -ICSGIFNDLGSGSNVDV 139
                I   + +   + +
Sbjct: 161 ETAGEI--CVYTNDQIIL 176

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.8 bits (105), Expect = 7e-06
 Identities = 42/214 (19%), Positives = 64/214 (29%), Gaps = 47/214 (21%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSS-QLQLHRYHTGRESRVVT------ALTLLKKHLFN 53
           M   I+          E V +M+     Q+    T R            ++    + L  
Sbjct: 180 MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239

Query: 54  YQGYVQAALVLGGV-----------DCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMF 102
            + Y    LVL  V            C    L T      TD L  AT    SL      
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCK--ILLTTRFKQVTDFLSAATTTHISL------ 291

Query: 103 ESKYKEGLTKDEGIQLVVDAICSGI-FNDL----GSGSNVDVCVITKGHKEYLRNHLLPN 157
              +   LT DE   L+           DL     + +   + +I     E +R+     
Sbjct: 292 -DHHSMTLTPDEVKSLL--LKYLDCRPQDLPREVLTTNPRRLSII----AESIRDG---- 340

Query: 158 PRTFVNAKGYSFPKKTEVL---LTKITP--LRER 186
             T+ N K  +  K T ++   L  + P   R+ 
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374

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

 Score = 37.7 bits (87), Expect = 8e-04
 Identities = 18/108 (16%), Positives = 36/108 (33%), Gaps = 7/108 (6%)

Query: 1   MAPNIYCCG-AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ 59
           +       G AG+ AD   + D   ++L+    +  +      A   L K     +   +
Sbjct: 37  LGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGNLTK------AAVELAKDWRTDRVLRR 90

Query: 60  AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYK 107
              +L   D     + +            A +GSG   A+A  ++  +
Sbjct: 91  LEALLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLR 138

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	198
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1ryp_I	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_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	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_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	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
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.95
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.95
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.94

>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=4.8e-50  Score=328.38  Aligned_cols=195  Identities=47%  Similarity=0.783  Sum_probs=178.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.+++++++++++|++||++++||||+|++||+||++||+
T Consensus        37 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~p~~v~llvaG~D~~gp~Ly~idp~  116 (234)
T 3unf_H           37 IAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVTRILRQTLFRYQGHVGASLVVGGVDLNGPQLYEVHPH  116 (234)
T ss_dssp             EETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEETTEEEEEEECTT
T ss_pred             ecCCEEEEecccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHhcCCCccEEEEEEEEeCCCCEEEEECCC
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccCCCccc
Q 029142           81 GSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRT  160 (198)
Q Consensus        81 Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~~~~~~  160 (198)
                      |++.+++|+|+|+|+..++++||+.|+++||++||++++++||..++.||..++++++|++|+++|+++++|++++++|.
T Consensus       117 G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~~~~~D~~sg~~iev~vi~~dg~~~l~~~~i~~~~~  196 (234)
T 3unf_H          117 GSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGNVDACVITAGGAKLQRALSTPTEPV  196 (234)
T ss_dssp             SCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEESSCEEEEEEEECCCCCC
T ss_pred             CCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEECCCEEEeCceecccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCCCCCc-cceeeeeEeEecc-ceeeeeecCCCCCC
Q 029142          161 FVNAKGYSFPK-KTEVLLTKITPLR-ERVEVVEGGDAMEE  198 (198)
Q Consensus       161 ~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~  198 (198)
                       .|...|+||+ ||+||+++|+|+. |.+++++  |+||+
T Consensus       197 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~  233 (234)
T 3unf_H          197 -QRAGRYRFAPGTTPVLTREVRPLTLELLEETV--QAMEV  233 (234)
T ss_dssp             -CCCCCCCCCTTCSCEEEEEEEEC----------------
T ss_pred             -cccccccCCCCCcceeeEEEEEeeEEEEEeee--eeccC
Confidence             6999999999 9999999999997 6666666  89986

>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=9.9e-48  Score=314.64  Aligned_cols=195  Identities=57%  Similarity=0.945  Sum_probs=178.7

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++++++||++++||||+|.+||+||.+||+
T Consensus        37 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~~~~v~llvaG~D~~gp~Ly~idp~  116 (234)
T 1iru_I           37 ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVDVTGPHLYSIYPH  116 (234)
T ss_dssp             EETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEECSSCEEEEEECTT
T ss_pred             ecCCEEEEecCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhcCCCCceeEEEEEEcCCCCEEEEECCC
Confidence            57899999999999999999999999999999999999999999999999999999999999999999989999999999


Q ss_pred             CceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccCCCccc
Q 029142           81 GSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRT  160 (198)
Q Consensus        81 Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~~~~~~  160 (198)
                      |++.+++++|+|+|+..++++||+.|+++||.+||++++++||..++.+|..++++++|++|+++|++.++|+..+++|.
T Consensus       117 G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~a~~~d~~sg~~i~v~vi~k~g~~~~~~~~~~~~~~  196 (234)
T 1iru_I          117 GSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKG  196 (234)
T ss_dssp             SCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEEETTEEECCSEEECCCCCC
T ss_pred             CCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCcEEEEcceecCcccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCCCCCCCc-cceeeeeEeEecc-ceeeeeecCCCCCC
Q 029142          161 FVNAKGYSFPK-KTEVLLTKITPLR-ERVEVVEGGDAMEE  198 (198)
Q Consensus       161 ~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~~  198 (198)
                       .|..+|+||+ ||++|+++|.++. +.++...  ++||+
T Consensus       197 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~  233 (234)
T 1iru_I          197 -TRLGRYRCEKGTTAVLTEKITPLEIEVLEETV--QTMDT  233 (234)
T ss_dssp             -CCCSCCCCCTTCSCBSCCCCCBCC---------------
T ss_pred             -ccccCcccCCCceeeeEEEEEecchhheeccc--ccccC
Confidence             5899999999 9999999999997 4444333  67885

>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=8.1e-47  Score=313.65  Aligned_cols=187  Identities=56%  Similarity=0.868  Sum_probs=179.7

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      |++||+||+||..||++.+.++++.+++.|++.+++++++..+++++++++++|++||++++||||+|++||+||++||+
T Consensus        66 I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~~~~gv~llvaG~D~~Gp~Ly~iDp~  145 (261)
T 3nzj_H           66 ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAH  145 (261)
T ss_dssp             EETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEETTEEEEEEECTT
T ss_pred             EcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHHhcCcccEEEEEEEEeCCCCEEEEECCC
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC-eEEeccccCCCcc
Q 029142           81 GSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH-KEYLRNHLLPNPR  159 (198)
Q Consensus        81 Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g-~~~~~~~~~~~~~  159 (198)
                      |++.+++++|+|+|+..++++||+.|+++||+|||++++++||..+++||..++++++|++|+++| .++++||..+++|
T Consensus       146 G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEA~~la~~al~~a~~rD~~sg~~iev~vI~kdg~~~~~~~~~~~~~~  225 (261)
T 3nzj_H          146 GSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVR  225 (261)
T ss_dssp             SCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEECCCCC
T ss_pred             ccEEecCeEEeccchHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCCcEEEeccccCCCcc
Confidence            999999999999999999999999999999999999999999999999999999999999999999 8999999999999


Q ss_pred             cccCCCCCCCCc-cceeeeeEeEeccceee
Q 029142          160 TFVNAKGYSFPK-KTEVLLTKITPLRERVE  188 (198)
Q Consensus       160 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  188 (198)
                      .+ |...|+||+ +|+||+++|+++.+.++
T Consensus       226 ~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (261)
T 3nzj_H          226 EE-KQKSYKFPRGTTAVLKESIVNICDIQE  254 (261)
T ss_dssp             CC-CSSCCCCCTTCSCEEEEEEECCCC---
T ss_pred             cc-cccccCCCCCCcceeeEEEEEeeeeeE
Confidence            94 999999999 99999999999984444

>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=4.1e-46  Score=302.72  Aligned_cols=183  Identities=56%  Similarity=0.886  Sum_probs=178.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      |++||+||+||..||++.+.++++.+++.|+++++++++++.++++++++++++++||++++|+||+|.+||+||.+||+
T Consensus        37 i~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~~p~~v~~lvaG~D~~gp~Ly~idp~  116 (222)
T 1ryp_I           37 ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAH  116 (222)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEETTEEEEEEECTT
T ss_pred             ecCCEEEEecccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhhcCCCCCeeEEEEEEeCCCCEEEEECCC
Confidence            57899999999999999999999999999999999999999999999999999999999999999999989999999999


Q ss_pred             CceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC-eEEeccccCCCcc
Q 029142           81 GSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH-KEYLRNHLLPNPR  159 (198)
Q Consensus        81 Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g-~~~~~~~~~~~~~  159 (198)
                      |++.+++++|+|+|+..++++||+.|+++||++||++++++||..+++||..++++++|++|+++| ++.++|+..+++|
T Consensus       117 G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~~~~~~~  196 (222)
T 1ryp_I          117 GSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVR  196 (222)
T ss_dssp             SCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEECCCCC
T ss_pred             CCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHHHHHHHHHHHhccccCCCcEEEEEEECCCCEEEEeceecCCcc
Confidence            999999999999999999999999999999999999999999999999999999999999999999 9999999999999


Q ss_pred             cccCCCCCCCCc-cceeeeeEeEecc
Q 029142          160 TFVNAKGYSFPK-KTEVLLTKITPLR  184 (198)
Q Consensus       160 ~~~~~~~~~~~~-~~~~~~~~~~~~~  184 (198)
                      . .|..+|.||+ ||++++++|++++
T Consensus       197 ~-~~~~~~~~~~~~~~~~~~~~~~~~  221 (222)
T 1ryp_I          197 E-EKQKSYKFPRGTTAVLKESIVNIC  221 (222)
T ss_dssp             C-CCSSCCCCCTTCSCEEEEEECCCC
T ss_pred             c-ccccCcccCCCceeeeeeeeEecc
Confidence            9 4789999999 9999999998874

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

Probab=100.00  E-value=2.6e-38  Score=256.01  Aligned_cols=163  Identities=13%  Similarity=0.135  Sum_probs=156.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhh-hcCCCCCHHHHHHHHHHHHhcc---CCccceEEEEEEEeCCCCEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-HTGRESRVVTALTLLKKHLFNY---QGYVQAALVLGGVDCTGPHLHT   76 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~-~~~~~i~v~~la~~l~~~l~~~---~~p~gv~~ivaG~D~~gp~Ly~   76 (198)
                      |++|++||+||..||++.+.++++.+++.|++ .++++++++.+++++++++|.+   .+||++++||||+|+.||+||.
T Consensus        45 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~gp~Ly~  124 (219)
T 1iru_N           45 VNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGY  124 (219)
T ss_dssp             ETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEE
T ss_pred             eCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEEECCCCEEEE
Confidence            58999999999999999999999999999998 9999999999999999998765   3699999999999988899999


Q ss_pred             ECCCCceeecCeEEEecChHHHHHHHHhhccC--CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEecccc
Q 029142           77 IYPHGSTDTLPFATMGSGSLAAMAMFESKYKE--GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHL  154 (198)
Q Consensus        77 idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~--~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~  154 (198)
                      +||+|++.+++++|+|+|+..++++||+.|++  +||.+||++++++||..+.+||..++++++|++|+++|++.++|.+
T Consensus       125 id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~mt~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~  204 (219)
T 1iru_N          125 VDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLS  204 (219)
T ss_dssp             ECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEEC
T ss_pred             ECCCCCeEECCeEEECccHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCEEEcCCee
Confidence            99999999999999999999999999999999  9999999999999999999999999999999999999999999999


Q ss_pred             CCCcccccC
Q 029142          155 LPNPRTFVN  163 (198)
Q Consensus       155 ~~~~~~~~~  163 (198)
                      ++..|.|++
T Consensus       205 i~~~~~~~~  213 (219)
T 1iru_N          205 TETNWDIAH  213 (219)
T ss_dssp             CCCCCGGGG
T ss_pred             ccchhhHHH
Confidence            999998743

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

Probab=100.00  E-value=3.2e-38  Score=252.46  Aligned_cols=155  Identities=26%  Similarity=0.370  Sum_probs=148.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |++|++||+||..||++.+.++++.+++.|+++++++++++.++++++++++.++ +||++++|+||+|++||+||.+||
T Consensus        37 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~r~rp~~~~~lvaG~D~~gp~Ly~id~  116 (202)
T 1j2q_H           37 IADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDP  116 (202)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEETTEEEEEEECT
T ss_pred             cCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEeCCCCEEEEECC
Confidence            5789999999999999999999999999999999999999999999999998875 699999999999998899999999


Q ss_pred             CCceeecC-eEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           80 HGSTDTLP-FATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        80 ~Gs~~~~~-~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      +|++.+++ ++|+|+|+.+++++||+.|+++||.+||++++++||..+++||..++++++|++|+++|++.+.+.++
T Consensus       117 ~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~~s~~~i~v~vi~~~g~~~l~~~ei  193 (202)
T 1j2q_H          117 IGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKITEDEFYQYSPEEV  193 (202)
T ss_dssp             TCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEECSSCEEECHHHHH
T ss_pred             CCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHHHHHHHHHHHhcCCCCCCcEEEEEEeCCCeEEeCHHHH
Confidence            99999999 99999999999999999999999999999999999999999999899999999999999988776544

>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=4.9e-38  Score=250.54  Aligned_cols=154  Identities=19%  Similarity=0.262  Sum_probs=147.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC---CccceEEEEEEEeC--CCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ---GYVQAALVLGGVDC--TGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~---~p~gv~~ivaG~D~--~gp~Ly   75 (198)
                      |++|++|++||..||++.+.++++.+++.|+++++++++++.+++++++.+++++   +||++++|+||+|+  +||+||
T Consensus        38 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~~r~p~~v~~lvaG~D~~~~~p~Ly  117 (198)
T 1ryp_K           38 LSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELY  117 (198)
T ss_dssp             EETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEE
T ss_pred             eCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEEeCCCCCcEEE
Confidence            5799999999999999999999999999999999999999999999999998763   59999999999996  679999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEecccc
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHL  154 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~  154 (198)
                      .+||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|++.++|++
T Consensus       118 ~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~~~~  196 (198)
T 1ryp_K          118 QIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDFQ  196 (198)
T ss_dssp             EECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECCCS
T ss_pred             EECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhCccCCCceEEEEEcCCCEEEecccc
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999998864

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

Probab=100.00  E-value=4.7e-38  Score=254.79  Aligned_cols=155  Identities=26%  Similarity=0.426  Sum_probs=148.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeC-CCCEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDC-TGPHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~-~gp~Ly~id   78 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.+++++++++++++ +||++++||||+|+ +||+||++|
T Consensus        38 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~P~~v~~lvaG~D~~~gp~Ly~id  117 (219)
T 3h4p_a           38 IDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLACATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLD  117 (219)
T ss_dssp             EETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHTTTTTCCCCCEEEEEETTTEEEEEEEC
T ss_pred             ecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEEEC
Confidence            5799999999999999999999999999999999999999999999999998874 69999999999998 789999999


Q ss_pred             CCCceeecC-eEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           79 PHGSTDTLP-FATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        79 p~Gs~~~~~-~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      |+|++.+++ ++|+|+|+..++++||+.|+++||++||++++++||..+++||..++++++|++|+++|++.+.+-++
T Consensus       118 p~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~g~~~l~~~ei  195 (219)
T 3h4p_a          118 PLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSAMERDTFSGNGISLAVITKDGVKIFEDEEI  195 (219)
T ss_dssp             SSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHTSCSSCCSCCCEEEEETTEEEECCHHHH
T ss_pred             CCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCeEEcCHHHH
Confidence            999999999 99999999999999999999999999999999999999999999999999999999999998876544

>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=1.3e-37  Score=249.30  Aligned_cols=155  Identities=21%  Similarity=0.277  Sum_probs=148.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.++ .|+++++|+||+|++||+||++||
T Consensus        37 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~r~~~~~v~~lvaG~D~~gp~Ly~idp  116 (204)
T 1iru_L           37 INPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDS  116 (204)
T ss_dssp             EETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCBEEEEEEECSSSEEEEEEES
T ss_pred             cCCCEEEEccCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhCCCCeeEEEEEEEEeCCCCEEEEECC
Confidence            5799999999999999999999999999999999999999999999999999886 489999999999998999999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      +|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+++||..++++++|++|+++|++.+.+.++
T Consensus       117 ~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~rd~~s~~~i~v~vi~~~g~~~l~~~ei  192 (204)
T 1iru_L          117 EGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVREDGWIRVSSDNV  192 (204)
T ss_dssp             SSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEECSSCEEEEEEEEH
T ss_pred             CCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHhCccCCCceEEEEEeCCceEEeCHHHH
Confidence            9999999999999999999999999999999999999999999999999999899999999999999988876544

>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=2e-37  Score=250.65  Aligned_cols=154  Identities=29%  Similarity=0.401  Sum_probs=147.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |+++++||+||..||++.+.++++.+++.|++.++++++++.++++++++++.++ +||++++|+||+| +||+||.+||
T Consensus        45 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~r~rp~~v~~lvaG~D-~gp~Ly~idp  123 (217)
T 1yar_H           45 IDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID-TAPHVFSIDA  123 (217)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEES-SSEEEEEECT
T ss_pred             eCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEC-CCCEEEEECC
Confidence            5789999999999999999999999999999999999999999999999998875 6999999999999 8999999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEec-CCeEEeccccC
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK-GHKEYLRNHLL  155 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k-~g~~~~~~~~~  155 (198)
                      +|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+++||..++++++|++|++ +|++.+.+.++
T Consensus       124 ~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~~~~~~ei  200 (217)
T 1yar_H          124 AGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQI  200 (217)
T ss_dssp             TCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHH
T ss_pred             CCCeEecCEEEEcCCHHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCEEEcCHHHH
Confidence            99999999999999999999999999999999999999999999999999998999999999999 88887765544

>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=4.2e-37  Score=247.73  Aligned_cols=156  Identities=24%  Similarity=0.320  Sum_probs=148.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCC-ccceEEEEEEEe-CCCCEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG-YVQAALVLGGVD-CTGPHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~-p~gv~~ivaG~D-~~gp~Ly~id   78 (198)
                      |++|++||+||..||++.+.++++.+++.|++.++++++++.++++++++++.++. ||++++|+||+| ..||+||.+|
T Consensus        37 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~p~~v~~lvaG~D~~~gp~Ly~id  116 (212)
T 1ryp_L           37 INPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVD  116 (212)
T ss_dssp             EETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEE
T ss_pred             eCCcEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEeCCCCCEEEEEc
Confidence            57899999999999999999999999999999999999999999999999998854 899999999999 4689999999


Q ss_pred             CCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccCC
Q 029142           79 PHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLP  156 (198)
Q Consensus        79 p~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~~  156 (198)
                      |+|++.+++++|+|+|+.+++++||+.|+++||.+||++++++||..+.+||..++++++|++|+++|++.+.+.+++
T Consensus       117 p~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~g~~~~~~~ei~  194 (212)
T 1ryp_L          117 SDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVG  194 (212)
T ss_dssp             TTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHH
T ss_pred             CCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhccccCCceEEEEEcCCceEEECHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999988776553

>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=7.1e-37  Score=244.44  Aligned_cols=154  Identities=20%  Similarity=0.272  Sum_probs=145.7

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHH-hc--cCCccceEEEEEEEeC-CCCEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHL-FN--YQGYVQAALVLGGVDC-TGPHLHT   76 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l-~~--~~~p~gv~~ivaG~D~-~gp~Ly~   76 (198)
                      |++|++||+||..||++.+.++++.+++.|++.++++++++.+++++++.+ +.  .++||++++|+||+|+ .||+||.
T Consensus        38 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~~~~~l~~~~~~~~p~~~~~lvaG~D~~~gp~Ly~  117 (201)
T 1iru_K           38 MSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYY  117 (201)
T ss_dssp             CSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEE
T ss_pred             ecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHhcCCCccEEEEEEEEeCCCCeEEEE
Confidence            689999999999999999999999999999999999999999999998765 43  2369999999999997 6799999


Q ss_pred             ECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEecccc
Q 029142           77 IYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHL  154 (198)
Q Consensus        77 idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~  154 (198)
                      +||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++++||..+.+||..++.+++|++|+++|++.++++.
T Consensus       118 id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~~~al~~a~~rd~~sg~~i~v~vi~~~g~~~~~~~~  195 (201)
T 1iru_K          118 MDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNIS  195 (201)
T ss_dssp             ECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEEETTEEECCCCBC
T ss_pred             ECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhhccccCCceEEEEEcCCCeEEeeccc
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999888764

>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=2.5e-37  Score=252.59  Aligned_cols=162  Identities=16%  Similarity=0.224  Sum_probs=154.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhh-----hcCCCCCHHHHHHHHHHHHhccC---CccceEEEEEEEeCC-C
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-----HTGRESRVVTALTLLKKHLFNYQ---GYVQAALVLGGVDCT-G   71 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~-----~~~~~i~v~~la~~l~~~l~~~~---~p~gv~~ivaG~D~~-g   71 (198)
                      |++||+||+||..||++.+.++++.+++.|++     .++++++++.+++++++++|.++   +||++++||||+|.+ |
T Consensus        45 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~g  124 (233)
T 1ryp_N           45 VGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGD  124 (233)
T ss_dssp             ETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSC
T ss_pred             eCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchhhcCCCCCHHHHHHHHHHHHHHhcCCCCCceEEEEEEEEcCCCC
Confidence            57999999999999999999999999999999     89999999999999999998664   699999999999985 8


Q ss_pred             CEEEEECCCCceeecCeEEEecChHHHHHHHHhhccC-----CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC-
Q 029142           72 PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE-----GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG-  145 (198)
Q Consensus        72 p~Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~-----~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~-  145 (198)
                      |+||.+||+|++.+++++|+|+|+.+++++||+.|++     +||++||++++++||..+++||..++++++|++|+++ 
T Consensus       125 p~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~  204 (233)
T 1ryp_N          125 QFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNT  204 (233)
T ss_dssp             EEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTT
T ss_pred             EEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhhccccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCC
Confidence            9999999999999999999999999999999999999     9999999999999999999999999999999999999 


Q ss_pred             CeEEeccccCCCc-cccc
Q 029142          146 HKEYLRNHLLPNP-RTFV  162 (198)
Q Consensus       146 g~~~~~~~~~~~~-~~~~  162 (198)
                      |++.+++.++... |.|+
T Consensus       205 g~~~~~~~~i~~~~w~~~  222 (233)
T 1ryp_N          205 GLTFKKNLQVENMKWDFA  222 (233)
T ss_dssp             EEEEEEEEECCSCCCGGG
T ss_pred             CeEEcChHhcccccchhh
Confidence            9999999999888 8764

>1iru_H 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_N* 3une_N

Probab=100.00  E-value=5.3e-37  Score=245.87  Aligned_cols=155  Identities=30%  Similarity=0.468  Sum_probs=146.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeC-CCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC-TGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~-~gp~Ly~idp   79 (198)
                      |++|++||+||..||++.+.++++.+++.|++.++++++++.++++++++++.++.||++++|+||+|+ .||+||.+||
T Consensus        37 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~p~~~~~lvaG~D~~~gp~ly~~d~  116 (205)
T 1iru_H           37 IHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPM  116 (205)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECT
T ss_pred             cCCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCcCccEEEEEEEEeCCCCCEEEEECC
Confidence            579999999999999999999999999999999999999999999999999999889999999999998 6799999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeE--EeccccC
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKE--YLRNHLL  155 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~--~~~~~~~  155 (198)
                      +|++.+++++++|+|+..++++||+.|+++||.+||++++++||..+++||..++++++|++|+++|.+  .+.+-++
T Consensus       117 ~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei  194 (205)
T 1iru_H          117 GGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQI  194 (205)
T ss_dssp             TSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGS
T ss_pred             CCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhccccCCcEEEEEEeCCCeEEEEeChHHh
Confidence            999999999999999999999999999999999999999999999999999999999999999999974  3444443

>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=1.4e-36  Score=247.99  Aligned_cols=154  Identities=14%  Similarity=0.152  Sum_probs=146.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++|++||+||..||++.+.++++.+++.|+++++++++++.++++++++++.|     .+||++++||||+|.+||+||
T Consensus        67 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~~gp~Ly  146 (233)
T 1iru_B           67 ITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLF  146 (233)
T ss_dssp             SSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEE
T ss_pred             ECCCEEEEEEEccHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeCCCCeEE
Confidence            689999999999999999999999999999999999999999999999998654     359999999999998899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      .+||+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+++|| .++++++|++|+++|++.+.+.++
T Consensus       147 ~id~~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d-~sg~~i~v~vi~~~g~~~l~~~ei  225 (233)
T 1iru_B          147 QSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQ-MTEDNIEVGICNEAGFRRLTPTEV  225 (233)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSC-CCSSSEEEEEEETTEEEECCHHHH
T ss_pred             EECCCCCEEEeeEEEECCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhcc-CCCCCEEEEEEECCCEEECCHHHH
Confidence            9999999999999999999999999999999999999999999999999999999 679999999999999888876544

>1iru_M 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_L* 3une_L 3unf_L* 3unh_L

Probab=100.00  E-value=3.6e-36  Score=242.37  Aligned_cols=150  Identities=19%  Similarity=0.273  Sum_probs=143.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCC-CEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTG-PHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~g-p~Ly~id   78 (198)
                      |+++|+||+||..||++.+.++++.+++.|++.++++++++.+++++++++|.++ +||++++||||+|.+| |+||.+|
T Consensus        46 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~g~p~Ly~id  125 (213)
T 1iru_M           46 LTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFD  125 (213)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEECTTSCEEEEEEC
T ss_pred             cCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEcCCCCEEEEEEC
Confidence            5789999999999999999999999999999999999999999999999997654 7999999999999765 9999999


Q ss_pred             CCCceeecCeEEEecChHHHHHHHHhh---------ccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEE
Q 029142           79 PHGSTDTLPFATMGSGSLAAMAMFESK---------YKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY  149 (198)
Q Consensus        79 p~Gs~~~~~~~a~G~gs~~a~~~Le~~---------~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~  149 (198)
                      |+|++.+++++|+|+|+.+++++||+.         |+++||++||++++++||..+.++|..++++++|++|+++|++.
T Consensus       126 ~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~  205 (213)
T 1iru_M          126 PVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIRE  205 (213)
T ss_dssp             TTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEE
T ss_pred             CCCCEEECCEEEEeeCHHHHHHHHhhccccccccccCCCCCCHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCCeEE
Confidence            999999999999999999999999999         88999999999999999999999999999999999999999875


Q ss_pred             e
Q 029142          150 L  150 (198)
Q Consensus       150 ~  150 (198)
                      .
T Consensus       206 ~  206 (213)
T 1iru_M          206 E  206 (213)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=1.8e-36  Score=248.92  Aligned_cols=154  Identities=14%  Similarity=0.146  Sum_probs=144.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHH--hc-c--CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHL--FN-Y--QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l--~~-~--~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |++||+|++||..||++.+.++++.+++.|++.++++++++.+++++++++  |. +  .+||++++||||||+ .||+|
T Consensus        66 i~~~i~~~~aG~~aD~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~L  145 (243)
T 1ryp_A           66 ISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSI  145 (243)
T ss_dssp             CSSSCEEEEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEE
T ss_pred             ECCCEEEEEEecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEE
Confidence            689999999999999999999999999999999999999999999999998  43 2  469999999999997 78999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccC-------CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE-------GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK  147 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~-------~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~  147 (198)
                      |++||+|++.+++++|+|+|+..++++||+.|++       +||++||++++++||..+++|| .++++++|++|+++|+
T Consensus       146 y~~dp~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd-~s~~~iev~vi~~~g~  224 (243)
T 1ryp_A          146 YKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTE-FSKNDLEVGVATKDKF  224 (243)
T ss_dssp             EEECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCC-CCTTSEEEEEEETTEE
T ss_pred             EEEcCCCCEEEEEEEEECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCCe
Confidence            9999999999999999999999999999999999       9999999999999999999999 6899999999999997


Q ss_pred             EEeccccC
Q 029142          148 EYLRNHLL  155 (198)
Q Consensus       148 ~~~~~~~~  155 (198)
                      +.+.+.++
T Consensus       225 ~~l~~~ei  232 (243)
T 1ryp_A          225 FTLSAENI  232 (243)
T ss_dssp             EECCHHHH
T ss_pred             EECCHHHH
Confidence            77765443

>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=6.5e-36  Score=242.60  Aligned_cols=150  Identities=18%  Similarity=0.251  Sum_probs=143.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcC-CCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCC-CEEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTG-PHLHTI   77 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~g-p~Ly~i   77 (198)
                      |+++++|++||..||++.+.++++.+++.|++.++ ++++++.+++++++++|.++ +||++++||||+|.+| |+||++
T Consensus        46 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~P~~v~~ivaG~D~~g~p~Ly~~  125 (222)
T 1ryp_M           46 CGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSF  125 (222)
T ss_dssp             EETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEE
T ss_pred             eCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEcCCCCeEEEEE
Confidence            57899999999999999999999999999999999 99999999999999998764 6999999999999765 999999


Q ss_pred             CCCCceeecCeEEEecChHHHHHHHHhh-----------------ccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEE
Q 029142           78 YPHGSTDTLPFATMGSGSLAAMAMFESK-----------------YKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVC  140 (198)
Q Consensus        78 dp~Gs~~~~~~~a~G~gs~~a~~~Le~~-----------------~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~  140 (198)
                      ||+|++.+++++|+|+|+.+++++||+.                 |+++||++||++++++||..+.+||..++++++|+
T Consensus       126 dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~  205 (222)
T 1ryp_M          126 DPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEIL  205 (222)
T ss_dssp             CTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEE
T ss_pred             CCCcCEEecCEEEEcCcHHHHHHHHhcccccccccccccccccccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEE
Confidence            9999999999999999999999999998                 88999999999999999999999999999999999


Q ss_pred             EEecCCeEEe
Q 029142          141 VITKGHKEYL  150 (198)
Q Consensus       141 ii~k~g~~~~  150 (198)
                      +|+++|++..
T Consensus       206 vi~~~g~~~~  215 (222)
T 1ryp_M          206 IVTKDGVRKE  215 (222)
T ss_dssp             EEETTEEEEE
T ss_pred             EEcCCCeEEE
Confidence            9999998754

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

Probab=100.00  E-value=2.3e-36  Score=253.77  Aligned_cols=156  Identities=23%  Similarity=0.308  Sum_probs=149.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeC-CCCEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDC-TGPHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~-~gp~Ly~id   78 (198)
                      |+++|+||+||..||++.+.++++.+++.|++.++++++++.+++++++++|.++ .||++++||||||+ .||+||++|
T Consensus       112 I~d~i~~~~aG~~AD~~~l~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~~p~~v~~lvaG~D~~~gp~Ly~iD  191 (287)
T 3nzj_K          112 INPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVD  191 (287)
T ss_dssp             EETTEEEECEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEETTTEEEEEEEE
T ss_pred             EcCcEEEEecCCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCCEEEEEC
Confidence            5789999999999999999999999999999999999999999999999999886 49999999999994 779999999


Q ss_pred             CCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccCC
Q 029142           79 PHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLP  156 (198)
Q Consensus        79 p~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~~  156 (198)
                      |+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+++||..+|++++|++|+++|++.+.+.++.
T Consensus       192 p~G~~~~~~~~AiGsgs~~a~~~Le~~y~~dms~eEAi~la~~aL~~a~~rD~~sg~~i~V~vItkdg~~~l~~~ev~  269 (287)
T 3nzj_K          192 SDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVG  269 (287)
T ss_dssp             TTCCEEECSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHH
T ss_pred             CCceEEEcCeEEEecchHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHhhCcCCCCceEEEEEeCCCEEEeCHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999887764

>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=2.7e-36  Score=246.37  Aligned_cols=152  Identities=20%  Similarity=0.335  Sum_probs=143.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++||+|++||..||++.+.++++.+++.|+++++++++++.++++++++++.+     .+||++++||||+|++||+||
T Consensus        70 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~gp~Ly  149 (233)
T 1yar_A           70 IDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLF  149 (233)
T ss_dssp             EETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEE
T ss_pred             ecCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeCCCCEEE
Confidence            579999999999999999999999999999999999999999999999999755     359999999999999899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC-eEEeccc
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH-KEYLRNH  153 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g-~~~~~~~  153 (198)
                      .+||+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+.++|. ++++++|++|+++| .+.+.+.
T Consensus       150 ~id~~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~-s~~~i~v~vi~~~~~~~~~~~~  227 (233)
T 1yar_A          150 DCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNKYRIYDQE  227 (233)
T ss_dssp             EECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEETTSCCEECCHH
T ss_pred             EECCCCCEEeeeEEEEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEECCCCEEECCHH
Confidence            99999999999999999999999999999999999999999999999999999997 79999999999998 6665543

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M*

Probab=100.00  E-value=2.2e-36  Score=251.65  Aligned_cols=162  Identities=16%  Similarity=0.224  Sum_probs=155.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhh-----hcCCCCCHHHHHHHHHHHHhccC---CccceEEEEEEEeCC-C
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-----HTGRESRVVTALTLLKKHLFNYQ---GYVQAALVLGGVDCT-G   71 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~-----~~~~~i~v~~la~~l~~~l~~~~---~p~gv~~ivaG~D~~-g   71 (198)
                      |+++|+||+||..||++.+.++++.+++.|++     .++++++++.+++++++++|.++   +||++++||||+|.+ |
T Consensus        78 i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~g  157 (266)
T 1g0u_M           78 VGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGD  157 (266)
T ss_dssp             CTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSC
T ss_pred             cCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhccchhhcCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCC
Confidence            68999999999999999999999999999998     89999999999999999998764   699999999999985 8


Q ss_pred             CEEEEECCCCceeecCeEEEecChHHHHHHHHhhccC-----CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC-
Q 029142           72 PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE-----GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG-  145 (198)
Q Consensus        72 p~Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~-----~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~-  145 (198)
                      |+||.+||+|++.+++++|+|+|+.+++++||+.|++     +||++||++++++||..+++||..++++++|++|+++ 
T Consensus       158 p~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~  237 (266)
T 1g0u_M          158 QFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNT  237 (266)
T ss_dssp             EEEEEEETTCCEECCSEEECTHHHHTHHHHHTTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTT
T ss_pred             EEEEEECCCCCEEeCCEEEEccCHHHHHHHHHHhhcccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCC
Confidence            9999999999999999999999999999999999999     9999999999999999999999999999999999999 


Q ss_pred             CeEEeccccCCCc-cccc
Q 029142          146 HKEYLRNHLLPNP-RTFV  162 (198)
Q Consensus       146 g~~~~~~~~~~~~-~~~~  162 (198)
                      |++.+++.++... |.|+
T Consensus       238 g~~~~~~~ei~~~~w~~~  255 (266)
T 1g0u_M          238 GLTFKKNLQVENMKWDFA  255 (266)
T ss_dssp             EEEEEEEEECCCCCCGGG
T ss_pred             CeEEcCHHHhhhhhhhHH
Confidence            9999999999888 8763

>1iru_J 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_I* 3une_I 3unf_I* 3unh_I

Probab=100.00  E-value=1.2e-35  Score=237.94  Aligned_cols=150  Identities=22%  Similarity=0.297  Sum_probs=142.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeC--CCCEEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDC--TGPHLHTI   77 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~--~gp~Ly~i   77 (198)
                      |++|++||+||..||++.+.++++.+++.|++.++++++++.+++++++++|.++ +||++++|+||+|+  +||+||.+
T Consensus        45 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~~~~p~Ly~i  124 (205)
T 1iru_J           45 MGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSL  124 (205)
T ss_dssp             CSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEE
T ss_pred             eCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCCeEEEEE
Confidence            6899999999999999999999999999999999999999999999999998664 59999999999995  67999999


Q ss_pred             CCCCceeec-CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEe
Q 029142           78 YPHGSTDTL-PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYL  150 (198)
Q Consensus        78 dp~Gs~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~  150 (198)
                      ||+|++.++ +|+|+|+|+.+++++||+.|+++||++||++++++||..+.+||..++++++|++|+++|++..
T Consensus       125 dp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~  198 (205)
T 1iru_J          125 DLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDKITTR  198 (205)
T ss_dssp             CTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEEEE
T ss_pred             CCCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHhCcccCCceEEEEEcCCCEEEE
Confidence            999999665 6799999999999999999999999999999999999999999999999999999999998753

>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=4.1e-36  Score=240.78  Aligned_cols=150  Identities=28%  Similarity=0.468  Sum_probs=144.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeC-CCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC-TGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~-~gp~Ly~idp   79 (198)
                      |++|++||+||..||++.+.++++.+++.|++.+++ ++++.++++++++++.++..|++++|+||+|+ .||+||.+||
T Consensus        46 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~-~~v~~la~~l~~~~~~~~~~~~~~~lvaG~D~~~gp~Ly~id~  124 (205)
T 1ryp_H           46 VHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT-PSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPL  124 (205)
T ss_dssp             EETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS-CCHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECT
T ss_pred             cCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhhhcCceEEEEEEEEecCCCcEEEEECC
Confidence            578999999999999999999999999999999999 99999999999999988766999999999997 6799999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEec
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLR  151 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~  151 (198)
                      +|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+++||..++++++|++|+++|++...
T Consensus       125 ~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~~~al~~a~~~d~~sg~~i~v~vi~~~g~~~~~  196 (205)
T 1ryp_H          125 GGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLI  196 (205)
T ss_dssp             TSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEE
T ss_pred             CccEEecCEEEEEecHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHhCCccCCeEEEEEEcCCCEEEEE
Confidence            999999999999999999999999999999999999999999999999999999999999999999987543

>3unf_N Proteasome subunit beta type-9; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_N

Probab=100.00  E-value=1.1e-35  Score=237.12  Aligned_cols=156  Identities=28%  Similarity=0.415  Sum_probs=144.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeC-CCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC-TGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~-~gp~Ly~idp   79 (198)
                      |++|++||+||..||++.+.++++.+++.|++.++++++++.++++++++++++++||++++||||+|+ .||+||+  |
T Consensus        37 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~~p~~v~~lvaG~D~~~~p~ly~--p  114 (199)
T 3unf_N           37 LHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAANVVKNISYKYREDLLAHLIVAGWDQREGGQVYG--T  114 (199)
T ss_dssp             EETTEEEEECSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHTTTTCCCCEEEEEEETTTEEEEEE--C
T ss_pred             cCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEE--E
Confidence            578999999999999999999999999999999999999999999999999999999999999999998 5799999  9


Q ss_pred             CCceeec-CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeE--EeccccCC
Q 029142           80 HGSTDTL-PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKE--YLRNHLLP  156 (198)
Q Consensus        80 ~Gs~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~--~~~~~~~~  156 (198)
                      +|++..+ +++++|+|+.+++++||+.|+++||++||++++++||..+++||..++++++|++|+++|++  .+.+-+++
T Consensus       115 ~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~l~~~ei~  194 (199)
T 3unf_N          115 MGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELP  194 (199)
T ss_dssp             GGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEECSSCEEEEEECGGGSC
T ss_pred             CCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCCEEEEEcCcccCc
Confidence            9997665 56677999999999999999999999999999999999999999999999999999999954  46666655


Q ss_pred             Cc
Q 029142          157 NP  158 (198)
Q Consensus       157 ~~  158 (198)
                      .-
T Consensus       195 ~~  196 (199)
T 3unf_N          195 KF  196 (199)
T ss_dssp             CC
T ss_pred             cc
Confidence            43

>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=7.2e-36  Score=243.90  Aligned_cols=154  Identities=21%  Similarity=0.220  Sum_probs=144.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.|     .+||++++||||+|++||+||
T Consensus        65 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly  144 (233)
T 1ryp_F           65 CDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLL  144 (233)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEE
T ss_pred             EcCCEEEEEEechHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeCCcCEEE
Confidence            579999999999999999999999999999999999999999999999998543     469999999999999899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccC--CC--CHHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEecC-CeEE
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE--GL--TKDEGIQLVVDAICSGIFND-LGSGSNVDVCVITKG-HKEY  149 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~--~m--s~eeai~la~~al~~~~~~d-~~sg~~iei~ii~k~-g~~~  149 (198)
                      ++||+|++.+++++|+|+|+..++++||+.|++  +|  |++||++++++||..++ || ..++++++|++|+++ |++.
T Consensus       145 ~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi~~~~~~~~  223 (233)
T 1ryp_F          145 EFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGKDTPFTI  223 (233)
T ss_dssp             EECTTSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEEETTEEEEE
T ss_pred             EECCCCCeeeeeEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEEECCCCEEE
Confidence            999999999999999999999999999999999  99  99999999999999999 77 678999999999999 6887


Q ss_pred             eccccC
Q 029142          150 LRNHLL  155 (198)
Q Consensus       150 ~~~~~~  155 (198)
                      +.+.++
T Consensus       224 l~~~ei  229 (233)
T 1ryp_F          224 YDGEAV  229 (233)
T ss_dssp             EEGGGG
T ss_pred             CCHHHH
Confidence            776554

>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=4.1e-35  Score=234.71  Aligned_cols=149  Identities=20%  Similarity=0.252  Sum_probs=140.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeC--CCCEEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDC--TGPHLHTI   77 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~--~gp~Ly~i   77 (198)
                      |+ |++|++||..||++.+.++++.+++.|+++++++++++.+++++++++|.++ +||++++|+||+|+  +||+||.+
T Consensus        45 i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~y~~~~~P~~v~~lvaG~D~~~~gp~Ly~i  123 (204)
T 1ryp_J           45 YG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGF  123 (204)
T ss_dssp             ET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEE
T ss_pred             eC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCceEEEEE
Confidence            57 9999999999999999999999999999999999999999999999997654 59999999999996  67999999


Q ss_pred             CCCCceeec-CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEe
Q 029142           78 YPHGSTDTL-PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYL  150 (198)
Q Consensus        78 dp~Gs~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~  150 (198)
                      ||+|++.++ +|+|+|+|+.+++++||+.|+++||++||++++++||..+.++|..++++++|++|+++|++..
T Consensus       124 dp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~  197 (204)
T 1ryp_J          124 DLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAVVYIIKKDEVVKR  197 (204)
T ss_dssp             CTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEEEE
T ss_pred             CCCCCccccCceeEeccCHHHHHHHHhhhcCCCcCHHHHHHHHHHHHHHHHHhCcccCCcEEEEEEcCCCEEEE
Confidence            999999665 6799999999999999999999999999999999999999999999999999999999998753

>1ryp_G 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_F* 1g65_F 1vsy_G 2f16_F* 2fak_F* 2fny_F* 2gpl_F* 3d29_F* 3dy3_F* 3dy4_F* 3e47_F* 3gpj_F* 3gpt_F* 3gpw_F* 3hye_F* 3l5q_L 3mg0_F* 3mg4_F* 3okj_F* 3shj_F* ...

Probab=100.00  E-value=1.8e-35  Score=243.20  Aligned_cols=155  Identities=17%  Similarity=0.151  Sum_probs=146.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.|     .+||++++||||+|.+||+||
T Consensus        66 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly  145 (244)
T 1ryp_G           66 VDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLY  145 (244)
T ss_dssp             ETTTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEE
T ss_pred             ecCCEEEEEcccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeCCcCEEE
Confidence            579999999999999999999999999999999999999999999999998554     369999999999998899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhh---ccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEec---CCeEE
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESK---YKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK---GHKEY  149 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~---~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k---~g~~~  149 (198)
                      .+||+|++.+++++|+|+|+..++++||+.   |+++||.+||++++++||..+.++|..++.+++|++|++   +|.+.
T Consensus       146 ~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g~~~  225 (244)
T 1ryp_G          146 MLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHK  225 (244)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEE
T ss_pred             EECCCCCEEEeeEEEECCChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCCeee
Confidence            999999999999999999999999999997   999999999999999999999999998999999999998   88887


Q ss_pred             eccccC
Q 029142          150 LRNHLL  155 (198)
Q Consensus       150 ~~~~~~  155 (198)
                      +.|.++
T Consensus       226 ~~~~~~  231 (244)
T 1ryp_G          226 FVKGDL  231 (244)
T ss_dssp             ECCTHH
T ss_pred             eChHHH
Confidence            766543

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E

Probab=100.00  E-value=1.2e-35  Score=246.72  Aligned_cols=155  Identities=17%  Similarity=0.176  Sum_probs=146.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.|     .+||++++||||||.+||+||
T Consensus        66 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~~gp~Ly  145 (263)
T 1iru_F           66 VDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIF  145 (263)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEE
T ss_pred             EcCCEEEEEeCCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcCCCCEEE
Confidence            579999999999999999999999999999999999999999999999998743     469999999999999889999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccC--CCCHHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEecC-CeEEec
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE--GLTKDEGIQLVVDAICSGIFND-LGSGSNVDVCVITKG-HKEYLR  151 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~--~ms~eeai~la~~al~~~~~~d-~~sg~~iei~ii~k~-g~~~~~  151 (198)
                      ++||+|++.+++++|+|+|+..++++||+.|++  +||++||++++++||..+++|| ..++++++|++|+++ +++.+.
T Consensus       146 ~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~~~l~  225 (263)
T 1iru_F          146 QTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYD  225 (263)
T ss_dssp             EECSSSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEEC
T ss_pred             EECCCCCEEEeeEEEcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCeEECC
Confidence            999999999999999999999999999999998  9999999999999999999999 578999999999999 678777


Q ss_pred             cccC
Q 029142          152 NHLL  155 (198)
Q Consensus       152 ~~~~  155 (198)
                      +.++
T Consensus       226 ~~ei  229 (263)
T 1iru_F          226 DDDV  229 (263)
T ss_dssp             SGGG
T ss_pred             HHHH
Confidence            6655

>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=4e-35  Score=241.27  Aligned_cols=151  Identities=19%  Similarity=0.233  Sum_probs=141.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHh---cc--CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLF---NY--QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~---~~--~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |++|++||+||..||++.+.++++.+++.|++.++++++++.++++++++++   ++  .+||++++||||+|+ .||+|
T Consensus        72 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~L  151 (246)
T 1iru_A           72 ITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQV  151 (246)
T ss_dssp             SSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEE
T ss_pred             ECCCEEEEEeccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEE
Confidence            6899999999999999999999999999999999999999999999998853   23  469999999999997 78999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccC--CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe--EEe
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE--GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK--EYL  150 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~--~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~--~~~  150 (198)
                      |++||+|++.+++++|+|+|+..++++||+.|++  +||++||++++++||..+++|| .++++++|++|+++|.  +.+
T Consensus       152 y~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd-~sg~~i~v~vi~~~g~~~~~l  230 (246)
T 1iru_A          152 YKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSID-FKPSEIEVGVVTVENPKFRIL  230 (246)
T ss_dssp             EEECTTSCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCC-CCTTSEEEEEEETTEEEEEEC
T ss_pred             EEEcCCeeEEEeeEEEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCCCeEEEC
Confidence            9999999999999999999999999999999999  9999999999999999999999 7899999999999996  444


Q ss_pred             cc
Q 029142          151 RN  152 (198)
Q Consensus       151 ~~  152 (198)
                      .+
T Consensus       231 ~~  232 (246)
T 1iru_A          231 TE  232 (246)
T ss_dssp             CH
T ss_pred             CH
Confidence            43

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

Probab=100.00  E-value=5.7e-35  Score=239.99  Aligned_cols=147  Identities=18%  Similarity=0.213  Sum_probs=139.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEe-CCCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVD-CTGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D-~~gp~L   74 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.|     .+||++++||||+| ..||+|
T Consensus        68 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~L  147 (244)
T 1ryp_C           68 LNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQL  147 (244)
T ss_dssp             SSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEE
T ss_pred             ECCCEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEE
Confidence            689999999999999999999999999999999999999999999999998644     36999999999999 678999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEe--cCCe
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVIT--KGHK  147 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~--k~g~  147 (198)
                      |.+||+|++.+++++|+|+|+..++++||+.|+++||++||++++++||..+++||..++++++|++|+  ++|.
T Consensus       148 y~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~  222 (244)
T 1ryp_C          148 YTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDG  222 (244)
T ss_dssp             EEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSS
T ss_pred             EEECCCccEEeeeEEEECCCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCC
Confidence            999999999999999999999999999999999999999999999999999999955679999999999  9874

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

Probab=100.00  E-value=4.7e-35  Score=242.93  Aligned_cols=146  Identities=20%  Similarity=0.239  Sum_probs=140.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.+     .+||++++||||+|. .||+|
T Consensus        68 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~L  147 (261)
T 1iru_C           68 LNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQL  147 (261)
T ss_dssp             CSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEE
T ss_pred             ecCCEEEEEeEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEE
Confidence            689999999999999999999999999999999999999999999999999765     359999999999996 77999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccC-CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE-GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH  146 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~-~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g  146 (198)
                      |.+||+|++.+++++|+|+|+.+++++||+.|++ +||.+||++++++||..++++|..++++++|++|+++|
T Consensus       148 y~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~  220 (261)
T 1iru_C          148 YQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTREN  220 (261)
T ss_dssp             EEEETTTEEEECSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCS
T ss_pred             EEECCCceEEeeeeEEeCcccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCC
Confidence            9999999999999999999999999999999999 99999999999999999999999999999999999997

>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-35  Score=241.65  Aligned_cols=151  Identities=21%  Similarity=0.238  Sum_probs=141.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----------CCccceEEEEEEEe-
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----------QGYVQAALVLGGVD-   68 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----------~~p~gv~~ivaG~D-   68 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.|           .+||++++||||+| 
T Consensus        62 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~  141 (242)
T 1ryp_E           62 IDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDA  141 (242)
T ss_dssp             EETTEEEEEEESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEET
T ss_pred             EcCCEEEEEeecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeC
Confidence            579999999999999999999999999999999999999999999999988764           56999999999999 


Q ss_pred             CCCCEEEEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe-
Q 029142           69 CTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK-  147 (198)
Q Consensus        69 ~~gp~Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~-  147 (198)
                      .+||+||.+||+|++.+++++|+|+|+..++++||+.|+++||++||++++++||..+++| ..++.+++|++|+++|. 
T Consensus       142 ~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~  220 (242)
T 1ryp_E          142 DDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEE-KLDENNAQLSCITKQDGF  220 (242)
T ss_dssp             TTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEEETTTEE
T ss_pred             CCCCEEEEECCCCCEeccCEEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEECCCCe
Confidence            5789999999999999999999999999999999999999999999999999999999998 56899999999999985 


Q ss_pred             EEecc
Q 029142          148 EYLRN  152 (198)
Q Consensus       148 ~~~~~  152 (198)
                      +.+.+
T Consensus       221 ~~~~~  225 (242)
T 1ryp_E          221 KIYDN  225 (242)
T ss_dssp             EECCH
T ss_pred             EECCH
Confidence            55443

>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=5.1e-35  Score=239.96  Aligned_cols=150  Identities=20%  Similarity=0.320  Sum_probs=141.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc----------CCccceEEEEEEEeCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY----------QGYVQAALVLGGVDCT   70 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~----------~~p~gv~~ivaG~D~~   70 (198)
                      |++|++||+||..||++.+.++++.+++.|+++++++++++.++++++++++.|          .+||++++||||+|.+
T Consensus        70 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~  149 (241)
T 1iru_E           70 IDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEK  149 (241)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETT
T ss_pred             EcCCEEEEEeeChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCC
Confidence            578999999999999999999999999999999999999999999999998554          4599999999999987


Q ss_pred             CCEEEEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe-EE
Q 029142           71 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK-EY  149 (198)
Q Consensus        71 gp~Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~-~~  149 (198)
                      ||+||.+||+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+.+| ..++++++|++|+++|. +.
T Consensus       150 gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~  228 (241)
T 1iru_E          150 GPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEE-KLNATNIELATVQPGQNFHM  228 (241)
T ss_dssp             EEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEECSSSCCEE
T ss_pred             CCEEEEECCCCcEEecceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCCEEEEEEECCCCeEE
Confidence            89999999999999999999999999999999999999999999999999999999998 67899999999999985 44


Q ss_pred             ec
Q 029142          150 LR  151 (198)
Q Consensus       150 ~~  151 (198)
                      +.
T Consensus       229 l~  230 (241)
T 1iru_E          229 FT  230 (241)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F

Probab=100.00  E-value=3.9e-35  Score=242.50  Aligned_cols=153  Identities=15%  Similarity=0.125  Sum_probs=142.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-----CccceEEEEEEEe-CCCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-----GYVQAALVLGGVD-CTGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-----~p~gv~~ivaG~D-~~gp~L   74 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.|+     +||++++|||||| ..||+|
T Consensus        69 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~L  148 (254)
T 1iru_G           69 VDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQL  148 (254)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEE
T ss_pred             ECCCEEEEEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEE
Confidence            5799999999999999999999999999999999999999999999999997663     6999999999999 678999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC--C-eEEec
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG--H-KEYLR  151 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~--g-~~~~~  151 (198)
                      |++||+|++.+++++|+|+|+..++++||+.|+++||++||++++++||..++++|..++.+++|++|+++  | .+++.
T Consensus       149 y~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~~~~l~  228 (254)
T 1iru_G          149 YMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVP  228 (254)
T ss_dssp             EEECTTCCEEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECC
T ss_pred             EEEcCCCCEEeeeeEEecCccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCCeEECC
Confidence            99999999999999999999999999999999999999999999999999999888778889999999987  5 66555


Q ss_pred             cc
Q 029142          152 NH  153 (198)
Q Consensus       152 ~~  153 (198)
                      +-
T Consensus       229 ~~  230 (254)
T 1iru_G          229 KD  230 (254)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=1.3e-34  Score=238.55  Aligned_cols=145  Identities=15%  Similarity=0.179  Sum_probs=132.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcC-CCCCHHHHHHHHHHHH----hccCCccceEEEEEEEeC----CC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKKHL----FNYQGYVQAALVLGGVDC----TG   71 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-~~i~v~~la~~l~~~l----~~~~~p~gv~~ivaG~D~----~g   71 (198)
                      |++||+||+||+.+|++.+.+.++..++.|++.++ .+++++.+++++++.+    ++..+||+|++||||||+    .|
T Consensus        56 I~d~i~~~~aG~~aD~~~l~~~~~~~~~l~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~gv~~liaG~D~~~~~~g  135 (248)
T 3mi0_A           56 LYDRVGFAAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKR  135 (248)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCTTCCCC
T ss_pred             ECCCEEEEEccCHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCCCC
Confidence            68999999999999999999999999999999999 9999999999999543    344679999999999998    78


Q ss_pred             CEEEEECCCCceee-cCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHH-------hccCCCCCcEEEEEEe
Q 029142           72 PHLHTIYPHGSTDT-LPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGI-------FNDLGSGSNVDVCVIT  143 (198)
Q Consensus        72 p~Ly~idp~Gs~~~-~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~-------~~d~~sg~~iei~ii~  143 (198)
                      |+||++||+|++.. ++++|+|+|+..++++||++|+++||++||++++++||..++       +++ .++++++|+||+
T Consensus       136 p~Ly~~Dp~G~~~~e~~~~a~Gsgs~~a~~~Le~~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~~-~~~~~iev~vv~  214 (248)
T 3mi0_A          136 PELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDALRIAVAALRAGSADTSGGDQPT-LGVASLEVAVLD  214 (248)
T ss_dssp             CEEEEECTTSCEEEESSEEEESSCHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHC-------------CCTTEEEEEEE
T ss_pred             CEEEEECCCeEEeecccEEEECccHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcccCcccc-cCCCcEEEEEEE
Confidence            99999999999995 999999999999999999999999999999999999999999       565 578999999999


Q ss_pred             cCC
Q 029142          144 KGH  146 (198)
Q Consensus       144 k~g  146 (198)
                      ++|
T Consensus       215 ~~g  217 (248)
T 3mi0_A          215 ANR  217 (248)
T ss_dssp             TTS
T ss_pred             CCC
Confidence            998

>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G* 3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 4b4t_G 4g4s_G* 3bdm_F* 1fnt_G* 2zcy_F*

Probab=100.00  E-value=1.3e-34  Score=243.23  Aligned_cols=144  Identities=18%  Similarity=0.175  Sum_probs=139.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++||+||+||+.||++.++++++.+++.|++.+++++++..++++++++++.|     .+||+|++||||||.+||+||
T Consensus        70 I~d~i~~~~aG~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~Gp~Ly  149 (288)
T 3nzj_F           70 VDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLY  149 (288)
T ss_dssp             ETTTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEE
T ss_pred             EcCCEEEEecCcHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCCCCEEE
Confidence            589999999999999999999999999999999999999999999999998765     359999999999999899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhh---ccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEec
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESK---YKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK  144 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~---~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k  144 (198)
                      ++||+|++.+++++|+|+|++.++++||+.   |+++||++||++++++||..++++|..++..++|+||++
T Consensus       150 ~iDp~G~~~~~~~~aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~  221 (288)
T 3nzj_F          150 MLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSL  221 (288)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEET
T ss_pred             EECCCCCEEEcCEEEEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEe
Confidence            999999999999999999999999999999   999999999999999999999999988889999999999

>1q5q_H Proteasome beta-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4

Probab=100.00  E-value=1.8e-34  Score=236.01  Aligned_cols=155  Identities=14%  Similarity=0.119  Sum_probs=143.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc----CCccceEEEEEEEeCC-C----
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY----QGYVQAALVLGGVDCT-G----   71 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~----~~p~gv~~ivaG~D~~-g----   71 (198)
                      |+++++||+||..||++.+.++++.+++.|++.++++++++.+++.++++++.+    .+||++++||||+|.+ |    
T Consensus        37 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~rp~~v~~lvaG~D~~~g~~~~  116 (235)
T 1q5q_H           37 TDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESR  116 (235)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTS
T ss_pred             eCCcEEEEcCCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHHHHHHHHHHHHHHhhhcccceEEEEEEEECCCCccCC
Confidence            578999999999999999999999999999999999999999999999998764    4799999999999985 7    


Q ss_pred             -CEEEEECCCCceeec--CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCc--E-----EEEE
Q 029142           72 -PHLHTIYPHGSTDTL--PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSN--V-----DVCV  141 (198)
Q Consensus        72 -p~Ly~idp~Gs~~~~--~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~--i-----ei~i  141 (198)
                       |+||++||+|++.++  +++|+|+|+.+++++||+.|+++||++||++++++||..++++|..+++.  +     +|++
T Consensus       117 ~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~v  196 (235)
T 1q5q_H          117 AGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVT  196 (235)
T ss_dssp             CEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEE
T ss_pred             CCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhCcccCCcccccccccEEEE
Confidence             999999999999999  99999999999999999999999999999999999999999999887752  3     9999


Q ss_pred             EecCCeEEeccccC
Q 029142          142 ITKGHKEYLRNHLL  155 (198)
Q Consensus       142 i~k~g~~~~~~~~~  155 (198)
                      |+++|++.+.+.++
T Consensus       197 i~~~g~~~l~~~ei  210 (235)
T 1q5q_H          197 ITQAGAVHVSEETT  210 (235)
T ss_dssp             EETTEEEECCHHHH
T ss_pred             EeCCCeEEeCHHHH
Confidence            99999888765443

>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=2e-34  Score=236.45  Aligned_cols=151  Identities=17%  Similarity=0.220  Sum_probs=141.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC--CCCE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC--TGPH   73 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~--~gp~   73 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.+     .+||++++||||+|.  .||+
T Consensus        65 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~  144 (241)
T 1ryp_D           65 IDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPK  144 (241)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCE
T ss_pred             ecCCEEEEEeecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCee
Confidence            579999999999999999999999999999999999999999999999999865     259999999999998  7899


Q ss_pred             EEEECCCCceeecCeEEEecChHHHHHHHHhhc---cCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC-eEE
Q 029142           74 LHTIYPHGSTDTLPFATMGSGSLAAMAMFESKY---KEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH-KEY  149 (198)
Q Consensus        74 Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~---~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g-~~~  149 (198)
                      ||++||+|++.+++++|+|+|+..++++||+.|   +++||++||++++++||..+++   .++++++|++|+++| .+.
T Consensus       145 Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~---~sg~~i~v~vi~~~~~~~~  221 (241)
T 1ryp_D          145 LYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ---TGAKNIEITVVKPDSDIVA  221 (241)
T ss_dssp             EEEECTTSCEEEBSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC---SCSTTEEEEEEETTTEEEE
T ss_pred             EEEECCCCCEEEeeeEEECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc---CCCCcEEEEEEECCCcEEE
Confidence            999999999999999999999999999999999   9999999999999999999985   689999999999986 666


Q ss_pred             ecccc
Q 029142          150 LRNHL  154 (198)
Q Consensus       150 ~~~~~  154 (198)
                      +.+.+
T Consensus       222 l~~~e  226 (241)
T 1ryp_D          222 LSSEE  226 (241)
T ss_dssp             CCHHH
T ss_pred             CCHHH
Confidence            65443

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

Probab=100.00  E-value=7.3e-35  Score=242.20  Aligned_cols=153  Identities=22%  Similarity=0.338  Sum_probs=141.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++||+||+||..||++.++++++.+++.|++.++++++++.++++++++++.|     .+||+|++||||+|..||+||
T Consensus        74 i~d~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~~gp~Ly  153 (264)
T 3h4p_A           74 IDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLF  153 (264)
T ss_dssp             EETTEEEEEEECSHHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEETTEEEEE
T ss_pred             ecCcEEEEeccchHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeCCcCEEE
Confidence            579999999999999999999999999999999999999999999999998654     259999999999999899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC--eEEeccc
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH--KEYLRNH  153 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g--~~~~~~~  153 (198)
                      ++||+|++.+++++|+|+|+..++++||+.|+++||++||++++++||..++++  .++++++|++|++++  ++.+.+-
T Consensus       154 ~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~~~--~sg~~iev~vi~~~~~~~~~l~~~  231 (264)
T 3h4p_A          154 ETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKANED--IKPENVDVCIITVKDAQFKKIPVE  231 (264)
T ss_dssp             EECTTCCCEEESEEEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHSSS--CCTTSEEEEEEETTTTEEEECCTT
T ss_pred             EECCCceEEecCeEEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhc--cCCCeEEEEEEEeCCCcEEECCHH
Confidence            999999999999999999999999999999999999999999999999999976  689999999999864  5555544


Q ss_pred             cC
Q 029142          154 LL  155 (198)
Q Consensus       154 ~~  155 (198)
                      ++
T Consensus       232 ei  233 (264)
T 3h4p_A          232 EI  233 (264)
T ss_dssp             TT
T ss_pred             HH
Confidence            33

>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=3.2e-34  Score=235.96  Aligned_cols=153  Identities=20%  Similarity=0.253  Sum_probs=142.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.|     .+||++++||||+| +||+||
T Consensus        70 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D-~gp~Ly  148 (246)
T 1j2p_A           70 IDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-EVPKLY  148 (246)
T ss_dssp             CSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES-SSEEEE
T ss_pred             ECCCEEEEEeEccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC-CCCEEE
Confidence            689999999999999999999999999999999999999999999999998654     34999999999999 899999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEe-c-CCeEEeccc
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVIT-K-GHKEYLRNH  153 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~-k-~g~~~~~~~  153 (198)
                      .+||+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+.++ ..++++++|++|+ + +|++.+.+.
T Consensus       149 ~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~~l~~~  227 (246)
T 1j2p_A          149 ETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIES-ELVPENIEVGYVKVDDRTFKEVSPE  227 (246)
T ss_dssp             EECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTS-CCCGGGEEEEEEETTTCCCEECCHH
T ss_pred             EECCCceEEeeeEEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEEcCCCceEECCHH
Confidence            999999999999999999999999999999999999999999999999999988 7789999999999 6 477777655


Q ss_pred             cC
Q 029142          154 LL  155 (198)
Q Consensus       154 ~~  155 (198)
                      ++
T Consensus       228 ei  229 (246)
T 1j2p_A          228 EL  229 (246)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=1e-34  Score=239.16  Aligned_cols=152  Identities=20%  Similarity=0.296  Sum_probs=141.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEe-CCCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVD-CTGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D-~~gp~L   74 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++++++++.++++++++++.|     .+||++++||||+| ..||+|
T Consensus        65 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~L  144 (248)
T 1iru_D           65 LDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRL  144 (248)
T ss_dssp             SSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEE
T ss_pred             EcCCEEEEEeecHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEE
Confidence            689999999999999999999999999999999999999999999999998665     35999999999999 678999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC-eEEec
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGL--TKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH-KEYLR  151 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~m--s~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g-~~~~~  151 (198)
                      |.+||+|++.+++++|+|+|+..++++||+.|+++|  |++||++++++||..+++   .++++++|++|+++| ++.+.
T Consensus       145 y~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~---~sg~~i~v~vi~~~g~~~~l~  221 (248)
T 1iru_D          145 YQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ---SGGKNIELAVMRRDQSLKILN  221 (248)
T ss_dssp             EEECTTSCEEEBSEEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC---TTSTTCCEEEEESSSCEECCC
T ss_pred             EEEcCCCcEEEeeEEEECCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHc---CCCCcEEEEEEECCCcEEECC
Confidence            999999999999999999999999999999999999  999999999999999886   478999999999998 77665


Q ss_pred             cccC
Q 029142          152 NHLL  155 (198)
Q Consensus       152 ~~~~  155 (198)
                      +.++
T Consensus       222 ~~ei  225 (248)
T 1iru_D          222 PEEI  225 (248)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5444

>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=6.8e-34  Score=235.76  Aligned_cols=151  Identities=15%  Similarity=0.214  Sum_probs=136.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcC-CCCCHHHHHHHHHHHH---hcc-CCccceEEEEEEEe----CCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKKHL---FNY-QGYVQAALVLGGVD----CTG   71 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-~~i~v~~la~~l~~~l---~~~-~~p~gv~~ivaG~D----~~g   71 (198)
                      |++||+||+||..||++.+.++++.+++.|++.++ ++++++.+++++++++   |.+ .+||+|++||||||    ..|
T Consensus        56 I~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~~v~~lvaG~D~~~~~~g  135 (259)
T 1q5q_A           56 LYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKA  135 (259)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCC
T ss_pred             eCCCEEEEEccCHHHHHHHHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcccCCCCC
Confidence            57999999999999999999999999999999988 5999999999999953   333 47999999999999    678


Q ss_pred             CEEEEECCCCcee-ecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHH-----hccCCCCCcEEEEEEecC
Q 029142           72 PHLHTIYPHGSTD-TLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGI-----FNDLGSGSNVDVCVITKG  145 (198)
Q Consensus        72 p~Ly~idp~Gs~~-~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~-----~~d~~sg~~iei~ii~k~  145 (198)
                      |+||++||+|++. +++++|+|+|++.++++||+.|+++||++||++++++||..++     +||. ++.+++|++|+++
T Consensus       136 p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~rd~-sg~~iev~vi~~~  214 (259)
T 1q5q_A          136 PQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNV-DVASLEVAVLDQS  214 (259)
T ss_dssp             CEEEEEETTSCEEEESSEEEESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------C-CSSCSEEEEEETT
T ss_pred             CEEEEECCCCceeeCCCEEEECCChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhhcccccccC-CCCcEEEEEEECC
Confidence            9999999999999 7899999999999999999999999999999999999999999     8998 9999999999999


Q ss_pred             ----CeEEecc
Q 029142          146 ----HKEYLRN  152 (198)
Q Consensus       146 ----g~~~~~~  152 (198)
                          +++.+.+
T Consensus       215 ~~~~~~~~l~~  225 (259)
T 1q5q_A          215 RPRRAFRRIAG  225 (259)
T ss_dssp             SSSCCEEECCH
T ss_pred             CCcCCeEECCH
Confidence                5665543

>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=2.1e-33  Score=236.46  Aligned_cols=155  Identities=14%  Similarity=0.119  Sum_probs=143.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc----CCccceEEEEEEEeCC-C----
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY----QGYVQAALVLGGVDCT-G----   71 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~----~~p~gv~~ivaG~D~~-g----   71 (198)
                      |+++|+|++||..+|++.++++++.+++.|++.++++++++.++++|+++++++    .+||++++||||||.+ |    
T Consensus       102 I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g~~isv~~la~~la~~l~~~~~~~~rp~~v~lLvaG~D~~~g~~~~  181 (294)
T 1q5r_H          102 TDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESR  181 (294)
T ss_dssp             EETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHHHTTTTCEEEEEEEECTTCSCTTS
T ss_pred             ECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhCCCCCHHHHHHHHHHHHHHHHhhhcCCcceEEEEEEEeCCCCcCCC
Confidence            579999999999999999999999999999999999999999999999998764    4799999999999985 6    


Q ss_pred             -CEEEEECCCCceeec--CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCc--E-----EEEE
Q 029142           72 -PHLHTIYPHGSTDTL--PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSN--V-----DVCV  141 (198)
Q Consensus        72 -p~Ly~idp~Gs~~~~--~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~--i-----ei~i  141 (198)
                       |+||++||+|++.++  +|+|+|+|+.+++++||+.|+++||++||++++++||..++++|..+|+.  +     +|++
T Consensus       182 ~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~Le~~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~v  261 (294)
T 1q5r_H          182 AGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVT  261 (294)
T ss_dssp             CEEEEEECSSSCEEECCSSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEE
T ss_pred             CCEEEEECCCCeEEecCCCeEEEecCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEE
Confidence             899999999999999  89999999999999999999999999999999999999999999887653  6     9999


Q ss_pred             EecCCeEEeccccC
Q 029142          142 ITKGHKEYLRNHLL  155 (198)
Q Consensus       142 i~k~g~~~~~~~~~  155 (198)
                      |+++|++.+.+.++
T Consensus       262 I~~~g~~~l~~~ei  275 (294)
T 1q5r_H          262 ITQAGAVHVSEETT  275 (294)
T ss_dssp             EETTEEEECCHHHH
T ss_pred             EECCCEEEcCHHHH
Confidence            99999888765433

>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=3.4e-33  Score=230.29  Aligned_cols=145  Identities=17%  Similarity=0.287  Sum_probs=135.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHh-hhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC-CCCE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQL-HRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC-TGPH   73 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~-~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~-~gp~   73 (198)
                      |++||+||+||..||++.+.++++.+++. |++.++.+++++.+++.+++++..+     .+||++++||||+|. .||+
T Consensus        67 i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~  146 (250)
T 1ryp_B           67 LTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFS  146 (250)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEE
T ss_pred             ECCCEEEEeeeCHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcE
Confidence            57899999999999999999999999999 9999999999999988888876433     269999999999997 5799


Q ss_pred             EEEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC
Q 029142           74 LHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH  146 (198)
Q Consensus        74 Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g  146 (198)
                      ||.+||+|++.+++++|+|+|+..++++||+.|+++||.+||++++++||..+++++. ++++++|++|+++|
T Consensus       147 Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~-sg~~i~v~vi~~~~  218 (250)
T 1ryp_B          147 LYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEF-NGDTIELAIIGDEN  218 (250)
T ss_dssp             EEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCC-STTTEEEEEECSCC
T ss_pred             EEEECCCCCEEeeceeEecCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhcccc-CCCCEEEEEEEccc
Confidence            9999999999999999999999999999999999999999999999999999998865 89999999999986

>2jay_A Proteasome; hydrolase; 1.99A {Mycobacterium tuberculosis} PDB: 3mka_C 3mi0_C* 2fhg_H* 2fhh_H 3krd_C* 3mfe_G 3hfa_H* 3h6i_C 3h6f_C 3hf9_H 3mfe_H

Probab=100.00  E-value=6e-33  Score=233.50  Aligned_cols=155  Identities=18%  Similarity=0.182  Sum_probs=135.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC----CccceEEEEEEEeCC-C----
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ----GYVQAALVLGGVDCT-G----   71 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~----~p~gv~~ivaG~D~~-g----   71 (198)
                      |++|++||+||..||++.+.++++.+++.|++.++.+++++.+++.+++++++++    +||+|++||||+|.+ +    
T Consensus        94 i~d~i~~~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~~~~rpf~v~~lvaG~D~~g~~~~~  173 (291)
T 2jay_A           94 TDDYTATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLAGYDIHASDPQS  173 (291)
T ss_dssp             EETTEEEEEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHHHHHHTCCCEEEEEEECTTCSCSTT
T ss_pred             eCCcEEEEEcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhhhhccccceeEEEEEEeCCCCcCCC
Confidence            5789999999999999999999999999999999999999999999999998873    489999999999985 4    


Q ss_pred             -CEEEEECCCCcee--ecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCc--E-----EEEE
Q 029142           72 -PHLHTIYPHGSTD--TLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSN--V-----DVCV  141 (198)
Q Consensus        72 -p~Ly~idp~Gs~~--~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~--i-----ei~i  141 (198)
                       |+||++||+|++.  +++|+|+|+|+.+++++||+.|+++||.+||++++++||..++++|..+++.  +     +|++
T Consensus       174 ~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~~~v~v  253 (291)
T 2jay_A          174 AGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVI  253 (291)
T ss_dssp             CEEEEEECTTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCCSHHHHHHHHHHHHHHC----------------CCEEEE
T ss_pred             CCEEEEECCCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcccccccCCEEEE
Confidence             8999999999988  8999999999999999999999999999999999999999999999887653  2     6999


Q ss_pred             EecCCeEEeccccC
Q 029142          142 ITKGHKEYLRNHLL  155 (198)
Q Consensus       142 i~k~g~~~~~~~~~  155 (198)
                      |+++|++.+.+.++
T Consensus       254 i~~dg~~~l~~~ei  267 (291)
T 2jay_A          254 IDADGAVDVPESRI  267 (291)
T ss_dssp             EETTEEEECCHHHH
T ss_pred             EECCCeEEcCHHHH
Confidence            99999888765544

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

Probab=99.95  E-value=6.8e-27  Score=182.79  Aligned_cols=129  Identities=15%  Similarity=0.117  Sum_probs=116.5

Q ss_pred             CCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC--CccceEEEEEEEeCCCCEEEEECC
Q 029142            2 APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ--GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         2 ~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~--~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      ++|++||+||..||++.+.++++.+++.|++      +....+..+++.+++++  +|++  ++++|+|  ||+||++||
T Consensus        39 ~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~------~~~~~~~~l~~~~~~~~~~r~~~--~~l~g~d--~p~Ly~~d~  108 (174)
T 1g3k_A           39 NGKVLAGFAGGTADAFTLFELFERKLEMHQG------HLLKSAVELAKDWRTDRALRKLE--AMLIVAD--EKESLIITG  108 (174)
T ss_dssp             TTTEEEEEESCHHHHHHHHHHHHHHHHHTTT------CHHHHHHHHHHHHHHSTTGGGCC--CEEEEEC--SSCEEEEET
T ss_pred             CCCEEEEeCccHHHHHHHHHHHHHHHHHhcC------cHHHHHHHHHHHHHhccCcCcce--EEEEEEC--CCEEEEEcC
Confidence            8999999999999999999999999999986      45667778888887764  3654  6777887  899999999


Q ss_pred             CCceeecC---eEEEecChHHHHHHHHhhcc-CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEe
Q 029142           80 HGSTDTLP---FATMGSGSLAAMAMFESKYK-EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVIT  143 (198)
Q Consensus        80 ~Gs~~~~~---~~a~G~gs~~a~~~Le~~~~-~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~  143 (198)
                      +|++.+++   ++|+|+|+++++++||+.|+ ++||.+   +++++||+.+.+||..++++++|++|+
T Consensus       109 ~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt~~---~l~~~al~~a~~rd~~sg~~i~v~~i~  173 (174)
T 1g3k_A          109 IGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAH---EIVEKSLRIAGDICVFTNTNFTIEELP  173 (174)
T ss_dssp             TTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHH---HHHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             CCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCHH---HHHHHHHHHHHHhccccCCceEEEEec
Confidence            99999988   99999999999999999999 999955   799999999999999999999999986

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

Probab=99.95  E-value=8.1e-27  Score=181.81  Aligned_cols=128  Identities=19%  Similarity=0.166  Sum_probs=114.5

Q ss_pred             CCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC--CccceEEEEEEEeCCCCEEEEECC
Q 029142            2 APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ--GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         2 ~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~--~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      ++|++||+||..||++.+.++++.+++.|+++     .++.++++. +.+++++  +||++++|+|  |  ||+||++||
T Consensus        39 ~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~-----~~~~~~~l~-~~~~~~~~~~~~~~~~lv~--D--~p~Ly~~d~  108 (171)
T 1m4y_A           39 EGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAAVELA-KDWRTDRVLRRLEALLLVA--D--KENIFIISG  108 (171)
T ss_dssp             TTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHHHHHH-HHHHHCTTGGGCCCEEEEE--C--SSCEEEECT
T ss_pred             CCCEEEEeCccHHHHHHHHHHHHHHHHHhccc-----HHHHHHHHH-HHHHHhCCCCceEEEEEEE--c--CCEEEEECC
Confidence            89999999999999999999999999999865     266666654 4666553  4799999998  6  899999999


Q ss_pred             CCceeecC--eEEEecChHHHHHHHHhhcc-CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           80 HGSTDTLP--FATMGSGSLAAMAMFESKYK-EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        80 ~Gs~~~~~--~~a~G~gs~~a~~~Le~~~~-~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      +|++.+++  +.|+|+|+++++++||+.|+ ++||.   ++++++||+.+.+||..++++++|+++
T Consensus       109 ~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~---~~l~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          109 NGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA---REIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             TSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH---HHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             CCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCH---HHHHHHHHHHHHHhCcccCCeEEEEEC
Confidence            99999987  99999999999999999999 99997   678999999999999999999999864

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=99.94  E-value=1.3e-26  Score=182.19  Aligned_cols=128  Identities=16%  Similarity=0.093  Sum_probs=114.3

Q ss_pred             CCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc--CCccceEEEEEEEeCCCCEEEEECC
Q 029142            2 APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY--QGYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         2 ~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~--~~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      ++|++||+||..||++.+.++++.+++.|+   +  +.++.+ ..+++.++++  .+||++++|+|    +||+||++||
T Consensus        45 ~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g--~~~~~~-~~l~~~~~~~~~~rp~~~~~lva----d~p~ly~~d~  114 (180)
T 2z3b_A           45 NGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G--NLKRAA-VELAKEWRSDKVLRKLEAMLIVM----NQDTLLLVSG  114 (180)
T ss_dssp             TTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T--CHHHHH-HHHHHHHHHCTTGGGCCCCEEEE----CSSCEEEECT
T ss_pred             CCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C--ChHHHH-HHHHHHHHhhhCcCcceEEEEEE----cCCeEEEECC
Confidence            899999999999999999999999999998   3  334333 3467777654  46999999999    4799999999


Q ss_pred             CCceee--cCeEEEecChHHHHHHHHhhccC---CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           80 HGSTDT--LPFATMGSGSLAAMAMFESKYKE---GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        80 ~Gs~~~--~~~~a~G~gs~~a~~~Le~~~~~---~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      +|++.+  ++++|+|+|+.+|+++||+.|++   +||.||   ++++||+.+.+||..+|++++|++|
T Consensus       115 ~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~mt~ee---l~~~al~~a~~rd~~sg~~i~v~~i  179 (180)
T 2z3b_A          115 TGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSASE---IARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             TCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGGCCHHH---HHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             CCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCCCCHHH---HHHHHHHHHHHhcCccCCeEEEEEE
Confidence            999998  59999999999999999999998   999999   5789999999999999999999998

---

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	198
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	3e-43
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	9e-41
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-32
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	5e-29
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-28
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	6e-28
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-27
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	4e-26
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	5e-26
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	1e-25
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	1e-24
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-24
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	3e-24
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	4e-24
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	4e-24
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	8e-24
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-23
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	1e-22
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	2e-22
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-22
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-22
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	5e-22
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	4e-21
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	5e-21
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	5e-21
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	9e-21
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	9e-21
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	2e-20
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-20
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	7e-20
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	2e-19
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-18
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	6e-18
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	1e-17
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	4e-14
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	4e-11
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	3e-10

>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 =  142 bits (358), Expect = 3e-43
 Identities = 103/187 (55%), Positives = 135/187 (72%), Gaps = 3/187 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK+HLF YQG++ A
Sbjct: 37  ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGA 96

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
            L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMA+ ES +K+ LTK+E I+L  
Sbjct: 97  YLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLAS 156

Query: 121 DAICSGIFNDLGSGSNVDVCVITKG-HKEYLRNHLLPNPRTFVNAKGYSFPK-KTEVLLT 178
           DAI +GI+NDLGSGSNVDVCV+  G   EYLRN+L PN R     K Y FP+  T VL  
Sbjct: 157 DAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVRE-EKQKSYKFPRGTTAVLKE 215

Query: 179 KITPLRE 185
            I  + +
Sbjct: 216 SIVNICD 222

>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 =  135 bits (341), Expect = 9e-41
 Identities = 108/185 (58%), Positives = 138/185 (74%), Gaps = 2/185 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           ++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK+ LF Y+GY+ A
Sbjct: 37  ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGA 96

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
           ALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA+FE K++  + ++E   LV 
Sbjct: 97  ALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVS 156

Query: 121 DAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKK-TEVLLTK 179
           +AI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y   K  T VL  K
Sbjct: 157 EAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKGTRLGR-YRCEKGTTAVLTEK 215

Query: 180 ITPLR 184
           ITPL 
Sbjct: 216 ITPLE 220

>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 =  113 bits (283), Expect = 3e-32
 Identities = 46/160 (28%), Positives = 79/160 (49%), Gaps = 3/160 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +   I+CC +G+AADT+AV D V+ QL  H         V TA +L K+  + Y+  + A
Sbjct: 37  IHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMA 96

Query: 61  ALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
            +++ G D   G  ++++   G      FA  GSGS       ++ Y+EG+TK+E +Q  
Sbjct: 97  GIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFT 156

Query: 120 VDAICSGIFNDLGSGSNVDVCVITKG--HKEYLRNHLLPN 157
            +A+   +  D  SG  + +  I +    ++ L    +P 
Sbjct: 157 ANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPK 196

>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 =  105 bits (262), Expect = 5e-29
 Identities = 37/155 (23%), Positives = 66/155 (42%), Gaps = 2/155 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG--YV 58
           + P +    AG AAD +     + SQ +LH         V  A  +L   ++ Y+G    
Sbjct: 37  INPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLS 96

Query: 59  QAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQL 118
              ++ G     GP ++ +   G+        +GSG   A  + +S YK  L+ ++ + L
Sbjct: 97  MGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYL 156

Query: 119 VVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNH 153
              +I +    D  SG +V++  +T+    Y  NH
Sbjct: 157 GKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNH 191

>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 =  102 bits (255), Expect = 5e-28
 Identities = 43/152 (28%), Positives = 77/152 (50%), Gaps = 2/152 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +   I+CC +G+AADT+A+ D+V   L+L+    G  S   TA ++ K+  +  +  + A
Sbjct: 46  VHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTPSTE-TAASVFKELCYENKDNLTA 104

Query: 61  ALVLGGVDCT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
            +++ G D      ++TI   GS   LP+A  GSGS       +  ++E ++K+E +  +
Sbjct: 105 GIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFI 164

Query: 120 VDAICSGIFNDLGSGSNVDVCVITKGHKEYLR 151
             ++   I  D  SG  + + V+T    E L 
Sbjct: 165 KHSLSQAIKWDGSSGGVIRMVVLTAAGVERLI 196

>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 =  102 bits (256), Expect = 6e-28
 Identities = 30/157 (19%), Positives = 59/157 (37%), Gaps = 11/157 (7%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ- 59
           +  +I C  +G  AD + + D    + Q H +       V +    +      +      
Sbjct: 63  IDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDAD 122

Query: 60  ---------AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGL 110
                     AL+ GGVD  GP L  + P G+        +GS S  A +  +  Y + +
Sbjct: 123 PGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSM 182

Query: 111 TKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
           T  E I+  +  +   +  +  + +N+++  +  G  
Sbjct: 183 TLKEAIKSSLIIL-KQVMEEKLNATNIELATVQPGQN 218

>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 =  100 bits (251), Expect = 2e-27
 Identities = 33/151 (21%), Positives = 64/151 (42%), Gaps = 1/151 (0%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQ 59
           + P +    AG AAD      +++ Q +++         V  A  LL   ++ Y+G  + 
Sbjct: 37  INPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLS 96

Query: 60  AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
              ++ G D  GP L+ +   G+  +    ++GSGS+ A  + +  Y   L  ++   L 
Sbjct: 97  MGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLA 156

Query: 120 VDAICSGIFNDLGSGSNVDVCVITKGHKEYL 150
             AI    + D  SG  V++  + +     +
Sbjct: 157 RRAIYQATYRDAYSGGAVNLYHVREDGWIRV 187

>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 = 98.6 bits (245), Expect = 4e-26
 Identities = 27/159 (16%), Positives = 54/159 (33%), Gaps = 8/159 (5%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----Q 55
           +  +I C  +G   D   + +    +    +        +      L +++  +      
Sbjct: 66  VDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSV 125

Query: 56  GYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFE---SKYKEGLTK 112
                + + GGVD  G HL+ + P GS      A  G G  +A A  E     + EGL+ 
Sbjct: 126 RPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSA 185

Query: 113 DEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLR 151
            E ++     I     ++      +++   +      L 
Sbjct: 186 REAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLH 224

>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 = 98.2 bits (244), Expect = 5e-26
 Identities = 22/150 (14%), Positives = 49/150 (32%), Gaps = 6/150 (4%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY--- 57
           +  ++    AG  AD  ++ D+   +    R + G    +      +  ++  Y  Y   
Sbjct: 69  VDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAV 128

Query: 58  --VQAALVLGGVDCTG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDE 114
                + +LG         L+ I P G +       +G    AA    E    + +T  +
Sbjct: 129 RPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRD 188

Query: 115 GIQLVVDAICSGIFNDLGSGSNVDVCVITK 144
            ++ V   I             +++  + +
Sbjct: 189 IVKEVAKIIYIVHDEVKDKAFELELSWVGE 218

>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 = 96.0 bits (238), Expect = 1e-25
 Identities = 29/149 (19%), Positives = 59/149 (39%), Gaps = 5/149 (3%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHL---FNYQGY 57
           ++P+     AG A DT    + + + +QL+      E       + +++ L      +  
Sbjct: 38  LSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRP 97

Query: 58  VQAALVLGGVD--CTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEG 115
            Q  +++GG D     P L+ I   G+   LP+   G       ++ +  Y+  +T +EG
Sbjct: 98  YQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEG 157

Query: 116 IQLVVDAICSGIFNDLGSGSNVDVCVITK 144
           + L+   +             V V ++ K
Sbjct: 158 LDLLKLCVQELEKRMPMDFKGVIVKIVDK 186

>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 = 94.0 bits (233), Expect = 1e-24
 Identities = 33/152 (21%), Positives = 59/152 (38%), Gaps = 6/152 (3%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY--- 57
           +   +    +G  AD   + D      Q  +   G    +   +  +   +  Y  Y   
Sbjct: 58  IDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGV 117

Query: 58  --VQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEG 115
                +L+  G+D  GP L    P G+ +      +GSG  A ++  E +YKE L + E 
Sbjct: 118 RPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEA 177

Query: 116 IQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
           + L + A+ S +          ++  IT G+K
Sbjct: 178 VTLGIKALKSSLEEGE-ELKAPEIASITVGNK 208

>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 = 93.3 bits (231), Expect = 1e-24
 Identities = 40/146 (27%), Positives = 70/146 (47%), Gaps = 2/146 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQ 59
           +A  +    AG+  D + +  ++  +  L+     R+  V    TL    L +Y+ +   
Sbjct: 37  IADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYL 96

Query: 60  AALVLGGVDCTGPHLHTIYPHG-STDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQL 118
             L++GG+D  G  +++I P G + +       GSGSL A  + E ++   +  DE ++L
Sbjct: 97  VQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVEL 156

Query: 119 VVDAICSGIFNDLGSGSNVDVCVITK 144
            V AI S +  D  SG  +DV  IT+
Sbjct: 157 AVRAIYSAMKRDSASGDGIDVVKITE 182

>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 = 93.6 bits (232), Expect = 3e-24
 Identities = 31/154 (20%), Positives = 62/154 (40%), Gaps = 7/154 (4%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY--- 57
           +  +I    +G  AD   + D    + Q++R        V      +      Y  Y   
Sbjct: 67  IDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGV 126

Query: 58  --VQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEG 115
                +L++ GV+   P L+   P G+        +G G +A    FE +Y++ L+ D+ 
Sbjct: 127 RPFGVSLLIAGVNEV-PKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDA 185

Query: 116 IQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY 149
           + L + A+   I ++L    N++V  +    + +
Sbjct: 186 MVLGLVAMGLSIESELVP-ENIEVGYVKVDDRTF 218

>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 = 93.3 bits (231), Expect = 4e-24
 Identities = 31/181 (17%), Positives = 68/181 (37%), Gaps = 14/181 (7%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQL-HRYHTGRESRVVTALTLLKKHLFNY----- 54
           + P+I    +G   D   + D         ++   G        ++ + K +        
Sbjct: 67  LTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGG 126

Query: 55  -QGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKD 113
            + +  + L+ G  +  G  L+ + P GS        +G GS+AA    E ++ + L  +
Sbjct: 127 VRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELE 186

Query: 114 EGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVNAKGYSFPKKT 173
           + I + +  +   +  +  +G  +++ +I   + + L    +P        KG  F K T
Sbjct: 187 DAIHIALLTLKESVEGEF-NGDTIELAIIGDENPDLLGYTGIP------TDKGPRFRKLT 239

Query: 174 E 174
            
Sbjct: 240 S 240

>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 = 93.2 bits (231), Expect = 4e-24
 Identities = 27/154 (17%), Positives = 55/154 (35%), Gaps = 6/154 (3%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY--- 57
           +   I    AG  AD E + +      Q +      +  V   +  L      Y  +   
Sbjct: 68  LNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGL 127

Query: 58  --VQAALVLGGVDCTG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDE 114
                + +  G D      L+T  P G+       ++G+ + AA  + +  YK+ +  D+
Sbjct: 128 RPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDD 187

Query: 115 GIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKE 148
            I+L +  +     +   +   ++   I KG  +
Sbjct: 188 AIELALKTLSKTTDSSALTYDRLEFATIRKGAND 221

>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 = 92.4 bits (229), Expect = 8e-24
 Identities = 30/155 (19%), Positives = 60/155 (38%), Gaps = 7/155 (4%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHL-----FNYQ 55
           +  ++ C  AG  +D   +T+ +    Q +             +T L         F  +
Sbjct: 67  LNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGK 126

Query: 56  GYVQAALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG-LTKD 113
                +L+  G D   G  L+   P G+        +G+ S AA++M +  YKEG +T  
Sbjct: 127 RPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLK 186

Query: 114 EGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKE 148
             + L +  +   +     S   V++  +T+ + +
Sbjct: 187 SALALAIKVLNKTMDVSKLSAEKVEIATLTRENGK 221

>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 = 90.9 bits (225), Expect = 2e-23
 Identities = 31/156 (19%), Positives = 54/156 (34%), Gaps = 9/156 (5%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV-- 58
              ++    AG A D   +++ +  Q         R+  V  A  LL             
Sbjct: 65  CDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGG 124

Query: 59  ---QAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG----LT 111
                 L++ G D +G HL    P G+   L    +G+ S  A    E            
Sbjct: 125 RPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGN 184

Query: 112 KDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
            DE I+  V+AI   + ++  +  N+ + ++ K   
Sbjct: 185 PDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTP 220

>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 = 89.3 bits (221), Expect = 1e-22
 Identities = 26/155 (16%), Positives = 56/155 (36%), Gaps = 8/155 (5%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY--- 57
           +  +I    AG  AD   + + +  +    R+   R   V   ++L+             
Sbjct: 63  VDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGR 122

Query: 58  --VQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG--LTKD 113
                 L++ G D  GPH+    P  +       ++G+ S +A    E    E      +
Sbjct: 123 RPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLN 182

Query: 114 EGIQLVVDAICSGIFNDLG-SGSNVDVCVITKGHK 147
           E ++  + A+   +  +   +  NV + ++ K  +
Sbjct: 183 ELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLE 217

>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 = 88.9 bits (220), Expect = 2e-22
 Identities = 31/155 (20%), Positives = 55/155 (35%), Gaps = 11/155 (7%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQG---- 56
           +  N+    AG  AD   V +    + Q HR        V      +      Y      
Sbjct: 64  LDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGR 123

Query: 57  --YVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGL--TK 112
             +  +AL++G      P L+   P G+        +G G+ +     E  Y +    T 
Sbjct: 124 RPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETD 183

Query: 113 DEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
           D  I+LV+ A+   +      G N+++ V+ +   
Sbjct: 184 DLTIKLVIKAL---LEVVQSGGKNIELAVMRRDQS 215

>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 = 89.0 bits (220), Expect = 2e-22
 Identities = 23/163 (14%), Positives = 47/163 (28%), Gaps = 14/163 (8%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLF-----NYQ 55
           ++  I     G   D         ++    RY  G +         +           Y 
Sbjct: 66  ISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYM 125

Query: 56  GYVQAALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTK-- 112
             +   L    VD   GP ++   P G          G          E+ +K+      
Sbjct: 126 RPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHI 185

Query: 113 -----DEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYL 150
                ++ ++  +  +   +  +  S ++++V V TK     L
Sbjct: 186 NEESWEKVVEFAITHMIDALGTEF-SKNDLEVGVATKDKFFTL 227

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]} Length = 227

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

 Score = 88.6 bits (219), Expect = 2e-22
 Identities = 19/159 (11%), Positives = 44/159 (27%), Gaps = 14/159 (8%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALT-----LLKKHLFNYQ 55
           +   +     G   + E +         +  Y   R      +L       L        
Sbjct: 48  LYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQP 107

Query: 56  GYVQAALVLGGVDCT----GPHLHTIYPHGSTDTLPFATMG-SGSLAAMAMFESKYKEGL 110
              +  + +  V        P L+ I   GS        +    +          Y+  L
Sbjct: 108 KPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADL 167

Query: 111 TKDEGIQLVVDAICSGIFNDLGSG----SNVDVCVITKG 145
             +  + + V+A+  G   +        ++++V V+ + 
Sbjct: 168 DLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQS 206

>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 = 87.5 bits (216), Expect = 5e-22
 Identities = 24/159 (15%), Positives = 50/159 (31%), Gaps = 14/159 (8%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYH-----TGRESRVVTALTLLKKHLFNYQG- 56
            N     +G  +D + +  ++   +  + Y                   L   ++  +  
Sbjct: 47  DNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSK 106

Query: 57  --YVQAALVLGGVDCTGPH-LHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE----- 108
              +  A+++ GV   G   L  +   G T + P    G G+  A  +            
Sbjct: 107 MNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIP 166

Query: 109 GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
             T     + +V+A+    + D  S  N  + +I K   
Sbjct: 167 KTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTG 205

>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 = 84.5 bits (208), Expect = 4e-21
 Identities = 31/148 (20%), Positives = 57/148 (38%), Gaps = 4/148 (2%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQ 59
           M   +Y   AG A D + V   +  +L L+    GR+ +  T ++++   L+  +     
Sbjct: 44  MGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYY 103

Query: 60  AALVLGGVDCTGPHLHTIYPHGS---TDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGI 116
              V+ G+D                   T  F   G+ +     M ES ++  +  D   
Sbjct: 104 TEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLF 163

Query: 117 QLVVDAICSGIFNDLGSGSNVDVCVITK 144
           + +  A+ + +  D  SG  V V +I K
Sbjct: 164 ETISQAMLNAVDRDAVSGMGVIVHIIEK 191

>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 = 85.1 bits (210), Expect = 5e-21
 Identities = 31/159 (19%), Positives = 55/159 (34%), Gaps = 13/159 (8%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQ- 59
           +  +I C  +G  AD  ++ +   +    H  +   +  V +    +      +      
Sbjct: 62  IDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASG 121

Query: 60  ----------AALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE 108
                      AL++ G D   G  L    P G+        +GSGS  A A   +++  
Sbjct: 122 EERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHS 181

Query: 109 GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
            LT  E   LV+  +   +   L   +N  +  ITK   
Sbjct: 182 SLTLKEAELLVLKILKQVMEEKL-DENNAQLSCITKQDG 219

>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 = 83.8 bits (206), Expect = 5e-21
 Identities = 30/161 (18%), Positives = 57/161 (35%), Gaps = 4/161 (2%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV---VTALTLLKKHLFNYQGY 57
           M+  I     G A DT    + +   +QL++   G E                    +  
Sbjct: 38  MSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTP 97

Query: 58  VQAALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGI 116
               L+L G D   GP L+ +    +    PFA  G G+   +++ +  Y   ++++  +
Sbjct: 98  YHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAV 157

Query: 117 QLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPN 157
           +L+   +       + +     V +I K     L N   P 
Sbjct: 158 ELLRKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNISFPK 198

>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 = 83.3 bits (205), Expect = 9e-21
 Identities = 44/145 (30%), Positives = 70/145 (48%), Gaps = 2/145 (1%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY-VQ 59
           +        AG   D + +   + ++L+L+R        +    TLL   L   +     
Sbjct: 37  IDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYM 96

Query: 60  AALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
             L++GG+D T PH+ +I   G +    +A+ GSGS     + ES+Y E +T DEG+ LV
Sbjct: 97  VQLLVGGID-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLV 155

Query: 120 VDAICSGIFNDLGSGSNVDVCVITK 144
           + AI +    D  SG  +DV VIT+
Sbjct: 156 IRAISAAKQRDSASGGMIDVAVITR 180

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 213

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 83.8 bits (206), Expect = 9e-21
 Identities = 25/155 (16%), Positives = 60/155 (38%), Gaps = 11/155 (7%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV-Q 59
           +        +G   D   +T ++ ++L+++++   +         +L   L++ + +   
Sbjct: 46  LTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYY 105

Query: 60  AALVLGGVDCTGPHLHTIYPHGS-TDTLPFATMGSGSLAAMAMFESKYK---------EG 109
              ++GG+D  G      +          F   GS S     + +++             
Sbjct: 106 VYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVP 165

Query: 110 LTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK 144
           L+ D  ++LV D   S    D+ +G  + +C++TK
Sbjct: 166 LSLDRAMRLVKDVFISAAERDVYTGDALRICIVTK 200

>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 = 83.3 bits (205), Expect = 2e-20
 Identities = 29/171 (16%), Positives = 69/171 (40%), Gaps = 21/171 (12%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-HTGRESRVVTALTLLKKHLFNYQGYV- 58
              NI     G AAD +A+     + ++ + + H  ++  + +A   ++  L+  + +  
Sbjct: 46  CGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPY 105

Query: 59  QAALVLGGVDCTG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG-------- 109
               ++ G+D  G   +++  P GS +       G+ +   M   +++            
Sbjct: 106 YVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTN 165

Query: 110 ---------LTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK-GHKEYL 150
                    L+ +E I+LV D+  S     +  G  +++ ++TK G ++  
Sbjct: 166 GKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKEF 216

>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 = 82.9 bits (204), Expect = 2e-20
 Identities = 22/161 (13%), Positives = 49/161 (30%), Gaps = 6/161 (3%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLH-RYHTGRESRVVTALTLLKKHLFNYQGY---V 58
            +     +G  AD + +  ++   +        G         + L + +++ +     +
Sbjct: 47  NSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPL 106

Query: 59  QAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYK--EGLTKDEGI 116
              +V+GG       L  +   G     P    G G+  A  +     +    L++ E  
Sbjct: 107 WNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEAR 166

Query: 117 QLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPN 157
            LV   +    + D  S +      +T+   E         
Sbjct: 167 DLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTET 207

>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 = 82.0 bits (202), Expect = 7e-20
 Identities = 28/157 (17%), Positives = 57/157 (36%), Gaps = 9/157 (5%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----Q 55
           +  NI C   G  AD+ +       +    +Y  G E  V      +      Y      
Sbjct: 71  ITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEM 130

Query: 56  GYVQAALVLGGVDC-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG--LTK 112
             +   ++L G+D   GP ++   P G          G     + +  E K K+    T 
Sbjct: 131 RPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTF 190

Query: 113 DEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY 149
           ++ ++  +  + + +  D    S ++V V+T  + ++
Sbjct: 191 EQTVETAITCLSTVLSIDFKP-SEIEVGVVTVENPKF 226

>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 = 79.8 bits (196), Expect = 2e-19
 Identities = 29/145 (20%), Positives = 53/145 (36%), Gaps = 4/145 (2%)

Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYV-QAAL 62
           +++    G A D   + +M   +  L++    R     T   L+   L+  +        
Sbjct: 47  HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGP 106

Query: 63  VLGGVDCTG--PHLHTIYPHGSTDTLP-FATMGSGSLAAMAMFESKYKEGLTKDEGIQLV 119
           V+ G++     P +      G  D    F   G+ S     M ES Y+  L  ++  + +
Sbjct: 107 VVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETI 166

Query: 120 VDAICSGIFNDLGSGSNVDVCVITK 144
             A+ +    D  SG    V +I K
Sbjct: 167 SQALLNAADRDALSGWGAVVYIIKK 191

>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 = 77.2 bits (189), Expect = 3e-18
 Identities = 21/169 (12%), Positives = 50/169 (29%), Gaps = 19/169 (11%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAAL 62
                  AGTA     +  + + +L+ +    G           L   +    G     L
Sbjct: 39  EYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGL 98

Query: 63  VLG----------GVDCTGPHLHTIYPHG--STDTLPFATMGSGSLAAMAMFESKYKEGL 110
            +             +     + +    G    +   +  +GSGSL A +  +  Y    
Sbjct: 99  AVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDS 158

Query: 111 TKDEGIQLVVDAICSGIFNDLGSGS-------NVDVCVITKGHKEYLRN 152
            ++  ++  ++++     +D  +G              IT+    ++  
Sbjct: 159 DEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSE 207

>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 = 76.7 bits (188), Expect = 6e-18
 Identities = 19/149 (12%), Positives = 45/149 (30%), Gaps = 6/149 (4%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLL-----KKHLFNYQ 55
           +  +I    +G   D   +        Q +             +  +     +       
Sbjct: 67  ITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGV 126

Query: 56  GYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEG 115
                +L++ G +   P+L    P G+        MG   +      E +Y E L  ++ 
Sbjct: 127 RPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDA 186

Query: 116 IQLVVDAICSGIFNDLGSGSNVDVCVITK 144
           I   +  +       + +  N++V +  +
Sbjct: 187 IHTAILTLKESFEGQM-TEDNIEVGICNE 214

>d1rypd_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 241

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 76.2 bits (187), Expect = 1e-17
 Identities = 23/152 (15%), Positives = 44/152 (28%), Gaps = 7/152 (4%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGY----- 57
            ++    +G  AD+  + +    + Q HR        V      +      Y        
Sbjct: 67  SHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRP 126

Query: 58  VQAALVLGGVDCTG--PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEG 115
              + ++ G D     P L+   P G   +    T+G  S       E  Y         
Sbjct: 127 FGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATV 186

Query: 116 IQLVVDAICSGIFNDLGSGSNVDVCVITKGHK 147
            + V   + S +        N+++ V+     
Sbjct: 187 EECVKLTVRSLLEVVQTGAKNIEITVVKPDSD 218

>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 = 65.2 bits (158), Expect = 4e-14
 Identities = 16/140 (11%), Positives = 43/140 (30%), Gaps = 6/140 (4%)

Query: 3   PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAAL 62
             +    AG+ AD   + +   ++L+ +  +  R +  +       K L   +  +    
Sbjct: 46  GKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAMLIVMN 105

Query: 63  VLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDA 122
               +  +G                   +GSG   A+A   +  K         ++   A
Sbjct: 106 QDTLLLVSGTGEVIEPDD------GILAIGSGGNYALAAGRALKKHAGESMSASEIARAA 159

Query: 123 ICSGIFNDLGSGSNVDVCVI 142
           + +     + +   + +  +
Sbjct: 160 LETAGEICVYTNDQIILEEL 179

>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 = 57.0 bits (137), Expect = 4e-11
 Identities = 15/139 (10%), Positives = 35/139 (25%), Gaps = 7/139 (5%)

Query: 1   MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQA 60
           +       G   +                       ++ V  A       +      +  
Sbjct: 37  LGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGNLTKAAVELAKDWRTDRVLRRLEAL-- 94

Query: 61  ALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVV 120
              L   D     + +            A +GSG   A+A  ++  +   T     ++V 
Sbjct: 95  ---LLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRN--TDLSAREIVE 149

Query: 121 DAICSGIFNDLGSGSNVDV 139
            A+       + +  N+ +
Sbjct: 150 KAMTIAGEICIYTNQNIVI 168

>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 = 54.8 bits (131), Expect = 3e-10
 Identities = 22/143 (15%), Positives = 52/143 (36%), Gaps = 17/143 (11%)

Query: 4   NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALV 63
            +    AG  AD   + ++   +L++H+ H  +     +A+ L K    +       A++
Sbjct: 41  KVLAGFAGGTADAFTLFELFERKLEMHQGHLLK-----SAVELAKDWRTDRALRKLEAML 95

Query: 64  LGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAI 123
           +   +     +  I      +      +GSG   A++   +  +   T+    ++V  ++
Sbjct: 96  IVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVEN--TELSAHEIVEKSL 153

Query: 124 CSGIFNDLGSGSNVDVCVITKGH 146
                         D+CV T  +
Sbjct: 154 ----------RIAGDICVFTNTN 166

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	198
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	99.97
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.97
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.74
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.65
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.56
d1cuka1	48	DNA helicase RuvA subunit, C-terminal domain {Esch	82.3

>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=1.1e-43  Score=285.88  Aligned_cols=183  Identities=59%  Similarity=0.986  Sum_probs=178.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      |++|++||++|..+|++.+.+.++.+++.|++.++++++++.+++++++++|++++|+++++|+||+|.+||+||++||.
T Consensus        37 i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~y~~~~p~~~~~ivaG~D~~g~~L~~id~~  116 (220)
T d1irui_          37 ISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVDVTGPHLYSIYPH  116 (220)
T ss_dssp             EETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEECSSCEEEEEECTT
T ss_pred             ecCcEEEEEccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHhhhhhcccccceeEEEEEEeCCCcEEEEEeCC
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccCCCccc
Q 029142           81 GSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRT  160 (198)
Q Consensus        81 Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~~~~~~  160 (198)
                      |++.+++|+|+|+|+.+++++|++.|+++||.+||++++++||+.+.+||..++++++|++|+++|+++++|++++++|.
T Consensus       117 G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~l~~~al~~~~~~D~~sg~~i~i~vitkdg~~~~~~~~~~~~~~  196 (220)
T d1irui_         117 GSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKG  196 (220)
T ss_dssp             SCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHHHHHHHHCTTCCSCEEEEEEETTEEECCSEEECCCCCC
T ss_pred             CcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHHHHHHHHHHhhccCCCCCCcEEEEEEECCCeEEeCcccccchhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999998


Q ss_pred             ccCCCCCCCCc-cceeeeeEeEecc
Q 029142          161 FVNAKGYSFPK-KTEVLLTKITPLR  184 (198)
Q Consensus       161 ~~~~~~~~~~~-~~~~~~~~~~~~~  184 (198)
                       .+..+++||+ +|++++++++|++
T Consensus       197 -~~~~~~~~~~~~~~~~~~~~~~~~  220 (220)
T d1irui_         197 -TRLGRYRCEKGTTAVLTEKITPLE  220 (220)
T ss_dssp             -CCCSCCCCCTTCSCBSCCCCCBCC
T ss_pred             -hhhhccccCCCCcceeeeeeEECc
Confidence             6889999999 9999999999873

>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=1.4e-42  Score=279.98  Aligned_cols=183  Identities=56%  Similarity=0.886  Sum_probs=176.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      |+++|+||++|..+|++.+.++++.+++.|++.++.++++..+++++++.++++++|+++++|+||+|++||+||.+||+
T Consensus        37 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~p~~~~~l~aG~d~~g~~Ly~id~~  116 (222)
T d1rypi_          37 ISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAH  116 (222)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEETTEEEEEEECTT
T ss_pred             EcCCEEEEecccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHHHHHHHHHHhhhhccceeEEEEEEcCCCcEEEEEecC
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC-CeEEeccccCCCcc
Q 029142           81 GSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG-HKEYLRNHLLPNPR  159 (198)
Q Consensus        81 Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~-g~~~~~~~~~~~~~  159 (198)
                      |++.+++++|+|+|+..++++||+.|+++||++||++++++||+.+++||..++++++|++++++ +.++++++..|+.+
T Consensus       117 G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~l~~~al~~a~~~D~~sg~~i~i~vi~~~~~~~~~~~~~~~~~~  196 (222)
T d1rypi_         117 GSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVR  196 (222)
T ss_dssp             SCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEECCCCC
T ss_pred             cceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCCcEEEEEEEcCCCeEEecCcCCchhh
Confidence            99999999999999999999999999999999999999999999999999999999999999987 56889999999999


Q ss_pred             cccCCCCCCCCc-cceeeeeEeEecc
Q 029142          160 TFVNAKGYSFPK-KTEVLLTKITPLR  184 (198)
Q Consensus       160 ~~~~~~~~~~~~-~~~~~~~~~~~~~  184 (198)
                      . .+...++||+ ||+|++++++++.
T Consensus       197 ~-~~~~~~kf~~~~~~v~~~~~~~~~  221 (222)
T d1rypi_         197 E-EKQKSYKFPRGTTAVLKESIVNIC  221 (222)
T ss_dssp             C-CCSSCCCCCTTCSCEEEEEECCCC
T ss_pred             h-hhhhccCCCCCceeeEeeeeEecc
Confidence            8 7899999999 9999999998874

>d1rypk_ d.153.1.4 (K:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.8e-38  Score=248.32  Aligned_cols=155  Identities=19%  Similarity=0.265  Sum_probs=148.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhc---cCCccceEEEEEEEeC--CCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFN---YQGYVQAALVLGGVDC--TGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~---~~~p~gv~~ivaG~D~--~gp~Ly   75 (198)
                      |++|++||+||..||++.+.+.++.+++.|+++++.+++++.+++++++.+++   +++||++++|+||+|+  +||+||
T Consensus        38 I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~P~~~~~liaG~D~~~~~p~L~  117 (198)
T d1rypk_          38 LSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELY  117 (198)
T ss_dssp             EETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEE
T ss_pred             ecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHHhcccccceEEEEEEEecCCCceEEE
Confidence            68999999999999999999999999999999999999999999999998865   3579999999999997  469999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      .+||+|++.+++|+|+|+|+..+.++||++|+++||.+||++++++||+.+..||..++++++|++|+++|++.+.++++
T Consensus       118 ~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~~l~~~~l~~~~~~d~~s~~~~~v~vi~~dG~~~~~~~~~  197 (198)
T d1rypk_         118 QIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDFQA  197 (198)
T ss_dssp             EECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECCCSC
T ss_pred             EecccccEEecceEEEeccchhhHHHHHhcccccCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCeEEcchhcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999998865

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.1e-37  Score=247.25  Aligned_cols=155  Identities=21%  Similarity=0.277  Sum_probs=149.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |+++++||++|..+|++.+.++++.+++.|++.++.+++++.+++++++++++++ +||++++++||+|++||+||.+||
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~p~~~~~lvaG~d~~~~~l~~~d~  116 (201)
T d1irul_          37 INPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDS  116 (201)
T ss_dssp             EETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCBEEEEEEECSSSEEEEEEES
T ss_pred             eCCcEEEEEcCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHHHHHHHHhhhccCCCceEEEEEEEEecCCceEEEEcc
Confidence            5899999999999999999999999999999999999999999999999999885 699999999999999999999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      +|++.+++++|+|+|+.+++++||+.|+++||.+||++++++||+.+.+||..++++++|++|+++|.+.+.+.++
T Consensus       117 ~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~l~~~~l~~~~~~d~~sg~~~~v~~i~~~G~~~i~~~ev  192 (201)
T d1irul_         117 EGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVREDGWIRVSSDNV  192 (201)
T ss_dssp             SSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEECSSCEEEEEEEEH
T ss_pred             CceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHhCCCCCCceEEEEEeCCceEEECHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999999999998877655

>d1ryph_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.6e-37  Score=247.32  Aligned_cols=150  Identities=28%  Similarity=0.465  Sum_probs=143.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCC-CCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCT-GPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~-gp~Ly~idp   79 (198)
                      |++|++||++|..+|++.+.++++.+++.|+++++++ ++..+++++++++|++++||++++|+||+|+. +|+||++||
T Consensus        46 i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~p~~~~~lvaG~d~~~~p~Ly~~d~  124 (205)
T d1ryph_          46 VHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-STETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPL  124 (205)
T ss_dssp             EETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-CHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECT
T ss_pred             ccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-cHHHHHHHHHHHHHhCccCceEEEEEEeecCCCCcEEEEECC
Confidence            5899999999999999999999999999999999965 58899999999999999999999999999974 699999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEec
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLR  151 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~  151 (198)
                      .|++.+++|+|+|+|+.+++++||+.|+++||.+||++++++||+.+++||..+|++++|++|||+|+++..
T Consensus       125 ~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~al~~a~~rD~~sg~~v~v~iitk~G~~~~~  196 (205)
T d1ryph_         125 GGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLI  196 (205)
T ss_dssp             TSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEE
T ss_pred             CCcEEecCeEEeecCcHHHHHHHHhhhhcccCHHHHHHHHHHHHHHHHHhcCcCCCCEEEEEEcCCceEEEe
Confidence            999999999999999999999999999999999999999999999999999999999999999999998764

>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=6.6e-37  Score=242.89  Aligned_cols=156  Identities=30%  Similarity=0.479  Sum_probs=148.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeC-CCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDC-TGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~-~gp~Ly~idp   79 (198)
                      |++|++||++|..+|++.+.++++.+++.|+++++++++++.+++++++.+|++++|+++++|+||+|+ ++|+||.+||
T Consensus        37 i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~~p~~~~~lvaG~d~~~~~~l~~~d~  116 (202)
T d1iruh_          37 IHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPM  116 (202)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECT
T ss_pred             cCCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHhhccceeEEEEEEEeecCCCcEEEEECC
Confidence            589999999999999999999999999999999999999999999999999999999999999999998 4699999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEE--eccccCC
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY--LRNHLLP  156 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~--~~~~~~~  156 (198)
                      .|++.+.+|+|+|+|+.+++++|++.|+++|+.+||++++++||+.+++||..+|++++|++|+++|.++  +.+-+++
T Consensus       117 ~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l~~~al~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~  195 (202)
T d1iruh_         117 GGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIP  195 (202)
T ss_dssp             TSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSC
T ss_pred             CCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHHHHHHHHHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhh
Confidence            9999999999999999999999999999999999999999999999999999999999999999999875  4443333

>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=1.6e-36  Score=242.48  Aligned_cols=156  Identities=23%  Similarity=0.308  Sum_probs=148.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeC-CCCEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDC-TGPHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~-~gp~Ly~id   78 (198)
                      |+++|+||+||..+|++.+.++++.+++.|++.++++++++.+++++++++|+|+ .|++++.+++|+|+ .||+||.+|
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~p~~~~~~l~G~~~~~g~~Ly~id  116 (212)
T d1rypl_          37 INPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVD  116 (212)
T ss_dssp             EETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEE
T ss_pred             ECCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHhccCCcceEeeeeEeecCCCCEEEEEC
Confidence            5899999999999999999999999999999999999999999999999999885 48889999999887 569999999


Q ss_pred             CCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccCC
Q 029142           79 PHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLP  156 (198)
Q Consensus        79 p~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~~  156 (198)
                      |+|++.+++++|+|+|+..++++||+.|+++||++||++++++||+.+.+||..++++++|++|+++|++.+.+.++.
T Consensus       117 ~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~l~~~al~~~~~rd~~sg~~v~v~vi~~~g~~~~~~~ev~  194 (212)
T d1rypl_         117 SDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVG  194 (212)
T ss_dssp             TTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHH
T ss_pred             CCceEEecceEEEccCcccchhHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEcCCceEEeCHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998877653

>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=1e-35  Score=235.37  Aligned_cols=155  Identities=26%  Similarity=0.370  Sum_probs=147.5

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |+++++||+||..+|++.+.++++.+++.|++.++++++++.++++++++++.++ +||++++|+||+|+.||+||.+||
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~lvaG~d~~~~~l~~~d~  116 (202)
T d1j2qh_          37 IADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDP  116 (202)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEETTEEEEEEECT
T ss_pred             ecCcEEEEecCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHHHHHHHHHhhhcccceeeEEEEEEEcCCCceEEEEeC
Confidence            5799999999999999999999999999999999999999999999999998875 599999999999999999999999


Q ss_pred             CCceeec-CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           80 HGSTDTL-PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        80 ~Gs~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      +|++.++ +++|+|+|+..++++||++|+++||.+||++++++||+.++++|..++++++|++|+++|++.+.|.++
T Consensus       117 ~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~al~~~~~~d~~~g~~v~v~~i~~~g~~~~~~~ei  193 (202)
T d1j2qh_         117 IGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKITEDEFYQYSPEEV  193 (202)
T ss_dssp             TCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTTCTTSCSCEEEEEECSSCEEECHHHHH
T ss_pred             CCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCEEEeCHHHH
Confidence            9998765 699999999999999999999999999999999999999999999999999999999999998877654

>d1yarh1 d.153.1.4 (H:1-203) Proteasome beta subunit (catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=1.2e-35  Score=235.60  Aligned_cols=154  Identities=29%  Similarity=0.394  Sum_probs=145.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCCCEEEEECC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTGPHLHTIYP   79 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~gp~Ly~idp   79 (198)
                      |++|++||+||.++|++.+.++++.+++.|++.++++++++.+++++++++++++ +||++++|+||+|. +|+||.+||
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~p~~~~~lvaG~d~-~p~l~~~d~  115 (203)
T d1yarh1          37 IDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGIDT-APHVFSIDA  115 (203)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEESS-SEEEEEECT
T ss_pred             ecCCeeeecCCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHhhccCCccceeEEEEEcC-CCeeEecCC
Confidence            5899999999999999999999999999999999999999999999999998875 79999999999985 699999999


Q ss_pred             CCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEec-CCeEEeccccC
Q 029142           80 HGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK-GHKEYLRNHLL  155 (198)
Q Consensus        80 ~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k-~g~~~~~~~~~  155 (198)
                      +|++.+++++|+|+|+..++++||+.|+++||.+||++++++||+.+.+||..++++++|++|++ +|.+.+.+.++
T Consensus       116 ~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~~v~v~ii~~~~g~~~l~~~ei  192 (203)
T d1yarh1         116 AGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQI  192 (203)
T ss_dssp             TCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHH
T ss_pred             ccceecccccccCCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCEEECCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999985 57777765443

>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=7.4e-36  Score=242.00  Aligned_cols=153  Identities=20%  Similarity=0.307  Sum_probs=142.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc----------CCccceEEEEEEEeCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY----------QGYVQAALVLGGVDCT   70 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~----------~~p~gv~~ivaG~D~~   70 (198)
                      |++|++||+||..+|++.+.+.++.++..|++.++++++++.+++++++++++|          .+||++++|+||+|++
T Consensus        63 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~  142 (234)
T d1irue_          63 IDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEK  142 (234)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETT
T ss_pred             ccCcEEEEEeeccchHHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCC
Confidence            689999999999999999999999999999999999999999999999988654          4699999999999999


Q ss_pred             CCEEEEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC-CeEE
Q 029142           71 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG-HKEY  149 (198)
Q Consensus        71 gp~Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~-g~~~  149 (198)
                      ||+||++||+|++.+++++|+|+|+..++++||+.|+++|+++||++++++||+.+.++| .++++++|++|+++ +++.
T Consensus       143 gp~Ly~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~-~~~~~iei~ii~~~~~~k~  221 (234)
T d1irue_         143 GPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEK-LNATNIELATVQPGQNFHM  221 (234)
T ss_dssp             EEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSC-CCTTSEEEEEECSSSCCEE
T ss_pred             CCEEEEEecCcccceeeeEEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhcc-CCCCCEEEEEEECCCCEEE
Confidence            999999999999999999999999999999999999999999999999999999988777 57789999999985 6777


Q ss_pred             ecccc
Q 029142          150 LRNHL  154 (198)
Q Consensus       150 ~~~~~  154 (198)
                      +.+.+
T Consensus       222 l~~~e  226 (234)
T d1irue_         222 FTKEE  226 (234)
T ss_dssp             CCHHH
T ss_pred             CCHHH
Confidence            76543

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.7e-35  Score=239.81  Aligned_cols=153  Identities=21%  Similarity=0.202  Sum_probs=142.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++|++|++||.++|++.+.++++.+++.|++.++++++++.+++.++++++++     +||||+++||||+|++||+||
T Consensus        65 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~g~~Ly  144 (233)
T d1rypf_          65 CDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLL  144 (233)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEE
T ss_pred             cCCCEEEEEeeccccHHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCCCCEEE
Confidence            689999999999999999999999999999999999999999999999988643     469999999999999999999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhc----cCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC-eEEe
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKY----KEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH-KEYL  150 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~----~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g-~~~~  150 (198)
                      ++||+|++.+++++|+|+|+..++++||+.|    +++|+++||++++++||..+..+|..++.+++|+||++++ .+.+
T Consensus       145 ~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~~l  224 (233)
T d1rypf_         145 EFQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIY  224 (233)
T ss_dssp             EECTTSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEE
T ss_pred             EEccccceecccEEEecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeEEC
Confidence            9999999999999999999999999999765    6799999999999999999999999999999999999984 4555


Q ss_pred             ccc
Q 029142          151 RNH  153 (198)
Q Consensus       151 ~~~  153 (198)
                      .+-
T Consensus       225 ~~~  227 (233)
T d1rypf_         225 DGE  227 (233)
T ss_dssp             EGG
T ss_pred             CHH
Confidence            543

>d1ryp2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.8e-35  Score=239.33  Aligned_cols=164  Identities=16%  Similarity=0.232  Sum_probs=151.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhc-----CCCCCHHHHHHHHHHHHhcc---CCccceEEEEEEEeCCC-
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHT-----GRESRVVTALTLLKKHLFNY---QGYVQAALVLGGVDCTG-   71 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~-----~~~i~v~~la~~l~~~l~~~---~~p~gv~~ivaG~D~~g-   71 (198)
                      |++|++||++|..+|++.+.+.++.++..|++.+     +..++++.+++++++++|.+   .+|+++++|+||+|.+| 
T Consensus        45 i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~y~~~~~~~P~~~~~liaG~d~~g~  124 (233)
T d1ryp2_          45 VGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGD  124 (233)
T ss_dssp             ETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSC
T ss_pred             eCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCCCCCcccCHHHHHHHHHHHHHhhccccCCceeEEEEEEEcCCCC
Confidence            6899999999999999999999999999998876     56789999999999988754   47999999999999866 


Q ss_pred             CEEEEECCCCceeecCeEEEecChHHHHHHHHhhcc-----CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC-
Q 029142           72 PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYK-----EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG-  145 (198)
Q Consensus        72 p~Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~-----~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~-  145 (198)
                      |+||.+||+|++.+++++|+|+|+.+++++||+.|+     |+||.+||++++++||+.++.||+.++++++|++|++| 
T Consensus       125 ~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~~i~i~~itkd~  204 (233)
T d1ryp2_         125 QFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNT  204 (233)
T ss_dssp             EEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCCSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTT
T ss_pred             eEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHHhhcccccccCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCC
Confidence            789999999999999999999999999999999998     79999999999999999999999999999999999997 


Q ss_pred             CeEEeccccCCC-cccccCC
Q 029142          146 HKEYLRNHLLPN-PRTFVNA  164 (198)
Q Consensus       146 g~~~~~~~~~~~-~~~~~~~  164 (198)
                      |+++..|.++++ .|.|++.
T Consensus       205 g~~~~~~~~ie~~~~~~a~~  224 (233)
T d1ryp2_         205 GLTFKKNLQVENMKWDFAKD  224 (233)
T ss_dssp             EEEEEEEEECCSCCCGGGGG
T ss_pred             CEEECChhcchhhhhhHhhh
Confidence            799999999976 6776543

>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=3e-35  Score=236.45  Aligned_cols=153  Identities=20%  Similarity=0.312  Sum_probs=142.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++|++||++|..+|++.+.+.++.+++.|++.++++++++.+++.++.+++++     .+||++++|+||+|++||+||
T Consensus        58 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~gp~Ly  137 (221)
T d1yara1          58 IDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLF  137 (221)
T ss_dssp             EETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEE
T ss_pred             ecCCceEEeeeccchHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecCCCeEE
Confidence            689999999999999999999999999999999999999999999999987654     369999999999999999999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEec-CCeEEecccc
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK-GHKEYLRNHL  154 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k-~g~~~~~~~~  154 (198)
                      ++||+|++.+++++|+|+|+..++++||+.|+++||++||++++++||+.++++|. ++++++|++|++ ++.+.+.+.+
T Consensus       138 ~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~-~~~~~ei~~i~~~~~~r~l~~~e  216 (221)
T d1yara1         138 DCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNKYRIYDQEE  216 (221)
T ss_dssp             EECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEETTSCCEECCHHH
T ss_pred             EEcCCccEEEeeEEEECCchHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHhccC-CCCCcEEEEEEcCCCEEECCHHH
Confidence            99999999999999999999999999999999999999999999999999998875 778999999997 5677776544

>d1iruc_ d.153.1.4 (C:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.6e-35  Score=240.14  Aligned_cols=146  Identities=20%  Similarity=0.243  Sum_probs=139.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCC-CCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCT-GPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~-gp~L   74 (198)
                      |++||+||+||..+|++.+.+.++.++..|++.++++++++.+++.++.+++.+     .+||++++||||+|++ ||+|
T Consensus        67 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~L  146 (250)
T d1iruc_          67 LNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQL  146 (250)
T ss_dssp             CSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEE
T ss_pred             CCCcEEEEeecccchHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEE
Confidence            789999999999999999999999999999999999999999999999988654     3599999999999984 6999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccC-CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCC
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE-GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGH  146 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~-~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g  146 (198)
                      |.+||+|++.+++++|+|+|+..++++||+.|++ +||++||++++++||+.++++|..++++++|++|++++
T Consensus       147 y~~Dp~G~~~~~~~~a~G~gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~  219 (250)
T d1iruc_         147 YQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTREN  219 (250)
T ss_dssp             EEEETTTEEEECSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCS
T ss_pred             EEEcccccEeeeeEEEeCcChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCC
Confidence            9999999999999999999999999999999985 89999999999999999999999999999999999987

>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=3.7e-35  Score=239.99  Aligned_cols=159  Identities=17%  Similarity=0.283  Sum_probs=146.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHH-hhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC-CCCE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQ-LHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC-TGPH   73 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~-~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~-~gp~   73 (198)
                      |++|++||+||.++|++.++++++.+++ .|++.++.+++++.+++.++++++.+     .+||++++||||+|+ .||+
T Consensus        67 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~  146 (250)
T d1rypb_          67 LTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFS  146 (250)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEE
T ss_pred             ccCCEEEEeeecccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCE
Confidence            6899999999999999999999999986 58899999999999999999987543     369999999999997 5799


Q ss_pred             EEEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccc
Q 029142           74 LHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNH  153 (198)
Q Consensus        74 Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~  153 (198)
                      ||++||+|++.+++++|+|+|+..++++||++|+++||++||++++++||+.++.+|. ++++++|++|++++...+.+.
T Consensus       147 Ly~id~~G~~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~vi~~~~~~~~~~~  225 (250)
T d1rypb_         147 LYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEF-NGDTIELAIIGDENPDLLGYT  225 (250)
T ss_dssp             EEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCC-STTTEEEEEECSCCGGGTSEE
T ss_pred             EEEEcCcEEEEEeeEEecCcchHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhhccC-CCCCEEEEEEeCCCccccccc
Confidence            9999999999999999999999999999999999999999999999999999999995 789999999999999888777


Q ss_pred             cCCCccc
Q 029142          154 LLPNPRT  160 (198)
Q Consensus       154 ~~~~~~~  160 (198)
                      .++.++.
T Consensus       226 ~v~~~~~  232 (250)
T d1rypb_         226 GIPTDKG  232 (250)
T ss_dssp             SCSSCCC
T ss_pred             ccccccC
Confidence            7666654

>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=8.5e-35  Score=233.01  Aligned_cols=163  Identities=13%  Similarity=0.132  Sum_probs=152.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhh-hcCCCCCHHHHHHHHHHHHhcc---CCccceEEEEEEEeCCCCEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-HTGRESRVVTALTLLKKHLFNY---QGYVQAALVLGGVDCTGPHLHT   76 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~-~~~~~i~v~~la~~l~~~l~~~---~~p~gv~~ivaG~D~~gp~Ly~   76 (198)
                      |+++++||++|..+|++.+.+.++.++..+++ .++.+++++.+++++++.+|.+   .+|+++++|+||+|.++|+||.
T Consensus        45 i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~y~~~~~~~p~~~~~li~G~d~~~~~l~~  124 (217)
T d1iru2_          45 VNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGY  124 (217)
T ss_dssp             ETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCCCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEE
T ss_pred             eCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCCCCHHHHHHHHHHHHHHhccccCcccceEEEEEEcCCCcEEEE
Confidence            58999999999999999999999999988775 4679999999999999988754   4699999999999988899999


Q ss_pred             ECCCCceeecCeEEEecChHHHHHHHHhhcc--CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEecccc
Q 029142           77 IYPHGSTDTLPFATMGSGSLAAMAMFESKYK--EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHL  154 (198)
Q Consensus        77 idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~--~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~  154 (198)
                      +||+|++.+++++|+|+|+.+++++||+.|+  ++||.+||++++++||+.+++||..++++++|++|+++|+++..|++
T Consensus       125 ~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi~~~G~~~~~~~~  204 (217)
T d1iru2_         125 VDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLS  204 (217)
T ss_dssp             ECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEEC
T ss_pred             EecCceeEeeeEEeccCcHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEeCCCEEEcCCee
Confidence            9999999999999999999999999999765  89999999999999999999999999999999999999999999999


Q ss_pred             CCCcccccC
Q 029142          155 LPNPRTFVN  163 (198)
Q Consensus       155 ~~~~~~~~~  163 (198)
                      ++..|++++
T Consensus       205 ~~~~~~~a~  213 (217)
T d1iru2_         205 TETNWDIAH  213 (217)
T ss_dssp             CCCCCGGGG
T ss_pred             ccccHHHHh
Confidence            998888643

>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=9.2e-35  Score=236.86  Aligned_cols=148  Identities=19%  Similarity=0.239  Sum_probs=141.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |++|++|+++|.++|++.+.+.++.+++.|++.++++++++.+++.++++++.+     .+||++++||||+|+ .||+|
T Consensus        68 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~L  147 (244)
T d1rypc_          68 LNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQL  147 (244)
T ss_dssp             SSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEE
T ss_pred             cCCCeEEEEecccCcHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceE
Confidence            689999999999999999999999999999999999999999999999987643     469999999999997 46999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeE
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKE  148 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~  148 (198)
                      |.+||+|++.+++++|+|+|+..++++||+.|+++||++||++++++||+.+.+||..++++++|++|+++|..
T Consensus       148 y~id~~Gs~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~~d~~~~~~iei~ii~~~~~~  221 (244)
T d1rypc_         148 YTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGAND  221 (244)
T ss_dssp             EEECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSS
T ss_pred             EEecCCCcEeeeeeeeccchhHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999853

>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=9.7e-35  Score=236.59  Aligned_cols=154  Identities=15%  Similarity=0.161  Sum_probs=143.4

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCC-CCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCT-GPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~-gp~L   74 (198)
                      |++|++|++||..+|++.+.++++.++++|++.++.+++++.+++.+++.++.+     .+||++++|+||+|++ ||+|
T Consensus        66 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~L  145 (243)
T d1rypa_          66 ISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSI  145 (243)
T ss_dssp             CSSSCEEEEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEE
T ss_pred             cCCCEEEEEecCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeE
Confidence            689999999999999999999999999999999999999999999999877543     5699999999999974 6999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccC-------CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCe
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE-------GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHK  147 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~-------~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~  147 (198)
                      |++||+|++.+++++|+|+|+..++++||++|++       ++|.+||++++++||+.+..+|. ++++++|+|++++|+
T Consensus       146 y~~Dp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~-~~~~iei~iitk~g~  224 (243)
T d1rypa_         146 YKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEF-SKNDLEVGVATKDKF  224 (243)
T ss_dssp             EEECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCC-CTTSEEEEEEETTEE
T ss_pred             EEEcCCEEEEecceEEeCccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCCce
Confidence            9999999999999999999999999999999985       45999999999999999999996 788999999999999


Q ss_pred             EEeccccC
Q 029142          148 EYLRNHLL  155 (198)
Q Consensus       148 ~~~~~~~~  155 (198)
                      +.+.+.++
T Consensus       225 ~~l~~eeI  232 (243)
T d1rypa_         225 FTLSAENI  232 (243)
T ss_dssp             EECCHHHH
T ss_pred             EEeCHHHH
Confidence            98876654

>d1iruf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=9.7e-35  Score=236.04  Aligned_cols=155  Identities=17%  Similarity=0.176  Sum_probs=141.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |+++|+||+||..+|++.+++.++.++..|++.++++++++.+++.++...++|     ++||++++||||+|++||+||
T Consensus        63 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~gp~Ly  142 (238)
T d1iruf_          63 VDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIF  142 (238)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEE
T ss_pred             eCCceEEEEeccchHHHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCCCceEE
Confidence            689999999999999999999999999999999999999999999998875433     479999999999999999999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEecC-CeEEec
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGL--TKDEGIQLVVDAICSGIFND-LGSGSNVDVCVITKG-HKEYLR  151 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~m--s~eeai~la~~al~~~~~~d-~~sg~~iei~ii~k~-g~~~~~  151 (198)
                      ++||+|++.+++++|+|+|+..++++||+.|+++|  +.+||+++|++||+.++.+| ..++.+|+|++|+++ +++.+.
T Consensus       143 ~~D~~G~~~~~~~~a~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~~~l~  222 (238)
T d1iruf_         143 QTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYD  222 (238)
T ss_dssp             EECSSSCEEEESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEEC
T ss_pred             EEcCCCCEEeeeeEEECCCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCEEECC
Confidence            99999999999999999999999999999999865  89999999999999988665 357889999999998 566666


Q ss_pred             cccC
Q 029142          152 NHLL  155 (198)
Q Consensus       152 ~~~~  155 (198)
                      +-++
T Consensus       223 ~~ei  226 (238)
T d1iruf_         223 DDDV  226 (238)
T ss_dssp             SGGG
T ss_pred             HHHH
Confidence            5544

>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=2.8e-34  Score=232.01  Aligned_cols=154  Identities=14%  Similarity=0.165  Sum_probs=146.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |+++++||++|..+|++.+.++++.+++.|++.++++++++.+++.+++.++++     .+|++++++++|+|++||+||
T Consensus        67 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~~~~~ly  146 (233)
T d1irub_          67 ITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLF  146 (233)
T ss_dssp             SSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEE
T ss_pred             ecCceEEEEeccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeecccCCceEE
Confidence            689999999999999999999999999999999999999999999999987643     369999999999999999999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccC
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLL  155 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~  155 (198)
                      .+||.|++.+++++|+|+|+..++++||+.|+++||++||++++++||+.++++|. ++++++|++++++|++.+.|.++
T Consensus       147 ~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~~~d~-~~~~vev~ii~~~g~~~l~~~eI  225 (233)
T d1irub_         147 QSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQM-TEDNIEVGICNEAGFRRLTPTEV  225 (233)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCC-CSSSEEEEEEETTEEEECCHHHH
T ss_pred             EEcCCcceEeccceecCCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHhccC-CCCcEEEEEEeCCCeEECCHHHH
Confidence            99999999999999999999999999999999999999999999999999999997 56789999999999999988765

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=6.5e-34  Score=231.93  Aligned_cols=147  Identities=19%  Similarity=0.251  Sum_probs=137.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |++|++||+||.++|++.+.+.++.+++.|++.++++++++.+++.++.+++.+     .+||++++||||||+ .||+|
T Consensus        71 I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~L  150 (244)
T d1irua_          71 ITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQV  150 (244)
T ss_dssp             SSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEE
T ss_pred             ecCCcEEEEecchHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEE
Confidence            789999999999999999999999999999999999999999999999887643     479999999999997 56999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhcc--CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeE
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYK--EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKE  148 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~--~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~  148 (198)
                      |++||+|++.+++++|+|+|+..++++||++|+  ++|+++||++++++||+.++.+|. ++++++|+||++++..
T Consensus       151 y~~Dp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~-~~~~iev~ii~~~~~~  225 (244)
T d1irua_         151 YKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDF-KPSEIEVGVVTVENPK  225 (244)
T ss_dssp             EEECTTSCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCC-CTTSEEEEEEETTEEE
T ss_pred             EEEcCCccEEecceEeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEEEeCCCc
Confidence            999999999999999999999999999999994  589999999999999999999996 5578999999998753

>d1irug_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.4e-34  Score=236.10  Aligned_cols=151  Identities=15%  Similarity=0.117  Sum_probs=139.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC-CCCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC-TGPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~-~gp~L   74 (198)
                      |++|++|++||..+|++.++++++.+++.|++.++++++++.+++.++++++.|     .+||+|++||||+|+ +||+|
T Consensus        69 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~L  148 (245)
T d1irug_          69 VDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQL  148 (245)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEE
T ss_pred             cCCCEEEEeccCchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceE
Confidence            689999999999999999999999999999999999999999999999987654     359999999999997 56999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC--CeEEec
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG--HKEYLR  151 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~--g~~~~~  151 (198)
                      |.+||+|++.+++++|+|+|++.++++||+.|+++||.+||++++++||+.+.+++..++.+++|++|+++  +.+.+.
T Consensus       149 y~iDp~G~~~~~~~~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~~~~~~~~~  227 (245)
T d1irug_         149 YMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIV  227 (245)
T ss_dssp             EEECTTCCEEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEEC
T ss_pred             EEEcCCceEEeeeEEEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEecCCCeEEEC
Confidence            99999999999999999999999999999999999999999999999999999888778889999999885  554443

>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=2e-34  Score=234.58  Aligned_cols=154  Identities=20%  Similarity=0.238  Sum_probs=141.8

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----------CCccceEEEEEEEeC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----------QGYVQAALVLGGVDC   69 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----------~~p~gv~~ivaG~D~   69 (198)
                      |+++++||+||..+|++.+.++++.+++.|++.++++++++.+++.+++++++|           .+||++++||||+|+
T Consensus        62 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~  141 (242)
T d1rype_          62 IDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDA  141 (242)
T ss_dssp             EETTEEEEEEESGGGHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEET
T ss_pred             cCCCEEEEEeecchhHHHHHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEecc
Confidence            589999999999999999999999999999999999999999999999987653           369999999999997


Q ss_pred             CC-CEEEEECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEec-CCe
Q 029142           70 TG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITK-GHK  147 (198)
Q Consensus        70 ~g-p~Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k-~g~  147 (198)
                      +| |+||.+||+|++.+++++|+|+|+..++++||++|+++||++||++++++||+.+.++|. +.++++|++|++ +|+
T Consensus       142 ~~~p~L~~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~-~~~~~~v~~i~~~~g~  220 (242)
T d1rype_         142 DDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKL-DENNAQLSCITKQDGF  220 (242)
T ss_dssp             TTEEEEEEECTTSCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCC-CTTSEEEEEEETTTEE
T ss_pred             ccceEEEEEcCCCceeccceeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccC-CCCceEEEEEECCCCe
Confidence            55 999999999999999999999999999999999999999999999999999999998886 556899999986 688


Q ss_pred             EEeccccC
Q 029142          148 EYLRNHLL  155 (198)
Q Consensus       148 ~~~~~~~~  155 (198)
                      +.+.+.++
T Consensus       221 ~~l~~~~i  228 (242)
T d1rype_         221 KIYDNEKT  228 (242)
T ss_dssp             EECCHHHH
T ss_pred             EECCHHHH
Confidence            87765443

>d1j2pa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=7.6e-34  Score=231.38  Aligned_cols=152  Identities=20%  Similarity=0.268  Sum_probs=140.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |+++++||+||..+|++.+.++++.++..|++.++.+++++.+++.++..++.+     ++||++++|+||+|. +|+||
T Consensus        67 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~-~p~Ly  145 (243)
T d1j2pa_          67 IDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE-VPKLY  145 (243)
T ss_dssp             CSSSEEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS-SEEEE
T ss_pred             cCCcEEEEeeecccHHHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC-CceEE
Confidence            789999999999999999999999999999999999999999999999988643     459999999999985 69999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC--CeEEeccc
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG--HKEYLRNH  153 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~--g~~~~~~~  153 (198)
                      .+||+|++.+++++|+|+|+..++++||+.|+++||++||++++++||+.++++|. ++++++|++++++  +++.+.+.
T Consensus       146 ~~Dp~G~~~~~~~~a~G~g~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~~~~d~-~~~~iei~iv~~~~~~~~~l~~~  224 (243)
T d1j2pa_         146 ETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESEL-VPENIEVGYVKVDDRTFKEVSPE  224 (243)
T ss_dssp             EECTTCCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCC-CGGGEEEEEEETTTCCCEECCHH
T ss_pred             EEeccCceeeeeEEEeCCCcHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhccc-CCCceEEEEEEeCCCcEEECCHH
Confidence            99999999999999999999999999999999999999999999999999999996 5579999999876  55655544


Q ss_pred             c
Q 029142          154 L  154 (198)
Q Consensus       154 ~  154 (198)
                      +
T Consensus       225 e  225 (243)
T d1j2pa_         225 E  225 (243)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=2.1e-33  Score=222.87  Aligned_cols=149  Identities=22%  Similarity=0.294  Sum_probs=141.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-CCccceEEEEEEEeCCC--CEEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQAALVLGGVDCTG--PHLHTI   77 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-~~p~gv~~ivaG~D~~g--p~Ly~i   77 (198)
                      |++|++||++|..+|++.+.++++.+++.|++.++.+++++.+++++++++|.+ ++|+++++||||+|+++  |.+|.+
T Consensus        44 I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~p~~~~~lvaG~D~~~~~~~~~~~  123 (204)
T d1iruj_          44 MGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSL  123 (204)
T ss_dssp             CSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEE
T ss_pred             eCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccchHHHHHHHHHHHHHhhhccceeEEEEEEEcCCCCceEEEEe
Confidence            789999999999999999999999999999999999999999999999999877 46999999999999753  789999


Q ss_pred             CCCCceee-cCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEE
Q 029142           78 YPHGSTDT-LPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY  149 (198)
Q Consensus        78 dp~Gs~~~-~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~  149 (198)
                      |+.|.... ..++++|+|+..++++|++.|+++||.+||++++++||+.+.+||..++++++|++|+++|++.
T Consensus       124 d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~~ea~~l~~~al~~a~~rd~~sg~~~~v~ii~k~gi~~  196 (204)
T d1iruj_         124 DLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDKITT  196 (204)
T ss_dssp             CTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEEE
T ss_pred             cCCCceeeecceEEechhHHHHHHHHHhccccCCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEeCCCEEE
Confidence            99998766 4689999999999999999999999999999999999999999999999999999999999884

>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=1.3e-33  Score=230.22  Aligned_cols=145  Identities=18%  Similarity=0.181  Sum_probs=137.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCCCCEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCTGPHLH   75 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~gp~Ly   75 (198)
                      |++|++||++|..+|++.+.++++.+++.|++.++++++++.+++.++++++.|     ++||++++|+||+|++||+||
T Consensus        66 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~gp~Ly  145 (244)
T d1rypg_          66 VDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLY  145 (244)
T ss_dssp             ETTTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEE
T ss_pred             ccCceEEEEccchhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCCCCEEE
Confidence            689999999999999999999999999999999999999999999999998655     369999999999999999999


Q ss_pred             EECCCCceeecCeEEEecChHHHHHHHHh---hccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC
Q 029142           76 TIYPHGSTDTLPFATMGSGSLAAMAMFES---KYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG  145 (198)
Q Consensus        76 ~idp~Gs~~~~~~~a~G~gs~~a~~~Le~---~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~  145 (198)
                      .+||+|++.+++++|+|+|+..++++||+   .|+++||.+||++++++||+.+.+++..++.+++|++++.+
T Consensus       146 ~idp~Gs~~~~~~~a~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~~  218 (244)
T d1rypg_         146 MLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLS  218 (244)
T ss_dssp             EECTTSCEEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETT
T ss_pred             EEcCCccEEecCeEecCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEEE
Confidence            99999999999999999999999999996   69999999999999999999999888888889999999753

>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=5.4e-33  Score=220.02  Aligned_cols=147  Identities=21%  Similarity=0.270  Sum_probs=139.5

Q ss_pred             CcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-CCccceEEEEEEEeC-CC-CEEEEECC
Q 029142            3 PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQAALVLGGVDC-TG-PHLHTIYP   79 (198)
Q Consensus         3 ~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-~~p~gv~~ivaG~D~-~g-p~Ly~idp   79 (198)
                      ++++||++|.++|++.+.++++.+++.|++.++.+++++.+++++++++|.+ ++|+++++|+||+|+ +| |+||++||
T Consensus        46 ~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~l~~~~~~p~~v~~li~G~d~~~g~~~L~~~D~  125 (204)
T d1rypj_          46 GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDL  125 (204)
T ss_dssp             TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEECT
T ss_pred             CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcchHHHHHHHHHHHhhcccceeeeEEEEEEecCCCcceEEEeCC
Confidence            5899999999999999999999999999999999999999999999999876 469999999999996 55 89999999


Q ss_pred             CCceeec-CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEE
Q 029142           80 HGSTDTL-PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY  149 (198)
Q Consensus        80 ~Gs~~~~-~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~  149 (198)
                      +|++.++ .++++|+|+..++++|++.|+++||.+||++++++||..+.++|..++++++|++|+++|++.
T Consensus       126 ~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~ea~~l~~~al~~a~~~d~~sg~~~~v~ii~kdg~~~  196 (204)
T d1rypj_         126 IGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGWGAVVYIIKKDEVVK  196 (204)
T ss_dssp             TCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEEE
T ss_pred             CCccccccCcEEeecchHHHHHHHHhccccCCCHHHHHHHHHHHHHHHHHhcCccCCeEEEEEEECCceEE
Confidence            9999876 489999999999999999999999999999999999999999999999999999999999774

>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=4.7e-33  Score=217.60  Aligned_cols=157  Identities=20%  Similarity=0.304  Sum_probs=148.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc---CCccceEEEEEEEeCC-CCEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY---QGYVQAALVLGGVDCT-GPHLHT   76 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~---~~p~gv~~ivaG~D~~-gp~Ly~   76 (198)
                      |+++++|+++|..+|++.+.++++.+++.|+..++.+++++.+++.+++.++.+   .+|++++++++|+|.+ +|+||.
T Consensus        38 i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~aG~d~~~~~~l~~  117 (199)
T d1iruk_          38 MSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYY  117 (199)
T ss_dssp             CSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEE
T ss_pred             ecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHHHHHHHHHHHHHhhccCCcceeeeecceeccCCceEEe
Confidence            689999999999999999999999999999999999999999999999877643   5699999999999985 599999


Q ss_pred             ECCCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEEeccccCC
Q 029142           77 IYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLP  156 (198)
Q Consensus        77 idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~~~~~~~~  156 (198)
                      +||.|.+.+.+++|+|+|+..++++|++.|+++|+++||++++++||+.+.++|..++++++|++|+++|++.+++++++
T Consensus       118 ~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~l~~~al~~~~~~d~~sg~~~~v~vv~~~g~~~~~~~~~~  197 (199)
T d1iruk_         118 MDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNISFP  197 (199)
T ss_dssp             ECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHTBCBCCCCEEEEEEETTEEECCCCBCCC
T ss_pred             ecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCcCCceEEEEEcCCCeEEcCCccCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999887765


Q ss_pred             C
Q 029142          157 N  157 (198)
Q Consensus       157 ~  157 (198)
                      .
T Consensus       198 ~  198 (199)
T d1iruk_         198 K  198 (199)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1ryp1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=6.7e-33  Score=222.25  Aligned_cols=149  Identities=18%  Similarity=0.270  Sum_probs=140.3

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcC-CCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCC-CEEEEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTG-PHLHTI   77 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~g-p~Ly~i   77 (198)
                      |++|++||+||..+|++.+.++++.+++.|++.++ .++++..+++++++.++..+ +|+++++|+||+|++| |+||.+
T Consensus        46 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~Ly~~  125 (222)
T d1ryp1_          46 CGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSF  125 (222)
T ss_dssp             CSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEE
T ss_pred             ecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCcHHHHHHHHHHHHHhhhhhhheeeeeEEEEeCCCCeEEEEE
Confidence            78999999999999999999999999999998875 67899999999998887664 7999999999999876 799999


Q ss_pred             CCCCceeecCeEEEecChHHHHHHHHhhcc-----------------CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEE
Q 029142           78 YPHGSTDTLPFATMGSGSLAAMAMFESKYK-----------------EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVC  140 (198)
Q Consensus        78 dp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~-----------------~~ms~eeai~la~~al~~~~~~d~~sg~~iei~  140 (198)
                      ||+|++.+++++|+|+|+..++++||+.|+                 ++||.+||++++++||..+.+||+.+|++++|+
T Consensus       126 D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~~~~~~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~v~v~  205 (222)
T d1ryp1_         126 DPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEIL  205 (222)
T ss_dssp             CTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEE
T ss_pred             CCCcEEEEeceEEEcccHHHHHHHHHHhhccccccCcccchhhhcccccccHHHHHHHHHHHHHHHHHhcccCCCcEEEE
Confidence            999999999999999999999999999997                 689999999999999999999999999999999


Q ss_pred             EEecCCeEE
Q 029142          141 VITKGHKEY  149 (198)
Q Consensus       141 ii~k~g~~~  149 (198)
                      +|+|||++.
T Consensus       206 iitkdGv~~  214 (222)
T d1ryp1_         206 IVTKDGVRK  214 (222)
T ss_dssp             EEETTEEEE
T ss_pred             EEeCCCEEE
Confidence            999999874

>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=6.5e-33  Score=225.76  Aligned_cols=152  Identities=20%  Similarity=0.303  Sum_probs=136.2

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeCC-CCEE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDCT-GPHL   74 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~~-gp~L   74 (198)
                      |+++++|++||..+|++.+++.++.+++.|++.++.+++++.++++++++++.+     .+|+++++|+||+|++ ||+|
T Consensus        64 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~L  143 (243)
T d1irud_          64 LDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRL  143 (243)
T ss_dssp             SSSSCEEEEEECHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEE
T ss_pred             CCCCEEEEEEEchhhHHHHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEE
Confidence            689999999999999999999999999999999999999999999999988543     4699999999999975 6999


Q ss_pred             EEECCCCceeecCeEEEecChHHHHHHHHhhccCCC--CHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC-CeEEec
Q 029142           75 HTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEGL--TKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG-HKEYLR  151 (198)
Q Consensus        75 y~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~m--s~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~-g~~~~~  151 (198)
                      |++||+|++.+++++|+|+|+..++++||+.|+++|  +.++++++++++|....   ..++++++|++++++ +++.+.
T Consensus       144 y~idp~G~~~~~~~~a~G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~~---~~~~~~vei~ii~k~~~~~~l~  220 (243)
T d1irud_         144 YQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVV---QSGGKNIELAVMRRDQSLKILN  220 (243)
T ss_dssp             EEECTTSCEEEBSEEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTS---CTTSTTCCEEEEESSSCEECCC
T ss_pred             EEecCcEEEEeccEEEECCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHHh---cCCCCcEEEEEEECCCCEEECC
Confidence            999999999999999999999999999999999998  77788888888887644   456789999999987 667665


Q ss_pred             cccC
Q 029142          152 NHLL  155 (198)
Q Consensus       152 ~~~~  155 (198)
                      +.++
T Consensus       221 ~~eI  224 (243)
T d1irud_         221 PEEI  224 (243)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>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=2.4e-32  Score=222.15  Aligned_cols=148  Identities=18%  Similarity=0.234  Sum_probs=135.7

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-----CCccceEEEEEEEeC--CCCE
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-----QGYVQAALVLGGVDC--TGPH   73 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-----~~p~gv~~ivaG~D~--~gp~   73 (198)
                      |++|++||+||..+|++.+++.++.+++.|++.++++++++.+++.++.+++.+     .+||+|++|+||+|+  +||+
T Consensus        65 I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~  144 (241)
T d1rypd_          65 IDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPK  144 (241)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCE
T ss_pred             eCCCEEEEeeeccchHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcce
Confidence            689999999999999999999999999999999999999999999999988655     369999999999996  4799


Q ss_pred             EEEECCCCceeecCeEEEecChHHHHHHHHhhccC---CCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecC-CeEE
Q 029142           74 LHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKE---GLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKG-HKEY  149 (198)
Q Consensus        74 Ly~idp~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~---~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~-g~~~  149 (198)
                      ||.+||+|++.+++++|+|+|+..++++||+.|++   +||.+||+++|++||+.+..+   ++.+++|+|++++ +.+.
T Consensus       145 Ly~idp~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~---~~~~iei~ii~~d~~~~~  221 (241)
T d1rypd_         145 LYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQT---GAKNIEITVVKPDSDIVA  221 (241)
T ss_dssp             EEEECTTSCEEEBSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCS---CSTTEEEEEEETTTEEEE
T ss_pred             EEEecCCEEEEeeCeEEECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcC---CCCcEEEEEEECCCCEEE
Confidence            99999999999999999999999999999999965   699999999999999998754   4689999999997 4555


Q ss_pred             ec
Q 029142          150 LR  151 (198)
Q Consensus       150 ~~  151 (198)
                      +.
T Consensus       222 l~  223 (241)
T d1rypd_         222 LS  223 (241)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=1.5e-32  Score=221.64  Aligned_cols=147  Identities=14%  Similarity=0.192  Sum_probs=128.0

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcC-CCCCHHHHHHHHHHHH----hccCCccceEEEEEEEeC----CC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKKHL----FNYQGYVQAALVLGGVDC----TG   71 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-~~i~v~~la~~l~~~l----~~~~~p~gv~~ivaG~D~----~g   71 (198)
                      |++||+||+||..+|++.++++++.+++.|++.++ .+++++.+++.+++++    +++.+||++++|+||||.    .|
T Consensus        48 i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~~~~~rP~gvs~lvaG~D~~g~~~~  127 (227)
T d1q5qa_          48 LYDRLGFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKA  127 (227)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCC
T ss_pred             ecCceEEEecCchHHHHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEEecCCCCCC
Confidence            68999999999999999999999999999999998 5689999998888764    334579999999999996    46


Q ss_pred             CEEEEECCCCceeecC-eEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccC----CCCCcEEEEEEecCC
Q 029142           72 PHLHTIYPHGSTDTLP-FATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDL----GSGSNVDVCVITKGH  146 (198)
Q Consensus        72 p~Ly~idp~Gs~~~~~-~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~----~sg~~iei~ii~k~g  146 (198)
                      |+||.+||+|++.+++ +++.|+++..++++|+++|+++||++||++||++||+.++.+|.    .++.+++|+|++++|
T Consensus       128 p~Ly~vDpsG~~~~~~~~~~~g~~s~~~~~~Le~~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~  207 (227)
T d1q5qa_         128 PQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSR  207 (227)
T ss_dssp             CEEEEEETTSCEEEESSEEEESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTS
T ss_pred             CEEEEEccccceeeecccccCCCchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCC
Confidence            9999999999998866 56677789999999999999999999999999999999998874    356789999999987


Q ss_pred             e
Q 029142          147 K  147 (198)
Q Consensus       147 ~  147 (198)
                      .
T Consensus       208 ~  208 (227)
T d1q5qa_         208 P  208 (227)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.97  E-value=5e-31  Score=211.27  Aligned_cols=154  Identities=14%  Similarity=0.118  Sum_probs=142.1

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc----CCccceEEEEEEEeC------C
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY----QGYVQAALVLGGVDC------T   70 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~----~~p~gv~~ivaG~D~------~   70 (198)
                      |++|++||++|..+|++.+.++++.+++.|++.++.++++..+++.++++++.+    .+|+++.++++|+|.      .
T Consensus        37 i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~g~d~~~  116 (224)
T d1q5qh_          37 TDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESR  116 (224)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTS
T ss_pred             eCCcEEEEecccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHHHHHHHHHHHhhcccccCccceeeEEEeecccccccC
Confidence            579999999999999999999999999999999999999999999999998866    358899999999873      4


Q ss_pred             CCEEEEECCCCceeec--CeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCC-------cEEEEE
Q 029142           71 GPHLHTIYPHGSTDTL--PFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGS-------NVDVCV  141 (198)
Q Consensus        71 gp~Ly~idp~Gs~~~~--~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~-------~iei~i  141 (198)
                      +|+||.+||+|+...+  +|+|+|+|+.+|+++||+.|+++||.+||++++++||+.+++||..||+       ++++++
T Consensus       117 ~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt~~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~  196 (224)
T d1q5qh_         117 AGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVT  196 (224)
T ss_dssp             CEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEE
T ss_pred             CceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHhhccccCCcccccccceEEEE
Confidence            6999999999998765  7899999999999999999999999999999999999999999999986       489999


Q ss_pred             EecCCeEEecccc
Q 029142          142 ITKGHKEYLRNHL  154 (198)
Q Consensus       142 i~k~g~~~~~~~~  154 (198)
                      ++++|++.+.+-+
T Consensus       197 i~~~g~~~l~~~e  209 (224)
T d1q5qh_         197 ITQAGAVHVSEET  209 (224)
T ss_dssp             EETTEEEECCHHH
T ss_pred             EeCCcEEEcCHHH
Confidence            9999999887543

>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=99.97  E-value=3.3e-30  Score=204.18  Aligned_cols=149  Identities=19%  Similarity=0.281  Sum_probs=141.6

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccC-CccceEEEEEEEeCCC-CEEEEEC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQ-GYVQAALVLGGVDCTG-PHLHTIY   78 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~-~p~gv~~ivaG~D~~g-p~Ly~id   78 (198)
                      |++|++++++|..+|++.+.++++.+++.|++.++.++++..+++++++.++.++ .|++++++++|+|..| |+||.+|
T Consensus        46 i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~d~~~~~~l~~~d  125 (213)
T d1iru1_          46 LTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFD  125 (213)
T ss_dssp             EETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEEC
T ss_pred             cCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHhhhcccccceEEEecCCCcEEEecC
Confidence            5799999999999999999999999999999999999999999999999998874 6999999999999855 8999999


Q ss_pred             CCCceeecCeEEEecChHHHHHHHHhhcc---------CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCeEE
Q 029142           79 PHGSTDTLPFATMGSGSLAAMAMFESKYK---------EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVITKGHKEY  149 (198)
Q Consensus        79 p~Gs~~~~~~~a~G~gs~~a~~~Le~~~~---------~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii~k~g~~~  149 (198)
                      |.|++.+++++|+|+|+.+++++||+.|+         ++||++||++++++||..+.++|..++++++|++|+|+|++.
T Consensus       126 ~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G~~~  205 (213)
T d1iru1_         126 PVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIRE  205 (213)
T ss_dssp             TTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEE
T ss_pred             CcceeeecCeeeecCccHHHHHHHHHhhcccchhcccccCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCCEEE
Confidence            99999999999999999999999998765         789999999999999999999999999999999999999874

>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=99.74  E-value=4.4e-19  Score=136.66  Aligned_cols=133  Identities=13%  Similarity=-0.009  Sum_probs=101.6

Q ss_pred             cEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCCCce
Q 029142            4 NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGST   83 (198)
Q Consensus         4 ~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~Gs~   83 (198)
                      .+++|.+|..+|.+.+.+.++.+...++...................+++++.++......+|++..+++++..++.|  
T Consensus        47 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--  124 (180)
T d2z3ba1          47 KVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSGTGEVIEPDDG--  124 (180)
T ss_dssp             TEEEEECSCHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTGGGCCCCEEEECSSCEEEECTTCCEECCSSS--
T ss_pred             ceecccchHHHHHHHHHHHHHHHHHhhccccchhHHHHHHHHhHHHHHHHhhcceeeeeccccccccCCceeeccccc--
Confidence            588899999999999999988887776554433332222222222233344445555555566666666666665554  


Q ss_pred             eecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           84 DTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        84 ~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                          |.|+|||+.+|+++|++.|+++||.+||++|+++||+.|.++|+.+|++++|-+|
T Consensus       125 ----~~a~GSGs~~A~g~l~~~~~~~~s~~eA~~l~~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         125 ----ILAIGSGGNYALAAGRALKKHAGESMSASEIARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             ----EEEESTTHHHHHHHHHHHHHHHGGGCCHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             ----EEEEcCchHHHHHHHHHHhhcCCCccCHHHHHHHHHHHHHhhcEEcCCcEEEEEe
Confidence                8899999999999999999999999999999999999999999999999999876

>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=99.65  E-value=5.5e-16  Score=117.74  Aligned_cols=133  Identities=12%  Similarity=-0.047  Sum_probs=99.9

Q ss_pred             CCCcEEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhccCCccceEEEEEEEeCCCCEEEEECCC
Q 029142            1 MAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPH   80 (198)
Q Consensus         1 I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~~~p~gv~~ivaG~D~~gp~Ly~idp~   80 (198)
                      |+++++++.+|..+|.+.+...+..+...+....     ........+..+..+..++....++.+.+..+|+++..|+.
T Consensus        37 i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~  111 (171)
T d1m4ya_          37 LGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAAVELAKDWRTDRVLRRLEALLLVADKENIFIISGNGE  111 (171)
T ss_dssp             ETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHHHHHHHHHHHCTTGGGCCCEEEEECSSCEEEECTTSC
T ss_pred             ecCCcEEEEEeechhhHHHHHHHHHHHHHHhhcc-----chhhHHHHHHHHHHhhhhcccccccceecCCcceEEecCCc
Confidence            5789999999999999998887776665544332     22222222222222222222333445567788999999999


Q ss_pred             CceeecCeEEEecChHHHHHHHHhhcc-CCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEE
Q 029142           81 GSTDTLPFATMGSGSLAAMAMFESKYK-EGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCV  141 (198)
Q Consensus        81 Gs~~~~~~~a~G~gs~~a~~~Le~~~~-~~ms~eeai~la~~al~~~~~~d~~sg~~iei~i  141 (198)
                      |.....++.|+|||+.+|+++|+..|+ ++|+   |.+|+++||+.|.++|+.+|++++|..
T Consensus       112 g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~---a~el~~~Ai~~A~e~dvyTg~~~~i~~  170 (171)
T d1m4ya_         112 VIQPDDDAAAIGSGGPYALAAAKALLRNTDLS---AREIVEKAMTIAGEICIYTNQNIVIEE  170 (171)
T ss_dssp             EECCSSSEEEESTTHHHHHHHHHHHHHHCCCC---HHHHHHHHHHHHHHHCTTCCSCCEEEE
T ss_pred             eeeecCCEEEEcchHHHHHHHHHhhccCCCCC---HHHHHHHHHHHHHhhceEcCCcEEEEE
Confidence            999999999999999999999998765 5775   677999999999999999999999864

>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=99.56  E-value=5e-15  Score=112.61  Aligned_cols=134  Identities=13%  Similarity=0.070  Sum_probs=94.0

Q ss_pred             CCCc-EEEEecCchHHHHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHHHHHhcc-CCccceEEEEEEEeCCCCEEEEEC
Q 029142            1 MAPN-IYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKKHLFNY-QGYVQAALVLGGVDCTGPHLHTIY   78 (198)
Q Consensus         1 I~~~-i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~-~~p~gv~~ivaG~D~~gp~Ly~id   78 (198)
                      |+++ ++++.+|...+.+.+.+..+.+...++      ......+..+...++.. ..+.....++++.+..++.++..|
T Consensus        37 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (173)
T d1g3ka_          37 LYNGKVLAGFAGGTADAFTLFELFERKLEMHQ------GHLLKSAVELAKDWRTDRALRKLEAMLIVADEKESLIITGIG  110 (173)
T ss_dssp             ETTTTEEEEEESCHHHHHHHHHHHHHHHHHTT------TCHHHHHHHHHHHHHHSTTGGGCCCEEEEECSSCEEEEETTT
T ss_pred             ecCCcEEEEeeehhHhHHHHHHHHHHHHHhhc------CcchhHHHHHHHHHHHhhhhcccccccccccCCCcceecccC
Confidence            3454 666777777777766655544433332      22233333444433332 233333344444444669999999


Q ss_pred             CCCceeecCeEEEecChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEE
Q 029142           79 PHGSTDTLPFATMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAICSGIFNDLGSGSNVDVCVI  142 (198)
Q Consensus        79 p~Gs~~~~~~~a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~iei~ii  142 (198)
                      +.|+..+.++.|+|||+.+|++.|+..|+  ++.+||.+||++||+.|.++|+.+|++++|-.|
T Consensus       111 ~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~ela~~Ai~~Aae~dvyTgd~~~i~~~  172 (173)
T d1g3ka_         111 DVVQPEEDQILAIGSGGNYALSAARALVE--NTELSAHEIVEKSLRIAGDICVFTNTNFTIEEL  172 (173)
T ss_dssp             EEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             ceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCHHHHHHHHHHHHHhhcEEcCCcEEEEEC
Confidence            99999999999999999999999998885  445578899999999999999999999998765

>d1cuka1 a.5.1.1 (A:156-203) DNA helicase RuvA subunit, C-terminal domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: RuvA C-terminal domain-like
superfamily: DNA helicase RuvA subunit, C-terminal domain
family: DNA helicase RuvA subunit, C-terminal domain
domain: DNA helicase RuvA subunit, C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=82.30  E-value=0.63  Score=26.36  Aligned_cols=34  Identities=15%  Similarity=0.134  Sum_probs=28.4

Q ss_pred             EEecChHHHHHHHHhhccCCCCHHHHHHHHHHHH
Q 029142           90 TMGSGSLAAMAMFESKYKEGLTKDEGIQLVVDAI  123 (198)
Q Consensus        90 a~G~gs~~a~~~Le~~~~~~ms~eeai~la~~al  123 (198)
                      +.|+....+...+.+..++++|.|+.|+.|++++
T Consensus        14 ~LGY~~~ea~~av~~i~~~~~s~E~lIk~ALk~m   47 (48)
T d1cuka1          14 ALGYKPQEASRMVSKIARPDASSETLIREALRAA   47 (48)
T ss_dssp             HHTCCHHHHHHHHHHSCCSSCCHHHHHHHHHHTT
T ss_pred             HcCCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            4688889999999999999999998887776653