Citrus Sinensis ID: 023965

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270----
Protein Sequence
MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHHHHHcccccccccccccccEEEEEEccEEEEEEccccccccEEEEccccEEEEEcccEEEEccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccEEEEEEEEEcccccEEEEEcccccEEEccEEEEccHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHcccccccccEEEEEEccccEEEEcccccccccccccccccccccccccEEEEEEEEcEEEEEEEccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccHHHHHHHHHcccccccccccccccEEEEEEccEEEEEEcccEEEccEEEEcccccEEEEEccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccEEEEEEEEEccEEEEEEEcccccEEEccEEEEcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccccEEEEEEEccccEEEcccccccccccEcccccccccccEEEEEEEEEcEEEEEEEEcHHHccc
Coil and Loop (DISEMBL)
mdnanigippkggfsfdlcrrndmlskkgivpppsyrktgttIVGLIFqngvilgadtratagsivcdkncekihymapniyccgagtaadtEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGgvdatgphlhtiyphgstdtlpfatmgsgSLAAMAVFESKyregltkeegISLVCEAICSGIfndlgsgsnvdicvitkgdkeylrnhqlpnprtyisskgysfpkktEVLLtkitplenqvEVIEVGDSMEE
Flexible Loop (DISEMBL)
mdnanigippkggfSFDLCRRNDMLskkgivpppsyrkTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIfndlgsgsnVDICVITKGDKeylrnhqlpnprtyisskgysfpKKTEVLltkitplenqvevievgdsmee
Low Complexity Region (SEG)
MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE
Disordered region (IsUnstruct)
************GFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTKITPLENQVEVI********
Disordered Region (DISOPRED)
**********KGGFSFDLCRRN*************YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYI*******PKKTEVLLTKITPLENQVEV**V******
Disordered Region (DISEMBL)
MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE
Disordered Region (DISPRO)
***********GGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTKITPLENQVEVIEVGD****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	274	2.2.26 [Sep-21-2011]
O23710	273	Proteasome subunit beta t	yes	no	0.996	1.0	0.817	1e-133
Q7DLS1	274	Proteasome subunit beta t	yes	no	0.996	0.996	0.825	1e-132
Q99436	277	Proteasome subunit beta t	yes	no	0.945	0.935	0.579	7e-86
P70195	277	Proteasome subunit beta t	yes	no	0.945	0.935	0.579	9e-86
Q9JHW0	277	Proteasome subunit beta t	yes	no	0.934	0.924	0.578	2e-85
Q2TBP0	277	Proteasome subunit beta t	yes	no	0.927	0.916	0.593	4e-84
Q54QR2	266	Proteasome subunit beta t	yes	no	0.945	0.973	0.619	5e-84
A1XQU1	277	Proteasome subunit beta t	yes	no	0.930	0.920	0.583	7e-84
P25043	261	Proteasome subunit beta t	yes	no	0.875	0.919	0.555	2e-73
Q09841	267	Probable proteasome subun	yes	no	0.897	0.921	0.544	3e-72

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

 Score =  474 bits (1219), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 224/274 (81%), Positives = 250/274 (91%), Gaps = 1/274 (0%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M  + + +PPKGGFSFDLC+RNDML++KG+   PS+ KTGTTIVGLIF++GVILGADTRA
Sbjct: 1   MSQSTVDVPPKGGFSFDLCKRNDMLTQKGL-KAPSFLKTGTTIVGLIFKDGVILGADTRA 59

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IV DKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGR+SRV+TAL
Sbjct: 60  TEGPIVADKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLRLHRYQTGRDSRVITAL 119

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLK HLF YQGHV AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM+VFE+
Sbjct: 120 TLLKKHLFSYQGHVSAALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFEA 179

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KY+EGLT++EGI LV E+ICSGIFNDLGSGSNVDICVITKG+KEYLRN+  PNPRTY+SS
Sbjct: 180 KYKEGLTRDEGIKLVAESICSGIFNDLGSGSNVDICVITKGNKEYLRNYMEPNPRTYVSS 239

Query: 241 KGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE 274
           KGYSF KKTEVLLTKITPL  +VE+ EVG++MEE
Sbjct: 240 KGYSFTKKTEVLLTKITPLLERVEITEVGEAMEE 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: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

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

 Score =  472 bits (1215), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 227/275 (82%), Positives = 251/275 (91%), Gaps = 2/275 (0%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M  +++ IPPKGGFSFDLC+RNDML++KG+   PS+ KTGTTIVGLIF++GVILGADTRA
Sbjct: 1   MSQSSVDIPPKGGFSFDLCKRNDMLTQKGL-KAPSFLKTGTTIVGLIFKDGVILGADTRA 59

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IV DKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGR+SRVVTAL
Sbjct: 60  TEGPIVADKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLRLHRYQTGRDSRVVTAL 119

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLK HLF YQGHV AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM+VFE+
Sbjct: 120 TLLKKHLFSYQGHVSAALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFEA 179

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KY+EGLT++EGI LV EAICSGIFNDLGSGSNVDICVITKG KEYLRN+  PNPRTY+SS
Sbjct: 180 KYKEGLTRDEGIKLVAEAICSGIFNDLGSGSNVDICVITKGHKEYLRNYMEPNPRTYVSS 239

Query: 241 KGYSFPKKTEVLLTKITPLENQVEVIEV-GDSMEE 274
           KGYSF KKTEVLLTKITPL  +VE++EV G++MEE
Sbjct: 240 KGYSFTKKTEVLLTKITPLLERVEIVEVAGEAMEE 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: 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 =  317 bits (812), Expect = 7e-86,   Method: Compositional matrix adjust.
 Identities = 160/276 (57%), Positives = 202/276 (73%), Gaps = 17/276 (6%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGA 56
           M   ++  PP GGFSFD CRRN +L    +K+G    P  RKTGTTI G+++++G++LGA
Sbjct: 1   MAAVSVYAPPVGGFSFDNCRRNAVLEADFAKRGY-KLPKVRKTGTTIAGVVYKDGIVLGA 59

Query: 57  DTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV 116
           DTRAT G +V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RV
Sbjct: 60  DTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRV 119

Query: 117 VTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMA 176
           VTA  +LK  LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA
Sbjct: 120 VTANRMLKQMLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMA 179

Query: 177 VFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR- 235
           VFE K+R  + +EE  +LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN + 
Sbjct: 180 VFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKG 239

Query: 236 ----TYISSKGYSFPKKTEVLLTKITPLENQVEVIE 267
                Y   KG      T VL  KITPLE  +EV+E
Sbjct: 240 TRLGRYRCEKG-----TTAVLTEKITPLE--IEVLE 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|P70195|PSB7_MOUSE Proteasome subunit beta type-7 OS=Mus musculus GN=Psmb7 PE=1 SV=1

 Score =  316 bits (810), Expect = 9e-86,   Method: Compositional matrix adjust.
 Identities = 160/276 (57%), Positives = 201/276 (72%), Gaps = 17/276 (6%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGA 56
           M   ++  PP GGFSFD CRRN +L    +KKG   P + RKTGTTI G+++++G++LGA
Sbjct: 1   MAAVSVFQPPVGGFSFDNCRRNAVLEADFAKKGFKLPKA-RKTGTTIAGVVYKDGIVLGA 59

Query: 57  DTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV 116
           DTRAT G +V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RV
Sbjct: 60  DTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRV 119

Query: 117 VTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMA 176
           VTA  +LK  LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA
Sbjct: 120 VTANRMLKQMLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMA 179

Query: 177 VFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR- 235
           VFE K+R  + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR   +PN + 
Sbjct: 180 VFEDKFRPDMEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPFSVPNKKG 239

Query: 236 ----TYISSKGYSFPKKTEVLLTKITPLENQVEVIE 267
                Y   KG      T VL  K+TPLE  +EV+E
Sbjct: 240 TRLGRYRCEKG-----TTAVLTEKVTPLE--IEVLE 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|Q9JHW0|PSB7_RAT Proteasome subunit beta type-7 OS=Rattus norvegicus GN=Psmb7 PE=1 SV=1

 Score =  315 bits (808), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 158/273 (57%), Positives = 201/273 (73%), Gaps = 17/273 (6%)

Query: 10  PKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSI 65
           P GGFSFD CRRN +L    +KKG   P + RKTGTTI G+++++G++LGADTRAT G +
Sbjct: 10  PVGGFSFDNCRRNAVLEADFAKKGFKLPKA-RKTGTTIAGVVYKDGIVLGADTRATEGMV 68

Query: 66  VCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKS 125
           V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK 
Sbjct: 69  VADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQ 128

Query: 126 HLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG 185
            LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMAVFE K+R  
Sbjct: 129 MLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPD 188

Query: 186 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR-----TYISS 240
           + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +      Y   
Sbjct: 189 MEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGRYRCE 248

Query: 241 KGYSFPKKTEVLLTKITPLENQV--EVIEVGDS 271
           KG      T VL  K+TPLE +V  E+++  D+
Sbjct: 249 KG-----TTAVLTEKVTPLELEVLEEIVQTMDT 276

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

 Score =  311 bits (796), Expect = 4e-84,   Method: Compositional matrix adjust.
 Identities = 156/263 (59%), Positives = 198/263 (75%), Gaps = 9/263 (3%)

Query: 10  PKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSI 65
           P GGFSFD CRRN +L    +KKG    P+ RKTGTTI G+++++G++LGADTRAT G +
Sbjct: 10  PVGGFSFDNCRRNAVLEADFAKKGY-KLPTARKTGTTIAGVVYKDGIVLGADTRATEGMV 68

Query: 66  VCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKS 125
           V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK 
Sbjct: 69  VADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQ 128

Query: 126 HLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG 185
            LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMAVFE K+R  
Sbjct: 129 MLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPD 188

Query: 186 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSF 245
           + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y  
Sbjct: 189 MEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGR-YRC 247

Query: 246 PKKTEVLLT-KITPLENQVEVIE 267
            K T  +LT K+T LE  +EV+E
Sbjct: 248 EKGTNAVLTEKVTTLE--IEVLE 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|Q54QR2|PSB7_DICDI Proteasome subunit beta type-7 OS=Dictyostelium discoideum GN=psmB7 PE=3 SV=1

 Score =  310 bits (795), Expect = 5e-84,   Method: Compositional matrix adjust.
 Identities = 166/268 (61%), Positives = 203/268 (75%), Gaps = 9/268 (3%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M+N N     +GGF FDLC RN++L K G+     + KTGTTIVG++++ GV+LGADTRA
Sbjct: 1   MENLN-----RGGFDFDLCNRNNVLEKTGL-RMKGFMKTGTTIVGVVYKGGVVLGADTRA 54

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IV DKNCEKIHY+A NIYCCGAGTAADTE+ T ++SS+L+LH+  TG+++RV+TAL
Sbjct: 55  TEGPIVADKNCEKIHYIADNIYCCGAGTAADTESATALISSKLKLHKLSTGKQTRVITAL 114

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           T+LK  LFKYQGH+ AAL+LGG+D  GP LHTIYPHGSTD LP+ TMGSGSLAAMAVFE+
Sbjct: 115 TMLKQMLFKYQGHISAALILGGIDINGPSLHTIYPHGSTDQLPYVTMGSGSLAAMAVFEA 174

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KY+  +TKEE I+LV EAI SGIFNDLGSGSNVD+ VI       LRN+Q PN R +  +
Sbjct: 175 KYKNDMTKEEAIALVAEAISSGIFNDLGSGSNVDVTVIEPSGVTVLRNYQTPNERKF-RN 233

Query: 241 KGYSFPK-KTEVLLTKITPLENQVEVIE 267
             Y F +  T VL   I PL  +V VIE
Sbjct: 234 NPYIFKQGTTPVLKQDIAPLSTKV-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|A1XQU1|PSB7_PIG Proteasome subunit beta type-7 OS=Sus scrofa GN=PSMB7 PE=2 SV=2

 Score =  310 bits (794), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 153/262 (58%), Positives = 195/262 (74%), Gaps = 7/262 (2%)

Query: 10  PKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSI 65
           P GGFSFD CRRN +L    +KKG    P+ RKTGTTI G+++++G++LGADTRAT G +
Sbjct: 10  PVGGFSFDNCRRNAILEADFAKKGY-KLPTARKTGTTIAGVVYKDGIVLGADTRATEGMV 68

Query: 66  VCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKS 125
           V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK 
Sbjct: 69  VADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQ 128

Query: 126 HLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG 185
            LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMAVFE K+R  
Sbjct: 129 MLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPE 188

Query: 186 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSF 245
           + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     +    
Sbjct: 189 MEEEEAKQLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGRYRCE 248

Query: 246 PKKTEVLLTKITPLENQVEVIE 267
              T VL  K+T L+  +EV+E
Sbjct: 249 KGTTAVLTEKVTALD--IEVLE 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|P25043|PSB2_YEAST Proteasome subunit beta type-2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PUP1 PE=1 SV=1

 Score =  276 bits (705), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 135/243 (55%), Positives = 174/243 (71%), Gaps = 3/243 (1%)

Query: 12  GGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNC 71
            G SFD  +RN+ L++     P +   TGTTIVG+ F NGV++ ADTR+T G IV DKNC
Sbjct: 2   AGLSFDNYQRNNFLAENSHTQPKA-TSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNC 60

Query: 72  EKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ 131
            K+H ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK HLFKYQ
Sbjct: 61  AKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ 120

Query: 132 GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEG 191
           GH+ A L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMAV ES +++ LTKEE 
Sbjct: 121 GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEA 180

Query: 192 ISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPNPRTYISSKGYSFPKKTE 250
           I L  +AI +GI+NDLGSGSNVD+CV+  G D EYLRN+  PN R     K Y FP+ T 
Sbjct: 181 IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGTT 239

Query: 251 VLL 253
            +L
Sbjct: 240 AVL 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 =  271 bits (694), Expect = 3e-72,   Method: Compositional matrix adjust.
 Identities = 135/248 (54%), Positives = 177/248 (71%), Gaps = 2/248 (0%)

Query: 6   IGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSI 65
           +GI  + GF F+  +RN +L +KG  P P    TGTTIVG+I ++ ++LGADTRATAG I
Sbjct: 2   MGINERKGFDFEYYQRNLLLQEKGF-PTPKATSTGTTIVGVIAKDCIVLGADTRATAGPI 60

Query: 66  VCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKS 125
           + DKNC+K+H ++PNI+C GAGTAADTE VT M+SS ++LH  +T R+ RVVTALT+LK 
Sbjct: 61  IADKNCKKLHLISPNIWCAGAGTAADTEFVTSMISSNIELHSLYTNRKPRVVTALTMLKQ 120

Query: 126 HLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG 185
           HLF+YQGH+ A LVLGG D  GPHL TI  HGS+D LP+  +GSGSLAA++V E+KY+  
Sbjct: 121 HLFRYQGHIGAYLVLGGYDCKGPHLFTIAAHGSSDKLPYVALGSGSLAAISVLETKYQPD 180

Query: 186 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSF 245
           L + E + LV EAI +GIFNDLGSGSN D+ VI +      R +  PN R    SK Y++
Sbjct: 181 LERHEAMELVKEAIEAGIFNDLGSGSNCDLVVIDEEKATPYRGYSKPNERATKQSK-YTY 239

Query: 246 PKKTEVLL 253
            + T  +L
Sbjct: 240 DRGTTAVL 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	274
225424598	273	PREDICTED: proteasome subunit beta type-	0.996	1.0	0.872	1e-139
449492703	273	PREDICTED: proteasome subunit beta type-	0.996	1.0	0.857	1e-136
224140867	274	predicted protein [Populus trichocarpa]	0.996	0.996	0.839	1e-134
449443766	273	PREDICTED: proteasome subunit beta type-	0.996	1.0	0.854	1e-134
359473123	267	PREDICTED: proteasome subunit beta type-	0.974	1.0	0.854	1e-133
224078968	274	predicted protein [Populus trichocarpa]	0.992	0.992	0.835	1e-133
116791005	273	unknown [Picea sitchensis]	0.992	0.996	0.843	1e-133
339777225	268	20S proteasome beta subunit [Dimocarpus	0.978	1.0	0.862	1e-133
255570177	278	proteasome subunit beta type 7,10, putat	1.0	0.985	0.827	1e-132
297815008	273	hypothetical protein ARALYDRAFT_904988 [	0.996	1.0	0.821	1e-131

>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 =  499 bits (1286), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 239/274 (87%), Positives = 256/274 (93%), Gaps = 1/274 (0%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M  A + +PPKGGFSFDLCRRN+MLSKKG+  PP +RKTGTTIVGL+FQ+GVILGADTRA
Sbjct: 1   MSKAVVDVPPKGGFSFDLCRRNEMLSKKGVQTPP-FRKTGTTIVGLVFQDGVILGADTRA 59

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL
Sbjct: 60  TEGPIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 119

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLKSHLF YQG+VQAALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES
Sbjct: 120 TLLKSHLFSYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 179

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KY EGLT+EEGI+LV EAICSGIFNDLGSGSNVD+CVITKG KEYLRNHQLPNPRTY+S+
Sbjct: 180 KYHEGLTREEGINLVSEAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHQLPNPRTYVSA 239

Query: 241 KGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE 274
           KGYSFPK  EVLLTK+TPL+ +VEVIE GD+MEE
Sbjct: 240 KGYSFPKPIEVLLTKVTPLKEKVEVIEGGDAMEE 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 =  491 bits (1263), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 235/274 (85%), Positives = 252/274 (91%), Gaps = 1/274 (0%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M  + I +PPK GFSFDLCRRNDML+KKG+   PSY KTGTTIVGLIFQ+GVILGADTRA
Sbjct: 1   MSTSAIDVPPKSGFSFDLCRRNDMLAKKGL-KSPSYLKTGTTIVGLIFQDGVILGADTRA 59

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IV DKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL
Sbjct: 60  TEGPIVADKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 119

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLK HLF YQG+V AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM+VFES
Sbjct: 120 TLLKKHLFSYQGYVSAALVLGGVDVTGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFES 179

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KY+EGLT++EGI LV EAICSGIFNDLGSGSNVD+CVITKG+K+YLRNH LPNPRTY+SS
Sbjct: 180 KYKEGLTRDEGIRLVTEAICSGIFNDLGSGSNVDVCVITKGEKDYLRNHLLPNPRTYVSS 239

Query: 241 KGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE 274
           KGYSFPKKTEVLLTKI PL+ +VEVIE GD+MEE
Sbjct: 240 KGYSFPKKTEVLLTKIMPLKEKVEVIERGDAMEE 273

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  483 bits (1244), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 230/274 (83%), Positives = 250/274 (91%), Gaps = 1/274 (0%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M  + + +P KGGFSFDLC+RN MLS KG+  PP +RKTGTTIVGL+FQ+GVILGADTRA
Sbjct: 1   MAKSCVDLPAKGGFSFDLCKRNAMLSDKGLKLPP-FRKTGTTIVGLVFQDGVILGADTRA 59

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL
Sbjct: 60  TEGPIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 119

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLK HLF YQGHV AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES
Sbjct: 120 TLLKKHLFNYQGHVSAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 179

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KY+EGL+++EGI LV EA+CSGIFNDLGSGSNVD+CVITKG KEYLRNH LPNPRTY++ 
Sbjct: 180 KYKEGLSRDEGIKLVSEAVCSGIFNDLGSGSNVDVCVITKGHKEYLRNHMLPNPRTYVTE 239

Query: 241 KGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE 274
           +GYSFPKKTEVL+TKITPL  +VEVIE GD+MEE
Sbjct: 240 RGYSFPKKTEVLMTKITPLRERVEVIEGGDAMEE 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 =  483 bits (1244), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 234/274 (85%), Positives = 249/274 (90%), Gaps = 1/274 (0%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M  + I   PKGGFSFDLCRRNDML+KKG    PSY KTGTTIVGLIF++GVILGADTRA
Sbjct: 1   MSTSAIDALPKGGFSFDLCRRNDMLAKKGF-KSPSYLKTGTTIVGLIFEDGVILGADTRA 59

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IV DKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL
Sbjct: 60  TEGPIVADKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 119

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLK HLF YQG+V AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES
Sbjct: 120 TLLKKHLFGYQGYVSAALVLGGVDVTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 179

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KY+EGLT++EGI LV EAICSGIFNDLGSGSNVD+CVITKG K+YLRNH LPNPRTY+SS
Sbjct: 180 KYKEGLTRDEGIRLVTEAICSGIFNDLGSGSNVDVCVITKGQKDYLRNHLLPNPRTYVSS 239

Query: 241 KGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE 274
           KGYSFPKKTEVLLTKI PL+ +VE+IE GD+MEE
Sbjct: 240 KGYSFPKKTEVLLTKIMPLKEKVEIIEGGDAMEE 273

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  481 bits (1238), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 234/274 (85%), Positives = 250/274 (91%), Gaps = 7/274 (2%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M  A + +PPKGGFSFDLCRRN+MLSKKG+  PP +RKTGTTI      +GVILGADTRA
Sbjct: 1   MSKAVVDVPPKGGFSFDLCRRNEMLSKKGVQTPP-FRKTGTTI------DGVILGADTRA 53

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL
Sbjct: 54  TEGPIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 113

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLKSHLF YQG+VQAALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES
Sbjct: 114 TLLKSHLFSYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 173

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KY EGLT+EEGI+LV EAICSGIFNDLGSGSNVD+CVITKG KEYLRNHQLPNPRTY+S+
Sbjct: 174 KYHEGLTREEGINLVSEAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHQLPNPRTYVSA 233

Query: 241 KGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE 274
           KGYSFPK  EVLLTK+TPL+ +VEVIE GD+MEE
Sbjct: 234 KGYSFPKPIEVLLTKVTPLKEKVEVIEGGDAMEE 267

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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 =  480 bits (1236), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 228/273 (83%), Positives = 251/273 (91%), Gaps = 1/273 (0%)

Query: 2   DNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRAT 61
           +N+ + +P KGGFSFDLC+RN MLS+KG+  PP +RKTGTTIVGL+FQ+GVILGADTRAT
Sbjct: 3   NNSCMDLPAKGGFSFDLCKRNAMLSEKGLKLPP-FRKTGTTIVGLVFQDGVILGADTRAT 61

Query: 62  AGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALT 121
            G IVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALT
Sbjct: 62  EGPIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALT 121

Query: 122 LLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESK 181
           LLK HLF YQGHV AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM+VFESK
Sbjct: 122 LLKKHLFNYQGHVSAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFESK 181

Query: 182 YREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSK 241
           Y+EGL+++EGI +V EAICSGIFNDLGSGSNVD+CVITKG KEYLRNH LPNPRTY+S +
Sbjct: 182 YKEGLSRDEGIKIVSEAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHMLPNPRTYVSER 241

Query: 242 GYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE 274
           GYSF KKTEVL+TKITPL+ +VEV E GD+MEE
Sbjct: 242 GYSFAKKTEVLMTKITPLKEKVEVTEGGDAMEE 274

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116791005|gb|ABK25819.1| unknown [Picea sitchensis]

 Score =  480 bits (1235), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 232/275 (84%), Positives = 253/275 (92%), Gaps = 3/275 (1%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M N  I +PPKGGFSFDLCRRN+ML+KKG V  PS+RKTGTTIVGL+FQ+GVILGADTRA
Sbjct: 1   MANTAIELPPKGGFSFDLCRRNEMLAKKG-VQSPSFRKTGTTIVGLVFQDGVILGADTRA 59

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGRESRVVTAL
Sbjct: 60  TEGPIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLELHRYATGRESRVVTAL 119

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLKSHL+ YQGHV AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAMA+FES
Sbjct: 120 TLLKSHLYSYQGHVSAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFES 179

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           +YREG+T+EEGI LVC+AICSGIFNDLGSGSNVD+CVITKG KEYLRN++LPNPRTY+SS
Sbjct: 180 RYREGMTREEGIKLVCQAICSGIFNDLGSGSNVDVCVITKGQKEYLRNYELPNPRTYVSS 239

Query: 241 KGYSFPK-KTEVLLTKITPLENQVEVIEVGDSMEE 274
           KGYSF K  TEVL TKITPL+  V++IE GD+MEE
Sbjct: 240 KGYSFAKGHTEVLSTKITPLKEHVKIIE-GDAMEE 273

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  479 bits (1233), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 232/269 (86%), Positives = 248/269 (92%), Gaps = 1/269 (0%)

Query: 6   IGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSI 65
           I +P +GGFSFDLCRRNDML+KKG V  PSY KTGTTIVGLIFQ+GVILGADTRAT G I
Sbjct: 1   IDVPYQGGFSFDLCRRNDMLAKKG-VSLPSYLKTGTTIVGLIFQDGVILGADTRATEGPI 59

Query: 66  VCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKS 125
           V DKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLK 
Sbjct: 60  VADKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKK 119

Query: 126 HLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG 185
           HLF YQG+VQAALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAMA+FESKY+EG
Sbjct: 120 HLFSYQGYVQAALVLGGVDVTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAMFESKYKEG 179

Query: 186 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSF 245
           LT++EGI LV EAICSGIFNDLGSGSNVD+CVITKG KEYLRNH LPNPRT++SSKGYSF
Sbjct: 180 LTRDEGIKLVVEAICSGIFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTFVSSKGYSF 239

Query: 246 PKKTEVLLTKITPLENQVEVIEVGDSMEE 274
            KKTEVL TKI PL+ +VE+IE GD+MEE
Sbjct: 240 SKKTEVLSTKIIPLKERVEIIEGGDAMEE 268

Source: Dimocarpus longan

Species: Dimocarpus longan

Genus: Dimocarpus

Family: Sapindaceae

Order: Sapindales

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 =  476 bits (1226), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 230/278 (82%), Positives = 249/278 (89%), Gaps = 4/278 (1%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M  + I +PPKGGFSFDLC+RN+ML+KKG+  P SYRKTGTTIVGLIFQ+GVILGADTRA
Sbjct: 1   MSKSAIDVPPKGGFSFDLCKRNEMLAKKGVNLPSSYRKTGTTIVGLIFQDGVILGADTRA 60

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV+TAL
Sbjct: 61  TEGPIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVITAL 120

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLK HLF YQG+VQAALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAMA+FES
Sbjct: 121 TLLKKHLFNYQGYVQAALVLGGVDCTGPHLHTIYPHGSTDTLPFATMGSGSLAAMAIFES 180

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KYREGL ++EGI LV EAICSG+FNDLGSGSNVD+CVITKG KEYLRNH LPNPRTYI+ 
Sbjct: 181 KYREGLNRDEGIKLVTEAICSGVFNDLGSGSNVDVCVITKGHKEYLRNHLLPNPRTYINP 240

Query: 241 KGYSFPKKTEVLLTKITPLENQVE----VIEVGDSMEE 274
           KGY F KKTEVLLTKITPL+   +    V E G++MEE
Sbjct: 241 KGYVFSKKTEVLLTKITPLKEPSKEKEGVSEGGEAMEE 278

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297815008|ref|XP_002875387.1| hypothetical protein ARALYDRAFT_904988 [Arabidopsis lyrata subsp. lyrata] gi|297321225|gb|EFH51646.1| hypothetical protein ARALYDRAFT_904988 [Arabidopsis lyrata subsp. lyrata]

 Score =  475 bits (1222), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 225/274 (82%), Positives = 250/274 (91%), Gaps = 1/274 (0%)

Query: 1   MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
           M  + + +PPKGGFSFDLC+RNDML++KG+   PS+ KTGTTIVGLIF++GVILGADTRA
Sbjct: 1   MSQSAVDVPPKGGFSFDLCKRNDMLTQKGL-KAPSFLKTGTTIVGLIFKDGVILGADTRA 59

Query: 61  TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
           T G IV DKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGR+SRV+TAL
Sbjct: 60  TEGPIVADKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLRLHRYQTGRDSRVITAL 119

Query: 121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
           TLLK HLF YQGHV AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM+VFE+
Sbjct: 120 TLLKKHLFSYQGHVSAALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFEA 179

Query: 181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
           KY+EGLT++EGI LV EAICSGIFNDLGSGSNVDICVITKG+KEYLRN+  PNPRTY+SS
Sbjct: 180 KYKEGLTRDEGIKLVAEAICSGIFNDLGSGSNVDICVITKGNKEYLRNYMEPNPRTYVSS 239

Query: 241 KGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE 274
           KGYSF KKTEVLLTKITPL  +VE+ EVG++MEE
Sbjct: 240 KGYSFTKKTEVLLTKITPLLERVEITEVGEAMEE 273

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	274
TAIR|locus:2086681	273	PBB1 [Arabidopsis thaliana (ta	0.996	1.0	0.817	1.1e-121
TAIR|locus:2168718	274	PBB2 "20S proteasome beta subu	0.996	0.996	0.825	1.3e-121
DICTYBASE|DDB_G0283679	266	psmB7 "proteasome subunit beta	0.945	0.973	0.619	7.2e-84
UNIPROTKB|Q99436	277	PSMB7 "Proteasome subunit beta	0.959	0.949	0.584	4.7e-80
FB|FBgn0023174	272	Prosbeta2 "Proteasome beta2 su	0.937	0.944	0.611	7.6e-80
MGI|MGI:107637	277	Psmb7 "proteasome (prosome, ma	0.930	0.920	0.598	7.6e-80
RGD|621093	277	Psmb7 "proteasome (prosome, ma	0.948	0.938	0.583	1.6e-79
UNIPROTKB|Q2TBP0	277	PSMB7 "Proteasome subunit beta	0.927	0.916	0.593	1.1e-78
UNIPROTKB|F1MBI1	277	PSMB7 "Proteasome subunit beta	0.927	0.916	0.593	1.4e-78
UNIPROTKB|E2RPC6	284	PSMB7 "Uncharacterized protein	0.927	0.894	0.589	2.3e-78

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

 Score = 1197 (426.4 bits), Expect = 1.1e-121, P = 1.1e-121
 Identities = 224/274 (81%), Positives = 250/274 (91%)

Query:     1 MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
             M  + + +PPKGGFSFDLC+RNDML++KG+   PS+ KTGTTIVGLIF++GVILGADTRA
Sbjct:     1 MSQSTVDVPPKGGFSFDLCKRNDMLTQKGL-KAPSFLKTGTTIVGLIFKDGVILGADTRA 59

Query:    61 TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
             T G IV DKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGR+SRV+TAL
Sbjct:    60 TEGPIVADKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLRLHRYQTGRDSRVITAL 119

Query:   121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
             TLLK HLF YQGHV AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM+VFE+
Sbjct:   120 TLLKKHLFSYQGHVSAALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFEA 179

Query:   181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
             KY+EGLT++EGI LV E+ICSGIFNDLGSGSNVDICVITKG+KEYLRN+  PNPRTY+SS
Sbjct:   180 KYKEGLTRDEGIKLVAESICSGIFNDLGSGSNVDICVITKGNKEYLRNYMEPNPRTYVSS 239

Query:   241 KGYSFPKKTEVLLTKITPLENQVEVIEVGDSMEE 274
             KGYSF KKTEVLLTKITPL  +VE+ EVG++MEE
Sbjct:   240 KGYSFTKKTEVLLTKITPLLERVEITEVGEAMEE 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

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

 Score = 1196 (426.1 bits), Expect = 1.3e-121, P = 1.3e-121
 Identities = 227/275 (82%), Positives = 251/275 (91%)

Query:     1 MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
             M  +++ IPPKGGFSFDLC+RNDML++KG+   PS+ KTGTTIVGLIF++GVILGADTRA
Sbjct:     1 MSQSSVDIPPKGGFSFDLCKRNDMLTQKGL-KAPSFLKTGTTIVGLIFKDGVILGADTRA 59

Query:    61 TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
             T G IV DKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQL+LHRY TGR+SRVVTAL
Sbjct:    60 TEGPIVADKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLRLHRYQTGRDSRVVTAL 119

Query:   121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
             TLLK HLF YQGHV AALVLGGVD TGPHLHTIYPHGSTDTLPFATMGSGSLAAM+VFE+
Sbjct:   120 TLLKKHLFSYQGHVSAALVLGGVDITGPHLHTIYPHGSTDTLPFATMGSGSLAAMSVFEA 179

Query:   181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
             KY+EGLT++EGI LV EAICSGIFNDLGSGSNVDICVITKG KEYLRN+  PNPRTY+SS
Sbjct:   180 KYKEGLTRDEGIKLVAEAICSGIFNDLGSGSNVDICVITKGHKEYLRNYMEPNPRTYVSS 239

Query:   241 KGYSFPKKTEVLLTKITPLENQVEVIEV-GDSMEE 274
             KGYSF KKTEVLLTKITPL  +VE++EV G++MEE
Sbjct:   240 KGYSFTKKTEVLLTKITPLLERVEIVEVAGEAMEE 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

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

 Score = 840 (300.8 bits), Expect = 7.2e-84, P = 7.2e-84
 Identities = 166/268 (61%), Positives = 204/268 (76%)

Query:     1 MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
             M+N N     +GGF FDLC RN++L K G+     + KTGTTIVG++++ GV+LGADTRA
Sbjct:     1 MENLN-----RGGFDFDLCNRNNVLEKTGL-RMKGFMKTGTTIVGVVYKGGVVLGADTRA 54

Query:    61 TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
             T G IV DKNCEKIHY+A NIYCCGAGTAADTE+ T ++SS+L+LH+  TG+++RV+TAL
Sbjct:    55 TEGPIVADKNCEKIHYIADNIYCCGAGTAADTESATALISSKLKLHKLSTGKQTRVITAL 114

Query:   121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
             T+LK  LFKYQGH+ AAL+LGG+D  GP LHTIYPHGSTD LP+ TMGSGSLAAMAVFE+
Sbjct:   115 TMLKQMLFKYQGHISAALILGGIDINGPSLHTIYPHGSTDQLPYVTMGSGSLAAMAVFEA 174

Query:   181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
             KY+  +TKEE I+LV EAI SGIFNDLGSGSNVD+ VI       LRN+Q PN R + ++
Sbjct:   175 KYKNDMTKEEAIALVAEAISSGIFNDLGSGSNVDVTVIEPSGVTVLRNYQTPNERKFRNN 234

Query:   241 KGYSFPK-KTEVLLTKITPLENQVEVIE 267
               Y F +  T VL   I PL  +V VIE
Sbjct:   235 P-YIFKQGTTPVLKQDIAPLSTKV-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

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

 Score = 804 (288.1 bits), Expect = 4.7e-80, P = 4.7e-80
 Identities = 159/272 (58%), Positives = 203/272 (74%)

Query:     1 MDNANIGIPPKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGA 56
             M   ++  PP GGFSFD CRRN +L    +K+G    P  RKTGTTI G+++++G++LGA
Sbjct:     1 MAAVSVYAPPVGGFSFDNCRRNAVLEADFAKRGY-KLPKVRKTGTTIAGVVYKDGIVLGA 59

Query:    57 DTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV 116
             DTRAT G +V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RV
Sbjct:    60 DTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRV 119

Query:   117 VTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMA 176
             VTA  +LK  LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMA
Sbjct:   120 VTANRMLKQMLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMA 179

Query:   177 VFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRT 236
             VFE K+R  + +EE  +LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN + 
Sbjct:   180 VFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKG 239

Query:   237 YISSKGYSFPKKTEVLLT-KITPLENQVEVIE 267
                 + Y   K T  +LT KITPLE  +EV+E
Sbjct:   240 TRLGR-YRCEKGTTAVLTEKITPLE--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

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

 Score = 802 (287.4 bits), Expect = 7.6e-80, P = 7.6e-80
 Identities = 159/260 (61%), Positives = 195/260 (75%)

Query:     1 MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRA 60
             MD  N    P+ GF+FD C+RN  L  +G  PP +  KTGTTIVG+I+++GVILGADTRA
Sbjct:     1 MDLDNARELPRAGFNFDNCKRNATLLNRGFKPPIT-TKTGTTIVGIIYKDGVILGADTRA 59

Query:    61 TAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL 120
             T G IV DKNC KIHY+A NIYCCGAGTAADTE  TD++SSQL+LHR  T RE RVV A 
Sbjct:    60 TEGPIVSDKNCAKIHYLAKNIYCCGAGTAADTEMTTDLISSQLELHRLQTDREVRVVAAN 119

Query:   121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES 180
             T+LK  LF+YQGH+ AALVLGGVD TGPH+++I+PHGS+D LP+ATMGSGSLAAM VFES
Sbjct:   120 TMLKQMLFRYQGHISAALVLGGVDKTGPHIYSIHPHGSSDKLPYATMGSGSLAAMTVFES 179

Query:   181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS 240
             +++  L++EEG  LV +A  +G+FNDLGSGSN+D+CVI KG  EYLRN++L N +     
Sbjct:   180 RWKPDLSEEEGKKLVRDADPTGVFNDLGSGSNIDLCVIRKGSVEYLRNYELANKKGK-RQ 238

Query:   241 KGYSFPKKTEVLL-TKITPL 259
               Y F   T  +L T I  L
Sbjct:   239 LDYRFKTGTSTVLHTNIKDL 258

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

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

 Score = 802 (287.4 bits), Expect = 7.6e-80, P = 7.6e-80
 Identities = 158/264 (59%), Positives = 199/264 (75%)

Query:     9 PPKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGS 64
             PP GGFSFD CRRN +L    +KKG   P + RKTGTTI G+++++G++LGADTRAT G 
Sbjct:     9 PPVGGFSFDNCRRNAVLEADFAKKGFKLPKA-RKTGTTIAGVVYKDGIVLGADTRATEGM 67

Query:    65 IVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLK 124
             +V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK
Sbjct:    68 VVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLK 127

Query:   125 SHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE 184
               LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMAVFE K+R 
Sbjct:   128 QMLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRP 187

Query:   185 GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYS 244
              + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR   +PN +     + Y 
Sbjct:   188 DMEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPFSVPNKKGTRLGR-YR 246

Query:   245 FPKKTEVLLT-KITPLENQVEVIE 267
               K T  +LT K+TPLE  +EV+E
Sbjct:   247 CEKGTTAVLTEKVTPLE--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 = 799 (286.3 bits), Expect = 1.6e-79, P = 1.6e-79
 Identities = 157/269 (58%), Positives = 202/269 (75%)

Query:    10 PKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSI 65
             P GGFSFD CRRN +L    +KKG   P + RKTGTTI G+++++G++LGADTRAT G +
Sbjct:    10 PVGGFSFDNCRRNAVLEADFAKKGFKLPKA-RKTGTTIAGVVYKDGIVLGADTRATEGMV 68

Query:    66 VCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKS 125
             V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK 
Sbjct:    69 VADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLTTGRLPRVVTANRMLKQ 128

Query:   126 HLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG 185
              LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMAVFE K+R  
Sbjct:   129 MLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPD 188

Query:   186 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSF 245
             + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y  
Sbjct:   189 MEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGR-YRC 247

Query:   246 PKKTEVLLT-KITPLENQV--EVIEVGDS 271
              K T  +LT K+TPLE +V  E+++  D+
Sbjct:   248 EKGTTAVLTEKVTPLELEVLEEIVQTMDT 276

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 = 791 (283.5 bits), Expect = 1.1e-78, P = 1.1e-78
 Identities = 156/263 (59%), Positives = 198/263 (75%)

Query:    10 PKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSI 65
             P GGFSFD CRRN +L    +KKG   P + RKTGTTI G+++++G++LGADTRAT G +
Sbjct:    10 PVGGFSFDNCRRNAVLEADFAKKGYKLPTA-RKTGTTIAGVVYKDGIVLGADTRATEGMV 68

Query:    66 VCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKS 125
             V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK 
Sbjct:    69 VADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQ 128

Query:   126 HLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG 185
              LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMAVFE K+R  
Sbjct:   129 MLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPD 188

Query:   186 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSF 245
             + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y  
Sbjct:   189 MEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGR-YRC 247

Query:   246 PKKTEVLLT-KITPLENQVEVIE 267
              K T  +LT K+T LE  +EV+E
Sbjct:   248 EKGTNAVLTEKVTTLE--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|F1MBI1 PSMB7 "Proteasome subunit beta type" [Bos taurus (taxid:9913)]

 Score = 790 (283.2 bits), Expect = 1.4e-78, P = 1.4e-78
 Identities = 156/263 (59%), Positives = 198/263 (75%)

Query:    10 PKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSI 65
             P GGFSFD CRRN +L    +KKG   P + RKTGTTI G+++++G++LGADTRAT G +
Sbjct:    10 PVGGFSFDNCRRNAVLEADFAKKGYKLPTA-RKTGTTIAGVVYKDGIVLGADTRATEGMV 68

Query:    66 VCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKS 125
             V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK 
Sbjct:    69 VADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQ 128

Query:   126 HLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG 185
              LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMAVFE K+R  
Sbjct:   129 MLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPD 188

Query:   186 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSF 245
             + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y  
Sbjct:   189 MEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGR-YRC 247

Query:   246 PKKTEVLLT-KITPLENQVEVIE 267
              K T  +LT K+T LE  +EV+E
Sbjct:   248 EKGTTAVLTEKVTTLE--IEVLE 268

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

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

UNIPROTKB|E2RPC6 PSMB7 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 788 (282.4 bits), Expect = 2.3e-78, P = 2.3e-78
 Identities = 155/263 (58%), Positives = 198/263 (75%)

Query:    10 PKGGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSI 65
             P GGFSFD CRRN +L    +KKG   P + RKTGTTI G+++++G++LGADTRAT G +
Sbjct:    17 PVGGFSFDNCRRNAVLEADFAKKGYKLPMA-RKTGTTIAGVVYKDGIVLGADTRATEGMV 75

Query:    66 VCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKS 125
             V DKNC KIH+++PNIYCCGAGTAADT+  T ++SS L+LH   TGR  RVVTA  +LK 
Sbjct:    76 VADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTANRMLKQ 135

Query:   126 HLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG 185
              LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMAVFE K+R  
Sbjct:   136 MLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPD 195

Query:   186 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSF 245
             + +EE   LV EAI +G+FNDLGSGSN+D+CVI+K   ++LR + +PN +     + Y  
Sbjct:   196 MEEEEAKKLVSEAIAAGVFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKKGTRFGR-YRC 254

Query:   246 PKKTEVLLT-KITPLENQVEVIE 267
              K T  +LT K+T LE  +EV+E
Sbjct:   255 EKGTTAVLTEKVTTLE--IEVLE 275

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

---

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	0.6194	0.9452	0.9736	yes	no
Q09841	PSB2_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5443	0.8978	0.9213	yes	no
Q9JHW0	PSB7_RAT	3, ., 4, ., 2, 5, ., 1	0.5787	0.9343	0.9241	yes	no
Q2TBP0	PSB7_BOVIN	3, ., 4, ., 2, 5, ., 1	0.5931	0.9270	0.9169	yes	no
Q7DLS1	PSB7B_ARATH	3, ., 4, ., 2, 5, ., 1	0.8254	0.9963	0.9963	yes	no
Q8SQN7	PSB2_ENCCU	3, ., 4, ., 2, 5, ., 1	0.5025	0.7007	0.8458	yes	no
P25043	PSB2_YEAST	3, ., 4, ., 2, 5, ., 1	0.5555	0.8759	0.9195	yes	no
P70195	PSB7_MOUSE	3, ., 4, ., 2, 5, ., 1	0.5797	0.9452	0.9350	yes	no
A1XQU1	PSB7_PIG	3, ., 4, ., 2, 5, ., 1	0.5839	0.9306	0.9205	yes	no
Q99436	PSB7_HUMAN	3, ., 4, ., 2, 5, ., 1	0.5797	0.9452	0.9350	yes	no
O23710	PSB7A_ARATH	3, ., 4, ., 2, 5, ., 1	0.8175	0.9963	1.0	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	0.994
3rd Layer	3.4.25	0.998

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	estExt_fgenesh4_pg.C_LG_XVII0246	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. The proteasome has an ATP-dependent proteolytic activity (By similarity) (274 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	eugene3.00050879	hypothetical protein; The proteasome is a multicatalytic proteinase complex which is characteri [...] (204 aa)			•	•	•	•	•		0.826
	estExt_Genewise1_v1.C_LG_II2236	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (204 aa)			•	•	•	•	•		0.805
	eugene3.00061745	hypothetical protein; The proteasome is a multicatalytic proteinase complex which is characteri [...] (245 aa)			•	•	•	•	•	•	0.706
	estExt_Genewise1_v1.C_LG_XVIII1299	hypothetical protein; The proteasome is a multicatalytic proteinase complex which is characteri [...] (245 aa)			•	•	•	•	•	•	0.700
	estExt_fgenesh4_kg.C_LG_X0022	hypothetical protein; The proteasome is a multicatalytic proteinase complex which is characteri [...] (210 aa)			•	•	•	•	•	•	0.666
	gw1.VIII.591.1	hypothetical protein; The proteasome is a multicatalytic proteinase complex which is characteri [...] (265 aa)			•	•	•	•	•	•	0.656
	grail3.0515000101	SubName- Full=Putative uncharacterized protein; (209 aa)			•	•	•	•	•	•	0.642
	gw1.X.4845.1	hypothetical protein; The proteasome is a multicatalytic proteinase complex which is characteri [...] (260 aa)			•	•	•	•	•	•	0.639
	estExt_fgenesh4_pm.C_LG_IX0168	RecName- Full=Proteasome subunit alpha type; EC=3.4.25.1;; The proteasome is a multicatalytic p [...] (250 aa)			•	•	•	•			0.629
	estExt_fgenesh4_pm.C_LG_II0671	RecName- Full=Proteasome subunit beta type; EC=3.4.25.1;; The proteasome is a multicatalytic pr [...] (224 aa)			•	•	•	•	•	•	0.618

---

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	274
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	1e-133
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	9e-78
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	2e-62
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	3e-56
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	3e-56
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	8e-44
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	3e-42
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	2e-41
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	3e-39
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	5e-25
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	6e-21
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	8e-20
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	5e-17
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	1e-16
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	2e-16
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	3e-14
cd03760	197	cd03760, proteasome_beta_type_4, proteasome beta t	2e-13
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	2e-12
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	2e-10
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	1e-09
cd03759	195	cd03759, proteasome_beta_type_3, proteasome beta t	2e-09
TIGR03690	219	TIGR03690, 20S_bact_beta, proteasome, beta subunit	9e-08
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	9e-07
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	8e-06
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	3e-05
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	6e-04

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

 Score =  373 bits (960), Expect = e-133
 Identities = 143/189 (75%), Positives = 167/189 (88%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTIVG++F++GV+LGADTRAT G IV DKNCEKIHY+APNIYCCGAGTAADTEAVT+M+S
Sbjct: 1   TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMIS 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S L+LHR +TGR+ RVVTALT+LK HLF+YQGH+ AALVLGGVD TGPHL++IYPHGSTD
Sbjct: 61  SNLELHRLNTGRKPRVVTALTMLKQHLFRYQGHIGAALVLGGVDYTGPHLYSIYPHGSTD 120

Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
            LPF TMGSGSLAAM+V E +Y+  +T+EE   LVCEAI +GIFNDLGSGSNVD+CVITK
Sbjct: 121 KLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDLGSGSNVDLCVITK 180

Query: 221 GDKEYLRNH 229
              EYLRN+
Sbjct: 181 DGVEYLRNY 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 =  233 bits (597), Expect = 9e-78
 Identities = 83/189 (43%), Positives = 115/189 (60%), Gaps = 2/189 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTIVG+  ++GV+L ADTRA+AGS+V  +N +KI  ++ NI    AG+AADT+A+T ++ 
Sbjct: 1   TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLK 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQG-HVQAALVLGGVDA-TGPHLHTIYPHGS 158
             L+L+    GRE  V  A  LL + L+ Y+G     +L++GGVD   GP L+ + P GS
Sbjct: 61  RNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGS 120

Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
               PF   GSGS  A  + +  Y+  +T EE + LV +AI S I  DL SG  VD+ VI
Sbjct: 121 LIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVDVAVI 180

Query: 219 TKGDKEYLR 227
           TK   E LR
Sbjct: 181 TKDGVEELR 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 =  194 bits (495), Expect = 2e-62
 Identities = 64/182 (35%), Positives = 99/182 (54%), Gaps = 4/182 (2%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTIVG+  ++GV+L AD R T+G +V     EKI  +  +I C  AG AAD + + + + 
Sbjct: 1   TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHV---QAALVLGGVDA-TGPHLHTIYPH 156
            + QL+R   G    V     LL + L++Y   +     +L++ GVD   GP L+++ P 
Sbjct: 61  KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPS 120

Query: 157 GSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDIC 216
           GS        +GSGS  A+ + E  Y+  +T EE I L  +A+ S +  DL SG N+++ 
Sbjct: 121 GSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGNIEVA 180

Query: 217 VI 218
           VI
Sbjct: 181 VI 182

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

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

 Score =  178 bits (455), Expect = 3e-56
 Identities = 67/187 (35%), Positives = 96/187 (51%), Gaps = 6/187 (3%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKN-CEKIHYMAPNIYCCGAGTAADTEAVT 96
           KTGTTIVG+  ++GV+L AD RAT GS +  K+  EKI  +  +I    AG AAD + + 
Sbjct: 2   KTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTLV 61

Query: 97  DMVSSQLQLHRYHTGRESRV----VTALTLLKSHLFKYQGHVQAALVLGGVDATG-PHLH 151
           D   ++ QL+R   GR   V      A  L     +  +     +L++ G D  G PHL+
Sbjct: 62  DYARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHLY 121

Query: 152 TIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGS 211
           +I P GS        +GSGS  A    E  Y+  +T EE + L  +A+   I  D  SG 
Sbjct: 122 SIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERDALSGG 181

Query: 212 NVDICVI 218
           N+++ VI
Sbjct: 182 NIEVAVI 188

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

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

 Score =  180 bits (458), Expect = 3e-56
 Identities = 67/200 (33%), Positives = 102/200 (51%), Gaps = 4/200 (2%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT VG+  ++GV+L AD RAT+G ++   N EKI  +  +I    AG AAD + +  
Sbjct: 28  RGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVLVR 87

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHV---QAALVLGGVDATGPHLHTIY 154
              ++ QL+R   G    V     LL + L +Y         +L++ GVD  GP L++  
Sbjct: 88  YARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDDGGPRLYSTD 147

Query: 155 PHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVD 214
           P GS +      +GSGS  A    E +YRE L+ EE I L  +A+ + I  D  SG  ++
Sbjct: 148 PSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIE 207

Query: 215 ICVITKGDK-EYLRNHQLPN 233
           + VITK +    L   ++  
Sbjct: 208 VAVITKDEGFRKLDGEEIKK 227

Length = 236

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

 Score =  146 bits (372), Expect = 8e-44
 Identities = 62/181 (34%), Positives = 98/181 (54%), Gaps = 1/181 (0%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI+ + +  GV+LGAD+R + GS V ++  +K+  +   IYCC +G+AADT+A+ D V 
Sbjct: 1   TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVR 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDAT-GPHLHTIYPHGST 159
             L +H    G    V TA +L K+  + Y+  + A +++ G D   G  +++I   G  
Sbjct: 61  YYLDMHSIELGEPPLVKTAASLFKNLCYNYKEMLSAGIIVAGWDEQNGGQVYSIPLGGML 120

Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
              PFA  GSGS       ++ Y+ G+T EE I  V  A+   +  D  SG  + + +IT
Sbjct: 121 IRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSGGVIRLVIIT 180

Query: 220 K 220
           K
Sbjct: 181 K 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|234287 TIGR03634, arc_protsome_B, proteasome endopeptidase complex, archaeal, beta subunit

 Score =  142 bits (360), Expect = 3e-42
 Identities = 67/184 (36%), Positives = 101/184 (54%), Gaps = 5/184 (2%)

Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           GTT VG+  ++GV+L AD RA+ G+ V  KN +K+  +   I    AG+  D +++  ++
Sbjct: 1   GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH---VQAALVLGGVDATGPHLHTIYPH 156
            ++ +L+    GR   V    TLL + L   +     VQ  L++GGVD  GPHL+++ P 
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQ--LLVGGVDEEGPHLYSLDPA 118

Query: 157 GSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDIC 216
           G      +   GSGS  A  V E +YRE ++ EE   L   AI S I  D+ SG+ +D+ 
Sbjct: 119 GGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASGNGIDVA 178

Query: 217 VITK 220
           VITK
Sbjct: 179 VITK 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|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit

 Score =  140 bits (355), Expect = 2e-41
 Identities = 69/189 (36%), Positives = 103/189 (54%), Gaps = 6/189 (3%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT VG++ ++GV+L AD RA+ G+ +  KN +KI  +   I    AG+  D +++  ++ 
Sbjct: 1   TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILK 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH---VQAALVLGGVDATGPHLHTIYPHG 157
           ++ +L+    GR   +    TLL + L   +     VQ  L++GGVD  GPHL+++ P G
Sbjct: 61  AEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQ--LLIGGVDEEGPHLYSLDPLG 118

Query: 158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICV 217
           S     +   GSGS  A  V E +Y+E +T EE   L   AI S I  D  SG  +D+ V
Sbjct: 119 SIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDGIDVVV 178

Query: 218 ITK-GDKEY 225
           ITK G KE 
Sbjct: 179 ITKDGYKEL 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 =  134 bits (339), Expect = 3e-39
 Identities = 50/162 (30%), Positives = 71/162 (43%), Gaps = 3/162 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           +T V +  + GV+L AD R ++G  V      KI      I    AG AAD + +   + 
Sbjct: 1   STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQ--GHVQAALVLGGVDATGPHLHTIYPHGS 158
             LQL+R   G    VV     L   L  Y         L++ GVD  G +L+ I P G 
Sbjct: 61  EALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYIDPSGP 120

Query: 159 TDTLPFATM-GSGSLAAMAVFESKYREGLTKEEGISLVCEAI 199
               P A   GS S  A ++ E  Y+  +T EE + L  +A+
Sbjct: 121 VIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKAL 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|239730 cd03761, proteasome_beta_type_5, proteasome beta type-5 subunit

 Score = 98.1 bits (245), Expect = 5e-25
 Identities = 57/182 (31%), Positives = 90/182 (49%), Gaps = 1/182 (0%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +  IFQ GVI+  D+RATAGS +  +  +K+  + P +    AG AAD +    ++ 
Sbjct: 1   TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLG 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGST 159
            + +L+         V  A  LL + L++Y+G  +    ++ G D TGP L+ +   G+ 
Sbjct: 61  RECRLYELRNKERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDKTGPGLYYVDSDGTR 120

Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
                 ++GSGS  A  V +S YR  L+ EE   L   AI      D  SG NV++  + 
Sbjct: 121 LKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATHRDAYSGGNVNLYHVR 180

Query: 220 KG 221
           + 
Sbjct: 181 ED 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|163366 TIGR03633, arc_protsome_A, proteasome endopeptidase complex, archaeal, alpha subunit

 Score = 88.1 bits (219), Expect = 6e-21
 Identities = 57/193 (29%), Positives = 90/193 (46%), Gaps = 7/193 (3%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K GTT VG+  ++GV+L  D R T+  +    + EKI  +  +I    +G  AD   + D
Sbjct: 27  KRGTTAVGIKTKDGVVLAVDKRITSKLVEPS-SIEKIFKIDDHIGAATSGLVADARVLID 85

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQA-----ALVLGGVDATGPHLHT 152
               + Q++R   G    V T    +     +Y  H        AL++ GVD  GP L  
Sbjct: 86  RARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFE 145

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSN 212
             P G+        +G+G  A     E +YRE L+ +E I L  +A+ S + + L +  N
Sbjct: 146 TDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAVEDKL-TPEN 204

Query: 213 VDICVITKGDKEY 225
           V++  IT  DK++
Sbjct: 205 VEVAYITVEDKKF 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|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score = 84.7 bits (210), Expect = 8e-20
 Identities = 54/190 (28%), Positives = 88/190 (46%), Gaps = 13/190 (6%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K GTT +G+  + GV+L  D R T   +V  ++ EKI+ +  ++    +G  AD   + D
Sbjct: 26  KRGTTALGIKCKEGVVLAVDKRIT-SKLVEPESIEKIYKIDDHVGAATSGLVADARVLID 84

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDATGPH 149
               + Q+HR   G    V     L+K      Q + Q         AL++ GVD  GP 
Sbjct: 85  RARVEAQIHRLTYGEPIDVEV---LVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPR 141

Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L    P G+ +      +GSG  A     E +Y+E ++ EE I L  +A+ + +  +  +
Sbjct: 142 LFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKALYAAL-EENET 200

Query: 210 GSNVDICVIT 219
             NV+I  +T
Sbjct: 201 PENVEIAYVT 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|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional

 Score = 77.6 bits (192), Expect = 5e-17
 Identities = 57/200 (28%), Positives = 83/200 (41%), Gaps = 21/200 (10%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K GTT VG+  ++GV+L  D R T   ++   + EKI  +  +I    AG  AD   + D
Sbjct: 34  KRGTTAVGVKTKDGVVLAVDKRIT-SPLIEPSSIEKIFKIDDHIGAASAGLVADARVLID 92

Query: 98  MVSSQLQLHRYHTGRESRV---VTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT 146
               + Q++R   G    V      +   K      Q + Q         AL++ GVD  
Sbjct: 93  RARVEAQINRLTYGEPIGVETLTKKICDHK------QQYTQHGGVRPFGVALLIAGVDDG 146

Query: 147 GPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
           GP L    P G       AT +G+G    M   E  Y+E L+ EE I L  +A+      
Sbjct: 147 GPRLFETDPSG-AYLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKAN-E 204

Query: 206 DLGSGSNVDICVITKGDKEY 225
                 NV+I  I    K++
Sbjct: 205 GKLDPENVEIAYIDVETKKF 224

Length = 241

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

 Score = 76.1 bits (188), Expect = 1e-16
 Identities = 40/158 (25%), Positives = 75/158 (47%), Gaps = 4/158 (2%)

Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSS 101
           T++G+  ++ VIL ADT A    +V   + +KI+ ++ +     +G A D     + +  
Sbjct: 3   TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQK 62

Query: 102 QLQLHRYHTGRESRVVTALTLLKSHLFKY---QGHVQAALVLGGVDA-TGPHLHTIYPHG 157
            +QL++   G E     A    +  L +    +   Q  L+L G D   GP L+ I   G
Sbjct: 63  NIQLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYYIDYLG 122

Query: 158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV 195
           +   +P+A  G G+   +++ +  Y+  +T EE + L+
Sbjct: 123 TLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELM 160

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

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

 Score = 76.2 bits (187), Expect = 2e-16
 Identities = 47/177 (26%), Positives = 82/177 (46%), Gaps = 1/177 (0%)

Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           GTT +   +  G+I+  D++ATAG  +  ++ +K+  + P +    AG AAD       +
Sbjct: 39  GTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWEREL 98

Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGS 158
           + Q +L+    G    V  A  +L + ++ Y+G  +    ++ G D  GP L  +   G+
Sbjct: 99  AMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKKGPGLFYVDNDGT 158

Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
                  + GSGS  A  V ++ ++  L  EE   L   AI    F D  SG  +++
Sbjct: 159 RLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINL 215

Length = 247

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

 Score = 69.6 bits (171), Expect = 3e-14
 Identities = 47/200 (23%), Positives = 92/200 (46%), Gaps = 19/200 (9%)

Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           Y   G T++ +   +  ++  DTR + G  +  ++  KI  +        +G  AD  A+
Sbjct: 4   YTDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILAL 63

Query: 96  TDMVSSQLQLHRYHTGRE--SRVVTAL--TLLKSH-LFKYQGHVQAALVLGGVDATG-PH 149
           T  + +++++++Y   +E  +  +  L  T+L S   F Y        +L G+D  G   
Sbjct: 64  TKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPY----YVFNILAGIDEEGKGV 119

Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFES---------KYREGLTKEEGISLVCEAIC 200
           +++  P GS +   ++  GS S     + ++           R  L+ EE +SLV +A  
Sbjct: 120 VYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFT 179

Query: 201 SGIFNDLGSGSNVDICVITK 220
           S    D+ +G +++I +ITK
Sbjct: 180 SAAERDIYTGDSLEIVIITK 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|239729 cd03760, proteasome_beta_type_4, proteasome beta type-4 subunit

 Score = 66.8 bits (164), Expect = 2e-13
 Identities = 49/196 (25%), Positives = 83/196 (42%), Gaps = 21/196 (10%)

Query: 39  TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDM 98
           TGT+++ + +++GVI+ ADT  + GS+   KN E+I  +  N     +G  AD + +  +
Sbjct: 1   TGTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRL 60

Query: 99  VSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ-----------AALVLGGVDATG 147
           +   +          S       L    +  Y   V              LV+GGVD  G
Sbjct: 61  LDQLVIDDECLDDGHS-------LSPKEIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNEG 113

Query: 148 -PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE--GLTKEEGISLVCEAICSGIF 204
            P L  +   G+    P    G G+  A+ +    + +   LT+EE  +L+ E +    +
Sbjct: 114 EPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEECMKVLYY 173

Query: 205 NDLGSGSNVDICVITK 220
            D  S +   I V+TK
Sbjct: 174 RDARSINKYQIAVVTK 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|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 64.3 bits (157), Expect = 2e-12
 Identities = 52/192 (27%), Positives = 84/192 (43%), Gaps = 14/192 (7%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+  + GV+L  + R T+  +    + EKI  +  +I C  +G  AD   + D
Sbjct: 25  KLGSTAIGIKTKEGVVLAVEKRITSPLMEPS-SVEKIMEIDDHIGCAMSGLIADARTLID 83

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQA-----------ALVLGGVDAT 146
               + Q HR+ T  E   V ++T   S L    G               AL++ GVD  
Sbjct: 84  HARVEAQNHRF-TYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDEN 142

Query: 147 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFND 206
           GP L    P G+        +GSGS  A +  + KY + +T EE   L    I   +  +
Sbjct: 143 GPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALS-ILKQVMEE 201

Query: 207 LGSGSNVDICVI 218
             + +NV++  +
Sbjct: 202 KLNSTNVELATV 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|238892 cd01911, proteasome_alpha, proteasome alpha subunit

 Score = 58.6 bits (143), Expect = 2e-10
 Identities = 55/195 (28%), Positives = 88/195 (45%), Gaps = 24/195 (12%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNC-EKIHYMAPNIYCCGAGTAADTEAVT 96
           K G+T VG+  ++GV+L  + + T  S + D +  EKI  +  +I C  AG  AD   + 
Sbjct: 25  KNGSTAVGIKGKDGVVLAVEKKVT--SKLLDPSSVEKIFKIDDHIGCAVAGLTADARVLV 82

Query: 97  DMVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDA 145
           +    + Q +RY  G       +V  +  L       Q + Q         +L++ G D 
Sbjct: 83  NRARVEAQNYRYTYGEPIPVEVLVKRIADLA------QVYTQYGGVRPFGVSLLIAGYDE 136

Query: 146 -TGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGI 203
             GP L+   P G+      AT +G GS  A    E +Y++ LT EE I L  +A+   +
Sbjct: 137 EGGPQLYQTDPSGTYFGY-KATAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVL 195

Query: 204 FNDLGSGSNVDICVI 218
             D     N++I V+
Sbjct: 196 EEDK-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|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional

 Score = 56.8 bits (137), Expect = 1e-09
 Identities = 42/187 (22%), Positives = 86/187 (45%), Gaps = 6/187 (3%)

Query: 44  VGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQL 103
           VG++ + GVILGAD   ++  +   K  EKI+ +  +I+C  AG  AD   + +      
Sbjct: 35  VGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADANILINQCRLYA 94

Query: 104 QLHRYHTGRE---SRVVTALTLLKSHLFKYQG--HVQAALVLGGVDAT-GPHLHTIYPHG 157
           Q +RY  G      ++V  +  LK    ++ G      + +  G D   G  L+   P G
Sbjct: 95  QRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSG 154

Query: 158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICV 217
           +        +G  +  A ++ + +++E LT E+G+ L  + +   + +       +++ +
Sbjct: 155 NYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGI 214

Query: 218 ITKGDKE 224
           ++ G+ +
Sbjct: 215 LSHGETD 221

Length = 253

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

 Score = 55.3 bits (134), Expect = 2e-09
 Identities = 42/185 (22%), Positives = 80/185 (43%), Gaps = 3/185 (1%)

Query: 39  TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDM 98
            G  +V +  ++ V + +D R          + +K+  +   +Y   AG A D + +   
Sbjct: 2   NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQK 61

Query: 99  VSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDATG-PHLHTIYPH 156
           +  ++ L+R    RE +  T  +L+ S L++ + G      V+ G+D  G P + T+   
Sbjct: 62  LRFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFICTMDLI 121

Query: 157 GSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
           G       F   G+ S     + ES +R  +  +E    + +A+ S +  D  SG    +
Sbjct: 122 GCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQALLSAVDRDALSGWGAVV 181

Query: 216 CVITK 220
            +ITK
Sbjct: 182 YIITK 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|163402 TIGR03690, 20S_bact_beta, proteasome, beta subunit, bacterial type

 Score = 51.2 bits (123), Expect = 9e-08
 Identities = 48/187 (25%), Positives = 77/187 (41%), Gaps = 47/187 (25%)

Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIH----YMAPNIYCCGAGTAADTEAV 95
           GTTIV L +  GV++  D RAT G+++  ++ EK++    Y A  I    AGTA      
Sbjct: 2   GTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGI----AGTAG---LA 54

Query: 96  TDMVS-SQLQLHRYHTGRESRVVTALTL----------LKSHL-FKYQGHVQAALVLG-- 141
            ++V   Q++L  Y    E      LTL          ++ +L    QG     L+ G  
Sbjct: 55  IELVRLFQVELEHY----EKIEGVPLTLDGKANRLAAMVRGNLPAAMQGLAVVPLLAGYD 110

Query: 142 ---------GVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGI 192
                      D TG         G  +   +  +GSGS+ A    +  Y   L +++ +
Sbjct: 111 LDAGAGRIFSYDVTG---------GRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDAL 161

Query: 193 SLVCEAI 199
            +  EA+
Sbjct: 162 RVAVEAL 168

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

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score = 48.1 bits (115), Expect = 9e-07
 Identities = 36/166 (21%), Positives = 74/166 (44%), Gaps = 18/166 (10%)

Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSS 101
           T +G++ ++G++L A+ + T+  +    + EKI+ +  +I C  AG  +D   + +    
Sbjct: 31  TCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDANILINYARL 90

Query: 102 QLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT-GPH 149
             Q + Y         ++V  L  +K      QG+ Q         + +  G D   G  
Sbjct: 91  IAQRYLYSYQEPIPVEQLVQRLCDIK------QGYTQYGGLRPFGVSFLYAGWDKHYGFQ 144

Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV 195
           L+   P G+        +G+ + AA ++ +  Y++ +T EE ++L 
Sbjct: 145 LYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDMTLEEALALA 190

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

>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score = 45.4 bits (108), Expect = 8e-06
 Identities = 44/195 (22%), Positives = 83/195 (42%), Gaps = 26/195 (13%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT VG+  ++ V+LG + ++ A  +   +   KI  +  ++    AG  AD   + +
Sbjct: 25  RKGTTAVGVRGKDCVVLGVEKKSVA-KLQDPRTVRKICMLDDHVCLAFAGLTADARVLIN 83

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQA--------ALVLGGVD 144
               + Q HR  T  +   V  +T       +Y     Q + Q+        + ++ G D
Sbjct: 84  RARLECQSHRL-TVEDPVTVEYIT-------RYIAGLQQRYTQSGGVRPFGISTLIVGFD 135

Query: 145 ATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGI 203
             G P L+   P G+        +G  S       E  Y+E +T+++ I L  +A+   +
Sbjct: 136 PDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVV 195

Query: 204 FNDLGSGSNVDICVI 218
               GS  N+++ V+
Sbjct: 196 --QSGSK-NIELAVM 207

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

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score = 43.5 bits (103), Expect = 3e-05
 Identities = 42/188 (22%), Positives = 76/188 (40%), Gaps = 11/188 (5%)

Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNC-EKIHYMAPNIYCCGAGTAADTEAVTDM 98
           G   VG+   NGV+L  + +    S + D++   K+  + P+I    +G   D   +   
Sbjct: 27  GAPSVGIKAANGVVLATEKKVP--SPLIDESSVHKVEQITPHIGMVYSGMGPDFRVLVKK 84

Query: 99  VSSQLQLHRYHTGRESRVVTALTLLKSHL---FKYQGHVQ---AALVLGGVDATGPHLHT 152
                Q + Y    E   V+ L    + +   +   G V+    +L++ G D  GP+L+ 
Sbjct: 85  ARKIAQQY-YLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQ 143

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSN 212
           + P GS  T     +G     A    E +Y E L  E+ I      +  G    + +  N
Sbjct: 144 VDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQM-TEKN 202

Query: 213 VDICVITK 220
           ++I +  +
Sbjct: 203 IEIGICGE 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

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score = 39.6 bits (93), Expect = 6e-04
 Identities = 45/195 (23%), Positives = 77/195 (39%), Gaps = 23/195 (11%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATA--GSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           K G+  VGL  +   +L A  RAT+   S       +KI  +  +I    AG  AD   +
Sbjct: 25  KQGSATVGLKSKTHAVLVALKRATSELSSYQ-----KKIFKVDDHIGIAIAGLTADARVL 79

Query: 96  TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDATG 147
           +  +  +   +R+       V   ++ +     K Q + Q          L++ G D +G
Sbjct: 80  SRYMRQECLNYRFVYDSPIPVSRLVSKVAE---KAQINTQRYGRRPYGVGLLIAGYDESG 136

Query: 148 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR--EGLTKEEGISLVCEAICSGIFN 205
           PHL    P G+       ++G+ S +A    E  +   E  + EE I     A+   +  
Sbjct: 137 PHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPG 196

Query: 206 D--LGSGSNVDICVI 218
           +  L    NV I ++
Sbjct: 197 EQELTI-KNVSIAIV 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	274
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
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
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0183	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0178	249	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0181	233	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
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0863	264	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0182	246	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0175	285	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	100.0
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	100.0
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	100.0
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	100.0
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	100.0
KOG0180	204	consensus 20S proteasome, regulatory subunit beta	99.97
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.97
COG3484	255	Predicted proteasome-type protease [Posttranslatio	99.78
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.62
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	98.07
PF12465	38	Pr_beta_C: Proteasome beta subunits C terminal ; I	97.38
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	96.57
COG4079	293	Uncharacterized protein conserved in archaea [Func	89.39
KOG3361	157	consensus Iron binding protein involved in Fe-S cl	85.28

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

Probab=100.00  E-value=7.2e-65  Score=432.04  Aligned_cols=266  Identities=65%  Similarity=1.046  Sum_probs=252.7

Q ss_pred             CCCCCCCCCccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEE
Q 023965            5 NIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCC   84 (274)
Q Consensus         5 ~~~~~~~~g~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~   84 (274)
                      ..+.++++||+|+++.||.-++..|+ +++++.++||||+|++++||||+++|+|+|.|+++.+++|.|||.|.++|+||
T Consensus         3 ~~~~~~r~gfsf~nc~rn~~l~~~g~-k~p~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~Iycc   81 (271)
T KOG0173|consen    3 SPDLPPRGGFSFDNCQRNAALLKKGL-KAPKATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCC   81 (271)
T ss_pred             CCCCCccCCCChhhhhhHHHHHhcCC-CCCcccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEc
Confidence            34566799999999999988888887 89999999999999999999999999999999999999999999999999999


Q ss_pred             ecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCe
Q 023965           85 GAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPF  164 (274)
Q Consensus        85 ~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~  164 (274)
                      ++|.++|...+.+++..++++|+++.+++++|..+.++|+|+||+|++++++.+|+||+|..|||||.+.|+|+....+|
T Consensus        82 GAGtAADte~vt~m~ss~l~Lh~l~t~R~~rVv~A~~mlkQ~LFrYqG~IgA~LiiGGvD~TGpHLy~i~phGStd~~Pf  161 (271)
T KOG0173|consen   82 GAGTAADTEMVTRMISSNLELHRLNTGRKPRVVTALRMLKQHLFRYQGHIGAALILGGVDPTGPHLYSIHPHGSTDKLPF  161 (271)
T ss_pred             cCCchhhHHHHHHHHHHHHHHHHhccCCCCceeeHHHHHHHHHHHhcCcccceeEEccccCCCCceEEEcCCCCcCccce
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             EEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCCCCcccCCCcc
Q 023965          165 ATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYS  244 (274)
Q Consensus       165 ~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~~~~~~~~~~~  244 (274)
                      +++|||++.|+++||++|+|+|++|||++|+.+|+.+++.+|..||+|+++|||++.+++++++|..++.+. .|..+|+
T Consensus       162 ~alGSGslaAmsvlEsr~k~dlt~eea~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~~~~~lr~~~~~~~~~-~r~~~y~  240 (271)
T KOG0173|consen  162 TALGSGSLAAMSVLESRWKPDLTKEEAIKLVCEAIAAGIFNDLGSGSNVDLCVITKKGVEYLRNYSRPNEKG-ERTGRYK  240 (271)
T ss_pred             eeeccchHHHHHHHHHhcCcccCHHHHHHHHHHHHHhhhccccCCCCceeEEEEeCCCccccccCCCCCCCc-cccceee
Confidence            999999999999999999999999999999999999999999999999999999999999999999999998 7999999


Q ss_pred             cCc-eeeeeeeeeEeccceeEeeecCCCCC
Q 023965          245 FPK-KTEVLLTKITPLENQVEVIEVGDSME  273 (274)
Q Consensus       245 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  273 (274)
                      |++ +|+||+++|+|+.+.++..+ .+.|+
T Consensus       241 ~~~gtT~VL~~~v~~l~~~~~~~~-~~~~~  269 (271)
T KOG0173|consen  241 FKPGTTAVLKEKVYPLLVEVEIDE-VQVDE  269 (271)
T ss_pred             eCCCceEEEeeeeeeeeeeeehhh-ccccC
Confidence            999 99999999999974433333 24444

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=5.7e-52  Score=363.30  Aligned_cols=212  Identities=19%  Similarity=0.272  Sum_probs=200.1

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++||+||+||..+|++
T Consensus         6 t~fsp~Grl~QveyA-----~~av~~G~t~igik~~dgVvlaad~~~~-~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (227)
T cd03750           6 TTFSPSGKLVQIEYA-----LAAVSSGAPSVGIKAANGVVLATEKKVP-SPLIDESSVHKVEQITPHIGMVYSGMGPDFR   79 (227)
T ss_pred             ceECCCCeEhHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEeecCC-ccccCCCCcceEEEEcCCEEEEEeEcHHhHH
Confidence            359999999999999     9999999999999999999999999998 4788888999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEe
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMG  168 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiG  168 (274)
                      .+.++++.+++.|++.++++++++.+++.|++.++.|     .|||++++|+||||.+||+||++||+|++.+++++|+|
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~g~~Ly~~d~~G~~~~~~~~a~G  159 (227)
T cd03750          80 VLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIG  159 (227)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCCCCEEEEECCCCCEEeeeEEEEC
Confidence            9999999999999999999999999999999988654     37999999999999889999999999999999999999


Q ss_pred             cChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC-CEEEeccccCC
Q 023965          169 SGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLP  232 (274)
Q Consensus       169 sgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~-g~~~~~~~~~~  232 (274)
                      +|+..++++||++|+++||++||++++++||..+..++. ++.+++|.+++++ |++.+.+.++.
T Consensus       160 ~g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~~~l-~~~~iev~iv~~~~~~~~~~~~ei~  223 (227)
T cd03750         160 KNYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQM-TEKNIEIGICGETKGFRLLTPAEIK  223 (227)
T ss_pred             CCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEECCCCEEECCHHHHH
Confidence            999999999999999999999999999999999998875 7999999999995 78888777654

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

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

Probab=100.00  E-value=2.1e-51  Score=361.14  Aligned_cols=214  Identities=33%  Similarity=0.426  Sum_probs=204.9

Q ss_pred             ccccCcchhhHHHhcCCCCCCcccccc-ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTG-TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADT   92 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~G-ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~   92 (274)
                      ..|||+||++|+||+     .+++++| +|+|||+++||||||+|+|.++|.++..++.+|||+|+|||+|++||+.+|+
T Consensus         8 ~~fsp~g~l~q~e~a-----~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~aDa   82 (236)
T COG0638           8 TIFSPEGRLFQVEYA-----LEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADA   82 (236)
T ss_pred             eeECCCCchHHHHHH-----HHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcHhH
Confidence            559999999999999     7888875 9999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhcc---CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEec
Q 023965           93 EAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ---GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        93 ~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~---~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      +.++++++.+++.|++.++++++++.++++|++++++|+   |||++++|+||+|+++|+||++||+|++.+++++|+|+
T Consensus        83 ~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~~rP~gv~~iiaG~d~~~p~Ly~~Dp~G~~~~~~~~a~Gs  162 (236)
T COG0638          83 QVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGS  162 (236)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccCcccceEEEEEEEEcCCCCeEEEECCCCceeecCEEEEcC
Confidence            999999999999999999999999999999999999886   69999999999999779999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeC-CCEEEeccccCC
Q 023965          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLP  232 (274)
Q Consensus       170 gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k-~g~~~~~~~~~~  232 (274)
                      |+..|+++||+.|+++|++|||++++++||..+++||..++++++|++|++ +|.+.+.+.++.
T Consensus       163 gs~~a~~~Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~~~~~~~~~  226 (236)
T COG0638         163 GSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIK  226 (236)
T ss_pred             CcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeEEcCHHHHH
Confidence            999999999999999999999999999999999999998999999999999 788888877654

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=1.4e-50  Score=359.98  Aligned_cols=211  Identities=20%  Similarity=0.330  Sum_probs=197.4

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+++.++..++.+|||+|+++|+||+||..+|++.+
T Consensus        12 fsp~Grl~QvEYA-----~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   86 (253)
T PTZ00246         12 FSPEGRLYQVEYA-----LEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADANIL   86 (253)
T ss_pred             ECCCCEEhHHHHH-----HHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHHHHHHH
Confidence            9999999999999     99999999999999999999999999999888877789999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEec
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      .+.++.++..|++.++++++++.+++.++..++.|     .|||++++|+||||+ .||+||.+||+|++.+++++|+|+
T Consensus        87 ~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D~~Gs~~~~~~~a~G~  166 (253)
T PTZ00246         87 INQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQ  166 (253)
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEECCCCCEecceEEEECC
Confidence            99999999999999999999999999998876543     369999999999995 789999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC------EEEeccccC
Q 023965          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD------KEYLRNHQL  231 (274)
Q Consensus       170 gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g------~~~~~~~~~  231 (274)
                      |+..++++||+.|+++|+++||++++++||..+..+|..++++++|++|+++|      ++.+.+.++
T Consensus       167 gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~~~~~~~~~~l~~~ei  234 (253)
T PTZ00246        167 NNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEI  234 (253)
T ss_pred             CcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCcCCCCCeEECCHHHH
Confidence            99999999999999999999999999999999999999999999999999985      455555544

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=2.4e-50  Score=352.28  Aligned_cols=202  Identities=29%  Similarity=0.376  Sum_probs=193.0

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+. .++..++.+||++|+++|+|++||..+|++.
T Consensus         9 ~f~p~Grl~Qieya-----~~av~~G~tvigi~~~dgvvlaad~r~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   82 (224)
T TIGR03633         9 VFSPDGRLYQVEYA-----REAVKRGTTAVGIKTKDGVVLAVDKRITS-KLVEPSSIEKIFKIDDHIGAATSGLVADARV   82 (224)
T ss_pred             eECCCCeEeHHHHH-----HHHHHcCCCEEEEEECCEEEEEEeccCCc-cccCCCccceEEEECCCEEEEEeecHHhHHH
Confidence            39999999999999     89999999999999999999999999984 6777789999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEec
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      +.++++.++..|++.++++++++.++++|++.++.|     .|||++++||||+|++||+||.+||+|++.+++++|+|+
T Consensus        83 l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~~ll~G~d~~~~~Ly~~D~~G~~~~~~~~a~G~  162 (224)
T TIGR03633        83 LIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATAIGA  162 (224)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceEEEEEEEeCCcCEEEEECCCCCeecceEEEECC
Confidence            999999999999999999999999999999988655     469999999999998899999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCE
Q 023965          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK  223 (274)
Q Consensus       170 gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~  223 (274)
                      |+.+++++||+.|+++|+++||++++++||..+.+ |..++++++|++|+++|.
T Consensus       163 g~~~~~~~L~~~~~~~~~~eeai~l~~~al~~~~~-d~~~~~~i~i~ii~~~g~  215 (224)
T TIGR03633       163 GRQAVTEFLEKEYREDLSLDEAIELALKALYSAVE-DKLTPENVEVAYITVEDK  215 (224)
T ss_pred             CCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhc-ccCCCCcEEEEEEEcCCC
Confidence            99999999999999999999999999999999887 888999999999999984

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.

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=3.7e-50  Score=348.62  Aligned_cols=199  Identities=18%  Similarity=0.233  Sum_probs=189.6

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     .+|+++|+|+|||+++||||||+|+|.+.+.++.+++.+||++|+++|+|++||..+|++.
T Consensus         9 ~fsp~Grl~Qveya-----~~a~~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   83 (213)
T cd03752           9 IFSPEGRLYQVEYA-----MEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDANI   83 (213)
T ss_pred             eECCCCEEhHHHhH-----HHHHhcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHhHHH
Confidence            39999999999999     8999999999999999999999999999988777779999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEe
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiG  168 (274)
                      +.++++.++..|++.++++++++.+++.|+..++.|     .|||++++|+||||. .||+||.+||+|++.+++++|+|
T Consensus        84 l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v~~li~G~D~~~g~~ly~~d~~G~~~~~~~~a~G  163 (213)
T cd03752          84 LINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIG  163 (213)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCcccceeEEEEEEEeCCCCCEEEEECCCCCeeeeeEEEEC
Confidence            999999999999999999999999999998876543     379999999999995 78999999999999999999999


Q ss_pred             cChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE
Q 023965          169 SGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       169 sgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      +|+..++++||+.|+++||++||++++++||..+.+||..++.+++|.++
T Consensus       164 ~gs~~~~~~Le~~y~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         164 NNNQAAQSLLKQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             CCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            99999999999999999999999999999999999999899999999875

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=5.1e-50  Score=353.93  Aligned_cols=215  Identities=27%  Similarity=0.352  Sum_probs=198.4

Q ss_pred             CCCCcc-----ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEE
Q 023965           10 PKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCC   84 (274)
Q Consensus        10 ~~~g~~-----fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~   84 (274)
                      .+.||+     |||+||++|||||     .+|+++|+|+|||+++||||||+|+|.++ .++..++.+||++|+++|+|+
T Consensus         6 ~~~~y~~~~~~fsp~Gr~~Q~eya-----~~av~~G~t~igik~~dgVvlaad~r~~~-~~~~~~~~~KI~~I~~~i~~~   79 (241)
T PRK03996          6 QQMGYDRAITIFSPDGRLYQVEYA-----REAVKRGTTAVGVKTKDGVVLAVDKRITS-PLIEPSSIEKIFKIDDHIGAA   79 (241)
T ss_pred             cccccCCCCceECCCCeEhHHHHH-----HHHHHhCCCEEEEEeCCEEEEEEeccCCC-cccCCCccceEEEEcCCEEEE
Confidence            345666     8999999999999     89999999999999999999999999984 677778999999999999999


Q ss_pred             ecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCe
Q 023965           85 GAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGST  159 (274)
Q Consensus        85 ~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~  159 (274)
                      +||..+|++.+.++++.++..|++.++++++++.+++.|++.++.|     .|||++++||||||.+||+||.+||+|++
T Consensus        80 ~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~~gp~Ly~id~~G~~  159 (241)
T PRK03996         80 SAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAY  159 (241)
T ss_pred             EcccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeCCcCEEEEECCCCCe
Confidence            9999999999999999999999999999999999999999988655     46999999999999989999999999999


Q ss_pred             eeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC--EEEeccccC
Q 023965          160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD--KEYLRNHQL  231 (274)
Q Consensus       160 ~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g--~~~~~~~~~  231 (274)
                      .+++++|+|+|+..++++||+.|+++|+++||++++++||..+.++ ..++++++|++|+++|  .+.+.+.++
T Consensus       160 ~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~~~-~~~~~~i~i~ii~~~~~~~~~~~~~ei  232 (241)
T PRK03996        160 LEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKANEG-KLDPENVEIAYIDVETKKFRKLSVEEI  232 (241)
T ss_pred             ecceEEEECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEECCCCcEEECCHHHH
Confidence            9999999999999999999999999999999999999999999875 5679999999999987  555544443

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=4.5e-50  Score=347.79  Aligned_cols=197  Identities=19%  Similarity=0.188  Sum_probs=186.6

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++ .++..++.+|||+|++||+|++||..+|++.+
T Consensus        11 fsp~Grl~Qveya-----~~a~~~G~tvIgik~kdgVvla~d~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   84 (212)
T cd03751          11 FSPDGRVFQVEYA-----NKAVENSGTAIGIRCKDGVVLAVEKLVTS-KLYEPGSNKRIFNVDRHIGIAVAGLLADGRHL   84 (212)
T ss_pred             ECCCCcchHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEEccccc-cccCcchhcceeEecCcEEEEEEEChHhHHHH
Confidence            8999999999999     99999999999999999999999999986 66666789999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecC
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      .++++.+++.|++.++++++++.++++|++.++.|     .|||++++|+||+|++||+||++||+|++.+++++|+|+|
T Consensus        85 ~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~gp~Ly~~D~~Gs~~~~~~~a~G~g  164 (212)
T cd03751          85 VSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKG  164 (212)
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCCcCEEEEECCCCCEEeeEEEEECCC
Confidence            99999999999999999999999999999876544     4799999999999988999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE
Q 023965          171 SLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       171 s~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      +..++++||+.|+++||++||+++++++|..+++.+...+.+|+|.++
T Consensus       165 ~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         165 KQAAKTELEKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             CHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            999999999999999999999999999999999877677899998874

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=1.1e-50  Score=334.08  Aligned_cols=215  Identities=23%  Similarity=0.333  Sum_probs=201.8

Q ss_pred             CCCccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChh
Q 023965           11 KGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAA   90 (274)
Q Consensus        11 ~~g~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~a   90 (274)
                      ++=++|||+||++|||||     .+|++.|+|.|||+.++|||||+++|.++ ++..++..+||++|++||+|++||+.+
T Consensus        10 rgVNTfSpEGRlfQVEYa-----ieAikLGsTaIGv~TkEgVvL~vEKritS-pLm~p~sveKi~eid~HIgca~SGl~a   83 (241)
T KOG0176|consen   10 RGVNTFSPEGRLFQVEYA-----IEAIKLGSTAIGVKTKEGVVLAVEKRITS-PLMEPSSVEKIVEIDDHIGCAMSGLIA   83 (241)
T ss_pred             ccccccCCCceeeehhhH-----HHHHhcCCceeeeeccceEEEEEeccccC-cccCchhhhhheehhhceeeecccccc
Confidence            455779999999999999     99999999999999999999999999998 888899999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc----------cCcceeEEEEEEEeCCCCEEEEEcCCCCee
Q 023965           91 DTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----------QGHVQAALVLGGVDATGPHLHTIYPHGSTD  160 (274)
Q Consensus        91 D~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~----------~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~  160 (274)
                      |++.++++.|.++++|++.|+++++++.+.+.+++.-.++          .|||||++|+||+|++||+||+.||+|++.
T Consensus        84 DarTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~gpqL~h~dPSGtf~  163 (241)
T KOG0176|consen   84 DARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDETGPQLYHLDPSGTFI  163 (241)
T ss_pred             chHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCCCceEEEeCCCCceE
Confidence            9999999999999999999999999999999999876554          379999999999999999999999999999


Q ss_pred             eeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC-CEEEeccccCC
Q 023965          161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLP  232 (274)
Q Consensus       161 ~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~-g~~~~~~~~~~  232 (274)
                      ++++-|||||+.-|.+.|++.|+++|+++||.++++..|+..++.... ..|+++.++++. ++++..|.++.
T Consensus       164 ~~~AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVMeeKl~-~~Nvev~~vt~e~~f~~~t~EE~~  235 (241)
T KOG0176|consen  164 RYKAKAIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVMEEKLN-SNNVEVAVVTPEGEFHIYTPEEVE  235 (241)
T ss_pred             EecceeccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHhcC-ccceEEEEEcccCceEecCHHHHH
Confidence            999999999999999999999999999999999999999999987654 689999999998 57887776653

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=2.1e-49  Score=343.45  Aligned_cols=198  Identities=21%  Similarity=0.215  Sum_probs=186.3

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      -.|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+.+ +  .++.+|||+|+++|+|++||..+|++
T Consensus         6 t~fsp~Grl~Qveya-----~~av~~G~t~IgIk~~dgVvlaad~r~~~~-l--~~~~~KI~~I~~~i~~~~sG~~~D~~   77 (211)
T cd03749           6 TTWSPQGRLFQVEYA-----MEAVKQGSATVGLKSKTHAVLVALKRATSE-L--SSYQKKIFKVDDHIGIAIAGLTADAR   77 (211)
T ss_pred             ceECCCCeEeHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEeccCccc-c--CCccccEEEeCCCEEEEEEeChHhHH
Confidence            359999999999999     899999999999999999999999998764 2  35679999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEe
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMG  168 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiG  168 (274)
                      .+.++++.++.+|+++++++++++.+++.++..++.|     .|||++++|+||||++||+||.+||+|++.+++++|+|
T Consensus        78 ~l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~gp~Ly~~Dp~G~~~~~~~~a~G  157 (211)
T cd03749          78 VLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKATSIG  157 (211)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCCCCeEEEECCCcCEeeeeEEEEC
Confidence            9999999999999999999999999999999877643     47999999999999889999999999999999999999


Q ss_pred             cChHHHHHHHHhhcC--CCCCHHHHHHHHHHHHHHhhhcCC-CCCCcEEEEEEe
Q 023965          169 SGSLAAMAVFESKYR--EGLTKEEGISLVCEAICSGIFNDL-GSGSNVDICVIT  219 (274)
Q Consensus       169 sgs~~a~~~Le~~~~--~~ms~eeai~la~~al~~~~~~d~-~sg~~i~i~vi~  219 (274)
                      +|+..++++||++|+  ++|+++||+++++++|+.++.+|. .++.+|||++|+
T Consensus       158 ~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         158 ARSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             CCcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            999999999999998  699999999999999999999887 889999999984

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

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=4.9e-49  Score=341.14  Aligned_cols=198  Identities=27%  Similarity=0.388  Sum_probs=188.7

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     .+|+++|+|+|||+++||||||+|+|.+. .++..++.+||++|+++++|+.||..+|++.
T Consensus         8 ~fsp~G~l~Q~eya-----~~av~~G~t~igik~~dgvvla~d~~~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   81 (211)
T cd03756           8 VFSPDGRLYQVEYA-----REAVKRGTTALGIKCKEGVVLAVDKRITS-KLVEPESIEKIYKIDDHVGAATSGLVADARV   81 (211)
T ss_pred             eECCCCeEhHHHHH-----HHHHHcCCCEEEEEECCEEEEEEeccCCC-cccCCCccceEEEEcCCEEEEEecCHHHHHH
Confidence            49999999999999     89999999999999999999999999984 6777789999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEec
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      +.++++.+++.|+++++++++++.+++.|++.++.|     .|||++++|+||||++||+||.+||+|++.+++++|+|+
T Consensus        82 l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~~~ly~vd~~G~~~~~~~~a~G~  161 (211)
T cd03756          82 LIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGS  161 (211)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEEEEEEEEeCCCCEEEEECCCCCeeeeEEEEECC
Confidence            999999999999999999999999999999887654     369999999999999899999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEe
Q 023965          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT  219 (274)
Q Consensus       170 gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~  219 (274)
                      |+..++++||+.|+++|+++||++++++||..+.+++. ++.+++|++|+
T Consensus       162 g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l~~~~~~~~-~~~~~~v~ii~  210 (211)
T cd03756         162 GRQAVTEFLEKEYKEDMSLEEAIELALKALYAALEENE-TPENVEIAYVT  210 (211)
T ss_pred             CCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEe
Confidence            99999999999999999999999999999999998776 89999999986

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=5e-49  Score=340.12  Aligned_cols=196  Identities=19%  Similarity=0.273  Sum_probs=185.0

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+. .++..++.+||++|++||+|++||..+|++
T Consensus         6 ~~fsp~Gr~~Qveya-----~~av~~G~t~Igik~~dgVvlaad~~~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (207)
T cd03755           6 TVFSPDGHLFQVEYA-----QEAVRKGTTAVGVRGKDCVVLGVEKKSVA-KLQDPRTVRKICMLDDHVCLAFAGLTADAR   79 (207)
T ss_pred             ceECCCCeEeHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEecCCCC-cccCCCccCcEEEECCCEEEEEecchhhHH
Confidence            459999999999999     89999999999999999999999999776 566677899999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEE
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      .+.++++.+++.|++.++++++++.+++.|++.++.|     .|||++++|+||||+ +||+||.+||+|++.+++++|+
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~~~~~~~a~  159 (207)
T cd03755          80 VLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAI  159 (207)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeEEEEEEEeCCCCeEEEEECCCcCEEcceEEEE
Confidence            9999999999999999999999999999999988655     369999999999996 5899999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE
Q 023965          168 GSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      |+|+..++++||++|+++||++||++++++||..+++   .++.++||+++
T Consensus       160 G~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~---~~~~~~e~~~~  207 (207)
T cd03755         160 GRNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVVQ---SGSKNIELAVM  207 (207)
T ss_pred             CCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhC---CCCCeEEEEEC
Confidence            9999999999999999999999999999999999986   67899999985

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

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=9.5e-49  Score=339.77  Aligned_cols=198  Identities=24%  Similarity=0.345  Sum_probs=187.0

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++++++|+|+|||+++||||||+|+|.+. .++..++.+||++|+++|+|++||..+|++
T Consensus         6 ~~f~p~G~~~Q~eya-----~~a~~~G~t~igik~~dgVvlaad~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (213)
T cd03753           6 NTFSPEGRLFQVEYA-----IEAIKLGSTAIGIKTKEGVVLAVEKRITS-PLMEPSSVEKIMEIDDHIGCAMSGLIADAR   79 (213)
T ss_pred             ccCCCCCeEhHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEecccCC-cCcCCCccceEEEEcCCEEEEEecCHHHHH
Confidence            359999999999999     89999999999999999999999999986 566678899999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc----------cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeC
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----------QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLP  163 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~----------~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~  163 (274)
                      .+.+.++.+++.|++.++++++++.++++|++.+++|          .|||++++|+||||++||+||.+||+|++.+++
T Consensus        80 ~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~gp~Ly~vd~~G~~~~~~  159 (213)
T cd03753          80 TLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCD  159 (213)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCCCCEEEEECCCCCeeccc
Confidence            9999999999999999999999999999999988764          279999999999999999999999999999999


Q ss_pred             eEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE
Q 023965          164 FATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       164 ~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      ++|+|+|+..++++|+++|+++||++||++++++||+.+.+++ .++.+++|+++
T Consensus       160 ~~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~-~~~~~~ei~~~  213 (213)
T cd03753         160 AKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVMEEK-LNSTNVELATV  213 (213)
T ss_pred             EEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEC
Confidence            9999999999999999999999999999999999999988765 67899999985

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

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=5.3e-48  Score=335.56  Aligned_cols=197  Identities=17%  Similarity=0.222  Sum_probs=182.7

Q ss_pred             cccCcchhhHHHhcCCCCCCccccc-cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~-Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      .|||+||++|||||     ++|+++ |+|+|||+++||||||+|+|.+.+ ++..++.+||++|+++|+|++||+.+|++
T Consensus         8 ~fsp~Grl~Qveya-----~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~-~i~~~~~~Ki~~I~~~i~~~~sG~~~D~~   81 (215)
T cd03754           8 IFSPEGRLYQVEYA-----FKAVKNAGLTSVAVRGKDCAVVVTQKKVPDK-LIDPSTVTHLFRITDEIGCVMTGMIADSR   81 (215)
T ss_pred             eECCCCeEeHHHhH-----HHHHhcCCccEEEEEeCCEEEEEEecccccc-ccCCcccCceEEEcCCEEEEEEechhhHH
Confidence            49999999999999     899874 889999999999999999998874 45556889999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEE
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      .+.+++|.++..|+++++++++++.+++.+++.++.|     .|||++++|+||+|+ +||+||++||+|++.+++++|+
T Consensus        82 ~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v~~ii~G~D~~~gp~Ly~~Dp~Gs~~~~~~~a~  161 (215)
T cd03754          82 SQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAA  161 (215)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCeeEEEEEEEeCCCCeEEEEEcCCccEEeEEEEEE
Confidence            9999999999999999999999999999999865432     369999999999996 6899999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCCC--C--CHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE
Q 023965          168 GSGSLAAMAVFESKYREG--L--TKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~~--m--s~eeai~la~~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      |+|+..++++||+.|+++  |  |++||++++++||..++++|.. +.+++|.++
T Consensus       162 G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~~-~~~~ei~~~  215 (215)
T cd03754         162 GVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDFK-ATEIEVGVV  215 (215)
T ss_pred             CCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccCC-CCcEEEEEC
Confidence            999999999999999985  7  9999999999999999999965 899999875

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=5.9e-48  Score=333.88  Aligned_cols=198  Identities=26%  Similarity=0.356  Sum_probs=187.9

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++++++|+|+||++++||||||+|+|.+.+ ++..++.+|||+|+++++|++||..+|++
T Consensus         6 ~~f~~~G~~~q~eya-----~~~~~~G~tvigi~~~dgVvlaaD~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   79 (209)
T cd01911           6 TTFSPEGRLFQVEYA-----LEAVKNGSTAVGIKGKDGVVLAVEKKVTSK-LLDPSSVEKIFKIDDHIGCAVAGLTADAR   79 (209)
T ss_pred             ccCCCCCEEeHHHHH-----HHHHHcCCCEEEEEECCEEEEEEEecCCcc-ccCCcccceEEEecCCeEEEeccCcHhHH
Confidence            359999999999999     899999999999999999999999999874 55668999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCC-CCEEEEEcCCCCeeeeCeEEE
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~-gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      .+.+.++..+.+|++.++++++++.++++|++.++.|     .||+++++||||+|.+ ||+||.+||.|++.+++++++
T Consensus        80 ~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~~~~~~~a~  159 (209)
T cd01911          80 VLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAI  159 (209)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhheEEEEEEcCCCCcEEEEECCCCCeeeeeEEEe
Confidence            9999999999999999999999999999999988654     3699999999999975 899999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEE
Q 023965          168 GSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      |+|+..++++||+.|+++|+++||++++++||..+..+|. ++.+++|+++
T Consensus       160 G~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~l~~~~~~d~-~~~~~~i~i~  209 (209)
T cd01911         160 GKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVLEEDK-KAKNIEIAVV  209 (209)
T ss_pred             CCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHhccC-CCCcEEEEEC
Confidence            9999999999999999999999999999999999999998 9999999875

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

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=1.3e-45  Score=314.58  Aligned_cols=189  Identities=76%  Similarity=1.218  Sum_probs=184.8

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+|+||||||+|+|.++|.++..++.+|||+|+++++|++||..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~igi~~~dgvvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (189)
T cd03763           1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTAL   80 (189)
T ss_pred             CeEEEEEECCeEEEEEcCCcccCceEEcCCccceEEecCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~  200 (274)
                      ++|+++++.|+.|+++++|+||||++||+||.+||+|++.+++++|+|+|+..++++||++|+++||++||++++++||+
T Consensus        81 ~~l~~~l~~~~~p~~v~~ivaG~d~~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea~~l~~~~l~  160 (189)
T cd03763          81 TMLKQHLFRYQGHIGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIE  160 (189)
T ss_pred             HHHHHHHHHcCCccceeEEEEeEcCCCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Confidence            99999999998899999999999988999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCCCcEEEEEEeCCCEEEeccc
Q 023965          201 SGIFNDLGSGSNVDICVITKGDKEYLRNH  229 (274)
Q Consensus       201 ~~~~~d~~sg~~i~i~vi~k~g~~~~~~~  229 (274)
                      .+.+||+.++++++|++|+++|++..+||
T Consensus       161 ~~~~rd~~~~~~~~v~ii~~~g~~~~~~~  189 (189)
T cd03763         161 AGIFNDLGSGSNVDLCVITKDGVEYLRNY  189 (189)
T ss_pred             HHHHhcCcCCCceEEEEEcCCcEEEecCC
Confidence            99999999999999999999999998886

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

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=3.1e-45  Score=311.99  Aligned_cols=185  Identities=30%  Similarity=0.412  Sum_probs=179.8

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      +|+|||+++||||||+|+|.++|.++.+++.+|||+|++|++|++||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 tT~igi~~kdgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la   80 (188)
T cd03761           1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAAS   80 (188)
T ss_pred             CcEEEEEECCEEEEEEcCCccCCcEEEcCCcceEEEccCcEEEEeCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc-CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (274)
Q Consensus       121 ~~l~~~l~~~~-~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al  199 (274)
                      +++++.++.++ .||++++|+||||++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++.+||
T Consensus        81 ~~ls~~l~~~~~~~~~v~~li~G~D~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea~~l~~~~l  160 (188)
T cd03761          81 KLLSNMLYQYKGMGLSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRAI  160 (188)
T ss_pred             HHHHHHHHhcCCCCeEEEEEEEEEeCCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence            99999999885 47999999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          200 CSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       200 ~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      ..+++||..++++++|++|+++|++.
T Consensus       161 ~~~~~rd~~sg~~~~v~ii~~~g~~~  186 (188)
T cd03761         161 YHATHRDAYSGGNVNLYHVREDGWRK  186 (188)
T ss_pred             HHHHHhcccCCCCeEEEEEcCCceEE
Confidence            99999999999999999999999864

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=2e-45  Score=325.12  Aligned_cols=210  Identities=24%  Similarity=0.368  Sum_probs=194.4

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      |+|.+--++.|+++          ++|+|+|||+++||||||+|+|.+.|.++..++.+||++|++|++|++||..+|++
T Consensus        23 ~~~~~~~~~~~~~~----------~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~   92 (247)
T PTZ00488         23 YTFDHGDANKAIEF----------AHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCS   92 (247)
T ss_pred             hhhccccCCccccc----------CCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHH
Confidence            56666666665544          56999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhccC-cceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChH
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQG-HVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSL  172 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~-p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~  172 (274)
                      .+.++++.+++.|++.++++++++.++++|++.++.++. |+.+++|+||||.+||+||.+||+|++.+++++|+|+|+.
T Consensus        93 ~l~~~lr~~~~~y~~~~g~~isv~~la~~ls~~l~~~R~~~~~v~~iiaG~D~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~  172 (247)
T PTZ00488         93 FWERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSGST  172 (247)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCCCCeeEEEEEEEEeCCCCEEEEEcCCcceeecCCEEEccCHH
Confidence            999999999999999999999999999999999998842 3445589999999899999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCC
Q 023965          173 AAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPN  233 (274)
Q Consensus       173 ~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~  233 (274)
                      +++++||+.|+++||++||++++++||+.+..||..++++++|++|+++|++.+.+.++..
T Consensus       173 ~~~~~Le~~~k~dms~eEai~l~~kal~~~~~Rd~~sg~~~ei~iI~k~g~~~l~~~ei~~  233 (247)
T PTZ00488        173 YAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDGWKKISADDCFD  233 (247)
T ss_pred             HHHHHHHhcCcCCCCHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCCccEECCHHHHHH
Confidence            9999999999999999999999999999999999999999999999999998888776543

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=1.1e-44  Score=314.17  Aligned_cols=193  Identities=22%  Similarity=0.318  Sum_probs=183.3

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCC
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~  113 (274)
                      .+.+++|+|+|||+++||||||+|+|.++|.++.+++.+|||+|+++|+||+||..+|++.+.++++.+++.|++.++++
T Consensus         2 ~~~~~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~   81 (212)
T cd03757           2 SPYTDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKE   81 (212)
T ss_pred             CCccCCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCC
Confidence            46678999999999999999999999999998888999999999999999999999999999999999999999999999


Q ss_pred             CcHHHHHHHHHHHHHhcc-CcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcC--------
Q 023965          114 SRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR--------  183 (274)
Q Consensus       114 ~~v~~la~~l~~~l~~~~-~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~--------  183 (274)
                      ++++.++++|++.++..+ +||++++|+||||. .+|+||.+||+|++.+++++|+|+|+.+++++||+.|+        
T Consensus        82 i~~~~la~~ls~~ly~~R~~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~~  161 (212)
T cd03757          82 MSTEAIAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVE  161 (212)
T ss_pred             CCHHHHHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccCcCC
Confidence            999999999999998653 59999999999996 45999999999999999999999999999999999985        


Q ss_pred             -CCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEe
Q 023965          184 -EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYL  226 (274)
Q Consensus       184 -~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~  226 (274)
                       ++||++||++++++||+.+..||..++++++|++|+++|++..
T Consensus       162 ~~~ms~eea~~l~~~~l~~~~~rd~~sg~~i~i~iit~~g~~~~  205 (212)
T cd03757         162 RTPLSLEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDGIEEE  205 (212)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCcccCCCEEEEEEcCCCEEEE
Confidence             8999999999999999999999999999999999999998644

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

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=1.2e-44  Score=309.54  Aligned_cols=186  Identities=24%  Similarity=0.319  Sum_probs=178.5

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      +|+|||+++||||||+|+|.++|.++.+++.+|||+|+++|+|++||..+|++.+.++++.++..|++.++++++++.++
T Consensus         2 ~t~igi~~~dgVvlaad~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la   81 (193)
T cd03758           2 ETLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAA   81 (193)
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEecCcccEEEeCCCeEEEEccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc---cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHH
Q 023965          121 TLLKSHLFKY---QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVC  196 (274)
Q Consensus       121 ~~l~~~l~~~---~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~  196 (274)
                      +++++.++.|   +|||++++|+||||+ .||+||++||+|++.+++++|+|+|+.+++++||+.|+++||++||++++.
T Consensus        82 ~~l~~~~~~~~~~~rP~~~~~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~  161 (193)
T cd03758          82 NFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMK  161 (193)
T ss_pred             HHHHHHHHHHhhcCCCeEEEEEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHHHHHHHH
Confidence            9999988644   369999999999996 789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhcCCCCCCcEEEEEEeCCCEEEe
Q 023965          197 EAICSGIFNDLGSGSNVDICVITKGDKEYL  226 (274)
Q Consensus       197 ~al~~~~~~d~~sg~~i~i~vi~k~g~~~~  226 (274)
                      +|++.+.+||..++++++|++|+++|++.+
T Consensus       162 ~a~~~~~~rd~~~~~~i~i~ii~~~g~~~~  191 (193)
T cd03758         162 KCIKELKKRFIINLPNFTVKVVDKDGIRDL  191 (193)
T ss_pred             HHHHHHHHhccccCCceEEEEEcCCCeEeC
Confidence            999999999999999999999999998753

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=1.3e-44  Score=309.82  Aligned_cols=187  Identities=22%  Similarity=0.295  Sum_probs=178.3

Q ss_pred             ccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHH
Q 023965           39 TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVT  118 (274)
Q Consensus        39 ~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~  118 (274)
                      +|+|+|||+++||||||+|+|.+++.++.+++.+|||+|++||+|++||..+|++.+.++++.+++.|++.++++++++.
T Consensus         2 ~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   81 (195)
T cd03759           2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKT   81 (195)
T ss_pred             CCceEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            69999999999999999999999988777888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc-cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeC-eEEEecChHHHHHHHHhhcCCCCCHHHHHHHH
Q 023965          119 ALTLLKSHLFKY-QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLP-FATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (274)
Q Consensus       119 la~~l~~~l~~~-~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~-~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la  195 (274)
                      ++++|++.++.. .+||++++|+||||. .||+||.+||+|++..+. ++|+|+|+..++++||+.|+++||++||++++
T Consensus        82 la~~l~~~ly~~r~~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~  161 (195)
T cd03759          82 FSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETI  161 (195)
T ss_pred             HHHHHHHHHHHhcCCCceEEEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHH
Confidence            999999998755 479999999999996 469999999999998877 99999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          196 CEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       196 ~~al~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      ++||+.+..||..++++++|++|+++|++.
T Consensus       162 ~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~  191 (195)
T cd03759         162 SQALLSAVDRDALSGWGAVVYIITKDKVTT  191 (195)
T ss_pred             HHHHHHHHhhCcccCCceEEEEEcCCcEEE
Confidence            999999999999999999999999999864

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

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=100.00  E-value=1.2e-44  Score=310.49  Aligned_cols=190  Identities=25%  Similarity=0.346  Sum_probs=179.9

Q ss_pred             ccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHh-hhhhhcCCCCcHH
Q 023965           39 TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQ-LHRYHTGRESRVV  117 (274)
Q Consensus        39 ~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~-~~~~~~~~~~~v~  117 (274)
                      +|+|+|||+++||||||+|+|.+.|.++.+++.+|||+|+++|+|+++|..+|++.+++++|.++. .+++.++++++++
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~   80 (197)
T cd03760           1 TGTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPK   80 (197)
T ss_pred             CCceEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHH
Confidence            599999999999999999999998899999999999999999999999999999999999999987 5678899999999


Q ss_pred             HHHHHHHHHHHhc---cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCC--CCCHHHH
Q 023965          118 TALTLLKSHLFKY---QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE--GLTKEEG  191 (274)
Q Consensus       118 ~la~~l~~~l~~~---~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms~eea  191 (274)
                      .++++++++++.+   .|||++++|+||||+ +||+||++||+|++.+++++|+|+|+.+++++||+.|++  +||++||
T Consensus        81 ~la~~i~~~~y~~~~~~rP~~v~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~eea  160 (197)
T cd03760          81 EIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEA  160 (197)
T ss_pred             HHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHHHH
Confidence            9999999998754   379999999999997 789999999999999999999999999999999999999  9999999


Q ss_pred             HHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEecc
Q 023965          192 ISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRN  228 (274)
Q Consensus       192 i~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~  228 (274)
                      ++++++||+.+.+||..++++++|++|+++|++...|
T Consensus       161 ~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~~~~  197 (197)
T cd03760         161 RALIEECMKVLYYRDARSINKYQIAVVTKEGVEIEGP  197 (197)
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEEECCCCEEeCCC
Confidence            9999999999999999999999999999999876543

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

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=1.7e-44  Score=306.41  Aligned_cols=184  Identities=35%  Similarity=0.524  Sum_probs=179.1

Q ss_pred             cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        40 Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      |+|+|||+++||||||+|+|.+.|.++..++.+|||+|+++|+|++||..+|++.+.++++.+++.|+..++++++++.+
T Consensus         1 G~t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (185)
T TIGR03634         1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKAL   80 (185)
T ss_pred             CCcEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcc-CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 023965          120 LTLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (274)
Q Consensus       120 a~~l~~~l~~~~-~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~a  198 (274)
                      +++|++.++.++ +||++++|+||+|.+||+||.+||+|++.+++++++|+|+.+++++||+.|+++||++||++++++|
T Consensus        81 a~~l~~~~~~~~~rP~~v~~ivaG~d~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~  160 (185)
T TIGR03634        81 ATLLSNILNSNRFFPFIVQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRA  160 (185)
T ss_pred             HHHHHHHHHhcCCCCeEEEEEEEEEeCCCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence            999999998764 7999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCCCcEEEEEEeCCCE
Q 023965          199 ICSGIFNDLGSGSNVDICVITKGDK  223 (274)
Q Consensus       199 l~~~~~~d~~sg~~i~i~vi~k~g~  223 (274)
                      |+.+.+||..++++++|++|+++|+
T Consensus       161 l~~~~~r~~~~~~~~~v~ii~~~g~  185 (185)
T TIGR03634       161 IKSAIERDVASGNGIDVAVITKDGV  185 (185)
T ss_pred             HHHHHHhcccCCCCEEEEEEcCCCC
Confidence            9999999999999999999999984

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.

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=1.3e-44  Score=317.00  Aligned_cols=200  Identities=19%  Similarity=0.273  Sum_probs=182.4

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEec----CcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCC-CCc
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMA----PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGR-ESR  115 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~----~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~-~~~  115 (274)
                      |.+|||+++||||||+|+|.+.+.+. .++.+|||+|+    +||+||.||..+|++.+++++|.++++|++.+|+ +++
T Consensus         1 ~~~vGIk~kdGVVLaadkr~~~~l~~-~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~   79 (236)
T cd03765           1 TYCLGIKLDAGLVFASDSRTNAGVDN-ISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPT   79 (236)
T ss_pred             CeEEEEEeCCeEEEEEccCccCCCcc-ccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCC
Confidence            57999999999999999999886444 44789999998    8999999999999999999999999999999999 899


Q ss_pred             HHHHHHHHHHHHHh----cc-------CcceeEEEEEEEeC-CCCEEEEEcCCCCeeee----CeEEEecChHHHHHHHH
Q 023965          116 VVTALTLLKSHLFK----YQ-------GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTL----PFATMGSGSLAAMAVFE  179 (274)
Q Consensus       116 v~~la~~l~~~l~~----~~-------~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~----~~~aiGsgs~~a~~~Le  179 (274)
                      ++.+++.+++.+++    +.       |||+|++|+||||+ .||+||++||+|++.++    +|+|+|+ +.+++++||
T Consensus        80 v~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Le  158 (236)
T cd03765          80 MFDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILD  158 (236)
T ss_pred             HHHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHH
Confidence            99999998887543    33       69999999999994 78999999999999998    6799996 799999999


Q ss_pred             hhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCCCCcccCCC
Q 023965          180 SKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKG  242 (274)
Q Consensus       180 ~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~~~~~~~~~  242 (274)
                      ++|+++||++||++++++||..++.||..+|++|+|++|+++|.+......++..++|-+...
T Consensus       159 k~yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~G~~~~~~~~~~~~~~~~~~~~  221 (236)
T cd03765         159 RVITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERDSLQVGHYRRIEEDDPYFAMIR  221 (236)
T ss_pred             HhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECCCeeeeeeEEecCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999888889988888744333

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=5.7e-44  Score=304.00  Aligned_cols=185  Identities=34%  Similarity=0.556  Sum_probs=180.0

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      +|+|||+++||||||+|+|.++|.++.+++.+|||+|+++|+|++||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 ~t~igi~~~dgVvla~D~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a   80 (188)
T cd03762           1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAA   80 (188)
T ss_pred             CeEEEEEECCeEEEEEcccccCCceEEcCCcccEEEccCCEEEEecccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHH
Confidence            68999999999999999999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al  199 (274)
                      +++++.++.+++||++++|+||+|+ +||+||.+||+|++.+++++++|+|+.+++++||+.|+++||++||++++++||
T Consensus        81 ~~l~~~~~~~~~~~~~~~ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~al  160 (188)
T cd03762          81 SLFKNLCYNYKEMLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNAL  160 (188)
T ss_pred             HHHHHHHHhccccceeeEEEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999996 789999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          200 CSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       200 ~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      +.+..||+.++++++|++|+++|++.
T Consensus       161 ~~~~~rd~~~~~~~~i~~i~~~g~~~  186 (188)
T cd03762         161 SLAMSRDGSSGGVIRLVIITKDGVER  186 (188)
T ss_pred             HHHHHhccccCCCEEEEEECCCCEEE
Confidence            99999999999999999999999863

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

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=1.2e-43  Score=302.11  Aligned_cols=186  Identities=35%  Similarity=0.507  Sum_probs=180.2

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|+++|+|+++|..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 tt~iai~~~dgvvia~d~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (188)
T cd03764           1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALA   80 (188)
T ss_pred             CcEEEEEeCCEEEEEEccccccCCEEecCCcccEEEccCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc-CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (274)
Q Consensus       121 ~~l~~~l~~~~-~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al  199 (274)
                      +++++.++.++ +||++++|+||+|.+||+||.+||+|++.+++++|+|+|+.+++++||+.|+++|+++||++++++||
T Consensus        81 ~~i~~~~~~~~~~P~~~~~lvaG~d~~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea~~l~~~~l  160 (188)
T cd03764          81 TLLSNILNSSKYFPYIVQLLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAI  160 (188)
T ss_pred             HHHHHHHHhcCCCCcEEEEEEEEEeCCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence            99999998764 79999999999998889999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCCCcEEEEEEeCCCEEEe
Q 023965          200 CSGIFNDLGSGSNVDICVITKGDKEYL  226 (274)
Q Consensus       200 ~~~~~~d~~sg~~i~i~vi~k~g~~~~  226 (274)
                      +.+.+||..++++++|++++++|++.+
T Consensus       161 ~~~~~rd~~~~~~i~i~iv~~~g~~~~  187 (188)
T cd03764         161 KSAIERDSASGDGIDVVVITKDGYKEL  187 (188)
T ss_pred             HHHHhhcCCCCCcEEEEEECCCCeEeC
Confidence            999999999999999999999997765

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.

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=1.2e-42  Score=302.76  Aligned_cols=195  Identities=21%  Similarity=0.294  Sum_probs=181.1

Q ss_pred             ccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHH
Q 023965           39 TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVT  118 (274)
Q Consensus        39 ~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~  118 (274)
                      +|+|+|||+++||||||+|+|.++|.++.+++.+|||+|++|++|++||..+|++.+.++++.+++.|++.++++++++.
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~   80 (219)
T TIGR03690         1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDG   80 (219)
T ss_pred             CCcEEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            49999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhc----cCcceeEEEEEEEeC--CCCEEEEEcCCCC-eeeeCeEEEecChHHHHHHHHhhcCCCCCHHHH
Q 023965          119 ALTLLKSHLFKY----QGHVQAALVLGGVDA--TGPHLHTIYPHGS-TDTLPFATMGSGSLAAMAVFESKYREGLTKEEG  191 (274)
Q Consensus       119 la~~l~~~l~~~----~~p~~v~lIvaG~D~--~gp~Ly~idp~G~-~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea  191 (274)
                      ++++|++.++.+    .|||++++||||||.  ++|+||++||+|+ +..++++|+|+|+..++++||+.|+++||++||
T Consensus        81 la~~ls~~~~~~~~~~~rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~ms~eea  160 (219)
T TIGR03690        81 KANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDA  160 (219)
T ss_pred             HHHHHHHHHHhhhhhccCCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCcCHHHH
Confidence            999999888643    589999999999995  4699999999995 777899999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhcCCCCCCc-------EEEEEEeCCCEEEeccccCCC
Q 023965          192 ISLVCEAICSGIFNDLGSGSN-------VDICVITKGDKEYLRNHQLPN  233 (274)
Q Consensus       192 i~la~~al~~~~~~d~~sg~~-------i~i~vi~k~g~~~~~~~~~~~  233 (274)
                      ++++++||..+.++|..+++.       ++|++|+++|++.+.+.++..
T Consensus       161 i~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~g~~~l~~~ei~~  209 (219)
T TIGR03690       161 LRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITADGARRVPESELEE  209 (219)
T ss_pred             HHHHHHHHHHHHhcccccCCcccccccccEEEEEccCceEEcCHHHHHH
Confidence            999999999999999877664       399999999998887776543

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.

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=4.5e-42  Score=292.19  Aligned_cols=185  Identities=44%  Similarity=0.631  Sum_probs=179.2

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++..++.+|||+|+++|+|++||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 tt~i~i~~~dgVvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (189)
T cd01912           1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAA   80 (189)
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEEcCCcCcEEEccCCEEEEccccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999999888789999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccC-cceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQG-HVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (274)
Q Consensus       121 ~~l~~~l~~~~~-p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~a  198 (274)
                      +++++.++.+++ ||++++|+||+|+ ++|+||.+||+|++.+++++++|+++.+++++||+.|+++||++||++++++|
T Consensus        81 ~~l~~~~~~~~~~P~~~~~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~ea~~~~~~~  160 (189)
T cd01912          81 NLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKA  160 (189)
T ss_pred             HHHHHHHHhcCCCCeEEEEEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHHHHHHHHHH
Confidence            999999998875 9999999999997 78999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          199 ICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       199 l~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      |..+.++|..++++++|++|+++|++.
T Consensus       161 l~~~~~~d~~~~~~~~v~vi~~~g~~~  187 (189)
T cd01912         161 IDSAIERDLSSGGGVDVAVITKDGVEE  187 (189)
T ss_pred             HHHHHHhcCccCCcEEEEEECCCCEEE
Confidence            999999999999999999999999864

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.

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

Probab=100.00  E-value=6.4e-43  Score=292.86  Aligned_cols=200  Identities=18%  Similarity=0.181  Sum_probs=186.2

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     +||+.+|+|||||+||||||+++++..++ ++.......|||.|++||+|+++|+.+|.+.+
T Consensus        15 fSpdGrvfQveYA-----~KAven~~T~IGIk~kdGVVl~vEKli~S-kLy~p~sn~ri~~V~r~iG~avaGl~~Dg~~l   88 (254)
T KOG0184|consen   15 FSPDGRVFQVEYA-----QKAVENSGTCIGIKCKDGVVLAVEKLITS-KLYEPGSNERIFSVDRHIGMAVAGLIPDGRHL   88 (254)
T ss_pred             eCCCCceehHHHH-----HHHHhcCCcEEEEecCCeEEEEEeeeecc-cccccCCCCceEeecccccEEEeccccchHHH
Confidence            8899999999999     89999999999999999999999999998 66667788999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecC
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      .+++|.++..|+.+|+.++|...++..+.+.++-|     .||||++.++++||.+|||||.++|+|..+.++.+|+|.|
T Consensus        89 ~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~~g~~LymiepSG~~~~Y~~aaiGKg  168 (254)
T KOG0184|consen   89 VNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDDEGPQLYMIEPSGSSYGYKGAAIGKG  168 (254)
T ss_pred             HHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeCCCceEEEEcCCCCccceeeeeccch
Confidence            99999999999999999999999999999987643     4899999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC
Q 023965          171 SLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG  221 (274)
Q Consensus       171 s~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~  221 (274)
                      .+.|++.||+.--.+|+.+|+++.+.+.|..+.+........+++.++...
T Consensus       169 rq~aKtElEKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~e  219 (254)
T KOG0184|consen  169 RQAAKTELEKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEE  219 (254)
T ss_pred             hHHHHHHHHhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEee
Confidence            999999999998889999999999999999887655555667888888663

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

Probab=100.00  E-value=2.1e-43  Score=294.30  Aligned_cols=207  Identities=20%  Similarity=0.309  Sum_probs=193.8

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++|+++|+|.||++++|+|||+.+++... .+...+...||..+++|+++++||+.+|++.+
T Consensus        11 FSPDGhL~QVEYA-----qEAvrkGstaVgvrg~~~vvlgvEkkSv~-~Lq~~r~~rkI~~ld~hV~mafaGl~aDAril   84 (249)
T KOG0183|consen   11 FSPDGHLFQVEYA-----QEAVRKGSTAVGVRGNNCVVLGVEKKSVP-KLQDERTVRKISMLDDHVVMAFAGLTADARIL   84 (249)
T ss_pred             ECCCCCEEeeHhH-----HHHHhcCceEEEeccCceEEEEEeecchh-hhhhhhhhhhheeecceeeEEecCCCccceee
Confidence            9999999999999     89999999999999999999999998775 77888889999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCC-CEEEEEcCCCCeeeeCeEEEec
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~g-p~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      ++++|-+|+.|+++...+++++.+.++|++.-++|     +||||++.|++|+|++| |+||+++|+|.+.+|.+.|+|.
T Consensus        85 inrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGvs~Li~GfD~~g~p~lyqtePsG~f~ewka~aiGr  164 (249)
T KOG0183|consen   85 INRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGVSTLIGGFDPDGTPRLYQTEPSGIFSEWKANAIGR  164 (249)
T ss_pred             hhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccceEEEEeeCCCCCeeeEeeCCCcchhhhhcccccc
Confidence            99999999999999999999999999999887776     48999999999999977 9999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCC--CCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC-EEEeccccC
Q 023965          170 GSLAAMAVFESKYREG--LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQL  231 (274)
Q Consensus       170 gs~~a~~~Le~~~~~~--ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g-~~~~~~~~~  231 (274)
                      +++.+..+||++|.++  .+..++++|++++|......+   +.|+++.|++.++ .+++...++
T Consensus       165 ~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvqs~---~~nie~aVm~~~~~~~~l~~~~I  226 (249)
T KOG0183|consen  165 SSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQSG---GKNIEVAVMKRRKDLKMLESEEI  226 (249)
T ss_pred             ccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhhcC---CCeeEEEEEecCCceeecCHHHH
Confidence            9999999999999876  789999999999999988755   6899999999987 777766544

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

Probab=100.00  E-value=8.2e-43  Score=290.15  Aligned_cols=206  Identities=20%  Similarity=0.243  Sum_probs=193.3

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++++.+.+|+|||.++||||||++++.++..+-.+...+||++|+|+|+|+.+|+.+|+.
T Consensus        10 tiFspEGRLyQVEyA-----meais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~DAn   84 (249)
T KOG0178|consen   10 TIFSPEGRLYQVEYA-----MEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTSDAN   84 (249)
T ss_pred             cccCCCcchHHHHHH-----HHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccccHH
Confidence            459999999999999     999999999999999999999999999986666677889999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHH---hcc--CcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEE
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLF---KYQ--GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~---~~~--~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      .|++.+|..++.|.+.+++++|++.+++.|++.-+   +|.  ||||||+|.+|||+ .|.+||+.||||++..|++.|+
T Consensus        85 vL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGny~gWka~ci  164 (249)
T KOG0178|consen   85 VLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGNYGGWKATCI  164 (249)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCCccccceeee
Confidence            99999999999999999999999999999988765   553  79999999999998 6899999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCCCCC-HHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEE
Q 023965          168 GSGSLAAMAVFESKYREGLT-KEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKE  224 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~~ms-~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~  224 (274)
                      |.++..|+++|...|++++. ++||+.+|++.|..++..+..+...+++..++++..+
T Consensus       165 G~N~~Aa~s~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k  222 (249)
T KOG0178|consen  165 GANSGAAQSMLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNK  222 (249)
T ss_pred             ccchHHHHHHHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCc
Confidence            99999999999999998655 9999999999999999999889999999999998754

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

Probab=100.00  E-value=3.6e-43  Score=289.12  Aligned_cols=211  Identities=19%  Similarity=0.290  Sum_probs=200.5

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||.|++.|+|||     ..|+++|.+.|||+..||||||++++..+ .+.......|++.|.++|+|..||..+|++.+
T Consensus        13 FSpsGKL~QieyA-----L~Av~~G~~SvGi~A~nGvVlatekk~~s-~L~~~~sv~KV~~i~~~IG~vYSGmgpD~Rvl   86 (233)
T KOG0181|consen   13 FSPSGKLVQIEYA-----LTAVVNGQTSVGIKAANGVVLATEKKDVS-PLVDEESVRKVEKITPHIGCVYSGMGPDYRVL   86 (233)
T ss_pred             EcCCCceehHHHH-----HHHHhCCCCceeeeecCceEEEeccCCCC-ccchhhhhhhHhhccCCcceEEecCCCceeeh
Confidence            8999999999999     99999999999999999999999998876 78888899999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhcc-----CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecC
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-----GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~-----~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      ++..|..++.|...|++++|+..+++.++..++.|.     ||||+++++||||..+|.||++||+|+++.|+++|+|.+
T Consensus        87 V~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~~~p~LyQvdPSGsyf~wkatA~Gkn  166 (233)
T KOG0181|consen   87 VHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDEGGPLLYQVDPSGSYFAWKATAMGKN  166 (233)
T ss_pred             hhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCCCceeEEEECCccceeehhhhhhccC
Confidence            999999999999999999999999999999998773     799999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCC
Q 023965          171 SLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPN  233 (274)
Q Consensus       171 s~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~  233 (274)
                      ...++++||++|+++|.+++++..|+..|++..+... +..||||.++..++++.+.+-++..
T Consensus       167 ~v~aktFlEkR~~edleldd~ihtailtlkE~fege~-~~~nieigv~~~~~F~~lt~~eI~d  228 (233)
T KOG0181|consen  167 YVNAKTFLEKRYNEDLELDDAIHTAILTLKESFEGEM-TAKNIEIGVCGENGFRRLTPAEIED  228 (233)
T ss_pred             cchHHHHHHHHhccccccchHHHHHHHHHHHHhcccc-ccCceEEEEecCCceeecCHHHHHH
Confidence            9999999999999999999999999999999997764 5799999999999999998877643

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=3.5e-41  Score=294.72  Aligned_cols=194  Identities=16%  Similarity=0.214  Sum_probs=175.1

Q ss_pred             HHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHh
Q 023965           25 LSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQ  104 (274)
Q Consensus        25 veya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~  104 (274)
                      =|||     ++|+++|+|+|||+++||||||+|++.        ++.+|||+|+|||+||+||..+|++.+++.++.+++
T Consensus        17 ~EYA-----~kav~~g~T~VGIk~kdgVVLaaek~~--------~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~   83 (228)
T TIGR03691        17 AELA-----RKGIARGRSVVVLTYADGILFVAENPS--------RSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYAD   83 (228)
T ss_pred             HHHH-----HHHHHcCCcEEEEEeCCeEEEEEecCC--------CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHH
Confidence            4898     899999999999999999999999972        357999999999999999999999999999999999


Q ss_pred             hhhhhcC-CCCcHHHHHHHHHHHHHh----ccCcceeEEEEEEEeC--CCCEEEEEcCCCCeeeeC-eEEEecChHHHHH
Q 023965          105 LHRYHTG-RESRVVTALTLLKSHLFK----YQGHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLP-FATMGSGSLAAMA  176 (274)
Q Consensus       105 ~~~~~~~-~~~~v~~la~~l~~~l~~----~~~p~~v~lIvaG~D~--~gp~Ly~idp~G~~~~~~-~~aiGsgs~~a~~  176 (274)
                      .|++.++ .+++++.+++.+++.+..    ..|||+|++|+||||+  +||+||.+||+|++.+++ ++|+|+|+..+++
T Consensus        84 ~~~~~~~~~~~~v~~la~~~tq~~~~~~~~~~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a~~  163 (228)
T TIGR03691        84 MRGYSYDRRDVTGRGLANAYAQTLGTIFTEQQKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIAT  163 (228)
T ss_pred             HHhhhcCCCCccHHHHHHHHHhhcccccccccCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEECCChHHHHH
Confidence            9999998 689999999888887643    3589999999999984  689999999999999976 8999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHhhh--cCCCCCCcEEEEEEeCCC----EEEeccccC
Q 023965          177 VFESKYREGLTKEEGISLVCEAICSGIF--NDLGSGSNVDICVITKGD----KEYLRNHQL  231 (274)
Q Consensus       177 ~Le~~~~~~ms~eeai~la~~al~~~~~--~d~~sg~~i~i~vi~k~g----~~~~~~~~~  231 (274)
                      +||++|+++||++||++++++||..+++  ++..++.+++|.++++++    ++.+.+.++
T Consensus       164 ~Lek~y~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~f~~l~~~ei  224 (228)
T TIGR03691       164 ALKESYRDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRAFRRITGEAL  224 (228)
T ss_pred             HHHHhcCCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccceEECCHHHH
Confidence            9999999999999999999999999954  667889999999999764    666655544

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=4.9e-40  Score=277.47  Aligned_cols=178  Identities=36%  Similarity=0.542  Sum_probs=172.1

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      +|+|||+++||||||+|+|.++|.....++.+|||+|+++|+|+++|..+|++.+.+.++.++..|+++++++++++.++
T Consensus         1 tt~igi~~~dgvvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~   80 (182)
T cd01906           1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALA   80 (182)
T ss_pred             CcEEEEEeCCEEEEEEecccCCcCeecCCCcceEEEECCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999998887789999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc---CcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ---GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVC  196 (274)
Q Consensus       121 ~~l~~~l~~~~---~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~  196 (274)
                      ++|++.++.++   +|+++++|+||+|. +||+||.+||+|++.+++++|+|+|+..++++||+.|+++||++||+++++
T Consensus        81 ~~l~~~~~~~~~~~~p~~~~~lv~G~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~ea~~l~~  160 (182)
T cd01906          81 KLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELAL  160 (182)
T ss_pred             HHHHHHHHHhCCCccChheEEEEEEEeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHHHHHHHH
Confidence            99999998875   89999999999997 789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhcCCCCCCcEEEEEE
Q 023965          197 EAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       197 ~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      +||+.+.++|..++.+++|++|
T Consensus       161 ~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         161 KALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             HHHHHHHcccCCCCCCEEEEEC
Confidence            9999999999989999999875

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

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

Probab=100.00  E-value=4.2e-40  Score=279.69  Aligned_cols=182  Identities=31%  Similarity=0.438  Sum_probs=168.7

Q ss_pred             ccccceEEEEEeCCEEEEEEeCCCcCCceeeccC-cCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCc
Q 023965           37 RKTGTTIVGLIFQNGVILGADTRATAGSIVCDKN-CEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR  115 (274)
Q Consensus        37 ~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~-~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~  115 (274)
                      +++|+|+|||+++||||||+|+|.+.|..+..++ .+|||+|++||+|++||..+|++.+.++++.++..|++.++++++
T Consensus         1 v~~G~t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~   80 (190)
T PF00227_consen    1 VNNGTTVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPIS   80 (190)
T ss_dssp             HHTSBEEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTC
T ss_pred             CCCCeEEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCcccc
Confidence            4789999999999999999999999888886666 699999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHH----H-hccCcceeEEEEEEEeCCC-CEEEEEcCCCCeeee-CeEEEecChHHHHHHHHhhcCCCCCH
Q 023965          116 VVTALTLLKSHL----F-KYQGHVQAALVLGGVDATG-PHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTK  188 (274)
Q Consensus       116 v~~la~~l~~~l----~-~~~~p~~v~lIvaG~D~~g-p~Ly~idp~G~~~~~-~~~aiGsgs~~a~~~Le~~~~~~ms~  188 (274)
                      ++.+++.+++.+    + .+.+|+++++|+||+|+++ |+||.+||+|++.++ +++|+|+|+..++++||+.|+++|++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~~~~~  160 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRSGRRPYGVSLLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKPDLSL  160 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTTSTTSEEEEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTTTSSH
T ss_pred             chhhhhhhHHHHhhhcccccccCccccceeeeeccccccceeeeccccccccccccccchhcchhhhHHHHhhccCCCCH
Confidence            996666555443    3 3358999999999999866 999999999999999 79999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCCCCCCcEEEEEE
Q 023965          189 EEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       189 eeai~la~~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      +||++++++||+.+.++|..++++++|++|
T Consensus       161 ~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  161 EEAIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             HHHHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            999999999999999999999999999986

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=100.00  E-value=2e-40  Score=272.71  Aligned_cols=192  Identities=33%  Similarity=0.534  Sum_probs=186.0

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCC
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~  113 (274)
                      ..-+.+|||++|+.|++||||++|+|.+.|.++.++-.+|+.+|.|+|+||-||.++|+|.+.++++.++..|...++++
T Consensus        13 ~~evstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~   92 (224)
T KOG0174|consen   13 KEEVSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKP   92 (224)
T ss_pred             ccccccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCC
Confidence            34578999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcHHHHHHHHHHHHHhccCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHH
Q 023965          114 SRVVTALTLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGI  192 (274)
Q Consensus       114 ~~v~~la~~l~~~l~~~~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai  192 (274)
                      +.+..+++.+++.+|+|+..+.+.+||||||+ .|.++|.+--.|+..+.+++.-||||.+++++++.+|+++||+||++
T Consensus        93 p~v~~aA~l~r~~~Y~~re~L~AgliVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~EE~~  172 (224)
T KOG0174|consen   93 PLVHTAASLFREICYNYREMLSAGLIVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTLEECV  172 (224)
T ss_pred             chHHHHHHHHHHHHHhCHHhhhcceEEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCCCCHHHHH
Confidence            99999999999999999988999999999997 78999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          193 SLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       193 ~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      +++.+|+..++.||-.||+.|.+.+|+++|+++
T Consensus       173 ~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver  205 (224)
T KOG0174|consen  173 RFVKNAVSLAIERDGSSGGVIRLVIINKAGVER  205 (224)
T ss_pred             HHHHHHHHHHHhccCCCCCEEEEEEEccCCceE
Confidence            999999999999999999999999999999863

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

Probab=100.00  E-value=5.1e-40  Score=276.73  Aligned_cols=205  Identities=24%  Similarity=0.272  Sum_probs=189.2

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||.||++|||||     ++|+++|++.||++.++..||+|-+|..+ .+  ++.+.||++|++|+++++||+.+|++.|
T Consensus        13 wsPqGrl~QvEya-----~EavkqGsatVGLks~thaVLvAl~r~~s-eL--ss~QkKi~~iD~h~g~siAGLt~Darvl   84 (264)
T KOG0863|consen   13 WSPQGRLHQVEYA-----MEAVKQGSATVGLKSRTHAVLVALKRAQS-EL--SSHQKKIFKIDDHIGISIAGLTADARVL   84 (264)
T ss_pred             ECCcceehHHHHH-----HHHHhcccceEeecccceEEEeeeccchh-HH--HHhhheeEecccccceEEeccCcchHHH
Confidence            9999999999999     99999999999999999999999998876 22  4678999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHH----hc-cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecC
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLF----KY-QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~----~~-~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      .++++.+|..+++.+++++++..++..|.+.++    .| +|||||.++++|+|+.|||||.++|+|++.+++.++||+.
T Consensus        85 ~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~G~hl~e~~Psg~v~e~~g~sIGsR  164 (264)
T KOG0863|consen   85 SRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDESGPHLYEFCPSGNVFECKGMSIGSR  164 (264)
T ss_pred             HHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCCCceeEEEcCCccEEEEeeeecccc
Confidence            999999999999999999999999999888775    34 5899999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhcC--CCCCHHHHHHHHHHHHHHhhhcC-CCCCCcEEEEEEeCCC-EEEecc
Q 023965          171 SLAAMAVFESKYR--EGLTKEEGISLVCEAICSGIFND-LGSGSNVDICVITKGD-KEYLRN  228 (274)
Q Consensus       171 s~~a~~~Le~~~~--~~ms~eeai~la~~al~~~~~~d-~~sg~~i~i~vi~k~g-~~~~~~  228 (274)
                      |+.++++||++..  ++++.||.++.+++||+.+...| ...+.|+.|+|+.|+. +.+++.
T Consensus       165 SQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~pf~~~d~  226 (264)
T KOG0863|consen  165 SQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDEPFTILDQ  226 (264)
T ss_pred             hhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCCceEeecH
Confidence            9999999999976  59999999999999999999855 7789999999999985 344443

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

Probab=100.00  E-value=4.1e-37  Score=256.30  Aligned_cols=215  Identities=20%  Similarity=0.234  Sum_probs=197.3

Q ss_pred             CCCCcc-----ccCcchhhHHHhcCCCCCCccccc-cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEE
Q 023965           10 PKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYC   83 (274)
Q Consensus        10 ~~~g~~-----fs~~gr~~qveya~~~~~~~a~~~-Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~   83 (274)
                      ++.|||     |||+||++|||||     .||+++ |-|.||++++|++|+++.++.+. .++.++....+|+|+.+|+|
T Consensus         5 s~agfDrhitIFspeGrLyQVEYa-----fkAin~~gltsVavrgkDcavvvsqKkvpD-KLld~~tvt~~f~itk~ig~   78 (246)
T KOG0182|consen    5 SSAGFDRHITIFSPEGRLYQVEYA-----FKAINQAGLTSVAVRGKDCAVVVTQKKVPD-KLLDSSTVTHLFRITKKIGC   78 (246)
T ss_pred             CcCCccceEEEECCCceEEeeehH-----HHHhhcCCCceEEEcCCceEEEEecccCcc-cccccccceeEEEeeccceE
Confidence            467898     9999999999999     799998 89999999999999999999887 77878889999999999999


Q ss_pred             EecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCC
Q 023965           84 CGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHG  157 (274)
Q Consensus        84 ~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G  157 (274)
                      +++|..+|++..++++|.++..+++.||.+||++.|++.+.+.-+.|     .||+|+.+++.|+|+ .||.+|.+||.|
T Consensus        79 v~tG~~aDar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~~~~~i~~D~E~gP~vYk~DpAG  158 (246)
T KOG0182|consen   79 VITGMIADARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGVAATLIGVDEERGPSVYKTDPAG  158 (246)
T ss_pred             EEecCCcchHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccceeEEEEEeccccCcceEeecCcc
Confidence            99999999999999999999999999999999999999988776544     589999999999997 689999999999


Q ss_pred             CeeeeCeEEEecChHHHHHHHHhhcCCC--CCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC--EEEeccccC
Q 023965          158 STDTLPFATMGSGSLAAMAVFESKYREG--LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD--KEYLRNHQL  231 (274)
Q Consensus       158 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~--ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g--~~~~~~~~~  231 (274)
                      -+..+++++.|.....+.++||++|+++  .|.+|++++++.||..++.-|.. ...++|.+++++.  ++++...++
T Consensus       159 yy~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk-~se~EVgvv~~~~p~f~~Ls~~ei  235 (246)
T KOG0182|consen  159 YYYGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFK-SSELEVGVVTVDNPEFRILSAEEI  235 (246)
T ss_pred             ccccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccC-CcceEEEEEEcCCcceeeccHHHH
Confidence            9999999999999999999999999987  67999999999999999988865 4889999999986  555554443

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

Probab=100.00  E-value=4e-37  Score=262.87  Aligned_cols=195  Identities=28%  Similarity=0.415  Sum_probs=187.6

Q ss_pred             ccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcH
Q 023965           37 RKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV  116 (274)
Q Consensus        37 ~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v  116 (274)
                      ..+|||.+|.+|+.|||+|+|+|++.|++|.+...+||.+|+++.+-++||-++|++..-+.+..+|.+|++++++-|+|
T Consensus        68 ~~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSV  147 (285)
T KOG0175|consen   68 FAHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISV  147 (285)
T ss_pred             ecCCceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceeh
Confidence            46899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhccCc-ceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHH
Q 023965          117 VTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (274)
Q Consensus       117 ~~la~~l~~~l~~~~~p-~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la  195 (274)
                      ..++++|++.+++|++. +.+..+++|||+.||.||.||..|+-.+.+-.++|||+.+|+++|++.|++|||.+||.+|+
T Consensus       148 saASKllsN~~y~YkGmGLsmGtMi~G~Dk~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls~eEA~~L~  227 (285)
T KOG0175|consen  148 SAASKLLSNMVYQYKGMGLSMGTMIAGWDKKGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLSDEEAYDLA  227 (285)
T ss_pred             HHHHHHHHHHHhhccCcchhheeeEeeccCCCCceEEEcCCCCEecCceEeecCCCceeEEeeccCCCCCCCHHHHHHHH
Confidence            99999999999999874 77888999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccC
Q 023965          196 CEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQL  231 (274)
Q Consensus       196 ~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~  231 (274)
                      ++||..|..||..||+.++++.|+.+|...+.+..+
T Consensus       228 rrAI~hAThRDaySGG~vnlyHv~edGW~~v~~~Dv  263 (285)
T KOG0175|consen  228 RRAIYHATHRDAYSGGVVNLYHVKEDGWVKVSNTDV  263 (285)
T ss_pred             HHHHHHHHhcccccCceEEEEEECCccceecCCccH
Confidence            999999999999999999999999999887776644

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

Probab=100.00  E-value=2.1e-35  Score=242.35  Aligned_cols=192  Identities=22%  Similarity=0.316  Sum_probs=183.1

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      .+++||++.|.|++|||+....|-++..++.+|++.+++++.|+++|..+|+.+..+++++++++|+.++|.+++++.++
T Consensus         2 e~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aa   81 (200)
T KOG0177|consen    2 ETLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAA   81 (200)
T ss_pred             ceEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHH
Confidence            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc---cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHH
Q 023965          121 TLLKSHLFKY---QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVC  196 (274)
Q Consensus       121 ~~l~~~l~~~---~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~  196 (274)
                      ++.++.+..+   ++||.|++|+||+|+ .||.||++|..|+..+.+|++.|.|+.++.++|++.|+|+||.+||+++..
T Consensus        82 hFtR~~La~~LRsr~~yqV~~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea~~lmk  161 (200)
T KOG0177|consen   82 HFTRRELAESLRSRTPYQVNILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEALDLMK  161 (200)
T ss_pred             HHHHHHHHHHHhcCCCceEEEEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHHHHHHH
Confidence            9999999765   469999999999997 679999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          197 EAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       197 ~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      +|+.+..+|-+....++.|.+|+|+|.+.++.....
T Consensus       162 KCv~El~kRlvin~~~f~v~IVdkdGir~~~~i~~~  197 (200)
T KOG0177|consen  162 KCVLELKKRLVINLPGFIVKIVDKDGIRKLDDINFI  197 (200)
T ss_pred             HHHHHHHHhcccCCCCcEEEEEcCCCceeccccccc
Confidence            999999999998999999999999999887766543

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

Probab=100.00  E-value=5e-35  Score=243.45  Aligned_cols=210  Identities=22%  Similarity=0.316  Sum_probs=191.5

Q ss_pred             CccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhH
Q 023965           13 GFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADT   92 (274)
Q Consensus        13 g~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~   92 (274)
                      |+.-.|.++..+.+-.   .+.+...+|+|+|||++.|+.|+|+|+|.++|-.+.+++..|||+++|+++++.+|..+|+
T Consensus         5 g~~~~~~~~s~~~~~~---~f~PY~~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~   81 (235)
T KOG0179|consen    5 GIESASGGSSKTMDHE---RFSPYEDNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADT   81 (235)
T ss_pred             ceeecCCCccCccccc---cCCccccCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhH
Confidence            3444444666666666   5688999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhcc-CcceeEEEEEEEeCCC-CEEEEEcCCCCeeeeCeEEEecC
Q 023965           93 EAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        93 ~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~-~p~~v~lIvaG~D~~g-p~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      ..|.+.++..+..|+..++++|++..+|++|+..||..+ -||.+..|+||+|++| +.+|+.||-|++.+..+.|.|++
T Consensus        82 l~L~k~i~~r~~~Y~~~h~k~ms~~s~A~lls~~LY~kRFFPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa  161 (235)
T KOG0179|consen   82 LALVKVIKSRIKQYEHDHNKKMSIHSAAQLLSTILYSKRFFPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSA  161 (235)
T ss_pred             HHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHhhcccccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcc
Confidence            999999999999999999999999999999999998544 4889999999999977 89999999999999999999999


Q ss_pred             hHHHHHHHHhhcC-----------CCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          171 SLAAMAVFESKYR-----------EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       171 s~~a~~~Le~~~~-----------~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      +.+++++|++...           +.+|+|+|++|+.+++..|.+||+.+|.+++|||++++|++.
T Consensus       162 ~~mI~PfLDnQi~~kn~~~e~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~tk~gV~~  227 (235)
T KOG0179|consen  162 ASMIQPFLDNQIGHKNQNLENAERTPLSLERAIRLVKDAFTSAAERDIYTGDKLEICIITKDGVEV  227 (235)
T ss_pred             hhhhhhhhhhhccCcCcccccCcccccCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEecCCEEE
Confidence            9999999997642           468999999999999999999999999999999999999753

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=100.00  E-value=8.9e-35  Score=243.44  Aligned_cols=166  Identities=22%  Similarity=0.242  Sum_probs=149.9

Q ss_pred             cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEe-cCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHH
Q 023965           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVT  118 (274)
Q Consensus        40 Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I-~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~  118 (274)
                      |||+|||+++||||||+|+|++.|.++.+++.+||++| +++++||+||..+|+|.+.++++.++++|+...     ++.
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~~~-----~~~   75 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQGNL-----LRA   75 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccCcc-----HHH
Confidence            79999999999999999999999999999999999999 999999999999999999999999999998322     466


Q ss_pred             HHHHHHHHH-HhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeee--CeEEEecChHHHHHHHHhhcC-CCCCHHHHHHH
Q 023965          119 ALTLLKSHL-FKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKYR-EGLTKEEGISL  194 (274)
Q Consensus       119 la~~l~~~l-~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~--~~~aiGsgs~~a~~~Le~~~~-~~ms~eeai~l  194 (274)
                      ++++++... ++|++|+.+++|++  |  .|+||.+||.|++.+.  +++++|||+.++.++||++|+ ++|   ||+++
T Consensus        76 ~a~l~~~l~~~~~~~~l~~~~lv~--d--~~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m---eA~~l  148 (172)
T PRK05456         76 AVELAKDWRTDRYLRRLEAMLIVA--D--KEHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL---SAEEI  148 (172)
T ss_pred             HHHHHHHHHhccCCCccEEEEEEE--c--CCcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---CHHHH
Confidence            666664442 45667888999994  3  3799999999999776  899999999999999999999 999   99999


Q ss_pred             HHHHHHHhhhcCCCCCCcEEEEE
Q 023965          195 VCEAICSGIFNDLGSGSNVDICV  217 (274)
Q Consensus       195 a~~al~~~~~~d~~sg~~i~i~v  217 (274)
                      +++|++.+.+||..+|++|+|-.
T Consensus       149 a~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        149 AEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             HHHHHHHHHHhCeeCCCcEEEEE
Confidence            99999999999999999999864

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

Probab=100.00  E-value=2.3e-34  Score=239.63  Aligned_cols=165  Identities=21%  Similarity=0.212  Sum_probs=148.3

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecC-cEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAP-NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~-~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      ||+|||+++||||||+|+|++.|.++.+++.+||++|++ ||+||+||..+|++.+.++++.++++|+.+.++     .+
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~a   75 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR-----AA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH-----HH
Confidence            699999999999999999999999999999999999999 999999999999999999999999999988764     45


Q ss_pred             HHHHHHHH-HhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeee--CeEEEecChHHHHHHHHhhcCCC-CCHHHHHHHH
Q 023965          120 LTLLKSHL-FKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKYREG-LTKEEGISLV  195 (274)
Q Consensus       120 a~~l~~~l-~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~--~~~aiGsgs~~a~~~Le~~~~~~-ms~eeai~la  195 (274)
                      +++++..+ ++|++++.+.+|++++    ++||.+||.|++.+.  +++++||||.+|.++||.+|+++ ||   +.++|
T Consensus        76 a~l~~~l~~~~~~~~l~a~~iv~~~----~~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~ms---~~~la  148 (171)
T cd01913          76 VELAKDWRTDRYLRRLEAMLIVADK----EHTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDLS---AEEIA  148 (171)
T ss_pred             HHHHHHHHhccCcCceEEEEEEeCC----CcEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCCC---HHHHH
Confidence            56655553 5666666687877644    499999999999998  49999999999999999999995 99   55999


Q ss_pred             HHHHHHhhhcCCCCCCcEEEEE
Q 023965          196 CEAICSGIFNDLGSGSNVDICV  217 (274)
Q Consensus       196 ~~al~~~~~~d~~sg~~i~i~v  217 (274)
                      .+|++.+++||..+|++|+|-.
T Consensus       149 ~~Av~~A~~rd~~tg~~i~~~~  170 (171)
T cd01913         149 RKALKIAADICIYTNHNITVEE  170 (171)
T ss_pred             HHHHHHHHhhCcccCCCEEEEe
Confidence            9999999999999999999864

HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the interior walls of the cavity. HslV shares significant sequence and structural similarity with the proteasomal beta-subunit and both are members of the Ntn-family of hydrolases. HslV has a nucleophilic threonine residue at its N-terminus that is exposed after processing of the propeptide and is directly involved in active site catalysis.

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

Probab=100.00  E-value=1.7e-34  Score=244.03  Aligned_cols=237  Identities=21%  Similarity=0.310  Sum_probs=209.1

Q ss_pred             CCCCCCCCCCCCCccccCcchhhHHHhcCC---CCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEe
Q 023965            1 MDNANIGIPPKGGFSFDLCRRNDMLSKKGI---VPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYM   77 (274)
Q Consensus         1 ~~~~~~~~~~~~g~~fs~~gr~~qveya~~---~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I   77 (274)
                      |.+-+.-|....--+|.|.|  .+++-++-   ...+....+||++||++|+||||||||+..++|++...++.++++++
T Consensus         1 m~~~~~~~g~pa~~~f~~~~--~~m~~a~~~~~qrt~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kV   78 (256)
T KOG0185|consen    1 MNNYNSSWGGPAPGTFYPSG--SLMENAGDYPIQRTLNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKV   78 (256)
T ss_pred             CCccccccCCCCCCcCcCcc--chhhhccCCCcccccCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEe
Confidence            33444445543444577774  56666641   11356677999999999999999999999999999999999999999


Q ss_pred             cCcEEEEecCChhhHHHHHHHHHHHHhhh-hhhcCCCCcHHHHHHHHHHHHHhcc---CcceeEEEEEEEeCCC-CEEEE
Q 023965           78 APNIYCCGAGTAADTEAVTDMVSSQLQLH-RYHTGRESRVVTALTLLKSHLFKYQ---GHVQAALVLGGVDATG-PHLHT  152 (274)
Q Consensus        78 ~~~I~~~~sG~~aD~~~l~~~l~~~~~~~-~~~~~~~~~v~~la~~l~~~l~~~~---~p~~v~lIvaG~D~~g-p~Ly~  152 (274)
                      +||+++++||..+|.|.+.+.+.+...+. .+..++.+.|+.++.+|.+.+|..+   .|+...++|||+|.+| |+|-.
T Consensus        79 gdntllG~sGdisD~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvlY~rRsKmnPlwntlvVgGv~~~g~~~lg~  158 (256)
T KOG0185|consen   79 GDNTLLGASGDISDFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVLYARRSKMNPLWNTLVVGGVDNTGEPFLGY  158 (256)
T ss_pred             cCceEEecCccHHHHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHHHHhhhccCchhhheeEeeecCCCCeeEEE
Confidence            99999999999999999999998887654 4677799999999999999998654   6999999999999865 99999


Q ss_pred             EcCCCCeeeeCeEEEecChHHHHHHHHhhcC---CCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccc
Q 023965          153 IYPHGSTDTLPFATMGSGSLAAMAVFESKYR---EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNH  229 (274)
Q Consensus       153 idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~---~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~  229 (274)
                      +|-.|...+.+.+|+|.|...|.++|++.|.   ++++.+||..++.+||+....||+.+-+.++|.+|+++|+++..|+
T Consensus       159 V~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~eGv~i~~p~  238 (256)
T KOG0185|consen  159 VDLLGVAYESPVVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQVATVDEEGVTISKPY  238 (256)
T ss_pred             EeeccccccCchhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceEEEEEcccceEecCce
Confidence            9999999999999999999999999999997   6899999999999999999999999999999999999999999999


Q ss_pred             cCCCCCCccc
Q 023965          230 QLPNPRTYIS  239 (274)
Q Consensus       230 ~~~~~~~~~~  239 (274)
                      ++..+|.|+.
T Consensus       239 qv~~~W~fa~  248 (256)
T KOG0185|consen  239 QVKTNWDFAE  248 (256)
T ss_pred             eeeecchhhh
Confidence            9999999865

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=100.00  E-value=8.5e-34  Score=236.19  Aligned_cols=165  Identities=21%  Similarity=0.208  Sum_probs=149.5

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEe-cCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I-~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      ||+|||+++||||||+|+|++.|.++.+++.+||++| ++||+||+||..+|++.+.++++.++++|+...     .+.+
T Consensus         1 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~Ki~~i~~d~i~~~~aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~   75 (171)
T TIGR03692         1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEYQGNL-----TRAA   75 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeceEEEcCCCCeEEEeCCCCEEEEecchHHHHHHHHHHHHHHHHHccCch-----HHHH
Confidence            7999999999999999999999999999999999999 599999999999999999999999999998743     4777


Q ss_pred             HHHHHHH-HHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeee--CeEEEecChHHHHHHHHhhc-CCCCCHHHHHHHH
Q 023965          120 LTLLKSH-LFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKY-REGLTKEEGISLV  195 (274)
Q Consensus       120 a~~l~~~-l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~--~~~aiGsgs~~a~~~Le~~~-~~~ms~eeai~la  195 (274)
                      ++++++. .++|.+.+.+.+|++|+    ++||.+||.|++.+.  +++++||||.+|.++||..| +++|+   |+++|
T Consensus        76 a~l~~~~~~~~~~~~l~a~~iv~~~----~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~s---a~~la  148 (171)
T TIGR03692        76 VELAKDWRTDRYLRRLEAMLIVADK----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDLS---AEEIA  148 (171)
T ss_pred             HHHHHHHhhcccccccEEEEEEEcC----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCCC---HHHHH
Confidence            8888875 35666667788888644    499999999999996  69999999999999999999 57888   99999


Q ss_pred             HHHHHHhhhcCCCCCCcEEEEE
Q 023965          196 CEAICSGIFNDLGSGSNVDICV  217 (274)
Q Consensus       196 ~~al~~~~~~d~~sg~~i~i~v  217 (274)
                      .+|++.+++||..+|++|+|-.
T Consensus       149 ~~Av~~A~~rd~~sg~~i~v~~  170 (171)
T TIGR03692       149 REALKIAADICIYTNHNITIEE  170 (171)
T ss_pred             HHHHHHHHhhCccCCCCEEEEe
Confidence            9999999999999999999864

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

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

Probab=99.97  E-value=2.4e-30  Score=209.54  Aligned_cols=187  Identities=21%  Similarity=0.283  Sum_probs=177.7

Q ss_pred             cccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHH
Q 023965           38 KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVV  117 (274)
Q Consensus        38 ~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~  117 (274)
                      -+|+++||+++|+||.||+|.|.....+....+.+|||+++|+++++.+|++.|+|.+.++++....+|+++.++++.++
T Consensus         6 ynGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~   85 (204)
T KOG0180|consen    6 YNGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPE   85 (204)
T ss_pred             ecCceEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcH
Confidence            47999999999999999999999877777888999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcc-CcceeEEEEEEEeCC-CCEEEEEcCCCCeee-eCeEEEecChHHHHHHHHhhcCCCCCHHHHHHH
Q 023965          118 TALTLLKSHLFKYQ-GHVQAALVLGGVDAT-GPHLHTIYPHGSTDT-LPFATMGSGSLAAMAVFESKYREGLTKEEGISL  194 (274)
Q Consensus       118 ~la~~l~~~l~~~~-~p~~v~lIvaG~D~~-gp~Ly~idp~G~~~~-~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~l  194 (274)
                      .++++++..+|+.+ +||.+..+|||+|++ .|+|...|..|.... .+|++.|.++...+++.|..|+|||..|+..+.
T Consensus        86 ~~s~mvS~~lYekRfgpYf~~PvVAGl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnmepd~LFet  165 (204)
T KOG0180|consen   86 TFSSMVSSLLYEKRFGPYFTEPVVAGLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNMEPDELFET  165 (204)
T ss_pred             HHHHHHHHHHHHhhcCCcccceeEeccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCCCCCHHHHHHH
Confidence            99999999998765 899999999999985 499999999999775 689999999999999999999999999999999


Q ss_pred             HHHHHHHhhhcCCCCCCcEEEEEEeCCCEE
Q 023965          195 VCEAICSGIFNDLGSGSNVDICVITKGDKE  224 (274)
Q Consensus       195 a~~al~~~~~~d~~sg~~i~i~vi~k~g~~  224 (274)
                      +..||..+.+||+.||+...+.+|+|+.+.
T Consensus       166 isQa~Lna~DRDalSGwGa~vyiI~kdkv~  195 (204)
T KOG0180|consen  166 ISQALLNAVDRDALSGWGAVVYIITKDKVT  195 (204)
T ss_pred             HHHHHHhHhhhhhhccCCeEEEEEccchhh
Confidence            999999999999999999999999999754

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

Probab=99.97  E-value=2.3e-28  Score=200.15  Aligned_cols=160  Identities=30%  Similarity=0.332  Sum_probs=153.4

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      +|+||++++||||+|+|++.+.+......+..|+++++++++|+++|..+|++.+.++++.+++.|++.++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            58999999999999999999998877678899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc--CcceeEEEEEEEeCCCCEEEEEcCCCCeeee-CeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ--GHVQAALVLGGVDATGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCE  197 (274)
Q Consensus       121 ~~l~~~l~~~~--~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~-~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~  197 (274)
                      +.+++.++.++  +|+++++|+||+|.++|+||.+||+|++.+. .++++|+++..+.++|++.|+++|+++|+++++.+
T Consensus        81 ~~~~~~~~~~~~~~p~~~~~iiag~~~~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  160 (164)
T cd01901          81 KELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALK  160 (164)
T ss_pred             HHHHHHHHHhcCCCCcceEEEEEEEcCCCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            99999998764  8999999999999988999999999999999 99999999999999999999999999999999999


Q ss_pred             HHH
Q 023965          198 AIC  200 (274)
Q Consensus       198 al~  200 (274)
                      +|.
T Consensus       161 ~l~  163 (164)
T cd01901         161 ALK  163 (164)
T ss_pred             HHh
Confidence            986

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=99.78  E-value=2.3e-18  Score=143.49  Aligned_cols=202  Identities=21%  Similarity=0.306  Sum_probs=160.3

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCc-eeeccCcCeeE---EecCcEEE-EecCChhhHHHHHHHHHHHHhhhhh-hcCCCC
Q 023965           41 TTIVGLIFQNGVILGADTRATAGS-IVCDKNCEKIH---YMAPNIYC-CGAGTAADTEAVTDMVSSQLQLHRY-HTGRES  114 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~-~i~~~~~~KI~---~I~~~I~~-~~sG~~aD~~~l~~~l~~~~~~~~~-~~~~~~  114 (274)
                      |.|||++...|.|+++|+|.+.|. .+  ....|+|   .-++++.+ +.+|..+-.|.+.+.+.+..+...- ..-.-+
T Consensus         2 TYCv~l~l~~GlVf~sDsRTNAGvD~i--stfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~   79 (255)
T COG3484           2 TYCVGLILDFGLVFGSDSRTNAGVDYI--STFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIP   79 (255)
T ss_pred             ceEEEEEeccceEEecccccccCchHH--HHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhcch
Confidence            789999999999999999999882 12  1234443   33566655 4499999999999999887752211 111234


Q ss_pred             cHHHHHHHHHHHHHhc-----------cCcceeEEEEEEEeCCC-CEEEEEcCCCCeee----eCeEEEecChHHHHHHH
Q 023965          115 RVVTALTLLKSHLFKY-----------QGHVQAALVLGGVDATG-PHLHTIYPHGSTDT----LPFATMGSGSLAAMAVF  178 (274)
Q Consensus       115 ~v~~la~~l~~~l~~~-----------~~p~~v~lIvaG~D~~g-p~Ly~idp~G~~~~----~~~~aiGsgs~~a~~~L  178 (274)
                      +.-.++.++.....+-           .-.|.|++|+||.-.++ |.||.|.|.|++++    .+|..+|. +.+.+++|
T Consensus        80 sm~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~IYpqGNFIqaT~etpf~QiGE-tKYGKPil  158 (255)
T COG3484          80 SMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGE-TKYGKPIL  158 (255)
T ss_pred             hHHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEEccCCCeeecCCCCceeEccc-cccCchhh
Confidence            5556666666555321           12489999999998755 78999999999987    68999996 67899999


Q ss_pred             HhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCCCCcccCCCccc
Q 023965          179 ESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSF  245 (274)
Q Consensus       179 e~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~~~~~~~~~~~~  245 (274)
                      ++.+..+++++|+.++++-++...++.+.+.|-++++.++.+|.......+++.+..+|.+...=.|
T Consensus       159 dR~i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds~~v~~~~ri~edd~Y~a~ir~~W  225 (255)
T COG3484         159 DRTITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADSFSVRHTLRIREDDPYFAKIRSLW  225 (255)
T ss_pred             hhhhhccCCHHHHhhheEEecchhhhccccccCCceeEEEeccceeeeeeeEeccCChHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999854444333

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

Probab=99.62  E-value=1.2e-14  Score=117.43  Aligned_cols=169  Identities=19%  Similarity=0.195  Sum_probs=138.1

Q ss_pred             ccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecC-cEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHH
Q 023965           39 TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAP-NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVV  117 (274)
Q Consensus        39 ~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~-~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~  117 (274)
                      ++|||++++-++-|+||+|...|.|+.+...+..|+.+|.. .++.+++|..+|+..|.+++..+++.|.-+     -.+
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~g~-----L~r   77 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQGD-----LFR   77 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHccCc-----HHH
Confidence            68999999999999999999999999999999888888876 889999999999999999999999887622     123


Q ss_pred             HHHHHHHHHHH-hccCcceeEEEEEEEeCCCCEEEEEcCCCCeee--eCeEEEecChHHHHHHHHhhcC-CCCCHHHHHH
Q 023965          118 TALTLLKSHLF-KYQGHVQAALVLGGVDATGPHLHTIYPHGSTDT--LPFATMGSGSLAAMAVFESKYR-EGLTKEEGIS  193 (274)
Q Consensus       118 ~la~~l~~~l~-~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~--~~~~aiGsgs~~a~~~Le~~~~-~~ms~eeai~  193 (274)
                      .++.+.++... +|.|.+.+.+||+    +.-++|-+...|...+  ..+.+||||..+|.+.....++ +++|   |.+
T Consensus        78 aavelaKdwr~Dk~lr~LEAmllVa----d~~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~ls---A~e  150 (178)
T COG5405          78 AAVELAKDWRTDKYLRKLEAMLLVA----DKTHILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTELS---ARE  150 (178)
T ss_pred             HHHHHHHhhhhhhHHHHHhhheeEe----CCCcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCC---HHH
Confidence            44444444332 3456677888886    4468999999998876  4599999999999999888885 3777   778


Q ss_pred             HHHHHHHHhhhcCCCCCCcEEEEEEe
Q 023965          194 LVCEAICSGIFNDLGSGSNVDICVIT  219 (274)
Q Consensus       194 la~~al~~~~~~d~~sg~~i~i~vi~  219 (274)
                      ++.++|..+.+-+.+++.||.|-.+.
T Consensus       151 Ia~~sl~iA~eiciyTN~ni~ve~l~  176 (178)
T COG5405         151 IAEKSLKIAGDICIYTNHNIVVEELR  176 (178)
T ss_pred             HHHHHHhhhheEEEecCCcEEEEEee
Confidence            89999999888888888888876654

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

Probab=98.07  E-value=7.4e-07  Score=49.15  Aligned_cols=15  Identities=13%  Similarity=-0.086  Sum_probs=13.8

Q ss_pred             ccccCcchhhHHHhc
Q 023965           14 FSFDLCRRNDMLSKK   28 (274)
Q Consensus        14 ~~fs~~gr~~qveya   28 (274)
                      -.|||+||++|||||
T Consensus         6 t~FSp~Grl~QVEYA   20 (23)
T PF10584_consen    6 TTFSPDGRLFQVEYA   20 (23)
T ss_dssp             TSBBTTSSBHHHHHH
T ss_pred             eeECCCCeEEeeEee
Confidence            359999999999998

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

>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=97.38  E-value=9.9e-05  Score=46.13  Aligned_cols=27  Identities=37%  Similarity=0.655  Sum_probs=11.3

Q ss_pred             CCCCCcccCCCcccCc-eeeeeeeeeEecc
Q 023965          232 PNPRTYISSKGYSFPK-KTEVLLTKITPLE  260 (274)
Q Consensus       232 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  260 (274)
                      |+.+. .|++.|+|++ +|+||+|+| ++.
T Consensus         1 pN~kg-~r~~~Ykf~~GTTaVL~e~V-~~~   28 (38)
T PF12465_consen    1 PNEKG-ERQGSYKFKRGTTAVLKEKV-PLK   28 (38)
T ss_dssp             TT------SS-----TT-S-EEEEEE-E--
T ss_pred             CCcCc-ccccccccCCCceeeEEEEe-ccE
Confidence            35566 7899999999 999999999 553

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 ....

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

Probab=96.57  E-value=0.23  Score=42.11  Aligned_cols=50  Identities=10%  Similarity=0.050  Sum_probs=43.2

Q ss_pred             HHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC
Q 023965          172 LAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG  221 (274)
Q Consensus       172 ~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~  221 (274)
                      +.|...|.++|++.|+++++.++..++|+.+....+.....+++...++.
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            44667788999999999999999999999998777777889999887665

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

>COG4079 Uncharacterized protein conserved in archaea [Function unknown]

Probab=89.39  E-value=15  Score=32.57  Aligned_cols=50  Identities=8%  Similarity=0.069  Sum_probs=42.6

Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC
Q 023965          173 AAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD  222 (274)
Q Consensus       173 ~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g  222 (274)
                      .+..+|.++|.+.++++++.++...+|+.+...-+..+..+++...+++-
T Consensus       133 ~aneflk~~l~~k~~lqd~~dal~elfe~vss~tpsVskeydiy~vs~~~  182 (293)
T COG4079         133 VANEFLKDNLTKKSKLQDAVDALMELFETVSSKTPSVSKEYDIYQVSSNV  182 (293)
T ss_pred             HHHHHHHhhccCCCCHHHHHHHHHHHHHHhhcCCCcccceeEEEEecCCc
Confidence            35667889999999999999999999998887777778899999887753

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

Probab=85.28  E-value=1.5  Score=34.96  Aligned_cols=44  Identities=23%  Similarity=0.410  Sum_probs=40.3

Q ss_pred             EEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHH
Q 023965          151 HTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISL  194 (274)
Q Consensus       151 y~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~l  194 (274)
                      ..+|-+|.+.+.+|-..|-||..|-+-+-..|-..+|+|||.++
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgkt~dea~kI  114 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGKTLDEALKI  114 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccccHHHHHhc
Confidence            46788999999999999999999999999999999999998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	274
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		1e-76
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		1e-76
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		1e-74
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		9e-70
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		1e-69
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		2e-62
1iru_H	205	Crystal Structure Of The Mammalian 20s Proteasome A		2e-24
3unb_N	205	Mouse Constitutive 20s Proteasome In Complex With P		5e-24
3nzj_N	215	Crystal Structure Of Yeast 20s Proteasome In Comple		1e-23
1ryp_H	205	Crystal Structure Of The 20s Proteasome From Yeast		5e-23
1g65_N	196	Crystal Structure Of Epoxomicin:20s Proteasome Reve		6e-23
1vsy_H	196	Proteasome Activator Complex Length = 196		2e-22
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		1e-19
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		1e-19
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		3e-19
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		2e-18
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		3e-18
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		9e-16
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		2e-15
3unf_N	199	Mouse 20s Immunoproteasome In Complex With Pr-957 L		3e-15
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		4e-15
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		5e-15
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		1e-14
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		1e-14
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		2e-14
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		2e-14
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		5e-12
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		6e-12
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		6e-12
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		7e-12
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		8e-12
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		1e-11
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		3e-09
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		3e-09
1ryp_K	198	Crystal Structure Of The 20s Proteasome From Yeast		1e-08
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		1e-07
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		1e-07
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		8e-06
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		3e-05
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		3e-05
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		3e-05
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		4e-05
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		4e-05
1vsy_E	250	Proteasome Activator Complex Length = 250		4e-05
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		4e-05
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		4e-05
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		4e-05
1vsy_C	232	Proteasome Activator Complex Length = 232		5e-05
3unb_I	205	Mouse Constitutive 20s Proteasome In Complex With P		6e-05
2h6j_H	294	Crystal Structure Of The Beta F145a Rhodococcus Pro		1e-04
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		2e-04
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		2e-04
3unb_L	213	Mouse Constitutive 20s Proteasome In Complex With P		2e-04
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		3e-04
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		3e-04
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		3e-04
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		4e-04
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		4e-04
1iru_J	205	Crystal Structure Of The Mammalian 20s Proteasome A		4e-04
1ryp_M	222	Crystal Structure Of The 20s Proteasome From Yeast		4e-04
1g0u_L	241	A Gated Channel Into The Proteasome Core Particle L		4e-04
1q5r_H	294	The Rhodococcus 20s Proteasome With Unprocessed Pro		6e-04
1q5q_H	235	The Rhodococcus 20s Proteasome Length = 235		7e-04
1iru_M	213	Crystal Structure Of The Mammalian 20s Proteasome A		8e-04

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

Iteration: 1
 Score =  282 bits (722), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 135/227 (59%), Positives = 174/227 (76%), Gaps = 2/227 (0%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI G+++++G++LGADTRAT G +V DKNC KIH+++PNIYCCGAGTAADT+  T ++S
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S L+LH   TGR  RVVTA  +LK  LF+Y+G++ AALVLGGVD TGPHL++IYPHGSTD
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVDVTGPHLYSIYPHGSTD 120
Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
            LP+ TMGSGSLAAMAVFE K+R  + +EE  +LV EAI +GIFNDLGSGSN+D+CVI+K
Sbjct: 121 KLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISK 180
Query: 221 GDKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTKITPLENQVEVIE 267
              ++LR + +PN +     +       T VL  KITPLE  +EV+E
Sbjct: 181 NKLDFLRPYTVPNKKGTRLGRYRCEKGTTAVLTEKITPLE--IEVLE 225

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

Iteration: 1
 Score =  282 bits (722), Expect = 1e-76,   Method: Compositional matrix adjust.
 Identities = 135/227 (59%), Positives = 172/227 (75%), Gaps = 2/227 (0%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI G+++++G++LGADTRAT G +V DKNC KIH+++PNIYCCGAGTAADT+  T ++S
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S L+LH   TGR  RVVTA  +LK  LF+YQG++ AALVLGGVD TGPHL++IYPHGSTD
Sbjct: 61  SNLELHSLTTGRLPRVVTANRMLKQMLFRYQGYIGAALVLGGVDVTGPHLYSIYPHGSTD 120
Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
            LP+ TMGSGSLAAMAVFE K+R  + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K
Sbjct: 121 KLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISK 180
Query: 221 GDKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTKITPLENQVEVIE 267
              ++LR   +PN +     +       T VL  K+TPLE  +EV+E
Sbjct: 181 SKLDFLRPFSVPNKKGTRLGRYRCEKGTTAVLTEKVTPLE--IEVLE 225

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

Iteration: 1
 Score =  276 bits (705), Expect = 1e-74,   Method: Compositional matrix adjust.
 Identities = 135/243 (55%), Positives = 174/243 (71%), Gaps = 3/243 (1%)
Query: 12  GGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNC 71
            G SFD  +RN+ L++     P +   TGTTIVG+ F NGV++ ADTR+T G IV DKNC
Sbjct: 2   AGLSFDNYQRNNFLAENSHTQPKA-TSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNC 60
Query: 72  EKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ 131
            K+H ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK HLFKYQ
Sbjct: 61  AKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ 120
Query: 132 GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEG 191
           GH+ A L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMAV ES +++ LTKEE 
Sbjct: 121 GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEA 180
Query: 192 ISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPNPRTYISSKGYSFPKKTE 250
           I L  +AI +GI+NDLGSGSNVD+CV+  G D EYLRN+  PN R     K Y FP+ T 
Sbjct: 181 IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGTT 239
Query: 251 VLL 253
            +L
Sbjct: 240 AVL 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 =  259 bits (663), Expect = 9e-70,   Method: Compositional matrix adjust.
 Identities = 125/216 (57%), Positives = 160/216 (74%), Gaps = 2/216 (0%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTIVG+ F NGV++ ADTR+T G IV DKNC K+H ++P I+C GAGTAADTEAVT ++ 
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S ++LH  +T RE RVV+AL +LK HLFKYQGH+ A L++ GVD TG HL +I+ HGSTD
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTD 120
Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
              + ++GSGSLAAMAV ES +++ LTKEE I L  +AI +GI+NDLGSGSNVD+CV+  
Sbjct: 121 VGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEI 180
Query: 221 G-DKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTK 255
           G D EYLRN+  PN R     K Y FP+ T  +L +
Sbjct: 181 GKDAEYLRNYLTPNVREE-KQKSYKFPRGTTAVLKE 215

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

Iteration: 1
 Score =  259 bits (661), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 125/214 (58%), Positives = 159/214 (74%), Gaps = 2/214 (0%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTIVG+ F NGV++ ADTR+T G IV DKNC K+H ++P I+C GAGTAADTEAVT ++ 
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S ++LH  +T RE RVV+AL +LK HLFKYQGH+ A L++ GVD TG HL +I+ HGSTD
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTD 120
Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
              + ++GSGSLAAMAV ES +++ LTKEE I L  +AI +GI+NDLGSGSNVD+CV+  
Sbjct: 121 VGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEI 180
Query: 221 G-DKEYLRNHQLPNPRTYISSKGYSFPKKTEVLL 253
           G D EYLRN+  PN R     K Y FP+ T  +L
Sbjct: 181 GKDAEYLRNYLTPNVREE-KQKSYKFPRGTTAVL 213

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

Iteration: 1
 Score =  235 bits (600), Expect = 2e-62,   Method: Compositional matrix adjust.
 Identities = 117/233 (50%), Positives = 153/233 (65%), Gaps = 5/233 (2%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI GL+F++GVILGADTRAT  S+V DK+CEKIH++AP IYCCGAG AADTE  T M +
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S+++LH   TGRE RV T   +L+  LF+YQGHV A+LV+GGVD  GP L+ ++PHGS  
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQGHVGASLVVGGVDLNGPQLYEVHPHGSYS 120
Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
            LPF  +GSG  AA+A+ E +++  +T E    L+ EAI +GI +DLGSG NVD CVIT 
Sbjct: 121 RLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGNVDACVITA 180
Query: 221 GDKEYLRNHQLPNPRTYISSKGYSFPKKTEVLLTKITP-----LENQVEVIEV 268
           G  +  R    P      + +    P  T VL  ++ P     LE  V+ +EV
Sbjct: 181 GGAKLQRALSTPTEPVQRAGRYRFAPGTTPVLTREVRPLTLELLEETVQAMEV 233

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

Iteration: 1
 Score =  108 bits (271), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 63/196 (32%), Positives = 103/196 (52%), Gaps = 3/196 (1%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI+ + F  GV+LGAD+R T GS + ++  +K+  +   I+CC +G+AADT+AV D V+
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVD-ATGPHLHTIYPHGST 159
            QL  H         V TA +L K   ++Y+  + A +++ G D   G  ++++   G  
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMM 120
Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
               FA  GSGS       ++ YREG+TKEE +     A+   +  D  SG  + +  I 
Sbjct: 121 VRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAIA 180
Query: 220 KG--DKEYLRNHQLPN 233
           +   +++ L   Q+P 
Sbjct: 181 ESGVERQVLLGDQIPK 196

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

Iteration: 1
 Score =  107 bits (268), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 62/196 (31%), Positives = 104/196 (53%), Gaps = 3/196 (1%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI+ + F  GV+LGAD+R T GS + ++  +K+  +  +I+CC +G+AADT+AV D V+
Sbjct: 1   TTIMAVQFNGGVVLGADSRTTTGSYIANRVTDKLTPIHDHIFCCRSGSAADTQAVADAVT 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVD-ATGPHLHTIYPHGST 159
            QL  H         V TA +L K   ++Y+  + A +++ G D   G  ++++   G  
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMM 120
Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
               FA  GSGS       ++ YREG+TK+E +     A+   +  D  SG  + +  I 
Sbjct: 121 VRQSFAIGGSGSSYIYGYVDATYREGMTKDECLQFTANALALAMERDGSSGGVIRLAAIQ 180
Query: 220 KG--DKEYLRNHQLPN 233
           +   +++ L   Q+P 
Sbjct: 181 ESGVERQVLLGDQIPK 196

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

Iteration: 1
 Score =  106 bits (265), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 60/188 (31%), Positives = 105/188 (55%), Gaps = 2/188 (1%)
Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           GT+I+ + F++GVILGAD+R T G+ + ++  +K+  +   I+CC +G+AADT+A+ D+V
Sbjct: 19  GTSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 78
Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGP-HLHTIYPHGS 158
              L+L+    G  S   TA ++ K   ++ + ++ A +++ G D      ++TI   GS
Sbjct: 79  QYHLELYTSQYGTPS-TETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGS 137
Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
              LP+A  GSGS       +  +RE ++KEE +  +  ++   I  D  SG  + + V+
Sbjct: 138 VHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVL 197
Query: 219 TKGDKEYL 226
           T    E L
Sbjct: 198 TAAGVERL 205

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

Iteration: 1
 Score =  104 bits (260), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 59/188 (31%), Positives = 104/188 (55%), Gaps = 2/188 (1%)
Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           G +I+ + F++GVILGAD+R T G+ + ++  +K+  +   I+CC +G+AADT+A+ D+V
Sbjct: 9   GASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 68
Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGP-HLHTIYPHGS 158
              L+L+    G  S   TA ++ K   ++ + ++ A +++ G D      ++TI   GS
Sbjct: 69  QYHLELYTSQYGTPS-TETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGS 127
Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
              LP+A  GSGS       +  +RE ++KEE +  +  ++   I  D  SG  + + V+
Sbjct: 128 VHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVL 187
Query: 219 TKGDKEYL 226
           T    E L
Sbjct: 188 TAAGVERL 195

>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 =  104 bits (259), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 59/187 (31%), Positives = 104/187 (55%), Gaps = 2/187 (1%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           T+I+ + F++GVILGAD+R T G+ + ++  +K+  +   I+CC +G+AADT+A+ D+V 
Sbjct: 1   TSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQ 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGP-HLHTIYPHGST 159
             L+L+    G  S   TA ++ K   ++ + ++ A +++ G D      ++TI   GS 
Sbjct: 61  YHLELYTSQYGTPS-TETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSV 119
Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
             LP+A  GSGS       +  +RE ++KEE +  +  ++   I  D  SG  + + V+T
Sbjct: 120 HKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLT 179
Query: 220 KGDKEYL 226
               E L
Sbjct: 180 AAGVERL 186

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

Iteration: 1
 Score =  102 bits (254), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 58/186 (31%), Positives = 103/186 (55%), Gaps = 2/186 (1%)
Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSS 101
           +I+ + F++GVILGAD+R T G+ + ++  +K+  +   I+CC +G+AADT+A+ D+V  
Sbjct: 2   SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQY 61
Query: 102 QLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGP-HLHTIYPHGSTD 160
            L+L+    G  S   TA ++ K   ++ + ++ A +++ G D      ++TI   GS  
Sbjct: 62  HLELYTSQYGTPS-TETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVH 120
Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
            LP+A  GSGS       +  +RE ++KEE +  +  ++   I  D  SG  + + V+T 
Sbjct: 121 KLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTA 180
Query: 221 GDKEYL 226
              E L
Sbjct: 181 AGVERL 186

>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 = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 59/187 (31%), Positives = 97/187 (51%), Gaps = 4/187 (2%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           +TGTT VG+  ++ VI+  + R T  + +  KN +K+  +        AG   D + +  
Sbjct: 6   ETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVR 65
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHL--FKYQGHVQAALVLGGVDATGPHLHTIYP 155
            + ++L+L+R        +    TLL + L   KY  ++   L++GG+D T PH+ +I  
Sbjct: 66  YMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYM-VQLLVGGID-TAPHVFSIDA 123
Query: 156 HGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
            G +    +A+ GSGS     V ES+Y E +T +EG+ LV  AI +    D  SG  +D+
Sbjct: 124 AGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDV 183
Query: 216 CVITKGD 222
            VIT+ D
Sbjct: 184 AVITRKD 190

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

Iteration: 1
 Score = 93.2 bits (230), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 59/187 (31%), Positives = 97/187 (51%), Gaps = 4/187 (2%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           +TGTT VG+  ++ VI+  + R T  + +  KN +K+  +        AG   D + +  
Sbjct: 6   ETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVR 65
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHL--FKYQGHVQAALVLGGVDATGPHLHTIYP 155
            + ++L+L+R        +    TLL + L   KY  ++   L++GG+D T PH+ +I  
Sbjct: 66  YMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYM-VQLLVGGID-TAPHVFSIDA 123
Query: 156 HGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
            G +    +A+ GSGS     V ES+Y E +T +EG+ LV  AI +    D  SG  +D+
Sbjct: 124 AGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDV 183
Query: 216 CVITKGD 222
            VIT+ D
Sbjct: 184 AVITRKD 190

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

Iteration: 1
 Score = 92.0 bits (227), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 61/198 (30%), Positives = 100/198 (50%), Gaps = 11/198 (5%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT VGLI  + VIL  D RA+ G++V DK  +K++ +   I    AG+  D +A+  ++ 
Sbjct: 2   TTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLI 61
Query: 101 SQLQLHRYHTGRESRVVTALTLL-----KSHLFKYQGHVQAALVLGGVD-ATGPHLHTIY 154
           ++ +L++  TGR    +   TLL      S +F +   +    ++GG D   G  L ++ 
Sbjct: 62  AEAKLYKMRTGRNIPPLACATLLSNILHSSRMFPFLTQI----IIGGYDLLEGAKLFSLD 117
Query: 155 PHGS-TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNV 213
           P G   +   F   GSGS  A  V E+ Y   ++ EEGI L   A+ S +  D  SG+ +
Sbjct: 118 PLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSAMERDTFSGNGI 177
Query: 214 DICVITKGDKEYLRNHQL 231
            + VITK   +   + ++
Sbjct: 178 SLAVITKDGVKIFEDEEI 195

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

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 54/187 (28%), Positives = 101/187 (54%), Gaps = 8/187 (4%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT VGL+ ++GV++  + RAT G+ +  K  +KI+ +A  +    AG+  D + +  ++ 
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARII- 59
Query: 101 SQLQLHRYHTGRESR-VVTALTLLKSHL---FKYQGHVQAALVLGGVDATGPHLHTIYP- 155
            +++ + Y   RE +  V A+  L S+L   ++Y  ++   L++GG+D+ G  +++I P 
Sbjct: 60  -KIEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYL-VQLLIGGIDSEGKSIYSIDPI 117
Query: 156 HGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
            G+ +       GSGSL A  V E ++   +  +E + L   AI S +  D  SG  +D+
Sbjct: 118 GGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDV 177
Query: 216 CVITKGD 222
             IT+ +
Sbjct: 178 VKITEDE 184

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

Iteration: 1
 Score = 89.0 bits (219), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 57/184 (30%), Positives = 94/184 (51%), Gaps = 4/184 (2%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT VG+  ++ VI+  + R T  + +  KN +K+  +        AG   D + +   + 
Sbjct: 1   TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMK 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHL--FKYQGHVQAALVLGGVDATGPHLHTIYPHGS 158
           ++L+L+R        +    TLL + L   KY  ++   L++GG+D T PH+ +I   G 
Sbjct: 61  AELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYM-VQLLVGGID-TAPHVFSIDAAGG 118
Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
           +    +A+ GSGS     V ES+Y E +T +EG+ LV  AI +    D  SG  +D+ VI
Sbjct: 119 SVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVI 178
Query: 219 TKGD 222
           T+ D
Sbjct: 179 TRKD 182

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 53/194 (27%), Positives = 92/194 (47%), Gaps = 2/194 (1%)
Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           GTT +   FQ G+I+  D+RATAG+ V  +  +K+  + P +    AG AAD +     +
Sbjct: 75  GTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWL 134
Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH--VQAALVLGGVDATGPHLHTIYPHG 157
            SQ +LH         V  A  +L + +++Y+G       ++ G     GP ++ +   G
Sbjct: 135 GSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDG 194
Query: 158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICV 217
           +        +GSG   A  V +S Y+  L+ E+ + L   +I +    D  SG +V++  
Sbjct: 195 TRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYH 254
Query: 218 ITKGDKEYLRNHQL 231
           +T+    Y  NH +
Sbjct: 255 VTEDGWIYHGNHDV 268

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

Iteration: 1
 Score = 79.7 bits (195), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 52/194 (26%), Positives = 92/194 (47%), Gaps = 2/194 (1%)
Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           GTT +   FQ G+I+  D+RATAG+ V  +  +++  + P +    AG AAD +     +
Sbjct: 75  GTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWL 134
Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH--VQAALVLGGVDATGPHLHTIYPHG 157
            SQ +LH         V  A  +L + +++Y+G       ++ G     GP ++ +   G
Sbjct: 135 GSQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDG 194
Query: 158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICV 217
           +        +GSG   A  V +S Y+  L+ E+ + L   +I +    D  SG +V++  
Sbjct: 195 TRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYH 254
Query: 218 ITKGDKEYLRNHQL 231
           +T+    Y  NH +
Sbjct: 255 VTEDGWIYHGNHDV 268

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 58/196 (29%), Positives = 98/196 (50%), Gaps = 4/196 (2%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI+ + F  GV++G+D+R +AG+ V ++  +K+  +   I+C  +G+AAD +A+ DM +
Sbjct: 1   TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAA 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGST 159
            QL+LH         V+ A  ++K+  +KY+  + A L++ G D   G  ++     G  
Sbjct: 61  YQLELHGLELEEPPLVLAAANVVKNISYKYREDLLAHLIVAGWDQREGGQVYGTM-GGML 119
Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
              PF   GSGS       ++ Y+ G+T EE       AI   +  D  SG  + +  IT
Sbjct: 120 IRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYLVTIT 179
Query: 220 KG--DKEYLRNHQLPN 233
               D   +   +LP 
Sbjct: 180 AAGVDHRVILGDELPK 195

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

Iteration: 1
 Score = 78.6 bits (192), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 52/196 (26%), Positives = 91/196 (46%), Gaps = 14/196 (7%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT +G+  ++GV+L  D R T+  +V  ++ EKI  +  ++    +G  AD   + D
Sbjct: 36  RRGTTAIGIACKDGVVLAVDRRITS-KLVKIRSIEKIFQIDDHVAAATSGLVADARVLID 94
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDATGPH 149
               + Q++R   G E   ++   L K      Q + Q         +L++ G+D     
Sbjct: 95  RARLEAQIYRLTYGEE---ISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEAR 151
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L    P G+        +GSG    M + E +YR+ +T +EG+ L   A+     N+   
Sbjct: 152 LFETDPSGALIEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKA--NEDIK 209
Query: 210 GSNVDICVITKGDKEY 225
             NVD+C+IT  D ++
Sbjct: 210 PENVDVCIITVKDAQF 225

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

Iteration: 1
 Score = 78.2 bits (191), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 52/176 (29%), Positives = 87/176 (49%), Gaps = 1/176 (0%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +   FQ+GVI+  D+RATAGS +      K+  + P +    +G AAD +    +++
Sbjct: 1   TTTLAFKFQHGVIVAVDSRATAGSYISSLRMNKVIEINPYLLGTMSGCAADCQYWERLLA 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGST 159
            + +L+    G    V  A  LL + + +Y+G  +    ++ G D  GP L+ +  +G+ 
Sbjct: 61  KECRLYYLRNGERISVSAASKLLSNMMLQYRGMGLSMGSMICGWDKKGPGLYYVDDNGTR 120
Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
            +    + GSG+  A  V +S YR+ L+ EE   L   AI      D  SG  V++
Sbjct: 121 LSGQMFSTGSGNTYAYGVMDSGYRQDLSPEEAYDLGRRAIAYATHRDNYSGGVVNM 176

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

Iteration: 1
 Score = 76.6 bits (187), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 49/176 (27%), Positives = 87/176 (49%), Gaps = 1/176 (0%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +   F++GVI+ AD+RATAG+ +  +  +K+  + P +    AG AAD      +++
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGST 159
            Q +++         V  A  LL + +++Y+G  +    ++ G D  GP L+ +   G+ 
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120
Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
            +    ++GSGS+ A  V +  Y   L  E+   L   AI    + D  SG  V++
Sbjct: 121 ISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNL 176

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

Iteration: 1
 Score = 76.6 bits (187), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 52/193 (26%), Positives = 91/193 (47%), Gaps = 2/193 (1%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +   FQ G+I+  D+RATAG+ V  +  +K+  + P +    AG AAD +     + 
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH--VQAALVLGGVDATGPHLHTIYPHGS 158
           SQ +LH         V  A  +L + +++Y+G       ++ G     GP ++ +   G+
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120
Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
                   +GSG   A  V +S Y+  L+ E+ + L   +I +    D  SG +V++  +
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV 180
Query: 219 TKGDKEYLRNHQL 231
           T+    Y  NH +
Sbjct: 181 TEDGWIYHGNHDV 193

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

Iteration: 1
 Score = 76.3 bits (186), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/176 (28%), Positives = 86/176 (48%), Gaps = 1/176 (0%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +   F +GVI+ AD+RATAG+ +  +  +K+  + P +    AG AAD      +++
Sbjct: 1   TTTLAFKFLHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGST 159
            Q +++         V  A  LL + +++Y+G  +    ++ G D  GP L+ +   G+ 
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120
Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
            +    ++GSGS+ A  V +  Y   L  EE   L   AI    + D  SG  V++
Sbjct: 121 ISGTAFSVGSGSVYAYGVMDRGYSYDLKVEEAYDLARRAIYQATYRDAYSGGAVNL 176

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

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/193 (26%), Positives = 91/193 (47%), Gaps = 2/193 (1%)
Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +   FQ G+I+  D+RATAG+ V  +  +++  + P +    AG AAD +     + 
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH--VQAALVLGGVDATGPHLHTIYPHGS 158
           SQ +LH         V  A  +L + +++Y+G       ++ G     GP ++ +   G+
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120
Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
                   +GSG   A  V +S Y+  L+ E+ + L   +I +    D  SG +V++  +
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV 180
Query: 219 TKGDKEYLRNHQL 231
           T+    Y  NH +
Sbjct: 181 TEDGWIYHGNHDV 193

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 51/204 (25%), Positives = 92/204 (45%), Gaps = 19/204 (9%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+ F NGV+L +D +  +  ++   + EKI  +   +    +G  AD   + D
Sbjct: 32  KKGSTALGMKFANGVLLISDKKVRS-RLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVD 90
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDATGPH 149
                 Q  +   G    +V    L+K    + Q + Q         +L+  G+D  GP 
Sbjct: 91  FARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPR 147
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L    P G+ +      +GSG  A ++  E +Y+E L ++E ++L  +A+ S     L  
Sbjct: 148 LFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSS----LEE 203
Query: 210 GSNV---DICVITKGDKEYLRNHQ 230
           G  +   +I  IT G+K  + + +
Sbjct: 204 GEELKAPEIASITVGNKYRIYDQE 227

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

Iteration: 1
 Score = 67.8 bits (164), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 51/204 (25%), Positives = 92/204 (45%), Gaps = 19/204 (9%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+ F NGV+L +D +  +  ++   + EKI  +   +    +G  AD   + D
Sbjct: 26  KKGSTALGMKFANGVLLISDKKVRS-RLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVD 84
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDATGPH 149
                 Q  +   G    +V    L+K    + Q + Q         +L+  G+D  GP 
Sbjct: 85  FARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPR 141
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L    P G+ +      +GSG  A ++  E +Y+E L ++E ++L  +A+ S     L  
Sbjct: 142 LFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSS----LEE 197
Query: 210 GSNV---DICVITKGDKEYLRNHQ 230
           G  +   +I  IT G+K  + + +
Sbjct: 198 GEELKAPEIASITVGNKYRIYDQE 221

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

Iteration: 1
 Score = 67.8 bits (164), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 51/204 (25%), Positives = 92/204 (45%), Gaps = 19/204 (9%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+ F NGV+L +D +  +  ++   + EKI  +   +    +G  AD   + D
Sbjct: 32  KKGSTALGMKFANGVLLISDKKVRS-RLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVD 90
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDATGPH 149
                 Q  +   G    +V    L+K    + Q + Q         +L+  G+D  GP 
Sbjct: 91  FARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPR 147
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L    P G+ +      +GSG  A ++  E +Y+E L ++E ++L  +A+ S     L  
Sbjct: 148 LFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSS----LEE 203
Query: 210 GSNV---DICVITKGDKEYLRNHQ 230
           G  +   +I  IT G+K  + + +
Sbjct: 204 GEELKAPEIASITVGNKYRIYDQE 227

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

Iteration: 1
 Score = 67.8 bits (164), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 51/204 (25%), Positives = 92/204 (45%), Gaps = 19/204 (9%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+ F NGV+L +D +  +  ++   + EKI  +   +    +G  AD   + D
Sbjct: 32  KKGSTALGMKFANGVLLISDKKVRS-RLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVD 90
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDATGPH 149
                 Q  +   G    +V    L+K    + Q + Q         +L+  G+D  GP 
Sbjct: 91  FARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPR 147
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L    P G+ +      +GSG  A ++  E +Y+E L ++E ++L  +A+ S     L  
Sbjct: 148 LFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSS----LEE 203
Query: 210 GSNV---DICVITKGDKEYLRNHQ 230
           G  +   +I  IT G+K  + + +
Sbjct: 204 GEELKAPEIASITVGNKYRIYDQE 227

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

Iteration: 1
 Score = 67.4 bits (163), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 51/204 (25%), Positives = 92/204 (45%), Gaps = 19/204 (9%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+ F NGV+L +D +  +  ++   + EKI  +   +    +G  AD   + D
Sbjct: 36  KKGSTALGMKFANGVLLISDKKVRS-RLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVD 94
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDATGPH 149
                 Q  +   G    +V    L+K    + Q + Q         +L+  G+D  GP 
Sbjct: 95  FARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPR 151
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L    P G+ +      +GSG  A ++  E +Y+E L ++E ++L  +A+ S     L  
Sbjct: 152 LFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSS----LEE 207
Query: 210 GSNV---DICVITKGDKEYLRNHQ 230
           G  +   +I  IT G+K  + + +
Sbjct: 208 GEELKAPEIASITVGNKYRIYDQE 231

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

Iteration: 1
 Score = 67.0 bits (162), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 51/204 (25%), Positives = 92/204 (45%), Gaps = 19/204 (9%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+ F NGV+L +D +  +  ++   + EKI  +   +    +G  AD   + D
Sbjct: 36  KKGSTALGMKFANGVLLISDKKVRS-RLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVD 94
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDATGPH 149
                 Q  +   G    +V    L+K    + Q + Q         +L+  G+D  GP 
Sbjct: 95  FARISAQQEKVTYGS---LVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPR 151
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L    P G+ +      +GSG  A ++  E +Y+E L ++E ++L  +A+ S     L  
Sbjct: 152 LFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKS----SLEE 207
Query: 210 GSNV---DICVITKGDKEYLRNHQ 230
           G  +   +I  IT G+K  + + +
Sbjct: 208 GEELKAPEIASITVGNKYRIYDQE 231

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

Iteration: 1
 Score = 58.9 bits (141), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/197 (26%), Positives = 89/197 (45%), Gaps = 18/197 (9%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+    GV L  + R T+  ++   + EKI  +  +I C  +G  AD + + D
Sbjct: 32  KLGSTAIGIQTSEGVCLAVEKRITS-PLMEPSSIEKIVEIDAHIGCAMSGLIADAKTLID 90
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQA-----------ALVLGGVDAT 146
               + Q H + T  E+  V ++T   S+L    G   A           AL+ GGVD  
Sbjct: 91  KARVETQNH-WFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEK 149
Query: 147 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGI--SLVCEAICSGIF 204
           GP L  + P G+        +GS S  A +  +  Y + +T +E I  SL+   I   + 
Sbjct: 150 GPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLI---ILKQVM 206
Query: 205 NDLGSGSNVDICVITKG 221
            +  + +N+++  +  G
Sbjct: 207 EEKLNATNIELATVQPG 223

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/197 (26%), Positives = 89/197 (45%), Gaps = 18/197 (9%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+    GV L  + R T+  ++   + EKI  +  +I C  +G  AD + + D
Sbjct: 32  KLGSTAIGIQTSEGVCLAVEKRITS-PLMEPSSIEKIVEIDAHIGCAMSGLIADAKTLID 90
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQA-----------ALVLGGVDAT 146
               + Q H + T  E+  V ++T   S+L    G   A           AL+ GGVD  
Sbjct: 91  KARVETQNH-WFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEK 149
Query: 147 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGI--SLVCEAICSGIF 204
           GP L  + P G+        +GS S  A +  +  Y + +T +E I  SL+   I   + 
Sbjct: 150 GPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQEVYHKSMTLKEAIKSSLI---ILKQVM 206
Query: 205 NDLGSGSNVDICVITKG 221
            +  + +N+++  +  G
Sbjct: 207 EEKLNATNIELATVQPG 223

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

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 38/158 (24%), Positives = 69/158 (43%), Gaps = 5/158 (3%)
Query: 43  IVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQ 102
           I+G+  Q+ VIL +    T G  V   + +K   ++P+     AG A DT    + + + 
Sbjct: 4   ILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQAN 63
Query: 103 LQLHRYHTGRESRVVTALTLLKSHL---FKYQGHVQAALVLGGVD--ATGPHLHTIYPHG 157
           +QL+      E       + ++  L    + +   Q  +++GG D     P L+ I   G
Sbjct: 64  IQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLG 123
Query: 158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV 195
           +   LP+   G       ++ +  YR  +T EEG+ L+
Sbjct: 124 TKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLL 161

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 51/194 (26%), Positives = 86/194 (44%), Gaps = 10/194 (5%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G T +G+  + GVIL AD R  +  +  D   EKI+ +  +I    +G  AD   + D
Sbjct: 23  KRGATAIGIKCKEGVILIADKRVGSKLLEAD-TIEKIYKIDEHICAATSGLVADARVLID 81
Query: 98  MVSSQLQLHRYHTGRESRVVTALTL----LKSHLFKYQG--HVQAALVLGGVDATGPHLH 151
               + Q++R  T  E   V  L       K    +Y G      +L++ GVD   P L+
Sbjct: 82  RARIEAQINRL-TYDEPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVDEV-PKLY 139
Query: 152 TIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGS 211
              P G+        +G G  A    FE +YR+ L+ ++ + L   A+   I ++L    
Sbjct: 140 ETDPSGALLEYKATAIGMGRNAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESEL-VPE 198
Query: 212 NVDICVITKGDKEY 225
           N+++  +   D+ +
Sbjct: 199 NIEVGYVKVDDRTF 212

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

Iteration: 1
 Score = 53.9 bits (128), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 50/196 (25%), Positives = 91/196 (46%), Gaps = 14/196 (7%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKN-CEKIHYMAPNIYCCGAGTAADTEAVT 96
           K G T +G+  + GVIL AD R   GS + +K+  EKI+ +  +I    +G  AD   + 
Sbjct: 32  KRGATAIGIKCKEGVILIADKRV--GSKLLEKDTIEKIYKIDEHICAATSGLVADARVLI 89
Query: 97  DMVSSQLQLHRYH-----TGRESRVVTALTLLKSHLFKYQG--HVQAALVLGGVDATGPH 149
           D    + Q++R       T +E  +   +   K    +Y G      +L++ GV+   P 
Sbjct: 90  DRARIEAQINRLTYDIPITVKE--LAKKICDFKQQYTQYGGVRPFGVSLLIAGVNEV-PK 146
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L+   P G+        +G G +A    FE +YR+ L+ ++ + L   A+   I ++L  
Sbjct: 147 LYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESEL-V 205
Query: 210 GSNVDICVITKGDKEY 225
             N+++  +   D+ +
Sbjct: 206 PENIEVGYVKVDDRTF 221

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 52/189 (27%), Positives = 84/189 (44%), Gaps = 7/189 (3%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+  + GV+LG + RAT+  +  D + EKI  +  +I C  +G  AD  ++ +
Sbjct: 32  KLGSTAIGIATKEGVVLGVEKRATSPLLESD-SIEKIVEIDRHIGCAMSGLTADARSMIE 90
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ---AALVLGGVDA-TGPHLHTI 153
              +    H  +   E   V +LT     L       +    AL++ G DA  G  L   
Sbjct: 91  HARTAAVTHNLYYD-EDINVESLTQSVCDLAAAAAMSRPFGVALLIAGHDADDGYQLFHA 149
Query: 154 YPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNV 213
            P G+        +GSGS  A A   +++   LT +E   LV + I   +  +    +N 
Sbjct: 150 EPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLK-ILKQVMEEKLDENNA 208
Query: 214 DICVITKGD 222
            +  ITK D
Sbjct: 209 QLSCITKQD 217

>pdb|1Z7Q|C Chain C, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 258

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 41/192 (21%), Positives = 84/192 (43%), Gaps = 18/192 (9%)
Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV--TDMV 99
           T +G++  +G++L A+ + T+  +  D + EK++ +   I    AG  AD E +  T  +
Sbjct: 34  TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARI 93
Query: 100 SSQLQLHRYHTGRESRV-VTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT-GPH 149
            +Q  L  Y+      + V  L+ +K      QG+ Q         + +  G D   G  
Sbjct: 94  HAQNYLKTYNEDIPVEILVRRLSDIK------QGYTQHGGLRPFGVSFIYAGYDDRYGYQ 147
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L+T  P G+       ++G+ + AA  + +  Y++ +  ++ I L  + +     +   +
Sbjct: 148 LYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALT 207
Query: 210 GSNVDICVITKG 221
              ++   I KG
Sbjct: 208 YDRLEFATIRKG 219

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 49/197 (24%), Positives = 85/197 (43%), Gaps = 14/197 (7%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+  + GV+LG + RAT+  +  D + EKI  +  +I C  +G  AD  ++ +
Sbjct: 33  KLGSTAIGIATKEGVVLGVEKRATSPLLESD-SIEKIVEIDRHIGCAMSGLTADARSMIE 91
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----QGHVQ-------AALVLGGVDA- 145
              +    H  +   +  V +    +     ++     G  +        AL++ G DA 
Sbjct: 92  HARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDAD 151
Query: 146 TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
            G  L    P G+        +GSGS  A A   +++   LT +E   LV + I   +  
Sbjct: 152 DGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLK-ILKQVME 210
Query: 206 DLGSGSNVDICVITKGD 222
           +    +N  +  ITK D
Sbjct: 211 EKLDENNAQLSCITKQD 227

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 49/197 (24%), Positives = 85/197 (43%), Gaps = 14/197 (7%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+  + GV+LG + RAT+  +  D + EKI  +  +I C  +G  AD  ++ +
Sbjct: 32  KLGSTAIGIATKEGVVLGVEKRATSPLLESD-SIEKIVEIDRHIGCAMSGLTADARSMIE 90
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----QGHVQ-------AALVLGGVDA- 145
              +    H  +   +  V +    +     ++     G  +        AL++ G DA 
Sbjct: 91  HARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDAD 150
Query: 146 TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
            G  L    P G+        +GSGS  A A   +++   LT +E   LV + I   +  
Sbjct: 151 DGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLK-ILKQVME 209
Query: 206 DLGSGSNVDICVITKGD 222
           +    +N  +  ITK D
Sbjct: 210 EKLDENNAQLSCITKQD 226

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 49/197 (24%), Positives = 85/197 (43%), Gaps = 14/197 (7%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+  + GV+LG + RAT+  +  D + EKI  +  +I C  +G  AD  ++ +
Sbjct: 34  KLGSTAIGIATKEGVVLGVEKRATSPLLESD-SIEKIVEIDRHIGCAMSGLTADARSMIE 92
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----QGHVQ-------AALVLGGVDA- 145
              +    H  +   +  V +    +     ++     G  +        AL++ G DA 
Sbjct: 93  HARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDAD 152
Query: 146 TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
            G  L    P G+        +GSGS  A A   +++   LT +E   LV + I   +  
Sbjct: 153 DGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLK-ILKQVME 211
Query: 206 DLGSGSNVDICVITKGD 222
           +    +N  +  ITK D
Sbjct: 212 EKLDENNAQLSCITKQD 228

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 49/197 (24%), Positives = 85/197 (43%), Gaps = 14/197 (7%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+  + GV+LG + RAT+  +  D + EKI  +  +I C  +G  AD  ++ +
Sbjct: 24  KLGSTAIGIATKEGVVLGVEKRATSPLLESD-SIEKIVEIDRHIGCAMSGLTADARSMIE 82
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----QGHVQ-------AALVLGGVDA- 145
              +    H  +   +  V +    +     ++     G  +        AL++ G DA 
Sbjct: 83  HARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDAD 142
Query: 146 TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
            G  L    P G+        +GSGS  A A   +++   LT +E   LV + I   +  
Sbjct: 143 DGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLK-ILKQVME 201
Query: 206 DLGSGSNVDICVITKGD 222
           +    +N  +  ITK D
Sbjct: 202 EKLDENNAQLSCITKQD 218

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 49/197 (24%), Positives = 85/197 (43%), Gaps = 14/197 (7%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+  + GV+LG + RAT+  +  D + EKI  +  +I C  +G  AD  ++ +
Sbjct: 32  KLGSTAIGIATKEGVVLGVEKRATSPLLESD-SIEKIVEIDRHIGCAMSGLTADARSMIE 90
Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----QGHVQ-------AALVLGGVDA- 145
              +    H  +   +  V +    +     ++     G  +        AL++ G DA 
Sbjct: 91  HARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDAD 150
Query: 146 TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
            G  L    P G+        +GSGS  A A   +++   LT +E   LV + I   +  
Sbjct: 151 DGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLK-ILKQVME 209
Query: 206 DLGSGSNVDICVITKGD 222
           +    +N  +  ITK D
Sbjct: 210 EKLDENNAQLSCITKQD 226

>pdb|1G0U|B Chain B, A Gated Channel Into The Proteasome Core Particle Length = 245

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 41/192 (21%), Positives = 84/192 (43%), Gaps = 18/192 (9%)
Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV--TDMV 99
           T +G++  +G++L A+ + T+  +  D + EK++ +   I    AG  AD E +  T  +
Sbjct: 34  TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARI 93
Query: 100 SSQLQLHRYHTGRESRV-VTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT-GPH 149
            +Q  L  Y+      + V  L+ +K      QG+ Q         + +  G D   G  
Sbjct: 94  HAQNYLKTYNEDIPVEILVRRLSDIK------QGYTQHGGLRPFGVSFIYAGYDDRYGYQ 147
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L+T  P G+       ++G+ + AA  + +  Y++ +  ++ I L  + +     +   +
Sbjct: 148 LYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALT 207
Query: 210 GSNVDICVITKG 221
              ++   I KG
Sbjct: 208 YDRLEFATIRKG 219

>pdb|1RYP|C Chain C, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 244

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 41/192 (21%), Positives = 84/192 (43%), Gaps = 18/192 (9%)
Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV--TDMV 99
           T +G++  +G++L A+ + T+  +  D + EK++ +   I    AG  AD E +  T  +
Sbjct: 33  TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARI 92
Query: 100 SSQLQLHRYHTGRESRV-VTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT-GPH 149
            +Q  L  Y+      + V  L+ +K      QG+ Q         + +  G D   G  
Sbjct: 93  HAQNYLKTYNEDIPVEILVRRLSDIK------QGYTQHGGLRPFGVSFIYAGYDDRYGYQ 146
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L+T  P G+       ++G+ + AA  + +  Y++ +  ++ I L  + +     +   +
Sbjct: 147 LYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALT 206
Query: 210 GSNVDICVITKG 221
              ++   I KG
Sbjct: 207 YDRLEFATIRKG 218

>pdb|3OEU|B Chain B, Structure Of Yeast 20s Open-Gate Proteasome With Compound 24 Length = 235

Iteration: 1
 Score = 45.1 bits (105), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 41/192 (21%), Positives = 84/192 (43%), Gaps = 18/192 (9%)
Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV--TDMV 99
           T +G++  +G++L A+ + T+  +  D + EK++ +   I    AG  AD E +  T  +
Sbjct: 24  TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARI 83
Query: 100 SSQLQLHRYHTGRESRV-VTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT-GPH 149
            +Q  L  Y+      + V  L+ +K      QG+ Q         + +  G D   G  
Sbjct: 84  HAQNYLKTYNEDIPVEILVRRLSDIK------QGYTQHGGLRPFGVSFIYAGYDDRYGYQ 137
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L+T  P G+       ++G+ + AA  + +  Y++ +  ++ I L  + +     +   +
Sbjct: 138 LYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALT 197
Query: 210 GSNVDICVITKG 221
              ++   I KG
Sbjct: 198 YDRLEFATIRKG 209

>pdb|1VSY|C Chain C, Proteasome Activator Complex Length = 232

Iteration: 1
 Score = 44.7 bits (104), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 41/192 (21%), Positives = 84/192 (43%), Gaps = 18/192 (9%)
Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV--TDMV 99
           T +G++  +G++L A+ + T+  +  D + EK++ +   I    AG  AD E +  T  +
Sbjct: 21  TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTARI 80
Query: 100 SSQLQLHRYHTGRESRV-VTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT-GPH 149
            +Q  L  Y+      + V  L+ +K      QG+ Q         + +  G D   G  
Sbjct: 81  HAQNYLKTYNEDIPVEILVRRLSDIK------QGYTQHGGLRPFGVSFIYAGYDDRYGYQ 134
Query: 150 LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           L+T  P G+       ++G+ + AA  + +  Y++ +  ++ I L  + +     +   +
Sbjct: 135 LYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALT 194
Query: 210 GSNVDICVITKG 221
              ++   I KG
Sbjct: 195 YDRLEFATIRKG 206

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

Iteration: 1
 Score = 44.7 bits (104), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 43/185 (23%), Positives = 80/185 (43%), Gaps = 4/185 (2%)
Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           G  ++ +  +N V + AD R    + +   + +KI  M   +Y   AG A D + V   +
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQMVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67
Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLF-KYQGHVQAALVLGGVDAT--GPHLHTIYPH 156
             +L L+    GR+ +  T ++++ + L+ K  G      V+ G+D     P + ++   
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLI 127
Query: 157 G-STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
           G    T  F   G+ S     + ES +   +  E     + +A+ + +  D  SG  V +
Sbjct: 128 GCPMVTDDFVVSGTCSEQMYGMCESLWEPNMDPEHLFETISQAMLNAVDRDAVSGMGVIV 187
Query: 216 CVITK 220
            VI K
Sbjct: 188 HVIEK 192

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 22/51 (43%), Positives = 32/51 (62%), Gaps = 2/51 (3%)
Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCG-AGTA 89
           GTTIV L ++ GV+L  D RAT G+++  ++ EK+ Y+       G AGTA
Sbjct: 65  GTTIVALTYKGGVLLAGDRRATQGNLIASRDVEKV-YVTDEYSAAGIAGTA 114

>pdb|3UNB|B Chain B, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 261

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 43/188 (22%), Positives = 86/188 (45%), Gaps = 11/188 (5%)
Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSS 101
           T +G++  +GV+L A+ R     +      EKI+ +  ++ C  AG  +D   +T+ +  
Sbjct: 33  TCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNEL-- 90
Query: 102 QLQLHRYHTGRES-----RVVTALTLLKSHLFKYQGHVQ---AALVLGGVDATGPHLHTI 153
           +L   RY    +      ++VTAL  +K    ++ G      + L +G     G  L+  
Sbjct: 91  RLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQS 150
Query: 154 YPHGSTDTLPFATMGSGSLAAMAVFESKYREG-LTKEEGISLVCEAICSGIFNDLGSGSN 212
            P G+        +G+ S AA+++ +  Y+EG +T +  ++L  + +   +     S   
Sbjct: 151 DPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAVKVLNKTMDVSKLSAEK 210
Query: 213 VDICVITK 220
           V+I  +T+
Sbjct: 211 VEIATLTR 218

>pdb|1IRU|C Chain C, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 261

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 43/188 (22%), Positives = 86/188 (45%), Gaps = 11/188 (5%)
Query: 42  TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSS 101
           T +G++  +GV+L A+ R     +      EKI+ +  ++ C  AG  +D   +T+ +  
Sbjct: 33  TCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNEL-- 90
Query: 102 QLQLHRYHTGRES-----RVVTALTLLKSHLFKYQGHVQ---AALVLGGVDATGPHLHTI 153
           +L   RY    +      ++VTAL  +K    ++ G      + L +G     G  L+  
Sbjct: 91  RLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQS 150
Query: 154 YPHGSTDTLPFATMGSGSLAAMAVFESKYREG-LTKEEGISLVCEAICSGIFNDLGSGSN 212
            P G+        +G+ S AA+++ +  Y+EG +T +  ++L  + +   +     S   
Sbjct: 151 DPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEK 210
Query: 213 VDICVITK 220
           V+I  +T+
Sbjct: 211 VEIATLTR 218

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 41/209 (19%), Positives = 92/209 (44%), Gaps = 16/209 (7%)
Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           Y   G T++ +  ++  I+ +DTR + G  +  ++  K + +        +G   D   +
Sbjct: 5   YAFNGGTVLAIAGEDFSIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTL 64
Query: 96  TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAAL--VLGGVDATGP-HLHT 152
           T ++ ++L++++ H+  ++    A+  + S +   +      +  ++GG+D  G   +++
Sbjct: 65  TKIIEARLKMYK-HSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYS 123
Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKY---------REGLTKEEGISLVCEAICSGI 203
             P GS     F   GS S     + +++             LT +  + LV +   S  
Sbjct: 124 FDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLTLDRAMRLVKDVFISAA 183
Query: 204 FNDLGSGSNVDICVITKGDKEYLRNHQLP 232
             D+ +G  + IC++T   KE +R   +P
Sbjct: 184 ERDVYTGDALRICIVT---KEGIREETVP 209

>pdb|3OEU|F Chain F, Structure Of Yeast 20s Open-Gate Proteasome With Compound 24 Length = 242

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 45/175 (25%), Positives = 72/175 (41%), Gaps = 19/175 (10%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT +G+   +GV+   +   T+  +V  KN  KI  +  +I C  +G   D   + +
Sbjct: 26  ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIGCVYSGLIPDGRHLVN 84
Query: 98  M----VSSQLQLHR------YHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATG 147
                 +S  +L++          R  + V A TL  S           + + GGVD  G
Sbjct: 85  RGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNS-----VRPFGVSTIFGGVDKNG 139
Query: 148 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES---KYREGLTKEEGISLVCEAI 199
            HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I
Sbjct: 140 AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII 194

>pdb|1RYP|G Chain G, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 244

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 45/175 (25%), Positives = 72/175 (41%), Gaps = 19/175 (10%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT +G+   +GV+   +   T+  +V  KN  KI  +  +I C  +G   D   + +
Sbjct: 28  ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIGCVYSGLIPDGRHLVN 86
Query: 98  M----VSSQLQLHR------YHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATG 147
                 +S  +L++          R  + V A TL  S           + + GGVD  G
Sbjct: 87  RGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNS-----VRPFGVSTIFGGVDKNG 141
Query: 148 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES---KYREGLTKEEGISLVCEAI 199
            HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I
Sbjct: 142 AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII 196

>pdb|1G0U|F Chain F, A Gated Channel Into The Proteasome Core Particle Length = 248

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 45/175 (25%), Positives = 72/175 (41%), Gaps = 19/175 (10%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT +G+   +GV+   +   T+  +V  KN  KI  +  +I C  +G   D   + +
Sbjct: 32  ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIGCVYSGLIPDGRHLVN 90
Query: 98  M----VSSQLQLHR------YHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATG 147
                 +S  +L++          R  + V A TL  S           + + GGVD  G
Sbjct: 91  RGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNS-----VRPFGVSTIFGGVDKNG 145
Query: 148 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFES---KYREGLTKEEGISLVCEAI 199
            HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I
Sbjct: 146 AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII 200

>pdb|1FNT|G Chain G, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 287

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 46/175 (26%), Positives = 74/175 (42%), Gaps = 19/175 (10%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT +G+   +GV+   +   T+  +V  KN  KI  +  +I C  +G   D   + +
Sbjct: 31  ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIGCVYSGLIPDGRHLVN 89
Query: 98  M----VSSQLQLHR------YHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATG 147
                 +S  +L++          R  + V A TL  S   +  G    + + GGVD  G
Sbjct: 90  RGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNS--VRPFG---VSTIFGGVDKNG 144
Query: 148 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFE---SKYREGLTKEEGISLVCEAI 199
            HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I
Sbjct: 145 AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII 199

>pdb|1Z7Q|G Chain G, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 288

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 46/175 (26%), Positives = 74/175 (42%), Gaps = 19/175 (10%)
Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT +G+   +GV+   +   T+  +V  KN  KI  +  +I C  +G   D   + +
Sbjct: 32  ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIGCVYSGLIPDGRHLVN 90
Query: 98  M----VSSQLQLHR------YHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATG 147
                 +S  +L++          R  + V A TL  S   +  G    + + GGVD  G
Sbjct: 91  RGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNS--VRPFG---VSTIFGGVDKNG 145
Query: 148 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFE---SKYREGLTKEEGISLVCEAI 199
            HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I
Sbjct: 146 AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII 200

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 40/185 (21%), Positives = 80/185 (43%), Gaps = 4/185 (2%)
Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           G  ++ +  +N V + AD R    + +   + +KI  M   +Y   AG A D + V   +
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67
Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLF-KYQGHVQAALVLGGVDAT--GPHLHTIYPH 156
             +L L+    GR+ +  T ++++ + L+ K  G      V+ G+D     P + ++   
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLI 127
Query: 157 G-STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
           G    T  F   G+ +     + ES +   +  +     + +A+ + +  D  SG  V +
Sbjct: 128 GCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIV 187
Query: 216 CVITK 220
            +I K
Sbjct: 188 HIIEK 192

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 45/209 (21%), Positives = 84/209 (40%), Gaps = 28/209 (13%)
Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           Y   G TI+G+  ++  +L  DTR      +  +   K+     NI     G AAD +A+
Sbjct: 5   YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDAL 64
Query: 96  TDMVSSQLQLHRY-HTGRESRVVTALT-----LLKSHLFKYQGHVQAALVLGGVDATGP- 148
                + ++ + + H  ++  + +A       L     F Y  H     ++ G+D  G  
Sbjct: 65  VKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHT----IIAGLDEDGKG 120
Query: 149 HLHTIYPHGSTDTLPFATMGSGSLAAMAV------FESKYREG-----------LTKEEG 191
            +++  P GS +       G+ +   M        F+++Y  G           L+ EE 
Sbjct: 121 AVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEV 180
Query: 192 ISLVCEAICSGIFNDLGSGSNVDICVITK 220
           I LV ++  S     +  G  ++I ++TK
Sbjct: 181 IKLVRDSFTSATERHIQVGDGLEILIVTK 209

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 45/209 (21%), Positives = 84/209 (40%), Gaps = 28/209 (13%)
Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           Y   G TI+G+  ++  +L  DTR      +  +   K+     NI     G AAD +A+
Sbjct: 24  YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDAL 83
Query: 96  TDMVSSQLQLHRY-HTGRESRVVTALT-----LLKSHLFKYQGHVQAALVLGGVDATGP- 148
                + ++ + + H  ++  + +A       L     F Y  H     ++ G+D  G  
Sbjct: 84  VKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHT----IIAGLDEDGKG 139
Query: 149 HLHTIYPHGSTDTLPFATMGSGSLAAMAV------FESKYREG-----------LTKEEG 191
            +++  P GS +       G+ +   M        F+++Y  G           L+ EE 
Sbjct: 140 AVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEV 199
Query: 192 ISLVCEAICSGIFNDLGSGSNVDICVITK 220
           I LV ++  S     +  G  ++I ++TK
Sbjct: 200 IKLVRDSFTSATERHIQVGDGLEILIVTK 228

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

Iteration: 1
 Score = 41.2 bits (95), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/51 (41%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCG-AGTA 89
           GTTIV L ++ GV+L  D RAT G+++  ++ E + Y+       G AGTA
Sbjct: 65  GTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAV-YVTDEYSAAGIAGTA 114

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/50 (42%), Positives = 31/50 (62%), Gaps = 2/50 (4%)
Query: 41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCG-AGTA 89
          TTIV L ++ GV+L  D RAT G+++  ++ EK+ Y+       G AGTA
Sbjct: 1  TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKV-YVTDEYSAAGIAGTA 49

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

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 38/197 (19%), Positives = 87/197 (44%), Gaps = 13/197 (6%)
Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           Y   G TI+ +  ++  I+ +DTR + G  +  ++  K + +        +G   D   +
Sbjct: 5   YVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTL 64
Query: 96  TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAAL--VLGGVDATGP-HLHT 152
           T ++ ++L++++ H+  ++    A+  + S +   +      +  ++GG+D  G   +++
Sbjct: 65  TKIIEARLKMYK-HSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYS 123
Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKY---------REGLTKEEGISLVCEAICSGI 203
             P GS     F   GS S     + +++             L+ +  + LV +   S  
Sbjct: 124 FDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAA 183
Query: 204 FNDLGSGSNVDICVITK 220
             D+ +G  + IC++TK
Sbjct: 184 ERDVYTGDALRICIVTK 200

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	274
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	1e-114
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	1e-107
1iru_I	234	20S proteasome; cell cycle, immune response, prote	1e-104
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	1e-102
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	8e-95
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	1e-92
1iru_H	205	20S proteasome; cell cycle, immune response, prote	4e-92
1iru_L	204	20S proteasome; cell cycle, immune response, prote	5e-90
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	1e-89
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	3e-89
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	1e-88
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	2e-88
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	3e-87
1iru_N	219	20S proteasome; cell cycle, immune response, prote	3e-86
1iru_K	201	20S proteasome; cell cycle, immune response, prote	8e-86
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	3e-85
1iru_M	213	20S proteasome; cell cycle, immune response, prote	4e-84
1iru_J	205	20S proteasome; cell cycle, immune response, prote	3e-83
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	3e-78
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	2e-77
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	3e-75
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	2e-74
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	1e-73
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	2e-72
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	1e-70
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	3e-40
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	4e-33
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	7e-26
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	7e-23
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	1e-19
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	2e-18
1iru_B	233	20S proteasome; cell cycle, immune response, prote	3e-18
1iru_E	241	20S proteasome; cell cycle, immune response, prote	3e-18
1iru_E	241	20S proteasome; cell cycle, immune response, prote	1e-17
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	2e-17
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	2e-17
1iru_G	254	20S proteasome; cell cycle, immune response, prote	3e-17
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	3e-16
1iru_F	263	20S proteasome; cell cycle, immune response, prote	3e-16
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	4e-16
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	5e-16
1iru_C	261	20S proteasome; cell cycle, immune response, prote	8e-16
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	1e-15
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	3e-15
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	3e-15
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	7e-15
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-14
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-09

>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 =  328 bits (843), Expect = e-114
 Identities = 137/255 (53%), Positives = 176/255 (69%), Gaps = 4/255 (1%)

Query: 12  GGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNC 71
            G SFD  +RN+ L++      P    TGTTIVG+ F NGV++ ADTR+T G IV DKNC
Sbjct: 2   AGLSFDNYQRNNFLAENS-HTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNC 60

Query: 72  EKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ 131
            K+H ++P I+C GAGTAADTEAVT ++ S ++LH  +T RE RVV+AL +LK HLFKYQ
Sbjct: 61  AKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQ 120

Query: 132 GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEG 191
           GH+ A L++ GVD TG HL +I+ HGSTD   + ++GSGSLAAMAV ES +++ LTKEE 
Sbjct: 121 GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEA 180

Query: 192 ISLVCEAICSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLPNPRTYISSKGYSFPKK-T 249
           I L  +AI +GI+NDLGSGSNVD+CV+    D EYLRN+  PN R     K Y FP+  T
Sbjct: 181 IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGTT 239

Query: 250 EVLLTKITPLENQVE 264
            VL   I  + +  E
Sbjct: 240 AVLKESIVNICDIQE 254

>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 =  308 bits (792), Expect = e-107
 Identities = 117/234 (50%), Positives = 154/234 (65%), Gaps = 3/234 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI GL+F++GVILGADTRAT  S+V DK+CEKIH++AP IYCCGAG AADTE  T M +
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S+++LH   TGRE RV T   +L+  LF+YQGHV A+LV+GGVD  GP L+ ++PHGS  
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQGHVGASLVVGGVDLNGPQLYEVHPHGSYS 120

Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
            LPF  +GSG  AA+A+ E +++  +T E    L+ EAI +GI +DLGSG NVD CVIT 
Sbjct: 121 RLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGGNVDACVITA 180

Query: 221 GDKEYLRNHQLPNPRTYISSKGYSFPKK-TEVLLTKITPLENQVEVIEVGDSME 273
           G  +  R    P       +  Y F    T VL  ++ PL  ++ + E   +ME
Sbjct: 181 GGAKLQRALSTPTEP-VQRAGRYRFAPGTTPVLTREVRPLTLEL-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 =  300 bits (771), Expect = e-104
 Identities = 137/234 (58%), Positives = 178/234 (76%), Gaps = 3/234 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI G+++++G++LGADTRAT G +V DKNC KIH+++PNIYCCGAGTAADT+  T ++S
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S L+LH   TGR  RVVTA  +LK  LF+Y+G++ AALVLGGVD TGPHL++IYPHGSTD
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVDVTGPHLYSIYPHGSTD 120

Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
            LP+ TMGSGSLAAMAVFE K+R  + +EE  +LV EAI +GIFNDLGSGSN+D+CVI+K
Sbjct: 121 KLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISK 180

Query: 221 GDKEYLRNHQLPNPRTYISSKGYSFPKK-TEVLLTKITPLENQVEVIEVGDSME 273
              ++LR + +PN +     + Y   K  T VL  KITPLE +V + E   +M+
Sbjct: 181 NKLDFLRPYTVPNKKGTRLGR-YRCEKGTTAVLTEKITPLEIEV-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 =  296 bits (761), Expect = e-102
 Identities = 126/221 (57%), Positives = 160/221 (72%), Gaps = 3/221 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTIVG+ F NGV++ ADTR+T G IV DKNC K+H ++P I+C GAGTAADTEAVT ++ 
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S ++LH  +T RE RVV+AL +LK HLFKYQGH+ A L++ GVD TG HL +I+ HGSTD
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTD 120

Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
              + ++GSGSLAAMAV ES +++ LTKEE I L  +AI +GI+NDLGSGSNVD+CV+  
Sbjct: 121 VGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEI 180

Query: 221 -GDKEYLRNHQLPNPRTYISSKGYSFPKK-TEVLLTKITPL 259
             D EYLRN+  PN R     K Y FP+  T VL   I  +
Sbjct: 181 GKDAEYLRNYLTPNVREE-KQKSYKFPRGTTAVLKESIVNI 220

>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 =  280 bits (717), Expect = 8e-95
 Identities = 55/224 (24%), Positives = 95/224 (42%), Gaps = 3/224 (1%)

Query: 12  GGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNC 71
              S     R      +           GTT +   FQ G+I+  D+RATAG+ V  +  
Sbjct: 48  PIASPQQFLRAHTDDSRNPDCKIKI-AHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTV 106

Query: 72  EKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ 131
           +K+  + P +    AG AAD +     + SQ +LH         V  A  +L + +++Y+
Sbjct: 107 KKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQYK 166

Query: 132 GH--VQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKE 189
           G       ++ G     GP ++ +   G+        +GSG   A  V +S Y+  L+ E
Sbjct: 167 GAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVE 226

Query: 190 EGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPN 233
           + + L   +I +    D  SG +V++  +T+    Y  NH +  
Sbjct: 227 DALYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGE 270

>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 =  270 bits (694), Expect = 1e-92
 Identities = 57/195 (29%), Positives = 95/195 (48%), Gaps = 2/195 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI+ + F  GV++G+D+R +AG+ V ++  +K+  +   I+C  +G+AAD +A+ DM +
Sbjct: 1   TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAA 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
            QL+LH         V+ A  ++K+  +KY+  + A L++ G D            G   
Sbjct: 61  YQLELHGLELEEPPLVLAAANVVKNISYKYREDLLAHLIVAGWDQREGGQVYGTMGGMLI 120

Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
             PF   GSGS       ++ Y+ G+T EE       AI   +  D  SG  + +  IT 
Sbjct: 121 RQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGVIYLVTITA 180

Query: 221 G--DKEYLRNHQLPN 233
              D   +   +LP 
Sbjct: 181 AGVDHRVILGDELPK 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 =  269 bits (691), Expect = 4e-92
 Identities = 63/205 (30%), Positives = 103/205 (50%), Gaps = 3/205 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI+ + F  GV+LGAD+R T GS + ++  +K+  +   I+CC +G+AADT+AV D V+
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDAT-GPHLHTIYPHGST 159
            QL  H         V TA +L K   ++Y+  + A +++ G D   G  ++++   G  
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMM 120

Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
               FA  GSGS       ++ YREG+TKEE +     A+   +  D  SG  + +  I 
Sbjct: 121 VRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAIA 180

Query: 220 KG--DKEYLRNHQLPNPRTYISSKG 242
           +   +++ L   Q+P          
Sbjct: 181 ESGVERQVLLGDQIPKFAVATLPPA 205

>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 =  264 bits (678), Expect = 5e-90
 Identities = 49/194 (25%), Positives = 93/194 (47%), Gaps = 1/194 (0%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +   F++GVI+ AD+RATAG+ +  +  +K+  + P +    AG AAD      +++
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGST 159
            Q +++         V  A  LL + +++Y+G  +    ++ G D  GP L+ +   G+ 
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120

Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
            +    ++GSGS+ A  V +  Y   L  E+   L   AI    + D  SG  V++  + 
Sbjct: 121 ISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVR 180

Query: 220 KGDKEYLRNHQLPN 233
           +     + +  + +
Sbjct: 181 EDGWIRVSSDNVAD 194

>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 =  264 bits (676), Expect = 1e-89
 Identities = 57/188 (30%), Positives = 95/188 (50%), Gaps = 2/188 (1%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           +TGTT VG+  ++ VI+  + R T  + +  KN +K+  +        AG   D + +  
Sbjct: 6   ETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVR 65

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPH 156
            + ++L+L+R        +    TLL + L + +       L++GG+D T PH+ +I   
Sbjct: 66  YMKAELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID-TAPHVFSIDAA 124

Query: 157 GSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDIC 216
           G +    +A+ GSGS     V ES+Y E +T +EG+ LV  AI +    D  SG  +D+ 
Sbjct: 125 GGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVA 184

Query: 217 VITKGDKE 224
           VIT+ D  
Sbjct: 185 VITRKDGY 192

>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 =  262 bits (673), Expect = 3e-89
 Identities = 51/195 (26%), Positives = 91/195 (46%), Gaps = 2/195 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +   FQ G+I+  D+RATAG+ V  +  +++  + P +    AG AAD +     + 
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH--VQAALVLGGVDATGPHLHTIYPHGS 158
           SQ +LH         V  A  +L + +++Y+G       ++ G     GP ++ +   G+
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120

Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
                   +GSG   A  V +S Y+  L+ E+ + L   +I +    D  SG +V++  +
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV 180

Query: 219 TKGDKEYLRNHQLPN 233
           T+    Y  NH +  
Sbjct: 181 TEDGWIYHGNHDVGE 195

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

 Score =  260 bits (668), Expect = 1e-88
 Identities = 52/195 (26%), Positives = 95/195 (48%), Gaps = 2/195 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT VGL+ ++GV++  + RAT G+ +  K  +KI+ +A  +    AG+  D + +  ++ 
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYP-HGS 158
            +  L+     R+  V    TL  + L  Y+       L++GG+D+ G  +++I P  G+
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGA 120

Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
            +       GSGSL A  V E ++   +  +E + L   AI S +  D  SG  +D+  I
Sbjct: 121 IEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKI 180

Query: 219 TKGDKEYLRNHQLPN 233
           T+ +       ++  
Sbjct: 181 TEDEFYQYSPEEVEQ 195

>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 =  260 bits (667), Expect = 2e-88
 Identities = 59/194 (30%), Positives = 105/194 (54%), Gaps = 2/194 (1%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
             G +I+ + F++GVILGAD+R T G+ + ++  +K+  +   I+CC +G+AADT+A+ D
Sbjct: 7   SLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIAD 66

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDAT-GPHLHTIYPH 156
           +V   L+L+    G  S   TA ++ K   ++ + ++ A +++ G D      ++TI   
Sbjct: 67  IVQYHLELYTSQYGTPS-TETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLG 125

Query: 157 GSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDIC 216
           GS   LP+A  GSGS       +  +RE ++KEE +  +  ++   I  D  SG  + + 
Sbjct: 126 GSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMV 185

Query: 217 VITKGDKEYLRNHQ 230
           V+T    E L  + 
Sbjct: 186 VLTAAGVERLIFYP 199

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

 Score =  258 bits (661), Expect = 3e-87
 Identities = 10/196 (5%), Positives = 27/196 (13%), Gaps = 3/196 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           + +  +                     +   E +      I                   
Sbjct: 2   SHMQMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSK 61

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDA-TGPHLHTIYPHGS 158
                      +    V A T       +      +    +  +       +  +     
Sbjct: 62  LVKIRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKIC 121

Query: 159 -TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICV 217
                     G        +     +      E                 G    +++  
Sbjct: 122 DIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLE 181

Query: 218 ITKGDKEYLRNHQLPN 233
               D   L       
Sbjct: 182 KEYRDDITLDEGLELA 197

>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 =  255 bits (654), Expect = 3e-86
 Identities = 36/213 (16%), Positives = 75/213 (35%), Gaps = 7/213 (3%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
            TGT+++G+ F+ GV++ AD   + GS+   +N  +I  +  +     +G  AD + +  
Sbjct: 6   VTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQ 65

Query: 98  MVSSQLQLHRYH-TGRESRVVTALTLLKSHLFKYQGH---VQAALVLGGVDATGPHLHTI 153
           ++   +        G         + L   ++  +     +   +V+GG       L  +
Sbjct: 66  VLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYV 125

Query: 154 YPHGSTDTLPFATMGSGSLAAMAVFES--KYREGLTKEEGISLVCEAICSGIFNDLGSGS 211
              G     P    G G+  A  +     + +  L++ E   LV   +    + D  S +
Sbjct: 126 DMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYN 185

Query: 212 NVDICVITKGDKEYLRNHQLPNPRTYISS-KGY 243
                 +T+   E                  G+
Sbjct: 186 RFQTATVTEKGVEIEGPLSTETNWDIAHMISGF 218

>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 =  254 bits (650), Expect = 8e-86
 Identities = 37/197 (18%), Positives = 79/197 (40%), Gaps = 4/197 (2%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
             ++G+   + V++ +D  A +  +    + +K+  M+  I     G A DT    + + 
Sbjct: 2   EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQ 61

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHL---FKYQGHVQAALVLGGVDA-TGPHLHTIYPH 156
             +QL++   G E     A    + +L    + +      L+L G D   GP L+ +   
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYL 121

Query: 157 GSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDIC 216
            +    PFA  G G+   +++ +  Y   +++E  + L+ + +       + +     + 
Sbjct: 122 AALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVR 181

Query: 217 VITKGDKEYLRNHQLPN 233
           +I K     L N   P 
Sbjct: 182 IIDKNGIHDLDNISFPK 198

>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 =  252 bits (645), Expect = 3e-85
 Identities = 42/196 (21%), Positives = 78/196 (39%), Gaps = 5/196 (2%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
             I+G+  Q+ VIL +    T G  V   + +K   ++P+     AG A DT    + + 
Sbjct: 2   DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQ 61

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFK---YQGHVQAALVLGGVDA--TGPHLHTIYP 155
           + +QL+      E       + ++  L K    +   Q  +++GG D     P L+ I  
Sbjct: 62  ANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDY 121

Query: 156 HGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
            G+   LP+   G       ++ +  YR  +T EEG+ L+   +             V +
Sbjct: 122 LGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIV 181

Query: 216 CVITKGDKEYLRNHQL 231
            ++ K     + + Q 
Sbjct: 182 KIVDKDGIRQVDDFQA 197

>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 =  249 bits (639), Expect = 4e-84
 Identities = 37/196 (18%), Positives = 83/196 (42%), Gaps = 11/196 (5%)

Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           Y   G TI+ +  ++  I+ +DTR + G  +  ++  K + +        +G   D   +
Sbjct: 5   YVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTL 64

Query: 96  TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHV-QAALVLGGVDATG-PHLHTI 153
           T ++ ++L+++++   +         +L + L+  +        ++GG+D  G   +++ 
Sbjct: 65  TKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSF 124

Query: 154 YPHGSTDTLPFATMGSGSLAAMAVFES---------KYREGLTKEEGISLVCEAICSGIF 204
            P GS     F   GS S     + ++              L+ +  + LV +   S   
Sbjct: 125 DPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAE 184

Query: 205 NDLGSGSNVDICVITK 220
            D+ +G  + IC++TK
Sbjct: 185 RDVYTGDALRICIVTK 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 =  247 bits (633), Expect = 3e-83
 Identities = 39/189 (20%), Positives = 80/189 (42%), Gaps = 4/189 (2%)

Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
               G  ++ +  +N V + AD R    + +   + +KI  M   +Y   AG A D + V
Sbjct: 4   MSYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTV 63

Query: 96  TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-QGHVQAALVLGGVDAT--GPHLHT 152
              +  +L L+    GR+ +  T ++++ + L++   G      V+ G+D     P + +
Sbjct: 64  AQRLKFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICS 123

Query: 153 IYPHG-STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGS 211
           +   G    T  F   G+ +     + ES +   +  +     + +A+ + +  D  SG 
Sbjct: 124 LDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGM 183

Query: 212 NVDICVITK 220
            V + +I K
Sbjct: 184 GVIVHIIEK 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 =  235 bits (601), Expect = 3e-78
 Identities = 39/205 (19%), Positives = 82/205 (40%), Gaps = 20/205 (9%)

Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           Y   G TI+G+  ++  +L  DTR      +  +   K+     NI     G AAD +A+
Sbjct: 5   YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDAL 64

Query: 96  TDMVSSQLQLHRY-HTGRESRVVTALTLLKSHLFKY-QGHVQAALVLGGVDATG-PHLHT 152
                + ++ + + H  ++  + +A   ++  L+           ++ G+D  G   +++
Sbjct: 65  VKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYS 124

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKY-----------------REGLTKEEGISLV 195
             P GS +       G+ +   M   +++                   + L+ EE I LV
Sbjct: 125 FDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLV 184

Query: 196 CEAICSGIFNDLGSGSNVDICVITK 220
            ++  S     +  G  ++I ++TK
Sbjct: 185 RDSFTSATERHIQVGDGLEILIVTK 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 =  233 bits (597), Expect = 2e-77
 Identities = 38/213 (17%), Positives = 82/213 (38%), Gaps = 15/213 (7%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
            TGT+++ + + NGVI+ AD   + GS++     E++  +  N     +G  +D + +  
Sbjct: 6   VTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIER 65

Query: 98  MVSSQLQLHRYH-----TGRESRVVTALTLLKSHLFKYQGHVQ---AALVLGGVDATGPH 149
           ++   +  + Y                   L + +++ +  +     A+++ GV + G  
Sbjct: 66  LLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQ 125

Query: 150 -LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE-----GLTKEEGISLVCEAICSGI 203
            L  +   G T + P    G G+  A  +              T +     +  A+    
Sbjct: 126 FLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLY 185

Query: 204 FNDLGSGSNVDICVITK-GDKEYLRNHQLPNPR 235
           + D  S  N  + +I K     + +N Q+ N +
Sbjct: 186 YRDARSSRNFSLAIIDKNTGLTFKKNLQVENMK 218

>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 =  230 bits (587), Expect = 3e-75
 Identities = 44/242 (18%), Positives = 83/242 (34%), Gaps = 20/242 (8%)

Query: 9   PPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCD 68
           P     +    R +      G +        GTTIV L ++ GV+L  D RAT G+++  
Sbjct: 35  PELLPENRIGHRSHSTRGGDG-MESGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIAS 93

Query: 69  KNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLF 128
           ++ E ++          AGTA     +  + + +L+ +    G           L S + 
Sbjct: 94  RDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVR 153

Query: 129 KYQG----HVQAALVLGGVD------ATGPHLHTIYPHGS--TDTLPFATMGSGSLAAMA 176
              G     +    +L G D      +    + +    G    +   +  +GSGSL A +
Sbjct: 154 GNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKS 213

Query: 177 VFESKYREGLTKEEGISLVCEAICSGIFNDLGSG-------SNVDICVITKGDKEYLRNH 229
             +  Y     +E  +    E++     +D  +G              IT+    ++   
Sbjct: 214 ALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEE 273

Query: 230 QL 231
             
Sbjct: 274 TT 275

>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 =  227 bits (580), Expect = 2e-74
 Identities = 41/223 (18%), Positives = 86/223 (38%), Gaps = 17/223 (7%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
            TGT+++ + + NGVI+ AD   + GS++     E++  +  N     +G  +D + +  
Sbjct: 39  VTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIER 98

Query: 98  MVSSQLQLHRYH-----TGRESRVVTALTLLKSHLFKYQGHVQ---AALVLGGVDATGPH 149
           ++   +  + Y                   L + +++ +  +     A+++ GV + G  
Sbjct: 99  LLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQ 158

Query: 150 -LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR-----EGLTKEEGISLVCEAICSGI 203
            L  +   G T + P    G G+  A  +              T +     +  A+    
Sbjct: 159 FLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLY 218

Query: 204 FNDLGSGSNVDICVITK-GDKEYLRNHQLPNPRTYISS--KGY 243
           + D  S  N  + +I K     + +N Q+ N +   +   KGY
Sbjct: 219 YRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAKDIKGY 261

>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 =  224 bits (572), Expect = 1e-73
 Identities = 41/222 (18%), Positives = 81/222 (36%), Gaps = 20/222 (9%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTIV L ++ GV+L  D RAT G+++  ++ EK++          AGTA     +  + +
Sbjct: 1   TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFA 60

Query: 101 SQLQLHRYHTGRESRVVTALTLL----KSHLFKYQGHVQAALVLGGVD------ATGPHL 150
            +L+ +    G           L    + +L      +    +L G D      +    +
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRI 120

Query: 151 HTIYPHGS--TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLG 208
            +    G    +   +  +GSGSL A +  +  Y     +E  +    E++     +D  
Sbjct: 121 VSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSA 180

Query: 209 SG-------SNVDICVITKGDKEYLRNHQLPN-PRTYISSKG 242
           +G              IT+    ++         R  ++ + 
Sbjct: 181 TGGPDLTRGIYPTAVTITQAGAVHVSEETTSELARRIVAERT 222

>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 =  223 bits (569), Expect = 2e-72
 Identities = 47/252 (18%), Positives = 90/252 (35%), Gaps = 27/252 (10%)

Query: 7   GIPPKGGFSF-DLCRRN-------DMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADT 58
           G P     SF D  RR         +     +    +    GTTIV L +  GV++  D 
Sbjct: 16  GTPAVDLSSFTDFLRRQAPELLPASISGGAPLAGGDAQLPHGTTIVALKYPGGVVMAGDR 75

Query: 59  RATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVT 118
           R+T G+++  ++  K++          AGTAA       + + +L+ +    G       
Sbjct: 76  RSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAG 135

Query: 119 ALTLL----KSHLFKYQGHVQAALVLGGVD------ATGPHLHTIYPHGST--DTLPFAT 166
            +  L    + +L      + A  +L G D       +   + +    G    +   +  
Sbjct: 136 KINRLAIMVRGNLAAAMQGLLALPLLAGYDIHASDPQSAGRIVSFDAAGGWNIEEEGYQA 195

Query: 167 MGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNV-------DICVIT 219
           +GSGSL A +  +  Y +    + G+ +  EA+     +D  +G             +I 
Sbjct: 196 VGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIID 255

Query: 220 KGDKEYLRNHQL 231
                 +   ++
Sbjct: 256 ADGAVDVPESRI 267

>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 =  215 bits (549), Expect = 1e-70
 Identities = 39/189 (20%), Positives = 72/189 (38%), Gaps = 5/189 (2%)

Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
               G  +V +  ++ V +  D R  + S+      EKI +   +++    G A D   +
Sbjct: 4   SSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTL 62

Query: 96  TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-QGHVQAALVLGGVDATG--PHLHT 152
            +M   +  L++    R     T   L+ S L++   G      V+ G+++    P +  
Sbjct: 63  NEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAG 122

Query: 153 IYPHGSTDTLP-FATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGS 211
               G  D    F   G+ S     + ES Y   L  E+    + +A+ +    D  SG 
Sbjct: 123 FDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGW 182

Query: 212 NVDICVITK 220
              + +I K
Sbjct: 183 GAVVYIIKK 191

>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 =  139 bits (351), Expect = 3e-40
 Identities = 34/201 (16%), Positives = 64/201 (31%), Gaps = 22/201 (10%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
             G ++V L F++GV+  A+  +TA          K+  +   +     G   + E +  
Sbjct: 25  ARGRSVVVLTFRDGVLFVAENPSTA--------LHKVSELYDRLGFAAVGKYNEFENLRR 76

Query: 98  MVSSQLQLHRYHTGRESRVVTALT---------LLKSHLFKYQGHVQAALVLGGVDATGP 148
                  +  Y   R      +L          +       Y+  +  A V        P
Sbjct: 77  AGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAP 136

Query: 149 HLHTIYPHGS-TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDL 207
            L+ I   GS  D   F  MG  +          YR  L  E  + +   A+  G   + 
Sbjct: 137 QLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEG 196

Query: 208 GSG----SNVDICVITKGDKE 224
                  +++++ V+ +    
Sbjct: 197 EKRNVDVASLEVAVLDQSRPR 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 =  120 bits (302), Expect = 4e-33
 Identities = 30/203 (14%), Positives = 65/203 (32%), Gaps = 24/203 (11%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
               ++V L +  GV+  A+  + +         +KI  +   +    AG   + + +  
Sbjct: 25  ARAKSVVALAYAGGVLFVAENPSRSL--------QKISELYDRVGFAAAGKFNEFDNLRR 76

Query: 98  MVSSQLQLHRYHTGRES----RVVTALTLLKSHLFK-----YQGHVQAALVLGGVDATGP 148
                     Y   R      ++          +F      Y+  +  A V    +   P
Sbjct: 77  GGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRP 136

Query: 149 HLHTIYPHGS-TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDL 207
            L+ I   GS  D   F  MG  +       +  Y E  +  + + +   A+ +G  +  
Sbjct: 137 ELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENASLTDALRIAVAALRAGSADTS 196

Query: 208 GSG------SNVDICVITKGDKE 224
           G        +++++ V+      
Sbjct: 197 GGDQPTLGVASLEVAVLDANRPR 219

>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 = 99.3 bits (247), Expect = 7e-26
 Identities = 36/183 (19%), Positives = 66/183 (36%), Gaps = 24/183 (13%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPN-IYCCGAGTAADTEAVTDMV 99
           TTIV +     V++G D + + G+ V   N  K+  +    +    AG  AD   + ++ 
Sbjct: 1   TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELF 60

Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGST 159
             +L++H+ H  + +  +         L K +  +  A     +  TG            
Sbjct: 61  ERKLEMHQGHLLKSAVELAKDWRTDRALRKLEAMLIVADEKESLIITGIGDVVQPEED-- 118

Query: 160 DTLPFATMGSGSLAAMAVFESKYR-EGLTKEEGISLVCEA--ICSGIFNDLGSGSNVDIC 216
                  +GSG   A++   +      L+  E   +V ++  I              DIC
Sbjct: 119 ---QILAIGSGGNYALSAARALVENTELSAHE---IVEKSLRIAG------------DIC 160

Query: 217 VIT 219
           V T
Sbjct: 161 VFT 163

>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 = 91.6 bits (227), Expect = 7e-23
 Identities = 31/184 (16%), Positives = 57/184 (30%), Gaps = 22/184 (11%)

Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDK-NCEKIHYMAPNIYCCG-AGTAADTEAVTD 97
            TTI  +  +    +  D + T G  V  K    K+  +       G AG+ AD   + +
Sbjct: 5   ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHG 157
              ++L+ +  +  R +  +         L K +  +        +  +G     I P  
Sbjct: 65  KFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSG-TGEVIEPDD 123

Query: 158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA--ICSGIFNDLGSGSNVDI 215
                    +GSG   A+A   +  +          +   A                 +I
Sbjct: 124 -----GILAIGSGGNYALAAGRALKKHAGESMSASEIARAALETAG------------EI 166

Query: 216 CVIT 219
           CV T
Sbjct: 167 CVYT 170

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

 Score = 82.7 bits (204), Expect = 1e-19
 Identities = 35/187 (18%), Positives = 67/187 (35%), Gaps = 33/187 (17%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCG-AGTAADTEAVTDMV 99
           TTI+ +      ++G D + T GS V   N  K+  +       G AG+ AD   + D  
Sbjct: 1   TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRF 60

Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGST 159
            ++L+    +  + +  +         L + +           +       +     G+ 
Sbjct: 61  EAKLREWGGNLTKAAVELAKDWRTDRVLRRLE----------ALLLVADKENIFIISGNG 110

Query: 160 DTL----PFATMGSGSLAAMAVFESKYRE-GLTKEEGISLVCEA--ICSGIFNDLGSGSN 212
           + +      A +GSG   A+A  ++  R   L+  E   +V +A  I             
Sbjct: 111 EVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSARE---IVEKAMTIAG----------- 156

Query: 213 VDICVIT 219
            +IC+ T
Sbjct: 157 -EICIYT 162

>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 = 80.8 bits (200), Expect = 2e-18
 Identities = 50/198 (25%), Positives = 85/198 (42%), Gaps = 21/198 (10%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+ F NGV+L +D +  +  I  +   EKI  +   +    +G  AD   + D
Sbjct: 32  KKGSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAVTSGLVADARVLVD 90

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT 146
                 Q  +   G       +V  +          Q + Q         +L+  G+D  
Sbjct: 91  FARISAQQEKVTYGSLVNIENLVKRVADQM------QQYTQYGGVRPYGVSLIFAGIDQI 144

Query: 147 GPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
           GP L    P G+ +    AT +GSG  A ++  E +Y+E L ++E ++L  +A+ S +  
Sbjct: 145 GPRLFDCDPAGTINEY-KATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEE 203

Query: 206 DLGSGSNVDICVITKGDK 223
                   +I  IT G+K
Sbjct: 204 GE-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 = 80.3 bits (199), Expect = 3e-18
 Identities = 30/195 (15%), Positives = 63/195 (32%), Gaps = 19/195 (9%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
             G   VG+   NGV+L  + +  +          K+  +  +I    +G   D   +  
Sbjct: 29  AGGAPSVGIKAANGVVLATEKKQKSILYDERSV-HKVEPITKHIGLVYSGMGPDYRVLVH 87

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT 146
                 Q +          +++V  +  +       Q + Q         +L++ G +  
Sbjct: 88  RARKLAQQYYLVYQEPIPTAQLVQRVASVM------QEYTQSGGVRPFGVSLLICGWNEG 141

Query: 147 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFND 206
            P+L    P G+        MG   +      E +Y E L  E+ I      +       
Sbjct: 142 RPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQ 201

Query: 207 LGSGSNVDICVITKG 221
           +    N+++ +  + 
Sbjct: 202 MTE-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 = 80.3 bits (199), Expect = 3e-18
 Identities = 48/198 (24%), Positives = 81/198 (40%), Gaps = 16/198 (8%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+    GV L  + R T+  +      EKI  +  +I C  +G  AD + + D
Sbjct: 32  KLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSI-EKIVEIDAHIGCAMSGLIADAKTLID 90

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLF-KYQGHVQA-------ALVLGGVDAT 146
               + Q H +          V  A++ L    F +      A       AL+ GGVD  
Sbjct: 91  KARVETQNHWFTYNETMTVESVTQAVSNLA-LQFGEEDADPGAMSRPFGVALLFGGVDEK 149

Query: 147 GPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
           GP L  + P G+      A  +GS S  A +  +  Y + +T +E I      +   +  
Sbjct: 150 GPQLFHMDPSGTFVQC-DARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEE 208

Query: 206 DLGSGSNVDICVITKGDK 223
            L + +N+++  +  G  
Sbjct: 209 KLNA-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 = 78.5 bits (194), Expect = 2e-17
 Identities = 46/199 (23%), Positives = 85/199 (42%), Gaps = 20/199 (10%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G T +G+  + GVIL AD R  +  +  D   EKI+ +  +I    +G  AD   + D
Sbjct: 32  KRGATAIGIKCKEGVILIADKRVGSKLLEKDTI-EKIYKIDEHICAATSGLVADARVLID 90

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT 146
               + Q++R           +   +   K      Q + Q         +L++ GV+  
Sbjct: 91  RARIEAQINRLTYDIPITVKELAKKICDFK------QQYTQYGGVRPFGVSLLIAGVN-E 143

Query: 147 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFND 206
            P L+   P G+        +G G +A    FE +YR+ L+ ++ + L   A+   I ++
Sbjct: 144 VPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESE 203

Query: 207 LGSGSNVDICVITKGDKEY 225
           L    N+++  +   D+ +
Sbjct: 204 L-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 = 78.5 bits (194), Expect = 2e-17
 Identities = 40/210 (19%), Positives = 85/210 (40%), Gaps = 20/210 (9%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
               T +G++  +G++L A+ + T+  +  D + EK++ +   I    AG  AD E + +
Sbjct: 29  SHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILIN 88

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDA- 145
                 Q +      +     +V  L+ +K      QG+ Q         + +  G D  
Sbjct: 89  TARIHAQNYLKTYNEDIPVEILVRRLSDIK------QGYTQHGGLRPFGVSFIYAGYDDR 142

Query: 146 TGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIF 204
            G  L+T  P G+      A  +G+ + AA  + +  Y++ +  ++ I L  + +     
Sbjct: 143 YGYQLYTSNPSGNYTGW-KAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTD 201

Query: 205 NDLGSGSNVDICVITKGDKEYLRNHQLPNP 234
           +   +   ++   I KG  +     ++  P
Sbjct: 202 SSALTYDRLEFATIRKGANDGEVYQKIFKP 231

>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 = 78.2 bits (193), Expect = 3e-17
 Identities = 29/193 (15%), Positives = 69/193 (35%), Gaps = 9/193 (4%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           +  +T +G+  ++GV+ G +    +       N +++  +  ++    AG  AD  ++ D
Sbjct: 31  ENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSN-KRLFNVDRHVGMAVAGLLADARSLAD 89

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ---AALVLGGVDA-TGPHL 150
           +   +    R + G       +   + +   H +     V+    + +LG      G  L
Sbjct: 90  IAREEASNFRSNFGYNIPLKHLADRVAMYV-HAYTLYSAVRPFGCSFMLGSYSVNDGAQL 148

Query: 151 HTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSG 210
           + I P G +       +G    AA    E    + +T  + +  V + I           
Sbjct: 149 YMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKA 208

Query: 211 SNVDICVITKGDK 223
             +++  + +   
Sbjct: 209 FELELSWVGELTN 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 = 75.4 bits (186), Expect = 3e-16
 Identities = 37/208 (17%), Positives = 81/208 (38%), Gaps = 21/208 (10%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G T +G+   NGV++  + ++++   + +    K+  + P+I    +G   D   + D
Sbjct: 29  KQGVTSLGIKATNGVVIATEKKSSSPLAMSETL-SKVSLLTPDIGAVYSGMGPDYRVLVD 87

Query: 98  MVSSQLQL-HRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVD- 144
                    ++   G       +V+ +  +       Q   Q         +L++ G D 
Sbjct: 88  KSRKVAHTSYKRIYGEYPPTKLLVSEVAKIM------QEATQSGGVRPFGVSLLIAGHDE 141

Query: 145 ATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIF 204
             G  L+ + P GS        +G GS+AA    E ++ + L  E+ I +    +   + 
Sbjct: 142 FNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVE 201

Query: 205 NDLGSGSNVDICVITKGDKEYLRNHQLP 232
            +      +++ +I   + + L    +P
Sbjct: 202 GEFNG-DTIELAIIGDENPDLLGYTGIP 228

>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 = 75.0 bits (185), Expect = 3e-16
 Identities = 42/200 (21%), Positives = 74/200 (37%), Gaps = 23/200 (11%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+  VGL  +   +L A  RA   S +     +KI ++  +I    AG  AD   + +
Sbjct: 30  KQGSATVGLKSKTHAVLVALKRAQ--SELAAHQ-KKILHVDNHIGISIAGLTADARLLCN 86

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT 146
            +  +    R+   R    SR+V+ +          Q   Q          L++ G D  
Sbjct: 87  FMRQECLDSRFVFDRPLPVSRLVSLIGSKT------QIPTQRYGRRPYGVGLLIAGYDDM 140

Query: 147 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG--LTKEEGISLVCEAICSGIF 204
           GPH+    P  +       ++G+ S +A    E    E       E +     A+   + 
Sbjct: 141 GPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLP 200

Query: 205 NDLG-SGSNVDICVITKGDK 223
            +   +  NV I ++ K  +
Sbjct: 201 AEQDLTTKNVSIGIVGKDLE 220

>1ryp_G 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_F* 1g65_F 1vsy_G 2f16_F* 2fak_F* 2fny_F* 2gpl_F* 3d29_F* 3dy3_F* 3dy4_F* 3e47_F* 3gpj_F* 3gpt_F* 3gpw_F* 3hye_F* 3l5q_L 3mg0_F* 3mg4_F* 3okj_F* 3shj_F* ... Length = 244

 Score = 74.6 bits (184), Expect = 4e-16
 Identities = 41/200 (20%), Positives = 71/200 (35%), Gaps = 21/200 (10%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT +G+   +GV+   +   T+  +V  KN  KI  +  +I C  +G   D   + +
Sbjct: 28  ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKN-VKIQVVDRHIGCVYSGLIPDGRHLVN 86

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT 146
               +    +               L          Q H           + + GGVD  
Sbjct: 87  RGREEAASFKKLYKTPIPIPAFADRLGQYV------QAHTLYNSVRPFGVSTIFGGVDKN 140

Query: 147 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFE---SKYREGLTKEEGISLVCEAICSGI 203
           G HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I    
Sbjct: 141 GAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAH 200

Query: 204 FNDLGSGSNVDICVITKGDK 223
            ++      ++I   +  + 
Sbjct: 201 EDNKEKDFELEISWCSLSET 220

>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 = 74.2 bits (183), Expect = 5e-16
 Identities = 47/202 (23%), Positives = 81/202 (40%), Gaps = 26/202 (12%)

Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           G+T +G+  + GV+LG + RAT+  +  D   EKI  +  +I C  +G  AD  ++ +  
Sbjct: 26  GSTAIGIATKEGVVLGVEKRATSPLLESDSI-EKIVEIDRHIGCAMSGLTADARSMIEHA 84

Query: 100 SSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------------AALVLGG 142
            +    H  +   +     +  ++  L           +               AL++ G
Sbjct: 85  RTAAVTHNLYYDEDINVESLTQSVCDLA------LRFGEGASGEERLMSRPFGVALLIAG 138

Query: 143 VDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICS 201
            DA  G  L    P G+        +GSGS  A A   +++   LT +E   LV + +  
Sbjct: 139 HDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQ 198

Query: 202 GIFNDLGSGSNVDICVITKGDK 223
            +   L   +N  +  ITK D 
Sbjct: 199 VMEEKLDE-NNAQLSCITKQDG 219

>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 = 74.3 bits (183), Expect = 8e-16
 Identities = 43/200 (21%), Positives = 86/200 (43%), Gaps = 19/200 (9%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
               T +G++  +GV+L A+ R     +      EKI+ +  ++ C  AG  +D   +T+
Sbjct: 29  GHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTN 88

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDA- 145
            +    Q +           ++VTAL  +K      Q + Q         +L+  G D  
Sbjct: 89  ELRLIAQRYLLQYQEPIPCEQLVTALCDIK------QAYTQFGGKRPFGVSLLYIGWDKH 142

Query: 146 TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG-LTKEEGISLVCEAICSGIF 204
            G  L+   P G+        +G+ S AA+++ +  Y+EG +T +  ++L  + +   + 
Sbjct: 143 YGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMD 202

Query: 205 NDLGSGSNVDICVITKGDKE 224
               S   V+I  +T+ + +
Sbjct: 203 VSKLSAEKVEIATLTRENGK 222

>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 = 73.4 bits (181), Expect = 1e-15
 Identities = 42/202 (20%), Positives = 69/202 (34%), Gaps = 26/202 (12%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+  VGL      +L A  R      +     +KI     ++    AG A D   +++
Sbjct: 29  KQGSVTVGLRSNTHAVLVALKRNA--DELSSYQ-KKIIKCDEHMGLSLAGLAPDARVLSN 85

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT 146
            +  Q         R+    R    L          Q + Q          L++ G D +
Sbjct: 86  YLRQQCNYSSLVFNRKLAVERAGHLLCDKA------QKNTQSYGGRPYGVGLLIIGYDKS 139

Query: 147 GPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAVFESKYREG----LTKEEGISLVCEAICS 201
           G HL    P G+   L + T +G+ S  A    E             +E I    EAI  
Sbjct: 140 GAHLLEFQPSGNVTEL-YGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQ 198

Query: 202 GIFNDLGSGSNVDICVITKGDK 223
            + ++  +  N+ I ++ K   
Sbjct: 199 SLRDESLTVDNLSIAIVGKDTP 220

>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 = 72.8 bits (179), Expect = 3e-15
 Identities = 41/200 (20%), Positives = 71/200 (35%), Gaps = 21/200 (10%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT +G+   +GV+   +   T+  +V  KN  KI  +  +I C  +G   D   + +
Sbjct: 32  ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKN-VKIQVVDRHIGCVYSGLIPDGRHLVN 90

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT 146
               +    +               L          Q H           + + GGVD  
Sbjct: 91  RGREEAASFKKLYKTPIPIPAFADRLGQYV------QAHTLYNSVRPFGVSTIFGGVDKN 144

Query: 147 GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFE---SKYREGLTKEEGISLVCEAICSGI 203
           G HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I    
Sbjct: 145 GAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAH 204

Query: 204 FNDLGSGSNVDICVITKGDK 223
            ++      ++I   +  + 
Sbjct: 205 EDNKEKDFELEISWCSLSET 224

>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 = 71.9 bits (177), Expect = 3e-15
 Identities = 39/202 (19%), Positives = 72/202 (35%), Gaps = 25/202 (12%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K GT  VG+  +N V+LG + R+T           K+  +  ++    +G  AD+  + +
Sbjct: 26  KRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIE 85

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDA- 145
               + Q HR           +   +  ++      Q + Q         + ++ G D  
Sbjct: 86  KARVEAQSHRLTLEDPVTVEYLTRYVAGVQ------QRYTQSGGVRPFGVSTLIAGFDPR 139

Query: 146 -TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE---GLTKEEGISLVCEAICS 201
              P L+   P G   +    T+G  S       E  Y       T EE + L   ++  
Sbjct: 140 DDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLE 199

Query: 202 GIFNDLGSGSNVDICVITKGDK 223
            +    G+  N++I V+     
Sbjct: 200 VV--QTGA-KNIEITVVKPDSD 218

>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 = 71.1 bits (175), Expect = 7e-15
 Identities = 27/216 (12%), Positives = 63/216 (29%), Gaps = 29/216 (13%)

Query: 37  RKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVT 96
            +T    + +  ++  ++ +  +     +        I  ++  I     G   D     
Sbjct: 27  NQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV-SYIFCISRTIGMVVNGPIPDARNAA 85

Query: 97  DMVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDA 145
               ++    RY  G +     +   +  L       Q + Q          L    VD 
Sbjct: 86  LRAKAEAAEFRYKYGYDMPCDVLAKRMANLS------QIYTQRAYMRPLGVILTFVSVDE 139

Query: 146 -TGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAVFESKYREG-------LTKEEGISLVC 196
             GP ++   P G       AT  G          E+ +++         + E+ +    
Sbjct: 140 ELGPSIYKTDPAGYYVGY-KATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAI 198

Query: 197 EAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP 232
             +   +  +    +++++ V TK     L    + 
Sbjct: 199 THMIDALGTEFSK-NDLEVGVATKDKFFTLSAENIE 233

>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 = 70.7 bits (174), Expect = 1e-14
 Identities = 30/203 (14%), Positives = 69/203 (33%), Gaps = 22/203 (10%)

Query: 37  RKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVT 96
            + G T V +  ++  ++    +     +        +  +  NI C   G  AD+ +  
Sbjct: 33  NQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV-THLFKITENIGCVMTGMTADSRSQV 91

Query: 97  DMVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDA 145
                +    +Y  G E     +   +  +       Q + Q          ++L G+D 
Sbjct: 92  QRARYEAANWKYKYGYEIPVDMLCKRIADIS------QVYTQNAEMRPLGCCMILIGIDE 145

Query: 146 -TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG--LTKEEGISLVCEAICSG 202
             GP ++   P G          G     + +  E K ++    T E+ +      + + 
Sbjct: 146 EQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTV 205

Query: 203 IFNDLGSGSNVDICVITKGDKEY 225
           +  D    S +++ V+T  + ++
Sbjct: 206 LSIDF-KPSEIEVGVVTVENPKF 227

>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 = 67.6 bits (166), Expect = 1e-13
 Identities = 40/199 (20%), Positives = 74/199 (37%), Gaps = 22/199 (11%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T VG+  ++ V+LG + ++ A          KI  +  N+    AG  AD   V +
Sbjct: 27  KKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTV-RKICALDDNVCMAFAGLTADARIVIN 85

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDAT 146
               + Q HR           +   +  LK      Q + Q         + ++ G D  
Sbjct: 86  RARVECQSHRLTVEDPVTVEYITRYIASLK------QRYTQSNGRRPFGISALIVGFDFD 139

Query: 147 G-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
           G P L+   P G+        +G G+ +     E  Y +   + +    +   I   +  
Sbjct: 140 GTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDD-LTIKLVI-KALLE 197

Query: 206 DLGSGS-NVDICVITKGDK 223
            + SG  N+++ V+ +   
Sbjct: 198 VVQSGGKNIELAVMRRDQS 216

>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 = 55.2 bits (132), Expect = 9e-09
 Identities = 49/279 (17%), Positives = 83/279 (29%), Gaps = 59/279 (21%)

Query: 18  LCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVIL-GADTRATAGSIVCDKNC----- 71
           L   N + +K  +     Y K    ++ L     V++ G       G     K       
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV-----LG---SGKTWVALDV 170

Query: 72  ---EKIHYMAPN-IYCCGAGTAADTEAVTDMVSS-QLQLHRYHTGRESRVVT------AL 120
               K+       I+          E V +M+     Q+    T R            ++
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230

Query: 121 TLLKSHLFKYQGHVQAALVLGGV------DATGPH---LHTIYPHGSTDTLPFATMGSGS 171
                 L K + +    LVL  V      +A       L T      TD L  AT     
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH-- 288

Query: 172 LAAMAVFESKYREGLTKEEGISLVCEAICSGI-FNDL----GSGSNVDICVITKGDKEYL 226
                +    +   LT +E  SL+           DL     + +   + +I     E +
Sbjct: 289 -----ISLDHHSMTLTPDEVKSLL--LKYLDCRPQDLPREVLTTNPRRLSII----AESI 337

Query: 227 RNHQLPNPRTYISSKGYSFPKKTEVL---LTKITPLENQ 262
           R+       T+ + K  +  K T ++   L  + P E +
Sbjct: 338 RDG----LATWDNWKHVNCDKLTTIIESSLNVLEPAEYR 372

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	274
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	100.0
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	100.0
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	100.0

>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=2.1e-61  Score=429.43  Aligned_cols=252  Identities=54%  Similarity=0.870  Sum_probs=216.3

Q ss_pred             CCCccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChh
Q 023965           11 KGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAA   90 (274)
Q Consensus        11 ~~g~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~a   90 (274)
                      ++||+|+|+.||.+|+..|+ .+++|+++|+|+|||+++||||||+|+|.++|.++.+++++|||+|++||+|++||..+
T Consensus         1 ~~~~~~~~~~rn~~~~~~~~-~~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~a   79 (261)
T 3nzj_H            1 MAGLSFDNYQRNNFLAENSH-TQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAA   79 (261)
T ss_dssp             ------------------------------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHH
T ss_pred             CCCcCchhhhhHHHHHhcCC-CCCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHH
Confidence            47999999999999998887 88999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecC
Q 023965           91 DTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        91 D~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      |++.+.++++.+++.|+++++++++++.+++++++.+++|++||++++||||||++||+||.+||+|++.+++++|+|+|
T Consensus        80 D~~~l~~~lr~~~~~~~~~~~~~~~v~~~a~~l~~~l~~~~~~~gv~llvaG~D~~Gp~Ly~iDp~G~~~~~~~~aiGsg  159 (261)
T 3nzj_H           80 DTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSG  159 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHTTTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTT
T ss_pred             HHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHHhcCcccEEEEEEEEeCCCCEEEEECCCccEEecCeEEeccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC-EEEeccccCCCCCCcccCCCcccCc-e
Q 023965          171 SLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPNPRTYISSKGYSFPK-K  248 (274)
Q Consensus       171 s~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g-~~~~~~~~~~~~~~~~~~~~~~~~~-~  248 (274)
                      +..++++||+.|+++||++||++++++||..++.+|..++++++|++|+++| +++++||.+++.|.+ ++..|+||+ +
T Consensus       160 s~~a~~~Le~~~~~~ms~eEA~~la~~al~~a~~rD~~sg~~iev~vI~kdg~~~~~~~~~~~~~~~~-~~~~~~~~~~~  238 (261)
T 3nzj_H          160 SLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGT  238 (261)
T ss_dssp             HHHHHHHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEECCCCCCC-CSSCCCCCTTC
T ss_pred             hHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCCcEEEeccccCCCcccc-cccccCCCCCC
Confidence            9999999999999999999999999999999999999999999999999999 999999999999995 999999999 9


Q ss_pred             eeeeeeeeEeccceeE
Q 023965          249 TEVLLTKITPLENQVE  264 (274)
Q Consensus       249 ~~~~~~~~~~~~~~~~  264 (274)
                      |+||+|+|+++.+.++
T Consensus       239 ~~~~~~~~~~~~~~~~  254 (261)
T 3nzj_H          239 TAVLKESIVNICDIQE  254 (261)
T ss_dssp             SCEEEEEEECCCC---
T ss_pred             cceeeEEEEEeeeeeE
Confidence            9999999999985544

>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=2.5e-57  Score=397.44  Aligned_cols=232  Identities=50%  Similarity=0.835  Sum_probs=214.6

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++.+++++|||+|++||+|++||..+|++.+.++++.++++|+++++++++++.++
T Consensus         1 TT~vgi~~kdgVVlaaD~r~t~g~~v~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 3unf_H            1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAASKMELHALSTGREPRVATVT   80 (234)
T ss_dssp             CEEEEEECSSEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEECCCcccCCEeccCccccEEEecCCEEEEecccHHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~  200 (274)
                      +++++.+++|++||++++|+||||++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++||.
T Consensus        81 ~~l~~~l~~~~~p~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~  160 (234)
T 3unf_H           81 RILRQTLFRYQGHVGASLVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAIT  160 (234)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCccEEEEEEEEeCCCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCCCCcccCCCcccCc-eeeeeeeeeEeccceeEeeecCCCCCC
Q 023965          201 SGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPK-KTEVLLTKITPLENQVEVIEVGDSMEE  274 (274)
Q Consensus       201 ~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  274 (274)
                      .++.+|..++++++|++|+++|+++++++++++.|. .|+..|+|++ +|+||+++|.|+. +|.+.++.+.||+
T Consensus       161 ~~~~~D~~sg~~iev~vi~~dg~~~l~~~~i~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  233 (234)
T 3unf_H          161 AGILSDLGSGGNVDACVITAGGAKLQRALSTPTEPV-QRAGRYRFAPGTTPVLTREVRPLT-LELLEETVQAMEV  233 (234)
T ss_dssp             HHHHHBTTCCSCEEEEEEESSCEEEEEEEECCCCCC-CCCCCCCCCTTCSCEEEEEEEEC---------------
T ss_pred             HHHhhcCCCCCcEEEEEEECCCEEEeCceecccccc-cccccccCCCCCcceeeEEEEEee-EEEEEeeeeeccC
Confidence            999999999999999999999999999999999999 6999999999 9999999999995 7888888889985

>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=9.1e-55  Score=381.38  Aligned_cols=232  Identities=59%  Similarity=0.963  Sum_probs=214.3

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++.+++++|||+|++||+|++||..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 TTivgi~~~dgVVlaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (234)
T 1iru_I            1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (234)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCceeccCcccceEEecCCEEEEecCcHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            68999999999999999999999999889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~  200 (274)
                      +++++.+++|++||++++|+||||++||+||.+||+|++.+++++|+|+|+..++++||+.|+++||++||++++++||.
T Consensus        81 ~~l~~~l~~~~~~~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~  160 (234)
T 1iru_I           81 RMLKQMLFRYRGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIA  160 (234)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHHH
T ss_pred             HHHHHHHHhcCCCCceeEEEEEEcCCCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCCCCcccCCCcccCc-eeeeeeeeeEeccceeEeeecCCCCCC
Q 023965          201 SGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPK-KTEVLLTKITPLENQVEVIEVGDSMEE  274 (274)
Q Consensus       201 ~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  274 (274)
                      .++.+|..++++++|++|+++|+++++++.++++|.+ |+.+|+||+ +|+||+|+|.|+. .+.+.++.+.||+
T Consensus       161 ~a~~~d~~sg~~i~v~vi~k~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  233 (234)
T 1iru_I          161 AGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKGT-RLGRYRCEKGTTAVLTEKITPLE-IEVLEETVQTMDT  233 (234)
T ss_dssp             HHHHHCTTCCSCEEEEEEETTEEECCSEEECCCCCCC-CCSCCCCCTTCSCBSCCCCCBCC--------------
T ss_pred             HHHHhcccCCCCEEEEEEECCcEEEEcceecCccccc-cccCcccCCCceeeeEEEEEecc-hhheecccccccC
Confidence            9999999999999999999999999999999999995 799999999 9999999999996 3334444467885

>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=5.1e-53  Score=367.48  Aligned_cols=219  Identities=58%  Similarity=0.919  Sum_probs=213.7

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~t~g~~~~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (222)
T 1ryp_I            1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCeeecCCcccEEEecCCEEEEecccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~  200 (274)
                      +++++.+++|++||++++|+||+|++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++||.
T Consensus        81 ~~l~~~l~~~~~p~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA~~la~~al~  160 (222)
T 1ryp_I           81 QMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQ  160 (222)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCCCCCeeEEEEEEeCCCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHHHHHHHHHHH
Confidence            99999999999999999999999998999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCCCcEEEEEEeCCC-EEEeccccCCCCCCcccCCCcccCc-eeeeeeeeeEecc
Q 023965          201 SGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPNPRTYISSKGYSFPK-KTEVLLTKITPLE  260 (274)
Q Consensus       201 ~~~~~d~~sg~~i~i~vi~k~g-~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  260 (274)
                      .++.+|..++++++|++|+++| +++++++.++..|.+ |..+|.||+ +|+||+|+|++++
T Consensus       161 ~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~  221 (222)
T 1ryp_I          161 AGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGTTAVLKESIVNIC  221 (222)
T ss_dssp             HHHHHCTTCCSCEEEEEEETTSCEEEEEEEECCCCCCC-CSSCCCCCTTCSCEEEEEECCCC
T ss_pred             HHHhccccCCCcEEEEEEECCCCEEEEeceecCCcccc-cccCcccCCCceeeeeeeeEecc
Confidence            9999999999999999999999 999999999999995 789999999 9999999998874

>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=8e-54  Score=374.95  Aligned_cols=210  Identities=15%  Similarity=0.192  Sum_probs=201.4

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++++++|+|+|||+++||||||+|+|.+ +.++..++.+||++|++||+|++||..+|++.+
T Consensus        12 fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l   85 (233)
T 1iru_B           12 FSPSGKLVQIEYA-----LAAVAGGAPSVGIKAANGVVLATEKKQK-SILYDERSVHKVEPITKHIGLVYSGMGPDYRVL   85 (233)
T ss_dssp             CCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSCEEEEEECCCC-CSSBCSTTCCSSEESSSSEEEEEEECHHHHHHH
T ss_pred             ECCCCeEehhHhH-----HHHHHcCCcEEEEEeCCEEEEEEEecCC-ccccccccCCeEEEECCCEEEEEEEccHHHHHH
Confidence            9999999999999     8999999999999999999999999998 578888999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhcc-----CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecC
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-----GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~-----~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      .++++.+++.|+++++++++++.+++++++.++.|.     +||++++|+||||++||+||.+||+|++.+++++|+|+|
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiG~g  165 (233)
T 1iru_B           86 VHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKN  165 (233)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBSEEEESTT
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeCCCCeEEEECCCCCEEEeeEEEECCC
Confidence            999999999999999999999999999999997652     699999999999988999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          171 SLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       171 s~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      +.+++++||+.|+++||++||++++++||..++++| .++++++|++|+++|++++.+.+++
T Consensus       166 s~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d-~sg~~i~v~vi~~~g~~~l~~~ei~  226 (233)
T 1iru_B          166 YVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQ-MTEDNIEVGICNEAGFRRLTPTEVK  226 (233)
T ss_dssp             HHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSC-CCSSSEEEEEEETTEEEECCHHHHH
T ss_pred             CHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhcc-CCCCCEEEEEEECCCEEECCHHHHH
Confidence            999999999999999999999999999999999999 6799999999999999988887664

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

Probab=100.00  E-value=1.3e-53  Score=373.63  Aligned_cols=213  Identities=22%  Similarity=0.356  Sum_probs=199.3

Q ss_pred             CCcc-----ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEec
Q 023965           12 GGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGA   86 (274)
Q Consensus        12 ~g~~-----fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~s   86 (274)
                      +|||     |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+++ ++..++.+||++|++||+|++|
T Consensus         6 ~~yd~~~t~fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-~~~~~~~~Ki~~i~~~i~~~~a   79 (233)
T 1yar_A            6 MAYSRAITVFSPDGRLFQVEYA-----REAVKKGSTALGMKFANGVLLISDKKVRSR-LIEQNSIEKIQLIDDYVAAVTS   79 (233)
T ss_dssp             -------CCCCTTSCCHHHHHH-----HHHHTTSCCEEEEEETTEEEEEECCCCCCT-TBCSTTCCSEEEEETTEEEEEE
T ss_pred             ccCCCCCceECcCCeeHHHHhH-----HHHHhcCCcEEEEEECCEEEEEEeccCCcc-cccccccCeEEEecCCEEEEEe
Confidence            4665     9999999999999     899999999999999999999999999996 6778899999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhcc-----CcceeEEEEEEEeCCCCEEEEEcCCCCeee
Q 023965           87 GTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-----GHVQAALVLGGVDATGPHLHTIYPHGSTDT  161 (274)
Q Consensus        87 G~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~-----~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~  161 (274)
                      |..+|++.+.++++.+++.|+++++++++++.+++++++.++.|+     |||++++|+||||++||+||.+||+|++.+
T Consensus        80 G~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~gp~Ly~id~~G~~~~  159 (233)
T 1yar_A           80 GLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINE  159 (233)
T ss_dssp             EBHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCCEEE
T ss_pred             eCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCcCcceEEEEEEEEeCCCCEEEEECCCCCEEe
Confidence            999999999999999999999999999999999999999998653     699999999999998999999999999999


Q ss_pred             eCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC-EEEeccccC
Q 023965          162 LPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQL  231 (274)
Q Consensus       162 ~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g-~~~~~~~~~  231 (274)
                      ++++|+|+|+.+++++||+.|+++||++||++++++||..++++|. ++++++|++|+++| ++++.+.++
T Consensus       160 ~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~-s~~~i~v~vi~~~~~~~~~~~~ei  229 (233)
T 1yar_A          160 YKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNKYRIYDQEEV  229 (233)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEETTSCCEECCHHHH
T ss_pred             eeEEEEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEECCCCEEECCHHHH
Confidence            9999999999999999999999999999999999999999999998 69999999999998 777766654

>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=1.7e-53  Score=375.18  Aligned_cols=211  Identities=12%  Similarity=0.105  Sum_probs=200.3

Q ss_pred             cccCcchhhHHHhcCCCCCCccccc-cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~-Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      .|||+||++|||||     ++|+++ |+|+|||+++||||||+|+|.+ +.++..++.+|||+|++||+|++||..+|++
T Consensus         9 ~fsp~Grl~QvEYA-----~~av~~~Gtt~vgi~~~dgVvlaad~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~   82 (243)
T 1ryp_A            9 IFSPEGRLYQVEYA-----FKATNQTNINSLAVRGKDCTVVISQKKVP-DKLLDPTTVSYIFCISRTIGMVVNGPIPDAR   82 (243)
T ss_dssp             SCCTTSCCHHHHHH-----HHHTTTTCCCEEEEECSSEEEEEEECCCC-CTTBCGGGCCSEEECSSSCEEEEESCHHHHH
T ss_pred             eECCCCeeHHHHHH-----HHHHhcCCCcEEEEEeCCEEEEEEEecCC-ccccCCCcCCceEEECCCEEEEEEecHHHHH
Confidence            49999999999999     899999 9999999999999999999999 6888899999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEE
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      .+.++++.+++.|++.++++++++.+++++++.++.|     .+||++++||||||+ +||+||.+||+|++.+++++|+
T Consensus        83 ~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~rP~~v~~lvaG~D~~~gp~Ly~~dp~G~~~~~~~~a~  162 (243)
T 1ryp_A           83 NAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATAT  162 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccccceEEEEEEEcCCCCcEEEEEcCCCCEEEEEEEEE
Confidence            9999999999999999999999999999999998433     379999999999997 7899999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCC-------CCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          168 GSGSLAAMAVFESKYRE-------GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~-------~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      |+|+..++++||+.|++       +||++||++++++||..++.+| .++++++|++|+++|++++.+.+++
T Consensus       163 G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd-~s~~~iev~vi~~~g~~~l~~~ei~  233 (243)
T 1ryp_A          163 GPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTE-FSKNDLEVGVATKDKFFTLSAENIE  233 (243)
T ss_dssp             STTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCC-CCTTSEEEEEEETTEEEECCHHHHH
T ss_pred             CCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCCeEECCHHHHH
Confidence            99999999999999999       9999999999999999999999 6899999999999998887776553

>1iru_E 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_D* 3une_D 3unf_D* 3unh_D

Probab=100.00  E-value=7.6e-53  Score=370.57  Aligned_cols=208  Identities=21%  Similarity=0.304  Sum_probs=197.1

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++|+++|||+|||+++||||||+|+|.++|.++ .++.+||++|++||+|++||..+|++.+
T Consensus        15 fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~aD~~~l   88 (241)
T 1iru_E           15 FSPEGRLFQVEYD-----IEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME-PSSIEKIVEIDAHIGCAMSGLIADAKTL   88 (241)
T ss_dssp             BCTTSCBHHHHHH-----HHHHTTSCCEEEEEETTEEEEEEECCCCCTTBC-TTSCCSEEEEETTEEEEEEECHHHHHHH
T ss_pred             ECCCCccHHHHHH-----HHHHHcCCcEEEEEcCCEEEEEEecccCCcCcC-ccccceEEEEcCCEEEEEeeChHHHHHH
Confidence            9999999999999     899999999999999999999999999999877 8899999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc----------cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeE
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----------QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFA  165 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~----------~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~  165 (274)
                      .++++.+++.|+++++++++++.+++++++.++.|          .|||++++||||||.+||+||.+||+|++.+++++
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~  168 (241)
T 1iru_E           89 IDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDAR  168 (241)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEE
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCCCCEEEEECCCCcEEecceE
Confidence            99999999999999999999999999999988655          46999999999999888999999999999999999


Q ss_pred             EEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCE-EEecccc
Q 023965          166 TMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK-EYLRNHQ  230 (274)
Q Consensus       166 aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~-~~~~~~~  230 (274)
                      |+|+|+.+++++||+.|+++||++||++++++||..++++ ..++++++|++|+++|. +++.+.+
T Consensus       169 aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~l~~~e  233 (241)
T 1iru_E          169 AIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEE-KLNATNIELATVQPGQNFHMFTKEE  233 (241)
T ss_dssp             EESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEECSSSCCEECCHHH
T ss_pred             EECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCCEEEEEEECCCCeEECCHHH
Confidence            9999999999999999999999999999999999999999 67899999999999984 5554443

>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=1.4e-52  Score=369.58  Aligned_cols=211  Identities=20%  Similarity=0.203  Sum_probs=199.6

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.++.++ .+||++|++||+|++||..+|++.
T Consensus        10 ~fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~-~~KI~~i~~~i~~~~aG~~aD~~~   83 (244)
T 1ryp_G           10 VFSPDGRNFQVEYA-----VKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQK-NVKIQVVDRHIGCVYSGLIPDGRH   83 (244)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTT-SCCCEEETTTEEEEEEECHHHHHH
T ss_pred             cCCcCCchHHHHhH-----HHHHHCCCCEEEEEECCEEEEEEecccCCCCccccc-cCceEEecCCEEEEEcccHHHHHH
Confidence            39999999999999     899999999999999999999999999998877654 499999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEec
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      +.++++.+++.|+++++++++++.+++++++.++.|     .+||++++||||||++||+||.+||+|++.+++++|+|+
T Consensus        84 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~  163 (244)
T 1ryp_G           84 LVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGK  163 (244)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEEBSEEEEST
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccCceEEEEEEEEeCCcCEEEEECCCCCEEEeeEEEECC
Confidence            999999999999999999999999999999999765     379999999999999899999999999999999999999


Q ss_pred             ChHHHHHHHHhh---cCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeC---CCEEEeccccC
Q 023965          170 GSLAAMAVFESK---YREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK---GDKEYLRNHQL  231 (274)
Q Consensus       170 gs~~a~~~Le~~---~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k---~g~~~~~~~~~  231 (274)
                      |+.+++++||+.   |+++||++||++++++||..++++|..++.+++|++|++   +|.+...|.++
T Consensus       164 gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g~~~~~~~~~  231 (244)
T 1ryp_G          164 GRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDL  231 (244)
T ss_dssp             THHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHH
T ss_pred             ChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCCeeeeChHHH
Confidence            999999999997   999999999999999999999999999999999999998   78877766544

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

Probab=100.00  E-value=1.3e-52  Score=373.25  Aligned_cols=212  Identities=19%  Similarity=0.213  Sum_probs=200.9

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.
T Consensus        11 ~fsp~Grl~QvEYA-----~~av~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~   85 (261)
T 1iru_C           11 IFSPEGRLYQVEYA-----MEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANV   85 (261)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHH
T ss_pred             cCCCCCeehHHHhH-----HHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHHHHHH
Confidence            49999999999999     8999999999999999999999999999999888888999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEe
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiG  168 (274)
                      +.++++.+++.|+++++++++++.+++++++.++.|     .|||++++||||||+ +||+||.+||+|++.+++++|+|
T Consensus        86 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG  165 (261)
T 1iru_C           86 LTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIG  165 (261)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSEEEES
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcCcceEEEEEEEEeCCCCcEEEEECCCceEEeeeeEEeC
Confidence            999999999999999999999999999999999866     369999999999995 78999999999999999999999


Q ss_pred             cChHHHHHHHHhhcCC-CCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC----EEEeccccC
Q 023965          169 SGSLAAMAVFESKYRE-GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD----KEYLRNHQL  231 (274)
Q Consensus       169 sgs~~a~~~Le~~~~~-~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g----~~~~~~~~~  231 (274)
                      +|+.+++++||+.|++ +||++||++++++||..++.+|..++++++|++|+++|    ++++.+.++
T Consensus       166 sgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~~~~~~~~l~~~ei  233 (261)
T 1iru_C          166 NNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEV  233 (261)
T ss_dssp             TTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHH
T ss_pred             cccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCCCeeeEEECCHHHH
Confidence            9999999999999999 99999999999999999999999999999999999997    455555443

>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=2e-52  Score=368.49  Aligned_cols=211  Identities=17%  Similarity=0.228  Sum_probs=197.9

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.
T Consensus        11 ~fsp~Grl~QvEyA-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   85 (244)
T 1ryp_C           11 IFSPEGRLYQVEYA-----LESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEI   85 (244)
T ss_dssp             CBCTTSCBHHHHHH-----HHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHH
T ss_pred             eECcCCeeHHHHhH-----HHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHHHHH
Confidence            49999999999999     8999999999999999999999999999987776889999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEe-CCCCEEEEEcCCCCeeeeCeEEEe
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVD-ATGPHLHTIYPHGSTDTLPFATMG  168 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D-~~gp~Ly~idp~G~~~~~~~~aiG  168 (274)
                      +.++++.+++.|+++++++++++.+++++++.++.|     .|||++++|||||| .+||+||.+||+|++.+++++|+|
T Consensus        86 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG  165 (244)
T 1ryp_C           86 LINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVG  165 (244)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCccceEEEEEEEEEcCCCCCEEEEECCCccEEeeeEEEEC
Confidence            999999999999999999999999999999998654     36999999999999 678999999999999999999999


Q ss_pred             cChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEe--CCC----EEEecccc
Q 023965          169 SGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT--KGD----KEYLRNHQ  230 (274)
Q Consensus       169 sgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~--k~g----~~~~~~~~  230 (274)
                      +|+.+++++||+.|+++||++||++++++||..++++|..++++++|++|+  ++|    .+++.+.+
T Consensus       166 sgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~~~~~~~l~~~e  233 (244)
T 1ryp_C          166 ANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQE  233 (244)
T ss_dssp             TTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHH
T ss_pred             CCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCCceeEEECCHHH
Confidence            999999999999999999999999999999999999965679999999999  887    44544433

>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=1.7e-52  Score=368.52  Aligned_cols=211  Identities=23%  Similarity=0.274  Sum_probs=198.9

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.++ .++.+||++|++||+|++||..+|++
T Consensus         5 t~fsp~Grl~QvEyA-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~aD~~   78 (242)
T 1ryp_E            5 STFSPEGRLFQVEYS-----LEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE-SDSIEKIVEIDRHIGCAMSGLTADAR   78 (242)
T ss_dssp             TCBCTTSCBHHHHHH-----HHHHTTSCCEEEEECSSCEEEEEECCCSSTTBC-GGGCCCEEEEETTEEEEEEESGGGHH
T ss_pred             ceECCCCcChHHHhH-----HHHHHcCCCEEEEEECCEEEEEEeecCCCcCcc-CccCCceEEEcCCEEEEEeecHHHHH
Confidence            469999999999999     899999999999999999999999999998777 88999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----------cCcceeEEEEEEEe-CCCCEEEEEcCCCCeee
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----------QGHVQAALVLGGVD-ATGPHLHTIYPHGSTDT  161 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----------~~p~~v~lIvaG~D-~~gp~Ly~idp~G~~~~  161 (274)
                      .+.++++.+++.|+++++++++++.+++++++.++.|           .|||++++|+|||| .+||+||.+||+|++.+
T Consensus        79 ~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~  158 (242)
T 1ryp_E           79 SMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYR  158 (242)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEECCCCCEec
Confidence            9999999999999999999999999999999988764           56999999999999 67899999999999999


Q ss_pred             eCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCE-EEeccccC
Q 023965          162 LPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK-EYLRNHQL  231 (274)
Q Consensus       162 ~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~-~~~~~~~~  231 (274)
                      ++++|+|+|+.+++++||+.|+++||++||++++++||..++.+ ..++++++|++|+++|. +++.+.++
T Consensus       159 ~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~~~~~ei  228 (242)
T 1ryp_E          159 YNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEE-KLDENNAQLSCITKQDGFKIYDNEKT  228 (242)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEEETTTEEEECCHHHH
T ss_pred             cCEEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEECCCCeEECCHHHH
Confidence            99999999999999999999999999999999999999999999 66799999999999985 66655544

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

Probab=100.00  E-value=9.4e-53  Score=374.58  Aligned_cols=216  Identities=24%  Similarity=0.367  Sum_probs=197.5

Q ss_pred             CCCCcc-----ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEE
Q 023965           10 PKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCC   84 (274)
Q Consensus        10 ~~~g~~-----fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~   84 (274)
                      ++.|||     |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+++ ++..++.+||++|++||+|+
T Consensus         8 ~~~~yd~~~t~fSp~Grl~QvEYA-----~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~-li~~~~~~KI~~i~d~i~~~   81 (264)
T 3h4p_A            8 PPSAYDRAITVFSPEGRLYQVEYA-----REAVRRGTTAIGIACKDGVVLAVDRRITSK-LVKIRSIEKIFQIDDHVAAA   81 (264)
T ss_dssp             --------CCCCCSSSSCHHHHHH-----HHHHHHSCCEEEECCSSEEEEEEECCCCST-TBCTTTCCCEEEEETTEEEE
T ss_pred             CccccCCCcceECCCCeeHHHHhH-----HHHHhcCCcEEEEEECCEEEEEEecCccCC-ccccCccccEEEecCcEEEE
Confidence            456776     9999999999999     899999999999999999999999999996 67788999999999999999


Q ss_pred             ecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhcc-----CcceeEEEEEEEeCCCCEEEEEcCCCCe
Q 023965           85 GAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-----GHVQAALVLGGVDATGPHLHTIYPHGST  159 (274)
Q Consensus        85 ~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~-----~p~~v~lIvaG~D~~gp~Ly~idp~G~~  159 (274)
                      +||..+|++.++++++.+++.|++.++++++++.++++|++.++.|.     +||++++||||||++||+||.+||+|++
T Consensus        82 ~aG~~aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~~gp~Ly~iDp~G~~  161 (264)
T 3h4p_A           82 TSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGAL  161 (264)
T ss_dssp             EEECSHHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEETTEEEEEEECTTCCC
T ss_pred             eccchHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeCCcCEEEEECCCceE
Confidence            99999999999999999999999999999999999999999987652     6999999999999989999999999999


Q ss_pred             eeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC--EEEeccccCCC
Q 023965          160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD--KEYLRNHQLPN  233 (274)
Q Consensus       160 ~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g--~~~~~~~~~~~  233 (274)
                      .+++++|+|+|+.+++++||+.|+++||++||++++++||..++.+  .++++++|++|++++  ++++.+.++..
T Consensus       162 ~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~~~--~sg~~iev~vi~~~~~~~~~l~~~ei~~  235 (264)
T 3h4p_A          162 IEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKANED--IKPENVDVCIITVKDAQFKKIPVEEIKK  235 (264)
T ss_dssp             EEESEEEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHSSS--CCTTSEEEEEEETTTTEEEECCTTTTGG
T ss_pred             EecCeEEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhc--cCCCeEEEEEEEeCCCcEEECCHHHHHH
Confidence            9999999999999999999999999999999999999999999976  689999999999864  66666665543

>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=6.8e-52  Score=364.50  Aligned_cols=211  Identities=19%  Similarity=0.206  Sum_probs=199.0

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++
T Consensus         7 t~fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~   81 (241)
T 1ryp_D            7 SIFSPDGHIFQVEYA-----LEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSR   81 (241)
T ss_dssp             SCCBTTTBCHHHHHH-----HHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHH
T ss_pred             eeECCCCcchHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHHH
Confidence            359999999999999     899999999999999999999999999999888877999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC--CCCEEEEEcCCCCeeeeCeEE
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLPFAT  166 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~--~gp~Ly~idp~G~~~~~~~~a  166 (274)
                      .+.++++.+++.|+++++++++++.+++++++.++.|     .|||++++||||||+  +||+||.+||+|++.+++++|
T Consensus        82 ~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~a  161 (241)
T 1ryp_D           82 ILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQT  161 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECCCCCEEEeeeEE
Confidence            9999999999999999999999999999999999865     269999999999998  789999999999999999999


Q ss_pred             EecChHHHHHHHHhhc---CCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC-EEEeccccCC
Q 023965          167 MGSGSLAAMAVFESKY---REGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLP  232 (274)
Q Consensus       167 iGsgs~~a~~~Le~~~---~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g-~~~~~~~~~~  232 (274)
                      +|+|+..++++||+.|   +++||++||++++++||..+++   .++++++|++|+++| ++++.+.+++
T Consensus       162 iG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~---~sg~~i~v~vi~~~~~~~~l~~~ei~  228 (241)
T 1ryp_D          162 IGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ---TGAKNIEITVVKPDSDIVALSSEEIN  228 (241)
T ss_dssp             ESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC---SCSTTEEEEEEETTTEEEECCHHHHH
T ss_pred             ECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc---CCCCcEEEEEEECCCcEEECCHHHHH
Confidence            9999999999999999   9999999999999999999985   679999999999996 7777666553

>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=4.9e-52  Score=363.70  Aligned_cols=209  Identities=22%  Similarity=0.192  Sum_probs=197.6

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|..   ++.+||++|++||+|++||..+|++.
T Consensus        11 ~fsp~Grl~QvEyA-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~---~~~~Ki~~i~~~i~~~~aG~~aD~~~   82 (233)
T 1ryp_F           11 TFSPTGRLFQVEYA-----LEAIKQGSVTVGLRSNTHAVLVALKRNADELS---SYQKKIIKCDEHMGLSLAGLAPDARV   82 (233)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHHHHH
T ss_pred             cCCCCCeehHHHHH-----HHHHHcCCCEEEEEcCCEEEEEEEeccccccc---cccCcEEEEcCCEEEEEEechHHHHH
Confidence            59999999999999     89999999999999999999999999999742   47899999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEec
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      +.++++.+++.|+++++++++++.+++++++.++.|     .|||++++||||||++||+||.+||+|++.+++++|+|+
T Consensus        83 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~  162 (233)
T 1ryp_F           83 LSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGA  162 (233)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSCEEEESEEEEST
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCCcCcceEEEEEEEeCCcCEEEEECCCCCeeeeeEEEECC
Confidence            999999999999999999999999999999998654     479999999999999899999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCC--CC--CHHHHHHHHHHHHHHhhhcC-CCCCCcEEEEEEeCC-CEEEeccccCC
Q 023965          170 GSLAAMAVFESKYRE--GL--TKEEGISLVCEAICSGIFND-LGSGSNVDICVITKG-DKEYLRNHQLP  232 (274)
Q Consensus       170 gs~~a~~~Le~~~~~--~m--s~eeai~la~~al~~~~~~d-~~sg~~i~i~vi~k~-g~~~~~~~~~~  232 (274)
                      |+..++++||+.|++  +|  |++||++++++||..++ +| ..++++++|++|+++ +++++.+.++.
T Consensus       163 gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi~~~~~~~~l~~~ei~  230 (233)
T 1ryp_F          163 RSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGKDTPFTIYDGEAVA  230 (233)
T ss_dssp             THHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEEETTEEEEEEEGGGGG
T ss_pred             CcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEEECCCCEEECCHHHHH
Confidence            999999999999998  99  99999999999999999 77 578999999999999 68888887764

>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=5.3e-52  Score=366.24  Aligned_cols=209  Identities=16%  Similarity=0.196  Sum_probs=197.1

Q ss_pred             ccCcchhhHHHhcCCCCCCccccc-cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~-Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      |||+||++|||||     ++|+++ |+|+|||+++||||||+|+|.+ +.++..++.+||++|++||+|++||..+|++.
T Consensus        16 fsp~Grl~QvEya-----~~av~~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   89 (246)
T 1iru_A           16 FSPEGRLYQVEYA-----FKAINQGGLTSVAVRGKDCAVIVTQKKVP-DKLLDSSTVTHLFKITENIGCVMTGMTADSRS   89 (246)
T ss_dssp             CCTTSCCHHHHHH-----HHHHHTTCCEEEEEECSSEEEEEEECCCC-CSSBCGGGCCSEEESSSSCEEEEEECHHHHHH
T ss_pred             CCCCCeehHHHHH-----HHHHhcCCCCEEEEEeCCEEEEEEeecCC-CcccCCCccCceEEECCCEEEEEeccHHHHHH
Confidence            9999999999999     899999 9999999999999999999999 58888999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEe
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiG  168 (274)
                      +.++++.+++.|+++++++++++.+++++++.++.|     .+||++++||||||+ +||+||.+||+|++.+++++|+|
T Consensus        90 l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG  169 (246)
T 1iru_A           90 QVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAG  169 (246)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEEE
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEcCCeeEEEeeEEEEC
Confidence            999999999999999999999999999999886433     369999999999997 78999999999999999999999


Q ss_pred             cChHHHHHHHHhhcCC--CCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCE--EEeccccC
Q 023965          169 SGSLAAMAVFESKYRE--GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK--EYLRNHQL  231 (274)
Q Consensus       169 sgs~~a~~~Le~~~~~--~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~--~~~~~~~~  231 (274)
                      +|+..++++||+.|++  +||++||++++++||..++.+| .++++++|++|+++|.  +++.+.++
T Consensus       170 ~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd-~sg~~i~v~vi~~~g~~~~~l~~~ei  235 (246)
T 1iru_A          170 VKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSID-FKPSEIEVGVVTVENPKFRILTEAEI  235 (246)
T ss_dssp             TTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCC-CCTTSEEEEEEETTEEEEEECCHHHH
T ss_pred             CCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCCCeEEECCHHHH
Confidence            9999999999999999  9999999999999999999999 8899999999999995  55555544

>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=2.5e-52  Score=370.08  Aligned_cols=211  Identities=14%  Similarity=0.134  Sum_probs=198.8

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.++. ++.+||++|++||+|++||..+|++.+
T Consensus        14 fsp~Grl~QvEyA-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~-~~~~KI~~i~~~i~~~~aG~~aD~~~l   87 (254)
T 1iru_G           14 FSPDGRVFQVEYA-----MKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEE-GSNKRLFNVDRHVGMAVAGLLADARSL   87 (254)
T ss_dssp             CCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCT-TTTCCEEEEETTEEEEEEECHHHHHHH
T ss_pred             CCcCCccHHHHhH-----HHHHhcCCCEEEEEECCEEEEEEecccCCCCcCc-CcCCcEEEECCCEEEEEecChHHHHHH
Confidence            9999999999999     8999999999999999999999999999988774 789999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhcc-----CcceeEEEEEEEe-CCCCEEEEEcCCCCeeeeCeEEEec
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-----GHVQAALVLGGVD-ATGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~-----~p~~v~lIvaG~D-~~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      .++++.+++.|+++++++++++.+++++++.++.|+     |||++++|||||| .+||+||.+||+|++.+++++|+|+
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGs  167 (254)
T 1iru_G           88 ADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGK  167 (254)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEEST
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEcCCCCEEeeeeEEecC
Confidence            999999999999999999999999999999998763     7999999999999 6789999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC--C-EEEeccccCC
Q 023965          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG--D-KEYLRNHQLP  232 (274)
Q Consensus       170 gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~--g-~~~~~~~~~~  232 (274)
                      |+.+++++||+.|+++||++||++++++||..++.+|..++.+++|++|+++  | ++++.+.++.
T Consensus       168 gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~~~~l~~~~i~  233 (254)
T 1iru_G          168 ARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIRE  233 (254)
T ss_dssp             THHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHH
T ss_pred             ccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCCeEECCHHHHH
Confidence            9999999999999999999999999999999999888778899999999987  5 6666655443

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E

Probab=100.00  E-value=1.1e-51  Score=367.61  Aligned_cols=210  Identities=19%  Similarity=0.184  Sum_probs=198.7

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.   .++.+||++|++||+|++||..+|++.+
T Consensus        13 fsP~Grl~QvEYA-----~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl---~~~~~KI~~i~~~i~~~~aG~~aD~~~l   84 (263)
T 1iru_F           13 WSPQGRIHQIEYA-----MEAVKQGSATVGLKSKTHAVLVALKRAQSEL---AAHQKKILHVDNHIGISIAGLTADARLL   84 (263)
T ss_dssp             CCTTSCCHHHHHH-----HHHHHHSCCEEEEECSSEEEEEEECCCSSTT---BCCCCCEEEEETTEEEEEEECHHHHHHH
T ss_pred             CCCCCeehHHHHH-----HHHHHcCCcEEEEEeCCEEEEEEeccccccc---ccchhcEEEEcCCEEEEEeCCHHHHHHH
Confidence            9999999999999     8999999999999999999999999999974   2578999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecC
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      .++++.+++.|++.++++++++.+++++++.++.|     .|||++++||||||++||+||.+||+|++.+++++|+|+|
T Consensus        85 ~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~RP~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  164 (263)
T 1iru_F           85 CNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGAR  164 (263)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESEEEESTT
T ss_pred             HHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhcccccccceEEEEEEEEcCCCCEEEEECCCCCEEEeeEEEcCcc
Confidence            99999999999999999999999999999999754     3799999999999998999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCC--CCCHHHHHHHHHHHHHHhhhcC-CCCCCcEEEEEEeCC-CEEEeccccCCC
Q 023965          171 SLAAMAVFESKYRE--GLTKEEGISLVCEAICSGIFND-LGSGSNVDICVITKG-DKEYLRNHQLPN  233 (274)
Q Consensus       171 s~~a~~~Le~~~~~--~ms~eeai~la~~al~~~~~~d-~~sg~~i~i~vi~k~-g~~~~~~~~~~~  233 (274)
                      +..++++||+.|++  +||++||++++++||..++.+| ..++++++|++|+++ +++++.+.+++.
T Consensus       165 s~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~~~l~~~ei~~  231 (263)
T 1iru_F          165 SQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSP  231 (263)
T ss_dssp             HHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHH
T ss_pred             cHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCeEECCHHHHHH
Confidence            99999999999998  9999999999999999999999 578999999999999 688887776643

>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=2.2e-51  Score=362.35  Aligned_cols=209  Identities=22%  Similarity=0.269  Sum_probs=197.2

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++|+++|||+|||+++||||||+|+|.+.+ ++.+++.+||++|++||+|++||..+|++.+
T Consensus        15 fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l   88 (246)
T 1j2p_A           15 FSPDGRLFQVEYA-----REAVKRGATAIGIKCKEGVILIADKRVGSK-LLEKDTIEKIYKIDEHICAATSGLVADARVL   88 (246)
T ss_dssp             CCTTSCCHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEECCCSCT-TBCGGGCCSEEECSSSEEEEEEECHHHHHHH
T ss_pred             ECCCCeehHHHhH-----HHHHHcCCcEEEEEECCEEEEEEeccCCcc-ccccCccCcEEEECCCEEEEEeEccHHHHHH
Confidence            9999999999999     899999999999999999999999999986 4558899999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecC
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      .++++.+++.|+++++++++++.+++++++.++.|     .|||++++|+|||| +||+||.+||+|++.+++++|+|+|
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~aiGsg  167 (246)
T 1j2p_A           89 IDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-EVPKLYETDPSGALLEYKATAIGMG  167 (246)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES-SSEEEEEECTTCCEEEBSEEEESTT
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC-CCCEEEEECCCceEEeeeEEEECCC
Confidence            99999999999999999999999999999999765     35999999999999 8999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEe-C-CCEEEeccccCC
Q 023965          171 SLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT-K-GDKEYLRNHQLP  232 (274)
Q Consensus       171 s~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~-k-~g~~~~~~~~~~  232 (274)
                      +.+++++||+.|+++||++||++++++||..++.+ ..++++++|++|+ + ++++++.+.+++
T Consensus       168 s~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~~l~~~ei~  230 (246)
T 1j2p_A          168 RMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIES-ELVPENIEVGYVKVDDRTFKEVSPEELK  230 (246)
T ss_dssp             HHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTS-CCCGGGEEEEEEETTTCCCEECCHHHHH
T ss_pred             cHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEEcCCCceEECCHHHHH
Confidence            99999999999999999999999999999999998 7889999999999 6 467777776653

>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-51  Score=370.99  Aligned_cols=204  Identities=20%  Similarity=0.222  Sum_probs=195.1

Q ss_pred             CCCcc-----ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEe
Q 023965           11 KGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCG   85 (274)
Q Consensus        11 ~~g~~-----fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~   85 (274)
                      .+|||     |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.++.. ..+|||+|++||+|++
T Consensus         5 ~~~yd~~~t~fSP~Grl~QvEYA-----~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~-~~~KI~~I~d~i~~~~   78 (288)
T 3nzj_F            5 GTGYDLSNSVFSPDGRNFQVEYA-----VKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQ-KNVKIQVVDRHIGCVY   78 (288)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCTT-CSCCCEEETTTEEEEE
T ss_pred             cCCccCCcccCCCCCchHHHHHH-----HHHHhcCCcEEEEEECCEEEEEEcCCcccCCcccc-ccceEEEEcCCEEEEe
Confidence            45665     9999999999999     89999999999999999999999999999877655 6799999999999999


Q ss_pred             cCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCee
Q 023965           86 AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTD  160 (274)
Q Consensus        86 sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~  160 (274)
                      ||..+|++.++++++.+++.|++.++++++++.++++|++.++.|     .+||++++||||||.+||+||.+||+|++.
T Consensus        79 aG~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~Gp~Ly~iDp~G~~~  158 (288)
T 3nzj_F           79 SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYW  158 (288)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEE
T ss_pred             cCcHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCCCCEEEEECCCCCEE
Confidence            999999999999999999999999999999999999999999766     369999999999999999999999999999


Q ss_pred             eeCeEEEecChHHHHHHHHhh---cCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeC
Q 023965          161 TLPFATMGSGSLAAMAVFESK---YREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK  220 (274)
Q Consensus       161 ~~~~~aiGsgs~~a~~~Le~~---~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k  220 (274)
                      +++++|+|+|+..++++||+.   |+++||++||++++++||..+++++..++..++|++|++
T Consensus       159 ~~~~~aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~  221 (288)
T 3nzj_F          159 GYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSL  221 (288)
T ss_dssp             EBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEET
T ss_pred             EcCEEEEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEe
Confidence            999999999999999999999   999999999999999999999999988899999999999

>1iru_D 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unf_C* 3une_C* 3unh_C 3unb_C*

Probab=100.00  E-value=1.3e-51  Score=364.27  Aligned_cols=210  Identities=20%  Similarity=0.279  Sum_probs=198.2

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++| ++..++.+||++|++||+|++||..+|++
T Consensus         8 t~fsp~Grl~QvEYA-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD~~   81 (248)
T 1iru_D            8 TVFSPDGHLFQVEYA-----QEAVKKGSTAVGVRGRDIVVLGVEKKSVAK-LQDERTVRKICALDDNVCMAFAGLTADAR   81 (248)
T ss_dssp             SCCCTTSCCHHHHHH-----HHHHHTSCCEEEECCSSEEEEEECCCCCCS-SSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             ceECCCCcchHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEeeccccc-CccCCCCCcEEEEcCCEEEEEeecHHHHH
Confidence            359999999999999     899999999999999999999999999997 57778899999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEe-CCCCEEEEEcCCCCeeeeCeEEE
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVD-ATGPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D-~~gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      .+.++++.+++.|+++++++++++.+++++++.++.|     .|||++++|||||| .+||+||.+||+|++.+++++|+
T Consensus        82 ~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~ai  161 (248)
T 1iru_D           82 IVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAI  161 (248)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCCcEEEeeEEEE
Confidence            9999999999999999999999999999999999765     36999999999999 67899999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC-EEEeccccCC
Q 023965          168 GSGSLAAMAVFESKYREGL--TKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLP  232 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~~m--s~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g-~~~~~~~~~~  232 (274)
                      |+|+..++++||+.|+++|  |++||++++++||..+++   .++++++|++|+++| ++++.+.+++
T Consensus       162 G~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~---~sg~~i~v~vi~~~g~~~~l~~~ei~  226 (248)
T 1iru_D          162 GRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ---SGGKNIELAVMRRDQSLKILNPEEIE  226 (248)
T ss_dssp             STTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC---TTSTTCCEEEEESSSCEECCCHHHHH
T ss_pred             CCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHc---CCCCcEEEEEEECCCcEEECCHHHHH
Confidence            9999999999999999999  999999999999999986   468999999999998 7877776654

>1ryp_B 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_B 1g0u_A* 1jd2_A* 1g65_A 1z7q_B 2f16_A* 2fak_A* 2fny_A* 2gpl_A* 2zcy_A* 3bdm_A* 3d29_A* 3dy3_A* 3dy4_A* 3e47_A* 3gpj_A* 3gpt_A* 3gpw_A* 3hye_A* 3mg0_A* ...

Probab=100.00  E-value=1.3e-50  Score=358.21  Aligned_cols=201  Identities=17%  Similarity=0.300  Sum_probs=189.7

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|||+|||+++||||||+|+|.+ +.++.+++.+||++|++||+|++||..+|++.
T Consensus        11 ~fsp~Grl~QvEyA-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   84 (250)
T 1ryp_B           11 TFSPSGKLGQIDYA-----LTAVKQGVTSLGIKATNGVVIATEKKSS-SPLAMSETLSKVSLLTPDIGAVYSGMGPDYRV   84 (250)
T ss_dssp             CBCTTSCBHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEECCCS-CSSBCGGGCCSSEEEETTEEEEEEECHHHHHH
T ss_pred             eECCCCccHHHHhH-----HHHHHcCCcEEEEEECCEEEEEEeccCC-CccccCcccCceEEECCCEEEEeeeCHHHHHH
Confidence            39999999999999     8999999999999999999999999998 68888999999999999999999999999999


Q ss_pred             HHHHHHHHHhh-hhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEE
Q 023965           95 VTDMVSSQLQL-HRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        95 l~~~l~~~~~~-~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      +.++++.+++. |+..++++++++.+++.+++.++.+     .+||++++||||||+ +||+||.+||+|++.+++++|+
T Consensus        85 l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~ai  164 (250)
T 1ryp_B           85 LVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAI  164 (250)
T ss_dssp             HHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccceEEEEEEEEcCCCCcEEEEECCCCCEEeeceeEe
Confidence            99999999999 9999999999999888888777543     269999999999997 6899999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC
Q 023965          168 GSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD  222 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g  222 (274)
                      |+|+.+++++||+.|+++||++||++++++||..++.++. ++++++|++|++++
T Consensus       165 Gsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~-sg~~i~v~vi~~~~  218 (250)
T 1ryp_B          165 GKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEF-NGDTIELAIIGDEN  218 (250)
T ss_dssp             STTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCC-STTTEEEEEECSCC
T ss_pred             cCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhcccc-CCCCEEEEEEEccc
Confidence            9999999999999999999999999999999999998864 79999999999985

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

Probab=100.00  E-value=1.8e-48  Score=337.87  Aligned_cols=207  Identities=17%  Similarity=0.201  Sum_probs=199.6

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhh-hcCC
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-HTGR  112 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~-~~~~  112 (274)
                      ++++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|++ .+++
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (219)
T 1iru_N            2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (219)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            689999999999999999999999999999999999999999999999999999999999999999999999998 9999


Q ss_pred             CCcHHHHHHHHHHHHHhc---cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCC--CCC
Q 023965          113 ESRVVTALTLLKSHLFKY---QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE--GLT  187 (274)
Q Consensus       113 ~~~v~~la~~l~~~l~~~---~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~--~ms  187 (274)
                      +++++.+++++++.++.+   .+||++++|+||+|++||+||.+||+|++.+++++|+|+|+.+++++||+.|++  +||
T Consensus        82 ~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~mt  161 (219)
T 1iru_N           82 SYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLS  161 (219)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCCC
T ss_pred             CCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEEECCCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCCCCCCC
Confidence            999999999999998754   379999999999998899999999999999999999999999999999999999  999


Q ss_pred             HHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCCCCcccC
Q 023965          188 KEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS  240 (274)
Q Consensus       188 ~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~~~~~~~  240 (274)
                      ++||++++++||..++++|..++++++|++|+++|++++++.+++..|.|++.
T Consensus       162 ~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~i~~~~~~~~~  214 (219)
T 1iru_N          162 QTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTETNWDIAHM  214 (219)
T ss_dssp             HHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECCCCCCGGGGC
T ss_pred             HHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCEEEcCCeeccchhhHHHh
Confidence            99999999999999999999999999999999999999999999999998653

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

Probab=100.00  E-value=1.5e-47  Score=335.23  Aligned_cols=206  Identities=18%  Similarity=0.273  Sum_probs=198.7

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhh-----
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-----  108 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~-----  108 (274)
                      ++++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|++     
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (233)
T 1ryp_N            2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             cccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchh
Confidence            689999999999999999999999999999999999999999999999999999999999999999999999999     


Q ss_pred             hcCCCCcHHHHHHHHHHHHHhcc---CcceeEEEEEEEeCC-CCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCC
Q 023965          109 HTGRESRVVTALTLLKSHLFKYQ---GHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE  184 (274)
Q Consensus       109 ~~~~~~~v~~la~~l~~~l~~~~---~p~~v~lIvaG~D~~-gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  184 (274)
                      +++++++++.+++++++.++.++   +||++++||||||++ ||+||.+||+|++.+++++|+|+|+.+++++||+.|++
T Consensus        82 ~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  161 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDR  161 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCSS
T ss_pred             hcCCCCCHHHHHHHHHHHHHHhcCCCCCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhhcc
Confidence            89999999999999999987653   699999999999985 89999999999999999999999999999999999999


Q ss_pred             -----CCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC-CEEEeccccCCCC-CCccc
Q 023965          185 -----GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPNP-RTYIS  239 (274)
Q Consensus       185 -----~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~-g~~~~~~~~~~~~-~~~~~  239 (274)
                           +||++||++++++||..++++|..++++++|++|+++ |++++.+.+++.. |.|++
T Consensus       162 ~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~g~~~~~~~~i~~~~w~~~~  223 (233)
T 1ryp_N          162 ESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAK  223 (233)
T ss_dssp             GGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSCCCGGGG
T ss_pred             ccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCCCeEEcChHhcccccchhhh
Confidence                 9999999999999999999999999999999999999 9999999999999 99866

>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H 1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H

Probab=100.00  E-value=4.5e-47  Score=328.90  Aligned_cols=198  Identities=29%  Similarity=0.423  Sum_probs=184.4

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCC
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~  113 (274)
                      ++++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|+++|+|++||..+|++.+.++++.+++.|+++++++
T Consensus         2 ~~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (217)
T 1yar_H            2 NQTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVN   81 (217)
T ss_dssp             -------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             CCCCCCCccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence            57889999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcHHHHHHHHHHHHHhcc-CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHH
Q 023965          114 SRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGI  192 (274)
Q Consensus       114 ~~v~~la~~l~~~l~~~~-~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai  192 (274)
                      ++++.+++++++.++.++ +||++++|+|||| +||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||+
T Consensus        82 ~~v~~la~~l~~~~~~~r~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~  160 (217)
T 1yar_H           82 MPIEAVATLLSNMLNQVKYMPYMVQLLVGGID-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGV  160 (217)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSCCCEEEEEEEES-SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCceEEEEEEEEC-CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccCCCHHHHH
Confidence            999999999999998765 6999999999999 89999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCCCCCCcEEEEEEeC-CCEEEeccccCC
Q 023965          193 SLVCEAICSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLP  232 (274)
Q Consensus       193 ~la~~al~~~~~~d~~sg~~i~i~vi~k-~g~~~~~~~~~~  232 (274)
                      +++++||..++++|..++++++|++|++ +|++.+.+.+++
T Consensus       161 ~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~~~~~~ei~  201 (217)
T 1yar_H          161 DLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIE  201 (217)
T ss_dssp             HHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHH
T ss_pred             HHHHHHHHHHHhccCCCCCcEEEEEEECCCCEEEcCHHHHH
Confidence            9999999999999999999999999999 888887776654

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

Probab=100.00  E-value=4.1e-46  Score=319.19  Aligned_cols=192  Identities=27%  Similarity=0.433  Sum_probs=185.2

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++..++.+||++|++||+|++||..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T 1j2q_H            1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEECCCcCcCCEEeeccccCEEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc-CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeC-eEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLP-FATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (274)
Q Consensus       121 ~~l~~~l~~~~-~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~-~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~a  198 (274)
                      +++++.++.++ +||++++|+||||++||+||.+||+|++.+++ ++|+|+|+.+++++||+.|+++||++||++++++|
T Consensus        81 ~~l~~~~~~~r~rp~~~~~lvaG~D~~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~la~~a  160 (202)
T 1j2q_H           81 TLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRA  160 (202)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCCCCceEEEEEEEEeCCCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHHHHHHHHHH
Confidence            99999998765 79999999999999899999999999999999 99999999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          199 ICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       199 l~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      |..++.+|..++++++|++|+++|++.+.+.+++
T Consensus       161 l~~~~~~d~~s~~~i~v~vi~~~g~~~l~~~ei~  194 (202)
T 1j2q_H          161 IYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVE  194 (202)
T ss_dssp             HHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHH
T ss_pred             HHHHHhcCCCCCCcEEEEEEeCCCeEEeCHHHHH
Confidence            9999999999999999999999999888777654

>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=4.9e-46  Score=319.53  Aligned_cols=192  Identities=30%  Similarity=0.525  Sum_probs=185.4

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCC
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~  113 (274)
                      ++++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|++++++ 
T Consensus         3 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~-   81 (205)
T 1ryp_H            3 KGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT-   81 (205)
T ss_dssp             TTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS-
T ss_pred             CCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC-
Confidence            6899999999999999999999999999998999999999999999999999999999999999999999999999999 


Q ss_pred             CcHHHHHHHHHHHHHhccCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHH
Q 023965          114 SRVVTALTLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGI  192 (274)
Q Consensus       114 ~~v~~la~~l~~~l~~~~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai  192 (274)
                      ++++.+++++++.++.|+..|++++|+||||+ +||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||+
T Consensus        82 ~~v~~la~~l~~~~~~~~~~~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~  161 (205)
T 1ryp_H           82 PSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETV  161 (205)
T ss_dssp             CCHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHH
T ss_pred             CCHHHHHHHHHHHHHhhhcCceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCCCCCHHHHH
Confidence            99999999999999988766999999999997 78999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEe
Q 023965          193 SLVCEAICSGIFNDLGSGSNVDICVITKGDKEYL  226 (274)
Q Consensus       193 ~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~  226 (274)
                      +++++||..++++|..++++++|++|+++|.+..
T Consensus       162 ~l~~~al~~a~~~d~~sg~~i~v~vi~~~g~~~~  195 (205)
T 1ryp_H          162 DFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERL  195 (205)
T ss_dssp             HHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEE
T ss_pred             HHHHHHHHHHHHhCCccCCeEEEEEEcCCCEEEE
Confidence            9999999999999999999999999999997643

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M*

Probab=100.00  E-value=1.8e-46  Score=334.48  Aligned_cols=207  Identities=18%  Similarity=0.272  Sum_probs=198.9

Q ss_pred             CCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhh----
Q 023965           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY----  108 (274)
Q Consensus        33 ~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~----  108 (274)
                      +.+++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.|.++++.+++.|++    
T Consensus        34 ~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~  113 (266)
T 1g0u_M           34 TQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPL  113 (266)
T ss_dssp             CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTT
T ss_pred             hccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhccch
Confidence            3789999999999999999999999999999999999999999999999999999999999999999999999998    


Q ss_pred             -hcCCCCcHHHHHHHHHHHHHhcc---CcceeEEEEEEEeCC-CCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcC
Q 023965          109 -HTGRESRVVTALTLLKSHLFKYQ---GHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR  183 (274)
Q Consensus       109 -~~~~~~~v~~la~~l~~~l~~~~---~p~~v~lIvaG~D~~-gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~  183 (274)
                       .++++++++.+++++++.++.++   +||++++||||||.+ ||+||.+||+|++.+++++|+|+|+.+++++||+.|+
T Consensus       114 ~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~  193 (266)
T 1g0u_M          114 ADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVD  193 (266)
T ss_dssp             TTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTHHHHHTTTCS
T ss_pred             hhcCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHHHHHHHHhhc
Confidence             89999999999999999987653   799999999999985 8999999999999999999999999999999999999


Q ss_pred             C-----CCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC-CEEEeccccCCCC-CCccc
Q 023965          184 E-----GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPNP-RTYIS  239 (274)
Q Consensus       184 ~-----~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~-g~~~~~~~~~~~~-~~~~~  239 (274)
                      +     +||++||++++++||..++++|..++++++|++|+++ |++++.+.+++.. |.|++
T Consensus       194 ~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~g~~~~~~~ei~~~~w~~~~  256 (266)
T 1g0u_M          194 RESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAK  256 (266)
T ss_dssp             SGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCCCCCGGGG
T ss_pred             ccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCCCeEEcCHHHhhhhhhhHHh
Confidence            9     9999999999999999999999999999999999999 9999999999999 99765

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

Probab=100.00  E-value=1.8e-46  Score=325.60  Aligned_cols=193  Identities=31%  Similarity=0.475  Sum_probs=185.5

Q ss_pred             cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        40 Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      |+|+|||+++||||||+|+|.++|.++..++.+|||+|++||+|++||..+|++.+.++++.+++.|++.++++++++.+
T Consensus         1 Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (219)
T 3h4p_a            1 MTTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLAC   80 (219)
T ss_dssp             -CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHH
T ss_pred             CccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcc-CcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeC-eEEEecChHHHHHHHHhhcCCCCCHHHHHHHHH
Q 023965          120 LTLLKSHLFKYQ-GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLP-FATMGSGSLAAMAVFESKYREGLTKEEGISLVC  196 (274)
Q Consensus       120 a~~l~~~l~~~~-~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~-~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~  196 (274)
                      ++++++.+++++ +||++++||||||+ +||+||.+||+|++.+++ ++|+|+|+.+++++||+.|+++||++||+++++
T Consensus        81 a~~l~~~~~~~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~  160 (219)
T 3h4p_a           81 ATLLSNILHSSRMFPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLAL  160 (219)
T ss_dssp             HHHHHHHHHHTTTTTCCCCCEEEEEETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence            999999998774 69999999999998 789999999999999999 999999999999999999999999999999999


Q ss_pred             HHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          197 EAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       197 ~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      +||..++.+|..++++++|++|+++|++++.+.++.
T Consensus       161 ~al~~~~~rd~~sg~~i~v~vi~~~g~~~l~~~ei~  196 (219)
T 3h4p_a          161 NALKSAMERDTFSGNGISLAVITKDGVKIFEDEEIE  196 (219)
T ss_dssp             HHHHHHHTSCSSCCSCCCEEEEETTEEEECCHHHHH
T ss_pred             HHHHHHHhhcCCCCCcEEEEEEeCCCeEEcCHHHHH
Confidence            999999999999999999999999999988877653

>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=2e-46  Score=332.98  Aligned_cols=206  Identities=15%  Similarity=0.209  Sum_probs=183.9

Q ss_pred             ccccCcchhh-HHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhH
Q 023965           14 FSFDLCRRND-MLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADT   92 (274)
Q Consensus        14 ~~fs~~gr~~-qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~   92 (274)
                      |=|||+|++. |||||     ++++++|+|+|||+++||||||+|+|        +++.+|||+|++||+||+||..+|+
T Consensus         5 ~~~sPe~~~~~qvEYA-----~~av~~Gtt~vgi~~~dgVVlaaD~r--------s~~~~KI~~I~d~i~~~~aG~~aD~   71 (259)
T 1q5q_A            5 YYASAEQIMRDRSELA-----RKGIARGRSVVVLTFRDGVLFVAENP--------STALHKVSELYDRLGFAAVGKYNEF   71 (259)
T ss_dssp             ----CHHHHHHHHHHH-----HHHHHTSCCEEEEECSSEEEEEECCS--------CSSSCSEEEEETTEEEEEEECHHHH
T ss_pred             cccCHHHHHHHHHHHH-----HHHHhcCCcEEEEEeCCEEEEEEecC--------CCCcCcEEEeCCCEEEEEccCHHHH
Confidence            5689999995 99999     89999999999999999999999999        2578999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhhhcC-CCCcHHHHHHHHHHHH---Hhc-cCcceeEEEEEEEe----CCCCEEEEEcCCCCee-ee
Q 023965           93 EAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKSHL---FKY-QGHVQAALVLGGVD----ATGPHLHTIYPHGSTD-TL  162 (274)
Q Consensus        93 ~~l~~~l~~~~~~~~~~~~-~~~~v~~la~~l~~~l---~~~-~~p~~v~lIvaG~D----~~gp~Ly~idp~G~~~-~~  162 (274)
                      +.+.++++.+++.+++.++ ++++++.++++|++.+   +.+ .+||++++||||||    .+||+||.+||+|++. ++
T Consensus        72 ~~l~~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~~  151 (259)
T 1q5q_A           72 ENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQ  151 (259)
T ss_dssp             HHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEES
T ss_pred             HHHHHHHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeCC
Confidence            9999999999999998888 4999999999999953   333 47999999999999    6889999999999999 78


Q ss_pred             CeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhh-----hcCCCCCCcEEEEEEeCC----CEEEeccccCCC
Q 023965          163 PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGI-----FNDLGSGSNVDICVITKG----DKEYLRNHQLPN  233 (274)
Q Consensus       163 ~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~-----~~d~~sg~~i~i~vi~k~----g~~~~~~~~~~~  233 (274)
                      +++|+|+|+..++++||+.|+++||++||++++++||..++     .+|. ++++++|++|+++    +++.+.+.++..
T Consensus       152 ~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~rd~-sg~~iev~vi~~~~~~~~~~~l~~~ei~~  230 (259)
T 1q5q_A          152 HFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNV-DVASLEVAVLDQSRPRRAFRRIAGTALEQ  230 (259)
T ss_dssp             SEEEESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------C-CSSCSEEEEEETTSSSCCEEECCHHHHHT
T ss_pred             CEEEECCChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhhcccccccC-CCCcEEEEEEECCCCcCCeEECCHHHHHH
Confidence            99999999999999999999999999999999999999999     8998 8999999999999    577776665543

>1iru_M 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_L* 3une_L 3unf_L* 3unh_L

Probab=100.00  E-value=2.5e-45  Score=316.80  Aligned_cols=192  Identities=19%  Similarity=0.280  Sum_probs=183.6

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCC
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~  113 (274)
                      ...+++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|+++++++
T Consensus         3 ~p~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   82 (213)
T 1iru_M            3 SPYVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKA   82 (213)
T ss_dssp             CSCCCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             CCccCCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            56789999999999999999999999999999988999999999999999999999999999999999999999999999


Q ss_pred             CcHHHHHHHHHHHHHhc-cCcceeEEEEEEEeCCC-CEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhh---------c
Q 023965          114 SRVVTALTLLKSHLFKY-QGHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESK---------Y  182 (274)
Q Consensus       114 ~~v~~la~~l~~~l~~~-~~p~~v~lIvaG~D~~g-p~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~---------~  182 (274)
                      ++++.++++|++.++.. .+||++++|+||||.+| |+||.+||+|++.+++++|+|+|+.+++++||+.         |
T Consensus        83 ~~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~~  162 (213)
T 1iru_M           83 MTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVE  162 (213)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCC
T ss_pred             CCHHHHHHHHHHHHHhhCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhccccccccccC
Confidence            99999999999998754 37999999999999755 9999999999999999999999999999999999         8


Q ss_pred             CCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          183 REGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       183 ~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      +++||++||++++++||..++++|..++++++|++|+++|++.
T Consensus       163 ~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~  205 (213)
T 1iru_M          163 HVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIRE  205 (213)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEE
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCCeEE
Confidence            8999999999999999999999999999999999999999764

>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=8.8e-46  Score=332.81  Aligned_cols=204  Identities=25%  Similarity=0.356  Sum_probs=189.0

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCC
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~  113 (274)
                      ..++++|||+|||+++||||||+|+|.++|.++.+++.+||++|+++|+|++||..+|++.+.++++.+++.|+++++++
T Consensus        69 ~~~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~l~~~lr~~~~~y~~~~~~~  148 (287)
T 3nzj_K           69 KIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKER  148 (287)
T ss_dssp             -------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             hhheccCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence            67899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcHHHHHHHHHHHHHhcc-CcceeEEEEEEEe-CCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHH
Q 023965          114 SRVVTALTLLKSHLFKYQ-GHVQAALVLGGVD-ATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEG  191 (274)
Q Consensus       114 ~~v~~la~~l~~~l~~~~-~p~~v~lIvaG~D-~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea  191 (274)
                      ++++.+++++++.++.|+ .||++++|||||| .+||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||
T Consensus       149 isv~~la~~ls~~l~~~r~~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~~~~~~~AiGsgs~~a~~~Le~~y~~dms~eEA  228 (287)
T 3nzj_K          149 ISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDA  228 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTTSCCCEEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHTSCCTTCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhhcCCCceEEEEEEEEcCCCCCEEEEECCCceEEEcCeEEEecchHHHHHHHHHhhcCCCCHHHH
Confidence            999999999999998876 4899999999999 57899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCC-CCCc
Q 023965          192 ISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPN-PRTY  237 (274)
Q Consensus       192 i~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~-~~~~  237 (274)
                      ++++++||..++.+|..+|++++|++|+++|++++.+.++.. .|.|
T Consensus       229 i~la~~aL~~a~~rD~~sg~~i~V~vItkdg~~~l~~~ev~~~l~~~  275 (287)
T 3nzj_K          229 LYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKV  275 (287)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhCcCCCCceEEEEEeCCCEEEeCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999988754 3444

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

Probab=100.00  E-value=2.3e-45  Score=315.04  Aligned_cols=192  Identities=25%  Similarity=0.369  Sum_probs=185.1

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (204)
T 1iru_L            1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (204)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCCEEEcCcccceEEcCCCEEEEccCcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc-CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (274)
Q Consensus       121 ~~l~~~l~~~~-~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al  199 (274)
                      +++++.++.++ .|+++++|+||||++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++||
T Consensus        81 ~~l~~~~~~~r~~~~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~l~~~al  160 (204)
T 1iru_L           81 KLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAI  160 (204)
T ss_dssp             HHHHHHHHTTTTSCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCeeEEEEEEEEeCCCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHHHHHHHHHH
Confidence            99999999885 47999999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          200 CSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       200 ~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      ..++.+|..++++++|++|+++|++++.+.+++
T Consensus       161 ~~~~~rd~~s~~~i~v~vi~~~g~~~l~~~ei~  193 (204)
T 1iru_L          161 YQATYRDAYSGGAVNLYHVREDGWIRVSSDNVA  193 (204)
T ss_dssp             HHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHH
T ss_pred             HHHHHhCccCCCceEEEEEeCCceEEeCHHHHH
Confidence            999999998999999999999999888877654

>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=1.6e-45  Score=314.42  Aligned_cols=191  Identities=22%  Similarity=0.298  Sum_probs=183.6

Q ss_pred             cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        40 Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      .||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|+++++++++++.+
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (198)
T 1ryp_K            1 MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAV   80 (198)
T ss_dssp             CCCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHH
T ss_pred             CceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            37999999999999999999999999988999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcc---CcceeEEEEEEEeC--CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHH
Q 023965          120 LTLLKSHLFKYQ---GHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISL  194 (274)
Q Consensus       120 a~~l~~~l~~~~---~p~~v~lIvaG~D~--~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~l  194 (274)
                      ++++++.+++++   +||++++|+||||+  +||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||+++
T Consensus        81 a~~l~~~l~~~~~~r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~eea~~l  160 (198)
T 1ryp_K           81 SSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDL  160 (198)
T ss_dssp             HHHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHHHHHHH
Confidence            999999998774   49999999999995  7899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEecccc
Q 023965          195 VCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQ  230 (274)
Q Consensus       195 a~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~  230 (274)
                      +++||..+.++|..++++++|++|+++|++.+++++
T Consensus       161 ~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~~~~  196 (198)
T 1ryp_K          161 LKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDFQ  196 (198)
T ss_dssp             HHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECCCS
T ss_pred             HHHHHHHHHHhCccCCCceEEEEEcCCCEEEecccc
Confidence            999999999999999999999999999999988864

>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=6e-45  Score=316.56  Aligned_cols=193  Identities=20%  Similarity=0.268  Sum_probs=184.2

Q ss_pred             CCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcC-
Q 023965           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-  111 (274)
Q Consensus        33 ~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-  111 (274)
                      +..++++|+|+|||+++||||||+|+|.++|.++.+++.+|||+|+++|+|++||..+|++.+.++++.+++.|+++++ 
T Consensus         2 ~~p~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   81 (222)
T 1ryp_M            2 FNPYGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHND   81 (222)
T ss_dssp             CCCCCCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             CCccccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            3578899999999999999999999999999998999999999999999999999999999999999999999999999 


Q ss_pred             CCCcHHHHHHHHHHHHHhcc-CcceeEEEEEEEeCCC-CEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhh--------
Q 023965          112 RESRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESK--------  181 (274)
Q Consensus       112 ~~~~v~~la~~l~~~l~~~~-~p~~v~lIvaG~D~~g-p~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~--------  181 (274)
                      ++++++.+++++++.++.++ +||++++||||||.+| |+||.+||+|++.+++++|+|+|+.+++++||+.        
T Consensus        82 ~~~~v~~la~~l~~~ly~~r~~P~~v~~ivaG~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~~~~~~  161 (222)
T 1ryp_M           82 KKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYE  161 (222)
T ss_dssp             CCCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBC
T ss_pred             CCCCHHHHHHHHHHHHHhcCCCCceEEEEEEEEcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhcccccccccc
Confidence            99999999999999997653 6999999999999755 9999999999999999999999999999999998        


Q ss_pred             ---------cCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          182 ---------YREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       182 ---------~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                               |+++||++||++++++||..++++|..++++++|++|+++|++.
T Consensus       162 ~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi~~~g~~~  214 (222)
T 1ryp_M          162 PGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRK  214 (222)
T ss_dssp             TTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEE
T ss_pred             cccccccccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEcCCCeEE
Confidence                     88999999999999999999999999999999999999999764

>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=5.4e-45  Score=312.93  Aligned_cols=195  Identities=32%  Similarity=0.534  Sum_probs=185.5

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (205)
T 1iru_H            1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (205)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEecCCcCceEEcCCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            68999999999999999999999899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al  199 (274)
                      +++++.++.|+.||++++|+||||+ +||+||.+||+|++.+++++++|+|+.+++++||+.|+++||++||++++++||
T Consensus        81 ~~l~~~~~~~~~p~~~~~lvaG~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~eea~~l~~~al  160 (205)
T 1iru_H           81 SLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANAL  160 (205)
T ss_dssp             HHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCcCccEEEEEEEEeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHHHHHHHHHHH
Confidence            9999999999889999999999997 789999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCCCcEEEEEEeCCCE--EEeccccCCCCC
Q 023965          200 CSGIFNDLGSGSNVDICVITKGDK--EYLRNHQLPNPR  235 (274)
Q Consensus       200 ~~~~~~d~~sg~~i~i~vi~k~g~--~~~~~~~~~~~~  235 (274)
                      ..++++|..++++++|++|+++|.  +++.+.+++...
T Consensus       161 ~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei~~~~  198 (205)
T 1iru_H          161 ALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFA  198 (205)
T ss_dssp             HHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCC
T ss_pred             HHHHHhccccCCcEEEEEEeCCCeEEEEeChHHhhHHH
Confidence            999999999999999999999985  456666665443

>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=5.5e-45  Score=314.51  Aligned_cols=194  Identities=26%  Similarity=0.392  Sum_probs=186.3

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (212)
T 1ryp_L            1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCCeEecCcccceeeeCCcEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccC-cceeEEEEEEEe-CCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQG-HVQAALVLGGVD-ATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (274)
Q Consensus       121 ~~l~~~l~~~~~-p~~v~lIvaG~D-~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~a  198 (274)
                      +++++.++.|+. ||++++|+|||| .+||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++|
T Consensus        81 ~~l~~~~~~~~~~p~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~la~~a  160 (212)
T 1ryp_L           81 KILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRS  160 (212)
T ss_dssp             HHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhCCCCceEEEEEEEEeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHHHHHHHHHH
Confidence            999999998864 899999999999 568999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCC
Q 023965          199 ICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP  234 (274)
Q Consensus       199 l~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~  234 (274)
                      |..++++|..++++++|++|+++|++++.+.+++..
T Consensus       161 l~~~~~rd~~s~~~i~v~vi~~~g~~~~~~~ei~~~  196 (212)
T 1ryp_L          161 ILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGEL  196 (212)
T ss_dssp             HHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHH
T ss_pred             HHHHHHhccccCCceEEEEEcCCceEEECHHHHHHH
Confidence            999999999999999999999999998888877554

>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=9.7e-45  Score=310.43  Aligned_cols=191  Identities=19%  Similarity=0.270  Sum_probs=181.3

Q ss_pred             cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        40 Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      .||+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|+++++++++++.+
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~   80 (201)
T 1iru_K            1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAA   80 (201)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHH
T ss_pred             CceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHH-Hh--ccCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHH
Q 023965          120 LTLLKSHL-FK--YQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (274)
Q Consensus       120 a~~l~~~l-~~--~~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la  195 (274)
                      ++++++.+ +.  .++||++++|+||||+ +||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++
T Consensus        81 a~~~~~~l~~~~~~~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea~~l~  160 (201)
T 1iru_K           81 ANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELL  160 (201)
T ss_dssp             HHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCCccEEEEEEEEeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHHHHHHH
Confidence            99998765 33  2369999999999997 68999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCCCCCCcEEEEEEeCCCEEEecccc
Q 023965          196 CEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQ  230 (274)
Q Consensus       196 ~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~  230 (274)
                      ++||..+.++|..++++++|++|+++|++.++++.
T Consensus       161 ~~al~~a~~rd~~sg~~i~v~vi~~~g~~~~~~~~  195 (201)
T 1iru_K          161 RKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNIS  195 (201)
T ss_dssp             HHHHHHHHHTBCBCCCCEEEEEEETTEEECCCCBC
T ss_pred             HHHHHHHHhhccccCCceEEEEEcCCCeEEeeccc
Confidence            99999999999999999999999999999888764

>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=2.5e-44  Score=308.77  Aligned_cols=191  Identities=20%  Similarity=0.285  Sum_probs=180.7

Q ss_pred             ccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCC
Q 023965           35 SYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES  114 (274)
Q Consensus        35 ~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~  114 (274)
                      ..+.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++||+|++||..+|++.+.++++.+++.|++++++++
T Consensus         3 ~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (205)
T 1iru_J            3 IMSYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQI   82 (205)
T ss_dssp             CTTSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCC
T ss_pred             cccCCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCC
Confidence            35689999999999999999999999999999888999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHhcc-CcceeEEEEEEEeC--CCCEEEEEcCCCCeeee-CeEEEecChHHHHHHHHhhcCCCCCHHH
Q 023965          115 RVVTALTLLKSHLFKYQ-GHVQAALVLGGVDA--TGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEE  190 (274)
Q Consensus       115 ~v~~la~~l~~~l~~~~-~p~~v~lIvaG~D~--~gp~Ly~idp~G~~~~~-~~~aiGsgs~~a~~~Le~~~~~~ms~ee  190 (274)
                      +++.+++++++.++.++ +||++++|+||||+  +||+||.+||+|++.++ +|+|+|+|+.+++++||+.|+++||++|
T Consensus        83 ~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~ee  162 (205)
T 1iru_J           83 KPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDH  162 (205)
T ss_dssp             CHHHHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHH
T ss_pred             CHHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCCCCCHHH
Confidence            99999999999987543 59999999999995  78999999999998664 7799999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          191 GISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       191 ai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      |++++++||..++++|..++++++|++|+++|++.
T Consensus       163 a~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~  197 (205)
T 1iru_J          163 LFETISQAMLNAVDRDAVSGMGVIVHIIEKDKITT  197 (205)
T ss_dssp             HHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEEE
T ss_pred             HHHHHHHHHHHHHHhCcccCCceEEEEEcCCCEEE
Confidence            99999999999999999999999999999999764

>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=6.9e-44  Score=305.83  Aligned_cols=190  Identities=21%  Similarity=0.266  Sum_probs=180.0

Q ss_pred             ccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCC
Q 023965           35 SYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES  114 (274)
Q Consensus        35 ~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~  114 (274)
                      ..+.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|+ ||+|++||..+|++.+.++++.+++.|++++++++
T Consensus         3 ~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   81 (204)
T 1ryp_J            3 PSSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAI   81 (204)
T ss_dssp             GGGSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CcCCCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCC
Confidence            46789999999999999999999999999999888999999999 99999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHhcc-CcceeEEEEEEEeC--CCCEEEEEcCCCCeeee-CeEEEecChHHHHHHHHhhcCCCCCHHH
Q 023965          115 RVVTALTLLKSHLFKYQ-GHVQAALVLGGVDA--TGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEE  190 (274)
Q Consensus       115 ~v~~la~~l~~~l~~~~-~p~~v~lIvaG~D~--~gp~Ly~idp~G~~~~~-~~~aiGsgs~~a~~~Le~~~~~~ms~ee  190 (274)
                      +++.+++++++.++.++ +||++++|+||||+  +||+||.+||+|++.++ +|+|+|+|+.+++++||+.|+++||++|
T Consensus        82 ~v~~la~~l~~~~y~~~~~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~ee  161 (204)
T 1ryp_J           82 EPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPED  161 (204)
T ss_dssp             CHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHH
T ss_pred             CHHHHHHHHHHHHHHhcCCCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcCCCcCHHH
Confidence            99999999999987543 59999999999996  78999999999998665 7899999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          191 GISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       191 ai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      |++++++||..++++|..++++++|++|+++|++.
T Consensus       162 a~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~  196 (204)
T 1ryp_J          162 LFETISQALLNAADRDALSGWGAVVYIIKKDEVVK  196 (204)
T ss_dssp             HHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEEE
T ss_pred             HHHHHHHHHHHHHHhCcccCCcEEEEEEcCCCEEE
Confidence            99999999999999999999999999999999764

>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=3.8e-44  Score=306.19  Aligned_cols=194  Identities=29%  Similarity=0.476  Sum_probs=183.2

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++.+++.+|||+|++||+|++||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   80 (199)
T 3unf_N            1 TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAYQLELHGLELEEPPLVLAAA   80 (199)
T ss_dssp             CEEEEEECSSCEEEEECCCEEETTEEEESSCCCEEEEETTEEEEECSCHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             CeEEEEEeCCeEEEEECCcccCCceeEccccCceEEcCCCEEEEecccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            79999999999999999999999899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeC-CCCEEEEEcCCCCeeee-CeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~-~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~a  198 (274)
                      +++++.++++++||++++|+||||+ +||+||.  |+|++..+ +++++|+|+.+++++||+.|+++||++||++++++|
T Consensus        81 ~~l~~~l~~~~~p~~v~~lvaG~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~eea~~la~~a  158 (199)
T 3unf_N           81 NVVKNISYKYREDLLAHLIVAGWDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNA  158 (199)
T ss_dssp             HHHHHHHHHTTTTCCCCEEEEEEETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCCceEEEEEEEEeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHHHHHHHHHHH
Confidence            9999999999999999999999998 6799999  99997654 577789999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCCCcEEEEEEeCCC--EEEeccccCCCCCC
Q 023965          199 ICSGIFNDLGSGSNVDICVITKGD--KEYLRNHQLPNPRT  236 (274)
Q Consensus       199 l~~~~~~d~~sg~~i~i~vi~k~g--~~~~~~~~~~~~~~  236 (274)
                      |..++.+|..++++++|++|+++|  .+.+.+.+++..|.
T Consensus       159 l~~~~~~d~~sg~~i~v~vi~~~g~~~~~l~~~ei~~~~~  198 (199)
T 3unf_N          159 ITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELPKFYD  198 (199)
T ss_dssp             HHHHHHHCTTCCSCEEEEEECSSCEEEEEECGGGSCCCCC
T ss_pred             HHHHHHhccccCCCeEEEEEcCCCEEEEEcCcccCccccc
Confidence            999999999999999999999999  45688888876553

>2jay_A Proteasome; hydrolase; 1.99A {Mycobacterium tuberculosis} PDB: 3mka_C 3mi0_C* 2fhg_H* 2fhh_H 3krd_C* 3mfe_G 3hfa_H* 3h6i_C 3h6f_C 3hf9_H 3mfe_H

Probab=100.00  E-value=1.2e-44  Score=326.18  Aligned_cols=219  Identities=20%  Similarity=0.256  Sum_probs=164.3

Q ss_pred             CCCCCCccccCcchhh---H-----------HHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCe
Q 023965            8 IPPKGGFSFDLCRRND---M-----------LSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEK   73 (274)
Q Consensus         8 ~~~~~g~~fs~~gr~~---q-----------veya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~K   73 (274)
                      .|+.+||+|+++-|+.   -           ++||     ++ +++|||+|||+++||||||+|+|.++|.++.+++++|
T Consensus        17 ~~~~~~~~f~~~~~~~~~~~l~~~~~~~~~~~~ya-----~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~K   90 (291)
T 2jay_A           17 TPAVDLSSFTDFLRRQAPELLPASISGGAPLAGGD-----AQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRK   90 (291)
T ss_dssp             -----------------------------------------------CCEEEEEETTEEEEEECCC--------CCCCCC
T ss_pred             CCCCCCccHHHHhhhcChhhccccccccCcCcccc-----cc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCccc
Confidence            3567899998776665   1           2455     66 8999999999999999999999999998999999999


Q ss_pred             eEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhcc----CcceeEEEEEEEeCC-C-
Q 023965           74 IHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ----GHVQAALVLGGVDAT-G-  147 (274)
Q Consensus        74 I~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~~----~p~~v~lIvaG~D~~-g-  147 (274)
                      ||+|++||+|++||..+|++.++++++.+++.|++.++++++++.+++.+++.+++++    +||++++||||||.+ + 
T Consensus        91 I~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~~~~rpf~v~~lvaG~D~~g~~  170 (291)
T 2jay_A           91 VYITDDYTATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLAGYDIHASD  170 (291)
T ss_dssp             EEEEETTEEEEEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHHHHHHTCCCEEEEEEECTTCSC
T ss_pred             EEEeCCcEEEEEcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhhhhccccceeEEEEEEeCCCCc
Confidence            9999999999999999999999999999999999999999999999999999998763    589999999999975 4 


Q ss_pred             ----CEEEEEcCCCCee--eeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCc--E-----E
Q 023965          148 ----PHLHTIYPHGSTD--TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSN--V-----D  214 (274)
Q Consensus       148 ----p~Ly~idp~G~~~--~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~--i-----~  214 (274)
                          |+||.+||+|++.  +++++|+|+|+.+++++||+.|+++||++||++++++||..++.+|..+++.  +     +
T Consensus       171 ~~~~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~~~  250 (291)
T 2jay_A          171 PQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPT  250 (291)
T ss_dssp             STTCEEEEEECTTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCCSHHHHHHHHHHHHHHC----------------CCE
T ss_pred             CCCCCEEEEECCCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcccccccCCE
Confidence                8999999999998  8999999999999999999999999999999999999999999999887764  2     6


Q ss_pred             EEEEeCCCEEEeccccCC
Q 023965          215 ICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       215 i~vi~k~g~~~~~~~~~~  232 (274)
                      |++|+++|++.+.+.++.
T Consensus       251 v~vi~~dg~~~l~~~ei~  268 (291)
T 2jay_A          251 AVIIDADGAVDVPESRIA  268 (291)
T ss_dssp             EEEEETTEEEECCHHHHH
T ss_pred             EEEEECCCeEEcCHHHHH
Confidence            999999999887776553

>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=4.3e-44  Score=315.84  Aligned_cols=204  Identities=14%  Similarity=0.166  Sum_probs=177.4

Q ss_pred             ccccCcchhh-HHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhH
Q 023965           14 FSFDLCRRND-MLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADT   92 (274)
Q Consensus        14 ~~fs~~gr~~-qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~   92 (274)
                      |.-||+.-.. ++|||     ++|+++|+|+|||+++||||||+|+|        .++++|||+|++||+|++||+.+|+
T Consensus         5 ~~~~p~~~~~~r~EYA-----~~av~~GtT~vgi~~kdgVVlaadkr--------~~~~~KI~~I~d~i~~~~aG~~aD~   71 (248)
T 3mi0_A            5 YFISPEQAMRERSELA-----RKGIARAKSVVALAYAGGVLFVAENP--------SRSLQKISELYDRVGFAAAGKFNEF   71 (248)
T ss_dssp             ---CHHHHHHHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEECC--------CSSSCSEEEEETTEEEEEEECHHHH
T ss_pred             ccCCHHHhcccchHHH-----HHHHhCCCcEEEEEeCCEEEEEEeCC--------CCCCCCeEEECCCEEEEEccCHHHH
Confidence            4456665333 68999     89999999999999999999999999        2478999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhhhcC-CCCcHHHHHHHHHHHH----HhccCcceeEEEEEEEeC----CCCEEEEEcCCCCeee-e
Q 023965           93 EAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKSHL----FKYQGHVQAALVLGGVDA----TGPHLHTIYPHGSTDT-L  162 (274)
Q Consensus        93 ~~l~~~l~~~~~~~~~~~~-~~~~v~~la~~l~~~l----~~~~~p~~v~lIvaG~D~----~gp~Ly~idp~G~~~~-~  162 (274)
                      +.|.+.++..+++|++.++ ++++++.+++++++.+    ++..+||++++||||||+    +||+||++||+|++.+ +
T Consensus        72 ~~l~~~~~~~~~l~~~~~~~~~i~v~~la~~l~~~l~q~yt~~~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~  151 (248)
T 3mi0_A           72 DNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGTIFTEQAKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEP  151 (248)
T ss_dssp             HHHHHHHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEES
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecc
Confidence            9999999999999999999 8999999999998543    234589999999999998    7899999999999995 9


Q ss_pred             CeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhh-------hcCCCCCCcEEEEEEeCCC----EEEeccccC
Q 023965          163 PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGI-------FNDLGSGSNVDICVITKGD----KEYLRNHQL  231 (274)
Q Consensus       163 ~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~-------~~d~~sg~~i~i~vi~k~g----~~~~~~~~~  231 (274)
                      +++|+|+|+..++++||++|+++||++||++++++||..++       +++ .++.+++|++|+++|    ++.+.+.++
T Consensus       152 ~~~a~Gsgs~~a~~~Le~~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~~-~~~~~iev~vv~~~g~~~~f~~l~~~ei  230 (248)
T 3mi0_A          152 HFVVMGGTTEPIANALKESYAENASLTDALRIAVAALRAGSADTSGGDQPT-LGVASLEVAVLDANRPRRAFRRITGSAL  230 (248)
T ss_dssp             SEEEESSCHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHC-------------CCTTEEEEEEETTSSSCCEEECCHHHH
T ss_pred             cEEEECccHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcccCcccc-cCCCcEEEEEEECCCCcccEEECCHHHH
Confidence            99999999999999999999999999999999999999999       555 568999999999997    455544433

>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=5.7e-44  Score=322.06  Aligned_cols=199  Identities=20%  Similarity=0.233  Sum_probs=186.5

Q ss_pred             CCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCC
Q 023965           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGR  112 (274)
Q Consensus        33 ~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~  112 (274)
                      +++|+++|+|+|||+++||||||+|+|.++|.++..++.+|||+|+++|+|++||..+|++.++++++.+++.|++.+++
T Consensus        58 a~~Av~~GtTiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~~r~~~~~y~~~~g~  137 (294)
T 1q5r_H           58 SGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGV  137 (294)
T ss_dssp             --CCSCBCCCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             HHHHHhcCceEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHHHHHHHHHhhHhhCC
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcHHHHHHHHHHHHHhc----cCcceeEEEEEEEeCC-C-----CEEEEEcCCCCeeee--CeEEEecChHHHHHHHHh
Q 023965          113 ESRVVTALTLLKSHLFKY----QGHVQAALVLGGVDAT-G-----PHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFES  180 (274)
Q Consensus       113 ~~~v~~la~~l~~~l~~~----~~p~~v~lIvaG~D~~-g-----p~Ly~idp~G~~~~~--~~~aiGsgs~~a~~~Le~  180 (274)
                      +++++.+++.|++.++.+    .+||++++||||||.+ |     |+||.+||+|++.++  +++|+|+|+.+++++||+
T Consensus       138 ~isv~~la~~la~~l~~~~~~~~rp~~v~lLvaG~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~~~Le~  217 (294)
T 1q5r_H          138 PLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKK  217 (294)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHHTTTTCEEEEEEEECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhhcCCcceEEEEEEEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHHHHHHH
Confidence            999999999999988754    4799999999999975 6     999999999999999  999999999999999999


Q ss_pred             hcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCc--E-----EEEEEeCCCEEEeccccC
Q 023965          181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSN--V-----DICVITKGDKEYLRNHQL  231 (274)
Q Consensus       181 ~~~~~ms~eeai~la~~al~~~~~~d~~sg~~--i-----~i~vi~k~g~~~~~~~~~  231 (274)
                      .|+++||++||++++++||..++++|..+|+.  +     +|++|+++|++.+.+.++
T Consensus       218 ~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~vI~~~g~~~l~~~ei  275 (294)
T 1q5r_H          218 IYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETT  275 (294)
T ss_dssp             HCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHH
T ss_pred             hccCCCCHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEEEECCCEEEcCHHHH
Confidence            99999999999999999999999999887654  6     999999999888776654

>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=1.5e-42  Score=304.00  Aligned_cols=192  Identities=21%  Similarity=0.241  Sum_probs=180.6

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|+++|+|++||..+|++.+.++++.+++.|+++++++++++.++
T Consensus         1 tT~vgi~~~dgVVlaaD~r~~~g~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   80 (235)
T 1q5q_H            1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (235)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCCcCCEEecCCcCcEEEeCCcEEEEcCCcHHHHHHHHHHHHHHHHHhHHHhCCCCCHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc----cCcceeEEEEEEEeCC-C-----CEEEEEcCCCCeeee--CeEEEecChHHHHHHHHhhcCCCCCH
Q 023965          121 TLLKSHLFKY----QGHVQAALVLGGVDAT-G-----PHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKYREGLTK  188 (274)
Q Consensus       121 ~~l~~~l~~~----~~p~~v~lIvaG~D~~-g-----p~Ly~idp~G~~~~~--~~~aiGsgs~~a~~~Le~~~~~~ms~  188 (274)
                      +.|++.++.+    .+||++++||||||.+ |     |+||.+||+|++.++  +++|+|+|+.+++++||+.|+++||+
T Consensus        81 ~~l~~~~~~~~~~~~rp~~v~~lvaG~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~  160 (235)
T 1q5q_H           81 NRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDE  160 (235)
T ss_dssp             HHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCH
T ss_pred             HHHHHHHHHHHHhhhcccceEEEEEEEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcCCCCCH
Confidence            9999988754    5799999999999985 7     999999999999999  99999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCCCCCCc--E-----EEEEEeCCCEEEeccccCC
Q 023965          189 EEGISLVCEAICSGIFNDLGSGSN--V-----DICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       189 eeai~la~~al~~~~~~d~~sg~~--i-----~i~vi~k~g~~~~~~~~~~  232 (274)
                      +||++++++||..++++|..+++.  +     +|++|+++|++.+.+.++.
T Consensus       161 eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~vi~~~g~~~l~~~ei~  211 (235)
T 1q5q_H          161 ETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTS  211 (235)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhCcccCCcccccccccEEEEEeCCCeEEeCHHHHH
Confidence            999999999999999999887753  2     9999999998887766553

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=100.00  E-value=1.4e-36  Score=255.79  Aligned_cols=168  Identities=15%  Similarity=0.133  Sum_probs=152.3

Q ss_pred             cccceEEEEEeCCEEEEEEeCCCcCCce-eeccCcCeeEEe-cCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCc
Q 023965           38 KTGTTIVGLIFQNGVILGADTRATAGSI-VCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR  115 (274)
Q Consensus        38 ~~Gttivgi~~~dGVVlaaD~r~t~g~~-i~~~~~~KI~~I-~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~  115 (274)
                      .+|+|+|||+++||||||+|+|.+.|.+ +.+++.+||++| ++||+|++||..+|++.+.++++.+++.|+   +  +.
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~y~---g--~~   77 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYN---G--NL   77 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTT---T--CH
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHHHHHHHHhc---C--Ch
Confidence            6799999999999999999999999988 999999999999 999999999999999999999999999988   3  33


Q ss_pred             HHHHHHHHHHHHHh--ccCcceeEEEEEEEeCCCCEEEEEcCCCCeee--eCeEEEecChHHHHHHHHhhcCC---CCCH
Q 023965          116 VVTALTLLKSHLFK--YQGHVQAALVLGGVDATGPHLHTIYPHGSTDT--LPFATMGSGSLAAMAVFESKYRE---GLTK  188 (274)
Q Consensus       116 v~~la~~l~~~l~~--~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~--~~~~aiGsgs~~a~~~Le~~~~~---~ms~  188 (274)
                      ++. +..|.+.+++  |.|||++++|+|    +||+||.+||+|++.+  ++++|+|+|+.+|+++||+.|++   +||.
T Consensus        78 ~~~-~~~l~~~~~~~~~~rp~~~~~lva----d~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~mt~  152 (180)
T 2z3b_A           78 KRA-AVELAKEWRSDKVLRKLEAMLIVM----NQDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSA  152 (180)
T ss_dssp             HHH-HHHHHHHHHHCTTGGGCCCCEEEE----CSSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGGCCH
T ss_pred             HHH-HHHHHHHHHhhhCcCcceEEEEEE----cCCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCCCCH
Confidence            333 3445666654  458999999998    4799999999999998  49999999999999999999998   9999


Q ss_pred             HHHHHHHHHHHHHhhhcCCCCCCcEEEEEE
Q 023965          189 EEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       189 eeai~la~~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      ||   ++++||..++++|..+|++++|++|
T Consensus       153 ee---l~~~al~~a~~rd~~sg~~i~v~~i  179 (180)
T 2z3b_A          153 SE---IARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             HH---HHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             HH---HHHHHHHHHHHhcCccCCeEEEEEE
Confidence            99   4779999999999999999999998

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

Probab=100.00  E-value=7.4e-36  Score=249.24  Aligned_cols=165  Identities=22%  Similarity=0.213  Sum_probs=149.8

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEe-cCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I-~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      ||+|||+++||||||+|+|.++|.++.+++.+|||+| ++||+|++||..+|++.+.++++.+++.|+++     .++.+
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~-----~~~~~   75 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhccc-----HHHHH
Confidence            6999999999999999999999999999999999999 99999999999999999999999999998855     25566


Q ss_pred             HHHHHHHHHhc--cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeC--eEEEecChHHHHHHHHhhcC-CCCCHHHHHHH
Q 023965          120 LTLLKSHLFKY--QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLP--FATMGSGSLAAMAVFESKYR-EGLTKEEGISL  194 (274)
Q Consensus       120 a~~l~~~l~~~--~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~--~~aiGsgs~~a~~~Le~~~~-~~ms~eeai~l  194 (274)
                      +++. +.++++  .+||++++|+|  |  ||+||.+||+|++.+++  ++|+|+|+++++++||+.|+ ++||.   .++
T Consensus        76 ~~l~-~~~~~~~~~~~~~~~~lv~--D--~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~---~~l  147 (171)
T 1m4y_A           76 VELA-KDWRTDRVLRRLEALLLVA--D--KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA---REI  147 (171)
T ss_dssp             HHHH-HHHHHCTTGGGCCCEEEEE--C--SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH---HHH
T ss_pred             HHHH-HHHHHhCCCCceEEEEEEE--c--CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCH---HHH
Confidence            6654 456554  46899999988  5  89999999999999987  99999999999999999999 99996   678


Q ss_pred             HHHHHHHhhhcCCCCCCcEEEEEE
Q 023965          195 VCEAICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       195 a~~al~~~~~~d~~sg~~i~i~vi  218 (274)
                      +++||+.++++|..++++++|+++
T Consensus       148 ~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          148 VEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHHHHHHHhCcccCCeEEEEEC
Confidence            999999999999999999999874

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

Probab=100.00  E-value=1.6e-35  Score=247.89  Aligned_cols=166  Identities=18%  Similarity=0.185  Sum_probs=150.8

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEe-cCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I-~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++| ++||+|++||..+|++.+.++++.+++.|++      ++...
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~------~~~~~   74 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQG------HLLKS   74 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT------CHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHHHHHHHHHhcC------cHHHH
Confidence            6899999999999999999999989999999999999 9999999999999999999999999999985      44566


Q ss_pred             HHHHHHHHHhc--cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeC---eEEEecChHHHHHHHHhhcC-CCCCHHHHHH
Q 023965          120 LTLLKSHLFKY--QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLP---FATMGSGSLAAMAVFESKYR-EGLTKEEGIS  193 (274)
Q Consensus       120 a~~l~~~l~~~--~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~---~~aiGsgs~~a~~~Le~~~~-~~ms~eeai~  193 (274)
                      +..|++.++++  .||++  .+++|+|  ||+||.+||+|++.+++   ++|+|+|+++|+++||+.|+ ++||.+   +
T Consensus        75 ~~~l~~~~~~~~~~r~~~--~~l~g~d--~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~mt~~---~  147 (174)
T 1g3k_A           75 AVELAKDWRTDRALRKLE--AMLIVAD--EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTELSAH---E  147 (174)
T ss_dssp             HHHHHHHHHHSTTGGGCC--CEEEEEC--SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCCCHH---H
T ss_pred             HHHHHHHHHhccCcCcce--EEEEEEC--CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCCCHH---H
Confidence            67777777654  35655  5667787  89999999999999988   99999999999999999999 999955   7


Q ss_pred             HHHHHHHHhhhcCCCCCCcEEEEEEe
Q 023965          194 LVCEAICSGIFNDLGSGSNVDICVIT  219 (274)
Q Consensus       194 la~~al~~~~~~d~~sg~~i~i~vi~  219 (274)
                      ++++||+.+.++|..++++++|++|+
T Consensus       148 l~~~al~~a~~rd~~sg~~i~v~~i~  173 (174)
T 1g3k_A          148 IVEKSLRIAGDICVFTNTNFTIEELP  173 (174)
T ss_dssp             HHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             HHHHHHHHHHHhccccCCceEEEEec
Confidence            99999999999999999999999986

---

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	274
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	1e-62
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	7e-61
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	4e-52
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-48
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	4e-47
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	8e-47
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	5e-44
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	4e-43
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	1e-42
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	3e-42
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	8e-42
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-41
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-41
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-40
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	2e-40
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	8e-40
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	9e-40
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-39
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	8e-39
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-38
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	3e-38
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	6e-38
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	6e-38
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	7e-38
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-37
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	4e-37
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	6e-36
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	2e-35
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	5e-35
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	6e-35
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	1e-34
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-33
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	2e-33
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	6e-33
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	3e-30
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	9e-30
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	8e-28

>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 =  194 bits (494), Expect = 1e-62
 Identities = 127/221 (57%), Positives = 161/221 (72%), Gaps = 3/221 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTIVG+ F NGV++ ADTR+T G IV DKNC K+H ++P I+C GAGTAADTEAVT ++ 
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S ++LH  +T RE RVV+AL +LK HLFKYQGH+ A L++ GVD TG HL +I+ HGSTD
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTD 120

Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
              + ++GSGSLAAMAV ES +++ LTKEE I L  +AI +GI+NDLGSGSNVD+CV+  
Sbjct: 121 VGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEI 180

Query: 221 G-DKEYLRNHQLPNPRTYISSKGYSFPK-KTEVLLTKITPL 259
           G D EYLRN+  PN R     K Y FP+  T VL   I  +
Sbjct: 181 GKDAEYLRNYLTPNVREE-KQKSYKFPRGTTAVLKESIVNI 220

>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 =  189 bits (482), Expect = 7e-61
 Identities = 134/221 (60%), Positives = 171/221 (77%), Gaps = 2/221 (0%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI G+++++G++LGADTRAT G +V DKNC KIH+++PNIYCCGAGTAADT+  T ++S
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
           S L+LH   TGR  RVVTA  +LK  LF+Y+G++ AALVLGGVD TGPHL++IYPHGSTD
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRGYIGAALVLGGVDVTGPHLYSIYPHGSTD 120

Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK 220
            LP+ TMGSGSLAAMAVFE K+R  + +EE  +LV EAI +GIFNDLGSGSN+D+CVI+K
Sbjct: 121 KLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISK 180

Query: 221 GDKEYLRNHQLPNPRTYISSKGYSFPKK-TEVLLTKITPLE 260
              ++LR + +PN +     + Y   K  T VL  KITPLE
Sbjct: 181 NKLDFLRPYTVPNKKGTRLGR-YRCEKGTTAVLTEKITPLE 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 =  167 bits (423), Expect = 4e-52
 Identities = 63/196 (32%), Positives = 103/196 (52%), Gaps = 3/196 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI+ + F  GV+LGAD+R T GS + ++  +K+  +   I+CC +G+AADT+AV D V+
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVD-ATGPHLHTIYPHGST 159
            QL  H         V TA +L K   ++Y+  + A +++ G D   G  ++++   G  
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMM 120

Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
               FA  GSGS       ++ YREG+TKEE +     A+   +  D  SG  + +  I 
Sbjct: 121 VRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGGVIRLAAIA 180

Query: 220 KG--DKEYLRNHQLPN 233
           +   +++ L   Q+P 
Sbjct: 181 ESGVERQVLLGDQIPK 196

>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 =  157 bits (397), Expect = 3e-48
 Identities = 63/202 (31%), Positives = 108/202 (53%), Gaps = 8/202 (3%)

Query: 27  KKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGA 86
           KKG V        G +I+ + F++GVILGAD+R T G+ + ++  +K+  +   I+CC +
Sbjct: 2   KKGEV------SLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRS 55

Query: 87  GTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVD-A 145
           G+AADT+A+ D+V   L+L+    G  S   TA ++ K   ++ + ++ A +++ G D  
Sbjct: 56  GSAADTQAIADIVQYHLELYTSQYGTPST-ETAASVFKELCYENKDNLTAGIIVAGYDDK 114

Query: 146 TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
               ++TI   GS   LP+A  GSGS       +  +RE ++KEE +  +  ++   I  
Sbjct: 115 NKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKW 174

Query: 206 DLGSGSNVDICVITKGDKEYLR 227
           D  SG  + + V+T    E L 
Sbjct: 175 DGSSGGVIRMVVLTAAGVERLI 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 =  154 bits (390), Expect = 4e-47
 Identities = 51/193 (26%), Positives = 91/193 (47%), Gaps = 2/193 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +   FQ G+I+  D+RATAG+ V  +  +++  + P +    AG AAD +     + 
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ--AALVLGGVDATGPHLHTIYPHGS 158
           SQ +LH         V  A  +L + +++Y+G       ++ G     GP ++ +   G+
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGT 120

Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
                   +GSG   A  V +S Y+  L+ E+ + L   +I +    D  SG +V++  +
Sbjct: 121 RLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHV 180

Query: 219 TKGDKEYLRNHQL 231
           T+    Y  NH +
Sbjct: 181 TEDGWIYHGNHDV 193

>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 =  153 bits (387), Expect = 8e-47
 Identities = 49/193 (25%), Positives = 92/193 (47%), Gaps = 1/193 (0%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT +   F++GVI+ AD+RATAG+ +  +  +K+  + P +    AG AAD      +++
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGST 159
            Q +++         V  A  LL + +++Y+G  +    ++ G D  GP L+ +   G+ 
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNR 120

Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
            +    ++GSGS+ A  V +  Y   L  E+   L   AI    + D  SG  V++  + 
Sbjct: 121 ISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGAVNLYHVR 180

Query: 220 KGDKEYLRNHQLP 232
           +     + +  + 
Sbjct: 181 EDGWIRVSSDNVA 193

>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 =  147 bits (371), Expect = 5e-44
 Identities = 42/196 (21%), Positives = 79/196 (40%), Gaps = 12/196 (6%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+    GV L  + R T+  +    + EKI  +  +I C  +G  AD + + D
Sbjct: 25  KLGSTAIGIQTSEGVCLAVEKRITSPLME-PSSIEKIVEIDAHIGCAMSGLIADAKTLID 83

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ----------AALVLGGVDATG 147
               + Q H +       V +    + +   ++                AL+ GGVD  G
Sbjct: 84  KARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKG 143

Query: 148 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDL 207
           P L  + P G+        +GS S  A +  +  Y + +T +E I      +   +  + 
Sbjct: 144 PQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIIL-KQVMEEK 202

Query: 208 GSGSNVDICVITKGDK 223
            + +N+++  +  G  
Sbjct: 203 LNATNIELATVQPGQN 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 =  143 bits (362), Expect = 4e-43
 Identities = 41/196 (20%), Positives = 78/196 (39%), Gaps = 5/196 (2%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
             I+G+  Q+ VIL +    T G  V   + +K   ++P+     AG A DT    + + 
Sbjct: 2   DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQ 61

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHL---FKYQGHVQAALVLGGVD--ATGPHLHTIYP 155
           + +QL+      E       + ++  L    + +   Q  +++GG D     P L+ I  
Sbjct: 62  ANIQLYSIREDYELSPQAVSSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDY 121

Query: 156 HGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
            G+   LP+   G       ++ +  YR  +T EEG+ L+   +             V +
Sbjct: 122 LGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDFKGVIV 181

Query: 216 CVITKGDKEYLRNHQL 231
            ++ K     + + Q 
Sbjct: 182 KIVDKDGIRQVDDFQA 197

>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 =  143 bits (362), Expect = 1e-42
 Identities = 42/227 (18%), Positives = 87/227 (38%), Gaps = 17/227 (7%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
            TGT+++ + + NGVI+ AD   + GS++     E++  +  N     +G  +D + +  
Sbjct: 6   VTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIER 65

Query: 98  MVSSQLQLHRYH-----TGRESRVVTALTLLKSHLFKYQG---HVQAALVLGGVDATGPH 149
           ++   +  + Y                   L + +++ +     +  A+++ GV + G  
Sbjct: 66  LLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQ 125

Query: 150 -LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE-----GLTKEEGISLVCEAICSGI 203
            L  +   G T + P    G G+  A  +              T +     +  A+    
Sbjct: 126 FLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLY 185

Query: 204 FNDLGSGSNVDICVITKGDK-EYLRNHQLPNPRTYISS--KGYSFPK 247
           + D  S  N  + +I K     + +N Q+ N +   +   KGY   K
Sbjct: 186 YRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAKDIKGYGTQK 232

>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 =  142 bits (360), Expect = 3e-42
 Identities = 40/198 (20%), Positives = 74/198 (37%), Gaps = 9/198 (4%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           + GTT +G+   +GV+   +   T+  +V  KN  KI  +  +I C  +G   D   + +
Sbjct: 28  ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV-KIQVVDRHIGCVYSGLIPDGRHLVN 86

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHT 152
               +    +        +      L  ++  +           + + GGVD  G HL+ 
Sbjct: 87  RGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYM 146

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFE---SKYREGLTKEEGISLVCEAICSGIFNDLGS 209
           + P GS      A  G G  +A A  E     + EGL+  E +    + I     ++   
Sbjct: 147 LEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEK 206

Query: 210 GSNVDICVITKGDKEYLR 227
              ++I   +  +   L 
Sbjct: 207 DFELEISWCSLSETNGLH 224

>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 =  140 bits (353), Expect = 8e-42
 Identities = 52/193 (26%), Positives = 94/193 (48%), Gaps = 2/193 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT VGL+ ++GV++  + RAT G+ +  K  +KI+ +A  +    AG+  D + +  ++ 
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKY-QGHVQAALVLGGVDATGPHLHTIYPHG-S 158
            +  L+     R+  V    TL  + L  Y        L++GG+D+ G  +++I P G +
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGA 120

Query: 159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI 218
            +       GSGSL A  V E ++   +  +E + L   AI S +  D  SG  +D+  I
Sbjct: 121 IEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGDGIDVVKI 180

Query: 219 TKGDKEYLRNHQL 231
           T+ +       ++
Sbjct: 181 TEDEFYQYSPEEV 193

>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 =  141 bits (356), Expect = 1e-41
 Identities = 39/194 (20%), Positives = 80/194 (41%), Gaps = 7/194 (3%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
               T +G++  +GV+L A+ R     +      EKI+ +  ++ C  AG  +D   +T+
Sbjct: 28  GHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTN 87

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLH 151
            +    Q +             +T L      Y     +     +L+  G D   G  L+
Sbjct: 88  ELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLY 147

Query: 152 TIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG-LTKEEGISLVCEAICSGIFNDLGSG 210
              P G+        +G+ S AA+++ +  Y+EG +T +  ++L  + +   +     S 
Sbjct: 148 QSDPSGNYGGWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSA 207

Query: 211 SNVDICVITKGDKE 224
             V+I  +T+ + +
Sbjct: 208 EKVEIATLTRENGK 221

>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 =  140 bits (354), Expect = 2e-41
 Identities = 35/193 (18%), Positives = 76/193 (39%), Gaps = 6/193 (3%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
               T +G++  +G++L A+ + T+  +  D + EK++ +   I    AG  AD E + +
Sbjct: 29  SHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILIN 88

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-----VQAALVLGGVDATG-PHLH 151
                 Q +      +  V   +  L      Y  H        + +  G D      L+
Sbjct: 89  TARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLY 148

Query: 152 TIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGS 211
           T  P G+       ++G+ + AA  + +  Y++ +  ++ I L  + +     +   +  
Sbjct: 149 TSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYD 208

Query: 212 NVDICVITKGDKE 224
            ++   I KG  +
Sbjct: 209 RLEFATIRKGAND 221

>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 =  138 bits (349), Expect = 1e-40
 Identities = 44/193 (22%), Positives = 82/193 (42%), Gaps = 8/193 (4%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G T +G+  + GVIL AD R  +  +      EKI+ +  +I    +G  AD   + D
Sbjct: 29  KRGATAIGIKCKEGVILIADKRVGSKLLE-KDTIEKIYKIDEHICAATSGLVADARVLID 87

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-----GHVQAALVLGGVDATGPHLHT 152
               + Q++R        V      +     +Y           +L++ GV+   P L+ 
Sbjct: 88  RARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-EVPKLYE 146

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSN 212
             P G+        +G G +A    FE +YR+ L+ ++ + L   A+   I ++L    N
Sbjct: 147 TDPSGALLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVP-EN 205

Query: 213 VDICVITKGDKEY 225
           +++  +   D+ +
Sbjct: 206 IEVGYVKVDDRTF 218

>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 =  137 bits (346), Expect = 2e-40
 Identities = 45/191 (23%), Positives = 83/191 (43%), Gaps = 7/191 (3%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+ F NGV+L +D +     ++   + EKI  +   +    +G  AD   + D
Sbjct: 20  KKGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVD 78

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHT 152
                 Q  +   G    +   +  +   + +Y           +L+  G+D  GP L  
Sbjct: 79  FARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFD 138

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSN 212
             P G+ +      +GSG  A ++  E +Y+E L ++E ++L  +A+ S +         
Sbjct: 139 CDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKA 197

Query: 213 VDICVITKGDK 223
            +I  IT G+K
Sbjct: 198 PEIASITVGNK 208

>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 =  135 bits (340), Expect = 8e-40
 Identities = 55/184 (29%), Positives = 92/184 (50%), Gaps = 2/184 (1%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TT VG+  ++ VI+  + R T  + +  KN +K+  +        AG   D + +   + 
Sbjct: 1   TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMK 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGST 159
           ++L+L+R        +    TLL + L + +       L++GG+D T PH+ +I   G +
Sbjct: 61  AELELYRLQRRVNMPIEAVATLLSNMLNQVKYMPYMVQLLVGGID-TAPHVFSIDAAGGS 119

Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
               +A+ GSGS     V ES+Y E +T +EG+ LV  AI +    D  SG  +D+ VIT
Sbjct: 120 VEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGMIDVAVIT 179

Query: 220 KGDK 223
           + D 
Sbjct: 180 RKDG 183

>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 =  135 bits (341), Expect = 9e-40
 Identities = 37/202 (18%), Positives = 69/202 (34%), Gaps = 6/202 (2%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
            TGT+++G+ F+ GV++ AD   + GS+   +N  +I  +  +     +G  AD + +  
Sbjct: 6   VTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQ 65

Query: 98  MVSSQLQLHRYHTGRESRVVTA----LTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTI 153
           ++   +          S    A    LT            +   +V+GG       L  +
Sbjct: 66  VLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYV 125

Query: 154 YPHGSTDTLPFATMGSGSLAAMAVFESKYR--EGLTKEEGISLVCEAICSGIFNDLGSGS 211
              G     P    G G+  A  +          L++ E   LV   +    + D  S +
Sbjct: 126 DMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVLYYRDARSYN 185

Query: 212 NVDICVITKGDKEYLRNHQLPN 233
                 +T+   E         
Sbjct: 186 RFQTATVTEKGVEIEGPLSTET 207

>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 =  135 bits (341), Expect = 2e-39
 Identities = 39/220 (17%), Positives = 85/220 (38%), Gaps = 15/220 (6%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G T +G+   NGV++  + ++++   +  +   K+  + P+I    +G   D   + D
Sbjct: 29  KQGVTSLGIKATNGVVIATEKKSSSPLAM-SETLSKVSLLTPDIGAVYSGMGPDYRVLVD 87

Query: 98  MVSSQLQL-HRYHTGRESRVVTALTLLKSHLF------KYQGHVQAALVLGGVDATGPHL 150
                    ++   G        ++ +   +         +    + L+ G  +  G  L
Sbjct: 88  KSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSL 147

Query: 151 HTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSG 210
           + + P GS        +G GS+AA    E ++ + L  E+ I +    +   +  +  +G
Sbjct: 148 YQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEF-NG 206

Query: 211 SNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTE 250
             +++ +I   + + L    +P        KG  F K T 
Sbjct: 207 DTIELAIIGDENPDLLGYTGIPT------DKGPRFRKLTS 240

>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 =  133 bits (337), Expect = 8e-39
 Identities = 26/192 (13%), Positives = 68/192 (35%), Gaps = 7/192 (3%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           +  +T +G+  ++GV+ G +    +     + + +++  +  ++    AG  AD  ++ D
Sbjct: 31  ENSSTAIGIRCKDGVVFGVEKLVLSKLYE-EGSNKRLFNVDRHVGMAVAGLLADARSLAD 89

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-----VQAALVLGGVDATG-PHLH 151
           +   +    R + G    +      +  ++  Y  +        + +LG         L+
Sbjct: 90  IAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLY 149

Query: 152 TIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGS 211
            I P G +       +G    AA    E    + +T  + +  V + I            
Sbjct: 150 MIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAF 209

Query: 212 NVDICVITKGDK 223
            +++  + +   
Sbjct: 210 ELELSWVGELTN 221

>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 =  131 bits (331), Expect = 3e-38
 Identities = 38/205 (18%), Positives = 77/205 (37%), Gaps = 20/205 (9%)

Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           Y   G TI+G+  ++  +L  DTR      +  +   K+     NI     G AAD +A+
Sbjct: 5   YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDAL 64

Query: 96  TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ--GHVQAALVLGGVDATG-PHLHT 152
                + ++ + +    +   + +      HL   +         ++ G+D  G   +++
Sbjct: 65  VKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYS 124

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKYREG-----------------LTKEEGISLV 195
             P GS +       G+ +   M   +++                     L+ EE I LV
Sbjct: 125 FDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLV 184

Query: 196 CEAICSGIFNDLGSGSNVDICVITK 220
            ++  S     +  G  ++I ++TK
Sbjct: 185 RDSFTSATERHIQVGDGLEILIVTK 209

>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 =  132 bits (333), Expect = 3e-38
 Identities = 37/192 (19%), Positives = 74/192 (38%), Gaps = 8/192 (4%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T VG+  ++ V+LG + ++    +  ++   KI  +  N+    AG  AD   V +
Sbjct: 26  KKGSTAVGVRGRDIVVLGVEKKSV-AKLQDERTVRKICALDDNVCMAFAGLTADARIVIN 84

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH------VQAALVLGGVDATGPHLH 151
               + Q HR        V      + S   +Y           +AL++G      P L+
Sbjct: 85  RARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLY 144

Query: 152 TIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGS 211
              P G+        +G G+ +     E  Y +   + + +  +   I + +      G 
Sbjct: 145 QTDPSGTYHAWKANAIGRGAKSVREFLEKNYTDEAIETDDL-TIKLVIKALLEVVQSGGK 203

Query: 212 NVDICVITKGDK 223
           N+++ V+ +   
Sbjct: 204 NIELAVMRRDQS 215

>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 =  131 bits (331), Expect = 6e-38
 Identities = 47/198 (23%), Positives = 82/198 (41%), Gaps = 14/198 (7%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+T +G+  + GV+LG + RAT+  +    + EKI  +  +I C  +G  AD  ++ +
Sbjct: 24  KLGSTAIGIATKEGVVLGVEKRATSPLLE-SDSIEKIVEIDRHIGCAMSGLTADARSMIE 82

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQ-----------AALVLGGVDA- 145
              +    H  +   +  V +    +     ++                 AL++ G DA 
Sbjct: 83  HARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDAD 142

Query: 146 TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
            G  L    P G+        +GSGS  A A   +++   LT +E   LV + +   +  
Sbjct: 143 DGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEE 202

Query: 206 DLGSGSNVDICVITKGDK 223
            L   +N  +  ITK D 
Sbjct: 203 KL-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 =  130 bits (327), Expect = 6e-38
 Identities = 35/197 (17%), Positives = 76/197 (38%), Gaps = 4/197 (2%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
             ++G+   + V++ +D  A +  +    + +K+  M+  I     G A DT    + + 
Sbjct: 2   EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQ 61

Query: 101 SQLQLHRYHTGRESRV---VTALTLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPH 156
             +QL++   G E              +   + +      L+L G D   GP L+ +   
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYL 121

Query: 157 GSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDIC 216
            +    PFA  G G+   +++ +  Y   +++E  + L+ + +       + +     + 
Sbjct: 122 AALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLPTFSVR 181

Query: 217 VITKGDKEYLRNHQLPN 233
           +I K     L N   P 
Sbjct: 182 IIDKNGIHDLDNISFPK 198

>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 =  130 bits (328), Expect = 7e-38
 Identities = 35/196 (17%), Positives = 80/196 (40%), Gaps = 11/196 (5%)

Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
           Y   G TI+ +  ++  I+ +DTR + G  +  ++  K + +        +G   D   +
Sbjct: 5   YVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTL 64

Query: 96  TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHV-QAALVLGGVDATGPHLHTIY 154
           T ++ ++L+++++   +         +L + L+  +        ++GG+D  G      +
Sbjct: 65  TKIIEARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSF 124

Query: 155 PHG-STDTLPFATMGSGSLAAMAVFESKYR---------EGLTKEEGISLVCEAICSGIF 204
               S     F   GS S     + +++             L+ +  + LV +   S   
Sbjct: 125 DPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFISAAE 184

Query: 205 NDLGSGSNVDICVITK 220
            D+ +G  + IC++TK
Sbjct: 185 RDVYTGDALRICIVTK 200

>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 =  129 bits (326), Expect = 1e-37
 Identities = 36/185 (19%), Positives = 75/185 (40%), Gaps = 4/185 (2%)

Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMV 99
           G  ++ +  +N V + AD R    + +   + +KI  M   +Y   AG A D + V   +
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQG-HVQAALVLGGVDATGPHLHTIYPHGS 158
             +L L+    GR+ +  T ++++ + L++ +        V+ G+D              
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLI 126

Query: 159 ---TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
                T  F   G+ +     + ES +   +  +     + +A+ + +  D  SG  V +
Sbjct: 127 GCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDAVSGMGVIV 186

Query: 216 CVITK 220
            +I K
Sbjct: 187 HIIEK 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 =  129 bits (324), Expect = 4e-37
 Identities = 39/210 (18%), Positives = 75/210 (35%), Gaps = 19/210 (9%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTIV L ++ GV+L  D RAT G+++  ++ EK++          AGTA     +  + +
Sbjct: 1   TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFA 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLG----------GVDATGPHL 150
            +L+ +    G           L S +    G     L +             ++    +
Sbjct: 61  VELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRI 120

Query: 151 HTIYPHG--STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLG 208
            +    G    +   +  +GSGSL A +  +  Y     +E  +    E++     +D  
Sbjct: 121 VSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSA 180

Query: 209 SGS-------NVDICVITKGDKEYLRNHQL 231
           +G              IT+    ++     
Sbjct: 181 TGGPDLTRGIYPTAVTITQAGAVHVSEETT 210

>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 =  125 bits (316), Expect = 6e-36
 Identities = 29/201 (14%), Positives = 62/201 (30%), Gaps = 22/201 (10%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
             G ++V L F++GV+  A+  +TA          K+  +   +     G   + E +  
Sbjct: 17  ARGRSVVVLTFRDGVLFVAENPSTAL--------HKVSELYDRLGFAAVGKYNEFENLRR 68

Query: 98  MVSSQLQLHRYHTGRESRVVTALT-----LLKSHLFKYQGHVQAALVLGGVDAT----GP 148
                  +  Y   R      +L       L +   +     +  + +  V        P
Sbjct: 69  AGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAP 128

Query: 149 HLHTIYPHGSTDTLPFATMG-SGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDL 207
            L+ I   GS        +    +          YR  L  E  + +   A+  G   + 
Sbjct: 129 QLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEG 188

Query: 208 GSG----SNVDICVITKGDKE 224
                  +++++ V+ +    
Sbjct: 189 EKRNVDVASLEVAVLDQSRPR 209

>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 =  124 bits (312), Expect = 2e-35
 Identities = 39/189 (20%), Positives = 72/189 (38%), Gaps = 5/189 (2%)

Query: 36  YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV 95
               G  +V +  ++ V +  D R  + S+      EKI +   +++    G A D   +
Sbjct: 4   SSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTL 62

Query: 96  TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-QGHVQAALVLGGVDATG--PHLHT 152
            +M   +  L++    R     T   L+ S L++   G      V+ G+++    P +  
Sbjct: 63  NEMFRYKTNLYKLKEERAIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAG 122

Query: 153 IYPHGSTDTLP-FATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGS 211
               G  D    F   G+ S     + ES Y   L  E+    + +A+ +    D  SG 
Sbjct: 123 FDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDALSGW 182

Query: 212 NVDICVITK 220
              + +I K
Sbjct: 183 GAVVYIIKK 191

>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 =  123 bits (311), Expect = 5e-35
 Identities = 39/194 (20%), Positives = 72/194 (37%), Gaps = 11/194 (5%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+  VGL  +   +L A  RA +       + +KI ++  +I    AG  AD   + +
Sbjct: 27  KQGSATVGLKSKTHAVLVALKRAQSELAA---HQKKILHVDNHIGISIAGLTADARLLCN 83

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-----VQAALVLGGVDATGPHLHT 152
            +  +    R+   R   V   ++L+ S                 L++ G D  GPH+  
Sbjct: 84  FMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQ 143

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKYREG--LTKEEGISLVCEAICSGIFNDLG-S 209
             P  +       ++G+ S +A    E    E       E +     A+   +  +   +
Sbjct: 144 TCPSANYFDCRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLT 203

Query: 210 GSNVDICVITKGDK 223
             NV I ++ K  +
Sbjct: 204 TKNVSIGIVGKDLE 217

>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 =  123 bits (310), Expect = 6e-35
 Identities = 24/207 (11%), Positives = 56/207 (27%), Gaps = 13/207 (6%)

Query: 37  RKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVT 96
            +T    + +  ++  ++ +  +     +        I  ++  I     G   D     
Sbjct: 27  NQTNINSLAVRGKDCTVVISQKKVPDKLLD-PTTVSYIFCISRTIGMVVNGPIPDARNAA 85

Query: 97  DMVSSQLQLHRYHTGRESRVVTALTLLKSHLFK-----YQGHVQAALVLGGVDA-TGPHL 150
               ++    RY  G +         + +         Y   +   L    VD   GP +
Sbjct: 86  LRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSI 145

Query: 151 HTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGI------F 204
           +   P G          G          E+ +++            + +   I       
Sbjct: 146 YKTDPAGYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDAL 205

Query: 205 NDLGSGSNVDICVITKGDKEYLRNHQL 231
               S +++++ V TK     L    +
Sbjct: 206 GTEFSKNDLEVGVATKDKFFTLSAENI 232

>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 =  122 bits (308), Expect = 1e-34
 Identities = 42/195 (21%), Positives = 66/195 (33%), Gaps = 12/195 (6%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K G+  VGL      +L A  R            +KI     ++    AG A D   +++
Sbjct: 29  KQGSVTVGLRSNTHAVLVALKRNADELSS---YQKKIIKCDEHMGLSLAGLAPDARVLSN 85

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHV-----QAALVLGGVDATGPHLHT 152
            +  Q         R+  V  A  LL     K             L++ G D +G HL  
Sbjct: 86  YLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLE 145

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKYREG----LTKEEGISLVCEAICSGIFNDLG 208
             P G+   L    +G+ S  A    E             +E I    EAI   + ++  
Sbjct: 146 FQPSGNVTELYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESL 205

Query: 209 SGSNVDICVITKGDK 223
           +  N+ I ++ K   
Sbjct: 206 TVDNLSIAIVGKDTP 220

>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 =  119 bits (300), Expect = 2e-33
 Identities = 29/199 (14%), Positives = 64/199 (32%), Gaps = 7/199 (3%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
             G   VG+   NGV+L  + +  +     +++  K+  +  +I    +G   D   +  
Sbjct: 29  AGGAPSVGIKAANGVVLATEKKQKSILYD-ERSVHKVEPITKHIGLVYSGMGPDYRVLVH 87

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSH-----LFKYQGHVQAALVLGGVDATGPHLHT 152
                 Q +             +  + S                +L++ G +   P+L  
Sbjct: 88  RARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQ 147

Query: 153 IYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSN 212
             P G+        MG   +      E +Y E L  E+ I      +       + +  N
Sbjct: 148 SDPSGAYFAWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQM-TEDN 206

Query: 213 VDICVITKGDKEYLRNHQL 231
           +++ +  +     L   ++
Sbjct: 207 IEVGICNEAGFRRLTPTEV 225

>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 =  119 bits (300), Expect = 2e-33
 Identities = 36/193 (18%), Positives = 63/193 (32%), Gaps = 7/193 (3%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           K GT  VG+  +N V+LG + R+T           K+  +  ++    +G  AD+  + +
Sbjct: 26  KRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIE 85

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGH-----VQAALVLGGVDAT--GPHL 150
               + Q HR        V      +     +Y           + ++ G D     P L
Sbjct: 86  KARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKL 145

Query: 151 HTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSG 210
           +   P G   +    T+G  S       E  Y            V   + S +       
Sbjct: 146 YQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTGA 205

Query: 211 SNVDICVITKGDK 223
            N++I V+     
Sbjct: 206 KNIEITVVKPDSD 218

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 244

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

 Score =  118 bits (297), Expect = 6e-33
 Identities = 30/197 (15%), Positives = 67/197 (34%), Gaps = 10/197 (5%)

Query: 37  RKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVT 96
            + G T V +  ++  ++    +     +        +  +  NI C   G  AD+ +  
Sbjct: 32  NQGGLTSVAVRGKDCAVIVTQKKVPDKLLD-SSTVTHLFKITENIGCVMTGMTADSRSQV 90

Query: 97  DMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHL 150
                +    +Y  G E  V      +      Y        +   ++L G+D   GP +
Sbjct: 91  QRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQV 150

Query: 151 HTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREG--LTKEEGISLVCEAICSGIFNDLG 208
           +   P G          G     + +  E K ++    T E+ +      + + +  D  
Sbjct: 151 YKCDPAGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFK 210

Query: 209 SGSNVDICVITKGDKEY 225
             S +++ V+T  + ++
Sbjct: 211 P-SEIEVGVVTVENPKF 226

>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 =  109 bits (274), Expect = 3e-30
 Identities = 23/181 (12%), Positives = 56/181 (30%), Gaps = 8/181 (4%)

Query: 40  GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKI--HYMAPNIYCCGAGTAADTEAVTD 97
            TTI  +  +    +  D + T G  V  K+  +         +    AG+ AD   + +
Sbjct: 5   ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64

Query: 98  MVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHG 157
              ++L+ +  +  R +  +         L K +  +        +  +G          
Sbjct: 65  KFEAKLEEYNGNLKRAAVELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSGTGEVIEPDD- 123

Query: 158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICV 217
                    +GSG   A+A   +  +          +   A+ +     + +   + +  
Sbjct: 124 -----GILAIGSGGNYALAAGRALKKHAGESMSASEIARAALETAGEICVYTNDQIILEE 178

Query: 218 I 218
           +
Sbjct: 179 L 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 =  108 bits (270), Expect = 9e-30
 Identities = 28/175 (16%), Positives = 53/175 (30%), Gaps = 7/175 (4%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVS 100
           TTI+ +      ++G D + T GS V   N  K+  +       G   +           
Sbjct: 1   TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRF 60

Query: 101 SQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTD 160
                       ++ V  A       + +         +L   D     + +        
Sbjct: 61  EAKLREWGGNLTKAAVELAKDWRTDRVLRRLEA-----LLLVADKENIFIISGNGEVIQP 115

Query: 161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDI 215
               A +GSG   A+A  ++  R   T      +V +A+       + +  N+ I
Sbjct: 116 DDDAAAIGSGGPYALAAAKALLRN--TDLSAREIVEKAMTIAGEICIYTNQNIVI 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 =  103 bits (257), Expect = 8e-28
 Identities = 32/182 (17%), Positives = 65/182 (35%), Gaps = 18/182 (9%)

Query: 41  TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPN-IYCCGAGTAADTEAVTDMV 99
           TTIV +     V++G D + + G+ V   N  K+  +    +    AG  AD   + ++ 
Sbjct: 1   TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELF 60

Query: 100 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGST 159
             +L++H+ H  + +  +         L K +  +         +     +  I      
Sbjct: 61  ERKLEMHQGHLLKSAVELAKDWRTDRALRKLEAMLI-----VADEKESLIITGIGDVVQP 115

Query: 160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT 219
           +      +GSG   A++   +      T+     +V +++              DICV T
Sbjct: 116 EEDQILAIGSGGNYALSAARALVEN--TELSAHEIVEKSL----------RIAGDICVFT 163

Query: 220 KG 221
             
Sbjct: 164 NT 165

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	274
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.96
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.94
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.94

>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=3.5e-52  Score=366.17  Aligned_cols=211  Identities=19%  Similarity=0.217  Sum_probs=199.0

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.++.+++.+|||+|++||+|++||..+|++.+
T Consensus        11 fsp~Grl~QvEyA-----~kav~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   85 (250)
T d1iruc_          11 FSPEGRLYQVEYA-----MEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVL   85 (250)
T ss_dssp             CCTTSCCHHHHHH-----HHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHHH
T ss_pred             ECCCCcchHHHHH-----HHHHhcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccchHHHH
Confidence            9999999999999     89999999999999999999999999999999988999999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEec
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      ++.++.++..|++.++++++++.+++.+++.++.+     .|||++++|+||+|+ .||+||.+||+|++.+++++|+|+
T Consensus        86 ~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~rP~~~~~li~G~D~~~gp~Ly~~Dp~G~~~~~~~~a~G~  165 (250)
T d1iruc_          86 TNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGN  165 (250)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSCCCCCEEEEEEEEETTTEEEEEEEETTTEEEECSEEEEST
T ss_pred             HHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccCCcceEEEEEEEEcCCCCCEEEEEcccccEeeeeEEEeCc
Confidence            99999999999999999999999999999988754     369999999999997 479999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCC-CCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC----EEEeccccC
Q 023965          170 GSLAAMAVFESKYRE-GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD----KEYLRNHQL  231 (274)
Q Consensus       170 gs~~a~~~Le~~~~~-~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g----~~~~~~~~~  231 (274)
                      |+..++++||+.|++ +||++||++++++||+.++.+|..++++++|++|++++    ++++.+.++
T Consensus       166 gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~~~~~~~~l~~~Ei  232 (250)
T d1iruc_         166 NSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEV  232 (250)
T ss_dssp             TTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHH
T ss_pred             ChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCCCceeEEECCHHHH
Confidence            999999999999985 89999999999999999999999999999999999987    444555444

>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=1.6e-51  Score=355.28  Aligned_cols=219  Identities=61%  Similarity=1.017  Sum_probs=214.3

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+|+||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (220)
T d1irui_           1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISSNLELHSLSTGRLPRVVTAN   80 (220)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHCSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCEeecCCcccEEEecCcEEEEEccccHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~  200 (274)
                      +++++.++++++|+++++|+||+|.+||+||.+||.|++.+++++|+|+|+.+++++|++.|+++||++||++++++||+
T Consensus        81 ~~l~~~~y~~~~p~~~~~ivaG~D~~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea~~l~~~al~  160 (220)
T d1irui_          81 RMLKQMLFRYRGYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIA  160 (220)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHHHTHHHHHHH
T ss_pred             HHHHhhhhhcccccceeEEEEEEeCCCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCCCCcccCCCcccCc-eeeeeeeeeEecc
Q 023965          201 SGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPK-KTEVLLTKITPLE  260 (274)
Q Consensus       201 ~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  260 (274)
                      .+..+|..++++++|++|+++|+++++|+.+++.|. .+..+++||+ ++++++++++|++
T Consensus       161 ~~~~~D~~sg~~i~i~vitkdg~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  220 (220)
T d1irui_         161 AGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKG-TRLGRYRCEKGTTAVLTEKITPLE  220 (220)
T ss_dssp             HHHHHCTTCCSCEEEEEEETTEEECCSEEECCCCCC-CCCSCCCCCTTCSCBSCCCCCBCC
T ss_pred             HhhccCCCCCCcEEEEEEECCCeEEeCcccccchhh-hhhhccccCCCCcceeeeeeEECc
Confidence            999999999999999999999999999999999999 5789999999 9999999999973

>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=6e-52  Score=358.25  Aligned_cols=211  Identities=21%  Similarity=0.336  Sum_probs=197.8

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+|||+|++|++|++||..+|++.
T Consensus         2 ~fsp~G~l~QvEYa-----~~av~~G~t~vgi~~~dgVvlaad~r~~-~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~   75 (221)
T d1yara1           2 VFSPDGRLFQVEYA-----REAVKKGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARV   75 (221)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHTTSCCEEEEEETTEEEEEECCCCC-CTTBCSTTCCSEEEEETTEEEEEEEBHHHHHH
T ss_pred             eECCCCcchHHHHH-----HHHHhcCCcEEEEEeCCEEEEEEecccC-CcccccCccceEEEecCCceEEeeeccchHHH
Confidence            49999999999999     9999999999999999999999999987 56677888999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEec
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      +.++++.++..|++.++++++++.+++.++..++.+     .|||++++|+||+|++||+||.+||+|++.+++++|+|+
T Consensus        76 l~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~rP~~~~~li~G~d~~gp~Ly~id~~G~~~~~~~~a~G~  155 (221)
T d1yara1          76 LVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGS  155 (221)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTBCCCCEEEEEEEECSSCEEEEEECTTCCEEEBSEEEEST
T ss_pred             HHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccCCCcceEEEEEEEecCCCeEEEEcCCccEEEeeEEEECC
Confidence            999999999999999999999999999999888754     379999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeC-CCEEEeccccCC
Q 023965          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLP  232 (274)
Q Consensus       170 gs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k-~g~~~~~~~~~~  232 (274)
                      |+..++++||+.|+++||++||++++++||+.++++|. ++++++|++|++ ++++++.+.+++
T Consensus       156 g~~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~-~~~~~ei~~i~~~~~~r~l~~~ei~  218 (221)
T d1yara1         156 GKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNKYRIYDQEEVK  218 (221)
T ss_dssp             THHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEETTSCCEECCHHHHH
T ss_pred             chHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHhccC-CCCCcEEEEEEcCCCEEECCHHHHH
Confidence            99999999999999999999999999999999998774 678999999997 567888877654

>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=1.2e-51  Score=359.42  Aligned_cols=211  Identities=21%  Similarity=0.307  Sum_probs=197.2

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++|+++|+|+|||+++||||||+|++.+.+ ++..++.+||++|+++|+||+||..+|++
T Consensus         6 t~fsp~G~l~QvEYa-----~kav~~G~t~vgik~~dgVvlaad~~~~~~-~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   79 (234)
T d1irue_           6 NTFSPEGRLFQVEYD-----IEAIKLGSTAIGIQTSEGVCLAVEKRITSP-LMEPSSIEKIVEIDAHIGCAMSGLIADAK   79 (234)
T ss_dssp             TCBCTTSCBHHHHHH-----HHHHTTSCCEEEEEETTEEEEEEECCCCCT-TBCTTSCCSEEEEETTEEEEEEECHHHHH
T ss_pred             ceECCCCcchHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEecCccCC-CcccCcccCEEEccCcEEEEEeeccchHH
Confidence            359999999999999     899999999999999999999999999886 45578899999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc----------cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeC
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----------QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLP  163 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~----------~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~  163 (274)
                      .+.++++.++..|++.++++++++.+++.+++.+++|          .|||++++|+||||++||+||.+||+|++.+++
T Consensus        80 ~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~gp~Ly~idp~G~~~~~~  159 (234)
T d1irue_          80 TLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCD  159 (234)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCCCCEEEEEecCcccceee
Confidence            9999999999999999999999999999999988654          379999999999999999999999999999999


Q ss_pred             eEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC-CEEEeccccC
Q 023965          164 FATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQL  231 (274)
Q Consensus       164 ~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~-g~~~~~~~~~  231 (274)
                      ++|+|+|+..++++||+.|+++|+++||++++++||+.+.++| .++++++|++|+++ +++++.+.++
T Consensus       160 ~~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~-~~~~~iei~ii~~~~~~k~l~~~ei  227 (234)
T d1irue_         160 ARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEK-LNATNIELATVQPGQNFHMFTKEEL  227 (234)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSC-CCTTSEEEEEECSSSCCEECCHHHH
T ss_pred             eEEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhcc-CCCCCEEEEEEECCCCEEECCHHHH
Confidence            9999999999999999999999999999999999999988777 56788999999985 6787777655

>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=1.9e-51  Score=360.21  Aligned_cols=204  Identities=18%  Similarity=0.231  Sum_probs=196.4

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.++.+++.+||++|+++|+|++||.++|++.
T Consensus        11 ~fsp~G~~~Qveya-----~~ai~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   85 (244)
T d1rypc_          11 IFSPEGRLYQVEYA-----LESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEI   85 (244)
T ss_dssp             CBCTTSCBHHHHHH-----HHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHH
T ss_pred             eECCCCcChHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccCcHHH
Confidence            39999999999999     8999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEe
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiG  168 (274)
                      +.+.++.+++.|++.++++++++.+++.+++.++.|     .||+++++||||+|+ +||+||.+||+|++.+++++|+|
T Consensus        86 l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~~~~~~~a~G  165 (244)
T d1rypc_          86 LINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVG  165 (244)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSCCCCCEEEEEEEEETTTEEEEEEECTTCCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhccccCccceeEEEEEEecCCCceEEEecCCCcEeeeeeeecc
Confidence            999999999999999999999999999999988644     479999999999997 56999999999999999999999


Q ss_pred             cChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCE
Q 023965          169 SGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK  223 (274)
Q Consensus       169 sgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~  223 (274)
                      +|+.+++++||+.|+++||++||++++++||+.++++|..++++++|++|++++.
T Consensus       166 ~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~~d~~~~~~iei~ii~~~~~  220 (244)
T d1rypc_         166 ANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGAN  220 (244)
T ss_dssp             TTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSS
T ss_pred             chhHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCc
Confidence            9999999999999999999999999999999999999999999999999999974

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=7.8e-52  Score=363.86  Aligned_cols=215  Identities=17%  Similarity=0.292  Sum_probs=198.5

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+++. +..++.+||++|++|++|++||..+|++.
T Consensus        11 ~fsp~G~l~QvEyA-----~kav~~G~tvvgi~~~dgVvlaad~r~~~~~-~~~~~~~ki~~I~~~i~~~~sG~~~D~~~   84 (250)
T d1rypb_          11 TFSPSGKLGQIDYA-----LTAVKQGVTSLGIKATNGVVIATEKKSSSPL-AMSETLSKVSLLTPDIGAVYSGMGPDYRV   84 (250)
T ss_dssp             CBCTTSCBHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEECCCSCSS-BCGGGCCSSEEEETTEEEEEEECHHHHHH
T ss_pred             eECCCCeehHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEecccCCcc-ccccccceeEeccCCEEEEeeecccHHHH
Confidence            39999999999999     8999999999999999999999999988754 56788999999999999999999999999


Q ss_pred             HHHHHHHHHh-hhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEE
Q 023965           95 VTDMVSSQLQ-LHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        95 l~~~l~~~~~-~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      ++++++.++. .|+..++++++++.+++.+++.++.|     .||+++++|+||+|+ +||+||.+||+|++.+++++|+
T Consensus        85 l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~rp~~v~~li~G~D~~~gp~Ly~id~~G~~~~~~~~a~  164 (250)
T d1rypb_          85 LVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAI  164 (250)
T ss_dssp             HHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCCEEEEEEEEETTTEEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCCcCeeEEEEEEEecCCCCCEEEEEcCcEEEEEeeEEec
Confidence            9999999986 58899999999999999999988654     379999999999997 6799999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCCCC
Q 023965          168 GSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRT  236 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~~~  236 (274)
                      |+|+.+++++||+.|+++|+++||++++++||+.++.+|. ++.+++|++|++++...+.+..++..+.
T Consensus       165 G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~-s~~~iev~vi~~~~~~~~~~~~v~~~~~  232 (250)
T d1rypb_         165 GKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEF-NGDTIELAIIGDENPDLLGYTGIPTDKG  232 (250)
T ss_dssp             STTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCC-STTTEEEEEECSCCGGGTSEESCSSCCC
T ss_pred             CcchHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhhccC-CCCCEEEEEEeCCCcccccccccccccC
Confidence            9999999999999999999999999999999999999985 6899999999999987777776666544

>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=2.7e-50  Score=348.16  Aligned_cols=219  Identities=58%  Similarity=0.925  Sum_probs=212.7

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|+++|+||++|..+|++.+.++++.++..|++.++.++++..++
T Consensus         1 TTiVgik~~dGVviaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~~a   80 (222)
T d1rypi_           1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSAL   80 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCceeecCCcccEEEEcCCEEEEecccchHHHHHHHHHHHHHHHhhhhhCCCCcHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~  200 (274)
                      +++++.++++++|+++++|+||+|++||+||.+||+|++.+++++|+|+|+++++++||+.|+++||++||++++++||+
T Consensus        81 ~~l~~~~~~~~~p~~~~~l~aG~d~~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea~~l~~~al~  160 (222)
T d1rypi_          81 QMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQ  160 (222)
T ss_dssp             HHHHHHHHHTTTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhccceeEEEEEEcCCCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhcCCCCCCcEEEEEEeCC-CEEEeccccCCCCCCcccCCCcccCc-eeeeeeeeeEecc
Q 023965          201 SGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPNPRTYISSKGYSFPK-KTEVLLTKITPLE  260 (274)
Q Consensus       201 ~~~~~d~~sg~~i~i~vi~k~-g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  260 (274)
                      .++.+|..++++++|++++++ +.++++++..++.+. .+...++||+ +++|++|.++.+.
T Consensus       161 ~a~~~D~~sg~~i~i~vi~~~~~~~~~~~~~~~~~~~-~~~~~~kf~~~~~~v~~~~~~~~~  221 (222)
T d1rypi_         161 AGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVRE-EKQKSYKFPRGTTAVLKESIVNIC  221 (222)
T ss_dssp             HHHHHCTTCCSCEEEEEEETTSCEEEEEEEECCCCCC-CCSSCCCCCTTCSCEEEEEECCCC
T ss_pred             HHhcccCCCCCcEEEEEEEcCCCeEEecCcCCchhhh-hhhhccCCCCCceeeEeeeeEecc
Confidence            999999999999999999997 478899999999998 7899999999 9999999998875

>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=6.4e-51  Score=354.02  Aligned_cols=214  Identities=15%  Similarity=0.206  Sum_probs=202.0

Q ss_pred             CCcc-----ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEec
Q 023965           12 GGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGA   86 (274)
Q Consensus        12 ~g~~-----fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~s   86 (274)
                      .|||     |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+.+.+ ..++.+|||+|+++++|+++
T Consensus         3 ~gyd~~~t~fsp~Gr~~Qveya-----~kav~~G~tvigik~~dgVvlaaD~r~~~~~~-~~~~~~ki~~i~~~i~~~~s   76 (233)
T d1irub_           3 RGYSFSLTTFSPSGKLVQIEYA-----LAAVAGGAPSVGIKAANGVVLATEKKQKSILY-DERSVHKVEPITKHIGLVYS   76 (233)
T ss_dssp             CCCCSBSCCCCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSCEEEEEECCCCCSSB-CSTTCCSSEESSSSEEEEEE
T ss_pred             CCcCCCCCeECCCCcChHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEeCCcccCCc-cccccceEEEecCceEEEEe
Confidence            4666     9999999999999     89999999999999999999999999998765 57889999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeee
Q 023965           87 GTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDT  161 (274)
Q Consensus        87 G~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~  161 (274)
                      |..+|++.+.++++.++..+++.++++++++.+++.+++.++.+     .+|+++++++||+|++||+||.+||+|++.+
T Consensus        77 G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~~~~~ly~id~~G~~~~  156 (233)
T d1irub_          77 GMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFA  156 (233)
T ss_dssp             ECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEEE
T ss_pred             ccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeecccCCceEEEEcCCcceEe
Confidence            99999999999999999999999999999999999999988643     3799999999999999999999999999999


Q ss_pred             eCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          162 LPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       162 ~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      ++++|+|+|+.+++++||+.|+++||++||++++++||+.++++|. ++++++|++|+++|++++.|.++.
T Consensus       157 ~~~~a~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~~~d~-~~~~vev~ii~~~g~~~l~~~eI~  226 (233)
T d1irub_         157 WKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQM-TEDNIEVGICNEAGFRRLTPTEVK  226 (233)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCC-CSSSEEEEEEETTEEEECCHHHHH
T ss_pred             ccceecCCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHhccC-CCCcEEEEEEeCCCeEECCHHHHH
Confidence            9999999999999999999999999999999999999999999987 467899999999999999988763

>d1irug_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.1e-51  Score=360.20  Aligned_cols=210  Identities=14%  Similarity=0.160  Sum_probs=195.3

Q ss_pred             CCCcc-----ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEe
Q 023965           11 KGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCG   85 (274)
Q Consensus        11 ~~g~~-----fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~   85 (274)
                      ++|||     |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+.+.+ ..++.+|||+|++||+|++
T Consensus         4 ~~~yd~~~t~Fsp~Grl~QvEYa-----~~av~~G~t~VGik~~dgVvlaad~~~~~~~~-~~~~~~Ki~~I~~~i~~~~   77 (245)
T d1irug_           4 GTGYDLSASTFSPDGRVFQVEYA-----MKAVENSSTAIGIRCKDGVVFGVEKLVLSKLY-EEGSNKRLFNVDRHVGMAV   77 (245)
T ss_dssp             CSSTTSCTTCCCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSBEEEEEEEECSCTTB-CTTTTCCEEEEETTEEEEE
T ss_pred             ccccCCCCceECCCCeehHHHHH-----HHHHHcCCcEEEEEeCCEEEEEEecccccccc-ccCccceEEEcCCCEEEEe
Confidence            56787     8999999999999     89999999999999999999999999888554 5788899999999999999


Q ss_pred             cCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCe
Q 023965           86 AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGST  159 (274)
Q Consensus        86 sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~  159 (274)
                      ||..+|++.++++++.++..|++.++++++++.+++.|++.++.|     .|||++++|+||+|. +||+||.+||+|++
T Consensus        78 sG~~~D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iDp~G~~  157 (245)
T d1irug_          78 AGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVS  157 (245)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             ccCchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEcCCceE
Confidence            999999999999999999999999999999999999999988765     269999999999996 57999999999999


Q ss_pred             eeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC--CEEEe
Q 023965          160 DTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG--DKEYL  226 (274)
Q Consensus       160 ~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~--g~~~~  226 (274)
                      .+++++|+|+|+..++++||+.|+++||++||++++++||+.++.++...+.+++|.+|+++  +.+.+
T Consensus       158 ~~~~~~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~~~~~~~~  226 (245)
T d1irug_         158 YGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEI  226 (245)
T ss_dssp             EEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEE
T ss_pred             EeeeEEEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEecCCCeEEE
Confidence            99999999999999999999999999999999999999999999888888889999999885  44433

>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=1.1e-50  Score=353.15  Aligned_cols=210  Identities=21%  Similarity=0.181  Sum_probs=195.4

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+++.   .++.+|||+|+++|+|++||..+|++.
T Consensus        11 ~FspdGrl~QvEyA-----~kav~~g~t~igi~~~dgvvlaad~~~~~~l---~~~~~KI~~I~~~i~~~~sG~~~D~~~   82 (233)
T d1rypf_          11 TFSPTGRLFQVEYA-----LEAIKQGSVTVGLRSNTHAVLVALKRNADEL---SSYQKKIIKCDEHMGLSLAGLAPDARV   82 (233)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSEEEEEEECCCSSTT---BCCCCCEEEEETTEEEEEEECHHHHHH
T ss_pred             eECCCCcChHHHHH-----HHHHHcCCCEEEEEECCeEEEEEeccccccC---CcchheEEEcCCCEEEEEeeccccHHH
Confidence            49999999999999     8999999999999999999999999998753   356789999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEec
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGs  169 (274)
                      +.++++.+++.|++.++++++++.+++.|++.+++|     +|||++++|+||+|++||+||++||+|++.+++++|+|+
T Consensus        83 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~RP~gv~~il~G~d~~g~~Ly~idp~G~~~~~~~~aiG~  162 (233)
T d1rypf_          83 LSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGA  162 (233)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECTTSCEEEESEEEEST
T ss_pred             HHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhcccccCCccceEEEEEEcCCCCEEEEEccccceecccEEEecC
Confidence            999999999999999999999999999999988644     479999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHhhc----CCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC-EEEeccccCC
Q 023965          170 GSLAAMAVFESKY----REGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLP  232 (274)
Q Consensus       170 gs~~a~~~Le~~~----~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g-~~~~~~~~~~  232 (274)
                      |+..++++||+.|    +++|+++||++++++||..++.+|..++.+++|++|++++ ++++.+.++.
T Consensus       163 gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~~l~~~ei~  230 (233)
T d1rypf_         163 RSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVA  230 (233)
T ss_dssp             THHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGG
T ss_pred             chHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeEECCHHHHH
Confidence            9999999999765    6799999999999999999999999999999999999984 5666665553

>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=1.7e-50  Score=354.14  Aligned_cols=204  Identities=20%  Similarity=0.234  Sum_probs=192.3

Q ss_pred             CCcc-----ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEec
Q 023965           12 GGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGA   86 (274)
Q Consensus        12 ~g~~-----fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~s   86 (274)
                      +|||     |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.++ .++.+||++|+++|+||.|
T Consensus         2 ~gyd~~~t~fsp~Grl~QvEya-----~kav~~G~t~igik~~dgVvlaad~~~~~~~~~-~~~~~KI~~I~~~i~~~~s   75 (244)
T d1rypg_           2 TGYDLSNSVFSPDGRNFQVEYA-----VKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV-PQKNVKIQVVDRHIGCVYS   75 (244)
T ss_dssp             CCTTSSTTCCCTTSCCHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEEEECCCTTBC-TTTSCCCEEETTTEEEEEE
T ss_pred             CCcCCCCceECCCCeehHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEecccCCCCcc-ccccceEEEccCceEEEEc
Confidence            5676     8999999999999     999999999999999999999999999998665 4567899999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeee
Q 023965           87 GTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDT  161 (274)
Q Consensus        87 G~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~  161 (274)
                      |..+|++.++++++.+++.|++.++++++++.+++.+++.++.|     .|||++++|+||||++||+||.+||+|++.+
T Consensus        76 G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~gp~Ly~idp~Gs~~~  155 (244)
T d1rypg_          76 GLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWG  155 (244)
T ss_dssp             ECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             cchhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCCCCEEEEEcCCccEEe
Confidence            99999999999999999999999999999999999999998765     3799999999999999999999999999999


Q ss_pred             eCeEEEecChHHHHHHHHh---hcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC
Q 023965          162 LPFATMGSGSLAAMAVFES---KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG  221 (274)
Q Consensus       162 ~~~~aiGsgs~~a~~~Le~---~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~  221 (274)
                      ++++|+|+|+..++++||+   .|+++||++||++++++||..+++++..++.+++|.+++.+
T Consensus       156 ~~~~a~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~~  218 (244)
T d1rypg_         156 YKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLS  218 (244)
T ss_dssp             BSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETT
T ss_pred             cCeEecCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEEE
Confidence            9999999999999999995   69999999999999999999999888888889999999754

>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=1e-50  Score=355.27  Aligned_cols=210  Identities=12%  Similarity=0.119  Sum_probs=195.9

Q ss_pred             ccCcchhhHHHhcCCCCCCccccc-cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~-Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      |||+||++|||||     ++|+++ |+|+|||+++||||||+|+|.++ .++..++.+||++|++||+|++||..+|++.
T Consensus        10 fsp~Grl~QvEYA-----~~av~~~g~T~igik~~dgVvlaad~r~~~-~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   83 (243)
T d1rypa_          10 FSPEGRLYQVEYA-----FKATNQTNINSLAVRGKDCTVVISQKKVPD-KLLDPTTVSYIFCISRTIGMVVNGPIPDARN   83 (243)
T ss_dssp             CCTTSCCHHHHHH-----HHHTTTTCCCEEEEECSSEEEEEEECCCCC-TTBCGGGCCSEEECSSSCEEEEESCHHHHHH
T ss_pred             ECCCCeehHHHHH-----HHHHHccCceEEEEEcCCEEEEEEeccccc-cccccCcccceEecCCCEEEEEecCcHHHHH
Confidence            9999999999999     899986 66899999999999999999886 6777888999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEe
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiG  168 (274)
                      +.++++.++..|++.++++++++.+++.+++.++.|     .|||++++|+||||. .||+||++||+|++.+++++|+|
T Consensus        84 l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~~~~~a~G  163 (243)
T d1rypa_          84 AALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATG  163 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTSCCCSCEEEEEEEETTTEEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccccCccceEEEEEEccCCCCeEEEEcCCEEEEecceEEeC
Confidence            999999999999999999999999999999877643     579999999999996 47999999999999999999999


Q ss_pred             cChHHHHHHHHhhcCC-------CCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          169 SGSLAAMAVFESKYRE-------GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       169 sgs~~a~~~Le~~~~~-------~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      +|+..++++||++|++       ++|++||++++++||+.+..+|. ++.+++|++++++|++.+.+.++.
T Consensus       164 ~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~-~~~~iei~iitk~g~~~l~~eeI~  233 (243)
T d1rypa_         164 PKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEF-SKNDLEVGVATKDKFFTLSAENIE  233 (243)
T ss_dssp             TTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCC-CTTSEEEEEEETTEEEECCHHHHH
T ss_pred             ccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCCceEEeCHHHHH
Confidence            9999999999999984       46999999999999999999996 678999999999999998887663

>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-50  Score=353.19  Aligned_cols=211  Identities=23%  Similarity=0.290  Sum_probs=196.5

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+.| ++..++++||++|+++|+|++||..+|++
T Consensus         5 t~fsp~G~l~Qveya-----~~a~~~G~t~Vgi~~~dgVvla~d~r~~~~-~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~   78 (242)
T d1rype_           5 STFSPEGRLFQVEYS-----LEAIKLGSTAIGIATKEGVVLGVEKRATSP-LLESDSIEKIVEIDRHIGCAMSGLTADAR   78 (242)
T ss_dssp             TCBCTTSCBHHHHHH-----HHHHTTSCCEEEEECSSCEEEEEECCCSST-TBCGGGCCCEEEEETTEEEEEEESGGGHH
T ss_pred             ceECCCCcchHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEeCCccCc-CcccCccceEEEcCCCEEEEEeecchhHH
Confidence            469999999999999     899999999999999999999999999986 67778899999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----------cCcceeEEEEEEEeCC-CCEEEEEcCCCCeee
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----------QGHVQAALVLGGVDAT-GPHLHTIYPHGSTDT  161 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----------~~p~~v~lIvaG~D~~-gp~Ly~idp~G~~~~  161 (274)
                      .+.++++.++..|++.++++++++.+++.|++.+++|           .|||++++||||+|.+ +|+||.+||+|++.+
T Consensus        79 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~idp~G~~~~  158 (242)
T d1rype_          79 SMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYR  158 (242)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEE
T ss_pred             HHHHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEcCCCceec
Confidence            9999999999999999999999999999999888754           3799999999999974 599999999999999


Q ss_pred             eCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeC-CCEEEeccccC
Q 023965          162 LPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK-GDKEYLRNHQL  231 (274)
Q Consensus       162 ~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k-~g~~~~~~~~~  231 (274)
                      ++++|+|+|+..++++||++|+++||++||++++++||+.+.++|.. .++++|++|++ +|++++.+.++
T Consensus       159 ~~~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~-~~~~~v~~i~~~~g~~~l~~~~i  228 (242)
T d1rype_         159 YNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLD-ENNAQLSCITKQDGFKIYDNEKT  228 (242)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCC-TTSEEEEEEETTTEEEECCHHHH
T ss_pred             cceeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCC-CCceEEEEEECCCCeEECCHHHH
Confidence            99999999999999999999999999999999999999999988864 56799999986 58888777655

>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=4.7e-50  Score=351.16  Aligned_cols=208  Identities=22%  Similarity=0.282  Sum_probs=193.7

Q ss_pred             ccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHH
Q 023965           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (274)
Q Consensus        16 fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l   95 (274)
                      |||+||++|||||     ++|+++|+|+|||+++||||||+|+|.++|.+ ..++.+|||+|+++|+|++||..+|++.+
T Consensus        12 fsp~Grl~QvEya-----~kav~~G~t~Igik~~dgVvlaad~r~~~~~~-~~~~~~KI~~I~~~i~~~~sG~~~D~~~l   85 (243)
T d1j2pa_          12 FSPDGRLFQVEYA-----REAVKRGATAIGIKCKEGVILIADKRVGSKLL-EKDTIEKIYKIDEHICAATSGLVADARVL   85 (243)
T ss_dssp             CCTTSCCHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEECCCSCTTB-CGGGCCSEEECSSSEEEEEEECHHHHHHH
T ss_pred             CCCCCcchHHHHH-----HHHHHcCCCEEEEEECCEEEEEEecCccccCc-cccccccEeecCCcEEEEeeecccHHHHH
Confidence            9999999999999     89999999999999999999999999999765 45788999999999999999999999999


Q ss_pred             HHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecC
Q 023965           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (274)
Q Consensus        96 ~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsg  170 (274)
                      .++++.++..|++.++++++++.+++.++..++.+     .||+++++|+||+|+ +|+||.+||+|++.+++++|+|+|
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~rP~~~~~il~G~D~-~p~Ly~~Dp~G~~~~~~~~a~G~g  164 (243)
T d1j2pa_          86 IDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVNE-VPKLYETDPSGALLEYKATAIGMG  164 (243)
T ss_dssp             HHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEESS-SEEEEEECTTCCEEEBSEEEESTT
T ss_pred             HHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccCCccceeEEEEEecC-CceEEEEeccCceeeeeEEEeCCC
Confidence            99999999999999999999999999999988743     469999999999985 599999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC--CEEEeccccC
Q 023965          171 SLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG--DKEYLRNHQL  231 (274)
Q Consensus       171 s~~a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~--g~~~~~~~~~  231 (274)
                      +..++++||+.|+++||++||++++++||+.++.+|.. +++++|++++++  +++.+.+.++
T Consensus       165 ~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~~~~d~~-~~~iei~iv~~~~~~~~~l~~~ei  226 (243)
T d1j2pa_         165 RMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELV-PENIEVGYVKVDDRTFKEVSPEEL  226 (243)
T ss_dssp             HHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCC-GGGEEEEEEETTTCCCEECCHHHH
T ss_pred             cHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhcccC-CCceEEEEEEeCCCcEEECCHHHH
Confidence            99999999999999999999999999999999999964 579999999986  4666666554

>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=4.8e-50  Score=351.34  Aligned_cols=214  Identities=16%  Similarity=0.216  Sum_probs=194.9

Q ss_pred             CCCcc-----ccCcchhhHHHhcCCCCCCcccccc-ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEE
Q 023965           11 KGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTG-TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCC   84 (274)
Q Consensus        11 ~~g~~-----fs~~gr~~qveya~~~~~~~a~~~G-ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~   84 (274)
                      .+|||     |||+||++|||||     ++|+++| +|+|||+++||||||+|+|.++ .++..++.+|||+|++||+|+
T Consensus         5 ~~gyd~~~t~Fsp~Grl~QvEYA-----~kav~~gg~t~igIk~~dgVVlaad~r~~~-~~~~~~~~~KI~~I~~~i~~~   78 (244)
T d1irua_           5 SAGFDRHITIFSPEGRLYQVEYA-----FKAINQGGLTSVAVRGKDCAVIVTQKKVPD-KLLDSSTVTHLFKITENIGCV   78 (244)
T ss_dssp             CCTTTTTSSCCCTTSCCHHHHHH-----HHHHHTTCCEEEEEECSSEEEEEEECCCCC-SSBCGGGCCSEEESSSSCEEE
T ss_pred             CCCcCCCCceECCCCeEhHHHHH-----HHHHHhCCccEEEEEcCCEEEEEEeccccc-ccccCCccceEEEecCCcEEE
Confidence            56777     8999999999999     8999986 5899999999999999999885 555577899999999999999


Q ss_pred             ecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC-CCCEEEEEcCCCC
Q 023965           85 GAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGS  158 (274)
Q Consensus        85 ~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~-~gp~Ly~idp~G~  158 (274)
                      +||..+|++.+.++++.++..|++.++++++++.+++.++..++.+     .|||++++||||||+ +||+||.+||+|+
T Consensus        79 ~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~  158 (244)
T d1irua_          79 MTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGY  158 (244)
T ss_dssp             EEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSC
T ss_pred             EecchHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEcCCcc
Confidence            9999999999999999999999999999999999999999887643     489999999999997 5799999999999


Q ss_pred             eeeeCeEEEecChHHHHHHHHhhcC--CCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCE--EEeccccC
Q 023965          159 TDTLPFATMGSGSLAAMAVFESKYR--EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK--EYLRNHQL  231 (274)
Q Consensus       159 ~~~~~~~aiGsgs~~a~~~Le~~~~--~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~--~~~~~~~~  231 (274)
                      +.+++++|+|+|+..++++||++|+  ++|+++||++++++||..++.+|.. +++++|++|++++.  +++.+.++
T Consensus       159 ~~~~~~~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~~-~~~iev~ii~~~~~~~~~l~~~ei  234 (244)
T d1irua_         159 YCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFK-PSEIEVGVVTVENPKFRILTEAEI  234 (244)
T ss_dssp             EEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCC-TTSEEEEEEETTEEEEEECCHHHH
T ss_pred             EEecceEeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEEeCCCcEEECCHHHH
Confidence            9999999999999999999999994  5899999999999999999999964 57899999999874  55555554

>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=4.4e-50  Score=350.34  Aligned_cols=211  Identities=19%  Similarity=0.182  Sum_probs=193.9

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+++..   .+.+||++|+++|+||+||..+|++
T Consensus         8 tiFsp~Grl~QvEYA-----~kav~~G~t~vgik~~dgVvlaad~~~~~~~~---~~~~KI~~I~~~i~~~~sG~~~D~~   79 (238)
T d1iruf_           8 TVWSPQGRIHQIEYA-----MEAVKQGSATVGLKSKTHAVLVALKRAQSELA---AHQKKILHVDNHIGISIAGLTADAR   79 (238)
T ss_dssp             TCCCTTSCCHHHHHH-----HHHHHHSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHHHH
T ss_pred             eeECCCCcchHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEecccccCCC---CccceEEEeCCceEEEEeccchHHH
Confidence            349999999999999     99999999999999999999999999998754   3458999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEe
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMG  168 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiG  168 (274)
                      .++++++.++..|++.++++++++.+++.|+...+.|     .|||++++|+||||++||+||++||+|++.+++++|+|
T Consensus        80 ~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~gp~Ly~~D~~G~~~~~~~~a~G  159 (238)
T d1iruf_          80 LLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIG  159 (238)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESEEEES
T ss_pred             HHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCCCceEEEEcCCCCEEeeeeEEEC
Confidence            9999999999999999999999999999998776543     47999999999999999999999999999999999999


Q ss_pred             cChHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHhhhcCC-CCCCcEEEEEEeCC-CEEEeccccCC
Q 023965          169 SGSLAAMAVFESKYREGL--TKEEGISLVCEAICSGIFNDL-GSGSNVDICVITKG-DKEYLRNHQLP  232 (274)
Q Consensus       169 sgs~~a~~~Le~~~~~~m--s~eeai~la~~al~~~~~~d~-~sg~~i~i~vi~k~-g~~~~~~~~~~  232 (274)
                      +|+..++++||++|+++|  +++||++++++||+.++.++. .++.+|+|++|+++ +++++.+.+++
T Consensus       160 ~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~~~l~~~ei~  227 (238)
T d1iruf_         160 ARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVS  227 (238)
T ss_dssp             TTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGH
T ss_pred             CCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCEEECCHHHHH
Confidence            999999999999999865  899999999999999887654 57899999999998 56777776653

>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=1.3e-49  Score=347.95  Aligned_cols=209  Identities=19%  Similarity=0.216  Sum_probs=193.4

Q ss_pred             cccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHH
Q 023965           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (274)
Q Consensus        15 ~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~   94 (274)
                      .|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+++.++.+.+.+|||+|++||+|++||..+|++.
T Consensus         8 ~fsp~Grl~QvEya-----~kav~~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   82 (241)
T d1rypd_           8 IFSPDGHIFQVEYA-----LEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRI   82 (241)
T ss_dssp             CCBTTTBCHHHHHH-----HHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHH
T ss_pred             eECCCCcEeHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccchHHH
Confidence            49999999999999     8999999999999999999999999999998888889999999999999999999999999


Q ss_pred             HHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeC--CCCEEEEEcCCCCeeeeCeEEE
Q 023965           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        95 l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~--~gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      +++.++.++..|++.++++++++.+++.++..++.|     .||+++++|+||+|+  +||+||.+||+|++.+++++|+
T Consensus        83 l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~~~~~a~  162 (241)
T d1rypd_          83 LIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTI  162 (241)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhccccCcccceEEEEEEccccCcceEEEecCCEEEEeeCeEEE
Confidence            999999999999999999999999999999988755     379999999999995  5799999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCC---CCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCC-EEEeccccC
Q 023965          168 GSGSLAAMAVFESKYRE---GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQL  231 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~---~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g-~~~~~~~~~  231 (274)
                      |+|+..++++||+.|++   +|+++|++++|++||+.+..++   +.+++|+++++++ ++.+.+.++
T Consensus       163 G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~~---~~~iei~ii~~d~~~~~l~~~ei  227 (241)
T d1rypd_         163 GRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTG---AKNIEITVVKPDSDIVALSSEEI  227 (241)
T ss_dssp             STTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCSC---STTEEEEEEETTTEEEECCHHHH
T ss_pred             CcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcCC---CCcEEEEEEECCCCEEECCHHHH
Confidence            99999999999999964   6999999999999999987544   6799999999984 565555443

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.5e-49  Score=346.55  Aligned_cols=209  Identities=20%  Similarity=0.278  Sum_probs=192.3

Q ss_pred             ccccCcchhhHHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHH
Q 023965           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (274)
Q Consensus        14 ~~fs~~gr~~qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~   93 (274)
                      ..|||+||++|||||     ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+|||+|+++|+|++||..+|++
T Consensus         7 t~Fsp~Grl~QvEya-----~kav~~G~Tvvgik~~dgVvla~d~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   80 (243)
T d1irud_           7 TVFSPDGHLFQVEYA-----QEAVKKGSTAVGVRGRDIVVLGVEKKSV-AKLQDERTVRKICALDDNVCMAFAGLTADAR   80 (243)
T ss_dssp             SCCCTTSCCHHHHHH-----HHHHHTSCCEEEECCSSEEEEEECCCCC-CSSSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             eeECCCCcchHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEecccc-CcccCCCccccEEECCCCEEEEEEEchhhHH
Confidence            359999999999999     8999999999999999999999999976 6888899999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhhhcCCCCcHHHHHHHHHHHHHhc-----cCcceeEEEEEEEeCC-CCEEEEEcCCCCeeeeCeEEE
Q 023965           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATM  167 (274)
Q Consensus        94 ~l~~~l~~~~~~~~~~~~~~~~v~~la~~l~~~l~~~-----~~p~~v~lIvaG~D~~-gp~Ly~idp~G~~~~~~~~ai  167 (274)
                      .++++++.++..|++.++++++++.+++++++.++.|     .||+++++|+||+|++ ||+||.+||+|++.+++++|+
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G~~~~~~~~a~  160 (243)
T d1irud_          81 IVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAI  160 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcEEEEeccEEEE
Confidence            9999999999999999999999999999999988654     4799999999999974 799999999999999999999


Q ss_pred             ecChHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC-CEEEeccccC
Q 023965          168 GSGSLAAMAVFESKYREGL--TKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQL  231 (274)
Q Consensus       168 Gsgs~~a~~~Le~~~~~~m--s~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~-g~~~~~~~~~  231 (274)
                      |+|+..++++||++|+++|  +.++++++++++|.....   .++.+++|++|+++ +++++.+.++
T Consensus       161 G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~~~---~~~~~vei~ii~k~~~~~~l~~~eI  224 (243)
T d1irud_         161 GRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ---SGGKNIELAVMRRDQSLKILNPEEI  224 (243)
T ss_dssp             STTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC---TTSTTCCEEEEESSSCEECCCHHHH
T ss_pred             CCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHHhc---CCCCcEEEEEEECCCCEEECCHHHH
Confidence            9999999999999999998  778899998888886553   45789999999987 6777776655

>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=2.6e-46  Score=318.18  Aligned_cols=192  Identities=25%  Similarity=0.369  Sum_probs=186.3

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+|+||||||||+|.++|.++.+++.+|||+|+++|+||+||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TT~igi~~~dgVvlaaD~~~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (201)
T d1irul_           1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLARQCRIYELRNKERISVAAAS   80 (201)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCCEeecCCcccEEEeCCcEEEEEcCccchHHHHHHHHHHHHHHHHHhcCCCCchhHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc-CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (274)
Q Consensus       121 ~~l~~~l~~~~-~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al  199 (274)
                      +++++.+++++ +|+++++|+||+|++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++||
T Consensus        81 ~~l~~~~~~~~~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea~~l~~~~l  160 (201)
T d1irul_          81 KLLANMVYQYKGMGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAI  160 (201)
T ss_dssp             HHHHHHHHTTTTSCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCCceEEEEEEEEecCCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHHHHHHHHHH
Confidence            99999998875 79999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          200 CSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       200 ~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      +.+..+|..++++++|++|+++|++.+.+.++.
T Consensus       161 ~~~~~~d~~sg~~~~v~~i~~~G~~~i~~~ev~  193 (201)
T d1irul_         161 YQATYRDAYSGGAVNLYHVREDGWIRVSSDNVA  193 (201)
T ss_dssp             HHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHH
T ss_pred             HHHHHhCCCCCCceEEEEEeCCceEEECHHHHH
Confidence            999999999999999999999999988887663

>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=3.1e-46  Score=318.85  Aligned_cols=191  Identities=30%  Similarity=0.527  Sum_probs=183.0

Q ss_pred             ccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCC
Q 023965           35 SYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES  114 (274)
Q Consensus        35 ~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~  114 (274)
                      ..+++|||+|||+|+||||||+|+|.+.|.++.+++.+||++|++|++||+||..+|++.+.++++.+++.|+++++++ 
T Consensus         4 ~~v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-   82 (205)
T d1ryph_           4 GEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-   82 (205)
T ss_dssp             TCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-
T ss_pred             CcccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-
Confidence            3478999999999999999999999999999999999999999999999999999999999999999999999999975 


Q ss_pred             cHHHHHHHHHHHHHhccCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHH
Q 023965          115 RVVTALTLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGIS  193 (274)
Q Consensus       115 ~v~~la~~l~~~l~~~~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~  193 (274)
                      ++..+++++++.++++++|+++++|+||+|+ ++|+||.+||.|++.+++++|+|+|+.+++++||+.|+++||++||++
T Consensus        83 ~~~~~~~~~~~~~~~~~~p~~~~~lvaG~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~  162 (205)
T d1ryph_          83 STETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVD  162 (205)
T ss_dssp             CHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCccCceEEEEEEeecCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhcccCHHHHHH
Confidence            4778999999999999999999999999997 569999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEe
Q 023965          194 LVCEAICSGIFNDLGSGSNVDICVITKGDKEYL  226 (274)
Q Consensus       194 la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~  226 (274)
                      ++++||+.++++|+.+|++++|++|+++|++++
T Consensus       163 l~~~al~~a~~rD~~sg~~v~v~iitk~G~~~~  195 (205)
T d1ryph_         163 FIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERL  195 (205)
T ss_dssp             HHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEE
T ss_pred             HHHHHHHHHHHhcCcCCCCEEEEEEcCCceEEE
Confidence            999999999999999999999999999998765

>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=1e-45  Score=313.81  Aligned_cols=192  Identities=22%  Similarity=0.300  Sum_probs=184.5

Q ss_pred             cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        40 Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      .+|+|||+++||||||+|+|.+.|.++.+++.+|||+|++||+|++||..+|++.+.++++.++..|+++++++++++.+
T Consensus         1 m~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (198)
T d1rypk_           1 MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAV   80 (198)
T ss_dssp             CCCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHH
T ss_pred             CeEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh---ccCcceeEEEEEEEeC--CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHH
Q 023965          120 LTLLKSHLFK---YQGHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISL  194 (274)
Q Consensus       120 a~~l~~~l~~---~~~p~~v~lIvaG~D~--~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~l  194 (274)
                      ++++++.+++   +.+||++++|+||||+  +||+||.+||+|++.+++|+++|+|+.+++++||++|+++||++||+++
T Consensus        81 ~~~i~~~~~~~~~~~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~eea~~l  160 (198)
T d1rypk_          81 SSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDL  160 (198)
T ss_dssp             HHHHHHHHHHHTTSSSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccccCCHHHHHHH
Confidence            9999988865   3579999999999996  4799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccC
Q 023965          195 VCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQL  231 (274)
Q Consensus       195 a~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~  231 (274)
                      +++||+.+..+|..++++++|++|+++|++.+.++++
T Consensus       161 ~~~~l~~~~~~d~~s~~~~~v~vi~~dG~~~~~~~~~  197 (198)
T d1rypk_         161 LKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDFQA  197 (198)
T ss_dssp             HHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECCCSC
T ss_pred             HHHHHHHHHHhcCcCCCcEEEEEEcCCCeEEcchhcc
Confidence            9999999999999999999999999999999998875

>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=2.7e-45  Score=312.06  Aligned_cols=195  Identities=33%  Similarity=0.536  Sum_probs=186.0

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|++||+||++|..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TTivai~~~dgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1iruh_           1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTYQLGFHSIELNEPPLVHTAA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCccccCCeeecCCcceEEEcCCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al  199 (274)
                      +++++.++++++|+++++|++|+|+ ++|+||.+||.|++.+.+|+|+|+|+.+++++|++.|+++|+++||++++++||
T Consensus        81 ~~l~~~l~~~~~p~~~~~lvaG~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~ea~~l~~~al  160 (202)
T d1iruh_          81 SLFKEMCYRYREDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANAL  160 (202)
T ss_dssp             HHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccceeEEEEEEEeecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHHHHHHHHHHH
Confidence            9999999999999999999999997 569999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCCCcEEEEEEeCCCEEE--eccccCCCCC
Q 023965          200 CSGIFNDLGSGSNVDICVITKGDKEY--LRNHQLPNPR  235 (274)
Q Consensus       200 ~~~~~~d~~sg~~i~i~vi~k~g~~~--~~~~~~~~~~  235 (274)
                      +.++++|+.+|++++|++|+++|+++  +.+.+++..+
T Consensus       161 ~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~~~~  198 (202)
T d1iruh_         161 ALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFA  198 (202)
T ss_dssp             HHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCC
T ss_pred             HHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhhhhh
Confidence            99999999999999999999999865  5555555443

>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=2.3e-45  Score=319.00  Aligned_cols=210  Identities=20%  Similarity=0.304  Sum_probs=195.4

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhc---
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHT---  110 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~---  110 (274)
                      ++++.+|||+|||+++||||||+|+|.+.|.++.+++.+|||+|++||+|++||..+|++.+.++++.++..|++.+   
T Consensus         2 ~~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~   81 (233)
T d1ryp2_           2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             CCCccccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCC
Confidence            57889999999999999999999999999999999999999999999999999999999999999999999888776   


Q ss_pred             --CCCCcHHHHHHHHHHHHHhc---cCcceeEEEEEEEeCCC-CEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcC-
Q 023965          111 --GRESRVVTALTLLKSHLFKY---QGHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR-  183 (274)
Q Consensus       111 --~~~~~v~~la~~l~~~l~~~---~~p~~v~lIvaG~D~~g-p~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~-  183 (274)
                        ++.++++.+++++++.++..   .+|+++++|+||+|.+| |+||.+||+|++.+++++|+|+|+.+++++||+.|+ 
T Consensus        82 ~~~~~~~~~~~a~~l~~~~y~~~~~~~P~~~~~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~  161 (233)
T d1ryp2_          82 DAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDR  161 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCCS
T ss_pred             CCCcccCHHHHHHHHHHHHHhhccccCCceeEEEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHHHHHhh
Confidence              56789999999999988643   47999999999999865 789999999999999999999999999999999997 


Q ss_pred             ----CCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCC-CEEEeccccCCC-CCCcccC-CCc
Q 023965          184 ----EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPN-PRTYISS-KGY  243 (274)
Q Consensus       184 ----~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~-g~~~~~~~~~~~-~~~~~~~-~~~  243 (274)
                          ++|+++||++++++||+.++.||+.++++|+|++|++| |+++..|++++. .|.|++. .+|
T Consensus       162 ~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~~i~i~~itkd~g~~~~~~~~ie~~~~~~a~~~~~~  228 (233)
T d1ryp2_         162 ESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAKDIKGY  228 (233)
T ss_dssp             GGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSCCCGGGGGCCSS
T ss_pred             cccccccCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCCCEEECChhcchhhhhhHhhhccCc
Confidence                79999999999999999999999999999999999997 799999999966 8998774 444

>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=5.7e-45  Score=312.37  Aligned_cols=193  Identities=26%  Similarity=0.387  Sum_probs=184.9

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+|+||||||+|+|.++|.++.+++.+|||+|+++|+||+||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TT~iai~~kdgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (212)
T d1rypl_           1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAAS   80 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEeccchHHHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc-CcceeEEEEEEEeC-CCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ-GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (274)
Q Consensus       121 ~~l~~~l~~~~-~p~~v~lIvaG~D~-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~a  198 (274)
                      +++++.+|+|+ .|+.+..+++|+|+ +||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++|
T Consensus        81 ~~ls~~~~~~~~~p~~~~~~l~G~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~ea~~l~~~a  160 (212)
T d1rypl_          81 KILSNLVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRS  160 (212)
T ss_dssp             HHHHHHHHHTTTSCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCcceEeeeeEeecCCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccCCCCHHHHHHHHHHH
Confidence            99999998875 57888888888876 57999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCC
Q 023965          199 ICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPN  233 (274)
Q Consensus       199 l~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~  233 (274)
                      |+.+..+|..++++++|++|+++|++++.+.++.+
T Consensus       161 l~~~~~rd~~sg~~v~v~vi~~~g~~~~~~~ev~~  195 (212)
T d1rypl_         161 ILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGE  195 (212)
T ss_dssp             HHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHH
T ss_pred             HHHHHHhcCCCCCceEEEEEcCCceEEeCHHHHHH
Confidence            99999999999999999999999999999888754

>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=5.1e-45  Score=313.61  Aligned_cols=207  Identities=17%  Similarity=0.198  Sum_probs=194.6

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhh-hcCC
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-HTGR  112 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~-~~~~  112 (274)
                      ..++.+|||+|||+++||||||+|+|.+.|.++..++.+||++|+++++||.+|..+|++.+.++++.++..++. .++.
T Consensus         2 ~~~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (217)
T d1iru2_           2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (217)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCCcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCC
Confidence            466789999999999999999999999999999999999999999999999999999999999999999987764 5679


Q ss_pred             CCcHHHHHHHHHHHHHhc---cCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcC--CCCC
Q 023965          113 ESRVVTALTLLKSHLFKY---QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR--EGLT  187 (274)
Q Consensus       113 ~~~v~~la~~l~~~l~~~---~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~--~~ms  187 (274)
                      +++++.+++++++.++.+   .+|+++++|+||+|.++|+||.+||+|++.+++++|+|+|+.+++++||+.|+  ++||
T Consensus        82 ~~~v~~~a~~l~~~~y~~~~~~~p~~~~~li~G~d~~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~lt  161 (217)
T d1iru2_          82 SYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLS  161 (217)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCCC
T ss_pred             CCCHHHHHHHHHHHHHHhccccCcccceEEEEEEcCCCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhcccCCCC
Confidence            999999999999988643   47999999999999989999999999999999999999999999999999765  8999


Q ss_pred             HHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCCCCCcccC
Q 023965          188 KEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISS  240 (274)
Q Consensus       188 ~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~~~~~~~~  240 (274)
                      ++||++++++||+.++.+|..++++++|++|+++|+++..|++++..|.+++.
T Consensus       162 ~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi~~~G~~~~~~~~~~~~~~~a~~  214 (217)
T d1iru2_         162 QTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTETNWDIAHM  214 (217)
T ss_dssp             HHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECCCCCCGGGGC
T ss_pred             HHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEeCCCEEEcCCeeccccHHHHhh
Confidence            99999999999999999999999999999999999999999999999998653

>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=4.1e-44  Score=304.09  Aligned_cols=192  Identities=27%  Similarity=0.432  Sum_probs=184.3

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.+.|.++.+++.+|||+|+++|+||+||..+|++.+.++++.+++.|++.++++++++.++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~s~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (202)
T d1j2qh_           1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKIEANLYEIRRERKPTVRAIA   80 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCeeccCccceEEEecCcEEEEecCcchhHHHHHHHHHHHhhhhhhccCCCccHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc-CcceeEEEEEEEeCCCCEEEEEcCCCCeeee-CeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (274)
Q Consensus       121 ~~l~~~l~~~~-~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~-~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~a  198 (274)
                      +++++.++.++ +|+++++|+||+|.+||+||.+||+|++.++ .++|+|+|+.+++++||++|+++||++||++++++|
T Consensus        81 ~~~~~~~~~~~~~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~ea~~l~~~a  160 (202)
T d1j2qh_          81 TLTSNLLNSYRYFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRA  160 (202)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcccceeeEEEEEEEcCCCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Confidence            99999998875 6999999999999999999999999998775 599999999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCC
Q 023965          199 ICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       199 l~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~  232 (274)
                      |+.++++|..++++++|++|+++|++.+.|.++.
T Consensus       161 l~~~~~~d~~~g~~v~v~~i~~~g~~~~~~~ei~  194 (202)
T d1j2qh_         161 IYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVE  194 (202)
T ss_dssp             HHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHH
T ss_pred             HHHHHHhcCCCCCeEEEEEEECCCEEEeCHHHHH
Confidence            9999999999999999999999999988887763

>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=4.4e-44  Score=304.68  Aligned_cols=191  Identities=29%  Similarity=0.426  Sum_probs=181.9

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.+.|+++.+++.+|||+|+++|+||+||..+|++.+.++++.+++.+++.++++++++.++
T Consensus         1 TT~igi~~kdgVvia~D~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a   80 (203)
T d1yarh1           1 TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNMPIEAVA   80 (203)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCEeecCCcccEEEecCCeeeecCCCcchHHHHHHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcc-CcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (274)
Q Consensus       121 ~~l~~~l~~~~-~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~al  199 (274)
                      +++++.+++++ +|+++++|+||+|. +|+||.+||+|++.+++++|+|+|+..++++||++|+++||++||++++++||
T Consensus        81 ~~l~~~~~~~~~~p~~~~~lvaG~d~-~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea~~l~~~~l  159 (203)
T d1yarh1          81 TLLSNMLNQVKYMPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAI  159 (203)
T ss_dssp             HHHHHHHHHTTTSCCCEEEEEEEESS-SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccCCccceeEEEEEcC-CCeeEecCCccceecccccccCCCcHHHHHHHHHhccCCCCHHHHHHHHHHHH
Confidence            99999988775 79999999999985 59999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhhcCCCCCCcEEEEEEeC-CCEEEeccccCC
Q 023965          200 CSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLP  232 (274)
Q Consensus       200 ~~~~~~d~~sg~~i~i~vi~k-~g~~~~~~~~~~  232 (274)
                      +.+..+|..++++++|++|++ +|++.+.+.++.
T Consensus       160 ~~~~~~d~~~~~~v~v~ii~~~~g~~~l~~~ei~  193 (203)
T d1yarh1         160 SAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIE  193 (203)
T ss_dssp             HHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHH
T ss_pred             HHHHHhcCCCCCeEEEEEEECCCCEEECCHHHHH
Confidence            999999999999999999986 577777776553

>d1ryp1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=3.3e-42  Score=296.58  Aligned_cols=192  Identities=20%  Similarity=0.277  Sum_probs=179.6

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcC-C
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-R  112 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~-~  112 (274)
                      .+.+.+|+|+|||+++||||||+|+|.+.|.++..++.+||++|++|++|++||..+|++.+.++++.++..|++.++ +
T Consensus         3 ~py~~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~   82 (222)
T d1ryp1_           3 NPYGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDK   82 (222)
T ss_dssp             CCCCCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCccCCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCC
Confidence            556789999999999999999999999999999999999999999999999999999999999999999999988765 5


Q ss_pred             CCcHHHHHHHHHHHHHhc-cCcceeEEEEEEEeCCC-CEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcC-------
Q 023965          113 ESRVVTALTLLKSHLFKY-QGHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR-------  183 (274)
Q Consensus       113 ~~~v~~la~~l~~~l~~~-~~p~~v~lIvaG~D~~g-p~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~-------  183 (274)
                      .+++..+++++++.++.. .+|+++++|++|+|++| |+||.+||+|++.+++++|+|+|+.+++++||+.|+       
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~~~~  162 (222)
T d1ryp1_          83 KLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEP  162 (222)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCTTCBCT
T ss_pred             CCcHHHHHHHHHHHHHhhhhhhheeeeeEEEEeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhccccccCc
Confidence            688888898888877754 47999999999999865 789999999999999999999999999999999997       


Q ss_pred             ----------CCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          184 ----------EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       184 ----------~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                                ++||++||++++++||+.+..+|+.+|++++|++|+++|++.
T Consensus       163 ~~~~~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~v~v~iitkdGv~~  214 (222)
T d1ryp1_         163 GTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRK  214 (222)
T ss_dssp             TSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEE
T ss_pred             ccchhhhcccccccHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEeCCCEEE
Confidence                      689999999999999999999999999999999999999863

>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=1e-42  Score=301.51  Aligned_cols=197  Identities=16%  Similarity=0.211  Sum_probs=170.9

Q ss_pred             HHHhcCCCCCCccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHH
Q 023965           24 MLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQL  103 (274)
Q Consensus        24 qveya~~~~~~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~  103 (274)
                      |+|||     ++|+++|+|+|||+|+||||||+|+|.++        .+|||+|++||+||+||..+|++.++++++.++
T Consensus         8 q~eyA-----~~av~~GtT~vgi~~~~GVvlaad~r~~s--------~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~   74 (227)
T d1q5qa_           8 RSELA-----RKGIARGRSVVVLTFRDGVLFVAENPSTA--------LHKVSELYDRLGFAAVGKYNEFENLRRAGIVHA   74 (227)
T ss_dssp             HHHHH-----HHHHHTSCCEEEEECSSEEEEEECCSCSS--------SCSEEEEETTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             HHHHH-----HHHHhcCCCEEEEEECCEEEEEEccCCCC--------cceEEEecCceEEEecCchHHHHHHHHHHHHHH
Confidence            99999     89999999999999999999999999754        489999999999999999999999999999999


Q ss_pred             hhhhhhcCC-CCcHHHHHHHHHHHH----HhccCcceeEEEEEEEeC----CCCEEEEEcCCCCeeeeC-eEEEecChHH
Q 023965          104 QLHRYHTGR-ESRVVTALTLLKSHL----FKYQGHVQAALVLGGVDA----TGPHLHTIYPHGSTDTLP-FATMGSGSLA  173 (274)
Q Consensus       104 ~~~~~~~~~-~~~v~~la~~l~~~l----~~~~~p~~v~lIvaG~D~----~gp~Ly~idp~G~~~~~~-~~aiGsgs~~  173 (274)
                      +.|++.++. +++++.+++.+++.+    +...|||++++|+||||.    +||+||.+||+|++.+++ +++.|+++..
T Consensus        75 ~~~~~~~~~~~~~~~~la~~~~~~~~~~~~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~  154 (227)
T d1q5qa_          75 DMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEP  154 (227)
T ss_dssp             HHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHH
T ss_pred             HHHHHHhCCCCCcHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHH
Confidence            999999984 688888888777654    234589999999999985    469999999999988766 5667778999


Q ss_pred             HHHHHHhhcCCCCCHHHHHHHHHHHHHHhhhcCC----CCCCcEEEEEEeCCC----EEEeccccCCC
Q 023965          174 AMAVFESKYREGLTKEEGISLVCEAICSGIFNDL----GSGSNVDICVITKGD----KEYLRNHQLPN  233 (274)
Q Consensus       174 a~~~Le~~~~~~ms~eeai~la~~al~~~~~~d~----~sg~~i~i~vi~k~g----~~~~~~~~~~~  233 (274)
                      ++++|+++|+++||++||+++|++||+.++.+|.    ..+.+++|.+++++|    ++.+.+.++..
T Consensus       155 ~~~~Le~~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~~~~~fr~l~~~ei~~  222 (227)
T d1q5qa_         155 IATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQ  222 (227)
T ss_dssp             HHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHT
T ss_pred             HHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCCCccceEEcCHHHHHH
Confidence            9999999999999999999999999999998874    346789999999987    56666655543

>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=6.6e-42  Score=291.43  Aligned_cols=189  Identities=20%  Similarity=0.286  Sum_probs=179.5

Q ss_pred             cccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCc
Q 023965           36 YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR  115 (274)
Q Consensus        36 a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~  115 (274)
                      +.-+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++
T Consensus         3 ~~~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   82 (204)
T d1iruj_           3 MSYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIK   82 (204)
T ss_dssp             TTSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCC
T ss_pred             eeeCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccc
Confidence            34589999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhc-cCcceeEEEEEEEeCC--CCEEEEEcCCCCeee-eCeEEEecChHHHHHHHHhhcCCCCCHHHH
Q 023965          116 VVTALTLLKSHLFKY-QGHVQAALVLGGVDAT--GPHLHTIYPHGSTDT-LPFATMGSGSLAAMAVFESKYREGLTKEEG  191 (274)
Q Consensus       116 v~~la~~l~~~l~~~-~~p~~v~lIvaG~D~~--gp~Ly~idp~G~~~~-~~~~aiGsgs~~a~~~Le~~~~~~ms~eea  191 (274)
                      ++.+++++++.++.+ ++|+++++||||+|++  +|++|.+||.|.... ..++++|+|+.+++++|++.|+++||++||
T Consensus        83 ~~~~a~~l~~~~~~~~~~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~~ms~~ea  162 (204)
T d1iruj_          83 PYTLMSMVANLLYEKRFGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHL  162 (204)
T ss_dssp             HHHHHHHHHHHHHTTTTSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCSSCCHHHH
T ss_pred             hHHHHHHHHHHHHHhhhccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhccccCCCHHHH
Confidence            999999999999876 4699999999999974  478999999998766 568999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEE
Q 023965          192 ISLVCEAICSGIFNDLGSGSNVDICVITKGDKE  224 (274)
Q Consensus       192 i~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~  224 (274)
                      ++++++||+.+..+|..++++++|++|+++|++
T Consensus       163 ~~l~~~al~~a~~rd~~sg~~~~v~ii~k~gi~  195 (204)
T d1iruj_         163 FETISQAMLNAVDRDAVSGMGVIVHIIEKDKIT  195 (204)
T ss_dssp             HHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEE
T ss_pred             HHHHHHHHHHHHhhcccCCCcEEEEEEeCCCEE
Confidence            999999999999999999999999999999987

>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=3.7e-41  Score=286.27  Aligned_cols=190  Identities=21%  Similarity=0.273  Sum_probs=179.0

Q ss_pred             ccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCC
Q 023965           35 SYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES  114 (274)
Q Consensus        35 ~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~  114 (274)
                      +...+|+|+|||+++||||||+|+|.+.|.++..++.+|||++ ++++|+++|..+|++.+.++++.+++.|++.++.++
T Consensus         3 p~~~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~   81 (204)
T d1rypj_           3 PSSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAI   81 (204)
T ss_dssp             GGGSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CCccCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCC
Confidence            3556899999999999999999999999999999999999999 599999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHHhc-cCcceeEEEEEEEeC-CC-CEEEEEcCCCCeeee-CeEEEecChHHHHHHHHhhcCCCCCHHH
Q 023965          115 RVVTALTLLKSHLFKY-QGHVQAALVLGGVDA-TG-PHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEE  190 (274)
Q Consensus       115 ~v~~la~~l~~~l~~~-~~p~~v~lIvaG~D~-~g-p~Ly~idp~G~~~~~-~~~aiGsgs~~a~~~Le~~~~~~ms~ee  190 (274)
                      +++.++++|++.++.+ ++|+++++|++|+|+ +| |+||++||+|++.++ .++++|+|+.+++++|++.|+++||++|
T Consensus        82 ~~~~la~~l~~~l~~~~~~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~ms~~e  161 (204)
T d1rypj_          82 EPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPED  161 (204)
T ss_dssp             CHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSSCCHHH
T ss_pred             cchHHHHHHHHHHHhhcccceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccCCCHHH
Confidence            9999999999999865 479999999999996 45 899999999999876 5899999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEEE
Q 023965          191 GISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (274)
Q Consensus       191 ai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~~  225 (274)
                      |++++++||..+.++|..++++++|++|+++|++.
T Consensus       162 a~~l~~~al~~a~~~d~~sg~~~~v~ii~kdg~~~  196 (204)
T d1rypj_         162 LFETISQALLNAADRDALSGWGAVVYIIKKDEVVK  196 (204)
T ss_dssp             HHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEEE
T ss_pred             HHHHHHHHHHHHHHhcCccCCeEEEEEEECCceEE
Confidence            99999999999999999999999999999999763

>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=4.3e-41  Score=282.52  Aligned_cols=194  Identities=19%  Similarity=0.293  Sum_probs=184.6

Q ss_pred             cceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        40 Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      .||||||+++||||||+|+|.+.|.++.+++.+|||+|+++++|+++|..+|++.+.++++.+++.|+..++.+++++.+
T Consensus         1 Mt~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~   80 (199)
T d1iruk_           1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAA   80 (199)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHH
T ss_pred             CeEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHH
Confidence            37999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHh---ccCcceeEEEEEEEeCC-CCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHH
Q 023965          120 LTLLKSHLFK---YQGHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (274)
Q Consensus       120 a~~l~~~l~~---~~~p~~v~lIvaG~D~~-gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la  195 (274)
                      ++.+++.++.   +.+|++++++++|+|.+ +|+||.+||.|.+.+.+++++|+|+.+++++|++.|+++|+++||++++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~ea~~l~  160 (199)
T d1iruk_          81 ANFTRRNLADCLRSRTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELL  160 (199)
T ss_dssp             HHHHHHHHHHHHTSSSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccCCcceeeeecceeccCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHHHHHHH
Confidence            9999887753   35799999999999985 5999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCCCCCCcEEEEEEeCCCEEEeccccCCC
Q 023965          196 CEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPN  233 (274)
Q Consensus       196 ~~al~~~~~~d~~sg~~i~i~vi~k~g~~~~~~~~~~~  233 (274)
                      ++||+.+.++|+.+|++++|++|+++|++.+++.+++.
T Consensus       161 ~~al~~~~~~d~~sg~~~~v~vv~~~g~~~~~~~~~~~  198 (199)
T d1iruk_         161 RKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNISFPK  198 (199)
T ss_dssp             HHHHHHHHHTBCBCCCCEEEEEEETTEEECCCCBCCCC
T ss_pred             HHHHHHHHHhcCCcCCceEEEEEcCCCeEEcCCccCCC
Confidence            99999999999999999999999999999999887765

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3e-40  Score=281.33  Aligned_cols=191  Identities=19%  Similarity=0.280  Sum_probs=181.5

Q ss_pred             CccccccceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCC
Q 023965           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (274)
Q Consensus        34 ~~a~~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~  113 (274)
                      ...+.+|||+|||+++||||||+|+|.+.|.++..++.+||++|++|++++++|..+|++.+.++++.+++.+++.++.+
T Consensus         3 ~p~~~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~   82 (213)
T d1iru1_           3 SPYVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKA   82 (213)
T ss_dssp             CSCCCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             CCccCCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCc
Confidence            44567999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcHHHHHHHHHHHHHhcc-CcceeEEEEEEEeCC-CCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcC--------
Q 023965          114 SRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR--------  183 (274)
Q Consensus       114 ~~v~~la~~l~~~l~~~~-~p~~v~lIvaG~D~~-gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~--------  183 (274)
                      +++..+++.+++.++.++ +|++++++++|+|.+ +|++|.+||.|++.+++++++|+|+.+++++||+.|+        
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~~  162 (213)
T d1iru1_          83 MTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVE  162 (213)
T ss_dssp             CCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSCC
T ss_pred             hhHHHHHHHHHHHHHHHHhhhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhccc
Confidence            999999999999998764 689999999999985 5899999999999999999999999999999998874        


Q ss_pred             -CCCCHHHHHHHHHHHHHHhhhcCCCCCCcEEEEEEeCCCEE
Q 023965          184 -EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKE  224 (274)
Q Consensus       184 -~~ms~eeai~la~~al~~~~~~d~~sg~~i~i~vi~k~g~~  224 (274)
                       ++||++||++++++||..+.++|+.++++++|++|+++|++
T Consensus       163 ~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G~~  204 (213)
T d1iru1_         163 HVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIR  204 (213)
T ss_dssp             CCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEE
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCCEE
Confidence             78999999999999999999999999999999999999986

>d1q5qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=4.7e-40  Score=283.11  Aligned_cols=192  Identities=21%  Similarity=0.238  Sum_probs=179.3

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.++|+++..++.+||++|+++++|+++|..+|++.+.++++.++..|++.++.++++..++
T Consensus         1 TTivgi~~kdgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T d1q5qh_           1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKA   80 (224)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeecCCcceEEEeCCcEEEEecccchHHHHHHHHHHHHhHHHHHhhCCCccHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhc----cCcceeEEEEEEEeC------CCCEEEEEcCCCCeeee--CeEEEecChHHHHHHHHhhcCCCCCH
Q 023965          121 TLLKSHLFKY----QGHVQAALVLGGVDA------TGPHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKYREGLTK  188 (274)
Q Consensus       121 ~~l~~~l~~~----~~p~~v~lIvaG~D~------~gp~Ly~idp~G~~~~~--~~~aiGsgs~~a~~~Le~~~~~~ms~  188 (274)
                      +.+++.++.+    .+|+++.++++|++.      .+|+||.+||+|+..++  +++|+|+|+.+|+++||+.|+++||+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~~~mt~  160 (224)
T d1q5qh_          81 NRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDE  160 (224)
T ss_dssp             HHHHHHHHTTHHHHTTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCCTTCCH
T ss_pred             HHHHHHHHHhhcccccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhcccCCH
Confidence            9999988755    368888888888873      46999999999998764  78999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcCCCCCCc-------EEEEEEeCCCEEEeccccCC
Q 023965          189 EEGISLVCEAICSGIFNDLGSGSN-------VDICVITKGDKEYLRNHQLP  232 (274)
Q Consensus       189 eeai~la~~al~~~~~~d~~sg~~-------i~i~vi~k~g~~~~~~~~~~  232 (274)
                      +||++++++||+.++.+|..||++       +++++|+++|++.+.+.++.
T Consensus       161 ~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~i~~~g~~~l~~~ei~  211 (224)
T d1q5qh_         161 ETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTS  211 (224)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhccccCCcccccccceEEEEEeCCcEEEcCHHHHH
Confidence            999999999999999999999875       89999999999988876654

>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=99.96  E-value=1.1e-29  Score=210.96  Aligned_cols=176  Identities=14%  Similarity=0.033  Sum_probs=134.7

Q ss_pred             cccceEEEEEeCCEEEEEEeCCCcCCceeecc-CcCeeEEecCc-EEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCc
Q 023965           38 KTGTTIVGLIFQNGVILGADTRATAGSIVCDK-NCEKIHYMAPN-IYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR  115 (274)
Q Consensus        38 ~~Gttivgi~~~dGVVlaaD~r~t~g~~i~~~-~~~KI~~I~~~-I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~  115 (274)
                      -+|||+|||+|+||||||+|+|+|.|+++..+ ..+|++.++++ ++++.+|..+|.+.+.+.++.+...++........
T Consensus         3 ~~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (180)
T d2z3ba1           3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLKRAAV   82 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             CCCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhccccchhHH
Confidence            47999999999999999999999999877776 57889999775 77777999999999999988887766543322222


Q ss_pred             HHHHHHHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHH
Q 023965          116 VVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (274)
Q Consensus       116 v~~la~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la  195 (274)
                      .......+...++++..++......+|++..+++++..++.      +|.|+|||+.+|+++|++.|+++||++||++++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~a~GSGs~~A~g~l~~~~~~~~s~~eA~~l~  156 (180)
T d2z3ba1          83 ELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSGTGEVIEPDD------GILAIGSGGNYALAAGRALKKHAGESMSASEIA  156 (180)
T ss_dssp             HHHHHHHHCTTGGGCCCCEEEECSSCEEEECTTCCEECCSS------SEEEESTTHHHHHHHHHHHHHHHGGGCCHHHHH
T ss_pred             HHHHHHhHHHHHHHhhcceeeeeccccccccCCceeecccc------cEEEEcCchHHHHHHHHHHhhcCCCccCHHHHH
Confidence            22111111112223333444444445555555666555554      489999999999999999999999999999999


Q ss_pred             HHHHHHhhhcCCCCCCcEEEEEEe
Q 023965          196 CEAICSGIFNDLGSGSNVDICVIT  219 (274)
Q Consensus       196 ~~al~~~~~~d~~sg~~i~i~vi~  219 (274)
                      ++||+.|.++|+.+|++++|.+|.
T Consensus       157 ~~Al~~A~e~dvyT~~~~~~~~i~  180 (180)
T d2z3ba1         157 RAALETAGEICVYTNDQIILEELE  180 (180)
T ss_dssp             HHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             HHHHHHHHhhcEEcCCcEEEEEeC
Confidence            999999999999999999998773

>d1m4ya_ d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Thermotoga maritima [TaxId: 2336]

Probab=99.94  E-value=8.8e-27  Score=191.32  Aligned_cols=170  Identities=16%  Similarity=0.035  Sum_probs=134.8

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcEEEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~la  120 (274)
                      ||+|||+++||||||+|+|.|.|+++.+++.+|+++|+++++++++|..+|.+.+...+......+......     ...
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~~~~~-----~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGNLT-----KAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTCHH-----HHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhhccch-----hhH
Confidence            799999999999999999999999999999999999999999999999999998888776665544332211     111


Q ss_pred             HHHHHHHHhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcC-CCCCHHHHHHHHHHHH
Q 023965          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR-EGLTKEEGISLVCEAI  199 (274)
Q Consensus       121 ~~l~~~l~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~-~~ms~eeai~la~~al  199 (274)
                      ......+....-++....++.+.+.++|+++..|+.|.....++.|+|||+.+|+++|+..|+ ++|+   |.+++++||
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~---a~el~~~Ai  152 (171)
T d1m4ya_          76 VELAKDWRTDRVLRRLEALLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLS---AREIVEKAM  152 (171)
T ss_dssp             HHHHHHHHHCTTGGGCCCEEEEECSSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCC---HHHHHHHHH
T ss_pred             HHHHHHHHHhhhhcccccccceecCCcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccCCCCC---HHHHHHHHH
Confidence            112222211111122223444566788999999999999999999999999999999998765 5776   777899999


Q ss_pred             HHhhhcCCCCCCcEEEEEE
Q 023965          200 CSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       200 ~~~~~~d~~sg~~i~i~vi  218 (274)
                      +.|.++|+.+|++++|..|
T Consensus       153 ~~A~e~dvyTg~~~~i~~~  171 (171)
T d1m4ya_         153 TIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHhhceEcCCcEEEEEC
Confidence            9999999999999998653

>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=99.94  E-value=1.1e-26  Score=191.13  Aligned_cols=170  Identities=16%  Similarity=0.133  Sum_probs=128.8

Q ss_pred             ceEEEEEeCCEEEEEEeCCCcCCceeeccCcCeeEEecCcE-EEEecCChhhHHHHHHHHHHHHhhhhhhcCCCCcHHHH
Q 023965           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNI-YCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (274)
Q Consensus        41 ttivgi~~~dGVVlaaD~r~t~g~~i~~~~~~KI~~I~~~I-~~~~sG~~aD~~~l~~~l~~~~~~~~~~~~~~~~v~~l  119 (274)
                      ||+|||+++||||||+|+|++.|+++.+++++||++|++++ +|+.+|...+.+.+.+..+.+...++     ..... .
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~-~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQ-----GHLLK-S   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTT-----TCHHH-H
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHhhc-----Ccchh-H
Confidence            79999999999999999999999999999999999998875 44556666666666555444433332     22222 2


Q ss_pred             HHHHHHHH-HhccCcceeEEEEEEEeCCCCEEEEEcCCCCeeeeCeEEEecChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 023965          120 LTLLKSHL-FKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (274)
Q Consensus       120 a~~l~~~l-~~~~~p~~v~lIvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeai~la~~a  198 (274)
                      +..+...+ .....+.....++++.+..++.++..++.|.+.+.++.|+|||+.+|++.|+.+|+  ++.+||.+++++|
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~A~ela~~A  152 (173)
T d1g3ka_          75 AVELAKDWRTDRALRKLEAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELSAHEIVEKS  152 (173)
T ss_dssp             HHHHHHHHHHSTTGGGCCCEEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCCHHHHHHHH
Confidence            23333332 22222233334444444566999999999999999999999999999999998885  4455788999999


Q ss_pred             HHHhhhcCCCCCCcEEEEEE
Q 023965          199 ICSGIFNDLGSGSNVDICVI  218 (274)
Q Consensus       199 l~~~~~~d~~sg~~i~i~vi  218 (274)
                      |+.|.++|+.+|++++|..|
T Consensus       153 i~~Aae~dvyTgd~~~i~~~  172 (173)
T d1g3ka_         153 LRIAGDICVFTNTNFTIEEL  172 (173)
T ss_dssp             HHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHhhcEEcCCcEEEEEC
Confidence            99999999999999999876