Citrus Sinensis ID: 024919

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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
Protein Sequence
MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFPT
Secondary Structure (PSIPRED)
cccccccccccccccccccHHHHHHHHcccccccccccccccEEEEEEccEEEEEEccccccccEEEcccccEEEEEcccEEEEccccHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHccccccEEEEEEEEEcccccEEEEEcccccEEEccEEEEcccHHHHHHHHcccccccccHHHHHHHHHHHHHHHHcccccccccEEEEEEccccEEEEccccccccccccccccccccccccEEEEEEEEcc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccHHHHHHHHHcccccccccccccccEEEEEEccEEEEEEcccEEEccEEEEcccccEEEEEccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHccccccEEEEEEEEEccEEEEEEEcccccEEEccEEEEcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHcccccccEEEEEEEcccEEEEcccccccccccEccccccccccccEEEEEEEccc
Coil and Loop (DISEMBL)
mdnanigippkggfsfdlcrrndmlskkgivpppsyrktgttIVGLIFqngvilgadtratagsivcdkncekihymapniyccgagtaadtEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGgvdatgphlhtiyphgstdtlpfatmgsgSLAAMAVFESKyregltkeegISLVCEAICSGIfndlgsgsnvdicvitkgdkeylrnhqlpnprtyisskgysfpkktegtcitklfpt
Flexible Loop (DISEMBL)
mdnanigippkggfSFDLCRRNDMLskkgivpppsyrkTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIfndlgsgsnVDICVITKGDKeylrnhqlpnprtyisskgysfpkktegtcitklfpt
Low Complexity Region (SEG)
MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFPT
Disordered region (IsUnstruct)
************GFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYIS**GY********TCI******
Disordered Region (DISOPRED)
**********KGGFSFDLCRRN*************YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTY*******FPKKTEGTCITKLFP*
Disordered Region (DISEMBL)
MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFPT
Disordered Region (DISPRO)
**********KGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLF*T
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MDNANIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFPT
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	260	2.2.26 [Sep-21-2011]
Q7DLS1	274	Proteasome subunit beta t	yes	no	0.988	0.937	0.822	1e-124
O23710	273	Proteasome subunit beta t	yes	no	0.988	0.941	0.810	1e-123
Q99436	277	Proteasome subunit beta t	yes	no	0.9	0.844	0.606	9e-83
P70195	277	Proteasome subunit beta t	yes	no	0.9	0.844	0.610	1e-82
Q2TBP0	277	Proteasome subunit beta t	yes	no	0.865	0.812	0.626	2e-82
A1XQU1	277	Proteasome subunit beta t	yes	no	0.865	0.812	0.626	3e-82
Q54QR2	266	Proteasome subunit beta t	yes	no	0.888	0.868	0.649	3e-82
Q9JHW0	277	Proteasome subunit beta t	yes	no	0.865	0.812	0.626	3e-82
P25043	261	Proteasome subunit beta t	yes	no	0.907	0.904	0.560	6e-73
Q09841	267	Probable proteasome subun	yes	no	0.930	0.906	0.549	1e-71

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

 Score =  443 bits (1139), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 213/259 (82%), Positives = 234/259 (90%), Gaps = 2/259 (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 KGYSFPKKTEGTCITKLFP 259
           KGYSF KKTE   +TK+ P
Sbjct: 240 KGYSFTKKTE-VLLTKITP 257

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

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

 Score =  441 bits (1135), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 210/259 (81%), Positives = 234/259 (90%), Gaps = 2/259 (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 KGYSFPKKTEGTCITKLFP 259
           KGYSF KKTE   +TK+ P
Sbjct: 240 KGYSFTKKTE-VLLTKITP 257

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 =  306 bits (784), Expect = 9e-83,   Method: Compositional matrix adjust.
 Identities = 145/239 (60%), Positives = 185/239 (77%), Gaps = 5/239 (2%)

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 VFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKK 238

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 =  306 bits (784), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 146/239 (61%), Positives = 184/239 (76%), Gaps = 5/239 (2%)

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 VFEDKFRPDMEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPFSVPNKK 238

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

 Score =  305 bits (781), Expect = 2e-82,   Method: Compositional matrix adjust.
 Identities = 144/230 (62%), Positives = 181/230 (78%), Gaps = 5/230 (2%)

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 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR 235
           + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +
Sbjct: 189 MEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKK 238

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

 Score =  305 bits (780), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 144/230 (62%), Positives = 181/230 (78%), Gaps = 5/230 (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 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR 235
           + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +
Sbjct: 189 MEEEEAKQLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKK 238

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

 Score =  305 bits (780), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 154/237 (64%), Positives = 188/237 (79%), Gaps = 6/237 (2%)

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 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTY 237
           KY+  +TKEE I+LV EAI SGIFNDLGSGSNVD+ VI       LRN+Q PN R +
Sbjct: 175 KYKNDMTKEEAIALVAEAISSGIFNDLGSGSNVDVTVIEPSGVTVLRNYQTPNERKF 231

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

 Score =  304 bits (779), Expect = 3e-82,   Method: Compositional matrix adjust.
 Identities = 144/230 (62%), Positives = 181/230 (78%), Gaps = 5/230 (2%)

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 235
           + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +
Sbjct: 189 MEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKK 238

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

 Score =  274 bits (700), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 134/239 (56%), Positives = 172/239 (71%), Gaps = 3/239 (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-DKEYLRNHQLPNPRTYISSKGYSFPKKT 249
           I L  +AI +GI+NDLGSGSNVD+CV+  G D EYLRN+  PN R     K Y FP+ T
Sbjct: 181 IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGT 238

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 =  270 bits (689), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 134/244 (54%), Positives = 175/244 (71%), Gaps = 2/244 (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 PKKT 249
            + T
Sbjct: 240 DRGT 243

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

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	260
225424598	273	PREDICTED: proteasome subunit beta type-	0.988	0.941	0.864	1e-128
449492703	273	PREDICTED: proteasome subunit beta type-	0.988	0.941	0.849	1e-126
255570177	278	proteasome subunit beta type 7,10, putat	0.992	0.928	0.841	1e-126
116791005	273	unknown [Picea sitchensis]	0.992	0.945	0.837	1e-125
449443766	273	PREDICTED: proteasome subunit beta type-	0.988	0.941	0.849	1e-124
339777225	268	20S proteasome beta subunit [Dimocarpus	0.969	0.940	0.862	1e-124
224140867	274	predicted protein [Populus trichocarpa]	0.988	0.937	0.830	1e-123
224078968	274	predicted protein [Populus trichocarpa]	0.984	0.934	0.829	1e-123
359473123	267	PREDICTED: proteasome subunit beta type-	0.965	0.940	0.845	1e-123
15237451	274	proteasome subunit beta type-7-B [Arabid	0.988	0.937	0.822	1e-122

>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 =  464 bits (1193), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 224/259 (86%), Positives = 239/259 (92%), Gaps = 2/259 (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 KGYSFPKKTEGTCITKLFP 259
           KGYSFPK  E   +TK+ P
Sbjct: 240 KGYSFPKPIE-VLLTKVTP 257

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 =  457 bits (1176), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 220/259 (84%), Positives = 236/259 (91%), Gaps = 2/259 (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 KGYSFPKKTEGTCITKLFP 259
           KGYSFPKKTE   +TK+ P
Sbjct: 240 KGYSFPKKTE-VLLTKIMP 257

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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 =  456 bits (1172), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 218/259 (84%), Positives = 235/259 (90%), Gaps = 1/259 (0%)

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 KGYSFPKKTEGTCITKLFP 259
           KGY F KKTE   +TK+ P
Sbjct: 241 KGYVFSKKTE-VLLTKITP 258

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  454 bits (1167), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 217/259 (83%), Positives = 235/259 (90%), Gaps = 1/259 (0%)

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 KGYSFPKKTEGTCITKLFP 259
           KGYSF K       TK+ P
Sbjct: 240 KGYSFAKGHTEVLSTKITP 258

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

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 =  451 bits (1160), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 220/259 (84%), Positives = 233/259 (89%), Gaps = 2/259 (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 KGYSFPKKTEGTCITKLFP 259
           KGYSFPKKTE   +TK+ P
Sbjct: 240 KGYSFPKKTE-VLLTKIMP 257

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  449 bits (1154), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 219/254 (86%), Positives = 232/254 (91%), Gaps = 2/254 (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 PKKTEGTCITKLFP 259
            KKTE    TK+ P
Sbjct: 240 SKKTE-VLSTKIIP 252

Source: Dimocarpus longan

Species: Dimocarpus longan

Genus: Dimocarpus

Family: Sapindaceae

Order: Sapindales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  448 bits (1152), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 215/259 (83%), Positives = 234/259 (90%), Gaps = 2/259 (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 KGYSFPKKTEGTCITKLFP 259
           +GYSFPKKTE   +TK+ P
Sbjct: 240 RGYSFPKKTE-VLMTKITP 257

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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 =  447 bits (1150), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 214/258 (82%), Positives = 235/258 (91%), Gaps = 2/258 (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 GYSFPKKTEGTCITKLFP 259
           GYSF KKTE   +TK+ P
Sbjct: 242 GYSFAKKTE-VLMTKITP 258

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  446 bits (1147), Expect = e-123,   Method: Compositional matrix adjust.
 Identities = 219/259 (84%), Positives = 233/259 (89%), Gaps = 8/259 (3%)

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 KGYSFPKKTEGTCITKLFP 259
           KGYSFPK  E   +TK+ P
Sbjct: 234 KGYSFPKPIE-VLLTKVTP 251

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15237451|ref|NP_198874.1| proteasome subunit beta type-7-B [Arabidopsis thaliana] gi|30693626|ref|NP_851108.1| proteasome subunit beta type-7-B [Arabidopsis thaliana] gi|82581524|sp|Q7DLS1.2|PSB7B_ARATH RecName: Full=Proteasome subunit beta type-7-B; AltName: Full=20S proteasome beta subunit B-2; AltName: Full=Proteasome component FC; AltName: Full=Proteasome subunit beta type-2; Flags: Precursor gi|3421104|gb|AAC32067.1| 20S proteasome beta subunit PBB2 [Arabidopsis thaliana] gi|9758084|dbj|BAB08528.1| 20S proteasome beta subunit PBB2 [Arabidopsis thaliana] gi|332007184|gb|AED94567.1| proteasome subunit beta type-7-B [Arabidopsis thaliana] gi|332007185|gb|AED94568.1| proteasome subunit beta type-7-B [Arabidopsis thaliana]

 Score =  443 bits (1139), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 213/259 (82%), Positives = 234/259 (90%), Gaps = 2/259 (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 KGYSFPKKTEGTCITKLFP 259
           KGYSF KKTE   +TK+ P
Sbjct: 240 KGYSFTKKTE-VLLTKITP 257

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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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	260
TAIR|locus:2168718	274	PBB2 "20S proteasome beta subu	0.988	0.937	0.822	3.5e-114
TAIR|locus:2086681	273	PBB1 [Arabidopsis thaliana (ta	0.988	0.941	0.810	9.4e-114
DICTYBASE|DDB_G0283679	266	psmB7 "proteasome subunit beta	0.930	0.909	0.630	7.4e-82
FB|FBgn0023174	272	Prosbeta2 "Proteasome beta2 su	0.9	0.860	0.646	1.6e-79
UNIPROTKB|Q99436	277	PSMB7 "Proteasome subunit beta	0.988	0.927	0.570	7.1e-77
MGI|MGI:107637	277	Psmb7 "proteasome (prosome, ma	0.957	0.898	0.588	1.1e-76
ZFIN|ZDB-GENE-001208-4	286	psmb7 "proteasome (prosome, ma	0.857	0.779	0.640	2.4e-76
RGD|621093	277	Psmb7 "proteasome (prosome, ma	0.953	0.895	0.586	3.1e-76
UNIPROTKB|F1MBI1	277	PSMB7 "Proteasome subunit beta	0.865	0.812	0.626	5e-76
UNIPROTKB|Q2TBP0	277	PSMB7 "Proteasome subunit beta	0.865	0.812	0.626	5e-76

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

 Score = 1126 (401.4 bits), Expect = 3.5e-114, P = 3.5e-114
 Identities = 213/259 (82%), Positives = 234/259 (90%)

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 KGYSFPKKTEGTCITKLFP 259
             KGYSF KKTE   +TK+ P
Sbjct:   240 KGYSFTKKTE-VLLTKITP 257

GO:0004175 "endopeptidase activity" evidence=IEA

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

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0000502 "proteasome complex" evidence=IDA

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

GO:0009407 "toxin catabolic process" evidence=RCA

GO:0009853 "photorespiration" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

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

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

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

 Score = 1122 (400.0 bits), Expect = 9.4e-114, P = 9.4e-114
 Identities = 210/259 (81%), Positives = 234/259 (90%)

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 KGYSFPKKTEGTCITKLFP 259
             KGYSF KKTE   +TK+ P
Sbjct:   240 KGYSFTKKTE-VLLTKITP 257

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0008233 "peptidase activity" evidence=ISS

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

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

GO:0000502 "proteasome complex" evidence=IDA

GO:0006094 "gluconeogenesis" evidence=RCA

GO:0006096 "glycolysis" evidence=RCA

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

GO:0009407 "toxin catabolic process" evidence=RCA

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

GO:0009853 "photorespiration" evidence=RCA

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

GO:0043248 "proteasome assembly" evidence=RCA

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

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

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

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

 Score = 821 (294.1 bits), Expect = 7.4e-82, P = 7.4e-82
 Identities = 157/249 (63%), Positives = 194/249 (77%)

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 KGYSFPKKT 249
               Y F + T
Sbjct:   235 P-YIFKQGT 242

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

GO:0006508 "proteolysis" evidence=IEA;IDA

GO:0005737 "cytoplasm" evidence=IEA;IPI

GO:0005634 "nucleus" evidence=IEA;IPI

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

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

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

 Score = 799 (286.3 bits), Expect = 1.6e-79, P = 1.6e-79
 Identities = 152/235 (64%), Positives = 187/235 (79%)

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 KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR 235
             +++  L++EEG  LV +A  +G+FNDLGSGSN+D+CVI KG  EYLRN++L N +
Sbjct:   180 RWKPDLSEEEGKKLVRDADPTGVFNDLGSGSNIDLCVIRKGSVEYLRNYELANKK 234

GO:0005839 "proteasome core complex" evidence=ISS

GO:0004175 "endopeptidase activity" evidence=ISS

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

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

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

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

 Score = 774 (277.5 bits), Expect = 7.1e-77, P = 7.1e-77
 Identities = 150/263 (57%), Positives = 192/263 (73%)

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 YISSKGYSFPKKTEGTCITKLFP 259
                 + Y   K T      K+ P
Sbjct:   240 TRLGR-YRCEKGTTAVLTEKITP 261

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

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

 Score = 772 (276.8 bits), Expect = 1.1e-76, P = 1.1e-76
 Identities = 150/255 (58%), Positives = 188/255 (73%)

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 FPKKTEGTCITKLFP 259
               K T      K+ P
Sbjct:   247 CEKGTTAVLTEKVTP 261

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

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

 Score = 769 (275.8 bits), Expect = 2.4e-76, P = 2.4e-76
 Identities = 146/228 (64%), Positives = 179/228 (78%)

Query:    12 GGFSFDLCRRNDML----SKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVC 67
             GGFSF+ CRRN +L    +K G   P + RKTGTTI G+++++GV+LGADTRAT G IV 
Sbjct:    12 GGFSFENCRRNALLEADITKLGFSSPAA-RKTGTTICGIVYKDGVVLGADTRATEGMIVA 70

Query:    68 DKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHL 127
             DKNC KIHY++PNIYCCGAGTAADTE  T ++SS L+LH   TGR  RV TA  +LK  L
Sbjct:    71 DKNCSKIHYISPNIYCCGAGTAADTEMTTQIISSNLELHSLSTGRLPRVATANRMLKQML 130

Query:   128 FKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLT 187
             F+YQG++ AALVLGGVD TGPHL++IYPHGSTD LP+ TMGSGSLAAMAVFE +YR  + 
Sbjct:   131 FRYQGYIGAALVLGGVDCTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDRYRPDME 190

Query:   188 KEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR 235
             +E+  SLV +AI +GIFNDLGSGSN+D+CVITKG  +YLR H + N +
Sbjct:   191 EEDAKSLVRDAIAAGIFNDLGSGSNIDVCVITKGKVDYLRPHDIANKK 238

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

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

 Score = 768 (275.4 bits), Expect = 3.1e-76, P = 3.1e-76
 Identities = 149/254 (58%), Positives = 188/254 (74%)

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 PKKTEGTCITKLFP 259
              K T      K+ P
Sbjct:   248 EKGTTAVLTEKVTP 261

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|F1MBI1 PSMB7 "Proteasome subunit beta type" [Bos taurus (taxid:9913)]

 Score = 766 (274.7 bits), Expect = 5.0e-76, P = 5.0e-76
 Identities = 144/230 (62%), Positives = 181/230 (78%)

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 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR 235
             + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +
Sbjct:   189 MEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKK 238

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

 Score = 766 (274.7 bits), Expect = 5.0e-76, P = 5.0e-76
 Identities = 144/230 (62%), Positives = 181/230 (78%)

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 LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR 235
             + +EE   LV EAI +GIFNDLGSGSN+D+CVI+K   ++LR + +PN +
Sbjct:   189 MEEEEAKKLVSEAIAAGIFNDLGSGSNIDLCVISKSKLDFLRPYSVPNKK 238

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q54QR2	PSB7_DICDI	3, ., 4, ., 2, 5, ., 1	0.6497	0.8884	0.8684	yes	no
Q09841	PSB2_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5491	0.9307	0.9063	yes	no
Q9JHW0	PSB7_RAT	3, ., 4, ., 2, 5, ., 1	0.6260	0.8653	0.8122	yes	no
D4GYZ1	PSB_HALVD	3, ., 4, ., 2, 5, ., 1	0.3275	0.8423	0.9012	yes	no
Q18GX3	PSB_HALWD	3, ., 4, ., 2, 5, ., 1	0.3105	0.8076	0.8641	yes	no
Q2TBP0	PSB7_BOVIN	3, ., 4, ., 2, 5, ., 1	0.6260	0.8653	0.8122	yes	no
Q7DLS1	PSB7B_ARATH	3, ., 4, ., 2, 5, ., 1	0.8223	0.9884	0.9379	yes	no
Q8SQN7	PSB2_ENCCU	3, ., 4, ., 2, 5, ., 1	0.5025	0.7384	0.8458	yes	no
P25043	PSB2_YEAST	3, ., 4, ., 2, 5, ., 1	0.5606	0.9076	0.9042	yes	no
P70195	PSB7_MOUSE	3, ., 4, ., 2, 5, ., 1	0.6108	0.9	0.8447	yes	no
A1XQU1	PSB7_PIG	3, ., 4, ., 2, 5, ., 1	0.6260	0.8653	0.8122	yes	no
Q99436	PSB7_HUMAN	3, ., 4, ., 2, 5, ., 1	0.6066	0.9	0.8447	yes	no
O23710	PSB7A_ARATH	3, ., 4, ., 2, 5, ., 1	0.8108	0.9884	0.9413	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	0.979
3rd Layer	3.4.25	0.983

---

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	260
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	1e-132
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	1e-77
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	1e-62
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	7e-57
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	1e-56
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	8e-44
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	1e-42
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	6e-42
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	2e-39
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	7e-25
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	2e-21
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	3e-20
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	2e-17
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	8e-17
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	3e-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	1e-12
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-10
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	9e-10
cd03759	195	cd03759, proteasome_beta_type_3, proteasome beta t	2e-09
TIGR03690	219	TIGR03690, 20S_bact_beta, proteasome, beta subunit	5e-08
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	8e-07
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	5e-06
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	3e-05
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	6e-04
COG3484	255	COG3484, COG3484, Predicted proteasome-type protea	0.004

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

 Score =  371 bits (954), Expect = e-132
 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 =  232 bits (595), Expect = 1e-77
 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 = 1e-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|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits [Posttranslational modification, protein turnover, chaperones]

 Score =  181 bits (461), Expect = 7e-57
 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|215805 pfam00227, Proteasome, Proteasome subunit

 Score =  179 bits (456), Expect = 1e-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|239731 cd03762, proteasome_beta_type_6, proteasome beta type-6 subunit

 Score =  146 bits (370), 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 =  143 bits (362), Expect = 1e-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 =  141 bits (358), Expect = 6e-42
 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 (338), Expect = 2e-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 = 97.3 bits (243), Expect = 7e-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 = 88.9 bits (221), Expect = 2e-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 = 85.5 bits (212), Expect = 3e-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 = 78.7 bits (195), Expect = 2e-17
 Identities = 57/203 (28%), Positives = 84/203 (41%), Gaps = 27/203 (13%)

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 GPHLHTIYPHGSTDTLPF---AT-MGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSG 202
           GP L    P G+         AT +G+G    M   E  Y+E L+ EE I L  +A+   
Sbjct: 147 GPRLFETDPSGA----YLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKA 202

Query: 203 IFNDLGSGSNVDICVITKGDKEY 225
                    NV+I  I    K++
Sbjct: 203 N-EGKLDPENVEIAYIDVETKKF 224

Length = 241

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

 Score = 76.1 bits (188), Expect = 8e-17
 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 = 75.4 bits (185), Expect = 3e-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 = 69.2 bits (170), 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 = 65.1 bits (159), Expect = 1e-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 = 59.0 bits (144), Expect = 1e-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 = 57.2 bits (138), Expect = 9e-10
 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 = 51.6 bits (124), Expect = 5e-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 = 8e-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 = 45.8 bits (109), Expect = 5e-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 = 43.8 bits (104), 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

>gnl|CDD|226015 COG3484, COG3484, Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]

 Score = 37.1 bits (86), Expect = 0.004
 Identities = 43/165 (26%), Positives = 63/165 (38%), Gaps = 36/165 (21%)

Query: 41  TTIVGLIFQNGVILGADTRATAG--SIVCDKNCEKIH-YMAPN---IYCCGAGTAADTEA 94
           T  VGLI   G++ G+D+R  AG   I   K   K+  +  P    +  C AG  A T+A
Sbjct: 2   TYCVGLILDFGLVFGSDSRTNAGVDYISTFK---KLFVFELPGDRVLVLCTAGNLAITQA 58

Query: 95  VTDMVSSQLQLHRYHTGRESRVVTALTLL------------KSHLFKYQGHVQAALVLGG 142
           V  ++  ++Q     +      +   T L               L K       + +LGG
Sbjct: 59  VLHLLDERIQRDDGDSLLNIPSMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGG 118

Query: 143 VDATGP-HLHTIYPHG----STDTLPFATMGSGSLAAMAVFESKY 182
                P  L+ IYP G    +T   PF  +G          E+KY
Sbjct: 119 QIKGEPPRLYLIYPQGNFIQATPETPFLQIG----------ETKY 153

Length = 255

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	260
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
KOG0176	241	consensus 20S proteasome, regulatory subunit alpha	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	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
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	100.0
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
KOG0184	254	consensus 20S proteasome, regulatory subunit alpha	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
KOG0173	271	consensus 20S proteasome, regulatory subunit beta	100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
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
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	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
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
KOG0863	264	consensus 20S proteasome, regulatory subunit alpha	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
KOG0182	246	consensus 20S proteasome, regulatory subunit alpha	100.0
KOG0179	235	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0174	224	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0185	256	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0177	200	consensus 20S proteasome, regulatory subunit beta	100.0
KOG0175	285	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
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	99.96
COG3484	255	Predicted proteasome-type protease [Posttranslatio	99.63
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.62
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	98.75
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	96.68
COG4079	293	Uncharacterized protein conserved in archaea [Func	90.47
KOG3361	157	consensus Iron binding protein involved in Fe-S cl	87.24

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=4.4e-53  Score=365.83  Aligned_cols=212  Identities=19%  Similarity=0.278  Sum_probs=201.0

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      .|||||||+|||||     ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|++|+++|..+|++.
T Consensus         7 ~fsp~Grl~QveyA-----~~av~~G~t~igik~~dgVvlaad~~~~-~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (227)
T cd03750           7 TFSPSGKLVQIEYA-----LAAVSSGAPSVGIKAANGVVLATEKKVP-SPLIDESSVHKVEQITPHIGMVYSGMGPDFRV   80 (227)
T ss_pred             eECCCCeEhHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEeecCC-ccccCCCCcceEEEEcCCEEEEEeEcHHhHHH
Confidence            69999999999999     9999999999999999999999999998 47888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +++++|.+++.|++.++++++++.+++++++.++.+     .|||++++|++|||++||+||.+||+|++.+++++|+|+
T Consensus        81 l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~li~G~D~~g~~Ly~~d~~G~~~~~~~~a~G~  160 (227)
T cd03750          81 LVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIGK  160 (227)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChheEEEEEEEeCCCCEEEEECCCCCEEeeeEEEECC
Confidence            999999999999999999999999999999988654     379999999999998899999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CEEEeccccCCC
Q 024919          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPN  233 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~-g~~~~~~~~~~~  233 (260)
                      |+.+++++||+.|+++||++||++++++||+.+.+++. ++.+++|.+++++ |.+.+.|+++.+
T Consensus       161 g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~~~l-~~~~iev~iv~~~~~~~~~~~~ei~~  224 (227)
T cd03750         161 NYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQM-TEKNIEIGICGETKGFRLLTPAEIKD  224 (227)
T ss_pred             CCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccC-CCCcEEEEEEECCCCEEECCHHHHHH
Confidence            99999999999999999999999999999999998875 7899999999995 799988887654

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=1.2e-52  Score=341.62  Aligned_cols=216  Identities=23%  Similarity=0.332  Sum_probs=203.8

Q ss_pred             CCCccccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChH
Q 024919           11 KGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAA   90 (260)
Q Consensus        11 ~~g~~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~a   90 (260)
                      ++=|+|||||||||||||     .+|++.|+|.|||+.++|||||+++|+++ .+..+++..||++|++||+|++||+.+
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            455789999999999999     99999999999999999999999999998 788899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc----------cCccceEEEEEEEeCCCCEEEEEcCCCCcc
Q 024919           91 DTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----------QGHVQAALVLGGVDATGPHLHTIYPHGSTD  160 (260)
Q Consensus        91 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~----------~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~  160 (260)
                      |++.++++.|.++++|.+.|+++++++++.+.+++.-.++          .|||||++|+||+|++||+||+.||+|++.
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            9999999999999999999999999999999999887554          389999999999999999999999999999


Q ss_pred             ccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CEEEeccccCCC
Q 024919          161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPN  233 (260)
Q Consensus       161 ~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~-g~~~~~~~~~~~  233 (260)
                      ++++-|||+|+.-+++.|++.|+++++++||+.+++..|+..++.... .+++++.+++++ +.++.+|++++.
T Consensus       164 ~~~AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVMeeKl~-~~Nvev~~vt~e~~f~~~t~EE~~~  236 (241)
T KOG0176|consen  164 RYKAKAIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVMEEKLN-SNNVEVAVVTPEGEFHIYTPEEVEQ  236 (241)
T ss_pred             EecceeccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHhcC-ccceEEEEEcccCceEecCHHHHHH
Confidence            999999999999999999999999999999999999999999987754 689999999998 689999887653

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=1.2e-51  Score=362.20  Aligned_cols=218  Identities=20%  Similarity=0.313  Sum_probs=203.6

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.+++.++..++.+|||+|+++++|+++|..+|++.
T Consensus        11 ~fsp~Grl~QvEYA-----~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   85 (253)
T PTZ00246         11 TFSPEGRLYQVEYA-----LEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADANI   85 (253)
T ss_pred             eECCCCEEhHHHHH-----HHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHHHHHH
Confidence            39999999999999     9999999999999999999999999999987777778999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEc
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG  168 (260)
                      +++.+|.+++.|++.++++++++.+++.++..++.+     .|||++++|+||||+ .||+||.+||+|++.+++++|+|
T Consensus        86 l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v~~li~G~D~~~gp~Ly~~D~~Gs~~~~~~~a~G  165 (253)
T PTZ00246         86 LINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIG  165 (253)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCEEEEEEEEeCCCCcEEEEECCCCCEecceEEEEC
Confidence            999999999999999999999999999998876543     379999999999995 78999999999999999999999


Q ss_pred             CChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC------EEEeccccCCCCCcc
Q 024919          169 SGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD------KEYLRNHQLPNPRTY  237 (260)
Q Consensus       169 ~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g------~~~~~~~~~~~~~~~  237 (260)
                      +|+.+++++||+.|+++||++||++++++||+.+..+|..+++.++|++|+++|      .+.+.+.++++...-
T Consensus       166 ~gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~~~~~~~~~~l~~~ei~~~l~~  240 (253)
T PTZ00246        166 QNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAELLKK  240 (253)
T ss_pred             CCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCcCCCCCeEECCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999875      578888887776443

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=9.3e-52  Score=360.58  Aligned_cols=220  Identities=27%  Similarity=0.348  Sum_probs=203.8

Q ss_pred             CCCCCCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEE
Q 024919            8 IPPKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIY   82 (260)
Q Consensus         8 ~~~~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~   82 (260)
                      .|.+.||+     |||+|||+|||||     .+|+++|+|+|||+++||||||+|+|.+. .++..++.+||++|+++++
T Consensus         4 ~~~~~~y~~~~~~fsp~Gr~~Q~eya-----~~av~~G~t~igik~~dgVvlaad~r~~~-~~~~~~~~~KI~~I~~~i~   77 (241)
T PRK03996          4 QPQQMGYDRAITIFSPDGRLYQVEYA-----REAVKRGTTAVGVKTKDGVVLAVDKRITS-PLIEPSSIEKIFKIDDHIG   77 (241)
T ss_pred             CccccccCCCCceECCCCeEhHHHHH-----HHHHHhCCCEEEEEeCCEEEEEEeccCCC-cccCCCccceEEEEcCCEE
Confidence            47788886     8999999999999     99999999999999999999999999984 6777889999999999999


Q ss_pred             EEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCC
Q 024919           83 CCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHG  157 (260)
Q Consensus        83 ~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G  157 (260)
                      |++||..+|++.+++++|.+++.|++.++++++++.+++++++.++.+     .|||++++|+||||++||+||.+||+|
T Consensus        78 ~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~~ilaG~d~~gp~Ly~id~~G  157 (241)
T PRK03996         78 AASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSG  157 (241)
T ss_pred             EEEcccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheEEEEEEEeCCcCEEEEECCCC
Confidence            999999999999999999999999999999999999999999987644     469999999999998889999999999


Q ss_pred             CccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC--EEEeccccCCCC
Q 024919          158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD--KEYLRNHQLPNP  234 (260)
Q Consensus       158 ~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g--~~~~~~~~~~~~  234 (260)
                      ++.+++++|+|+|+..++++|++.|+++|+++||++++++||+.+.++ ..+++.++|++++++|  .+.+.+.++...
T Consensus       158 ~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~~~-~~~~~~i~i~ii~~~~~~~~~~~~~ei~~~  235 (241)
T PRK03996        158 AYLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKANEG-KLDPENVEIAYIDVETKKFRKLSVEEIEKY  235 (241)
T ss_pred             CeecceEEEECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhcc-CCCCCcEEEEEEECCCCcEEECCHHHHHHH
Confidence            999999999999999999999999999999999999999999999876 5578999999999987  666666665443

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

Probab=100.00  E-value=2.1e-51  Score=356.77  Aligned_cols=216  Identities=32%  Similarity=0.420  Sum_probs=206.0

Q ss_pred             ccccCchhhHHHhhcCCCCCCccccCC-ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHH
Q 024919           14 FSFDLCRRNDMLSKKGIVPPPSYRKTG-TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADT   92 (260)
Q Consensus        14 ~~fsp~Gr~~Qveya~~~~~~~a~~~G-~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~   92 (260)
                      ..|||+||++|+|||     .+++.+| +|+|||+++||||||+|+|.++|.++..++.+|||+|+||++|++||+.+|+
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            469999999999999     9998876 9999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhcc---CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           93 EAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ---GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        93 ~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~---~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +.+++++|.+++.|++.++++++++.+++++++.+|.++   |||++++|+||+|+++|+||++||+|++.+++++|+|+
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            999999999999999999999999999999999999876   69999999999998779999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeC-CCEEEeccccCCCC
Q 024919          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLPNP  234 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk-~g~~~~~~~~~~~~  234 (260)
                      |+..++++||+.|+++|++|||++++++||+.+.+||..++++++|+++++ +|.+.+++.++...
T Consensus       163 gs~~a~~~Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~~~~~~~~~~~  228 (236)
T COG0638         163 GSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKL  228 (236)
T ss_pred             CcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeEEcCHHHHHHH
Confidence            999999999999999999999999999999999999998889999999999 78888888776643

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=3.6e-51  Score=353.21  Aligned_cols=202  Identities=29%  Similarity=0.375  Sum_probs=192.8

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|||+|||||     ++++++|+|+|||+++||||||+|+|.+ +.++..++.+||++|+++++|++||..+|++.
T Consensus         9 ~f~p~Grl~Qieya-----~~av~~G~tvigi~~~dgvvlaad~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   82 (224)
T TIGR03633         9 VFSPDGRLYQVEYA-----REAVKRGTTAVGIKTKDGVVLAVDKRIT-SKLVEPSSIEKIFKIDDHIGAATSGLVADARV   82 (224)
T ss_pred             eECCCCeEeHHHHH-----HHHHHcCCCEEEEEECCEEEEEEeccCC-ccccCCCccceEEEECCCEEEEEeecHHhHHH
Confidence            49999999999999     9999999999999999999999999998 46777889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +.+++|.++..|++.+++.++++.+++++++.++.+     .|||++++|+||+|+++|+||.+||.|++.+++++++|+
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            999999999999999999999999999999988654     469999999999998889999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCE
Q 024919          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK  223 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~  223 (260)
                      ++.+++++|++.|+++|+++||++++++||+.+.+ |..+++.++|++|+++|.
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 888899999999999984

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.

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=7e-51  Score=348.57  Aligned_cols=198  Identities=19%  Similarity=0.189  Sum_probs=186.5

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      .|||||||+|||||     ++|+++|+|+|||+++||||||+|+|.++ .++..++.+|||+|++|++|+++|..+|++.
T Consensus        10 ~fsp~Grl~Qveya-----~~a~~~G~tvIgik~kdgVvla~d~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   83 (212)
T cd03751          10 TFSPDGRVFQVEYA-----NKAVENSGTAIGIRCKDGVVLAVEKLVTS-KLYEPGSNKRIFNVDRHIGIAVAGLLADGRH   83 (212)
T ss_pred             eECCCCcchHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEEccccc-cccCcchhcceeEecCcEEEEEEEChHhHHH
Confidence            38999999999999     99999999999999999999999999986 6666778999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +++++|.+++.|++.++++++++.++++|++.++.+     .|||++++|++|||++||+||.+||+|++.+++++|+|+
T Consensus        84 l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~vs~li~G~D~~gp~Ly~~D~~Gs~~~~~~~a~G~  163 (212)
T cd03751          84 LVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGK  163 (212)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceEEEEEEEEeCCcCEEEEECCCCCEEeeEEEEECC
Confidence            999999999999999999999999999999876543     479999999999998899999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEE
Q 024919          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~ii  218 (260)
                      |+..++++||+.|+++||++||+++++++|+.+.+.+...+.++||.++
T Consensus       164 g~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         164 GKQAAKTELEKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             CCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            9999999999999999999999999999999999866667788998764

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

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=1.2e-50  Score=347.55  Aligned_cols=199  Identities=18%  Similarity=0.233  Sum_probs=188.9

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||||||+|||||     ++|+++|+|+|||+++||||||+|+|.+.+.++.+++.+||++|+++++|++||..+|++.
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            49999999999999     9999999999999999999999999999877776779999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEc
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG  168 (260)
                      +.+++|.+++.|+++++++++++.+++.++..++.+     .|||++++|++|||+ .||+||.+||+|++.+++++|+|
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            999999999999999999999999999998776433     479999999999995 68999999999999999999999


Q ss_pred             CChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEE
Q 024919          169 SGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       169 ~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~ii  218 (260)
                      +++.+++++||+.|+++||++||++++.+||+.+.+|+..++.+++|.++
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            99999999999999999999999999999999999999888999999875

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

>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1

Probab=100.00  E-value=5.5e-50  Score=342.92  Aligned_cols=197  Identities=21%  Similarity=0.220  Sum_probs=185.6

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      .|||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.+.+ +  .+..+|||+|+++++|++||+.+|++.
T Consensus         7 ~fsp~Grl~Qveya-----~~av~~G~t~IgIk~~dgVvlaad~r~~~~-l--~~~~~KI~~I~~~i~~~~sG~~~D~~~   78 (211)
T cd03749           7 TWSPQGRLFQVEYA-----MEAVKQGSATVGLKSKTHAVLVALKRATSE-L--SSYQKKIFKVDDHIGIAIAGLTADARV   78 (211)
T ss_pred             eECCCCeEeHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEeccCccc-c--CCccccEEEeCCCEEEEEEeChHhHHH
Confidence            59999999999999     999999999999999999999999998764 3  456799999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +.+++|.+++.|+++++++++++.+|+.+++.++.+     .|||++++|++|||++||+||.+||+|++.+++++|+|+
T Consensus        79 l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~D~~gp~Ly~~Dp~G~~~~~~~~a~G~  158 (211)
T cd03749          79 LSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKATSIGA  158 (211)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEEcCCCCeEEEECCCcCEeeeeEEEECC
Confidence            999999999999999999999999999999877642     479999999999998899999999999999999999999


Q ss_pred             ChHHHHHHHHhhcC--CCCCHHHHHHHHHHHHHHHHhhcC-CCCCcEEEEEEe
Q 024919          170 GSLAAMAVFESKYR--EGLTKEEGISLVCEAICSGIFNDL-GSGSNVDICVIT  219 (260)
Q Consensus       170 g~~~~~~~Le~~~~--~~~s~~eai~l~~~al~~a~~~d~-~~~~~iei~iit  219 (260)
                      |+..++++||+.|+  ++||++||+++++++|+.++.+|. .+++++||++++
T Consensus       159 g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         159 RSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             CcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            99999999999999  599999999999999999999886 789999999984

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=7.8e-50  Score=341.02  Aligned_cols=196  Identities=19%  Similarity=0.273  Sum_probs=184.6

Q ss_pred             ccccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHH
Q 024919           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (260)
Q Consensus        14 ~~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~   93 (260)
                      .+|||+|||+|||||     ++|+++|+|+|||+++||||||+|++.+. .++..+..+||++|++|++|++||+.+|++
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            369999999999999     99999999999999999999999998765 577777899999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEE
Q 024919           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (260)
Q Consensus        94 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~ai  167 (260)
                      .+.+++|.+++.|++.++++++++.+++++++.++.+     .|||++++|++|||+ ++|+||.+||+|++.+++++|+
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            9999999999999999999999999999999988654     369999999999996 5899999999999999999999


Q ss_pred             cCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEE
Q 024919          168 GSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       168 G~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~ii  218 (260)
                      |+|+.+++++||+.|+++||.+||++++++||..+.+   .++.++||+++
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   56789999875

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=1.3e-49  Score=340.66  Aligned_cols=198  Identities=27%  Similarity=0.388  Sum_probs=188.8

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      .|||+|||+|||||     .+++++|+|+|||+++||||||+|+|.+. .++..++.+||++|+++++|++||+.+|++.
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            59999999999999     99999999999999999999999999974 6777889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +.++++.+++.|++.++++++++.+++++++.++.+     .|||++++|+||||+++|+||.+||.|++.+++++++|+
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            999999999999999999999999999999887543     369999999999999899999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEe
Q 024919          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT  219 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iit  219 (260)
                      |+..++++||+.|+++|+++||++++++||+.+.+++. ++++++|++|+
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 89999999987

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

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=100.00  E-value=1.9e-49  Score=339.99  Aligned_cols=197  Identities=24%  Similarity=0.352  Sum_probs=186.5

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      .|||||||+|||||     ++++++|+|+|||+++||||||+|+|.++ .++..++.+||++|+++++|++||+.+|++.
T Consensus         7 ~f~p~G~~~Q~eya-----~~a~~~G~t~igik~~dgVvlaad~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (213)
T cd03753           7 TFSPEGRLFQVEYA-----IEAIKLGSTAIGIKTKEGVVLAVEKRITS-PLMEPSSVEKIMEIDDHIGCAMSGLIADART   80 (213)
T ss_pred             cCCCCCeEhHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEecccCC-cCcCCCccceEEEEcCCEEEEEecCHHHHHH
Confidence            59999999999999     99999999999999999999999999986 5666788999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc----------cCccceEEEEEEEeCCCCEEEEEcCCCCccccCe
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----------QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPF  164 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~----------~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~  164 (260)
                      +.+.+|.+++.|++.++++++++.+++++++.++++          .|||++++|+||||++||+||.+||+|++.++++
T Consensus        81 l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~rP~~v~~ii~G~D~~gp~Ly~vd~~G~~~~~~~  160 (213)
T cd03753          81 LIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDA  160 (213)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccccceEEEEEEEEcCCCCEEEEECCCCCeecccE
Confidence            999999999999999999999999999999988754          2799999999999998999999999999999999


Q ss_pred             EEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEE
Q 024919          165 ATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       165 ~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~ii  218 (260)
                      +|+|+++..+.++|++.|+++||++||++++++||+.+.+++ .+++++||++|
T Consensus       161 ~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~-~~~~~~ei~~~  213 (213)
T cd03753         161 KAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVMEEK-LNSTNVELATV  213 (213)
T ss_pred             EEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEC
Confidence            999999999999999999999999999999999999988765 67899999875

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=6.8e-49  Score=335.63  Aligned_cols=198  Identities=26%  Similarity=0.358  Sum_probs=187.9

Q ss_pred             ccccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHH
Q 024919           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (260)
Q Consensus        14 ~~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~   93 (260)
                      ..|||||||+|||||     ++++++|+|+|||+++||||||+|+|.+. .++..++.+||++|+++++|++||..+|++
T Consensus         6 ~~f~~~G~~~q~eya-----~~~~~~G~tvigi~~~dgVvlaaD~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   79 (209)
T cd01911           6 TTFSPEGRLFQVEYA-----LEAVKNGSTAVGIKGKDGVVLAVEKKVTS-KLLDPSSVEKIFKIDDHIGCAVAGLTADAR   79 (209)
T ss_pred             ccCCCCCEEeHHHHH-----HHHHHcCCCEEEEEECCEEEEEEEecCCc-cccCCcccceEEEecCCeEEEeccCcHhHH
Confidence            359999999999999     99999999999999999999999999986 466678999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCC-CCEEEEEcCCCCccccCeEEE
Q 024919           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATM  167 (260)
Q Consensus        94 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~ai  167 (260)
                      .+.+.++..+..|++.++++++++.+|+++++.++.+     .|||++++|++|||++ ||+||.+||.|++.+++++++
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            9999999999999999999999999999999988543     3699999999999975 899999999999999999999


Q ss_pred             cCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEE
Q 024919          168 GSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       168 G~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~ii  218 (260)
                      |+|+.+++++|++.|+++||.+||++++.+||+.+.++|. +++.++|+++
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.

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=8.8e-49  Score=336.32  Aligned_cols=197  Identities=17%  Similarity=0.224  Sum_probs=183.0

Q ss_pred             cccCchhhHHHhhcCCCCCCccccC-CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~-G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~   93 (260)
                      +|||+|||+|||||     ++|+++ |+|+|||+++||||||+|+|.+. .++..++.+|||+|+++++|++||+.+|++
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-----FKAVKNAGLTSVAVRGKDCAVVVTQKKVPD-KLIDPSTVTHLFRITDEIGCVMTGMIADSR   81 (215)
T ss_pred             eECCCCeEeHHHhH-----HHHHhcCCccEEEEEeCCEEEEEEeccccc-cccCCcccCceEEEcCCEEEEEEechhhHH
Confidence            59999999999999     999875 78999999999999999999986 465666889999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhh-----ccCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEE
Q 024919           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFK-----YQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (260)
Q Consensus        94 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~-----~~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~ai  167 (260)
                      .+.+++|.++..|+++++++++++.+|+++++.++.     ..|||++++|+||||+ +||+||.+||+|++.+++++|+
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            999999999999999999999999999999987542     2369999999999996 6899999999999999999999


Q ss_pred             cCChHHHHHHHHhhcCCC--C--CHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEE
Q 024919          168 GSGSLAAMAVFESKYREG--L--TKEEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       168 G~g~~~~~~~Le~~~~~~--~--s~~eai~l~~~al~~a~~~d~~~~~~iei~ii  218 (260)
                      |+|+..++++||+.|+++  |  |++||++++++||+.+.+||.. ++.+||.++
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 899999874

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

>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit

Probab=100.00  E-value=8.1e-45  Score=305.89  Aligned_cols=189  Identities=76%  Similarity=1.218  Sum_probs=184.1

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+|||+|+++++|+++|..+|++.+.+++|.+++.|+++++++++++.++
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            58999999999999999999999899899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~  200 (260)
                      ++++++++.++.||++++|+||||++||+||.+||+|++.+++++++|+++.+++++|++.|+++||++||++++++||+
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            99999999888899999999999988899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEEEeCCCEEEeccc
Q 024919          201 SGIFNDLGSGSNVDICVITKGDKEYLRNH  229 (260)
Q Consensus       201 ~a~~~d~~~~~~iei~iitk~g~~~~~~~  229 (260)
                      .+.+||+.++++++|++|+++|+++.+|+
T Consensus       161 ~~~~rd~~~~~~~~v~ii~~~g~~~~~~~  189 (189)
T cd03763         161 AGIFNDLGSGSNVDLCVITKDGVEYLRNY  189 (189)
T ss_pred             HHHHhcCcCCCceEEEEEcCCcEEEecCC
Confidence            99999999999999999999999988875

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=1.1e-44  Score=304.93  Aligned_cols=186  Identities=30%  Similarity=0.415  Sum_probs=180.0

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+|||+|++|++|+++|+.+|++.+++++|.+++.|++.++++++++.+|
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            58999999999999999999999999889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcc-CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (260)
Q Consensus       121 ~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al  199 (260)
                      +++++++|.++ .||++++|+||||++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||.+||++++.+||
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            99999999875 48999999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEEEeCCCEEEe
Q 024919          200 CSGIFNDLGSGSNVDICVITKGDKEYL  226 (260)
Q Consensus       200 ~~a~~~d~~~~~~iei~iitk~g~~~~  226 (260)
                      +.+.+||..+++.++|++|+++|++.+
T Consensus       161 ~~~~~rd~~sg~~~~v~ii~~~g~~~~  187 (188)
T cd03761         161 YHATHRDAYSGGNVNLYHVREDGWRKI  187 (188)
T ss_pred             HHHHHhcccCCCCeEEEEEcCCceEEc
Confidence            999999999999999999999998653

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=2.1e-44  Score=305.28  Aligned_cols=190  Identities=25%  Similarity=0.346  Sum_probs=180.1

Q ss_pred             CCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHH-HhhhhcCCCCCHH
Q 024919           39 TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQ-LHRYHTGRESRVV  117 (260)
Q Consensus        39 ~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~-~~~~~~~~~i~~~  117 (260)
                      +|+|+|||+++||||||+|+|.+++.++.+++.+|||+|++|++|+++|..+|++.+++++|.+++ .+++.++++++++
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            589999999999999999999998899999999999999999999999999999999999999986 5778899999999


Q ss_pred             HHHHHHHHHHhhc---cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCC--CCCHHHH
Q 024919          118 TALTLLKSHLFKY---QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE--GLTKEEG  191 (260)
Q Consensus       118 ~la~~l~~~~~~~---~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~--~~s~~ea  191 (260)
                      .+++++++++|.+   .|||++++|+||||+ +||+||.+||+|++.+++++|+|+|+.+++++||+.|++  +||++||
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             HHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEecc
Q 024919          192 ISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRN  228 (260)
Q Consensus       192 i~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~  228 (260)
                      ++++.+||+.+.+||..++++++|++|+++|++...|
T Consensus       161 ~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~~~~  197 (197)
T cd03760         161 RALIEECMKVLYYRDARSINKYQIAVVTKEGVEIEGP  197 (197)
T ss_pred             HHHHHHHHHHHHHhccccCCceEEEEECCCCEEeCCC
Confidence            9999999999999999999999999999999876554

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=4e-44  Score=303.16  Aligned_cols=188  Identities=22%  Similarity=0.290  Sum_probs=178.1

Q ss_pred             CCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHH
Q 024919           39 TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVT  118 (260)
Q Consensus        39 ~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~  118 (260)
                      +|+|+|||+++||||||+|+|.+++.++..++.+|||+|++|++|++||..+|++.+++++|.+++.|++.++++++++.
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            69999999999999999999999987777778999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc-cCccceEEEEEEEeC-CCCEEEEEcCCCCccccC-eEEEcCChHHHHHHHHhhcCCCCCHHHHHHHH
Q 024919          119 ALTLLKSHLFKY-QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLP-FATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (260)
Q Consensus       119 la~~l~~~~~~~-~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~-~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~  195 (260)
                      +|+++++.+|.. .+||++++|+||||+ .+|+||.+||+|++.+++ ++|+|+|+..++++||+.|+++||.+||++++
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            999999998765 479999999999996 459999999999998877 99999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEEeCCCEEEe
Q 024919          196 CEAICSGIFNDLGSGSNVDICVITKGDKEYL  226 (260)
Q Consensus       196 ~~al~~a~~~d~~~~~~iei~iitk~g~~~~  226 (260)
                      ++||+.+.+||..++++++|++|+++|++..
T Consensus       162 ~~~l~~~~~rd~~~~~~~~i~ii~~~g~~~~  192 (195)
T cd03759         162 SQALLSAVDRDALSGWGAVVYIITKDKVTTR  192 (195)
T ss_pred             HHHHHHHHhhCcccCCceEEEEEcCCcEEEE
Confidence            9999999999999999999999999998643

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.

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=4.3e-44  Score=306.68  Aligned_cols=193  Identities=22%  Similarity=0.318  Sum_probs=183.2

Q ss_pred             CccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCC
Q 024919           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (260)
Q Consensus        34 ~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~  113 (260)
                      .+++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|+++++|++||..+|++.+.+++|.+++.|++.++++
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            56788999999999999999999999999988888999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHhhcc-CccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcC--------
Q 024919          114 SRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR--------  183 (260)
Q Consensus       114 i~~~~la~~l~~~~~~~~-~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~--------  183 (260)
                      ++++.+++++++.+|..+ +||++++|+||||+ ++|+||.+||+|++.+++++|+|+|+.+++++||+.|+        
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            999999999999998654 59999999999996 45999999999999999999999999999999999985        


Q ss_pred             -CCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEe
Q 024919          184 -EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYL  226 (260)
Q Consensus       184 -~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~  226 (260)
                       ++||++||++++++||+.+.+||..+++.++|++|+++|++..
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             8999999999999999999999999999999999999998543

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=5e-44  Score=299.94  Aligned_cols=184  Identities=35%  Similarity=0.524  Sum_probs=178.8

Q ss_pred             CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        40 G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      |+|+|||+++||||||+|+|.+.|.++.+++.+|||+|+++++|+++|..+|++.+.+++|.+++.|+..++++++++.+
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            78999999999999999999998999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcc-CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 024919          120 LTLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (260)
Q Consensus       120 a~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~a  198 (260)
                      ++++++.++.++ |||++++|+||||++||+||.+||+|++.+++++++|+|+.+++++||+.|+++||++||++++++|
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 7999999999999989999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEEEeCCCE
Q 024919          199 ICSGIFNDLGSGSNVDICVITKGDK  223 (260)
Q Consensus       199 l~~a~~~d~~~~~~iei~iitk~g~  223 (260)
                      |+.+.+||..++++++|++|+++|+
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.

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

Probab=100.00  E-value=2.7e-45  Score=303.43  Aligned_cols=210  Identities=18%  Similarity=0.184  Sum_probs=194.5

Q ss_pred             CCCCCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEE
Q 024919            9 PPKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYC   83 (260)
Q Consensus         9 ~~~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~   83 (260)
                      .|++|||     |||+||+||||||     +||+.+++|||||+|+|||||++++-+++ ++...+...|||.|++||+|
T Consensus         3 sIGtGyDls~s~fSpdGrvfQveYA-----~KAven~~T~IGIk~kdGVVl~vEKli~S-kLy~p~sn~ri~~V~r~iG~   76 (254)
T KOG0184|consen    3 SIGTGYDLSASTFSPDGRVFQVEYA-----QKAVENSGTCIGIKCKDGVVLAVEKLITS-KLYEPGSNERIFSVDRHIGM   76 (254)
T ss_pred             cccccccccceeeCCCCceehHHHH-----HHHHhcCCcEEEEecCCeEEEEEeeeecc-cccccCCCCceEeecccccE
Confidence            3678887     7799999999999     99999999999999999999999999987 67778899999999999999


Q ss_pred             EecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCC
Q 024919           84 CGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGS  158 (260)
Q Consensus        84 ~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~  158 (260)
                      +++|+.+|.+.+..++|.++..|+.+|+.++|...++.++.+.++.+     -||||++.++++||.+||+||++||+|.
T Consensus        77 avaGl~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG~~~~~~~yd~~g~~LymiepSG~  156 (254)
T KOG0184|consen   77 AVAGLIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFGASTILGSYDDEGPQLYMIEPSGS  156 (254)
T ss_pred             EEeccccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhccccccceEEEEEEeCCCceEEEEcCCCC
Confidence            99999999999999999999999999999999999999999887643     4899999999999999999999999999


Q ss_pred             ccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeC--CCEE
Q 024919          159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK--GDKE  224 (260)
Q Consensus       159 ~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk--~g~~  224 (260)
                      ...++.+|+|.|.+.+++.||+.--.+|+.+|+++.+.+.|..+.+......-.+|+.++..  +|.+
T Consensus       157 ~~~Y~~aaiGKgrq~aKtElEKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~eTnG~h  224 (254)
T KOG0184|consen  157 SYGYKGAAIGKGRQAAKTELEKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEETNGLH  224 (254)
T ss_pred             ccceeeeeccchhHHHHHHHHhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEeecCCcc
Confidence            99999999999999999999999888999999999999999988877777677889988864  4543

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=6.5e-44  Score=301.40  Aligned_cols=186  Identities=24%  Similarity=0.319  Sum_probs=178.3

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+|||+|+++++|++||..+|++.+.+++|.+++.|++.++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhc---cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHH
Q 024919          121 TLLKSHLFKY---QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVC  196 (260)
Q Consensus       121 ~~l~~~~~~~---~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~  196 (260)
                      +++++.++.+   +|||++++|+||||+ .||+||++||+|++.+++++|+|+|+.+++++||+.|+++||.+||+++++
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            9999988643   369999999999996 679999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCcEEEEEEeCCCEEEe
Q 024919          197 EAICSGIFNDLGSGSNVDICVITKGDKEYL  226 (260)
Q Consensus       197 ~al~~a~~~d~~~~~~iei~iitk~g~~~~  226 (260)
                      +||+.+.+||..++++++|.+|+++|++.+
T Consensus       162 ~a~~~~~~rd~~~~~~i~i~ii~~~g~~~~  191 (193)
T cd03758         162 KCIKELKKRFIINLPNFTVKVVDKDGIRDL  191 (193)
T ss_pred             HHHHHHHHhccccCCceEEEEEcCCCeEeC
Confidence            999999999999999999999999998754

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.

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

Probab=100.00  E-value=3.8e-44  Score=301.59  Aligned_cols=253  Identities=66%  Similarity=1.068  Sum_probs=238.9

Q ss_pred             CCCCCCCCCccccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEE
Q 024919            5 NIGIPPKGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCC   84 (260)
Q Consensus         5 ~~~~~~~~g~~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~   84 (260)
                      .-.+|+++||+|..+-|.--++-. --.+.++.++|+|++|+.++||||+++|+|.+.|..+..++.+||+.|.++|+||
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 SPDLPPRGGFSFDNCQRNAALLKK-GLKAPKATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCC   81 (271)
T ss_pred             CCCCCccCCCChhhhhhHHHHHhc-CCCCCcccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEc
Confidence            345788999999999998544433 2345788999999999999999999999999999999999999999999999999


Q ss_pred             ecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCe
Q 024919           85 GAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPF  164 (260)
Q Consensus        85 ~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~  164 (260)
                      .+|-++|...+.+.+..+++.|+++.++.+++-...++++|++++|++..++.+|++|+|..||+||.+-|.|+...-+|
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            99999999999999999999999999999999889999999999999999999999999999999999999999999999


Q ss_pred             EEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCccccCCccc
Q 024919          165 ATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYS  244 (260)
Q Consensus       165 ~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~~~~~~~~~  244 (260)
                      .+.|||+..+.++||..|+++|++|||++|+.+|+...+..|..+|.++++|||++.++++++++..++.+. +|...|.
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            999999999999999999999999999999999999999999999999999999999999999999999988 8999999


Q ss_pred             cCCCccceeeeeecc
Q 024919          245 FPKKTEGTCITKLFP  259 (260)
Q Consensus       245 ~~~~~~~~~~~~~~~  259 (260)
                      .+.||+.-+-++.+|
T Consensus       241 ~~~gtT~VL~~~v~~  255 (271)
T KOG0173|consen  241 FKPGTTAVLKEKVYP  255 (271)
T ss_pred             eCCCceEEEeeeeee
Confidence            999999999999887

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=5.9e-44  Score=311.81  Aligned_cols=200  Identities=24%  Similarity=0.346  Sum_probs=189.0

Q ss_pred             cccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCC
Q 024919           36 YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR  115 (260)
Q Consensus        36 a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~  115 (260)
                      .+.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||+.+|++.+.+++|.+++.|++.++++++
T Consensus        35 ~~~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~is  114 (247)
T PTZ00488         35 EFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELIS  114 (247)
T ss_pred             ccCCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCC
Confidence            35679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhccC-ccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHH
Q 024919          116 VVTALTLLKSHLFKYQG-HVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISL  194 (260)
Q Consensus       116 ~~~la~~l~~~~~~~~~-p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l  194 (260)
                      ++.+|+++++.+|.+|. |+.+++|+||||++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||.+||+++
T Consensus       115 v~~la~~ls~~l~~~R~~~~~v~~iiaG~D~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dms~eEai~l  194 (247)
T PTZ00488        115 VAAASKILANIVWNYKGMGLSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDL  194 (247)
T ss_pred             HHHHHHHHHHHHHhcCCCCeeEEEEEEEEeCCCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcCCCCHHHHHHH
Confidence            99999999999988742 34455899999988999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCC
Q 024919          195 VCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR  235 (260)
Q Consensus       195 ~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~  235 (260)
                      +++||+.+.+||..++++++|++|+++|++.+++.++.++.
T Consensus       195 ~~kal~~~~~Rd~~sg~~~ei~iI~k~g~~~l~~~ei~~~l  235 (247)
T PTZ00488        195 GRRAIYHATFRDAYSGGAINLYHMQKDGWKKISADDCFDLH  235 (247)
T ss_pred             HHHHHHHHHHhccccCCCeEEEEEcCCccEECCHHHHHHHH
Confidence            99999999999999999999999999999999998887663

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=1.9e-43  Score=297.22  Aligned_cols=187  Identities=35%  Similarity=0.505  Sum_probs=180.4

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|+++++|+++|..+|++.+.+++|.+++.|++.++++++++.++
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            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcc-CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (260)
Q Consensus       121 ~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al  199 (260)
                      +++++.+|.++ +||++++|+||||+++|+||.+||+|++.+++++|+|+|+.+++++|++.|+++|+++||++++++||
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 79999999999998789999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEEEeCCCEEEec
Q 024919          200 CSGIFNDLGSGSNVDICVITKGDKEYLR  227 (260)
Q Consensus       200 ~~a~~~d~~~~~~iei~iitk~g~~~~~  227 (260)
                      +.+.+||..++++++|++++++|++.++
T Consensus       161 ~~~~~rd~~~~~~i~i~iv~~~g~~~~~  188 (188)
T cd03764         161 KSAIERDSASGDGIDVVVITKDGYKELE  188 (188)
T ss_pred             HHHHhhcCCCCCcEEEEEECCCCeEeCC
Confidence            9999999999999999999999987653

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=3.1e-43  Score=295.87  Aligned_cols=185  Identities=34%  Similarity=0.556  Sum_probs=179.7

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.+.+++|.+++.|++.++++++++.++
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            58999999999999999999999999889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al  199 (260)
                      +++++.++.+++||++++|+||+|+ +||+||.+||.|++.+++++++|+|+.+++++||+.|+++||++||++++++||
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 779999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEEEeCCCEEE
Q 024919          200 CSGIFNDLGSGSNVDICVITKGDKEY  225 (260)
Q Consensus       200 ~~a~~~d~~~~~~iei~iitk~g~~~  225 (260)
                      +.+.+||+.+++.++|++|+++|++.
T Consensus       161 ~~~~~rd~~~~~~~~i~~i~~~g~~~  186 (188)
T cd03762         161 SLAMSRDGSSGGVIRLVIITKDGVER  186 (188)
T ss_pred             HHHHHhccccCCCEEEEEECCCCEEE
Confidence            99999999999999999999999853

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.

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

Probab=100.00  E-value=9.7e-45  Score=298.71  Aligned_cols=210  Identities=20%  Similarity=0.303  Sum_probs=196.8

Q ss_pred             ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHH
Q 024919           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (260)
Q Consensus        16 fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l   95 (260)
                      |||+|+|+|||||     ++|+.+|+|+||++++|+|||+.+++... .+...+...||..+++|++++++|+.+|++.+
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     99999999999999999999999998775 88888999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCC-CEEEEEcCCCCccccCeEEEcC
Q 024919           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        96 ~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +++.|-+|+.|+++...+++++.+.+++++..++|     +||||+++|++|+|++| |.||.+||+|.+.+|++-|+|.
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            99999999999999999999999999999887765     48999999999999977 9999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCC--CCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC-EEEeccccCCCC
Q 024919          170 GSLAAMAVFESKYREG--LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPNP  234 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~--~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g-~~~~~~~~~~~~  234 (260)
                      ++..+..+||++|.++  .+..+++++++++|......+   +.++++.+++..+ .++++..++...
T Consensus       165 ~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvqs~---~~nie~aVm~~~~~~~~l~~~~I~~~  229 (249)
T KOG0183|consen  165 SSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQSG---GKNIEVAVMKRRKDLKMLESEEIDDI  229 (249)
T ss_pred             ccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhhcC---CCeeEEEEEecCCceeecCHHHHHHH
Confidence            9999999999999876  788999999999998888654   6899999999987 899988877654

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

Probab=100.00  E-value=4.2e-44  Score=294.28  Aligned_cols=209  Identities=20%  Similarity=0.236  Sum_probs=193.2

Q ss_pred             CCCccccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChH
Q 024919           11 KGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAA   90 (260)
Q Consensus        11 ~~g~~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~a   90 (260)
                      +.-..||||||++|||||     ++++.+.+|+|||.++||||||++++.++.-+-.....+||++|+|+++|+.+|+.+
T Consensus         7 srttiFspEGRLyQVEyA-----meais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~   81 (249)
T KOG0178|consen    7 SRTTIFSPEGRLYQVEYA-----MEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTS   81 (249)
T ss_pred             CcccccCCCcchHHHHHH-----HHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccc
Confidence            445679999999999999     999999999999999999999999999874444456789999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhh---c--cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCe
Q 024919           91 DTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFK---Y--QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPF  164 (260)
Q Consensus        91 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~---~--~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~  164 (260)
                      |+..|+.++|..++.|.++|++++|++.|++.+++..+.   |  .||||||+|.+|||+ .|.+||+.||+|++..|++
T Consensus        82 DAnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFGVSfLYaGwd~~~gyqLy~SdPSGny~gWka  161 (249)
T KOG0178|consen   82 DANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFGVSFLYAGWDDRYGYQLYQSDPSGNYGGWKA  161 (249)
T ss_pred             cHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCceeeeeeceecCcceEEEecCCCCCccccce
Confidence            999999999999999999999999999999999888754   3  389999999999997 5789999999999999999


Q ss_pred             EEEcCChHHHHHHHHhhcCCCC-CHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEE
Q 024919          165 ATMGSGSLAAMAVFESKYREGL-TKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKE  224 (260)
Q Consensus       165 ~aiG~g~~~~~~~Le~~~~~~~-s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~  224 (260)
                      .++|.++..++..|...|+++. +++||..+|++.|..+++....+.+.+|+..++++..+
T Consensus       162 ~ciG~N~~Aa~s~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k  222 (249)
T KOG0178|consen  162 TCIGANSGAAQSMLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNK  222 (249)
T ss_pred             eeeccchHHHHHHHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCc
Confidence            9999999999999999999765 59999999999999999999999999999999998643

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

Probab=100.00  E-value=5.4e-45  Score=296.26  Aligned_cols=214  Identities=19%  Similarity=0.280  Sum_probs=202.7

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|+|.|+|||     +.|+.+|.+.|||+..||||||++++..+ .+....+..|+++|.+||+|.+||+.+|++.
T Consensus        12 tFSpsGKL~QieyA-----L~Av~~G~~SvGi~A~nGvVlatekk~~s-~L~~~~sv~KV~~i~~~IG~vYSGmgpD~Rv   85 (233)
T KOG0181|consen   12 TFSPSGKLVQIEYA-----LTAVVNGQTSVGIKAANGVVLATEKKDVS-PLVDEESVRKVEKITPHIGCVYSGMGPDYRV   85 (233)
T ss_pred             EEcCCCceehHHHH-----HHHHhCCCCceeeeecCceEEEeccCCCC-ccchhhhhhhHhhccCCcceEEecCCCceee
Confidence            58999999999999     99999999999999999999999998776 7888889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhcc-----CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-----GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~-----~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +++..|+.++.|...|++++++..+++.++..+++|.     ||||+++++||||+.+|.||++||+|+++.|+++|+|.
T Consensus        86 lV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGvslliaG~~~~~p~LyQvdPSGsyf~wkatA~Gk  165 (233)
T KOG0181|consen   86 LVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGVSLLIAGWDEGGPLLYQVDPSGSYFAWKATAMGK  165 (233)
T ss_pred             hhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccceEEEEeecCCCceeEEEECCccceeehhhhhhcc
Confidence            9999999999999999999999999999999998763     79999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCC
Q 024919          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR  235 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~  235 (260)
                      +...++.+||+.|++++.+++++..|+..|++..+-.. +.+++||.++..++.+.+++.+|+.+.
T Consensus       166 n~v~aktFlEkR~~edleldd~ihtailtlkE~fege~-~~~nieigv~~~~~F~~lt~~eI~d~l  230 (233)
T KOG0181|consen  166 NYVNAKTFLEKRYNEDLELDDAIHTAILTLKESFEGEM-TAKNIEIGVCGENGFRRLTPAEIEDYL  230 (233)
T ss_pred             CcchHHHHHHHHhccccccchHHHHHHHHHHHHhcccc-ccCceEEEEecCCceeecCHHHHHHHH
Confidence            99999999999999999999999999999999987765 479999999999999999998887653

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=8.1e-43  Score=301.96  Aligned_cols=206  Identities=18%  Similarity=0.276  Sum_probs=187.9

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEec----CcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCC-CCC
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMA----PNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGR-ESR  115 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~----~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~-~i~  115 (260)
                      |.+|||+++||||||+|+|.+.+ ++..++.+|||+|+    +|++|+.||..+|++.+++++|.+++.|++.+++ +++
T Consensus         1 ~~~vGIk~kdGVVLaadkr~~~~-l~~~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~   79 (236)
T cd03765           1 TYCLGIKLDAGLVFASDSRTNAG-VDNISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPT   79 (236)
T ss_pred             CeEEEEEeCCeEEEEEccCccCC-CccccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCC
Confidence            46899999999999999999875 44445789999998    8999999999999999999999999999999999 899


Q ss_pred             HHHHHHHHHHHHhh----c-------cCccceEEEEEEEeC-CCCEEEEEcCCCCcccc----CeEEEcCChHHHHHHHH
Q 024919          116 VVTALTLLKSHLFK----Y-------QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTL----PFATMGSGSLAAMAVFE  179 (260)
Q Consensus       116 ~~~la~~l~~~~~~----~-------~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~----~~~aiG~g~~~~~~~Le  179 (260)
                      ++.+|+++++++++    +       .|||+|++|+||||+ .||+||.+||+|++.++    +|+|+|. +.+++++||
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            99999999887543    2       379999999999994 78999999999999998    5689996 799999999


Q ss_pred             hhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCccccCCccccCCC
Q 024919          180 SKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKK  248 (260)
Q Consensus       180 ~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~~~~~~~~~~~~~  248 (260)
                      +.|+++||++||++++++||+.+++||..++++++|++|+++|.+......++.+.+|.++..-+|+.+
T Consensus       159 k~yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~G~~~~~~~~~~~~~~~~~~~~~~~~~~  227 (236)
T cd03765         159 RVITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERDSLQVGHYRRIEEDDPYFAMIRKAWSEA  227 (236)
T ss_pred             HhcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECCCeeeeeeEEecCCCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999989999999999988777777543

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

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=3.2e-42  Score=296.44  Aligned_cols=196  Identities=21%  Similarity=0.287  Sum_probs=182.8

Q ss_pred             CCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHH
Q 024919           39 TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVT  118 (260)
Q Consensus        39 ~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~  118 (260)
                      +|+|+|||+++||||||+|+|.++|.++.+++.+|||+|++|++|+++|..+|++.+.+++|.+++.|+++++++++++.
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~   80 (219)
T TIGR03690         1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDG   80 (219)
T ss_pred             CCcEEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHH
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhc----cCccceEEEEEEEeC--CCCEEEEEcCCC-CccccCeEEEcCChHHHHHHHHhhcCCCCCHHHH
Q 024919          119 ALTLLKSHLFKY----QGHVQAALVLGGVDA--TGPHLHTIYPHG-STDTLPFATMGSGSLAAMAVFESKYREGLTKEEG  191 (260)
Q Consensus       119 la~~l~~~~~~~----~~p~~v~~ivaG~D~--~gp~Ly~iDp~G-~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~ea  191 (260)
                      ++++++++++.+    .|||++++|+||||+  ++|+||.+||+| ++.+++++|+|+|+.+++++||+.|+++||.+||
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    579999999999995  469999999999 5778899999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCc-------EEEEEEeCCCEEEeccccCCCC
Q 024919          192 ISLVCEAICSGIFNDLGSGSN-------VDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       192 i~l~~~al~~a~~~d~~~~~~-------iei~iitk~g~~~~~~~~~~~~  234 (260)
                      ++++++||+.+.++|..+++.       ++|++++++|++.+++.+++..
T Consensus       161 i~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~g~~~l~~~ei~~~  210 (219)
T TIGR03690       161 LRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITADGARRVPESELEEL  210 (219)
T ss_pred             HHHHHHHHHHHHhcccccCCcccccccccEEEEEccCceEEcCHHHHHHH
Confidence            999999999999999866664       3999999999999988887654

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=1.1e-41  Score=286.41  Aligned_cols=185  Identities=44%  Similarity=0.631  Sum_probs=178.8

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++..++.+|||+|+++++|+++|+.+|++.+.++++.+++.|+..++++++++.++
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            58999999999999999999999888789999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccC-ccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQG-HVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (260)
Q Consensus       121 ~~l~~~~~~~~~-p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~a  198 (260)
                      +++++.+|.+++ ||++++|+||+|+ ++|+||.+||.|++.+++++++|+++.+++++|++.|+++||++||++++.+|
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            999999998775 9999999999997 67999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEEEeCCCEEE
Q 024919          199 ICSGIFNDLGSGSNVDICVITKGDKEY  225 (260)
Q Consensus       199 l~~a~~~d~~~~~~iei~iitk~g~~~  225 (260)
                      |+.+.++|+.++++++|++|+++|++.
T Consensus       161 l~~~~~~d~~~~~~~~v~vi~~~g~~~  187 (189)
T cd01912         161 IDSAIERDLSSGGGVDVAVITKDGVEE  187 (189)
T ss_pred             HHHHHHhcCccCCcEEEEEECCCCEEE
Confidence            999999999999999999999999865

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

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=2.9e-41  Score=291.60  Aligned_cols=196  Identities=16%  Similarity=0.210  Sum_probs=177.7

Q ss_pred             HhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHH
Q 024919           25 LSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQ  104 (260)
Q Consensus        25 veya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~  104 (260)
                      =|||     ++|+++|+|+|||+++||||||+|++.        ++.+|||+|+||++|+++|+.+|++.++++.+.+++
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            4999     999999999999999999999999962        357899999999999999999999999999999999


Q ss_pred             HhhhhcC-CCCCHHHHHHHHHHHHhh----ccCccceEEEEEEEeC--CCCEEEEEcCCCCccccC-eEEEcCChHHHHH
Q 024919          105 LHRYHTG-RESRVVTALTLLKSHLFK----YQGHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLP-FATMGSGSLAAMA  176 (260)
Q Consensus       105 ~~~~~~~-~~i~~~~la~~l~~~~~~----~~~p~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~~-~~aiG~g~~~~~~  176 (260)
                      .|++.++ .+++++.+|+.+++.+..    ..|||+|++|++|||+  .||+||.+||+|++.+++ ++|+|+|+..+++
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 689999999988887643    3589999999999984  679999999999999976 8999999999999


Q ss_pred             HHHhhcCCCCCHHHHHHHHHHHHHHHH--hhcCCCCCcEEEEEEeCCC----EEEeccccCCC
Q 024919          177 VFESKYREGLTKEEGISLVCEAICSGI--FNDLGSGSNVDICVITKGD----KEYLRNHQLPN  233 (260)
Q Consensus       177 ~Le~~~~~~~s~~eai~l~~~al~~a~--~~d~~~~~~iei~iitk~g----~~~~~~~~~~~  233 (260)
                      +||+.|+++||++||++++++||+.+.  +++..++.++||.++++++    .+.+++.++..
T Consensus       164 ~Lek~y~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~f~~l~~~ei~~  226 (228)
T TIGR03691       164 ALKESYRDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRAFRRITGEALER  226 (228)
T ss_pred             HHHHhcCCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccceEECCHHHHHh
Confidence            999999999999999999999999995  4656788999999999764    77777776654

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.

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

Probab=100.00  E-value=6.8e-41  Score=278.64  Aligned_cols=212  Identities=23%  Similarity=0.265  Sum_probs=194.1

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|||+|||||     ++|++.|++.||++.++..||++-+|..+ .+  .+.++|||+|++|++++++|+.+|++.
T Consensus        12 ~wsPqGrl~QvEya-----~EavkqGsatVGLks~thaVLvAl~r~~s-eL--ss~QkKi~~iD~h~g~siAGLt~Darv   83 (264)
T KOG0863|consen   12 TWSPQGRLHQVEYA-----MEAVKQGSATVGLKSRTHAVLVALKRAQS-EL--SSHQKKIFKIDDHIGISIAGLTADARV   83 (264)
T ss_pred             EECCcceehHHHHH-----HHHHhcccceEeecccceEEEeeeccchh-HH--HHhhheeEecccccceEEeccCcchHH
Confidence            49999999999999     99999999999999999999999888775 33  567899999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhh----c-cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFK----Y-QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~----~-~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +.+++|.+|..++..+++++++..++..|.+.++.    + +|||||.++++|||+.||+||.++|+|++.+++..+||+
T Consensus        84 l~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gYDe~G~hl~e~~Psg~v~e~~g~sIGs  163 (264)
T KOG0863|consen   84 LSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGYDESGPHLYEFCPSGNVFECKGMSIGS  163 (264)
T ss_pred             HHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEeecCCCceeEEEcCCccEEEEeeeeccc
Confidence            99999999999999999999999999988877752    2 689999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHhhcC--CCCCHHHHHHHHHHHHHHHHhhc-CCCCCcEEEEEEeCCC-EEEeccccCCCC
Q 024919          170 GSLAAMAVFESKYR--EGLTKEEGISLVCEAICSGIFND-LGSGSNVDICVITKGD-KEYLRNHQLPNP  234 (260)
Q Consensus       170 g~~~~~~~Le~~~~--~~~s~~eai~l~~~al~~a~~~d-~~~~~~iei~iitk~g-~~~~~~~~~~~~  234 (260)
                      .++.++.+||++..  ++++.||.+..+++||+.+...| ..++.+++|+|+-|+. +++++...+.++
T Consensus       164 RSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~pf~~~d~~~~~k~  232 (264)
T KOG0863|consen  164 RSQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDEPFTILDQKDVAKY  232 (264)
T ss_pred             chhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCCceEeecHHHHHHH
Confidence            99999999999976  59999999999999999999744 6788999999999986 577777666544

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=2.4e-39  Score=270.05  Aligned_cols=178  Identities=36%  Similarity=0.542  Sum_probs=171.5

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|..+.+++.+|||+|+++++|+++|..+|++.+.++++.++..|++.++++++++.++
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            58999999999999999999998887788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcc---CccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ---GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVC  196 (260)
Q Consensus       121 ~~l~~~~~~~~---~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~  196 (260)
                      +++++.++.++   +||++++|+||+|+ ++|+||.+||.|++.+++++++|+++.+++++|++.|+++||.+||+++++
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            99999998776   79999999999997 789999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCcEEEEEE
Q 024919          197 EAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       197 ~al~~a~~~d~~~~~~iei~ii  218 (260)
                      +||+.+.++|..++.+++|++|
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=3.1e-39  Score=271.13  Aligned_cols=182  Identities=31%  Similarity=0.430  Sum_probs=167.8

Q ss_pred             ccCCceEEEEEeCCEEEEEEcCCCcCCceeeecc-cCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCC
Q 024919           37 RKTGTTIVGLIFQNGVILGADTRATAGSIVCDKN-CEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR  115 (260)
Q Consensus        37 ~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~-~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~  115 (260)
                      +++|+|+|||+++||||||+|+|.+.|+.+..++ .+|||+|++|++|++||..+|++.++++++.+++.|++.++++++
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            4689999999999999999999999888886666 699999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHH----Hh-hccCccceEEEEEEEeCCC-CEEEEEcCCCCcccc-CeEEEcCChHHHHHHHHhhcCCCCCH
Q 024919          116 VVTALTLLKSH----LF-KYQGHVQAALVLGGVDATG-PHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTK  188 (260)
Q Consensus       116 ~~~la~~l~~~----~~-~~~~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~-~~~aiG~g~~~~~~~Le~~~~~~~s~  188 (260)
                      ++.+++.+.+.    ++ .+.+|+++++|+||||+++ |+||.+||+|++.++ +++++|+|+.+++++|++.|+++||+
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            99555554444    33 3368999999999999866 999999999999999 69999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcEEEEEE
Q 024919          189 EEGISLVCEAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       189 ~eai~l~~~al~~a~~~d~~~~~~iei~ii  218 (260)
                      +||++++++||+.+.++|..++++++|++|
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 ....

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

Probab=100.00  E-value=9.2e-40  Score=268.85  Aligned_cols=218  Identities=19%  Similarity=0.230  Sum_probs=200.6

Q ss_pred             CCCCcc-----ccCchhhHHHhhcCCCCCCccccC-CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEE
Q 024919           10 PKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYC   83 (260)
Q Consensus        10 ~~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~-G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~   83 (260)
                      ...|||     |||||||+|||||     ++|+++ |-|.||++++|++|+++.++... +++..+...++|+|+.+|+|
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            467886     9999999999999     999998 88999999999999999999986 88888999999999999999


Q ss_pred             EecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCC
Q 024919           84 CGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHG  157 (260)
Q Consensus        84 ~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G  157 (260)
                      +++|..+|.+..++++|.++.++++.||.+|+++.||+.+.+.-+.+     .||+|+.+++.|+|+ .||.+|.+||.|
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            99999999999999999999999999999999999999887766533     589999999999997 679999999999


Q ss_pred             CccccCeEEEcCChHHHHHHHHhhcCCC--CCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC--EEEeccccCCC
Q 024919          158 STDTLPFATMGSGSLAAMAVFESKYREG--LTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD--KEYLRNHQLPN  233 (260)
Q Consensus       158 ~~~~~~~~aiG~g~~~~~~~Le~~~~~~--~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g--~~~~~~~~~~~  233 (260)
                      -+..+++++.|.....+.++||++|+++  .|.+|++++++.||..++.-|.. ...+||.+++++.  .++++..+++.
T Consensus       159 yy~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk-~se~EVgvv~~~~p~f~~Ls~~eie~  237 (246)
T KOG0182|consen  159 YYYGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFK-SSELEVGVVTVDNPEFRILSAEEIEE  237 (246)
T ss_pred             ccccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccC-CcceEEEEEEcCCcceeeccHHHHHH
Confidence            9999999999999999999999999987  67999999999999999988865 5789999999876  67888777665


Q ss_pred             C
Q 024919          234 P  234 (260)
Q Consensus       234 ~  234 (260)
                      -
T Consensus       238 h  238 (246)
T KOG0182|consen  238 H  238 (246)
T ss_pred             H
Confidence            3

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

Probab=100.00  E-value=5.2e-38  Score=258.10  Aligned_cols=210  Identities=22%  Similarity=0.316  Sum_probs=191.1

Q ss_pred             CccccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHH
Q 024919           13 GFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADT   92 (260)
Q Consensus        13 g~~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~   92 (260)
                      |..-.|.++.-+.+-.   .+.++..+|+|+|||++.|++|+|+|+|.++|..|.++...|||+++|+++++.||..+|+
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            3333444555555555   2368889999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhcc-CccceEEEEEEEeCCC-CEEEEEcCCCCccccCeEEEcCC
Q 024919           93 EAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSG  170 (260)
Q Consensus        93 ~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~-~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~~~~aiG~g  170 (260)
                      ..|...++..+..|+..+.+.|++.++|++|+..+|..| .||.+..|+||+|++| +.+|++||.|++.+..+.|-|++
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            999999999999999999999999999999999998765 4999999999999977 89999999999999999999999


Q ss_pred             hHHHHHHHHhhcC-----------CCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEE
Q 024919          171 SLAAMAVFESKYR-----------EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (260)
Q Consensus       171 ~~~~~~~Le~~~~-----------~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~  225 (260)
                      +.+++++|++...           ..+|+|+|+.++..+|..|.+||+.+|+.++||+++++|++.
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            9999999997742           468999999999999999999999999999999999999853

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

Probab=100.00  E-value=1.1e-37  Score=253.50  Aligned_cols=198  Identities=32%  Similarity=0.540  Sum_probs=187.7

Q ss_pred             ccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCC
Q 024919           35 SYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES  114 (260)
Q Consensus        35 ~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i  114 (260)
                      ..+..|+|++|+++++||||++|+|.+.|.++.++..+|+-+|.|+|+||-||.++|.|.+.+.++.++..|..++++++
T Consensus        14 ~evstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p   93 (224)
T KOG0174|consen   14 EEVSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPP   93 (224)
T ss_pred             cccccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCc
Confidence            45789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHhhccCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHH
Q 024919          115 RVVTALTLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGIS  193 (260)
Q Consensus       115 ~~~~la~~l~~~~~~~~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~  193 (260)
                      ++...|++++++.|+++..+.+.+||||||+ +|.++|.+--.|+..+.+++.-|||+.+++++++..||++||+||+++
T Consensus        94 ~v~~aA~l~r~~~Y~~re~L~AgliVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~nMt~EE~~~  173 (224)
T KOG0174|consen   94 LVHTAASLFREICYNYREMLSAGLIVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPNMTLEECVR  173 (224)
T ss_pred             hHHHHHHHHHHHHHhCHHhhhcceEEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCCCCHHHHHH
Confidence            9999999999999999888889999999997 779999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCcEEEEEEeCCCEE--EeccccCC
Q 024919          194 LVCEAICSGIFNDLGSGSNVDICVITKGDKE--YLRNHQLP  232 (260)
Q Consensus       194 l~~~al~~a~~~d~~~~~~iei~iitk~g~~--~~~~~~~~  232 (260)
                      +..+|+..|+.||-.+|+.+.+.+|+++|++  +..+.+++
T Consensus       174 fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver~~~~~d~~~  214 (224)
T KOG0174|consen  174 FVKNAVSLAIERDGSSGGVIRLVIINKAGVERRFFPGDKLG  214 (224)
T ss_pred             HHHHHHHHHHhccCCCCCEEEEEEEccCCceEEEecCCccc
Confidence            9999999999999999999999999999974  44444443

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

Probab=100.00  E-value=3.4e-37  Score=257.19  Aligned_cols=227  Identities=21%  Similarity=0.341  Sum_probs=205.3

Q ss_pred             cccCchhhHHHhhcCC---CCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHH
Q 024919           15 SFDLCRRNDMLSKKGI---VPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAAD   91 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~---~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD   91 (260)
                      +|.|.|  -+++-|+.   ..++....+|+++||++++||||||+|+..++|++...++.+||++|+|++++++||..+|
T Consensus        15 ~f~~~~--~~m~~a~~~~~qrt~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD   92 (256)
T KOG0185|consen   15 TFYPSG--SLMENAGDYPIQRTLNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISD   92 (256)
T ss_pred             cCcCcc--chhhhccCCCcccccCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHH
Confidence            466776  45555543   2345667799999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhh-hhcCCCCCHHHHHHHHHHHHhhcc---CccceEEEEEEEeCCC-CEEEEEcCCCCccccCeEE
Q 024919           92 TEAVTDMVSSQLQLHR-YHTGRESRVVTALTLLKSHLFKYQ---GHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFAT  166 (260)
Q Consensus        92 ~~~l~~~~r~~~~~~~-~~~~~~i~~~~la~~l~~~~~~~~---~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~~~~a  166 (260)
                      +|.+.+.+.+...+.. +..++.+.++.++++|.+.+|+.|   .|+...++|||+|++| |+|-.+|..|...+.+..|
T Consensus        93 ~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvlY~rRsKmnPlwntlvVgGv~~~g~~~lg~V~~~G~~Y~~~~vA  172 (256)
T KOG0185|consen   93 FQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVLYARRSKMNPLWNTLVVGGVDNTGEPFLGYVDLLGVAYESPVVA  172 (256)
T ss_pred             HHHHHHHHHHHHhcccccccccccChHHHHHHHHHHHHHhhhccCchhhheeEeeecCCCCeeEEEEeeccccccCchhh
Confidence            9999999988776543 666789999999999999999765   5999999999999855 9999999999999999999


Q ss_pred             EcCChHHHHHHHHhhcC---CCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCcc-ccCCc
Q 024919          167 MGSGSLAAMAVFESKYR---EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTY-ISSKG  242 (260)
Q Consensus       167 iG~g~~~~~~~Le~~~~---~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~~-~~~~~  242 (260)
                      +|.|..++.++|++.|+   +++|.+||.+++.+||+....||+.+.+.++|.+||++|+++.+|+++...|++ ++-+|
T Consensus       173 TGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~eGv~i~~p~qv~~~W~fa~~~~g  252 (256)
T KOG0185|consen  173 TGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQVATVDEEGVTISKPYQVKTNWDFAETIKG  252 (256)
T ss_pred             hhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceEEEEEcccceEecCceeeeecchhhhhccc
Confidence            99999999999999998   579999999999999999999999999999999999999999999999999999 55666


Q ss_pred             c
Q 024919          243 Y  243 (260)
Q Consensus       243 ~  243 (260)
                      |
T Consensus       253 y  253 (256)
T KOG0185|consen  253 Y  253 (256)
T ss_pred             c
Confidence            5

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

Probab=100.00  E-value=1.6e-35  Score=240.16  Aligned_cols=192  Identities=22%  Similarity=0.316  Sum_probs=183.1

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      .+++||++.|+|++|+|+....+-++..++.+|+++|+++++++++|..+|+..+.+++...++.|+.++|.+++++.+|
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            57899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhc---cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHH
Q 024919          121 TLLKSHLFKY---QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVC  196 (260)
Q Consensus       121 ~~l~~~~~~~---~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~  196 (260)
                      ++.++.+..+   ++||.|++|+||+|+ .||.||.+|..|+..+.++++.|.++.+..++|++.|+++||.+||+.+..
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            9999999754   569999999999997 679999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCC
Q 024919          197 EAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (260)
Q Consensus       197 ~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~  232 (260)
                      +|+.++.+|-.....++.+.+|+|+|.+.++.++..
T Consensus       162 KCv~El~kRlvin~~~f~v~IVdkdGir~~~~i~~~  197 (200)
T KOG0177|consen  162 KCVLELKKRLVINLPGFIVKIVDKDGIRKLDDINFI  197 (200)
T ss_pred             HHHHHHHHhcccCCCCcEEEEEcCCCceeccccccc
Confidence            999999999998899999999999999887776654

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

Probab=100.00  E-value=6.1e-34  Score=240.45  Aligned_cols=198  Identities=27%  Similarity=0.407  Sum_probs=188.8

Q ss_pred             ccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCH
Q 024919           37 RKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV  116 (260)
Q Consensus        37 ~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~  116 (260)
                      ..+|||.+|.+++.|||+|+|+|.+.|.+|.....+||.+|+++.+=+++|-++||+..-+.+..+|..|++++++.|++
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            45899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhccCc-cceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHH
Q 024919          117 VTALTLLKSHLFKYQGH-VQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (260)
Q Consensus       117 ~~la~~l~~~~~~~~~p-~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~  195 (260)
                      ...+++|++++++|++. +.+..++||||+.||.||.+|..|+-...+-.++|||+.+++++|++.|+.+||.+||..|+
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            99999999999999863 66888999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC
Q 024919          196 CEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       196 ~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~  234 (260)
                      ++++..|..||..+|+.+.++.|+.+|-..+.+..+.+-
T Consensus       228 rrAI~hAThRDaySGG~vnlyHv~edGW~~v~~~Dv~~L  266 (285)
T KOG0175|consen  228 RRAIYHATHRDAYSGGVVNLYHVKEDGWVKVSNTDVSEL  266 (285)
T ss_pred             HHHHHHHHhcccccCceEEEEEECCccceecCCccHHHH
Confidence            999999999999999999999999999777777766554

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=100.00  E-value=1.1e-32  Score=227.89  Aligned_cols=166  Identities=22%  Similarity=0.244  Sum_probs=149.6

Q ss_pred             CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEe-cCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHH
Q 024919           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVT  118 (260)
Q Consensus        40 G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~  118 (260)
                      |+|+|||+++||||||+|+|.+.|.++.+++.+||++| +++++|++||..+|++.+.++++.+++.|+...     .+.
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            68999999999999999999999999999999999999 999999999999999999999999999988322     467


Q ss_pred             HHHHHHHHH-hhccCccceEEEEEEEeCCCCEEEEEcCCCCcccc--CeEEEcCChHHHHHHHHhhcC-CCCCHHHHHHH
Q 024919          119 ALTLLKSHL-FKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKYR-EGLTKEEGISL  194 (260)
Q Consensus       119 la~~l~~~~-~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~--~~~aiG~g~~~~~~~Le~~~~-~~~s~~eai~l  194 (260)
                      ++++++... +.+++|+.+++|++  |.  |+||.+||.|+..+.  ++.++|||+.++.++||+.|+ ++|   ||+++
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--DK--EHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL---SAEEI  148 (172)
T ss_pred             HHHHHHHHHhccCCCccEEEEEEE--cC--CcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC---CHHHH
Confidence            777765543 45567888999884  33  799999999999766  899999999999999999999 999   99999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEE
Q 024919          195 VCEAICSGIFNDLGSGSNVDICV  217 (260)
Q Consensus       195 ~~~al~~a~~~d~~~~~~iei~i  217 (260)
                      +++|++.|.+||..+++++++-.
T Consensus       149 a~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        149 AEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             HHHHHHHHHHhCeeCCCcEEEEE
Confidence            99999999999999999998864

>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=3.7e-32  Score=223.59  Aligned_cols=165  Identities=21%  Similarity=0.212  Sum_probs=146.4

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecC-cEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAP-NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~-~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      +|+|||+++||||||+|+|.+.|.++.+++.+||++|++ |++|+++|..+|++.+.++++.+++.|+.+.++     .+
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            689999999999999999999999999999999999999 999999999999999999999999999988663     55


Q ss_pred             HHHHHHHH-hhccCccceEEEEEEEeCCCCEEEEEcCCCCcccc--CeEEEcCChHHHHHHHHhhcCCC-CCHHHHHHHH
Q 024919          120 LTLLKSHL-FKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKYREG-LTKEEGISLV  195 (260)
Q Consensus       120 a~~l~~~~-~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~--~~~aiG~g~~~~~~~Le~~~~~~-~s~~eai~l~  195 (260)
                      +++++.++ +++++.+.+.++++++    ++||.+||.|+..+.  ++.++|||+.+++++||..|+++ ||   +.+++
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            66666554 4454445577777644    399999999999998  49999999999999999999995 99   55999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEE
Q 024919          196 CEAICSGIFNDLGSGSNVDICV  217 (260)
Q Consensus       196 ~~al~~a~~~d~~~~~~iei~i  217 (260)
                      ++|++.|.+||+.+++++++..
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.

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=100.00  E-value=1e-31  Score=220.94  Aligned_cols=165  Identities=21%  Similarity=0.208  Sum_probs=147.2

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEe-cCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      +|+|||+++||||||+|+|.+.|.++.+++.+||++| ++|++|+.+|..+|++.+.++++.+++.|+.+.     .+.+
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            6899999999999999999999999999999999999 599999999999999999999999999988743     4777


Q ss_pred             HHHHHHH-HhhccCccceEEEEEEEeCCCCEEEEEcCCCCcccc--CeEEEcCChHHHHHHHHhhc-CCCCCHHHHHHHH
Q 024919          120 LTLLKSH-LFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKY-REGLTKEEGISLV  195 (260)
Q Consensus       120 a~~l~~~-~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~--~~~aiG~g~~~~~~~Le~~~-~~~~s~~eai~l~  195 (260)
                      ++++++. .+++.+.+.+.+|++|+    ++||.+||.|++.+.  ++.++|||+.++.++||..| +++|+   |++++
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 24555455577777644    399999999999995  69999999999999999999 57777   99999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEE
Q 024919          196 CEAICSGIFNDLGSGSNVDICV  217 (260)
Q Consensus       196 ~~al~~a~~~d~~~~~~iei~i  217 (260)
                      .++++.|++||+.+|++++|..
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=2.9e-29  Score=200.83  Aligned_cols=187  Identities=21%  Similarity=0.283  Sum_probs=177.0

Q ss_pred             cCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHH
Q 024919           38 KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVV  117 (260)
Q Consensus        38 ~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~  117 (260)
                      .+|+++||++++|||.||+|.|.-........+.+|||+++|+++++.+|++.|++.+.++++.....|+++.++.|.++
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            47999999999999999999998876666788999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcc-CccceEEEEEEEeCC-CCEEEEEcCCCCccc-cCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHH
Q 024919          118 TALTLLKSHLFKYQ-GHVQAALVLGGVDAT-GPHLHTIYPHGSTDT-LPFATMGSGSLAAMAVFESKYREGLTKEEGISL  194 (260)
Q Consensus       118 ~la~~l~~~~~~~~-~p~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~-~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l  194 (260)
                      .++++++..+|+.| +||-+..+|||+|++ .|+|+..|..|.... .+|++.|.++....+..|..|+|||..||..+.
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            99999999999776 699999999999974 499999999999885 699999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEEeCCCEE
Q 024919          195 VCEAICSGIFNDLGSGSNVDICVITKGDKE  224 (260)
Q Consensus       195 ~~~al~~a~~~d~~~~~~iei~iitk~g~~  224 (260)
                      +..+|.++.+||..+|....+.+|+|+++.
T Consensus       166 isQa~Lna~DRDalSGwGa~vyiI~kdkv~  195 (204)
T KOG0180|consen  166 ISQALLNAVDRDALSGWGAVVYIITKDKVT  195 (204)
T ss_pred             HHHHHHhHhhhhhhccCCeEEEEEccchhh
Confidence            999999999999999999999999999864

>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=99.96  E-value=4.6e-28  Score=196.09  Aligned_cols=160  Identities=30%  Similarity=0.332  Sum_probs=152.9

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|++.+.+........+|+++++++++++++|..+|++.+.++++..++.|++.+++++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            58999999999999999999998777678899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcc--CccceEEEEEEEeCCCCEEEEEcCCCCcccc-CeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ--GHVQAALVLGGVDATGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCE  197 (260)
Q Consensus       121 ~~l~~~~~~~~--~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~-~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~  197 (260)
                      +.+++.++.++  +|+++++|+||+|+++|+||.+||.|++.+. .++++|+++..+.++|++.|+++++.+|+++++.+
T Consensus        81 ~~~~~~~~~~~~~~p~~~~~iiag~~~~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~~~~~~~~  160 (164)
T cd01901          81 KELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALK  160 (164)
T ss_pred             HHHHHHHHHhcCCCCcceEEEEEEEcCCCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            99999998764  8999999999999888999999999999999 99999999999999999999999999999999999


Q ss_pred             HHH
Q 024919          198 AIC  200 (260)
Q Consensus       198 al~  200 (260)
                      +|+
T Consensus       161 ~l~  163 (164)
T cd01901         161 ALK  163 (164)
T ss_pred             HHh
Confidence            985

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

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

Probab=99.63  E-value=1.6e-15  Score=125.16  Aligned_cols=207  Identities=20%  Similarity=0.300  Sum_probs=157.9

Q ss_pred             CceEEEEEeCCEEEEEEcCCCcCCc-eeeecccCeeEEe---cCcEEE-EecCChHHHHHHHHHHHHHHHHhhhhcCCC-
Q 024919           40 GTTIVGLIFQNGVILGADTRATAGS-IVCDKNCEKIHYM---APNIYC-CGAGTAADTEAVTDMVSSQLQLHRYHTGRE-  113 (260)
Q Consensus        40 G~tvIgI~~~dgVvlaad~r~~~g~-~i~~~~~~KI~~I---~~~i~~-~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~-  113 (260)
                      .+.|||++...|.|+++|+|.+.|- .+  ...+|.|.-   ++++++ +.+|..+-.|.+++.+.+..+......--. 
T Consensus         1 MTYCv~l~l~~GlVf~sDsRTNAGvD~i--stfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~   78 (255)
T COG3484           1 MTYCVGLILDFGLVFGSDSRTNAGVDYI--STFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNI   78 (255)
T ss_pred             CceEEEEEeccceEEecccccccCchHH--HHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhcc
Confidence            3679999999999999999999872 22  233444432   455544 559999999999998887775322111111 


Q ss_pred             CCHHHHHHH----HHHHHhhc-------cCccceEEEEEEEeCCC-CEEEEEcCCCCccc----cCeEEEcCChHHHHHH
Q 024919          114 SRVVTALTL----LKSHLFKY-------QGHVQAALVLGGVDATG-PHLHTIYPHGSTDT----LPFATMGSGSLAAMAV  177 (260)
Q Consensus       114 i~~~~la~~----l~~~~~~~-------~~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~----~~~~aiG~g~~~~~~~  177 (260)
                      .+.-..+.+    .++++-+-       .--|.|++|++|.=..+ |.||.+.|.|++.+    ..|.-+|. ..+.+++
T Consensus        79 ~sm~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~IYpqGNFIqaT~etpf~QiGE-tKYGKPi  157 (255)
T COG3484          79 PSMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGE-TKYGKPI  157 (255)
T ss_pred             hhHHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEEccCCCeeecCCCCceeEccc-cccCchh
Confidence            122223333    33333211       12388999999986644 79999999999886    68999997 7788999


Q ss_pred             HHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCccccCCccccCCCc
Q 024919          178 FESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKT  249 (260)
Q Consensus       178 Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~~~~~~~~~~~~~~  249 (260)
                      |++.+..+++++||.++++-+|...++.+..+|-++++.++.++...+.....+.+...|.++.--.|.+.+
T Consensus       158 ldR~i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds~~v~~~~ri~edd~Y~a~ir~~W~~~l  229 (255)
T COG3484         158 LDRTITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADSFSVRHTLRIREDDPYFAKIRSLWSSYL  229 (255)
T ss_pred             hhhhhhccCCHHHHhhheEEecchhhhccccccCCceeEEEeccceeeeeeeEeccCChHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999877666665543

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

Probab=99.62  E-value=1.3e-14  Score=115.89  Aligned_cols=170  Identities=19%  Similarity=0.189  Sum_probs=134.8

Q ss_pred             cCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecC-cEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCH
Q 024919           38 KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAP-NIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRV  116 (260)
Q Consensus        38 ~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~-~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~  116 (260)
                      .++|||++++-++-|+||+|.+++.|+.+...+..|+.+|.. +++.+++|..+|+..|.+.+...++.|.-+     -.
T Consensus         2 ~h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~g~-----L~   76 (178)
T COG5405           2 FHMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQGD-----LF   76 (178)
T ss_pred             ceeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHccCc-----HH
Confidence            368999999999999999999999999999999888888865 899999999999999999999999888632     13


Q ss_pred             HHHHHHHHHHHh-hccCccceEEEEEEEeCCCCEEEEEcCCCCccc--cCeEEEcCChHHHHHHHHhhcCC-CCCHHHHH
Q 024919          117 VTALTLLKSHLF-KYQGHVQAALVLGGVDATGPHLHTIYPHGSTDT--LPFATMGSGSLAAMAVFESKYRE-GLTKEEGI  192 (260)
Q Consensus       117 ~~la~~l~~~~~-~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~--~~~~aiG~g~~~~~~~Le~~~~~-~~s~~eai  192 (260)
                      +..+.+.++... .+.|.+.+-+||+    +.-.+|-+...|-..+  .+..+||||..++++.....++. ++|   |.
T Consensus        77 raavelaKdwr~Dk~lr~LEAmllVa----d~~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~ls---A~  149 (178)
T COG5405          77 RAAVELAKDWRTDKYLRKLEAMLLVA----DKTHILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTELS---AR  149 (178)
T ss_pred             HHHHHHHHhhhhhhHHHHHhhheeEe----CCCcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccCCC---HH
Confidence            344444444332 2234456767776    3358888999998775  46999999999999998888764 666   66


Q ss_pred             HHHHHHHHHHHhhcCCCCCcEEEEEEe
Q 024919          193 SLVCEAICSGIFNDLGSGSNVDICVIT  219 (260)
Q Consensus       193 ~l~~~al~~a~~~d~~~~~~iei~iit  219 (260)
                      +++.++|..+.+-++.+++++.|..+.
T Consensus       150 eIa~~sl~iA~eiciyTN~ni~ve~l~  176 (178)
T COG5405         150 EIAEKSLKIAGDICIYTNHNIVVEELR  176 (178)
T ss_pred             HHHHHHHhhhheEEEecCCcEEEEEee
Confidence            788889998887777777777776554

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

Probab=98.75  E-value=1.2e-09  Score=59.51  Aligned_cols=14  Identities=14%  Similarity=-0.040  Sum_probs=13.5

Q ss_pred             cccCchhhHHHhhc
Q 024919           15 SFDLCRRNDMLSKK   28 (260)
Q Consensus        15 ~fsp~Gr~~Qveya   28 (260)
                      +|||+|||+|||||
T Consensus         7 ~FSp~Grl~QVEYA   20 (23)
T PF10584_consen    7 TFSPDGRLFQVEYA   20 (23)
T ss_dssp             SBBTTSSBHHHHHH
T ss_pred             eECCCCeEEeeEee
Confidence            69999999999999

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

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

Probab=96.68  E-value=0.15  Score=42.76  Aligned_cols=51  Identities=10%  Similarity=0.066  Sum_probs=43.4

Q ss_pred             HHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC
Q 024919          172 LAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD  222 (260)
Q Consensus       172 ~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g  222 (260)
                      +.+...|.+.|++.|+++++..+..++|+.+.......+..+++...++.-
T Consensus       131 ~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~~~~~~~~  181 (194)
T PF09894_consen  131 EIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDIYITTKKE  181 (194)
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEEEEecccc
Confidence            446667888899999999999999999999988877788899998877653

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

>COG4079 Uncharacterized protein conserved in archaea [Function unknown]

Probab=90.47  E-value=11  Score=32.86  Aligned_cols=149  Identities=14%  Similarity=0.158  Sum_probs=89.2

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +.+|+-.++||.|+|.|+|..                      ++-|.-.|...+-+.+         ..|+=-+-+.|+
T Consensus         2 tLviay~gknGaviaGDrR~i----------------------~frgdee~re~lEekL---------YsGeIkteEEL~   50 (293)
T COG4079           2 TLVIAYIGKNGAVIAGDRREI----------------------TFRGDEEDREKLEEKL---------YSGEIKTEEELA   50 (293)
T ss_pred             eEEEEEecCCCcEEeccceEE----------------------EEecChhHHHHHHHHh---------hcCccccHHHHH
Confidence            678999999999999999743                      2234455655555443         234434555666


Q ss_pred             HHHHHHHhhc-----c---CccceEEEEEEEeCCC------CEEEEEc-------CCCCcc----c---cCeEEEcCChH
Q 024919          121 TLLKSHLFKY-----Q---GHVQAALVLGGVDATG------PHLHTIY-------PHGSTD----T---LPFATMGSGSL  172 (260)
Q Consensus       121 ~~l~~~~~~~-----~---~p~~v~~ivaG~D~~g------p~Ly~iD-------p~G~~~----~---~~~~aiG~g~~  172 (260)
                      +.....--..     +   +...-+++++-+...+      -.+|.+-       -.|+-.    .   ..+.+.|  ..
T Consensus        51 r~aeel~Vki~vtDdr~KVrk~~d~VvvGEV~s~~~~~vkRRRvYAT~Ga~aIvel~gs~vts~~~g~g~aiIv~G--nk  128 (293)
T COG4079          51 RKAEELGVKITVTDDRNKVRKRNDGVVVGEVSSVERGIVKRRRVYATAGAYAIVELRGSEVTSTSQGKGSAIIVFG--NK  128 (293)
T ss_pred             HHHHHcCCEEEEEcchHhhhcccCcEEEEEeecccccceeeeEEeecCCceEEEEecCCeeEeeecCCCceEEEEC--cH
Confidence            6555432111     1   1222334444443321      2344322       122211    0   1233343  44


Q ss_pred             H----HHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC
Q 024919          173 A----AMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD  222 (260)
Q Consensus       173 ~----~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g  222 (260)
                      +    +..+|.++|.+.++++++.....++|..+...-...+..+++..+.++-
T Consensus       129 ~~Ke~aneflk~~l~~k~~lqd~~dal~elfe~vss~tpsVskeydiy~vs~~~  182 (293)
T COG4079         129 FTKEVANEFLKDNLTKKSKLQDAVDALMELFETVSSKTPSVSKEYDIYQVSSNV  182 (293)
T ss_pred             HHHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHhhcCCCcccceeEEEEecCCc
Confidence            4    5566888899999999999999999999886666777888888877653

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

Probab=87.24  E-value=0.73  Score=36.30  Aligned_cols=44  Identities=23%  Similarity=0.410  Sum_probs=40.1

Q ss_pred             EEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHH
Q 024919          151 HTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISL  194 (260)
Q Consensus       151 y~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l  194 (260)
                      ..+|-+|.+.+.+|-..|.|+..+.+-+-..|-..+++|||..+
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgkt~dea~kI  114 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGKTLDEALKI  114 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccccHHHHHhc
Confidence            36788999999999999999999999999999999999998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	260
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		5e-74
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		1e-73
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		2e-73
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		3e-69
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		5e-69
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		5e-60
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		2e-18
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		1e-15
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		2e-15
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		3e-15
3unf_N	199	Mouse 20s Immunoproteasome In Complex With Pr-957 L		3e-15
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		6e-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		3e-14
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		4e-12
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		4e-12
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		4e-12
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		5e-12
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		5e-12
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		6e-12
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		3e-09
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		3e-09
1ryp_K	198	Crystal Structure Of The 20s Proteasome From Yeast		2e-08
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		9e-08
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		1e-07
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		7e-06
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		3e-05
1vsy_E	250	Proteasome Activator Complex Length = 250		3e-05
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		3e-05
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		3e-05
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		3e-05
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		3e-05
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		3e-05
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		3e-05
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		4e-05
1vsy_C	232	Proteasome Activator Complex Length = 232		4e-05
3unb_I	205	Mouse Constitutive 20s Proteasome In Complex With P		5e-05
2h6j_H	294	Crystal Structure Of The Beta F145a Rhodococcus Pro		1e-04
3unb_L	213	Mouse Constitutive 20s Proteasome In Complex With P		2e-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
1g0u_M	266	A Gated Channel Into The Proteasome Core Particle L		3e-04
1iru_J	205	Crystal Structure Of The Mammalian 20s Proteasome A		4e-04
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		4e-04
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		4e-04
1ryp_M	222	Crystal Structure Of The 20s Proteasome From Yeast		4e-04
1ryp_N	233	Crystal Structure Of The 20s Proteasome From Yeast		4e-04
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		4e-04
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		5e-04
1g0u_L	241	A Gated Channel Into The Proteasome Core Particle L		5e-04
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		6e-04
1q5r_H	294	The Rhodococcus 20s Proteasome With Unprocessed Pro		6e-04
1q5q_H	235	The Rhodococcus 20s Proteasome Length = 235		7e-04

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

Iteration: 1
 Score =  274 bits (700), Expect = 5e-74,   Method: Compositional matrix adjust.
 Identities = 134/239 (56%), Positives = 172/239 (71%), Gaps = 3/239 (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-DKEYLRNHQLPNPRTYISSKGYSFPKKT 249
           I L  +AI +GI+NDLGSGSNVD+CV+  G D EYLRN+  PN R     K Y FP+ T
Sbjct: 181 IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGT 238

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

Iteration: 1
 Score =  272 bits (696), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 124/195 (63%), Positives = 157/195 (80%)
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 GDKEYLRNHQLPNPR 235
              ++LR   +PN +
Sbjct: 181 SKLDFLRPFSVPNKK 195

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

Iteration: 1
 Score =  272 bits (695), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 123/195 (63%), Positives = 159/195 (81%)
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 GDKEYLRNHQLPNPR 235
              ++LR + +PN +
Sbjct: 181 NKLDFLRPYTVPNKK 195

>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 =  258 bits (658), Expect = 3e-69,   Method: Compositional matrix adjust.
 Identities = 124/210 (59%), Positives = 157/210 (74%), Gaps = 2/210 (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-DKEYLRNHQLPNPRTYISSKGYSFPKKT 249
           G D EYLRN+  PN R     K Y FP+ T
Sbjct: 181 GKDAEYLRNYLTPNVREE-KQKSYKFPRGT 209

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

Iteration: 1
 Score =  257 bits (656), Expect = 5e-69,   Method: Compositional matrix adjust.
 Identities = 124/210 (59%), Positives = 157/210 (74%), Gaps = 2/210 (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-DKEYLRNHQLPNPRTYISSKGYSFPKKT 249
           G D EYLRN+  PN R     K Y FP+ T
Sbjct: 181 GKDAEYLRNYLTPNVREE-KQKSYKFPRGT 209

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

Iteration: 1
 Score =  227 bits (578), Expect = 5e-60,   Method: Compositional matrix adjust.
 Identities = 107/193 (55%), Positives = 137/193 (70%)
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 GDKEYLRNHQLPN 233
           G  +  R    P 
Sbjct: 181 GGAKLQRALSTPT 193

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

Iteration: 1
 Score =  109 bits (272), 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 (259), 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 = 2e-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 = 80.1 bits (196), Expect = 1e-15,   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 = 79.3 bits (194), 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|3H4P|A Chain A, Proteasome 20s Core Particle From Methanocaldococcus Jannaschii Length = 264

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-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|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|3UNF|K Chain K, Mouse 20s Immunoproteasome In Complex With Pr-957 Length = 204

Iteration: 1
 Score = 77.8 bits (190), Expect = 6e-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 = 75.5 bits (184), Expect = 3e-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 = 68.6 bits (166), Expect = 4e-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 = 68.6 bits (166), Expect = 4e-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 = 68.6 bits (166), Expect = 4e-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 = 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|2KU1|A Chain A, Dynamic Regulation Of Archaeal Proteasome Gate Opening As Studied By Trosy-Nmr Length = 237

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: 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 = 67.8 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: 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|3UNB|D Chain D, Mouse Constitutive 20s Proteasome In Complex With Pr-957 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 GPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQEVYHKSMTLKEAIKSSLI---ILKQVM 206
Query: 205 NDLGSGSNVDICVITKG 221
            +  + +N+++  +  G
Sbjct: 207 EEKLNATNIELATVQPG 223

>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|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 = 2e-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|1J2P|A Chain A, Alpha-Ring From The Proteasome From Archaeoglobus Fulgidus Length = 246

Iteration: 1
 Score = 53.9 bits (128), Expect = 9e-08,   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|1J2Q|A Chain A, 20s Proteasome In Complex With Calpain-inhibitor I From Archaeoglobus Fulgidus Length = 237

Iteration: 1
 Score = 53.5 bits (127), 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|1G0U|D Chain D, A Gated Channel Into The Proteasome Core Particle Length = 241

Iteration: 1
 Score = 47.4 bits (111), Expect = 7e-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|1VSY|E Chain E, Proteasome Activator Complex Length = 250

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

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

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|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 = 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: 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 = 45.1 bits (105), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 42/185 (22%), Positives = 81/185 (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 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDAT--GPHLHTIYPH 156
             +L L+    GR+ +  T ++++ + L++ + 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|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|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-----RVVTALTLLKSHLFKYQGHV---QAALVLGGVDATGPHLHTI 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-----RVVTALTLLKSHLFKYQGHV---QAALVLGGVDATGPHLHTI 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|1G0U|M Chain M, A Gated Channel Into The Proteasome Core Particle Length = 266

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 50/238 (21%), Positives = 100/238 (42%), Gaps = 30/238 (12%)
Query: 39  TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDM 98
           TGT+++ + + NGVI+ AD   + GS++     E++  +  N     +G  +D + +  +
Sbjct: 40  TGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERL 99
Query: 99  VSSQLQLHRYHTGRESRVVTALTLLK-SHLFKYQGHV-----------QAALVLGGVDAT 146
           +   +  + Y    ++ +  A   L+ S++F+Y   V             A+++ GV + 
Sbjct: 100 LKDLVTENAY----DNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSN 155
Query: 147 GPH-LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKY-REGLTKEEGISLVCEAICSGI- 203
           G   L  +   G T + P    G G+  A  +      RE    +  + +  EAI + + 
Sbjct: 156 GDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMR 215
Query: 204 ---FNDLGSGSNVDICVITKGDK-EYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKL 257
              + D  S  N  + +I K     + +N Q+ N +       + F K  +G    K+
Sbjct: 216 VLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMK-------WDFAKDIKGYGTQKI 266

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 39/185 (21%), Positives = 81/185 (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 SSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDAT--GPHLHTIYPH 156
             +L L+    GR+ +  T ++++ + L++ + 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|G Chain G, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 244

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-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 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFE---SKYREGLTKEEGISLVCEAI 199
            HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I
Sbjct: 142 AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII 196

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

Iteration: 1
 Score = 42.0 bits (97), Expect = 4e-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 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFE---SKYREGLTKEEGISLVCEAI 199
            HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I
Sbjct: 140 AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII 194

>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 HLHTIYPHGSTDTLPFATMGSGS------LAAMAVFESKYREG-----------LTKEEG 191
            +++  P GS +       G+ +      L     F+++Y  G           L+ EE 
Sbjct: 121 AVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEV 180
Query: 192 ISLVCEAICSGIFNDLGSGSNVDICVITK 220
           I LV ++  S     +  G  ++I ++TK
Sbjct: 181 IKLVRDSFTSATERHIQVGDGLEILIVTK 209

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 50/238 (21%), Positives = 100/238 (42%), Gaps = 30/238 (12%)
Query: 39  TGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDM 98
           TGT+++ + + NGVI+ AD   + GS++     E++  +  N     +G  +D + +  +
Sbjct: 7   TGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERL 66
Query: 99  VSSQLQLHRYHTGRESRVVTALTLLK-SHLFKYQGHV-----------QAALVLGGVDAT 146
           +   +  + Y    ++ +  A   L+ S++F+Y   V             A+++ GV + 
Sbjct: 67  LKDLVTENAY----DNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSN 122
Query: 147 GPH-LHTIYPHGSTDTLPFATMGSGSLAAMAVFESKY-REGLTKEEGISLVCEAICSGI- 203
           G   L  +   G T + P    G G+  A  +      RE    +  + +  EAI + + 
Sbjct: 123 GDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMR 182
Query: 204 ---FNDLGSGSNVDICVITKGD-KEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKL 257
              + D  S  N  + +I K     + +N Q+ N +       + F K  +G    K+
Sbjct: 183 VLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMK-------WDFAKDIKGYGTQKI 233

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

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-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 PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFE---SKYREGLTKEEGISLVCEAI 199
            HL+ + P GS      A  G G  +A A  E     + EGL+  E +    + I
Sbjct: 146 AHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKII 200

>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 = 41.2 bits (95), Expect = 5e-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|1G0U|L Chain L, A Gated Channel Into The Proteasome Core Particle Length = 241

Iteration: 1
 Score = 41.2 bits (95), Expect = 5e-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 HLHTIYPHGSTDTLPFATMGSGS------LAAMAVFESKYREG-----------LTKEEG 191
            +++  P GS +       G+ +      L     F+++Y  G           L+ EE 
Sbjct: 140 AVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEV 199
Query: 192 ISLVCEAICSGIFNDLGSGSNVDICVITK 220
           I LV ++  S     +  G  ++I ++TK
Sbjct: 200 IKLVRDSFTSATERHIQVGDGLEILIVTK 228

>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 = 41.2 bits (95), Expect = 6e-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|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

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	260
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	1e-112
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	1e-103
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	1e-100
1iru_I	234	20S proteasome; cell cycle, immune response, prote	1e-100
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	6e-95
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	2e-92
1iru_H	205	20S proteasome; cell cycle, immune response, prote	7e-92
1iru_L	204	20S proteasome; cell cycle, immune response, prote	5e-90
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	6e-90
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	2e-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	2e-87
1iru_N	219	20S proteasome; cell cycle, immune response, prote	4e-86
1iru_K	201	20S proteasome; cell cycle, immune response, prote	6e-86
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	2e-85
1iru_M	213	20S proteasome; cell cycle, immune response, prote	7e-84
1iru_J	205	20S proteasome; cell cycle, immune response, prote	4e-83
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	7e-78
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	1e-77
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	7e-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	3e-72
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	2e-70
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	3e-41
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	5e-34
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	5e-26
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	4e-23
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	8e-20
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	1e-18
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-18
1iru_E	241	20S proteasome; cell cycle, immune response, prote	2e-18
1iru_E	241	20S proteasome; cell cycle, immune response, prote	4e-18
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	6e-18
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	9e-18
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-17
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	1e-16
1iru_F	263	20S proteasome; cell cycle, immune response, prote	1e-16
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	2e-16
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	2e-16
1iru_C	261	20S proteasome; cell cycle, immune response, prote	3e-16
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	7e-16
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	1e-15
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	1e-15
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	3e-15
1iru_A	246	20S proteasome; cell cycle, immune response, prote	5e-15
1iru_D	248	20S proteasome; cell cycle, immune response, prote	6e-14
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-08

>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 =  321 bits (826), Expect = e-112
 Identities = 133/239 (55%), Positives = 170/239 (71%), Gaps = 3/239 (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-GDKEYLRNHQLPNPRTYISSKGYSFPKKT 249
           I L  +AI +GI+NDLGSGSNVD+CV+    D EYLRN+  PN R     K Y FP+ T
Sbjct: 181 IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGT 238

>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 =  298 bits (764), Expect = e-103
 Identities = 111/219 (50%), Positives = 144/219 (65%), Gaps = 1/219 (0%)

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 GDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFP 259
           G  +  R    P       +  Y F   T      ++ P
Sbjct: 181 GGAKLQRALSTPTEP-VQRAGRYRFAPGTTPVLTREVRP 218

>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 =  291 bits (746), Expect = e-100
 Identities = 125/217 (57%), Positives = 159/217 (73%), Gaps = 4/217 (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 -GDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITK 256
             D EYLRN+  PN R     K Y FP+ T  T + K
Sbjct: 181 GKDAEYLRNYLTPNVREE-KQKSYKFPRGT--TAVLK 214

>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 =  290 bits (744), Expect = e-100
 Identities = 128/219 (58%), Positives = 166/219 (75%), Gaps = 1/219 (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 GDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFP 259
              ++LR + +PN +     + Y   K T      K+ P
Sbjct: 181 NKLDFLRPYTVPNKKGTRLGR-YRCEKGTTAVLTEKITP 218

>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 =  279 bits (716), Expect = 6e-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 (692), Expect = 2e-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 =  268 bits (688), Expect = 7e-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 (676), 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 (677), Expect = 6e-90
 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 = 2e-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 (667), 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 =  259 bits (665), 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 =  257 bits (660), Expect = 2e-87
 Identities = 12/214 (5%), Positives = 31/214 (14%), Gaps = 6/214 (2%)

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 ITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEG 251
               D   L            +    +   K E 
Sbjct: 182 KEYRDDITLDEGLELA---ITALTKANEDIKPEN 212

>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 =  254 bits (652), Expect = 4e-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 =  253 bits (649), Expect = 6e-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 = 2e-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 =  248 bits (636), Expect = 7e-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 =  246 bits (631), Expect = 4e-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 =  234 bits (598), Expect = 7e-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 = 1e-77
 Identities = 41/229 (17%), Positives = 87/229 (37%), Gaps = 22/229 (9%)

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-GDKEYLRNHQLPNPRTYISSKGYSFPKKTEG 251
           + D  S  N  + +I K     + +N Q+ N +       + F K  +G
Sbjct: 186 YRDARSSRNFSLAIIDKNTGLTFKKNLQVENMK-------WDFAKDIKG 227

>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 =  229 bits (584), Expect = 7e-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 =  226 bits (578), Expect = 2e-74
 Identities = 41/229 (17%), Positives = 87/229 (37%), Gaps = 22/229 (9%)

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-GDKEYLRNHQLPNPRTYISSKGYSFPKKTEG 251
           + D  S  N  + +I K     + +N Q+ N +       + F K  +G
Sbjct: 219 YRDARSSRNFSLAIIDKNTGLTFKKNLQVENMK-------WDFAKDIKG 260

>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 =  223 bits (570), 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 =  222 bits (566), Expect = 3e-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 =  214 bits (547), Expect = 2e-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 =  141 bits (357), Expect = 3e-41
 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 =  122 bits (307), Expect = 5e-34
 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 = 5e-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 = 4e-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 = 8e-20
 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 = 81.1 bits (201), Expect = 1e-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 = 81.1 bits (201), Expect = 1e-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 = 81.1 bits (201), Expect = 2e-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 = 79.3 bits (196), Expect = 6e-18
 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 = 78.9 bits (195), Expect = 9e-18
 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 = 78.9 bits (195), Expect = 1e-17
 Identities = 27/198 (13%), Positives = 66/198 (33%), Gaps = 19/198 (9%)

Query: 38  KTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTD 97
           +  +T +G+  ++GV+ G +    +       N +++  +  ++    AG  AD  ++ D
Sbjct: 31  ENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSN-KRLFNVDRHVGMAVAGLLADARSLAD 89

Query: 98  MVSSQLQLHRYHTGRE---SRVVTALTLLKSHLFKYQGHVQ--------AALVLGGVDA- 145
           +   +    R + G       +   + +          +           + +LG     
Sbjct: 90  IAREEASNFRSNFGYNIPLKHLADRVAMYV------HAYTLYSAVRPFGCSFMLGSYSVN 143

Query: 146 TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFN 205
            G  L+ I P G +       +G    AA    E    + +T  + +  V + I      
Sbjct: 144 DGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDE 203

Query: 206 DLGSGSNVDICVITKGDK 223
                  +++  + +   
Sbjct: 204 VKDKAFELELSWVGELTN 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 = 76.1 bits (188), Expect = 1e-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 = 76.2 bits (188), Expect = 1e-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_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 = 75.4 bits (186), Expect = 2e-16
 Identities = 48/203 (23%), Positives = 82/203 (40%), Gaps = 28/203 (13%)

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-TGPHLHTIYPHGSTDTLPFAT-MGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC 200
            DA  G  L    P G+      A  +GSGS  A A   +++   LT +E   LV + + 
Sbjct: 139 HDADDGYQLFHAEPSGTFYRY-NAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILK 197

Query: 201 SGIFNDLGSGSNVDICVITKGDK 223
             +   L   +N  +  ITK D 
Sbjct: 198 QVMEEKLDE-NNAQLSCITKQDG 219

>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 = 75.0 bits (185), Expect = 2e-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

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

 Score = 75.1 bits (185), Expect = 3e-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 = 7e-16
 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 = 73.9 bits (182), Expect = 1e-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 = 73.1 bits (180), Expect = 1e-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 = 71.9 bits (177), Expect = 3e-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 = 71.5 bits (176), Expect = 5e-15
 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 = 68.4 bits (168), Expect = 6e-14
 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 = 52.2 bits (124), Expect = 6e-08
 Identities = 48/276 (17%), Positives = 80/276 (28%), Gaps = 58/276 (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 RNHQLPNPRTYISSKGYSFPKKTE--GTCITKLFPT 260
           R+       T+ + K  +  K T    + +  L P 
Sbjct: 338 RDG----LATWDNWKHVNCDKLTTIIESSLNVLEPA 369

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	260
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	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
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1iru_C	261	20S proteasome; cell cycle, immune response, prote	100.0
1iru_G	254	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	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
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	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
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
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
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
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	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

>1iru_B 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_A* 3une_A 3unf_A* 3unh_A

Probab=100.00  E-value=1.3e-54  Score=375.44  Aligned_cols=213  Identities=15%  Similarity=0.188  Sum_probs=203.2

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||||||+|||||     ++++++|+|+|||+++||||||+|+|.+ +.++..++.+||++|++|++|+++|..+|++.
T Consensus        11 ~fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   84 (233)
T 1iru_B           11 TFSPSGKLVQIEYA-----LAAVAGGAPSVGIKAANGVVLATEKKQK-SILYDERSVHKVEPITKHIGLVYSGMGPDYRV   84 (233)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSCEEEEEECCCC-CSSBCSTTCCSSEESSSSEEEEEEECHHHHHH
T ss_pred             eECCCCeEehhHhH-----HHHHHcCCcEEEEEeCCEEEEEEEecCC-ccccccccCCeEEEECCCEEEEEEEccHHHHH
Confidence            39999999999999     9999999999999999999999999998 58888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      ++++++.+++.|+.+++++++++.+++++++.++.|     .|||++++|+||||++||+||.+||+|++.+++++++|+
T Consensus        85 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rP~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiG~  164 (233)
T 1iru_B           85 LVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGK  164 (233)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEEEBSEEEEST
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCCCCcEEEEEEEEEeCCCCeEEEECCCCCEEEeeEEEECC
Confidence            999999999999999999999999999999999654     369999999999998889999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC
Q 024919          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~  234 (260)
                      |+.+++++||+.|+++||++||++++++||+.+.++| .++++++|++|+++|.+++++.+++..
T Consensus       165 gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d-~sg~~i~v~vi~~~g~~~l~~~ei~~~  228 (233)
T 1iru_B          165 NYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQ-MTEDNIEVGICNEAGFRRLTPTEVKDY  228 (233)
T ss_dssp             THHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSC-CCSSSEEEEEEETTEEEECCHHHHHHH
T ss_pred             CCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhcc-CCCCCEEEEEEECCCEEECCHHHHHHH
Confidence            9999999999999999999999999999999999999 668999999999999999998877543

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A

Probab=100.00  E-value=5.2e-54  Score=371.57  Aligned_cols=215  Identities=22%  Similarity=0.353  Sum_probs=201.3

Q ss_pred             CCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEec
Q 024919           12 GGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGA   86 (260)
Q Consensus        12 ~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~s   86 (260)
                      .|||     |||||||+|||||     .+++++|+|+|||+++||||||+|+|.+++ ++..++.+||++|++|++|++|
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            5665     9999999999999     999999999999999999999999999995 7778899999999999999999


Q ss_pred             CChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhcc-----CccceEEEEEEEeCCCCEEEEEcCCCCccc
Q 024919           87 GTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-----GHVQAALVLGGVDATGPHLHTIYPHGSTDT  161 (260)
Q Consensus        87 G~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~-----~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~  161 (260)
                      |..+|++.++++++.+++.|+..++++++++.+++++++.++.++     |||++++|+||||++||+||.+||+|++.+
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            999999999999999999999999999999999999999997553     699999999999988899999999999999


Q ss_pred             cCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC-EEEeccccCCC
Q 024919          162 LPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPN  233 (260)
Q Consensus       162 ~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g-~~~~~~~~~~~  233 (260)
                      ++++++|+|+.+++++||+.|+++||++||++++++||+.+.++|. ++++++|++|+++| .+++++.++..
T Consensus       160 ~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~-s~~~i~v~vi~~~~~~~~~~~~ei~~  231 (233)
T 1yar_A          160 YKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNKYRIYDQEEVKK  231 (233)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEETTSCCEECCHHHHHT
T ss_pred             eeEEEEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEECCCCEEECCHHHHHh
Confidence            9999999999999999999999999999999999999999999997 69999999999998 78888777654

>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=5.4e-53  Score=370.68  Aligned_cols=247  Identities=54%  Similarity=0.868  Sum_probs=212.6

Q ss_pred             CCCccccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChH
Q 024919           11 KGGFSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAA   90 (260)
Q Consensus        11 ~~g~~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~a   90 (260)
                      .+||+|+.+-|.-+++-. -..+.+|+++|+|+|||+++||||||+|+|.++|.++..++.+||++|++|++|+++|..+
T Consensus         1 ~~~~~~~~~~rn~~~~~~-~~~~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~a   79 (261)
T 3nzj_H            1 MAGLSFDNYQRNNFLAEN-SHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAA   79 (261)
T ss_dssp             ------------------------------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHH
T ss_pred             CCCcCchhhhhHHHHHhc-CCCCCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHH
Confidence            369999999999999743 3355799999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCC
Q 024919           91 DTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (260)
Q Consensus        91 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g  170 (260)
                      |++.++++++.+++.|++.++++++++.+++++++.++++++||++++|+||||++||+||.+||+|++.+++++|+|+|
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            99999999999999999999999999999999999999999999999999999998999999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC-EEEeccccCCCCCccccCCccccCCCc
Q 024919          171 SLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPNPRTYISSKGYSFPKKT  249 (260)
Q Consensus       171 ~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g-~~~~~~~~~~~~~~~~~~~~~~~~~~~  249 (260)
                      +..++++||+.|+++||++||++++++||+.+.++|..++++++|++|+++| .++++++.+++.|.+ |...|.+|+||
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 899999999999999 99999999999


Q ss_pred             cceeeeeecc
Q 024919          250 EGTCITKLFP  259 (260)
Q Consensus       250 ~~~~~~~~~~  259 (260)
                      +.-+..+..|
T Consensus       239 ~~~~~~~~~~  248 (261)
T 3nzj_H          239 TAVLKESIVN  248 (261)
T ss_dssp             SCEEEEEEEC
T ss_pred             cceeeEEEEE
Confidence            9988887665

>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=5.1e-54  Score=373.90  Aligned_cols=213  Identities=12%  Similarity=0.104  Sum_probs=202.5

Q ss_pred             cccCchhhHHHhhcCCCCCCccccC-CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~-G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~   93 (260)
                      +|||||||+|||||     ++|+++ |+|+|||+++||||||+|+|.+ +.++..++.+|||+|++|++|+++|..+|++
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     999999 9999999999999999999999 7888899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEE
Q 024919           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (260)
Q Consensus        94 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~ai  167 (260)
                      .+++++|.+++.|++.++++++++.+++++++.++.|     .+||++++|+||||+ +||+||.+||+|++.+++++++
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            9999999999999999999999999999999998432     379999999999997 7799999999999999999999


Q ss_pred             cCChHHHHHHHHhhcCC-------CCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC
Q 024919          168 GSGSLAAMAVFESKYRE-------GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       168 G~g~~~~~~~Le~~~~~-------~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~  234 (260)
                      |+|+..++++||+.|++       +||++||++++++||..+.++| .++++++|++|+++|.+++++.+++..
T Consensus       163 G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd-~s~~~iev~vi~~~g~~~l~~~ei~~~  235 (243)
T 1ryp_A          163 GPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTE-FSKNDLEVGVATKDKFFTLSAENIEER  235 (243)
T ss_dssp             STTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCC-CCTTSEEEEEEETTEEEECCHHHHHHH
T ss_pred             CCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCCeEECCHHHHHHH
Confidence            99999999999999998       9999999999999999999999 679999999999999999888877654

>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=4.3e-53  Score=367.63  Aligned_cols=215  Identities=21%  Similarity=0.302  Sum_probs=200.7

Q ss_pred             CCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEec
Q 024919           12 GGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGA   86 (260)
Q Consensus        12 ~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~s   86 (260)
                      .|||     |||||||+|||||     .+++++|+|+|||+++||||||+|+|.++|.++ .++.+||++|++|++|++|
T Consensus         6 ~~yd~~~t~fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~a   79 (241)
T 1iru_E            6 SEYDRGVNTFSPEGRLFQVEYD-----IEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME-PSSIEKIVEIDAHIGCAMS   79 (241)
T ss_dssp             --CCCCTTCBCTTSCBHHHHHH-----HHHHTTSCCEEEEEETTEEEEEEECCCCCTTBC-TTSCCSEEEEETTEEEEEE
T ss_pred             CCCCCCCceECCCCccHHHHHH-----HHHHHcCCcEEEEEcCCEEEEEEecccCCcCcC-ccccceEEEEcCCEEEEEe
Confidence            5665     9999999999999     999999999999999999999999999998777 8899999999999999999


Q ss_pred             CChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc----------cCccceEEEEEEEeCCCCEEEEEcCC
Q 024919           87 GTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----------QGHVQAALVLGGVDATGPHLHTIYPH  156 (260)
Q Consensus        87 G~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~----------~~p~~v~~ivaG~D~~gp~Ly~iDp~  156 (260)
                      |..+|++.++++++.+++.|+..++++++++.+++++++.++.|          .|||++++|+||||++||+||.+||+
T Consensus        80 G~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~gp~Ly~idp~  159 (241)
T 1iru_E           80 GLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPS  159 (241)
T ss_dssp             ECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTT
T ss_pred             eChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCCCCEEEEECCC
Confidence            99999999999999999999999999999999999999988654          46999999999999878999999999


Q ss_pred             CCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC-EEEeccccCCC
Q 024919          157 GSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPN  233 (260)
Q Consensus       157 G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g-~~~~~~~~~~~  233 (260)
                      |++.+++++|+|+|+.+++++||+.|+++||++||++++++||..+.++ ..++++++|++|+++| .+++++.++++
T Consensus       160 G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~l~~~ei~~  236 (241)
T 1iru_E          160 GTFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEE-KLNATNIELATVQPGQNFHMFTKEELEE  236 (241)
T ss_dssp             SCEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEECSSSCCEECCHHHHHH
T ss_pred             CcEEecceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCCEEEEEEECCCCeEECCHHHHHH
Confidence            9999999999999999999999999999999999999999999999998 6779999999999998 46777666543

>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=6.7e-53  Score=367.14  Aligned_cols=212  Identities=19%  Similarity=0.195  Sum_probs=200.0

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|||+|||||     ++++++|+|+|||+++||||||+|+|.++|.++.+ +.+||++|++|++|++||..+|++.
T Consensus        10 ~fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~-~~~KI~~i~~~i~~~~aG~~aD~~~   83 (244)
T 1ryp_G           10 VFSPDGRNFQVEYA-----VKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQ-KNVKIQVVDRHIGCVYSGLIPDGRH   83 (244)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTT-TSCCCEEETTTEEEEEEECHHHHHH
T ss_pred             cCCcCCchHHHHhH-----HHHHHCCCCEEEEEECCEEEEEEecccCCCCcccc-ccCceEEecCCEEEEEcccHHHHHH
Confidence            39999999999999     99999999999999999999999999999877755 4599999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +++++|.+++.|+++++++++++.+++++++.++.+     .+||++++|+||||++||+||.+||+|++.+++++++|+
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            999999999999999999999999999999998654     379999999999998889999999999999999999999


Q ss_pred             ChHHHHHHHHhh---cCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeC---CCEEEeccccCC
Q 024919          170 GSLAAMAVFESK---YREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK---GDKEYLRNHQLP  232 (260)
Q Consensus       170 g~~~~~~~Le~~---~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk---~g~~~~~~~~~~  232 (260)
                      |+.+++++||+.   |+++||++||++++++||+.+.++|..++.+++|++|++   +|.+...|.++.
T Consensus       164 gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g~~~~~~~~~~  232 (244)
T 1ryp_G          164 GRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLL  232 (244)
T ss_dssp             THHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHH
T ss_pred             ChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCCeeeeChHHHH
Confidence            999999999997   999999999999999999999999998899999999998   888887776553

>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=4.8e-53  Score=367.48  Aligned_cols=214  Identities=22%  Similarity=0.268  Sum_probs=202.0

Q ss_pred             ccccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHH
Q 024919           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (260)
Q Consensus        14 ~~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~   93 (260)
                      .+|||+|||+|||||     ++++++|+|+|||+++||||||+|+|.++|.++ .++.+||++|++|++|+++|..+|++
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            379999999999999     999999999999999999999999999998776 88999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----------cCccceEEEEEEEe-CCCCEEEEEcCCCCccc
Q 024919           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----------QGHVQAALVLGGVD-ATGPHLHTIYPHGSTDT  161 (260)
Q Consensus        94 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----------~~p~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~  161 (260)
                      .++++++.+++.|++.++++++++.+++++++.++.+           .|||++++|+|||| ++||+||.+||+|++.+
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            9999999999999999999999999999999988753           57999999999999 67799999999999999


Q ss_pred             cCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCE-EEeccccCCCC
Q 024919          162 LPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK-EYLRNHQLPNP  234 (260)
Q Consensus       162 ~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~-~~~~~~~~~~~  234 (260)
                      ++++++|+|+.+++++||+.|+++||++||++++++||..+.++ ..++++++|++|+++|. +++++.+++..
T Consensus       159 ~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~~~~~ei~~~  231 (242)
T 1ryp_E          159 YNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEE-KLDENNAQLSCITKQDGFKIYDNEKTAEL  231 (242)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSS-CCCTTSEEEEEEETTTEEEECCHHHHHHH
T ss_pred             cCEEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEECCCCeEECCHHHHHHH
Confidence            99999999999999999999999999999999999999999998 66799999999999985 78887776654

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

Probab=100.00  E-value=2.8e-53  Score=373.39  Aligned_cols=220  Identities=23%  Similarity=0.343  Sum_probs=201.0

Q ss_pred             CCCCCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEE
Q 024919            9 PPKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYC   83 (260)
Q Consensus         9 ~~~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~   83 (260)
                      |.+.|||     |||+|||||||||     ++|+++|+|+|||+++||||||+|+|.+++ ++..++.+||++|++|++|
T Consensus         7 ~~~~~yd~~~t~fSp~Grl~QvEYA-----~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~-li~~~~~~KI~~i~d~i~~   80 (264)
T 3h4p_A            7 VPPSAYDRAITVFSPEGRLYQVEYA-----REAVRRGTTAIGIACKDGVVLAVDRRITSK-LVKIRSIEKIFQIDDHVAA   80 (264)
T ss_dssp             ---------CCCCCSSSSCHHHHHH-----HHHHHHSCCEEEECCSSEEEEEEECCCCST-TBCTTTCCCEEEEETTEEE
T ss_pred             CCccccCCCcceECCCCeeHHHHhH-----HHHHhcCCcEEEEEECCEEEEEEecCccCC-ccccCccccEEEecCcEEE
Confidence            5578886     9999999999999     999999999999999999999999999985 7788999999999999999


Q ss_pred             EecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCC
Q 024919           84 CGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGS  158 (260)
Q Consensus        84 ~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~  158 (260)
                      +++|..+|++.+++++|.+++.|++.++++++++.+|+++++.++.+     .|||++++||||||++||+||.+||+|+
T Consensus        81 ~~aG~~aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~rP~~v~~lvaG~D~~gp~Ly~iDp~G~  160 (264)
T 3h4p_A           81 ATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGVRPFGVSLLIAGIDKNEARLFETDPSGA  160 (264)
T ss_dssp             EEEECSHHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSCCCCSEEEEEEEEETTEEEEEEECTTCC
T ss_pred             EeccchHHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCCCCeeEEEEEEEEeCCcCEEEEECCCce
Confidence            99999999999999999999999999999999999999999998654     2699999999999988899999999999


Q ss_pred             ccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC--CEEEeccccCCCCCc
Q 024919          159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG--DKEYLRNHQLPNPRT  236 (260)
Q Consensus       159 ~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~--g~~~~~~~~~~~~~~  236 (260)
                      +.+++++|+|+|+.+++++|++.|+++||++||++++++||..+.++  .++++++|++|+++  +.+++.+.+++....
T Consensus       161 ~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~~~--~sg~~iev~vi~~~~~~~~~l~~~ei~~~~~  238 (264)
T 3h4p_A          161 LIEYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKANED--IKPENVDVCIITVKDAQFKKIPVEEIKKLIE  238 (264)
T ss_dssp             CEEESEEEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHSSS--CCTTSEEEEEEETTTTEEEECCTTTTGGGTT
T ss_pred             EEecCeEEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhc--cCCCeEEEEEEEeCCCcEEECCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999987  68999999999976  478888888776543

>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=1e-52  Score=369.40  Aligned_cols=216  Identities=19%  Similarity=0.202  Sum_probs=205.4

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|||+|||||     ++++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.
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     9999999999999999999999999999998888878999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEc
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG  168 (260)
                      ++++++.+++.|++.++++++++.+++++++.++.+     .|||++++|+||||+ +||+||.+||+|++.+++++|+|
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            999999999999999999999999999999999765     369999999999995 77999999999999999999999


Q ss_pred             CChHHHHHHHHhhcCC-CCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC----EEEeccccCCCCC
Q 024919          169 SGSLAAMAVFESKYRE-GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD----KEYLRNHQLPNPR  235 (260)
Q Consensus       169 ~g~~~~~~~Le~~~~~-~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g----~~~~~~~~~~~~~  235 (260)
                      +|+.+++++|++.|++ +||++||++++++||..+.++|..++++++|++|+++|    .+++++.+++...
T Consensus       166 sgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~~~~~~~~l~~~ei~~~l  237 (261)
T 1iru_C          166 NNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLI  237 (261)
T ss_dssp             TTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHH
T ss_pred             cccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCCCeeeEEECCHHHHHHHH
Confidence            9999999999999999 99999999999999999999999999999999999987    5788887777653

>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=5.8e-53  Score=369.56  Aligned_cols=223  Identities=14%  Similarity=0.153  Sum_probs=207.5

Q ss_pred             CCCCCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEE
Q 024919            9 PPKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYC   83 (260)
Q Consensus         9 ~~~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~   83 (260)
                      .++.|||     |||+|||+|||||     ++++++|+|+|||+++||||||+|+|.++|.++. ++.+||++|++|++|
T Consensus         2 ~~~~~yd~~~t~fsp~Grl~QvEyA-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~-~~~~KI~~i~~~i~~   75 (254)
T 1iru_G            2 SIGTGYDLSASTFSPDGRVFQVEYA-----MKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEE-GSNKRLFNVDRHVGM   75 (254)
T ss_dssp             CCCSSTTSCTTCCCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCT-TTTCCEEEEETTEEE
T ss_pred             CcccccCCCCccCCcCCccHHHHhH-----HHHHhcCCCEEEEEECCEEEEEEecccCCCCcCc-CcCCcEEEECCCEEE
Confidence            3566775     9999999999999     9999999999999999999999999999987774 789999999999999


Q ss_pred             EecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhcc-----CccceEEEEEEEe-CCCCEEEEEcCCC
Q 024919           84 CGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ-----GHVQAALVLGGVD-ATGPHLHTIYPHG  157 (260)
Q Consensus        84 ~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~-----~p~~v~~ivaG~D-~~gp~Ly~iDp~G  157 (260)
                      +++|..+|++.+++++|.+++.|++.++++++++.+++++++.++.++     |||++++|||||| ++||+||.+||+|
T Consensus        76 ~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~gp~Ly~idp~G  155 (254)
T 1iru_G           76 AVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSG  155 (254)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTC
T ss_pred             EEecChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccccccccceEEEEEEEEeCCCCcEEEEEcCCC
Confidence            999999999999999999999999999999999999999999997663     7999999999999 6789999999999


Q ss_pred             CccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC--C-EEEeccccCCCC
Q 024919          158 STDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG--D-KEYLRNHQLPNP  234 (260)
Q Consensus       158 ~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~--g-~~~~~~~~~~~~  234 (260)
                      ++.+++++++|+|+.+++++||+.|+++||++||+++++++|+.+.+++..++.+++|++|+++  | .+++++.++++.
T Consensus       156 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~~~~l~~~~i~~~  235 (254)
T 1iru_G          156 VSYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEA  235 (254)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHH
T ss_pred             CEEeeeeEEecCccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCCeEECCHHHHHHH
Confidence            9999999999999999999999999999999999999999999998888767889999999987  5 788888877665


Q ss_pred             Ccc
Q 024919          235 RTY  237 (260)
Q Consensus       235 ~~~  237 (260)
                      ...
T Consensus       236 ~~~  238 (254)
T 1iru_G          236 EKY  238 (254)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

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

Probab=100.00  E-value=1.5e-52  Score=364.84  Aligned_cols=215  Identities=17%  Similarity=0.227  Sum_probs=200.8

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||||||+|||||     ++++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.
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     9999999999999999999999999999987766889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEe-CCCCEEEEEcCCCCccccCeEEEc
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVD-ATGPHLHTIYPHGSTDTLPFATMG  168 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~~~~~aiG  168 (260)
                      ++++++.+++.|++.++++++++.+++++++.++.+     .|||++++|+|||| ++||+||.+||+|++.+++++++|
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             CChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEe--CCC----EEEeccccCCCC
Q 024919          169 SGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT--KGD----KEYLRNHQLPNP  234 (260)
Q Consensus       169 ~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iit--k~g----~~~~~~~~~~~~  234 (260)
                      +|+.+++++||+.|+++||++||++++++||..+.++|..++++++|++|+  ++|    .+++++.+++..
T Consensus       166 sgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~~~~~~~l~~~ei~~~  237 (244)
T 1ryp_C          166 ANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDI  237 (244)
T ss_dssp             TTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHH
T ss_pred             CCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCCceeEEECCHHHHHHH
Confidence            999999999999999999999999999999999999955579999999999  887    567776665443

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

Probab=100.00  E-value=2.2e-52  Score=363.15  Aligned_cols=212  Identities=19%  Similarity=0.206  Sum_probs=200.8

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.++|.++..++.+||++|++|++|+++|..+|++.
T Consensus         8 ~fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~   82 (241)
T 1ryp_D            8 IFSPDGHIFQVEYA-----LEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRI   82 (241)
T ss_dssp             CCBTTTBCHHHHHH-----HHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHH
T ss_pred             eECCCCcchHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHHHH
Confidence            59999999999999     9999999999999999999999999999988877779999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC--CCCEEEEEcCCCCccccCeEEE
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLPFATM  167 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~~~~ai  167 (260)
                      ++++++.+++.|++.++++++++.+|+++++.++.+     .|||++++|+||||+  +||+||.+||+|++.+++++|+
T Consensus        83 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rP~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~ai  162 (241)
T 1ryp_D           83 LIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTI  162 (241)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTBCCCSEEEEEEECCTTCCSCEEEEECTTSCEEEBSEEEE
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCCCCcceeeEEEEEcCCCCCeeEEEECCCCCEEEeeeEEE
Confidence            999999999999999999999999999999999865     269999999999998  7899999999999999999999


Q ss_pred             cCChHHHHHHHHhhc---CCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC-EEEeccccCCCC
Q 024919          168 GSGSLAAMAVFESKY---REGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPNP  234 (260)
Q Consensus       168 G~g~~~~~~~Le~~~---~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g-~~~~~~~~~~~~  234 (260)
                      |+|+.+++++||+.|   +++||++||++++++||..+.+   .++++++|++|+++| .+++++.+++..
T Consensus       163 G~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~---~sg~~i~v~vi~~~~~~~~l~~~ei~~~  230 (241)
T 1ryp_D          163 GRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ---TGAKNIEITVVKPDSDIVALSSEEINQY  230 (241)
T ss_dssp             STTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC---SCSTTEEEEEEETTTEEEECCHHHHHHH
T ss_pred             CCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc---CCCCcEEEEEEECCCcEEECCHHHHHHH
Confidence            999999999999999   9999999999999999999986   568999999999986 788888877654

>1ryp_F 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_E* 1g65_E 2f16_E* 2fak_E* 2fny_E* 2gpl_E* 3d29_E* 3dy3_E* 3dy4_E* 3e47_E* 3gpj_E* 3gpt_E* 3gpw_E* 3hye_E* 3mg0_E* 3mg4_E* 3oeu_E* 3oev_E* 3okj_E* 3shj_E* ...

Probab=100.00  E-value=1.7e-52  Score=362.23  Aligned_cols=210  Identities=21%  Similarity=0.192  Sum_probs=198.4

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||||||+|||||     ++|+++|+|+|||+++||||||+|+|.++|..   ++.+||++|++|++|+++|..+|++.
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     99999999999999999999999999998732   57899999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +++++|.+++.|++.++++++++.+++++++.++.|     .|||++++|+||||++||+||.+||+|++.+++++|+|+
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            999999999999999999999999999999998643     479999999999999889999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCC--CC--CHHHHHHHHHHHHHHHHhhc-CCCCCcEEEEEEeCC-CEEEeccccCCC
Q 024919          170 GSLAAMAVFESKYRE--GL--TKEEGISLVCEAICSGIFND-LGSGSNVDICVITKG-DKEYLRNHQLPN  233 (260)
Q Consensus       170 g~~~~~~~Le~~~~~--~~--s~~eai~l~~~al~~a~~~d-~~~~~~iei~iitk~-g~~~~~~~~~~~  233 (260)
                      |+..++++||+.|++  +|  |++||+++++++|+.+. +| ..++++++|++|+++ |.+++++.+++.
T Consensus       163 gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~-~d~~~s~~~i~v~vi~~~~~~~~l~~~ei~~  231 (233)
T 1ryp_F          163 RSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSL-RDESLTVDNLSIAIVGKDTPFTIYDGEAVAK  231 (233)
T ss_dssp             THHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSC-CSSCCCTTTEEEEEEETTEEEEEEEGGGGGG
T ss_pred             CcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHh-hcccCCCCcEEEEEEECCCCEEECCHHHHHh
Confidence            999999999999998  99  99999999999999999 77 568999999999999 689999988764

>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=2.3e-52  Score=364.15  Aligned_cols=217  Identities=16%  Similarity=0.195  Sum_probs=202.8

Q ss_pred             CCCcc-----ccCchhhHHHhhcCCCCCCccccC-CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEE
Q 024919           11 KGGFS-----FDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCC   84 (260)
Q Consensus        11 ~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~-G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~   84 (260)
                      ..|||     |||+|||+|||||     .+++++ |+|+|||+++||||||+|+|.+ +.++..++.+||++|++|++|+
T Consensus         6 ~~~yd~~~t~fsp~Grl~QvEya-----~~av~~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~   79 (246)
T 1iru_A            6 SAGFDRHITIFSPEGRLYQVEYA-----FKAINQGGLTSVAVRGKDCAVIVTQKKVP-DKLLDSSTVTHLFKITENIGCV   79 (246)
T ss_dssp             CCTTTTTSSCCCTTSCCHHHHHH-----HHHHHTTCCEEEEEECSSEEEEEEECCCC-CSSBCGGGCCSEEESSSSCEEE
T ss_pred             cCCcCCCCccCCCCCeehHHHHH-----HHHHhcCCCCEEEEEeCCEEEEEEeecCC-CcccCCCccCceEEECCCEEEE
Confidence            35775     9999999999999     999999 9999999999999999999999 5888899999999999999999


Q ss_pred             ecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhh---c--cCccceEEEEEEEeC-CCCEEEEEcCCCC
Q 024919           85 GAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFK---Y--QGHVQAALVLGGVDA-TGPHLHTIYPHGS  158 (260)
Q Consensus        85 ~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~---~--~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~  158 (260)
                      ++|..+|++.++++++.+++.|+..++++++++.+++++++.++.   +  .|||++++|+||||+ +||+||.+||+|+
T Consensus        80 ~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~  159 (246)
T 1iru_A           80 MTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGY  159 (246)
T ss_dssp             EEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTSC
T ss_pred             EeccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCCCCcceEEEEEEEeCCCCeEEEEEcCCee
Confidence            999999999999999999999999999999999999999988542   2  479999999999997 7799999999999


Q ss_pred             ccccCeEEEcCChHHHHHHHHhhcCC--CCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCE--EEeccccCCCC
Q 024919          159 TDTLPFATMGSGSLAAMAVFESKYRE--GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK--EYLRNHQLPNP  234 (260)
Q Consensus       159 ~~~~~~~aiG~g~~~~~~~Le~~~~~--~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~--~~~~~~~~~~~  234 (260)
                      +.+++++|+|+|+.+++++||+.|++  +||++||++++++||+.+.++| .++++++|++|+++|.  +++++.+++..
T Consensus       160 ~~~~~~~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd-~sg~~i~v~vi~~~g~~~~~l~~~ei~~~  238 (246)
T 1iru_A          160 YCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSID-FKPSEIEVGVVTVENPKFRILTEAEIDAH  238 (246)
T ss_dssp             EEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCC-CCTTSEEEEEEETTEEEEEECCHHHHHHH
T ss_pred             EEEeeEEEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhccc-CCCCcEEEEEEECCCCeEEECCHHHHHHH
Confidence            99999999999999999999999999  9999999999999999999999 7899999999999995  77777766543

>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G* 3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 4b4t_G 4g4s_G* 3bdm_F* 1fnt_G* 2zcy_F*

Probab=100.00  E-value=2.8e-52  Score=370.69  Aligned_cols=215  Identities=19%  Similarity=0.202  Sum_probs=199.5

Q ss_pred             CCCCCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEE
Q 024919            9 PPKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYC   83 (260)
Q Consensus         9 ~~~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~   83 (260)
                      .+++|||     |||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.++|.++. +..+||++|++|++|
T Consensus         3 ~~~~~yd~~~t~fSP~Grl~QvEYA-----~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~-~~~~KI~~I~d~i~~   76 (288)
T 3nzj_F            3 SIGTGYDLSNSVFSPDGRNFQVEYA-----VKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVP-QKNVKIQVVDRHIGC   76 (288)
T ss_dssp             --CCCTTSSTTCCCTTSCCHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCT-TCSCCCEEETTTEEE
T ss_pred             CCcCCccCCcccCCCCCchHHHHHH-----HHHHhcCCcEEEEEECCEEEEEEcCCcccCCccc-cccceEEEEcCCEEE
Confidence            3577886     9999999999999     9999999999999999999999999999987765 477999999999999


Q ss_pred             EecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCC
Q 024919           84 CGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGS  158 (260)
Q Consensus        84 ~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~  158 (260)
                      +++|+.+|++.+++++|.+++.|++.++++++++.+|+++++.++.|     .|||++++||||||++||+||.+||+|+
T Consensus        77 ~~aG~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~rP~gv~~lvaG~D~~Gp~Ly~iDp~G~  156 (288)
T 3nzj_F           77 VYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGS  156 (288)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             EecCcHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccCCCceEEEEEEEEeCCCCEEEEECCCCC
Confidence            99999999999999999999999999999999999999999999765     3699999999999998899999999999


Q ss_pred             ccccCeEEEcCChHHHHHHHHhh---cCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeC---CCEEEeccc
Q 024919          159 TDTLPFATMGSGSLAAMAVFESK---YREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK---GDKEYLRNH  229 (260)
Q Consensus       159 ~~~~~~~aiG~g~~~~~~~Le~~---~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk---~g~~~~~~~  229 (260)
                      +.+++++++|+|+.+++++||+.   |+++||++||++++++||..+.+++..++..++|.+|++   +|.+..-|.
T Consensus       157 ~~~~~~~aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~~~~~~~~~~vp~  233 (288)
T 3nzj_F          157 YWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKG  233 (288)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEETTTSTTCCEECCH
T ss_pred             EEEcCEEEEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEecCCCceEEECCH
Confidence            99999999999999999999999   999999999999999999999999988889999999999   345444444

>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=1.6e-51  Score=358.79  Aligned_cols=212  Identities=21%  Similarity=0.257  Sum_probs=200.2

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||||||+|||||     .+++++|+|+|||+++||||||+|+|.+.+ ++..++.+||++|++|++|+++|..+|++.
T Consensus        14 ~fsp~Grl~QvEya-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~   87 (246)
T 1j2p_A           14 VFSPDGRLFQVEYA-----REAVKRGATAIGIKCKEGVILIADKRVGSK-LLEKDTIEKIYKIDEHICAATSGLVADARV   87 (246)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEECCCSCT-TBCGGGCCSEEECSSSEEEEEEECHHHHHH
T ss_pred             eECCCCeehHHHhH-----HHHHHcCCcEEEEEECCEEEEEEeccCCcc-ccccCccCcEEEECCCEEEEEeEccHHHHH
Confidence            39999999999999     999999999999999999999999999985 566889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +++++|.+++.|++.++++++++.+++++++.++.|     .|||++++|+|||| +||+||.+||+|++.+++++|+|+
T Consensus        88 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~aiGs  166 (246)
T 1j2p_A           88 LIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGVRPFGVSLLIAGVN-EVPKLYETDPSGALLEYKATAIGM  166 (246)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEES-SSEEEEEECTTCCEEEBSEEEEST
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCcccccEEEEEEEEC-CCCEEEEECCCceEEeeeEEEECC
Confidence            999999999999999999999999999999999654     35999999999999 889999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEe-C-CCEEEeccccCCCC
Q 024919          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVIT-K-GDKEYLRNHQLPNP  234 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iit-k-~g~~~~~~~~~~~~  234 (260)
                      |+.+++++||+.|+++||++||++++++||..+.++ ..++++++|++|+ + ++.+++++.+++..
T Consensus       167 gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~-~~sg~~i~v~vi~~~~~~~~~l~~~ei~~~  232 (246)
T 1j2p_A          167 GRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIES-ELVPENIEVGYVKVDDRTFKEVSPEELKPY  232 (246)
T ss_dssp             THHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTS-CCCGGGEEEEEEETTTCCCEECCHHHHHHH
T ss_pred             CcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhc-cCCCCcEEEEEEEcCCCceEECCHHHHHHH
Confidence            999999999999999999999999999999999998 7789999999999 6 47899988887654

>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=2e-52  Score=364.90  Aligned_cols=214  Identities=20%  Similarity=0.267  Sum_probs=201.7

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|||+|||||     ++++++|+|+|||+++||||||+|+|.++| ++..++.+||++|++|++|+++|..+|++.
T Consensus         9 ~fsp~Grl~QvEYA-----~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~   82 (248)
T 1iru_D            9 VFSPDGHLFQVEYA-----QEAVKKGSTAVGVRGRDIVVLGVEKKSVAK-LQDERTVRKICALDDNVCMAFAGLTADARI   82 (248)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHHTSCCEEEECCSSEEEEEECCCCCCS-SSCGGGGCSEEESSSSCEEEEEECHHHHHH
T ss_pred             eECCCCcchHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEeeccccc-CccCCCCCcEEEEcCCEEEEEeecHHHHHH
Confidence            69999999999999     999999999999999999999999999997 677889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEe-CCCCEEEEEcCCCCccccCeEEEc
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVD-ATGPHLHTIYPHGSTDTLPFATMG  168 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~~~~~aiG  168 (260)
                      ++++++.+++.|++.++++++++.+++++++.++.+     .|||++++|||||| ++||+||.+||+|++.+++++++|
T Consensus        83 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiG  162 (248)
T 1iru_D           83 VINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIG  162 (248)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCcccccEEEEEEEEeCCCCcEEEEEcCCCcEEEeeEEEEC
Confidence            999999999999999999999999999999999765     36999999999999 678999999999999999999999


Q ss_pred             CChHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC-EEEeccccCCCCCcc
Q 024919          169 SGSLAAMAVFESKYREGL--TKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPNPRTY  237 (260)
Q Consensus       169 ~g~~~~~~~Le~~~~~~~--s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g-~~~~~~~~~~~~~~~  237 (260)
                      +|+.+++++||+.|+++|  |++||++++++||+.+.+   .++++++|++|+++| .+++++.+++.....
T Consensus       163 ~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~---~sg~~i~v~vi~~~g~~~~l~~~ei~~~~~~  231 (248)
T 1iru_D          163 RGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ---SGGKNIELAVMRRDQSLKILNPEEIEKYVAE  231 (248)
T ss_dssp             TTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC---TTSTTCCEEEEESSSCEECCCHHHHHHHTTT
T ss_pred             CCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHc---CCCCcEEEEEEECCCcEEECCHHHHHHHHHH
Confidence            999999999999999999  999999999999999886   368999999999998 889988888766443

>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=9e-52  Score=363.72  Aligned_cols=212  Identities=19%  Similarity=0.173  Sum_probs=200.7

Q ss_pred             ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHH
Q 024919           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (260)
Q Consensus        16 fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l   95 (260)
                      |||+|||+|||||     ++++++|+|+|||+++||||||+|+|.++|.   .++.+||++|++|++|+++|..+|++.+
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     9999999999999999999999999999873   2578999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCC
Q 024919           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (260)
Q Consensus        96 ~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g  170 (260)
                      +++++.+++.|++.++++++++.+++++++.++.+     .|||++++||||||++||+||.+||+|++.+++++++|+|
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            99999999999999999999999999999999743     4799999999999998899999999999999999999999


Q ss_pred             hHHHHHHHHhhcCC--CCCHHHHHHHHHHHHHHHHhhc-CCCCCcEEEEEEeCC-CEEEeccccCCCCC
Q 024919          171 SLAAMAVFESKYRE--GLTKEEGISLVCEAICSGIFND-LGSGSNVDICVITKG-DKEYLRNHQLPNPR  235 (260)
Q Consensus       171 ~~~~~~~Le~~~~~--~~s~~eai~l~~~al~~a~~~d-~~~~~~iei~iitk~-g~~~~~~~~~~~~~  235 (260)
                      +.+++++||+.|++  +||++||++++++||+.+.++| ..++++++|++|+++ +.+++++.+++...
T Consensus       165 s~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~~~l~~~ei~~~~  233 (263)
T 1iru_F          165 SQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFL  233 (263)
T ss_dssp             HHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHH
T ss_pred             cHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCeEECCHHHHHHHH
Confidence            99999999999998  9999999999999999999999 478999999999999 68899988886654

>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=1e-50  Score=354.53  Aligned_cols=201  Identities=17%  Similarity=0.300  Sum_probs=189.1

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|||+|||||     ++++++|+|+|||+++||||||+|+|.+ +.++..++.+||++|++|++|++||..+|++.
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            49999999999999     9999999999999999999999999998 68888999999999999999999999999999


Q ss_pred             HHHHHHHHHHH-hhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEE
Q 024919           95 VTDMVSSQLQL-HRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (260)
Q Consensus        95 l~~~~r~~~~~-~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~ai  167 (260)
                      ++++++.+++. |+..++++++++.+++.+++.++.+     .+||++++|+||||+ +||+||.+||+|++.+++++|+
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 9999999999999888777776533     279999999999997 5799999999999999999999


Q ss_pred             cCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC
Q 024919          168 GSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD  222 (260)
Q Consensus       168 G~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g  222 (260)
                      |+|+.+++++||+.|+++||++||++++++||+.+.+++. ++++++|++|++++
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 69999999999974

>1ryp_I 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1g0u_H* 1jd2_H* 1g65_H 1vsy_I 1z7q_I 2f16_H* 2fak_H* 2fny_H* 2gpl_H* 3d29_H* 3dy3_H* 3dy4_H* 3e47_H* 3gpj_H* 3gpt_H* 3gpw_H* 3hye_H* 3l5q_M 3mg0_H* 3mg4_H* ...

Probab=100.00  E-value=1.3e-49  Score=341.78  Aligned_cols=218  Identities=56%  Similarity=0.907  Sum_probs=211.6

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++..++.+||++|++|++|+++|..+|++.+++++|.+++.|+++++++++++.++
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             HHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~  200 (260)
                      +++++.++++++||++++|+||||++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++||+
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            99999999999999999999999998899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEEEeCCC-EEEeccccCCCCCccccCCccccCCCccceeeeeecc
Q 024919          201 SGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFP  259 (260)
Q Consensus       201 ~a~~~d~~~~~~iei~iitk~g-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (260)
                      .+.++|..++++++|++|+++| +++++++.+++.|.+ |..+|.+|+||+..+-.+.+|
T Consensus       161 ~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  219 (222)
T 1ryp_I          161 AGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGTTAVLKESIVN  219 (222)
T ss_dssp             HHHHHCTTCCSCEEEEEEETTSCEEEEEEEECCCCCCC-CSSCCCCCTTCSCEEEEEECC
T ss_pred             HHHhccccCCCcEEEEEEECCCCEEEEeceecCCcccc-cccCcccCCCceeeeeeeeEe
Confidence            9999999899999999999999 999999999999977 479999999999999988876

>3unf_H Proteasome subunit beta type-10; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_H

Probab=100.00  E-value=1.4e-49  Score=344.10  Aligned_cols=218  Identities=51%  Similarity=0.859  Sum_probs=211.3

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+++||||||+|+|.++|.++..++.+|||+|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~  200 (260)
                      +++++.++++++||++++|+||||++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++||+
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            99999999999999999999999998999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCccccCCccccCCCccceeeeeecc
Q 024919          201 SGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFP  259 (260)
Q Consensus       201 ~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (260)
                      .+..+|..++++++|++|+++|+++++++++++.|.+ |...|.+|+||+.-+..+..|
T Consensus       161 ~~~~~D~~sg~~iev~vi~~dg~~~l~~~~i~~~~~~-~~~~~~~~~~~~~~~~~~~~~  218 (234)
T 3unf_H          161 AGILSDLGSGGNVDACVITAGGAKLQRALSTPTEPVQ-RAGRYRFAPGTTPVLTREVRP  218 (234)
T ss_dssp             HHHHHBTTCCSCEEEEEEESSCEEEEEEEECCCCCCC-CCCCCCCCTTCSCEEEEEEEE
T ss_pred             HHHhhcCCCCCcEEEEEEECCCEEEeCceeccccccc-ccccccCCCCCcceeeEEEEE
Confidence            9999999999999999999999999999999999995 889999999999988877654

>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=5.2e-49  Score=340.65  Aligned_cols=218  Identities=59%  Similarity=0.986  Sum_probs=210.7

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999999988889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~  200 (260)
                      +++++.++++++||++++|+||||++||+||.+||+|++.+++++++|+|+..++++||+.|+++||++||++++++||+
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            99999999999999999999999998999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCccccCCccccCCCccceeeeeecc
Q 024919          201 SGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFP  259 (260)
Q Consensus       201 ~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (260)
                      .+.++|..++++++|++|+++|+++++++.+++.|.+ |.++|.+|+||+..+-.+..|
T Consensus       161 ~a~~~d~~sg~~i~v~vi~k~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  218 (234)
T 1iru_I          161 AGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKGT-RLGRYRCEKGTTAVLTEKITP  218 (234)
T ss_dssp             HHHHHCTTCCSCEEEEEEETTEEECCSEEECCCCCCC-CCSCCCCCTTCSCBSCCCCCB
T ss_pred             HHHHhcccCCCCEEEEEEECCcEEEEcceecCccccc-cccCcccCCCceeeeEEEEEe
Confidence            9999999899999999999999999999999999988 688999999999999777655

>1iru_N 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_M* 3une_M 3unf_M* 3unh_M

Probab=100.00  E-value=8.9e-48  Score=329.52  Aligned_cols=211  Identities=17%  Similarity=0.215  Sum_probs=201.0

Q ss_pred             CCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhh-hcC
Q 024919           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-HTG  111 (260)
Q Consensus        33 ~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~-~~~  111 (260)
                      +++++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.+.+++|.+++.|+. .++
T Consensus         1 ~~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   80 (219)
T 1iru_N            1 TQNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDG   80 (219)
T ss_dssp             CCSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSS
T ss_pred             CCCCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcC
Confidence            3688999999999999999999999999999999999999999999999999999999999999999999999998 899


Q ss_pred             CCCCHHHHHHHHHHHHhhc---cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCC--CC
Q 024919          112 RESRVVTALTLLKSHLFKY---QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE--GL  186 (260)
Q Consensus       112 ~~i~~~~la~~l~~~~~~~---~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~--~~  186 (260)
                      ++++++.+++++++.++.+   .+||++++|+||||++||+||.+||+|++.+++++++|+|+.+++++||+.|++  +|
T Consensus        81 ~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~~m  160 (219)
T 1iru_N           81 HSYSPRAIHSWLTRAMYSRRSKMNPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVL  160 (219)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTSCSCC
T ss_pred             CCCCHHHHHHHHHHHHHHhcccCCCceEEEEEEEEECCCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcCCCCCC
Confidence            9999999999999998754   379999999999998889999999999999999999999999999999999999  99


Q ss_pred             CHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCcccc-CCcc
Q 024919          187 TKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYIS-SKGY  243 (260)
Q Consensus       187 s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~~~~-~~~~  243 (260)
                      |++||++++++||..+.++|..++++++|++|+++|++++++++++..|.|+. .+||
T Consensus       161 t~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~i~~~~~~~~~~~~~  218 (219)
T 1iru_N          161 SQTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTETNWDIAHMISGF  218 (219)
T ss_dssp             CHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECCCCCCGGGGCSCC-
T ss_pred             CHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCCCEEEcCCeeccchhhHHHhhcCC
Confidence            99999999999999999999999999999999999999999999999999966 4444

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

Probab=100.00  E-value=5.3e-47  Score=327.70  Aligned_cols=212  Identities=19%  Similarity=0.291  Sum_probs=202.4

Q ss_pred             CCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhh----
Q 024919           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY----  108 (260)
Q Consensus        33 ~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~----  108 (260)
                      +++++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.+++++|.+++.|++    
T Consensus         1 ~~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   80 (233)
T 1ryp_N            1 TQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPL   80 (233)
T ss_dssp             CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTT
T ss_pred             CcccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccch
Confidence            3688999999999999999999999999999999999999999999999999999999999999999999999999    


Q ss_pred             -hcCCCCCHHHHHHHHHHHHhhcc---CccceEEEEEEEeCC-CCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcC
Q 024919          109 -HTGRESRVVTALTLLKSHLFKYQ---GHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR  183 (260)
Q Consensus       109 -~~~~~i~~~~la~~l~~~~~~~~---~p~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~  183 (260)
                       .++++++++.+++++++.+|.++   +||++++|+||||++ ||+||.+||+|++.+++++++|+|+.+++++||+.|+
T Consensus        81 ~~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~  160 (233)
T 1ryp_N           81 ADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVD  160 (233)
T ss_dssp             TTTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHTTTCS
T ss_pred             hhcCCCCCHHHHHHHHHHHHHHhcCCCCCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHHHHhhc
Confidence             89999999999999999998654   699999999999975 8999999999999999999999999999999999999


Q ss_pred             C-----CCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CEEEeccccCCCC-Ccccc-CCccc
Q 024919          184 E-----GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPNP-RTYIS-SKGYS  244 (260)
Q Consensus       184 ~-----~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~-g~~~~~~~~~~~~-~~~~~-~~~~~  244 (260)
                      +     +||++||++++++||+.+.++|..++++++|++|+++ |++++++++++.. |.|+. .+||.
T Consensus       161 ~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~g~~~~~~~~i~~~~w~~~~~~~~~~  229 (233)
T 1ryp_N          161 RESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAKDIKGYG  229 (233)
T ss_dssp             SGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSCCCGGGGGCCSSS
T ss_pred             cccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCCCeEEcChHhcccccchhhhhccCcC
Confidence            9     9999999999999999999999999999999999999 9999999999999 99966 66664

>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H 1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H

Probab=100.00  E-value=8.6e-46  Score=316.95  Aligned_cols=201  Identities=29%  Similarity=0.413  Sum_probs=186.9

Q ss_pred             CccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCC
Q 024919           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (260)
Q Consensus        34 ~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~  113 (260)
                      .+++.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|+++++|+++|..+|++.+++++|.+++.|++.++++
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            46788999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHhhcc-CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHH
Q 024919          114 SRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGI  192 (260)
Q Consensus       114 i~~~~la~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai  192 (260)
                      ++++.+++++++.++.++ +||++++|+|||| +||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||+
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             HHHHHHHHHHHhhcCCCCCcEEEEEEeC-CCEEEeccccCCCCC
Q 024919          193 SLVCEAICSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLPNPR  235 (260)
Q Consensus       193 ~l~~~al~~a~~~d~~~~~~iei~iitk-~g~~~~~~~~~~~~~  235 (260)
                      +++++||+.+.++|..++++++|++|++ +|.+++++.+++..+
T Consensus       161 ~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~~~~~~ei~~~~  204 (217)
T 1yar_H          161 DLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRI  204 (217)
T ss_dssp             HHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCCCcEEEEEEECCCCEEEcCHHHHHHHH
Confidence            9999999999999998999999999999 899999888876543

>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=329.00  Aligned_cols=209  Identities=15%  Similarity=0.203  Sum_probs=187.3

Q ss_pred             ccccCchhhH-HHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHH
Q 024919           14 FSFDLCRRND-MLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADT   92 (260)
Q Consensus        14 ~~fsp~Gr~~-Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~   92 (260)
                      +-|||||++. |||||     .+++++|+|+|||+++||||||+|+|        +++.+|||+|++|++|+++|..+|+
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            4589999995 99999     99999999999999999999999998        3578999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcC-CCCCHHHHHHHHHHHH---h-hccCccceEEEEEEEe----CCCCEEEEEcCCCCcc-cc
Q 024919           93 EAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKSHL---F-KYQGHVQAALVLGGVD----ATGPHLHTIYPHGSTD-TL  162 (260)
Q Consensus        93 ~~l~~~~r~~~~~~~~~~~-~~i~~~~la~~l~~~~---~-~~~~p~~v~~ivaG~D----~~gp~Ly~iDp~G~~~-~~  162 (260)
                      +.++++++.+++.|++.++ ++++++.+++++++.+   + ...+||++++||||||    ++||+||.+||+|++. ++
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            9999999999999998887 4899999999999953   3 2347999999999999    6789999999999999 88


Q ss_pred             CeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHH-----hhcCCCCCcEEEEEEeCC----CEEEeccccCCC
Q 024919          163 PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGI-----FNDLGSGSNVDICVITKG----DKEYLRNHQLPN  233 (260)
Q Consensus       163 ~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~-----~~d~~~~~~iei~iitk~----g~~~~~~~~~~~  233 (260)
                      +++++|+|+..++++||+.|+++||++||++++++||..+.     ++|. ++.+++|++|+++    +.+++++.+++.
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            99999999999999999999999999999999999999998     8998 8999999999999    688888888776


Q ss_pred             CCc
Q 024919          234 PRT  236 (260)
Q Consensus       234 ~~~  236 (260)
                      ...
T Consensus       231 ~~~  233 (259)
T 1q5q_A          231 LVP  233 (259)
T ss_dssp             TSC
T ss_pred             HHH
Confidence            643

>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=7.1e-46  Score=326.65  Aligned_cols=211  Identities=19%  Similarity=0.292  Sum_probs=201.5

Q ss_pred             CccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhh-----
Q 024919           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-----  108 (260)
Q Consensus        34 ~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~-----  108 (260)
                      .+++.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.+++++|.+++.|++     
T Consensus        35 ~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~~  114 (266)
T 1g0u_M           35 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA  114 (266)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             ccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhccchh
Confidence            889999999999999999999999999999999999999999999999999999999999999999999999998     


Q ss_pred             hcCCCCCHHHHHHHHHHHHhhcc---CccceEEEEEEEeCC-CCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCC
Q 024919          109 HTGRESRVVTALTLLKSHLFKYQ---GHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYRE  184 (260)
Q Consensus       109 ~~~~~i~~~~la~~l~~~~~~~~---~p~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~  184 (260)
                      .++++++++.+++++++.+|.++   +||++++||||||++ ||+||.+||+|++.+++++++|+|+.+++++||+.|++
T Consensus       115 ~~~~~~~v~~la~~l~~~ly~~r~~~~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~  194 (266)
T 1g0u_M          115 DAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDR  194 (266)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHHHHHTTCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTHHHHHTTTCSS
T ss_pred             hcCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHHHHHHHHhhcc
Confidence            89999999999999999998653   799999999999975 89999999999999999999999999999999999999


Q ss_pred             -----CCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CEEEeccccCCCC-Ccccc-CCccc
Q 024919          185 -----GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPNP-RTYIS-SKGYS  244 (260)
Q Consensus       185 -----~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~-g~~~~~~~~~~~~-~~~~~-~~~~~  244 (260)
                           +||++||++++++||+.+.++|..++++++|++|+++ |+++++++++++. |.|+. .+||-
T Consensus       195 ~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~g~~~~~~~ei~~~~w~~~~~~~~~~  262 (266)
T 1g0u_M          195 ESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKWDFAKDIKGYG  262 (266)
T ss_dssp             GGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCCCCCGGGGGCCSSS
T ss_pred             cccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCCCeEEcCHHHhhhhhhhHHhhhcCcC
Confidence                 9999999999999999999999999999999999999 9999999999999 99965 55553

>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=5.1e-46  Score=330.23  Aligned_cols=211  Identities=25%  Similarity=0.348  Sum_probs=195.3

Q ss_pred             CccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCC
Q 024919           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRE  113 (260)
Q Consensus        34 ~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~  113 (260)
                      ..++.+|+|+|||+++||||||+|+|.++|.++..++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++
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            78899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHhhcc-CccceEEEEEEEe-CCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHH
Q 024919          114 SRVVTALTLLKSHLFKYQ-GHVQAALVLGGVD-ATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEG  191 (260)
Q Consensus       114 i~~~~la~~l~~~~~~~~-~p~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~ea  191 (260)
                      ++++.+++++++.+|.++ .||++++|+|||| ++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||
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            999999999999998775 5899999999999 57799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC-CccccCCccc
Q 024919          192 ISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP-RTYISSKGYS  244 (260)
Q Consensus       192 i~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~-~~~~~~~~~~  244 (260)
                      ++++++||..+.+||..++++++|++|+++|.+++++.++++. |.++.++|.+
T Consensus       229 i~la~~aL~~a~~rD~~sg~~i~V~vItkdg~~~l~~~ev~~~l~~~~e~~~~~  282 (287)
T 3nzj_K          229 LYLGKRSILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEEGSF  282 (287)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHHhhCcCCCCceEEEEEeCCCEEEeCHHHHHHHHHHHHHhhccc
Confidence            9999999999999999999999999999999999999999874 8887766654

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

Probab=100.00  E-value=2.9e-45  Score=310.20  Aligned_cols=194  Identities=27%  Similarity=0.425  Sum_probs=186.8

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++..++.+||++|++|++|+++|..+|++.+++++|.+++.|+++++++++++.++
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-CccceEEEEEEEeCCCCEEEEEcCCCCccccC-eEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLP-FATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (260)
Q Consensus       121 ~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~-~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~a  198 (260)
                      +++++.++.++ +||++++|+||||++||+||.+||+|++.+++ ++|+|+|+.+++++||+.|+++||++||++++++|
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            99999998764 69999999999998889999999999999999 99999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC
Q 024919          199 ICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       199 l~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~  234 (260)
                      |+.+.++|..++++++|++|+++|.+++++.+++..
T Consensus       161 l~~~~~~d~~s~~~i~v~vi~~~g~~~l~~~ei~~~  196 (202)
T 1j2q_H          161 IYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVEQI  196 (202)
T ss_dssp             HHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHHHH
T ss_pred             HHHHHhcCCCCCCcEEEEEEeCCCeEEeCHHHHHHH
Confidence            999999999899999999999999999988877654

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

Probab=100.00  E-value=3e-45  Score=314.03  Aligned_cols=196  Identities=31%  Similarity=0.461  Sum_probs=188.4

Q ss_pred             CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        40 G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      |+|+|||+++||||||+|+|.++|.++..++.+||++|++|++|+++|..+|++.+++++|.+++.|++.++++++++.+
T Consensus         1 Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~l   80 (219)
T 3h4p_a            1 MTTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLIAEAKLYKMRTGRNIPPLAC   80 (219)
T ss_dssp             -CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHHHHHHHHHHHHHTSSCCCHHHH
T ss_pred             CccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHH
Confidence            79999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcc-CccceEEEEEEEeC-CCCEEEEEcCCCCccccC-eEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHH
Q 024919          120 LTLLKSHLFKYQ-GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLP-FATMGSGSLAAMAVFESKYREGLTKEEGISLVC  196 (260)
Q Consensus       120 a~~l~~~~~~~~-~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~-~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~  196 (260)
                      ++++++.+++++ +||++++|+||||+ +||+||.+||+|++.+++ ++++|+|+.+++++||+.|+++||++||+++++
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            999999998764 69999999999998 779999999999999999 999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCC
Q 024919          197 EAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR  235 (260)
Q Consensus       197 ~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~  235 (260)
                      +||..+.++|..++++++|++|+++|++++++.++....
T Consensus       161 ~al~~~~~rd~~sg~~i~v~vi~~~g~~~l~~~ei~~~l  199 (219)
T 3h4p_a          161 NALKSAMERDTFSGNGISLAVITKDGVKIFEDEEIEKIL  199 (219)
T ss_dssp             HHHHHHHTSCSSCCSCCCEEEEETTEEEECCHHHHHHHH
T ss_pred             HHHHHHHhhcCCCCCcEEEEEEeCCCeEEcCHHHHHHHH
Confidence            999999999999999999999999999999999887663

>1ryp_H 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 3nzj_N* 3nzw_N* 3nzx_N* 1vsy_H 3l5q_B 1g65_N* 1fnt_H 1g0u_N* 1jd2_N* 1z7q_H 2f16_N* 2fak_N* 2fny_N* 2gpl_N* 2zcy_N* 3bdm_N* 3d29_N* 3dy3_N* 3dy4_N* 3e47_N* ...

Probab=100.00  E-value=1.1e-44  Score=307.31  Aligned_cols=194  Identities=30%  Similarity=0.514  Sum_probs=185.8

Q ss_pred             CCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCC
Q 024919           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGR  112 (260)
Q Consensus        33 ~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~  112 (260)
                      ..+++++|+|+|||+++||||||+|+|.++|.++..++.+||++|++|++|+++|..+|++.+++++|.+++.|++.+++
T Consensus         2 ~~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   81 (205)
T 1ryp_H            2 KKGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT   81 (205)
T ss_dssp             CTTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CCCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            37899999999999999999999999999998999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHhhccCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHH
Q 024919          113 ESRVVTALTLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEG  191 (260)
Q Consensus       113 ~i~~~~la~~l~~~~~~~~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~ea  191 (260)
                       ++++.+++++++.++.++..|++++|+||||+ +||+||.+||+|++.+++++++|+|+.+++++||+.|+++||++||
T Consensus        82 -~~v~~la~~l~~~~~~~~~~~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~eea  160 (205)
T 1ryp_H           82 -PSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEET  160 (205)
T ss_dssp             -CCHHHHHHHHHHHHHHTTTTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTTCCHHHH
T ss_pred             -CCHHHHHHHHHHHHHhhhcCceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccCCCCCHHHH
Confidence             99999999999999988766999999999997 6799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEec
Q 024919          192 ISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLR  227 (260)
Q Consensus       192 i~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~  227 (260)
                      ++++++||+.+.++|..++++++|++|+++|++...
T Consensus       161 ~~l~~~al~~a~~~d~~sg~~i~v~vi~~~g~~~~~  196 (205)
T 1ryp_H          161 VDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLI  196 (205)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEE
T ss_pred             HHHHHHHHHHHHHhCCccCCeEEEEEEcCCCEEEEE
Confidence            999999999999999999999999999999976443

>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=2.8e-44  Score=306.50  Aligned_cols=194  Identities=19%  Similarity=0.273  Sum_probs=184.3

Q ss_pred             CCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCC
Q 024919           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGR  112 (260)
Q Consensus        33 ~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~  112 (260)
                      +.+++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.++++++.+++.|++.+++
T Consensus         2 ~~p~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~   81 (213)
T 1iru_M            2 FSPYVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNK   81 (213)
T ss_dssp             CCSCCCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CCCccCCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCC
Confidence            35678999999999999999999999999999998899999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHhhcc-CccceEEEEEEEeCCC-CEEEEEcCCCCccccCeEEEcCChHHHHHHHHhh---------
Q 024919          113 ESRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESK---------  181 (260)
Q Consensus       113 ~i~~~~la~~l~~~~~~~~-~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~---------  181 (260)
                      +++++.+++++++.+|..+ +||++++|+||||++| |+||.+||+|++.+++++|+|+|+.+++++||+.         
T Consensus        82 ~~~v~~la~~l~~~~y~~r~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~~~~~  161 (213)
T 1iru_M           82 AMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNV  161 (213)
T ss_dssp             CCCHHHHHHHHHHHHHHTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSC
T ss_pred             CCCHHHHHHHHHHHHHhhCCCCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhcccccccccc
Confidence            9999999999999997544 7999999999999755 9999999999999999999999999999999999         


Q ss_pred             cCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEe
Q 024919          182 YREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYL  226 (260)
Q Consensus       182 ~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~  226 (260)
                      |+++||++||++++++||..+.++|..++++++|++|+++|++..
T Consensus       162 ~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~  206 (213)
T 1iru_M          162 EHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIREE  206 (213)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEEE
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCCeEEE
Confidence            888999999999999999999999999999999999999997643

>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-44  Score=305.11  Aligned_cols=195  Identities=25%  Similarity=0.364  Sum_probs=187.3

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++..++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
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-CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (260)
Q Consensus       121 ~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al  199 (260)
                      +++++.++.++ .||++++|+||||++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++||
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            99999999875 48999999999999899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCC
Q 024919          200 CSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPR  235 (260)
Q Consensus       200 ~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~  235 (260)
                      +.+.++|..++++++|++|+++|++++++.+++...
T Consensus       161 ~~~~~rd~~s~~~i~v~vi~~~g~~~l~~~ei~~~~  196 (204)
T 1iru_L          161 YQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLH  196 (204)
T ss_dssp             HHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHHHHH
T ss_pred             HHHHHhCccCCCceEEEEEeCCceEEeCHHHHHHHH
Confidence            999999988899999999999999999988876553

>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=4e-44  Score=307.63  Aligned_cols=194  Identities=20%  Similarity=0.262  Sum_probs=184.6

Q ss_pred             CCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcC-
Q 024919           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-  111 (260)
Q Consensus        33 ~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~-  111 (260)
                      +.+++++|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.++++++.+++.|++.++ 
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            4578899999999999999999999999999998999999999999999999999999999999999999999999999 


Q ss_pred             CCCCHHHHHHHHHHHHhhcc-CccceEEEEEEEeCCC-CEEEEEcCCCCccccCeEEEcCChHHHHHHHHhh--------
Q 024919          112 RESRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESK--------  181 (260)
Q Consensus       112 ~~i~~~~la~~l~~~~~~~~-~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~--------  181 (260)
                      ++++++.+|+++++.+|..+ +||++++|+||||++| |+||.+||.|++.+++++|+|+|+.+++++||+.        
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            99999999999999998654 6999999999999755 9999999999999999999999999999999998        


Q ss_pred             ---------cCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEe
Q 024919          182 ---------YREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYL  226 (260)
Q Consensus       182 ---------~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~  226 (260)
                               |+++||++||++++++||..+.++|..++++++|++|+++|++..
T Consensus       162 ~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi~~~g~~~~  215 (222)
T 1ryp_M          162 PGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKE  215 (222)
T ss_dssp             TTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEEEEE
T ss_pred             cccccccccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEcCCCeEEE
Confidence                     889999999999999999999999999999999999999997643

>1ryp_K 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_K 1g0u_J* 1jd2_J* 1g65_J 1vsy_K 1z7q_K 2f16_J* 2fak_J* 2fny_J* 2gpl_J* 2zcy_J* 3bdm_J* 3d29_J* 3dy3_J* 3dy4_J* 3e47_J* 3gpj_J* 3gpt_J* 3gpw_J* 3hye_J* ...

Probab=100.00  E-value=2.5e-44  Score=303.42  Aligned_cols=191  Identities=22%  Similarity=0.298  Sum_probs=183.2

Q ss_pred             CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        40 G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      .+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.+++++|.+++.|++.++++++++.+
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            47999999999999999999999999888899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcc---CccceEEEEEEEeC--CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHH
Q 024919          120 LTLLKSHLFKYQ---GHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISL  194 (260)
Q Consensus       120 a~~l~~~~~~~~---~p~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l  194 (260)
                      ++++++.+++++   +||++++|+||||+  +||+||.+||+|++.+++++++|+|+.+++++||+.|+++||++||+++
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            999999998763   49999999999995  6799999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEecccc
Q 024919          195 VCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQ  230 (260)
Q Consensus       195 ~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~  230 (260)
                      +++||..+.++|..++++++|++|+++|++.+++++
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            999999999999999999999999999999988854

>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=4.1e-44  Score=303.74  Aligned_cols=196  Identities=32%  Similarity=0.531  Sum_probs=187.4

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.+++++|.+++.|++.++++++++.++
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             HHHHHHHhhccCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al  199 (260)
                      +++++.++.++.||++++|+||||+ +||+||.+||+|++.+++++++|+|+.+++++||+.|+++||++||++++++||
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            9999999988889999999999997 679999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEEEeCCCE--EEeccccCCCCCc
Q 024919          200 CSGIFNDLGSGSNVDICVITKGDK--EYLRNHQLPNPRT  236 (260)
Q Consensus       200 ~~a~~~d~~~~~~iei~iitk~g~--~~~~~~~~~~~~~  236 (260)
                      +.+.++|..++++++|++|+++|.  +++++.+++..+.
T Consensus       161 ~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei~~~~~  199 (205)
T 1iru_H          161 ALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFAV  199 (205)
T ss_dssp             HHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCCC
T ss_pred             HHHHHhccccCCcEEEEEEeCCCeEEEEeChHHhhHHHh
Confidence            999999999999999999999985  5688888876654

>1ryp_L 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_L 1vsy_L 1z7q_L 3l5q_P 1g65_K* 1g0u_K* 1jd2_K* 2f16_K* 2fak_K* 2fny_K* 2gpl_K* 2zcy_K* 3bdm_K* 3d29_K* 3dy3_K* 3dy4_K* 3e47_K* 3gpj_K* 3gpt_K* 3gpw_K* ...

Probab=100.00  E-value=1.5e-44  Score=307.96  Aligned_cols=198  Identities=26%  Similarity=0.376  Sum_probs=190.2

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|++||..+|++.+++++|.+++.|++.++++++++.++
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-ccceEEEEEEEe-CCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQG-HVQAALVLGGVD-ATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (260)
Q Consensus       121 ~~l~~~~~~~~~-p~~v~~ivaG~D-~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~a  198 (260)
                      +++++.++.+++ ||++++|+|||| ++||+||.+||+|++.+++++|+|+|+.+++++||+.|+++||++||++++++|
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            999999998764 899999999999 567999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC-Cccc
Q 024919          199 ICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP-RTYI  238 (260)
Q Consensus       199 l~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~-~~~~  238 (260)
                      |+.+.++|..++++++|++|+++|.+++++.+++.. |.++
T Consensus       161 l~~~~~rd~~s~~~i~v~vi~~~g~~~~~~~ei~~~~~~~~  201 (212)
T 1ryp_L          161 ILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVK  201 (212)
T ss_dssp             HHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHH
T ss_pred             HHHHHHhccccCCceEEEEEcCCceEEECHHHHHHHHHHHH
Confidence            999999999999999999999999999999999887 7663

>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=1.2e-43  Score=300.09  Aligned_cols=193  Identities=19%  Similarity=0.284  Sum_probs=182.0

Q ss_pred             CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        40 G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      .+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.++++++.+++.|++.++++++++.+
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            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHH-hh--ccCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHH
Q 024919          120 LTLLKSHL-FK--YQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (260)
Q Consensus       120 a~~l~~~~-~~--~~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~  195 (260)
                      ++++++.+ +.  .++||++++|+||||+ +||+||.+||.|++.+++++++|+|+.+++++||+.|+++||++||++++
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 67999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCC
Q 024919          196 CEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (260)
Q Consensus       196 ~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~  232 (260)
                      ++||+.+.++|..++++++|++|+++|++.++++...
T Consensus       161 ~~al~~a~~rd~~sg~~i~v~vi~~~g~~~~~~~~~~  197 (201)
T 1iru_K          161 RKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNISFP  197 (201)
T ss_dssp             HHHHHHHHHTBCBCCCCEEEEEEETTEEECCCCBCCC
T ss_pred             HHHHHHHHhhccccCCceEEEEEcCCCeEEeecccCC
Confidence            9999999999999999999999999999988876533

>3unf_N Proteasome subunit beta type-9; antigen presentation, drug development, protein degradation, hydrolase-hydrolase inhibitor complex; HET: 04C; 2.90A {Mus musculus} PDB: 3unh_N

Probab=100.00  E-value=2.8e-43  Score=297.22  Aligned_cols=194  Identities=29%  Similarity=0.476  Sum_probs=184.2

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+++||||||+|+|.++|.++..++.+||++|++|++|+++|..+|++.+.+++|.+++.|++.++++++++.++
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            68999999999999999999999899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCccceEEEEEEEeC-CCCEEEEEcCCCCcccc-CeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~-~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~a  198 (260)
                      +++++.++++++||++++|+||||+ +||+||.  |+|++.++ .++++|+|+.+++++||+.|+++||++||++++++|
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 5799999  99997665 566679999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEEEeCCC--EEEeccccCCCCCc
Q 024919          199 ICSGIFNDLGSGSNVDICVITKGD--KEYLRNHQLPNPRT  236 (260)
Q Consensus       199 l~~a~~~d~~~~~~iei~iitk~g--~~~~~~~~~~~~~~  236 (260)
                      |+.+.++|..++++++|++|+++|  .+++++.+++..|.
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  46699999998774

>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=5.8e-43  Score=296.69  Aligned_cols=191  Identities=20%  Similarity=0.285  Sum_probs=180.3

Q ss_pred             ccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCC
Q 024919           35 SYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES  114 (260)
Q Consensus        35 ~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i  114 (260)
                      ..+.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.++++++.+++.|++.+++++
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            45689999999999999999999999999998888999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHhhcc-CccceEEEEEEEeC--CCCEEEEEcCCCCcccc-CeEEEcCChHHHHHHHHhhcCCCCCHHH
Q 024919          115 RVVTALTLLKSHLFKYQ-GHVQAALVLGGVDA--TGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEE  190 (260)
Q Consensus       115 ~~~~la~~l~~~~~~~~-~p~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~-~~~aiG~g~~~~~~~Le~~~~~~~s~~e  190 (260)
                      +++.+++++++.++.++ .||++++|+||||+  +||+||.+||.|++.++ .|+++|+|+.+++++||+.|+++||++|
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            99999999999997543 59999999999995  67999999999998655 6799999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEE
Q 024919          191 GISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (260)
Q Consensus       191 ai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~  225 (260)
                      |++++++||+.+.++|..++++++|++|+++|+++
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            99999999999999999999999999999999754

>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=1.3e-42  Score=294.40  Aligned_cols=190  Identities=21%  Similarity=0.266  Sum_probs=179.6

Q ss_pred             ccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCC
Q 024919           35 SYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES  114 (260)
Q Consensus        35 ~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i  114 (260)
                      +++.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|+ |++|+++|..+|++.+++++|.+++.|++++++++
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            56789999999999999999999999999998888999999999 99999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHhhcc-CccceEEEEEEEeC--CCCEEEEEcCCCCcccc-CeEEEcCChHHHHHHHHhhcCCCCCHHH
Q 024919          115 RVVTALTLLKSHLFKYQ-GHVQAALVLGGVDA--TGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEE  190 (260)
Q Consensus       115 ~~~~la~~l~~~~~~~~-~p~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~-~~~aiG~g~~~~~~~Le~~~~~~~s~~e  190 (260)
                      +++.+++++++.+|..+ .||++++|+||||+  +||+||.+||.|++.++ .++++|+|+.+++++||+.|+++||++|
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  67999999999998655 7799999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEE
Q 024919          191 GISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (260)
Q Consensus       191 ai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~  225 (260)
                      |++++++||..+.++|..++++++|++|+++|++.
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            99999999999999999899999999999999764

>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=1.5e-43  Score=315.16  Aligned_cols=225  Identities=20%  Similarity=0.235  Sum_probs=168.0

Q ss_pred             CCCCCCCCcccc-------Cchhh-----HH--HhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeeccc
Q 024919            6 IGIPPKGGFSFD-------LCRRN-----DM--LSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNC   71 (260)
Q Consensus         6 ~~~~~~~g~~fs-------p~Gr~-----~Q--veya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~   71 (260)
                      -+.|..+|++|.       |+.-.     ++  +|||     .+ +++|+|+|||+++||||||+|+|.++|.++.+++.
T Consensus        15 ~~~~~~~~~~f~~~~~~~~~~~l~~~~~~~~~~~~ya-----~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~   88 (291)
T 2jay_A           15 SGTPAVDLSSFTDFLRRQAPELLPASISGGAPLAGGD-----AQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDV   88 (291)
T ss_dssp             -------------------------------------------------CCEEEEEETTEEEEEECCC--------CCCC
T ss_pred             CCCCCCCCccHHHHhhhcChhhccccccccCcCcccc-----cc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCc
Confidence            367888999884       33221     11  6899     88 99999999999999999999999999989999999


Q ss_pred             CeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhcc----CccceEEEEEEEeCC-
Q 024919           72 EKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKYQ----GHVQAALVLGGVDAT-  146 (260)
Q Consensus        72 ~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~----~p~~v~~ivaG~D~~-  146 (260)
                      +||++|++|++|+++|..+|++.++++++.+++.|++.++++++++.+++++++.++.++    +||++++|+||||++ 
T Consensus        89 ~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~~~~rpf~v~~lvaG~D~~g  168 (291)
T 2jay_A           89 RKVYITDDYTATGIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLAAAMQGLLALPLLAGYDIHA  168 (291)
T ss_dssp             CCEEEEETTEEEEEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHHHHHHTCCCEEEEEEECTTC
T ss_pred             ccEEEeCCcEEEEEcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhhhhccccceeEEEEEEeCCC
Confidence            999999999999999999999999999999999999999999999999999999998753    589999999999975 


Q ss_pred             C-----CEEEEEcCCCCcc--ccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCc--E----
Q 024919          147 G-----PHLHTIYPHGSTD--TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSN--V----  213 (260)
Q Consensus       147 g-----p~Ly~iDp~G~~~--~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~--i----  213 (260)
                      +     |+||.+||+|++.  +++++++|+|+.+++++||+.|+++||++||++++++||+.+.++|..+++.  +    
T Consensus       169 ~~~~~~p~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~  248 (291)
T 2jay_A          169 SDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIF  248 (291)
T ss_dssp             SCSTTCEEEEEECTTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCCSHHHHHHHHHHHHHHC----------------C
T ss_pred             CcCCCCCEEEEECCCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcccccccC
Confidence            4     8999999999988  8999999999999999999999999999999999999999999999887654  2    


Q ss_pred             -EEEEEeCCCEEEeccccCCCCCc
Q 024919          214 -DICVITKGDKEYLRNHQLPNPRT  236 (260)
Q Consensus       214 -ei~iitk~g~~~~~~~~~~~~~~  236 (260)
                       +|++|+++|++++++.++.....
T Consensus       249 ~~v~vi~~dg~~~l~~~ei~~~~~  272 (291)
T 2jay_A          249 PTAVIIDADGAVDVPESRIAELAR  272 (291)
T ss_dssp             CEEEEEETTEEEECCHHHHHHHHH
T ss_pred             CEEEEEECCCeEEcCHHHHHHHHH
Confidence             79999999999999888877643

>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=2.2e-43  Score=307.53  Aligned_cols=208  Identities=13%  Similarity=0.155  Sum_probs=182.1

Q ss_pred             ccccCchhhH-HHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHH
Q 024919           14 FSFDLCRRND-MLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADT   92 (260)
Q Consensus        14 ~~fsp~Gr~~-Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~   92 (260)
                      |.-|||.-.- ++|||     ++|+++|+|+|||+++||||||+|+|        .++.+|||+|++|++|+++|+.+|+
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            3446665444 68999     99999999999999999999999998        3478999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhcC-CCCCHHHHHHHHHHHH----hhccCccceEEEEEEEeC----CCCEEEEEcCCCCccc-c
Q 024919           93 EAVTDMVSSQLQLHRYHTG-RESRVVTALTLLKSHL----FKYQGHVQAALVLGGVDA----TGPHLHTIYPHGSTDT-L  162 (260)
Q Consensus        93 ~~l~~~~r~~~~~~~~~~~-~~i~~~~la~~l~~~~----~~~~~p~~v~~ivaG~D~----~gp~Ly~iDp~G~~~~-~  162 (260)
                      +.+.+.++.+++.|++.++ ++++++.+++++++.+    ++..|||+|++||||||+    +||+||.+||+|++.+ +
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             CeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHH-------hhcCCCCCcEEEEEEeCCC----EEEeccccC
Q 024919          163 PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGI-------FNDLGSGSNVDICVITKGD----KEYLRNHQL  231 (260)
Q Consensus       163 ~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~-------~~d~~~~~~iei~iitk~g----~~~~~~~~~  231 (260)
                      +++|+|+|+..++++||+.|+++||++||++++++||+.+.       +++ .++.+++|++|+++|    .+++++.++
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            99999999999999999999999999999999999999998       554 568999999999998    678877776


Q ss_pred             CCCC
Q 024919          232 PNPR  235 (260)
Q Consensus       232 ~~~~  235 (260)
                      ....
T Consensus       231 ~~~l  234 (248)
T 3mi0_A          231 QALL  234 (248)
T ss_dssp             HHTC
T ss_pred             HHHH
Confidence            6553

>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=7e-43  Score=311.06  Aligned_cols=203  Identities=20%  Similarity=0.226  Sum_probs=190.1

Q ss_pred             CCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCC
Q 024919           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGR  112 (260)
Q Consensus        33 ~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~  112 (260)
                      +.+|+++|+|+|||+++||||||+|+|.++|+++..++.+||++|++|++|+++|..+|++.++++++.+++.|++.+++
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            38999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHhhc----cCccceEEEEEEEeCC-C-----CEEEEEcCCCCcccc--CeEEEcCChHHHHHHHHh
Q 024919          113 ESRVVTALTLLKSHLFKY----QGHVQAALVLGGVDAT-G-----PHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFES  180 (260)
Q Consensus       113 ~i~~~~la~~l~~~~~~~----~~p~~v~~ivaG~D~~-g-----p~Ly~iDp~G~~~~~--~~~aiG~g~~~~~~~Le~  180 (260)
                      +++++.+++++++.++.+    .+||++++||||||++ +     |+||.+||+|++.++  +++++|+|+.+++++||+
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     899999999999998  999999999999999999


Q ss_pred             hcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCc--E-----EEEEEeCCCEEEeccccCCCCC
Q 024919          181 KYREGLTKEEGISLVCEAICSGIFNDLGSGSN--V-----DICVITKGDKEYLRNHQLPNPR  235 (260)
Q Consensus       181 ~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~--i-----ei~iitk~g~~~~~~~~~~~~~  235 (260)
                      .|+++||++||++++++||+.+.++|..+++.  +     +|++|+++|++++++.+++...
T Consensus       218 ~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~vI~~~g~~~l~~~ei~~~l  279 (294)
T 1q5r_H          218 IYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELA  279 (294)
T ss_dssp             HCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHH
T ss_pred             hccCCCCHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEEEECCCEEEcCHHHHHHHH
Confidence            99999999999999999999999999887654  6     9999999999999888877663

>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=1.4e-41  Score=294.11  Aligned_cols=195  Identities=21%  Similarity=0.234  Sum_probs=183.5

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|+++++|++||..+|++.++++++.+++.|++.++++++++.++
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----cCccceEEEEEEEeCC-C-----CEEEEEcCCCCcccc--CeEEEcCChHHHHHHHHhhcCCCCCH
Q 024919          121 TLLKSHLFKY----QGHVQAALVLGGVDAT-G-----PHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKYREGLTK  188 (260)
Q Consensus       121 ~~l~~~~~~~----~~p~~v~~ivaG~D~~-g-----p~Ly~iDp~G~~~~~--~~~aiG~g~~~~~~~Le~~~~~~~s~  188 (260)
                      +++++.++.+    .+||++++|+||||++ |     |+||.+||+|++.++  +++|+|+|+.+++++||+.|+++||+
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            9999998754    4799999999999975 7     899999999999999  99999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCc--E-----EEEEEeCCCEEEeccccCCCCC
Q 024919          189 EEGISLVCEAICSGIFNDLGSGSN--V-----DICVITKGDKEYLRNHQLPNPR  235 (260)
Q Consensus       189 ~eai~l~~~al~~a~~~d~~~~~~--i-----ei~iitk~g~~~~~~~~~~~~~  235 (260)
                      +||++++++||..+.++|..+++.  +     +|++|+++|++++++.+++...
T Consensus       161 eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~vi~~~g~~~l~~~ei~~~~  214 (235)
T 1q5q_H          161 ETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSELA  214 (235)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhCcccCCcccccccccEEEEEeCCCeEEeCHHHHHHHH
Confidence            999999999999999999887753  2     9999999999998888876653

>2z3b_A ATP-dependent protease HSLV; N-terminal nucleophIle hydrolase; 2.50A {Bacillus subtilis} SCOP: d.153.1.4 PDB: 2z3a_A 1yyf_D* 3ty6_A

Probab=100.00  E-value=6.4e-35  Score=242.72  Aligned_cols=169  Identities=16%  Similarity=0.143  Sum_probs=151.3

Q ss_pred             cCCceEEEEEeCCEEEEEEcCCCcCCce-eeecccCeeEEe-cCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCC
Q 024919           38 KTGTTIVGLIFQNGVILGADTRATAGSI-VCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR  115 (260)
Q Consensus        38 ~~G~tvIgI~~~dgVvlaad~r~~~g~~-i~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~  115 (260)
                      .+|+|+|||+++||||||+|+|.+.|.+ +.+++.+||++| ++|++|+++|..+|++.+.+++|.+++.|+   +  ..
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            6799999999999999999999999888 999999999999 999999999999999999999999999987   2  23


Q ss_pred             HHHHHHHHHHHHhh--ccCccceEEEEEEEeCCCCEEEEEcCCCCccc--cCeEEEcCChHHHHHHHHhhcCC---CCCH
Q 024919          116 VVTALTLLKSHLFK--YQGHVQAALVLGGVDATGPHLHTIYPHGSTDT--LPFATMGSGSLAAMAVFESKYRE---GLTK  188 (260)
Q Consensus       116 ~~~la~~l~~~~~~--~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~--~~~~aiG~g~~~~~~~Le~~~~~---~~s~  188 (260)
                      ++.++ .+.+.+++  +.|||++++|+|    ++|+||.+||+|++.+  +++.|+|+|+.+++++||+.|++   +||.
T Consensus        78 ~~~~~-~l~~~~~~~~~~rp~~~~~lva----d~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~~~mt~  152 (180)
T 2z3b_A           78 KRAAV-ELAKEWRSDKVLRKLEAMLIVM----NQDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSA  152 (180)
T ss_dssp             HHHHH-HHHHHHHHCTTGGGCCCCEEEE----CSSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHHHGGGCCH
T ss_pred             HHHHH-HHHHHHHhhhCcCcceEEEEEE----cCCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhccCCCCCH
Confidence            43333 45555544  357999999999    4799999999999988  59999999999999999999998   9999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcEEEEEEe
Q 024919          189 EEGISLVCEAICSGIFNDLGSGSNVDICVIT  219 (260)
Q Consensus       189 ~eai~l~~~al~~a~~~d~~~~~~iei~iit  219 (260)
                      +|   ++++||+.+.+||..++++++|++|+
T Consensus       153 ee---l~~~al~~a~~rd~~sg~~i~v~~i~  180 (180)
T 2z3b_A          153 SE---IARAALETAGEICVYTNDQIILEELE  180 (180)
T ss_dssp             HH---HHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             HH---HHHHHHHHHHHhcCccCCeEEEEEEC
Confidence            99   47799999999999999999999883

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

Probab=100.00  E-value=1.8e-34  Score=237.89  Aligned_cols=165  Identities=22%  Similarity=0.219  Sum_probs=149.6

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEe-cCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++| ++|++|+++|..+|++.+.+++|.+++.|+.+     .++.+
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~-----~~~~~   75 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHHHHHHHHhccc-----HHHHH
Confidence            6899999999999999999999999999999999999 99999999999999999999999999998754     26667


Q ss_pred             HHHHHHHHhhc--cCccceEEEEEEEeCCCCEEEEEcCCCCccccC--eEEEcCChHHHHHHHHhhcC-CCCCHHHHHHH
Q 024919          120 LTLLKSHLFKY--QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLP--FATMGSGSLAAMAVFESKYR-EGLTKEEGISL  194 (260)
Q Consensus       120 a~~l~~~~~~~--~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~--~~aiG~g~~~~~~~Le~~~~-~~~s~~eai~l  194 (260)
                      +++.+ .++++  .+||++++|++  |  ||+||.+||+|++.+++  +.++|+|+.+++++||+.|+ ++||.   +++
T Consensus        76 ~~l~~-~~~~~~~~~~~~~~~lv~--D--~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms~---~~l  147 (171)
T 1m4y_A           76 VELAK-DWRTDRVLRRLEALLLVA--D--KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSA---REI  147 (171)
T ss_dssp             HHHHH-HHHHCTTGGGCCCEEEEE--C--SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCCH---HHH
T ss_pred             HHHHH-HHHHhCCCCceEEEEEEE--c--CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCCH---HHH
Confidence            77655 45443  35799998888  5  89999999999999987  99999999999999999999 99997   678


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEE
Q 024919          195 VCEAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       195 ~~~al~~a~~~d~~~~~~iei~ii  218 (260)
                      +++||+.+.+||..++++++|+++
T Consensus       148 ~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          148 VEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHHHHHHHhCcccCCeEEEEEC
Confidence            999999999999999999999864

>1g3k_A ATP-dependent protease HSLV; hydrolase; 1.90A {Haemophilus influenzae} SCOP: d.153.1.4 PDB: 1g3i_G 1jjw_A 1kyi_G* 1ofh_G* 1ofi_G* 1e94_A* 1g4a_B* 1g4b_M 1hqy_A* 1ht1_C* 1ht2_A* 1ned_A

Probab=100.00  E-value=2.6e-34  Score=237.70  Aligned_cols=167  Identities=18%  Similarity=0.185  Sum_probs=150.0

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEe-cCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYM-APNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I-~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++| ++|++|+++|..+|++.+.+++|.+++.|+.      ++...
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 9999999999999999999999999999886      44556


Q ss_pred             HHHHHHHHhhc--cCccceEEEEEEEeCCCCEEEEEcCCCCccccC---eEEEcCChHHHHHHHHhhcC-CCCCHHHHHH
Q 024919          120 LTLLKSHLFKY--QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLP---FATMGSGSLAAMAVFESKYR-EGLTKEEGIS  193 (260)
Q Consensus       120 a~~l~~~~~~~--~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~---~~aiG~g~~~~~~~Le~~~~-~~~s~~eai~  193 (260)
                      +..+++.++++  .||++  ++++|+|  +|+||.+||+|++.+++   +.|+|+|+.+++++||+.|+ ++||.+   +
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            66677777654  34654  5777887  79999999999999988   99999999999999999999 999955   7


Q ss_pred             HHHHHHHHHHhhcCCCCCcEEEEEEeC
Q 024919          194 LVCEAICSGIFNDLGSGSNVDICVITK  220 (260)
Q Consensus       194 l~~~al~~a~~~d~~~~~~iei~iitk  220 (260)
                      ++++||+.+.++|..++++++|++|+.
T Consensus       148 l~~~al~~a~~rd~~sg~~i~v~~i~~  174 (174)
T 1g3k_A          148 IVEKSLRIAGDICVFTNTNFTIEELPN  174 (174)
T ss_dssp             HHHHHHHHHHHHCTTCCSCCEEEEEC-
T ss_pred             HHHHHHHHHHHhccccCCceEEEEecC
Confidence            999999999999999999999999863

---

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	260
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	7e-60
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-56
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-52
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-48
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-47
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	6e-47
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	2e-44
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	1e-43
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	5e-43
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-42
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	3e-42
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	4e-42
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-41
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	4e-41
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	1e-40
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	4e-40
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	5e-40
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	8e-40
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	2e-39
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	7e-39
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	1e-38
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	3e-38
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-38
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	1e-37
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-37
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-37
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-36
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-35
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-35
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	3e-35
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	8e-35
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	7e-34
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	1e-33
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	4e-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	1e-29
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	1e-27

>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 =  186 bits (474), Expect = 7e-60
 Identities = 124/210 (59%), Positives = 157/210 (74%), Gaps = 2/210 (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-DKEYLRNHQLPNPRTYISSKGYSFPKKT 249
           G D EYLRN+  PN R     K Y FP+ T
Sbjct: 181 GKDAEYLRNYLTPNVREE-KQKSYKFPRGT 209

>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 =  178 bits (451), Expect = 2e-56
 Identities = 126/209 (60%), Positives = 163/209 (77%), Gaps = 1/209 (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 GDKEYLRNHQLPNPRTYISSKGYSFPKKT 249
              ++LR + +PN +     + Y   K T
Sbjct: 181 NKLDFLRPYTVPNKKGTRLGR-YRCEKGT 208

>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 =  166 bits (422), Expect = 3e-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 = 2e-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 (391), Expect = 2e-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 =  152 bits (386), Expect = 6e-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 (372), Expect = 2e-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 =  144 bits (365), Expect = 1e-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 =  144 bits (363), Expect = 5e-43
 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 =  143 bits (362), Expect = 1e-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

>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 =  142 bits (359), Expect = 3e-42
 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

>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 (354), Expect = 4e-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

>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 (355), Expect = 1e-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 =  139 bits (351), Expect = 4e-41
 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 = 1e-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 (341), Expect = 4e-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 =  136 bits (342), Expect = 5e-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 =  136 bits (343), Expect = 8e-40
 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 =  135 bits (340), Expect = 2e-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

>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 =  133 bits (336), Expect = 7e-39
 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 =  132 bits (334), Expect = 1e-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 (328), Expect = 3e-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

>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 (330), 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

>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 =  129 bits (325), Expect = 1e-37
 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 (325), 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 (325), Expect = 2e-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 =  127 bits (320), Expect = 1e-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 (311), Expect = 1e-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 =  124 bits (312), Expect = 2e-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 =  124 bits (312), Expect = 3e-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 = 8e-35
 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

>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 =  120 bits (302), Expect = 7e-34
 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

>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 = 1e-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

>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 = 4e-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 (273), 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 =  107 bits (269), Expect = 1e-29
 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 =  102 bits (255), Expect = 1e-27
 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	260
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	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
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	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
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	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
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryp2_	233	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
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.95
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.93
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.93

>d1iruc_ d.153.1.4 (C:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=3.4e-53  Score=368.12  Aligned_cols=214  Identities=19%  Similarity=0.213  Sum_probs=202.7

Q ss_pred             ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHH
Q 024919           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (260)
Q Consensus        16 fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l   95 (260)
                      |||||||+|||||     ++|+++|+|+|||+++||||||+|++.+++.++.+++.+|||+|++|++|++||..+|++.+
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     99999999999999999999999999999998888899999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCC-CCEEEEEcCCCCccccCeEEEcC
Q 024919           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        96 ~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      ++.+|.++..|++.++++++++.+++.+++.++.+     .|||++++|++|||++ ||+||.+||+|++.+++++|+|+
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     3699999999999974 69999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCC-CCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC----EEEeccccCCCC
Q 024919          170 GSLAAMAVFESKYRE-GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD----KEYLRNHQLPNP  234 (260)
Q Consensus       170 g~~~~~~~Le~~~~~-~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g----~~~~~~~~~~~~  234 (260)
                      |+..++++|++.|++ +||++||++++++||+.+.++|..++++++|++|++++    .+++++.+++..
T Consensus       166 gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~~~~~~~~l~~~Ei~~~  235 (250)
T d1iruc_         166 NSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQL  235 (250)
T ss_dssp             TTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHH
T ss_pred             ChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCCCceeEEECCHHHHHHH
Confidence            999999999999985 89999999999999999999999999999999999987    567777777654

>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=6.8e-53  Score=359.82  Aligned_cols=212  Identities=21%  Similarity=0.335  Sum_probs=199.3

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      .|||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.+ +.++..++.+||++|++|++|+++|..+|++.
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            59999999999999     9999999999999999999999999987 57778889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +.+++|.+++.|++.++++++++.+++.++..++.+     .|||++++|+||||++||+||.+||+|++.+++++|+|+
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            999999999999999999999999999999888654     379999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeC-CCEEEeccccCCC
Q 024919          170 GSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLPN  233 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk-~g~~~~~~~~~~~  233 (260)
                      |+..++++|++.|+++||++||++++++||+.+.+++. +.+.++|++|++ ++.+++++.+++.
T Consensus       156 g~~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~-~~~~~ei~~i~~~~~~r~l~~~ei~~  219 (221)
T d1yara1         156 GKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGE-ELKAPEIASITVGNKYRIYDQEEVKK  219 (221)
T ss_dssp             THHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSC-CCCCCEEEEEETTSCCEECCHHHHHT
T ss_pred             chHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHhccC-CCCCcEEEEEEcCCCEEECCHHHHHH
Confidence            99999999999999999999999999999999998775 567899999997 5678898887754

>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=1.2e-52  Score=363.32  Aligned_cols=204  Identities=18%  Similarity=0.231  Sum_probs=196.2

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||||||+|||||     ++|+++|+|+|||+++||||||+|+|.++|.++.+++.+||++|+++++|+++|..+|++.
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     9999999999999999999999999999999998999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEc
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG  168 (260)
                      ++++++.+++.|++.++++++++.+++.+++.++.+     .|||++++|+||+|+ +||+||.+||.|++.+++++|+|
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            999999999999999999999999999999988643     479999999999997 56999999999999999999999


Q ss_pred             CChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCE
Q 024919          169 SGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDK  223 (260)
Q Consensus       169 ~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~  223 (260)
                      +|+.+++++|++.|+++||++||++++++||+.+.++|..++++++|++|++++.
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            9999999999999999999999999999999999999999999999999999884

>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=1.5e-52  Score=360.62  Aligned_cols=212  Identities=21%  Similarity=0.311  Sum_probs=198.3

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||||||+|||||     ++|+++|+|+|||+++||||||+|++.+.+ ++..++.+||++|++|++|++||..+|++.
T Consensus         7 ~fsp~G~l~QvEYa-----~kav~~G~t~vgik~~dgVvlaad~~~~~~-~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (234)
T d1irue_           7 TFSPEGRLFQVEYD-----IEAIKLGSTAIGIQTSEGVCLAVEKRITSP-LMEPSSIEKIVEIDAHIGCAMSGLIADAKT   80 (234)
T ss_dssp             CBCTTSCBHHHHHH-----HHHHTTSCCEEEEEETTEEEEEEECCCCCT-TBCTTSCCSEEEEETTEEEEEEECHHHHHH
T ss_pred             eECCCCcchHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEecCccCC-CcccCcccCEEEccCcEEEEEeeccchHHH
Confidence            69999999999999     999999999999999999999999999876 555788899999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc----------cCccceEEEEEEEeCCCCEEEEEcCCCCccccCe
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY----------QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPF  164 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~----------~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~  164 (260)
                      +++.+|.++..|++.++++++++.++++++++++.+          .|||++++|+||||++||+||.+||.|++.++++
T Consensus        81 l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~~~~~~rP~~~~~il~G~D~~gp~Ly~idp~G~~~~~~~  160 (234)
T d1irue_          81 LIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDA  160 (234)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHhhcccccccccccceEEEEEEEEcCCCCEEEEEecCcccceeee
Confidence            999999999999999999999999999999988653          4799999999999999999999999999999999


Q ss_pred             EEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CEEEeccccCCC
Q 024919          165 ATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPN  233 (260)
Q Consensus       165 ~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~-g~~~~~~~~~~~  233 (260)
                      +|+|+|+..++++||+.|+++|+++||++++++||+.+.+++ .++.++||++|+++ +.+++++.++++
T Consensus       161 ~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~-~~~~~iei~ii~~~~~~k~l~~~ei~~  229 (234)
T d1irue_         161 RAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEK-LNATNIELATVQPGQNFHMFTKEELEE  229 (234)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSC-CCTTSEEEEEECSSSCCEECCHHHHHH
T ss_pred             EEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhcc-CCCCCEEEEEEECCCCEEECCHHHHHH
Confidence            999999999999999999999999999999999999988777 45788999999985 688888877643

>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=3.8e-52  Score=357.48  Aligned_cols=217  Identities=15%  Similarity=0.200  Sum_probs=203.7

Q ss_pred             CCCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEe
Q 024919           11 KGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCG   85 (260)
Q Consensus        11 ~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~   85 (260)
                      +.|||     |||||||+|||||     ++|+++|+|+|||+++||||||+|+|.+++.+ ..++.+|||+|+++++|++
T Consensus         2 ~~gyd~~~t~fsp~Gr~~Qveya-----~kav~~G~tvigik~~dgVvlaaD~r~~~~~~-~~~~~~ki~~i~~~i~~~~   75 (233)
T d1irub_           2 ERGYSFSLTTFSPSGKLVQIEYA-----LAAVAGGAPSVGIKAANGVVLATEKKQKSILY-DERSVHKVEPITKHIGLVY   75 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSCEEEEEECCCCCSSB-CSTTCCSSEESSSSEEEEE
T ss_pred             CCCcCCCCCeECCCCcChHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEeCCcccCCc-cccccceEEEecCceEEEE
Confidence            35675     9999999999999     99999999999999999999999999998764 5788999999999999999


Q ss_pred             cCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCcc
Q 024919           86 AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTD  160 (260)
Q Consensus        86 sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~  160 (260)
                      +|..+|++.++++++.+++.|+..++++++++.+++.+++.++++     .+|++++++++|+|++||+||.+||.|++.
T Consensus        76 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~p~~~~~li~g~d~~~~~ly~id~~G~~~  155 (233)
T d1irub_          76 SGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYF  155 (233)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTBCCCSEEEEEEEECSSSEEEEEECTTSCEE
T ss_pred             eccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhccccccceEEEeeeecccCCceEEEEcCCcceE
Confidence            999999999999999999999999999999999999999888643     379999999999999999999999999999


Q ss_pred             ccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC
Q 024919          161 TLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       161 ~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~  234 (260)
                      +++++|+|+|+.+++++|++.|+++||++||++++++||+.+.++|.. +++++|++++++|+++++|.+|++.
T Consensus       156 ~~~~~a~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~~~d~~-~~~vev~ii~~~g~~~l~~~eI~~~  228 (233)
T d1irub_         156 AWKATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMT-EDNIEVGICNEAGFRRLTPTEVKDY  228 (233)
T ss_dssp             EBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCCC-SSSEEEEEEETTEEEECCHHHHHHH
T ss_pred             eccceecCCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHhccCC-CCcEEEEEEeCCCeEECCHHHHHHH
Confidence            999999999999999999999999999999999999999999998874 6789999999999999999987643

>d1irug_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.9e-52  Score=362.41  Aligned_cols=215  Identities=14%  Similarity=0.157  Sum_probs=197.9

Q ss_pred             CCCCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEE
Q 024919           10 PKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCC   84 (260)
Q Consensus        10 ~~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~   84 (260)
                      +++|||     |||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.+.+ ++..++.+||++|++|++|+
T Consensus         3 ~~~~yd~~~t~Fsp~Grl~QvEYa-----~~av~~G~t~VGik~~dgVvlaad~~~~~~-~~~~~~~~Ki~~I~~~i~~~   76 (245)
T d1irug_           3 IGTGYDLSASTFSPDGRVFQVEYA-----MKAVENSSTAIGIRCKDGVVFGVEKLVLSK-LYEEGSNKRLFNVDRHVGMA   76 (245)
T ss_dssp             CCSSTTSCTTCCCTTSCCHHHHHH-----HHHHHTSCCEEEEECSSBEEEEEEEECSCT-TBCTTTTCCEEEEETTEEEE
T ss_pred             CccccCCCCceECCCCeehHHHHH-----HHHHHcCCcEEEEEeCCEEEEEEecccccc-ccccCccceEEEcCCCEEEE
Confidence            578997     8999999999999     999999999999999999999999998875 45678889999999999999


Q ss_pred             ecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCC
Q 024919           85 GAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGS  158 (260)
Q Consensus        85 ~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~  158 (260)
                      +||..+|++.+++++|.+++.|++.++++++++.+++++++.++.+     .|||++++|+||||+ +||+||.+||+|+
T Consensus        77 ~sG~~~D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~rP~~vs~li~G~D~~~gp~Ly~iDp~G~  156 (245)
T d1irug_          77 VAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGV  156 (245)
T ss_dssp             EEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSBCCCSEEEEEEEEETTTEEEEEEECTTCC
T ss_pred             eccCchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccccccceEEEEEEEcCCCCceEEEEcCCce
Confidence            9999999999999999999999999999999999999999888654     379999999999996 5699999999999


Q ss_pred             ccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC--CEEEecccc
Q 024919          159 TDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG--DKEYLRNHQ  230 (260)
Q Consensus       159 ~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~--g~~~~~~~~  230 (260)
                      +.+++++|+|+|+..++++||+.|+++||.+||++++++||+.+.+++...+.+++|.+|+++  +.+.+.|.+
T Consensus       157 ~~~~~~~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~~~~~~~~~~~e  230 (245)
T d1irug_         157 SYGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKD  230 (245)
T ss_dssp             EEEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHH
T ss_pred             EEeeeEEEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEecCCCeEEEChHH
Confidence            999999999999999999999999999999999999999999998888787888999999885  554444433

>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=7.6e-52  Score=356.12  Aligned_cols=211  Identities=21%  Similarity=0.182  Sum_probs=197.2

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||||||+|||||     ++|+++|+|+|||+++||||||+|++.+++.   .++.+||++|+++++|++||..+|++.
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            59999999999999     9999999999999999999999999998753   467799999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +++++|.+++.|++.++++++++.+|+.+++.++.+     .|||++++|+||+|++||+||.+||+|++.+++++|+|+
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            999999999999999999999999999999988643     479999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHhhc----CCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC-EEEeccccCCC
Q 024919          170 GSLAAMAVFESKY----REGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD-KEYLRNHQLPN  233 (260)
Q Consensus       170 g~~~~~~~Le~~~----~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g-~~~~~~~~~~~  233 (260)
                      |+..++++|++.|    +++|+++||++++++||+.+.++|..++..+||++|++++ .+++++.+++.
T Consensus       163 gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~~l~~~ei~~  231 (233)
T d1rypf_         163 RSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAK  231 (233)
T ss_dssp             THHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGGG
T ss_pred             chHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeEECCHHHHHh
Confidence            9999999998765    6799999999999999999999999999999999999985 58888877754

>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=4.9e-52  Score=359.34  Aligned_cols=212  Identities=12%  Similarity=0.118  Sum_probs=197.8

Q ss_pred             ccCchhhHHHhhcCCCCCCccccC-CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           16 FDLCRRNDMLSKKGIVPPPSYRKT-GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        16 fsp~Gr~~Qveya~~~~~~~a~~~-G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      |||+|||+|||||     ++|+++ |+|+|||+++||||||+|+|.++ .++..++.+||++|++|++|++||..+|++.
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     999997 55899999999999999999886 6788889999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEc
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMG  168 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG  168 (260)
                      +++++|.+++.|++.++++++++.+++.+++.++.+     .|||++++|++|||+ .||+||.+||+|++.+++++|+|
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            999999999999999999999999999999887543     579999999999996 46999999999999999999999


Q ss_pred             CChHHHHHHHHhhcCC-------CCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC
Q 024919          169 SGSLAAMAVFESKYRE-------GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       169 ~g~~~~~~~Le~~~~~-------~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~  234 (260)
                      +|+..++++||+.|++       ++|.+||+++++++|+.+.++|. ++++++|++++++|+++++++++++.
T Consensus       164 ~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~-~~~~iei~iitk~g~~~l~~eeI~~~  235 (243)
T d1rypa_         164 PKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEF-SKNDLEVGVATKDKFFTLSAENIEER  235 (243)
T ss_dssp             TTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCC-CTTSEEEEEEETTEEEECCHHHHHHH
T ss_pred             ccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccC-CCCcEEEEEEeCCceEEeCHHHHHHH
Confidence            9999999999999974       56999999999999999999996 57899999999999999999887654

>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-51  Score=356.17  Aligned_cols=204  Identities=20%  Similarity=0.231  Sum_probs=192.1

Q ss_pred             CCCcc-----ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEe
Q 024919           11 KGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCG   85 (260)
Q Consensus        11 ~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~   85 (260)
                      ++|||     |||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.++|.++ .++.+||++|+++++|+.
T Consensus         1 ~~gyd~~~t~fsp~Grl~QvEya-----~kav~~G~t~igik~~dgVvlaad~~~~~~~~~-~~~~~KI~~I~~~i~~~~   74 (244)
T d1rypg_           1 GTGYDLSNSVFSPDGRNFQVEYA-----VKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV-PQKNVKIQVVDRHIGCVY   74 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEEEECCCTTBC-TTTSCCCEEETTTEEEEE
T ss_pred             CCCcCCCCceECCCCeehHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEecccCCCCcc-ccccceEEEccCceEEEE
Confidence            46776     8999999999999     999999999999999999999999999987555 566789999999999999


Q ss_pred             cCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCcc
Q 024919           86 AGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTD  160 (260)
Q Consensus        86 sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~  160 (260)
                      +|..+|++.++++++.+++.|++.++++++++.+++.+++.++.+     .|||++++|+||||++||+||.+||+|++.
T Consensus        75 sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~RP~~~~~iiaG~D~~gp~Ly~idp~Gs~~  154 (244)
T d1rypg_          75 SGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYW  154 (244)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTBCCCCEEEEEEEEETTEEEEEEECTTSCEE
T ss_pred             ccchhhHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhcccccCCceEEEEEEEEeCCCCEEEEEcCCccEE
Confidence            999999999999999999999999999999999999999998754     379999999999999999999999999999


Q ss_pred             ccCeEEEcCChHHHHHHHHh---hcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeC
Q 024919          161 TLPFATMGSGSLAAMAVFES---KYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK  220 (260)
Q Consensus       161 ~~~~~aiG~g~~~~~~~Le~---~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk  220 (260)
                      +++++|+|+|+..++++||+   .|+++||++||++++++||+.+.+++..++.+++|.+++.
T Consensus       155 ~~~~~a~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~  217 (244)
T d1rypg_         155 GYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSL  217 (244)
T ss_dssp             EBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEET
T ss_pred             ecCeEecCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEE
Confidence            99999999999999999995   6999999999999999999999988888888999999975

>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=1.3e-51  Score=356.46  Aligned_cols=214  Identities=22%  Similarity=0.274  Sum_probs=199.5

Q ss_pred             ccccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHH
Q 024919           14 FSFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTE   93 (260)
Q Consensus        14 ~~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~   93 (260)
                      ..|||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.+.+ ++..++.+|||+|+++++|++||..+|++
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            369999999999999     999999999999999999999999999986 67788899999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----------cCccceEEEEEEEeCCC-CEEEEEcCCCCccc
Q 024919           94 AVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----------QGHVQAALVLGGVDATG-PHLHTIYPHGSTDT  161 (260)
Q Consensus        94 ~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----------~~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~  161 (260)
                      .++++++.+++.|++.++++++++.+++.+++.++.+           .|||++++|++|+|+++ |+||.+||+|++.+
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            9999999999999999999999999999999887643           37999999999999755 99999999999999


Q ss_pred             cCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeC-CCEEEeccccCCCC
Q 024919          162 LPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLPNP  234 (260)
Q Consensus       162 ~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk-~g~~~~~~~~~~~~  234 (260)
                      ++++|+|+|+.+++++|++.|+++||++||++++++||+.+.+++.. .++++|.++++ +|++++++.++++.
T Consensus       159 ~~~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~-~~~~~v~~i~~~~g~~~l~~~~i~~~  231 (242)
T d1rype_         159 YNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLD-ENNAQLSCITKQDGFKIYDNEKTAEL  231 (242)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCC-TTSEEEEEEETTTEEEECCHHHHHHH
T ss_pred             cceeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCC-CCceEEEEEECCCCeEECCHHHHHHH
Confidence            99999999999999999999999999999999999999999988864 56799999986 68999998887653

>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=3.5e-51  Score=354.03  Aligned_cols=211  Identities=22%  Similarity=0.270  Sum_probs=197.0

Q ss_pred             ccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHH
Q 024919           16 FDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAV   95 (260)
Q Consensus        16 fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l   95 (260)
                      |||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.+++.+ ..++.+|||+|+++++|++||..+|++.+
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     99999999999999999999999999998765 46788999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCC
Q 024919           96 TDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSG  170 (260)
Q Consensus        96 ~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g  170 (260)
                      +++++.++..|++.++++++++.+++.++..++.+     .|||++++|+||+|+ +|+||.+||+|++.+++++|+|+|
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             hHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC--CEEEeccccCCCC
Q 024919          171 SLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG--DKEYLRNHQLPNP  234 (260)
Q Consensus       171 ~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~--g~~~~~~~~~~~~  234 (260)
                      +..++++|++.|+++||++||++++++||+.+.++|.. .+++||++++++  +.+.+++.+++..
T Consensus       165 ~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~~~~d~~-~~~iei~iv~~~~~~~~~l~~~ei~~~  229 (243)
T d1j2pa_         165 RMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELV-PENIEVGYVKVDDRTFKEVSPEELKPY  229 (243)
T ss_dssp             HHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCC-GGGEEEEEEETTTCCCEECCHHHHHHH
T ss_pred             cHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhcccC-CCceEEEEEEeCCCcEEECCHHHHHHH
Confidence            99999999999999999999999999999999999864 578999999876  6788888877543

>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=2.3e-51  Score=356.52  Aligned_cols=215  Identities=17%  Similarity=0.300  Sum_probs=198.0

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.+++ ++..++.+||++|++|++|++||..+|++.
T Consensus        11 ~fsp~G~l~QvEyA-----~kav~~G~tvvgi~~~dgVvlaad~r~~~~-~~~~~~~~ki~~I~~~i~~~~sG~~~D~~~   84 (250)
T d1rypb_          11 TFSPSGKLGQIDYA-----LTAVKQGVTSLGIKATNGVVIATEKKSSSP-LAMSETLSKVSLLTPDIGAVYSGMGPDYRV   84 (250)
T ss_dssp             CBCTTSCBHHHHHH-----HHHHHTSCCEEEEEETTEEEEEEECCCSCS-SBCGGGCCSSEEEETTEEEEEEECHHHHHH
T ss_pred             eECCCCeehHHHHH-----HHHHHcCCCEEEEEeCCEEEEEEecccCCc-cccccccceeEeccCCEEEEeeecccHHHH
Confidence            39999999999999     999999999999999999999999998875 556788999999999999999999999999


Q ss_pred             HHHHHHHHHH-HhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEE
Q 024919           95 VTDMVSSQLQ-LHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATM  167 (260)
Q Consensus        95 l~~~~r~~~~-~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~ai  167 (260)
                      ++++++.+++ .|+..+++.++++.+++.+++.++.+     .|||++++|+||+|+ +||+||.+||.|++.+++++|+
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 58999999999999999999888643     379999999999997 5799999999999999999999


Q ss_pred             cCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCc
Q 024919          168 GSGSLAAMAVFESKYREGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRT  236 (260)
Q Consensus       168 G~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~  236 (260)
                      |+|+.+++++||+.|+++||++||++++++||+.+.++|. ++.+++|++|++++...+.+..++..+.
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 6889999999999987777766666543

>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=3.4e-51  Score=354.34  Aligned_cols=217  Identities=16%  Similarity=0.208  Sum_probs=198.2

Q ss_pred             CCCCcc-----ccCchhhHHHhhcCCCCCCccccCCc-eEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEE
Q 024919           10 PKGGFS-----FDLCRRNDMLSKKGIVPPPSYRKTGT-TIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYC   83 (260)
Q Consensus        10 ~~~g~~-----fsp~Gr~~Qveya~~~~~~~a~~~G~-tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~   83 (260)
                      .+.|||     |||+|||+|||||     ++|+++|+ |+|||+++||||||+|+|.++ .++..++.+|||+|++|++|
T Consensus         4 ~~~gyd~~~t~Fsp~Grl~QvEYA-----~kav~~gg~t~igIk~~dgVVlaad~r~~~-~~~~~~~~~KI~~I~~~i~~   77 (244)
T d1irua_           4 SSAGFDRHITIFSPEGRLYQVEYA-----FKAINQGGLTSVAVRGKDCAVIVTQKKVPD-KLLDSSTVTHLFKITENIGC   77 (244)
T ss_dssp             CCCTTTTTSSCCCTTSCCHHHHHH-----HHHHHTTCCEEEEEECSSEEEEEEECCCCC-SSBCGGGCCSEEESSSSCEE
T ss_pred             CCCCcCCCCceECCCCeEhHHHHH-----HHHHHhCCccEEEEEcCCEEEEEEeccccc-ccccCCccceEEEecCCcEE
Confidence            467886     8999999999999     99999875 899999999999999999885 56667889999999999999


Q ss_pred             EecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC-CCCEEEEEcCCC
Q 024919           84 CGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA-TGPHLHTIYPHG  157 (260)
Q Consensus        84 ~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~-~gp~Ly~iDp~G  157 (260)
                      ++||..+|++.+++++|.+++.|++.++++++++.+++.++.+++.+     .|||++++|+||||+ +||+||.+||+|
T Consensus        78 ~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v~~ll~G~D~~~g~~Ly~~Dp~G  157 (244)
T d1irua_          78 VMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAG  157 (244)
T ss_dssp             EEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSBCCCSEEEEEEEEETTTEEEEEEECTTS
T ss_pred             EEecchHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhcccccCccceeeEEEEEcCCCCcEEEEEcCCc
Confidence            99999999999999999999999999999999999999999887643     489999999999997 569999999999


Q ss_pred             CccccCeEEEcCChHHHHHHHHhhcC--CCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCC--EEEeccccCCC
Q 024919          158 STDTLPFATMGSGSLAAMAVFESKYR--EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGD--KEYLRNHQLPN  233 (260)
Q Consensus       158 ~~~~~~~~aiG~g~~~~~~~Le~~~~--~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g--~~~~~~~~~~~  233 (260)
                      ++.+++++|+|+|+..++++||+.|+  ++|+++||++++++||+.+.++|.. .++++|++|++++  .+++++.+++.
T Consensus       158 ~~~~~~~~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~~-~~~iev~ii~~~~~~~~~l~~~ei~~  236 (244)
T d1irua_         158 YYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFK-PSEIEVGVVTVENPKFRILTEAEIDA  236 (244)
T ss_dssp             CEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCC-TTSEEEEEEETTEEEEEECCHHHHHH
T ss_pred             cEEecceEeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCCC-CCcEEEEEEEeCCCcEEECCHHHHHH
Confidence            99999999999999999999999995  5899999999999999999999964 5789999999986  46777777643

>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=3e-51  Score=353.43  Aligned_cols=212  Identities=19%  Similarity=0.171  Sum_probs=195.7

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      .|||||||+|||||     ++|+++|+|+|||+++||||||+|++.+++..   .+.+||++|+++++|++||..+|++.
T Consensus         9 iFsp~Grl~QvEYA-----~kav~~G~t~vgik~~dgVvlaad~~~~~~~~---~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (238)
T d1iruf_           9 VWSPQGRIHQIEYA-----MEAVKQGSATVGLKSKTHAVLVALKRAQSELA---AHQKKILHVDNHIGISIAGLTADARL   80 (238)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHHHSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHHHHH
T ss_pred             eECCCCcchHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEecccccCCC---CccceEEEeCCceEEEEeccchHHHH
Confidence            59999999999999     99999999999999999999999999998643   35689999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcC
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGS  169 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~  169 (260)
                      +++.++.++..|++.++++++++.+++.+++..+.+     .|||++++|+||||++||+||.+||+|++.+++++|+|+
T Consensus        81 l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~rP~~v~~il~G~D~~gp~Ly~~D~~G~~~~~~~~a~G~  160 (238)
T d1iruf_          81 LCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGA  160 (238)
T ss_dssp             HHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTCCCCCEEEEEEEEETTEEEEEEECSSSCEEEESEEEEST
T ss_pred             HHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCCCcccceEEEEEEcCCCceEEEEcCCCCEEeeeeEEECC
Confidence            999999999999999999999999999998776533     479999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHhhcCCC--CCHHHHHHHHHHHHHHHHhhcC-CCCCcEEEEEEeCC-CEEEeccccCCCC
Q 024919          170 GSLAAMAVFESKYREG--LTKEEGISLVCEAICSGIFNDL-GSGSNVDICVITKG-DKEYLRNHQLPNP  234 (260)
Q Consensus       170 g~~~~~~~Le~~~~~~--~s~~eai~l~~~al~~a~~~d~-~~~~~iei~iitk~-g~~~~~~~~~~~~  234 (260)
                      |+..++++|++.|+++  ++++||++++++||+.+..++. .++..++|.+|+++ +++++++.+++..
T Consensus       161 g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~~~l~~~ei~~~  229 (238)
T d1iruf_         161 RSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPF  229 (238)
T ss_dssp             THHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHH
T ss_pred             CchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCEEECCHHHHHHH
Confidence            9999999999999985  4999999999999998886654 47889999999998 5789998888764

>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=1.9e-50  Score=349.02  Aligned_cols=211  Identities=19%  Similarity=0.220  Sum_probs=195.7

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      +|||||||+|||||     ++|+++|+|+|||+++||||||+|++.+++.++..++.+||++|++|++|++||..+|++.
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     9999999999999999999999999999988887788999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeC--CCCEEEEEcCCCCccccCeEEE
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLPFATM  167 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~~~~ai  167 (260)
                      +++.+|.+++.|++.++++++++.+++++++.++.+     .|||++++|+||||+  +||+||.+||+|++.+++++|+
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            999999999999999999999999999999988754     479999999999995  4799999999999999999999


Q ss_pred             cCChHHHHHHHHhhcCC---CCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CEEEeccccCCC
Q 024919          168 GSGSLAAMAVFESKYRE---GLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPN  233 (260)
Q Consensus       168 G~g~~~~~~~Le~~~~~---~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~-g~~~~~~~~~~~  233 (260)
                      |+|+..+.++|++.|++   +|+++||++++++||+.+.+++   +.+++|++++++ +.+.+++.+++.
T Consensus       163 G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~~~---~~~iei~ii~~d~~~~~l~~~ei~~  229 (241)
T d1rypd_         163 GRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTG---AKNIEITVVKPDSDIVALSSEEINQ  229 (241)
T ss_dssp             STTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHCSC---STTEEEEEEETTTEEEECCHHHHHH
T ss_pred             CcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhcCC---CCcEEEEEEECCCCEEECCHHHHHH
Confidence            99999999999999964   6999999999999999987644   578999999997 567777776643

>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=4.2e-50  Score=347.16  Aligned_cols=211  Identities=20%  Similarity=0.276  Sum_probs=193.8

Q ss_pred             cccCchhhHHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHH
Q 024919           15 SFDLCRRNDMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEA   94 (260)
Q Consensus        15 ~fsp~Gr~~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~   94 (260)
                      .|||+|||+|||||     ++|+++|+|+|||+++||||||+|+|.+ +.++.+++.+|||+|+++++|++||..+|++.
T Consensus         8 ~Fsp~Grl~QvEya-----~kav~~G~Tvvgik~~dgVvla~d~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   81 (243)
T d1irud_           8 VFSPDGHLFQVEYA-----QEAVKKGSTAVGVRGRDIVVLGVEKKSV-AKLQDERTVRKICALDDNVCMAFAGLTADARI   81 (243)
T ss_dssp             CCCTTSCCHHHHHH-----HHHHHTSCCEEEECCSSEEEEEECCCCC-CSSSCGGGGCSEEESSSSCEEEEEECHHHHHH
T ss_pred             eECCCCcchHHHHH-----HHHHhcCCCEEEEEeCCEEEEEEecccc-CcccCCCccccEEECCCCEEEEEEEchhhHHH
Confidence            59999999999999     9999999999999999999999999966 68888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHhhc-----cCccceEEEEEEEeCC-CCEEEEEcCCCCccccCeEEEc
Q 024919           95 VTDMVSSQLQLHRYHTGRESRVVTALTLLKSHLFKY-----QGHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATMG  168 (260)
Q Consensus        95 l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~-----~~p~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~aiG  168 (260)
                      +++++|.+++.|++.++++++++.+++++++.++.+     .|||++++|++|||++ +|+||.+||+|++.+++++|+|
T Consensus        82 l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~rp~~v~~li~G~D~~~~p~Ly~idp~G~~~~~~~~a~G  161 (243)
T d1irud_          82 VINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIG  161 (243)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTBCCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSEEEES
T ss_pred             HHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccCCccceEEEEEEEcCCCCCEEEEecCcEEEEeccEEEEC
Confidence            999999999999999999999999999999988643     4799999999999964 6999999999999999999999


Q ss_pred             CChHHHHHHHHhhcCCCC--CHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CEEEeccccCCCC
Q 024919          169 SGSLAAMAVFESKYREGL--TKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPNP  234 (260)
Q Consensus       169 ~g~~~~~~~Le~~~~~~~--s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~-g~~~~~~~~~~~~  234 (260)
                      +|+..++++|++.|+++|  +.++++++++++|..+.   ..++.+++|++++++ +++++++.+++..
T Consensus       162 ~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~~---~~~~~~vei~ii~k~~~~~~l~~~eI~~~  227 (243)
T d1irud_         162 RGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVV---QSGGKNIELAVMRRDQSLKILNPEEIEKY  227 (243)
T ss_dssp             TTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTS---CTTSTTCCEEEEESSSCEECCCHHHHHHH
T ss_pred             CChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHHh---cCCCCcEEEEEEECCCCEEECCHHHHHHH
Confidence            999999999999999988  67778888888877654   345678999999986 7898888887543

>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=1.4e-48  Score=332.70  Aligned_cols=218  Identities=59%  Similarity=0.986  Sum_probs=210.8

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+|+||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.+++.++++.++
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             HHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~  200 (260)
                      ++++++++++++|+++++|+||+|++||+||.+||.|++.+++++|+|+|+.+++++|++.|+++||++||++++++||+
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             HHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCccccCCccccCCCccceeeeeecc
Q 024919          201 SGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLFP  259 (260)
Q Consensus       201 ~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  259 (260)
                      .+.++|+.++++++|++||++|+++++|+++++.|.+ +...+.+|||++.-|..++-|
T Consensus       161 ~~~~~D~~sg~~i~i~vitkdg~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~  218 (220)
T d1irui_         161 AGIFNDLGSGSNIDLCVISKNKLDFLRPYTVPNKKGT-RLGRYRCEKGTTAVLTEKITP  218 (220)
T ss_dssp             HHHHHCTTCCSCEEEEEEETTEEECCSEEECCCCCCC-CCSCCCCCTTCSCBSCCCCCB
T ss_pred             HhhccCCCCCCcEEEEEEECCCeEEeCcccccchhhh-hhhccccCCCCcceeeeeeEE
Confidence            9999999999999999999999999999999988875 558899999999988877766

>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=2.1e-45  Score=313.52  Aligned_cols=217  Identities=57%  Similarity=0.919  Sum_probs=204.7

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+++||||||+|+|.+.|.++.+++.+||++|+++++||++|..+|++.+.++++.+++.|+..++.++++..++
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            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAIC  200 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al~  200 (260)
                      +++++.++++++|+++++|+||+|++||+||.+||.|++.+++++|+|+|+.+++++|++.|+++||++||++++++||+
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             HHHhhcCCCCCcEEEEEEeCC-CEEEeccccCCCCCccccCCccccCCCccceeeeeec
Q 024919          201 SGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPNPRTYISSKGYSFPKKTEGTCITKLF  258 (260)
Q Consensus       201 ~a~~~d~~~~~~iei~iitk~-g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  258 (260)
                      .+.++|..++++++|++++++ +.++++++..++.|.. +...+.+|.+|+.-+-+.+|
T Consensus       161 ~a~~~D~~sg~~i~i~vi~~~~~~~~~~~~~~~~~~~~-~~~~~kf~~~~~~v~~~~~~  218 (222)
T d1rypi_         161 AGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREE-KQKSYKFPRGTTAVLKESIV  218 (222)
T ss_dssp             HHHHHCTTCCSCEEEEEEETTSCEEEEEEEECCCCCCC-CSSCCCCCTTCSCEEEEEEC
T ss_pred             HHhcccCCCCCcEEEEEEEcCCCeEEecCcCCchhhhh-hhhccCCCCCceeeEeeeeE
Confidence            999999999999999999986 4688888888888754 45778899999877766554

>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=5e-46  Score=312.58  Aligned_cols=197  Identities=25%  Similarity=0.374  Sum_probs=189.0

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+++||||||+|+|.++|.++.+++.+|||+|+++++|+++|..+|++.+.++++.+++.|+..++++++++.++
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-CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (260)
Q Consensus       121 ~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al  199 (260)
                      +++++.++.++ +||+++++++|+|++||+||.+||+|++.+++++|+|+|+.+++++|++.|+++||.+||++++++||
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            99999998775 69999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC-Ccc
Q 024919          200 CSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP-RTY  237 (260)
Q Consensus       200 ~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~-~~~  237 (260)
                      +.+.++|..+++.++|++|+++|.+.+.+.++++. |+|
T Consensus       161 ~~~~~~d~~sg~~~~v~~i~~~G~~~i~~~ev~~~~~~~  199 (201)
T d1irul_         161 YQATYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHEKY  199 (201)
T ss_dssp             HHHHHHBTTCCSEEEEEEECSSCEEEEEEEEHHHHHHHH
T ss_pred             HHHHHhCCCCCCceEEEEEeCCceEEECHHHHHHHHHhh
Confidence            99999999999999999999999998888888543 544

>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-45  Score=308.83  Aligned_cols=197  Identities=29%  Similarity=0.509  Sum_probs=185.2

Q ss_pred             ccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCC
Q 024919           35 SYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES  114 (260)
Q Consensus        35 ~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i  114 (260)
                      ..+.+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++++++. 
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            3488999999999999999999999999999999999999999999999999999999999999999999999999975 


Q ss_pred             CHHHHHHHHHHHHhhccCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHH
Q 024919          115 RVVTALTLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGIS  193 (260)
Q Consensus       115 ~~~~la~~l~~~~~~~~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~  193 (260)
                      ++..++++++++++++++||++++|+||||+ ++|+||.+||.|++.+++++|+|+|+.+++++|++.|+++||++||++
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            5788999999999998899999999999997 569999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEe--ccccCC
Q 024919          194 LVCEAICSGIFNDLGSGSNVDICVITKGDKEYL--RNHQLP  232 (260)
Q Consensus       194 l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~--~~~~~~  232 (260)
                      ++++||+.+.++|..++++++|++||++|+++.  .|.+++
T Consensus       163 l~~~al~~a~~rD~~sg~~v~v~iitk~G~~~~~~~~~e~~  203 (205)
T d1ryph_         163 FIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYE  203 (205)
T ss_dssp             HHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECHHHHT
T ss_pred             HHHHHHHHHHHhcCcCCCCEEEEEEcCCceEEEecCccccc
Confidence            999999999999999999999999999998653  444443

>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=2.7e-45  Score=314.80  Aligned_cols=210  Identities=20%  Similarity=0.300  Sum_probs=196.7

Q ss_pred             CccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhc---
Q 024919           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHT---  110 (260)
Q Consensus        34 ~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~---  110 (260)
                      ++++.+|+|+|||+++||||||+|+|.+.|.++.+++.+|||+|++|++|+++|..+|++.+.+.++.++..|++.+   
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            67889999999999999999999999998999999999999999999999999999999999999999999988776   


Q ss_pred             --CCCCCHHHHHHHHHHHHhhc---cCccceEEEEEEEeCCC-CEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcC-
Q 024919          111 --GRESRVVTALTLLKSHLFKY---QGHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR-  183 (260)
Q Consensus       111 --~~~i~~~~la~~l~~~~~~~---~~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~-  183 (260)
                        ++.++++.+++++++.+|..   .+||++++|++|+|++| |+||.+||.|++.+++++|+|+|+.+++++|++.|+ 
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              56789999999999988753   47999999999999865 789999999999999999999999999999999998 


Q ss_pred             ----CCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CEEEeccccCCC-CCcccc-CCcc
Q 024919          184 ----EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKG-DKEYLRNHQLPN-PRTYIS-SKGY  243 (260)
Q Consensus       184 ----~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~-g~~~~~~~~~~~-~~~~~~-~~~~  243 (260)
                          ++||++||++++++||+.+.+||+.++++++|++|+++ |+++.+|+++++ .|.|++ -+||
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                68999999999999999999999999999999999997 799999999977 799976 6887

>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=6.8e-45  Score=304.97  Aligned_cols=193  Identities=22%  Similarity=0.298  Sum_probs=185.0

Q ss_pred             CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        40 G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      .+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|+++|..+|++.+.+++|.+++.|+++++++++++.+
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            47999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh---ccCccceEEEEEEEeC--CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHH
Q 024919          120 LTLLKSHLFK---YQGHVQAALVLGGVDA--TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISL  194 (260)
Q Consensus       120 a~~l~~~~~~---~~~p~~v~~ivaG~D~--~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l  194 (260)
                      ++++++.++.   .++||++++|+||||+  +||+||.+||+|++.+++++++|+|+.+++++|++.|+++||++||+++
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            9999988875   3579999999999996  4699999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCC
Q 024919          195 VCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLP  232 (260)
Q Consensus       195 ~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~  232 (260)
                      +.+||+.+.++|..++++++|++|+++|.+.+++++++
T Consensus       161 ~~~~l~~~~~~d~~s~~~~~v~vi~~dG~~~~~~~~~~  198 (198)
T d1rypk_         161 LKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDFQAQ  198 (198)
T ss_dssp             HHHHHHHHHHHCSBCCCCEEEEEEETTEEEEECCCSCC
T ss_pred             HHHHHHHHHHhcCcCCCcEEEEEEcCCCeEEcchhccC
Confidence            99999999999999999999999999999999998864

>d1iruh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.2e-44  Score=304.37  Aligned_cols=196  Identities=33%  Similarity=0.533  Sum_probs=188.5

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|+..++++++++.++
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             HHHHHHHhhccCccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al  199 (260)
                      +++++.+|++++||++++|++|+|+ ++|+||.+||.|++.+.+++++|+|+.+++++|++.|+++|+++||++++++||
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             HHHHhhcCCCCCcEEEEEEeCCCEEE--eccccCCCCCc
Q 024919          200 CSGIFNDLGSGSNVDICVITKGDKEY--LRNHQLPNPRT  236 (260)
Q Consensus       200 ~~a~~~d~~~~~~iei~iitk~g~~~--~~~~~~~~~~~  236 (260)
                      +.+.++|+.++++++|++|+++|.++  +.+.+++..+.
T Consensus       161 ~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~~~~~  199 (202)
T d1iruh_         161 ALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFAV  199 (202)
T ss_dssp             HHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCCC
T ss_pred             HHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhhhhhh
Confidence            99999999999999999999999854  88888777665

>d1iru2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=1.8e-44  Score=306.40  Aligned_cols=206  Identities=17%  Similarity=0.202  Sum_probs=194.3

Q ss_pred             CccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhh-hcCC
Q 024919           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRY-HTGR  112 (260)
Q Consensus        34 ~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~-~~~~  112 (260)
                      ++++.+|+|+|||+++||||||+|+|.+.|.++..++.+||++|+++++|+++|..+|++.++++++.++..++. .++.
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            567889999999999999999999999999999999999999999999999999999999999999999887764 5678


Q ss_pred             CCCHHHHHHHHHHHHhhc---cCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcC--CCCC
Q 024919          113 ESRVVTALTLLKSHLFKY---QGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR--EGLT  187 (260)
Q Consensus       113 ~i~~~~la~~l~~~~~~~---~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~--~~~s  187 (260)
                      +++++.+++++++.+|.+   .+|+++++|++|+|+++|+||.+||+|++.+++++|+|+|+.+++++|++.|+  ++||
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   47999999999999888999999999999999999999999999999999764  8999


Q ss_pred             HHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCCCcccc
Q 024919          188 KEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNPRTYIS  239 (260)
Q Consensus       188 ~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~~~~~~  239 (260)
                      .+||++++++||+.+.+||+.++++++|++|+++|+++..|++++..|+++.
T Consensus       162 ~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi~~~G~~~~~~~~~~~~~~~a~  213 (217)
T d1iru2_         162 QTEARDLVERCMRVLYYRDARSYNRFQTATVTEKGVEIEGPLSTETNWDIAH  213 (217)
T ss_dssp             HHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEEECCCCCCGGGG
T ss_pred             HHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEeCCCEEEcCCeeccccHHHHh
Confidence            9999999999999999999999999999999999999999999999999976

>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=6.9e-45  Score=308.07  Aligned_cols=201  Identities=25%  Similarity=0.361  Sum_probs=190.2

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+|+||||||+|+|.++|.++..++.+|||+|+++++|+++|..+|++.++++++.+++.|++.++++++++.++
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-CccceEEEEEEEeC-CCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ-GHVQAALVLGGVDA-TGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (260)
Q Consensus       121 ~~l~~~~~~~~-~p~~v~~ivaG~D~-~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~a  198 (260)
                      +++++++|+++ .|+.+..+++|+|+ +||+||.+||+|++.+++++|+|+|+.+++++|++.|+++||++||++++++|
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            99999998774 58888899999986 56999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCC-CCccccCC
Q 024919          199 ICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPN-PRTYISSK  241 (260)
Q Consensus       199 l~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~-~~~~~~~~  241 (260)
                      |+.+.+||..++++++|++|+++|+++++++++.+ .|.+.+++
T Consensus       161 l~~~~~rd~~sg~~v~v~vi~~~g~~~~~~~ev~~~~~~~~~~~  204 (212)
T d1rypl_         161 ILAAAHRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEE  204 (212)
T ss_dssp             HHHHHHHBTTCCSEEEEEEEETTEEEEEEEEEHHHHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCceEEEEEcCCceEEeCHHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999977 46664443

>d1j2qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=100.00  E-value=1.6e-43  Score=296.77  Aligned_cols=194  Identities=27%  Similarity=0.425  Sum_probs=185.6

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+++||||||+|+|.+.|.++.+++.+|||+|+++++|++||..+|++.++++++.+++.|++.++++++++.++
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-CccceEEEEEEEeCCCCEEEEEcCCCCcccc-CeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (260)
Q Consensus       121 ~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~-~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~a  198 (260)
                      +++++.++.++ +||++++|+||+|++||+||.+||+|++.++ .++|+|+|+.+++++|++.|+++||++||++++++|
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            99999998775 6999999999999999999999999998765 699999999999999999999999999999999999


Q ss_pred             HHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC
Q 024919          199 ICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       199 l~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~  234 (260)
                      |+.+.++|..++++++|++|+++|++.+++++++..
T Consensus       161 l~~~~~~d~~~g~~v~v~~i~~~g~~~~~~~ei~~~  196 (202)
T d1j2qh_         161 IYSAMKRDSASGDGIDVVKITEDEFYQYSPEEVEQI  196 (202)
T ss_dssp             HHHHHTTCTTSCSCEEEEEECSSCEEECHHHHHHHH
T ss_pred             HHHHHHhcCCCCCeEEEEEEECCCEEEeCHHHHHHH
Confidence            999999999999999999999999999999887554

>d1yarh1 d.153.1.4 (H:1-203) Proteasome beta subunit (catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=100.00  E-value=1.3e-43  Score=298.18  Aligned_cols=193  Identities=28%  Similarity=0.421  Sum_probs=183.9

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+++||||||+|+|.+.|.++.+++.+|||+|+++++|++||..+|++.+++++|.+++.|+..++++++++.++
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            68999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhcc-CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEAI  199 (260)
Q Consensus       121 ~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~al  199 (260)
                      +++++.+++++ +||++++|+||+|+ +|+||.+||+|++.+++++|+|+|+.+++++|++.|+++||++||++++++||
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            99999988765 79999999999986 59999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCCCcEEEEEEeC-CCEEEeccccCCCC
Q 024919          200 CSGIFNDLGSGSNVDICVITK-GDKEYLRNHQLPNP  234 (260)
Q Consensus       200 ~~a~~~d~~~~~~iei~iitk-~g~~~~~~~~~~~~  234 (260)
                      +.+.++|..+++.++|++|++ +|.+.++++++++.
T Consensus       160 ~~~~~~d~~~~~~v~v~ii~~~~g~~~l~~~ei~~~  195 (203)
T d1yarh1         160 SAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESR  195 (203)
T ss_dssp             HHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHH
T ss_pred             HHHHHhcCCCCCeEEEEEEECCCCEEECCHHHHHHH
Confidence            999999999999999999986 57888888877654

>d1q5qa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome alpha subunit (non-catalytic)
species: Rhodococcus erythropolis [TaxId: 1833]

Probab=100.00  E-value=1.3e-42  Score=297.07  Aligned_cols=202  Identities=16%  Similarity=0.203  Sum_probs=176.0

Q ss_pred             HHHhhcCCCCCCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHH
Q 024919           23 DMLSKKGIVPPPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQ  102 (260)
Q Consensus        23 ~Qveya~~~~~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~  102 (260)
                      .|+|||     ++++++|+|+|||+++||||||+|+|.++        .+||++|++||+||++|..+|++.+++++|.+
T Consensus         7 ~q~eyA-----~~av~~GtT~vgi~~~~GVvlaad~r~~s--------~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~   73 (227)
T d1q5qa_           7 DRSELA-----RKGIARGRSVVVLTFRDGVLFVAENPSTA--------LHKVSELYDRLGFAAVGKYNEFENLRRAGIVH   73 (227)
T ss_dssp             HHHHHH-----HHHHHTSCCEEEEECSSEEEEEECCSCSS--------SCSEEEEETTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             hHHHHH-----HHHHhcCCCEEEEEECCEEEEEEccCCCC--------cceEEEecCceEEEecCchHHHHHHHHHHHHH
Confidence            499999     99999999999999999999999998653        58999999999999999999999999999999


Q ss_pred             HHHhhhhcCC-CCCHHHHHHHHHHHH----hhccCccceEEEEEEEeC----CCCEEEEEcCCCCccccC-eEEEcCChH
Q 024919          103 LQLHRYHTGR-ESRVVTALTLLKSHL----FKYQGHVQAALVLGGVDA----TGPHLHTIYPHGSTDTLP-FATMGSGSL  172 (260)
Q Consensus       103 ~~~~~~~~~~-~i~~~~la~~l~~~~----~~~~~p~~v~~ivaG~D~----~gp~Ly~iDp~G~~~~~~-~~aiG~g~~  172 (260)
                      ++.|++.++. +++++.+++.+++.+    +...|||++++|+||||.    ++|+||.+||+|++.+++ +++.|+++.
T Consensus        74 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~~~~~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~  153 (227)
T d1q5qa_          74 ADMRGYSYDRRDVTGRSLANAYAQTLGTIFTEQPKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTE  153 (227)
T ss_dssp             HHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHHSSSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHH
T ss_pred             HHHHHHHhCCCCCcHHHHHHHHHHHHHHHHHhcCCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchH
Confidence            9999999885 589998888777664    234589999999999985    469999999999988765 566777899


Q ss_pred             HHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcC----CCCCcEEEEEEeCCC----EEEeccccCCCCCcc
Q 024919          173 AAMAVFESKYREGLTKEEGISLVCEAICSGIFNDL----GSGSNVDICVITKGD----KEYLRNHQLPNPRTY  237 (260)
Q Consensus       173 ~~~~~Le~~~~~~~s~~eai~l~~~al~~a~~~d~----~~~~~iei~iitk~g----~~~~~~~~~~~~~~~  237 (260)
                      .++++|++.|+++||++||++++++||+.+..+|.    ..+.++||.+++++|    ++.+.+.++++..+.
T Consensus       154 ~~~~~Le~~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~~~~~fr~l~~~ei~~~l~~  226 (227)
T d1q5qa_         154 PIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPA  226 (227)
T ss_dssp             HHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHTTSCC
T ss_pred             HHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCCCccceEEcCHHHHHHHhcC
Confidence            99999999999999999999999999999998774    346789999999987    688888888776654

>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=1.1e-41  Score=289.82  Aligned_cols=192  Identities=20%  Similarity=0.277  Sum_probs=179.5

Q ss_pred             CccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcC-C
Q 024919           34 PSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTG-R  112 (260)
Q Consensus        34 ~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~-~  112 (260)
                      .+++++|+|+|||+++||||||+|+|.+.|.++..++.+||++|++|++|++||..+|++.+.++++.+++.|++.++ +
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            456789999999999999999999999999999999999999999999999999999999999999999999998765 5


Q ss_pred             CCCHHHHHHHHHHHHhhc-cCccceEEEEEEEeCCC-CEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcC-------
Q 024919          113 ESRVVTALTLLKSHLFKY-QGHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR-------  183 (260)
Q Consensus       113 ~i~~~~la~~l~~~~~~~-~~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~-------  183 (260)
                      .+++..+++++++.++.. .+||++++|++|+|+++ |+||.+||+|++.+++++|+|+|+.+++++||+.|+       
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            688999999988888755 47999999999999865 799999999999999999999999999999999987       


Q ss_pred             ----------CCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEE
Q 024919          184 ----------EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (260)
Q Consensus       184 ----------~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~  225 (260)
                                ++||.+||++++++||+.+.++|+.+++.++|++||++|++.
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                      689999999999999999999999999999999999999864

>d1iruj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=100.00  E-value=2.2e-41  Score=284.75  Aligned_cols=190  Identities=20%  Similarity=0.281  Sum_probs=179.4

Q ss_pred             cccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCC
Q 024919           36 YRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR  115 (260)
Q Consensus        36 a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~  115 (260)
                      +.-+|+|+|||+++||||||+|+|.+.|.++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++.+++
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            34579999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhc-cCccceEEEEEEEeCCC--CEEEEEcCCCCccc-cCeEEEcCChHHHHHHHHhhcCCCCCHHHH
Q 024919          116 VVTALTLLKSHLFKY-QGHVQAALVLGGVDATG--PHLHTIYPHGSTDT-LPFATMGSGSLAAMAVFESKYREGLTKEEG  191 (260)
Q Consensus       116 ~~~la~~l~~~~~~~-~~p~~v~~ivaG~D~~g--p~Ly~iDp~G~~~~-~~~~aiG~g~~~~~~~Le~~~~~~~s~~ea  191 (260)
                      ++.+++++++.+|.+ ++||++++|+||||+++  |.+|.+||.|.... ..++++|+|+.+++++|++.|+++||++||
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 46999999999999743  78999999998665 568999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEE
Q 024919          192 ISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (260)
Q Consensus       192 i~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~  225 (260)
                      ++++++||+.+.++|..++++++|++|+++|++.
T Consensus       163 ~~l~~~al~~a~~rd~~sg~~~~v~ii~k~gi~~  196 (204)
T d1iruj_         163 FETISQAMLNAVDRDAVSGMGVIVHIIEKDKITT  196 (204)
T ss_dssp             HHHHHHHHHHHGGGBTTSCSCEEEEEEESSBEEE
T ss_pred             HHHHHHHHHHHHhhcccCCCcEEEEEEeCCCEEE
Confidence            9999999999999999999999999999999863

>d1rypj_ d.153.1.4 (J:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: Proteasome beta subunit (catalytic)
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=8.5e-41  Score=280.66  Aligned_cols=190  Identities=21%  Similarity=0.273  Sum_probs=179.0

Q ss_pred             ccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCC
Q 024919           35 SYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRES  114 (260)
Q Consensus        35 ~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i  114 (260)
                      +...+|+|+|||+++||||||+|+|.+.|.++..++.+|||++ ++++|+++|..+|++.+.++++.+++.|++.++.++
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            4567899999999999999999999999999999999999999 599999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHhhc-cCccceEEEEEEEeC-CC-CEEEEEcCCCCcccc-CeEEEcCChHHHHHHHHhhcCCCCCHHH
Q 024919          115 RVVTALTLLKSHLFKY-QGHVQAALVLGGVDA-TG-PHLHTIYPHGSTDTL-PFATMGSGSLAAMAVFESKYREGLTKEE  190 (260)
Q Consensus       115 ~~~~la~~l~~~~~~~-~~p~~v~~ivaG~D~-~g-p~Ly~iDp~G~~~~~-~~~aiG~g~~~~~~~Le~~~~~~~s~~e  190 (260)
                      +++.+++++++.+|.+ ++||++++|++|||+ +| |+||++||+|++.++ .++++|+|+.++.++|++.|+++||++|
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 469999999999996 44 899999999998876 5888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEE
Q 024919          191 GISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (260)
Q Consensus       191 ai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~  225 (260)
                      |++++++||..+.++|+.++++++|++|+++|++.
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            99999999999999999999999999999999753

>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=5.6e-40  Score=276.37  Aligned_cols=193  Identities=19%  Similarity=0.279  Sum_probs=181.9

Q ss_pred             CCccccCCceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCC
Q 024919           33 PPSYRKTGTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGR  112 (260)
Q Consensus        33 ~~~a~~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~  112 (260)
                      |.+++.+|+|+|||+++||||||+|+|.+.|.++..++.+||++|++|++++++|..+|++.+.+++|.+++.|++.++.
T Consensus         2 f~p~~~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~   81 (213)
T d1iru1_           2 FSPYVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNK   81 (213)
T ss_dssp             CCSCCCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred             CCCccCCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCC
Confidence            34456899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHhhcc-CccceEEEEEEEeCCC-CEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcC-------
Q 024919          113 ESRVVTALTLLKSHLFKYQ-GHVQAALVLGGVDATG-PHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR-------  183 (260)
Q Consensus       113 ~i~~~~la~~l~~~~~~~~-~p~~v~~ivaG~D~~g-p~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~-------  183 (260)
                      +++++.+++++++.++.++ +|++++.+++|+|.++ |.+|.+||.|++.+++++++|+|+.+++++|++.|+       
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~~~~  161 (213)
T d1iru1_          82 AMTTGAIAAMLSTILYSRRFFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNV  161 (213)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSCSSC
T ss_pred             chhHHHHHHHHHHHHHHHHhhhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccchhcc
Confidence            9999999999999998764 6999999999999754 899999999999999999999999999999998764       


Q ss_pred             --CCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCCCEEE
Q 024919          184 --EGLTKEEGISLVCEAICSGIFNDLGSGSNVDICVITKGDKEY  225 (260)
Q Consensus       184 --~~~s~~eai~l~~~al~~a~~~d~~~~~~iei~iitk~g~~~  225 (260)
                        ++||++||++++++||..+.++|+.++++++|++|+++|++.
T Consensus       162 ~~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G~~~  205 (213)
T d1iru1_         162 EHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGIRE  205 (213)
T ss_dssp             CCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEEEE
T ss_pred             cccCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCCEEE
Confidence              689999999999999999999999999999999999999863

>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=2.6e-40  Score=274.45  Aligned_cols=195  Identities=19%  Similarity=0.291  Sum_probs=185.2

Q ss_pred             CceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           40 GTTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        40 G~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      .++||||+++||||||+|+|.+.|.++.+++.+|||+|+++++++++|..+|++.+.++++.+++.|+..++.+++++.+
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            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh---ccCccceEEEEEEEeCC-CCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHH
Q 024919          120 LTLLKSHLFK---YQGHVQAALVLGGVDAT-GPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (260)
Q Consensus       120 a~~l~~~~~~---~~~p~~v~~ivaG~D~~-gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~  195 (260)
                      ++.+++.++.   +.+|++++++++|+|++ +|+||.+||.|.+.+.+++++|+|+.+++++|++.|+++||++||++++
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            9999887764   34699999999999985 5899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEEeCCCEEEeccccCCCC
Q 024919          196 CEAICSGIFNDLGSGSNVDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       196 ~~al~~a~~~d~~~~~~iei~iitk~g~~~~~~~~~~~~  234 (260)
                      ++||+.+.++|+.++++++|++|+++|++.+++++++.+
T Consensus       161 ~~al~~~~~~d~~sg~~~~v~vv~~~g~~~~~~~~~~~~  199 (199)
T d1iruk_         161 RKCLEELQKRFILNLPTFSVRIIDKNGIHDLDNISFPKQ  199 (199)
T ss_dssp             HHHHHHHHHTBCBCCCCEEEEEEETTEEECCCCBCCCCC
T ss_pred             HHHHHHHHHhcCCcCCceEEEEEcCCCeEEcCCccCCCC
Confidence            999999999999999999999999999999999888753

>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-39  Score=273.50  Aligned_cols=194  Identities=21%  Similarity=0.233  Sum_probs=180.8

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+++||||||+|+|.++|.++..++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++.+++++.++
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----cCccceEEEEEEEeC------CCCEEEEEcCCCCcccc--CeEEEcCChHHHHHHHHhhcCCCCCH
Q 024919          121 TLLKSHLFKY----QGHVQAALVLGGVDA------TGPHLHTIYPHGSTDTL--PFATMGSGSLAAMAVFESKYREGLTK  188 (260)
Q Consensus       121 ~~l~~~~~~~----~~p~~v~~ivaG~D~------~gp~Ly~iDp~G~~~~~--~~~aiG~g~~~~~~~Le~~~~~~~s~  188 (260)
                      +.+++.++.+    .+|+++.++++|+|.      .+|+||.+||.|++.++  +++|+|+|+.+++++||+.|+++||+
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            9999998755    368889999998873      46899999999998664  78999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhcCCCCCc-------EEEEEEeCCCEEEeccccCCCC
Q 024919          189 EEGISLVCEAICSGIFNDLGSGSN-------VDICVITKGDKEYLRNHQLPNP  234 (260)
Q Consensus       189 ~eai~l~~~al~~a~~~d~~~~~~-------iei~iitk~g~~~~~~~~~~~~  234 (260)
                      +||++++++||+.+.++|..+|+.       +++++++++|++.+.+.++++.
T Consensus       161 ~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~i~~~g~~~l~~~ei~~~  213 (224)
T d1q5qh_         161 ETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAGAVHVSEETTSEL  213 (224)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETTEEEECCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhccccCCcccccccceEEEEEeCCcEEEcCHHHHHHH
Confidence            999999999999999999998874       8999999999999998877654

>d2z3ba1 d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Bacillus subtilis [TaxId: 1423]

Probab=99.95  E-value=3.9e-28  Score=199.07  Aligned_cols=175  Identities=14%  Similarity=0.030  Sum_probs=130.4

Q ss_pred             cCCceEEEEEeCCEEEEEEcCCCcCCceeeec-ccCeeEEecCc-EEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCC
Q 024919           38 KTGTTIVGLIFQNGVILGADTRATAGSIVCDK-NCEKIHYMAPN-IYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESR  115 (260)
Q Consensus        38 ~~G~tvIgI~~~dgVvlaad~r~~~g~~i~~~-~~~KI~~I~~~-i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~  115 (260)
                      .+|||+|||+++||||||+|+|.++|+++..+ ..+|+++++++ ++++.+|..+|.+.+.+.++...+.++........
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            57999999999999999999999999877766 57889989775 77778999999999999888777665443322111


Q ss_pred             HHHHHHHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHH
Q 024919          116 VVTALTLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLV  195 (260)
Q Consensus       116 ~~~la~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~  195 (260)
                      ....+......++.+..++......+|++..++.++..      ....+.++|+|+.+++++|++.|+++||.+||++++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~a~GSGs~~A~g~l~~~~~~~~s~~eA~~l~  156 (180)
T d2z3ba1          83 ELAKEWRSDKVLRKLEAMLIVMNQDTLLLVSGTGEVIE------PDDGILAIGSGGNYALAAGRALKKHAGESMSASEIA  156 (180)
T ss_dssp             HHHHHHHHCTTGGGCCCCEEEECSSCEEEECTTCCEEC------CSSSEEEESTTHHHHHHHHHHHHHHHGGGCCHHHHH
T ss_pred             HHHHHHhHHHHHHHhhcceeeeeccccccccCCceeec------ccccEEEEcCchHHHHHHHHHHhhcCCCccCHHHHH
Confidence            11111111111222223333333334444444444444      444589999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCcEEEEEE
Q 024919          196 CEAICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       196 ~~al~~a~~~d~~~~~~iei~ii  218 (260)
                      ++||+.|.++|+.++++++|.+|
T Consensus       157 ~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         157 RAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             HHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHHHHhhcEEcCCcEEEEEe
Confidence            99999999999999999999876

>d1m4ya_ d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Thermotoga maritima [TaxId: 2336]

Probab=99.93  E-value=4.8e-26  Score=184.63  Aligned_cols=170  Identities=16%  Similarity=0.048  Sum_probs=134.8

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcEEEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNIYCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTAL  120 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la  120 (260)
                      ||+|||+++||||||+|+|.+.|+++.+++.+||++|+++++++.+|..+|.+.+...+......+....     .....
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~~~-----~~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGGN-----LTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTTC-----HHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhhcc-----chhhH
Confidence            7999999999999999999999999999999999999999999999999999988887766655543322     12222


Q ss_pred             HHHHHHHhhccCccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcC-CCCCHHHHHHHHHHHH
Q 024919          121 TLLKSHLFKYQGHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYR-EGLTKEEGISLVCEAI  199 (260)
Q Consensus       121 ~~l~~~~~~~~~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~-~~~s~~eai~l~~~al  199 (260)
                      ......+.....++....++.+.+.++|+++..|+.|...+.++.|+|||+.+++++|+..++ ++++   |.+++++||
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            222222221111222223445566778999999999999999999999999999999998765 5775   677899999


Q ss_pred             HHHHhhcCCCCCcEEEEEE
Q 024919          200 CSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       200 ~~a~~~d~~~~~~iei~ii  218 (260)
                      +.|.++|+.++++++|..|
T Consensus       153 ~~A~e~dvyTg~~~~i~~~  171 (171)
T d1m4ya_         153 TIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             HHHHHHCTTCCSCCEEEEC
T ss_pred             HHHHhhceEcCCcEEEEEC
Confidence            9999999999999998753

>d1g3ka_ d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a+b)
fold: Ntn hydrolase-like
superfamily: N-terminal nucleophile aminohydrolases (Ntn hydrolases)
family: Proteasome subunits
domain: HslV (ClpQ) protease
species: Haemophilus influenzae [TaxId: 727]

Probab=99.93  E-value=1.9e-25  Score=181.57  Aligned_cols=170  Identities=16%  Similarity=0.145  Sum_probs=127.2

Q ss_pred             ceEEEEEeCCEEEEEEcCCCcCCceeeecccCeeEEecCcE-EEEecCChHHHHHHHHHHHHHHHHhhhhcCCCCCHHHH
Q 024919           41 TTIVGLIFQNGVILGADTRATAGSIVCDKNCEKIHYMAPNI-YCCGAGTAADTEAVTDMVSSQLQLHRYHTGRESRVVTA  119 (260)
Q Consensus        41 ~tvIgI~~~dgVvlaad~r~~~g~~i~~~~~~KI~~I~~~i-~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~l  119 (260)
                      ||+|||+++||||||+|+|.+.|+++.+++.+||++|++++ +++.+|...+.+.+.+..+...+.++     . .....
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~-~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEMHQ-----G-HLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTT-----T-CHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHhhc-----C-cchhH
Confidence            68999999999999999999999999999999999998875 55556666666555554443333221     1 22233


Q ss_pred             HHHHHHHHhhcc-CccceEEEEEEEeCCCCEEEEEcCCCCccccCeEEEcCChHHHHHHHHhhcCCCCCHHHHHHHHHHH
Q 024919          120 LTLLKSHLFKYQ-GHVQAALVLGGVDATGPHLHTIYPHGSTDTLPFATMGSGSLAAMAVFESKYREGLTKEEGISLVCEA  198 (260)
Q Consensus       120 a~~l~~~~~~~~-~p~~v~~ivaG~D~~gp~Ly~iDp~G~~~~~~~~aiG~g~~~~~~~Le~~~~~~~s~~eai~l~~~a  198 (260)
                      +..+...+.... .+.....++++.++.++.++..|+.|...+.++.|+|||+.++++.|+..++  ++.+||.+++++|
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            333333332222 2222333444434456899999999999999999999999999999998885  4455788999999


Q ss_pred             HHHHHhhcCCCCCcEEEEEE
Q 024919          199 ICSGIFNDLGSGSNVDICVI  218 (260)
Q Consensus       199 l~~a~~~d~~~~~~iei~ii  218 (260)
                      |+.|.++|+.++++++|..|
T Consensus       153 i~~Aae~dvyTgd~~~i~~~  172 (173)
T d1g3ka_         153 LRIAGDICVFTNTNFTIEEL  172 (173)
T ss_dssp             HHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHhhcEEcCCcEEEEEC
Confidence            99999999999999999775