Psyllid ID: psy5094

---

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-
Protein Sequence
MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVSSIHDPTRPDL
Secondary Structure (PSIPRED)
cccccccccccccEEcccccHHHHHHHHHHHHccccEEEEEcccEEEEEEEcccccccccccccccEEEEcccEEEEEccccccHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHcccccccccccccccEEEEEEEEEccccEEEEEcccccccccEEEEEccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHcccccccEEEEEEEEccccEEEccHHHHHHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccccHHHcccccccEcccccEHHHHHHHHHHcccccEEEEEccccEEEEEEcccccccEcHHHcccEEEEEccEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHcccEcccccccEcccccEEEEEEEEEccEEEEEEEcccccEEEEcEEEEcccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcccccccccEEEEEEEcccEEEEccHHHHHHHHHHHccccccccccc
Coil and Loop (DISEMBL)
mfltrseydrgvntfspegrlFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSvlmepssiKKIVEIDKHIGcaasgliadsriltDRARVECAnhwftydekmDIESVAQAVSNLAiqfgdsdeesamsrpFGVAMLFAgldskgpqlfhldpsgtytqfdakaigsgsegAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKvssihdptrpdl
Flexible Loop (DISEMBL)
mfltrseydrgvntfspegrlFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASgliadsriltDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEEleeelskvssihdptrpdl
Low Complexity Region (SEG)
MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYskeeleeelskVSSIHDPTRPDL
Disordered region (IsUnstruct)
************NTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA***************FGVAMLFAGLDSKGPQLFHLDPSGTYTQF******************VYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYS**********************
Disordered Region (DISOPRED)
*****SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELS*************
Disordered Region (DISEMBL)
MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKE********************
Disordered Region (DISPRO)
*****SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVSS*********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVSSIHDPTRPDL
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	251	2.2.26 [Sep-21-2011]
Q9Z2U1	241	Proteasome subunit alpha	yes	N/A	0.956	0.995	0.755	1e-105
P28066	241	Proteasome subunit alpha	yes	N/A	0.956	0.995	0.755	1e-105
Q5E987	241	Proteasome subunit alpha	yes	N/A	0.956	0.995	0.755	1e-105
P34064	241	Proteasome subunit alpha	yes	N/A	0.956	0.995	0.742	1e-102
Q95083	244	Proteasome subunit alpha	yes	N/A	0.960	0.987	0.692	4e-98
Q9LSU1	237	Proteasome subunit alpha	yes	N/A	0.944	1.0	0.637	2e-85
Q9M4T8	237	Proteasome subunit alpha	yes	N/A	0.944	1.0	0.641	7e-85
Q95008	248	Proteasome subunit alpha	yes	N/A	0.872	0.883	0.657	1e-84
Q42134	237	Proteasome subunit alpha	yes	N/A	0.944	1.0	0.637	2e-84
O81149	237	Proteasome subunit alpha	yes	N/A	0.944	1.0	0.629	7e-84

>sp|Q9Z2U1|PSA5_MOUSE Proteasome subunit alpha type-5 OS=Mus musculus GN=Psma5 PE=1 SV=1

 Score =  380 bits (975), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 182/241 (75%), Positives = 206/241 (85%), Gaps = 1/241 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 121 IQFGDSD-EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H+++KEELEE +  
Sbjct: 181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD 240

Query: 240 V 240
           +
Sbjct: 241 I 241

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.
Mus musculus (taxid: 10090)
EC: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|P28066|PSA5_HUMAN Proteasome subunit alpha type-5 OS=Homo sapiens GN=PSMA5 PE=1 SV=3

 Score =  380 bits (975), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 182/241 (75%), Positives = 206/241 (85%), Gaps = 1/241 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 121 IQFGDSD-EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H+++KEELEE +  
Sbjct: 181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD 240

Query: 240 V 240
           +
Sbjct: 241 I 241

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.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q5E987|PSA5_BOVIN Proteasome subunit alpha type-5 OS=Bos taurus GN=PSMA5 PE=1 SV=1

 Score =  380 bits (975), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 182/241 (75%), Positives = 206/241 (85%), Gaps = 1/241 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 121 IQFGDSD-EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H+++KEELEE +  
Sbjct: 181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD 240

Query: 240 V 240
           +
Sbjct: 241 I 241

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|P34064|PSA5_RAT Proteasome subunit alpha type-5 OS=Rattus norvegicus GN=Psma5 PE=2 SV=1

 Score =  372 bits (955), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 179/241 (74%), Positives = 203/241 (84%), Gaps = 1/241 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIE  KLGSTAIGI TSEGV LA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEGHKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 121 IQFGDSD-EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH+S TLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H+++KEELEE +  
Sbjct: 181 LQEVYHKSTTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD 240

Query: 240 V 240
           +
Sbjct: 241 I 241

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|Q95083|PSA5_DROME Proteasome subunit alpha type-5 OS=Drosophila melanogaster GN=Prosalpha5 PE=2 SV=2

 Score =  357 bits (916), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 169/244 (69%), Positives = 207/244 (84%), Gaps = 3/244 (1%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI T EGVVLA EKRITS LM 
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGICTPEGVVLAVEKRITSPLMV 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PS+++KIVE+DKHIGCA SGL+AD+R L +RARVEC NHWF Y+E+M IES AQAVS LA
Sbjct: 61  PSTVEKIVEVDKHIGCATSGLMADARTLIERARVECQNHWFVYNERMSIESCAQAVSTLA 120

Query: 121 IQF---GDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQ 177
           IQF   GDSD  +AMSRPFGVA+LFAG+++  PQL+H+DPSGT+ +  AKAIGSGSEGAQ
Sbjct: 121 IQFGDSGDSDGAAAMSRPFGVAILFAGIEAGQPQLWHMDPSGTFVRHGAKAIGSGSEGAQ 180

Query: 178 QSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEEL 237
           Q+LQ+++   +TL EAI+  L  LKQVMEEKLNSTNVE+ T+T ++ +++++KEE+E+ +
Sbjct: 181 QNLQDLFRPDLTLDEAIDISLNTLKQVMEEKLNSTNVEVMTMTKEREFYMFTKEEVEQHI 240

Query: 238 SKVS 241
             ++
Sbjct: 241 KNIA 244

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.

Drosophila melanogaster (taxid: 7227)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9LSU1|PSA5_ORYSJ Proteasome subunit alpha type-5 OS=Oryza sativa subsp. japonica GN=PAE1 PE=2 SV=1

 Score =  315 bits (808), Expect = 2e-85,   Method: Compositional matrix adjust.
 Identities = 153/240 (63%), Positives = 193/240 (80%), Gaps = 3/240 (1%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+ T +GVVLA EKR+TS L+E
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKDGVVLAVEKRVTSPLLE 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSS++KI+EID+HIGCA SGLIAD+R L + ARVE  NH F+Y E M +ES  QA+ +LA
Sbjct: 61  PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQAICDLA 120

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
           ++FG+ DEES MSRPFGV++L AG D  GP L++ DPSGT+ Q +AKAIGSGSEGA  SL
Sbjct: 121 LRFGEGDEES-MSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSL 179

Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
           QE Y++ +TL+EA    L+ILKQVMEEK+   NV++  V+ +  YHLY+  E+E  ++++
Sbjct: 180 QEQYNKELTLQEAETIALSILKQVMEEKVTPNNVDIAKVSPN--YHLYTPAEVEAVIARL 237

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.

Oryza sativa subsp. japonica (taxid: 39947)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9M4T8|PSA5_SOYBN Proteasome subunit alpha type-5 OS=Glycine max GN=PAE1 PE=2 SV=1

 Score =  313 bits (802), Expect = 7e-85,   Method: Compositional matrix adjust.
 Identities = 154/240 (64%), Positives = 190/240 (79%), Gaps = 3/240 (1%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+ T EGVVLA EKRITS L+E
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGLKTKEGVVLAVEKRITSPLLE 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSS++KI+EID+HIGCA SGLIAD+R L + ARVE  NH F+Y E M +ES  QA+ +LA
Sbjct: 61  PSSVEKIMEIDEHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
           ++FG+ DEES MSRPFGV++L AG D  GP L++ DPSGT+ Q + KAIGSGSEGA  SL
Sbjct: 121 LRFGEGDEES-MSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNGKAIGSGSEGADSSL 179

Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
           QE +++ +TL+EA    L+ILKQVMEEK+   NV++  V     YHLY+  E+E  +S++
Sbjct: 180 QEQFNKDLTLQEAETIALSILKQVMEEKVTPNNVDIAKVAP--TYHLYTPSEVEAVISRL 237

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.

Glycine max (taxid: 3847)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q95008|PSA5_CAEEL Proteasome subunit alpha type-5 OS=Caenorhabditis elegans GN=pas-5 PE=1 SV=1

 Score =  313 bits (801), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 144/219 (65%), Positives = 182/219 (83%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEA+KLGST+IGI TSEGV+LAAEKR TS LM 
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAVKLGSTSIGIKTSEGVLLAAEKRSTSKLMV 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             +I+KI ++D+HIG   +GLIADSR L +RA++E  N WFTY+ K+ +E V Q+V+NLA
Sbjct: 61  NDAIEKISKVDQHIGVTFAGLIADSRTLVERAQIEAQNFWFTYNRKIRVEDVTQSVANLA 120

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
           +QFGD D +++MSRPFGVAMLFAG+D +G +LFHLDPSGT+    AK+IG+ S+GA+Q+L
Sbjct: 121 LQFGDDDVKASMSRPFGVAMLFAGVDQEGAKLFHLDPSGTFIDCKAKSIGAASDGAEQNL 180

Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTV 219
           +E YH+++T+KE +   L ILKQVMEEKLNS NVE+  +
Sbjct: 181 KEQYHDALTIKEGLKMALAILKQVMEEKLNSANVEVVVI 219

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.

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q42134|PSA5B_ARATH Proteasome subunit alpha type-5-B OS=Arabidopsis thaliana GN=PAE2 PE=1 SV=2

 Score =  312 bits (799), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 153/240 (63%), Positives = 191/240 (79%), Gaps = 3/240 (1%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+ T EGVVLA EKRITS L+E
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLLE 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSS++KI+EID HIGCA SGLIAD+R L + ARVE  NH F+Y E M +ES  QA+ +LA
Sbjct: 61  PSSVEKIMEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
           ++FG+ +EES MSRPFGV++L AG D  GP L++ DPSGT+ Q +AKAIGSGSEGA  SL
Sbjct: 121 LRFGEGEEES-MSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSL 179

Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
           QE +++ +TL+EA    ++ILKQVMEEK+   NV++  V     YHLY+ +E+E  +S++
Sbjct: 180 QEQFNKDITLQEAETIAVSILKQVMEEKVTPNNVDIAKVA--PAYHLYTPQEVEAVISRL 237

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|O81149|PSA5A_ARATH Proteasome subunit alpha type-5-A OS=Arabidopsis thaliana GN=PAE1 PE=1 SV=1

 Score =  310 bits (794), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 151/240 (62%), Positives = 191/240 (79%), Gaps = 3/240 (1%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTR+EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+ T EGVVLA EKRITS L+E
Sbjct: 1   MFLTRTEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLLE 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSS++KI+EID HIGCA SGLIAD+R L + ARVE  NH F+Y E M +ES  QA+ +LA
Sbjct: 61  PSSVEKIMEIDDHIGCAMSGLIADARTLVEHARVETQNHRFSYGEPMTVESTTQALCDLA 120

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
           ++FG+ +EES MSRPFGV++L AG D  GP L++ DPSGT+ Q +AKAIGSGSEGA  SL
Sbjct: 121 LRFGEGEEES-MSRPFGVSLLIAGHDENGPSLYYTDPSGTFWQCNAKAIGSGSEGADSSL 179

Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
           QE +++ ++L+EA    ++ILKQVMEEK+   NV++  V     YHLY+ +E+E  ++++
Sbjct: 180 QEQFNKDLSLQEAETIAVSILKQVMEEKVTPNNVDIAKVA--PAYHLYTPQEVEAVIARL 237

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

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	251
307209861	242	Proteasome subunit alpha type-5 [Harpegn	0.960	0.995	0.772	1e-111
322799258	242	hypothetical protein SINV_00130 [Solenop	0.960	0.995	0.772	1e-111
332016307	242	Proteasome subunit alpha type-5 [Acromyr	0.960	0.995	0.776	1e-111
321457997	242	hypothetical protein DAPPUDRAFT_231717 [	0.960	0.995	0.789	1e-111
307187742	270	Proteasome subunit alpha type-5 [Campono	1.0	0.929	0.750	1e-111
91087635	242	PREDICTED: similar to proteasome zeta su	0.960	0.995	0.780	1e-110
332372913	257	unknown [Dendroctonus ponderosae]	0.980	0.957	0.761	1e-110
340713776	269	PREDICTED: proteasome subunit alpha type	0.964	0.899	0.765	1e-109
242006680	242	proteasome subunit alpha type, putative	0.960	0.995	0.785	1e-109
442755539	241	Putative 20s proteasome regulatory subun	0.956	0.995	0.780	1e-109

>gi|307209861|gb|EFN86640.1| Proteasome subunit alpha type-5 [Harpegnathos saltator]

 Score =  408 bits (1048), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 187/242 (77%), Positives = 221/242 (91%), Gaps = 1/242 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI+T+EGVVLA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIATTEGVVLAVEKRITSTLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P++++KIVEIDKHIGCAASGL+ADSR + DRARVEC NHWF Y+EKM +ES AQAVSNLA
Sbjct: 61  PTTVEKIVEIDKHIGCAASGLMADSRTMIDRARVECQNHWFVYNEKMTVESTAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           IQFGDSD++ +AMSRPFGVAMLFAG+D KGPQL+H+DPSGT+ QFDAKAIGSGSEGAQQ+
Sbjct: 121 IQFGDSDDDGTAMSRPFGVAMLFAGIDEKGPQLYHMDPSGTFVQFDAKAIGSGSEGAQQN 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH+SMTLKEA+   LTILKQVMEEKLN TN+E+ T+T ++++H+++K EL+E +  
Sbjct: 181 LQEVYHKSMTLKEALKSALTILKQVMEEKLNDTNIEVMTMTPEQLFHMFAKAELQEVIKD 240

Query: 240 VS 241
           ++
Sbjct: 241 IA 242

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322799258|gb|EFZ20649.1| hypothetical protein SINV_00130 [Solenopsis invicta]

 Score =  408 bits (1048), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 187/242 (77%), Positives = 221/242 (91%), Gaps = 1/242 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI+T+EGVVLA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIATTEGVVLAVEKRITSTLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P++++KIVEID+HIGCAASGL+ADSR + DRARVEC NHWF Y+E+M +ES AQAVSNLA
Sbjct: 61  PTTVEKIVEIDRHIGCAASGLMADSRTMIDRARVECQNHWFVYNERMTVESTAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           IQFGDSD++ +AMSRPFGVAMLFAG+D KGPQL+H+DPSGT+ QFDAKAIGSGSEGAQQ+
Sbjct: 121 IQFGDSDDDGTAMSRPFGVAMLFAGIDEKGPQLYHMDPSGTFVQFDAKAIGSGSEGAQQN 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH+SMTLKEA+   LTILKQVMEEKLN TN+E+ T+T  +++H++SKEEL+E +  
Sbjct: 181 LQEVYHKSMTLKEALKTALTILKQVMEEKLNDTNIEVMTMTPGQLFHMFSKEELQEVIKD 240

Query: 240 VS 241
           ++
Sbjct: 241 IA 242

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332016307|gb|EGI57220.1| Proteasome subunit alpha type-5 [Acromyrmex echinatior]

 Score =  408 bits (1048), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 188/242 (77%), Positives = 220/242 (90%), Gaps = 1/242 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI+T+EGVVLA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIATTEGVVLAVEKRITSTLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P++++KIVEIDKHIGCAASGL+ADSR + DRARVEC NHWF Y+EKM +ES AQAVSNLA
Sbjct: 61  PTTVEKIVEIDKHIGCAASGLMADSRTMIDRARVECQNHWFVYNEKMTVESTAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           IQFGDSD++ +AMSRPFGVAMLFAG+D KGPQL+H+DPSGT+ QFDAKAIGSGSEGAQQ+
Sbjct: 121 IQFGDSDDDGTAMSRPFGVAMLFAGIDEKGPQLYHMDPSGTFVQFDAKAIGSGSEGAQQN 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH+SMTLKEA+   LTILKQVMEEKLN TN+E+ T+T  +++H++SK EL+E +  
Sbjct: 181 LQEVYHKSMTLKEALKAALTILKQVMEEKLNDTNIEVMTMTPGQLFHMFSKAELQEVIKD 240

Query: 240 VS 241
           ++
Sbjct: 241 IA 242

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|321457997|gb|EFX69073.1| hypothetical protein DAPPUDRAFT_231717 [Daphnia pulex]

 Score =  405 bits (1042), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 191/242 (78%), Positives = 219/242 (90%), Gaps = 1/242 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGVVLA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVVLAVEKRITSPLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P++I+KIVEIDKHIGCA SGL+ADSR + DRARVE  NHWFTYDEKM +ESVAQAVSNLA
Sbjct: 61  PTTIEKIVEIDKHIGCAVSGLMADSRTMVDRARVEAQNHWFTYDEKMSVESVAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           IQFGDSD++ +AMSRPFGVA+LFAG+D KGPQLFH+DPSGTY Q+DAKAIGSGSEGAQQS
Sbjct: 121 IQFGDSDDDGNAMSRPFGVAILFAGIDEKGPQLFHMDPSGTYVQYDAKAIGSGSEGAQQS 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQE Y++SMTLK A+   LTILKQVMEEKL+STNVE+  VT D+ +H+YSKE++E+ + +
Sbjct: 181 LQEAYNKSMTLKSAMKAALTILKQVMEEKLSSTNVEVAAVTPDQPFHMYSKEQVEDVIKE 240

Query: 240 VS 241
           ++
Sbjct: 241 IA 242

Source: Daphnia pulex

Species: Daphnia pulex

Genus: Daphnia

Family: Daphniidae

Order: Diplostraca

Class: Branchiopoda

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307187742|gb|EFN72714.1| Proteasome subunit alpha type-5 [Camponotus floridanus]

 Score =  405 bits (1041), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 190/253 (75%), Positives = 225/253 (88%), Gaps = 2/253 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI+T+EGVVLA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIATTEGVVLAVEKRITSTLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P++++KIVEIDKHIGCAASGL+ADSR + DRARVEC NHWF Y+E+M +ES AQAVSNLA
Sbjct: 61  PTTVEKIVEIDKHIGCAASGLMADSRTMIDRARVECQNHWFVYNERMTVESTAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           IQFGDSD++ +AMSRPFGVAMLFAG+D KGPQL+H+DPSGT+ QFDAKAIGSGSEGAQQ+
Sbjct: 121 IQFGDSDDDGTAMSRPFGVAMLFAGIDEKGPQLYHMDPSGTFVQFDAKAIGSGSEGAQQN 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELS- 238
           LQEVYH+SMTLKEA+   LTILKQVMEEKLN TN+E+ T+T  +++H+++K EL+E +  
Sbjct: 181 LQEVYHKSMTLKEALKAALTILKQVMEEKLNDTNIEVMTMTPGQLFHMFTKAELQELIDF 240

Query: 239 KVSSIHDPTRPDL 251
            V+S  D  +P +
Sbjct: 241 GVTSEEDIMKPSI 253

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91087635|ref|XP_973117.1| PREDICTED: similar to proteasome zeta subunit [Tribolium castaneum] gi|270009423|gb|EFA05871.1| hypothetical protein TcasGA2_TC008671 [Tribolium castaneum]

 Score =  404 bits (1037), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 189/242 (78%), Positives = 217/242 (89%), Gaps = 1/242 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGVVLA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGICTSEGVVLAVEKRITSPLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P++I+KIVE+DKHIGCA SGL+ADSR + DRARVEC NHWF Y+E M +ES AQAVSNLA
Sbjct: 61  PTTIEKIVEVDKHIGCAVSGLMADSRTMIDRARVECQNHWFVYNENMSVESCAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           IQFGDSD++ +AMSRPFGVA+LFAG+D KGPQL+H+DPSGT+ QFDAKAIGSGSEGAQQS
Sbjct: 121 IQFGDSDDDGAAMSRPFGVAILFAGIDEKGPQLYHMDPSGTFVQFDAKAIGSGSEGAQQS 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH SMTL EA    LTILKQVMEEKLNS+NVE+ T+T   ++H+++KE++EE +SK
Sbjct: 181 LQEVYHRSMTLSEATTAALTILKQVMEEKLNSSNVEVMTMTPGALFHMFTKEQVEEVISK 240

Query: 240 VS 241
           +S
Sbjct: 241 IS 242

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332372913|gb|AEE61598.1| unknown [Dendroctonus ponderosae]

 Score =  402 bits (1033), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 188/247 (76%), Positives = 218/247 (88%), Gaps = 1/247 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIST++GVVLA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTNQGVVLAVEKRITSNLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P++I+KIVE+DKHIGCA SGLIADSR + +RAR+EC NHWF Y+E M +ES AQAVSNLA
Sbjct: 61  PTTIEKIVEVDKHIGCAVSGLIADSRTMIERARMECQNHWFVYNENMSVESCAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           IQFGDSD++ +AMSRPFGVA+LFAG+D KGPQL+H+DPSGT+ QFDAKAIGSGSEGAQQS
Sbjct: 121 IQFGDSDDDGAAMSRPFGVAILFAGIDEKGPQLYHMDPSGTFVQFDAKAIGSGSEGAQQS 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH SMTL EA    LTILKQVMEEKLNS+NVE+ T+T DKM+ ++SKE++EE +  
Sbjct: 181 LQEVYHRSMTLDEATTSALTILKQVMEEKLNSSNVEVMTMTPDKMFQMFSKEQVEEVIQG 240

Query: 240 VSSIHDP 246
           +  +  P
Sbjct: 241 IFHVEHP 247

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340713776|ref|XP_003395412.1| PREDICTED: proteasome subunit alpha type-5-like [Bombus terrestris] gi|350409380|ref|XP_003488715.1| PREDICTED: proteasome subunit alpha type-5-like [Bombus impatiens]

 Score =  400 bits (1027), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 186/243 (76%), Positives = 217/243 (89%), Gaps = 1/243 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYD GVNTFSPEGRLFQVEYAIEAIKLGSTAIGI+TSEGVVL  EKRITS LME
Sbjct: 1   MFLTRSEYDHGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIATSEGVVLVVEKRITSSLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P++++KIVEIDKHIGCAASGLIADSR + DRARVEC NHWF Y+E+M +ES AQAVSNLA
Sbjct: 61  PTTVEKIVEIDKHIGCAASGLIADSRTMIDRARVECQNHWFVYNERMSVESTAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           IQFGDSD++ SAMSRPFGVAMLFAG+D KGPQL+H+DPSGT+ QFDAKAIGSGSEGAQQ+
Sbjct: 121 IQFGDSDDDGSAMSRPFGVAMLFAGIDEKGPQLYHMDPSGTFVQFDAKAIGSGSEGAQQN 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQEVYH+SMTLKEAI   L ILKQVMEEKL+  N+E+ T+T ++++H+++K EL+E +  
Sbjct: 181 LQEVYHKSMTLKEAIKAALVILKQVMEEKLSDNNIEVMTMTPEQLFHMFTKAELQELIEN 240

Query: 240 VSS 242
           + S
Sbjct: 241 LPS 243

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242006680|ref|XP_002424175.1| proteasome subunit alpha type, putative [Pediculus humanus corporis] gi|212507516|gb|EEB11437.1| proteasome subunit alpha type, putative [Pediculus humanus corporis]

 Score =  399 bits (1026), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 190/242 (78%), Positives = 215/242 (88%), Gaps = 1/242 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIG+ TSEGVVLA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVCTSEGVVLAVEKRITSPLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PS+I+KIVEID HIGCA SGL+ADSRI+ DRARVE  NHWF Y+EKM +ES AQAVSNLA
Sbjct: 61  PSTIEKIVEIDSHIGCAVSGLMADSRIMIDRARVEAQNHWFIYNEKMSVESCAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           +QFGDSDEE SAMSRPFGVA+LFAG D KGPQL+H+DPSGT+ QFDAKAIGSGSEGAQQS
Sbjct: 121 VQFGDSDEEGSAMSRPFGVAILFAGCDEKGPQLYHMDPSGTFMQFDAKAIGSGSEGAQQS 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQE +++S+TLKEA+  VLTILKQVMEEKLNSTN+E+ TVT    YHL++K+ELE  +  
Sbjct: 181 LQEAFNKSLTLKEAVTTVLTILKQVMEEKLNSTNIEVMTVTLKGNYHLFTKDELEMTIKN 240

Query: 240 VS 241
           ++
Sbjct: 241 IA 242

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442755539|gb|JAA69929.1| Putative 20s proteasome regulatory subunit alpha type psma5/pup2 [Ixodes ricinus]

 Score =  399 bits (1026), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 188/241 (78%), Positives = 214/241 (88%), Gaps = 1/241 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MF+TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI T+EGVVLA EKR+TS LME
Sbjct: 1   MFMTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTAEGVVLAVEKRVTSPLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P++I+KIVEID HIGCA SGL+ADSR + DRARVE  NHWF Y+EKM +ESVAQAVSNLA
Sbjct: 61  PTTIEKIVEIDNHIGCAVSGLMADSRTMVDRARVEAQNHWFLYNEKMQVESVAQAVSNLA 120

Query: 121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           IQFGDSD++ +AMSRPFGVA+LFAG+D KGPQL+H+DPSGTY Q+DAKAIGSGSEGAQQ+
Sbjct: 121 IQFGDSDDDGNAMSRPFGVAILFAGIDPKGPQLYHMDPSGTYVQYDAKAIGSGSEGAQQA 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQE YH+SMTLKEA    LTILKQVMEEKLNSTNVE+  VT +K YH+ SKEE+EE +  
Sbjct: 181 LQEKYHKSMTLKEATQDALTILKQVMEEKLNSTNVEVANVTKEKGYHMLSKEEVEEVIKT 240

Query: 240 V 240
           +
Sbjct: 241 I 241

Source: Ixodes ricinus

Species: Ixodes ricinus

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	251
ZFIN|ZDB-GENE-040625-96	241	psma5 "proteasome (prosome, ma	0.908	0.946	0.772	9.3e-91
UNIPROTKB|Q5E987	241	PSMA5 "Proteasome subunit alph	0.908	0.946	0.768	1.1e-89
UNIPROTKB|P28066	241	PSMA5 "Proteasome subunit alph	0.908	0.946	0.768	1.1e-89
UNIPROTKB|F2Z5K2	241	PSMA5 "Proteasome subunit alph	0.908	0.946	0.768	1.1e-89
MGI|MGI:1347009	241	Psma5 "proteasome (prosome, ma	0.908	0.946	0.768	1.1e-89
UNIPROTKB|Q6P9V6	241	Psma5 "Proteasome subunit alph	0.908	0.946	0.768	1.1e-89
RGD|61848	241	Psma5 "proteasome (prosome, ma	0.908	0.946	0.755	6.7e-88
UNIPROTKB|H9KYP7	218	PSMA5 "Uncharacterized protein	0.860	0.990	0.779	3e-85
UNIPROTKB|H9L1I1	218	PSMA5 "Proteasome subunit alph	0.836	0.963	0.781	7.2e-84
FB|FBgn0016697	244	Prosalpha5 "Proteasome alpha5	0.908	0.934	0.714	9.1e-84

ZFIN|ZDB-GENE-040625-96 psma5 "proteasome (prosome, macropain) subunit, alpha type,5" [Danio rerio (taxid:7955)]

 Score = 905 (323.6 bits), Expect = 9.3e-91, P = 9.3e-91
 Identities = 177/229 (77%), Positives = 198/229 (86%)

Query:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
             MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct:    61 PSSIEKIVEIDSHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
             +QFG+ D +  AMSRPFGVA+LF G+D KGPQL+H+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLYHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             LQEVYH+SMTLK+AI   LTILKQVMEEKLN+TN+EL TV   K +H+Y
Sbjct:   181 LQEVYHKSMTLKDAIKSSLTILKQVMEEKLNATNIELATVEPGKTFHMY 229

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

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

GO:0004175 "endopeptidase activity" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0006508 "proteolysis" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0000502 "proteasome complex" evidence=IEA

UNIPROTKB|Q5E987 PSMA5 "Proteasome subunit alpha type-5" [Bos taurus (taxid:9913)]

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 176/229 (76%), Positives = 197/229 (86%)

Query:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
             MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
             +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             LQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H++
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMF 229

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:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

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

UNIPROTKB|P28066 PSMA5 "Proteasome subunit alpha type-5" [Homo sapiens (taxid:9606)]

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 176/229 (76%), Positives = 197/229 (86%)

Query:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
             MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
             +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             LQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H++
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMF 229

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

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

GO:0005515 "protein binding" evidence=IPI

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:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|F2Z5K2 PSMA5 "Proteasome subunit alpha type" [Sus scrofa (taxid:9823)]

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 176/229 (76%), Positives = 197/229 (86%)

Query:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
             MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
             +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             LQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H++
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMF 229

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

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

MGI|MGI:1347009 Psma5 "proteasome (prosome, macropain) subunit, alpha type 5" [Mus musculus (taxid:10090)]

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 176/229 (76%), Positives = 197/229 (86%)

Query:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
             MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
             +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             LQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H++
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMF 229

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:0006511 "ubiquitin-dependent protein catabolic process" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

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

UNIPROTKB|Q6P9V6 Psma5 "Proteasome subunit alpha type" [Rattus norvegicus (taxid:10116)]

 Score = 895 (320.1 bits), Expect = 1.1e-89, P = 1.1e-89
 Identities = 176/229 (76%), Positives = 197/229 (86%)

Query:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
             MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
             +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             LQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H++
Sbjct:   181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMF 229

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

RGD|61848 Psma5 "proteasome (prosome, macropain) subunit, alpha type 5" [Rattus norvegicus (taxid:10116)]

 Score = 878 (314.1 bits), Expect = 6.7e-88, P = 6.7e-88
 Identities = 173/229 (75%), Positives = 194/229 (84%)

Query:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
             MFLTRSEYDRGVNTFSPEGRLFQVEYAIE  KLGSTAIGI TSEGV LA EKRITS LME
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEGHKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query:    61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct:    61 PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query:   121 IQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
             +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct:   121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query:   180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             LQEVYH+S TLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H++
Sbjct:   181 LQEVYHKSTTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMF 229

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

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

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

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

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0005730 "nucleolus" evidence=ISO

UNIPROTKB|H9KYP7 PSMA5 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 853 (305.3 bits), Expect = 3.0e-85, P = 3.0e-85
 Identities = 170/218 (77%), Positives = 189/218 (86%)

Query:     1 MFLTRSEYDR-GVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLM 59
             MFLTRSE+D  GVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LM
Sbjct:     1 MFLTRSEHDSLGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLM 60

Query:    60 EPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNL 119
             EPSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNL
Sbjct:    61 EPSSIEKIVEIDSHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNL 120

Query:   120 AIQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQ 178
             A+QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ 
Sbjct:   121 ALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQS 180

Query:   179 SLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
             SLQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+E+
Sbjct:   181 SLQEVYHKSMTLKEAIKSSLVILKQVMEEKLNATNIEV 218

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

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

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

UNIPROTKB|H9L1I1 PSMA5 "Proteasome subunit alpha type" [Gallus gallus (taxid:9031)]

 Score = 840 (300.8 bits), Expect = 7.2e-84, P = 7.2e-84
 Identities = 165/211 (78%), Positives = 184/211 (87%)

Query:     7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKK 66
             +YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LMEPSSI+K
Sbjct:     8 KYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEK 67

Query:    67 IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
             IVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA+QFG+ 
Sbjct:    68 IVEIDSHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEE 127

Query:   127 DEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
             D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ SLQEVYH
Sbjct:   128 DADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQEVYH 187

Query:   186 ESMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
             +SMTLKEAI   L ILKQVMEEKLN+TN+E+
Sbjct:   188 KSMTLKEAIKSSLVILKQVMEEKLNATNIEV 218

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

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

FB|FBgn0016697 Prosalpha5 "Proteasome alpha5 subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 839 (300.4 bits), Expect = 9.1e-84, P = 9.1e-84
 Identities = 165/231 (71%), Positives = 197/231 (85%)

Query:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
             MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI T EGVVLA EKRITS LM 
Sbjct:     1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGICTPEGVVLAVEKRITSPLMV 60

Query:    61 PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             PS+++KIVE+DKHIGCA SGL+AD+R L +RARVEC NHWF Y+E+M IES AQAVS LA
Sbjct:    61 PSTVEKIVEVDKHIGCATSGLMADARTLIERARVECQNHWFVYNERMSIESCAQAVSTLA 120

Query:   121 IQFGDS---DEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQ 177
             IQFGDS   D  +AMSRPFGVA+LFAG+++  PQL+H+DPSGT+ +  AKAIGSGSEGAQ
Sbjct:   121 IQFGDSGDSDGAAAMSRPFGVAILFAGIEAGQPQLWHMDPSGTFVRHGAKAIGSGSEGAQ 180

Query:   178 QSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             Q+LQ+++   +TL EAI+  L  LKQVMEEKLNSTNVE+ T+T ++ ++++
Sbjct:   181 QNLQDLFRPDLTLDEAIDISLNTLKQVMEEKLNSTNVEVMTMTKEREFYMF 231

GO:0004175 "endopeptidase activity" evidence=NAS

GO:0005839 "proteasome core complex" evidence=NAS

GO:0000502 "proteasome complex" evidence=NAS

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

GO:0006508 "proteolysis" evidence=NAS

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

GO:0019773 "proteasome core complex, alpha-subunit complex" evidence=IEA

GO:0009987 "cellular process" evidence=IMP

---

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)
Q55G04	PSA5_DICDI	3, ., 4, ., 2, 5, ., 1	0.6228	0.9163	0.9543	yes	N/A
A7I9C7	PSA_METB6	3, ., 4, ., 2, 5, ., 1	0.4173	0.8725	0.9125	yes	N/A
A6VIP0	PSA_METM7	3, ., 4, ., 2, 5, ., 1	0.4199	0.8964	0.8687	yes	N/A
A6URN9	PSA_METVS	3, ., 4, ., 2, 5, ., 1	0.4345	0.8326	0.8069	yes	N/A
P28066	PSA5_HUMAN	3, ., 4, ., 2, 5, ., 1	0.7551	0.9561	0.9958	yes	N/A
O59219	PSA_PYRHO	3, ., 4, ., 2, 5, ., 1	0.4510	0.8844	0.8538	yes	N/A
A4FZT6	PSA_METM5	3, ., 4, ., 2, 5, ., 1	0.4199	0.8964	0.8687	yes	N/A
A3CW55	PSA_METMJ	3, ., 4, ., 2, 5, ., 1	0.4259	0.8207	0.8583	yes	N/A
Q42134	PSA5B_ARATH	3, ., 4, ., 2, 5, ., 1	0.6375	0.9442	1.0	yes	N/A
O29760	PSA_ARCFU	3, ., 4, ., 2, 5, ., 1	0.4042	0.9123	0.9308	yes	N/A
P25156	PSA_THEAC	3, ., 4, ., 2, 5, ., 1	0.3956	0.9003	0.9699	yes	N/A
Q95008	PSA5_CAEEL	3, ., 4, ., 2, 5, ., 1	0.6575	0.8725	0.8830	yes	N/A
P34064	PSA5_RAT	3, ., 4, ., 2, 5, ., 1	0.7427	0.9561	0.9958	yes	N/A
Q6L0W3	PSA_PICTO	3, ., 4, ., 2, 5, ., 1	0.3809	0.9043	0.9700	yes	N/A
Q18K08	PSA_HALWD	3, ., 4, ., 2, 5, ., 1	0.4	0.8406	0.844	yes	N/A
Q5V1D4	PSA2_HALMA	3, ., 4, ., 2, 5, ., 1	0.4292	0.8286	0.8524	yes	N/A
P32379	PSA5_YEAST	3, ., 4, ., 2, 5, ., 1	0.5836	1.0	0.9653	yes	N/A
Q97BZ8	PSA_THEVO	3, ., 4, ., 2, 5, ., 1	0.4	0.9003	0.9699	yes	N/A
A5UJS2	PSA_METS3	3, ., 4, ., 2, 5, ., 1	0.4206	0.9083	0.912	yes	N/A
Q9V122	PSA_PYRAB	3, ., 4, ., 2, 5, ., 1	0.4529	0.8804	0.85	yes	N/A
A9A846	PSA_METM6	3, ., 4, ., 2, 5, ., 1	0.4155	0.8964	0.8687	yes	N/A
Q94561	PSA5_ENTHI	3, ., 4, ., 2, 5, ., 1	0.625	0.8884	0.9028	N/A	N/A
Q3IPJ1	PSA_NATPD	3, ., 4, ., 2, 5, ., 1	0.4059	0.9083	0.8941	yes	N/A
Q8PTU1	PSA_METMA	3, ., 4, ., 2, 5, ., 1	0.4107	0.9163	0.9236	yes	N/A
C5A2C2	PSA_THEGJ	3, ., 4, ., 2, 5, ., 1	0.4255	0.8844	0.8538	yes	N/A
O26782	PSA_METTH	3, ., 4, ., 2, 5, ., 1	0.3849	0.9322	0.9435	yes	N/A
Q5JIU9	PSA_PYRKO	3, ., 4, ., 2, 5, ., 1	0.4261	0.8924	0.8615	yes	N/A
Q8TYB7	PSA_METKA	3, ., 4, ., 2, 5, ., 1	0.4377	0.9083	0.9268	yes	N/A
Q9UT97	PSA5_SCHPO	3, ., 4, ., 2, 5, ., 1	0.6016	0.9521	0.9676	yes	N/A
Q469M6	PSA_METBF	3, ., 4, ., 2, 5, ., 1	0.4057	0.9282	0.9357	yes	N/A
Q60177	PSA_METJA	3, ., 4, ., 2, 5, ., 1	0.4325	0.8366	0.8045	yes	N/A
Q9V2V6	PSA1_HALVD	3, ., 4, ., 2, 5, ., 1	0.4139	0.8406	0.8373	yes	N/A
B6YSH9	PSA_THEON	3, ., 4, ., 2, 5, ., 1	0.4273	0.8804	0.85	yes	N/A
O81149	PSA5A_ARATH	3, ., 4, ., 2, 5, ., 1	0.6291	0.9442	1.0	yes	N/A
B8GEZ3	PSA_METPE	3, ., 4, ., 2, 5, ., 1	0.4220	0.8286	0.8630	yes	N/A
Q5E987	PSA5_BOVIN	3, ., 4, ., 2, 5, ., 1	0.7551	0.9561	0.9958	yes	N/A
Q9LSU1	PSA5_ORYSJ	3, ., 4, ., 2, 5, ., 1	0.6375	0.9442	1.0	yes	N/A
Q8ZVM1	PSA_PYRAE	3, ., 4, ., 2, 5, ., 1	0.4366	0.8286	0.8559	yes	N/A
C6A459	PSA_THESM	3, ., 4, ., 2, 5, ., 1	0.4369	0.8804	0.85	yes	N/A
Q9M4T8	PSA5_SOYBN	3, ., 4, ., 2, 5, ., 1	0.6416	0.9442	1.0	yes	N/A
Q8U0L6	PSA_PYRFU	3, ., 4, ., 2, 5, ., 1	0.4340	0.8844	0.8538	yes	N/A
Q8TPX5	PSA_METAC	3, ., 4, ., 2, 5, ., 1	0.4098	0.9282	0.9433	yes	N/A
Q9XZG5	PSA5_TRYBB	3, ., 4, ., 2, 5, ., 1	0.5720	0.9322	0.9512	N/A	N/A
Q95083	PSA5_DROME	3, ., 4, ., 2, 5, ., 1	0.6926	0.9601	0.9877	yes	N/A
Q6M0L9	PSA_METMP	3, ., 4, ., 2, 5, ., 1	0.4110	0.9163	0.8880	yes	N/A
Q9Z2U1	PSA5_MOUSE	3, ., 4, ., 2, 5, ., 1	0.7551	0.9561	0.9958	yes	N/A

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	251
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	1e-142
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-111
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	1e-96
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	7e-87
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	3e-81
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	6e-78
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	5e-64
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	7e-64
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	9e-62
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	5e-59
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	3e-58
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	2e-56
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	9e-56
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	2e-53
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	6e-47
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	3e-41
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	8e-33
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	2e-30
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	3e-28
cd03763	189	cd03763, proteasome_beta_type_7, proteasome beta t	9e-16
cd03761	188	cd03761, proteasome_beta_type_5, proteasome beta t	2e-12
cd03757	212	cd03757, proteasome_beta_type_1, proteasome beta t	1e-11
pfam10584	23	pfam10584, Proteasome_A_N, Proteasome subunit A N-	5e-11
cd03762	188	cd03762, proteasome_beta_type_6, proteasome beta t	6e-11
smart00948	23	smart00948, Proteasome_A_N, Proteasome subunit A N	8e-11
PTZ00488	247	PTZ00488, PTZ00488, Proteasome subunit beta type-5	2e-08
cd03758	193	cd03758, proteasome_beta_type_2, proteasome beta t	2e-05
TIGR03691	228	TIGR03691, 20S_bact_alpha, proteasome, alpha subun	5e-04

>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score =  397 bits (1022), Expect = e-142
 Identities = 164/213 (76%), Positives = 182/213 (85%), Gaps = 1/213 (0%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI T EGVVLA EKRITS LMEPSS++KI
Sbjct: 1   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKI 60

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
           +EID HIGCA SGLIAD+R L D ARVE  NH FTY+E M +ESV QAVS+LA+QFG+ D
Sbjct: 61  MEIDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGD 120

Query: 128 E-ESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
           + + AMSRPFGVA+L AG+D  GPQLFH DPSGT+T+ DAKAIGSGSEGAQ SLQE YH+
Sbjct: 121 DGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHK 180

Query: 187 SMTLKEAINHVLTILKQVMEEKLNSTNVELCTV 219
            MTL+EA    L+ILKQVMEEKLNSTNVEL TV
Sbjct: 181 DMTLEEAEKLALSILKQVMEEKLNSTNVELATV 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 =  317 bits (816), Expect = e-111
 Identities = 108/213 (50%), Positives = 152/213 (71%), Gaps = 5/213 (2%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR + TFSPEGRLFQVEYA+EA+K GSTA+GI   +GVVLA EK++TS L++PSS++KI
Sbjct: 1   YDRSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKI 60

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
            +ID HIGCA +GL AD+R+L +RARVE  N+ +TY E + +E + + +++LA  +    
Sbjct: 61  FKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYT--- 117

Query: 128 EESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
            +    RPFGV++L AG D + GPQL+  DPSGTY  + A AIG GS+ A+  L++ Y +
Sbjct: 118 -QYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKK 176

Query: 187 SMTLKEAINHVLTILKQVMEEKLNSTNVELCTV 219
            +TL+EAI   L  LK+V+EE   + N+E+  V
Sbjct: 177 DLTLEEAIKLALKALKEVLEEDKKAKNIEIAVV 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|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional

 Score =  282 bits (723), Expect = 1e-96
 Identities = 110/239 (46%), Positives = 157/239 (65%), Gaps = 11/239 (4%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+GRL+QVEYA EA+K G+TA+G+ T +GVVLA +KRITS L+EPSSI+KI
Sbjct: 10  YDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKI 69

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQFG 124
            +ID HIG A++GL+AD+R+L DRARVE   +  TY E + +E++ + + +      Q G
Sbjct: 70  FKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHG 129

Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
                    RPFGVA+L AG+D  GP+LF  DPSG Y ++ A AIG+G +   + L++ Y
Sbjct: 130 G-------VRPFGVALLIAGVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNY 182

Query: 185 HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD-KMYHLYSKEELEEELSKVSS 242
            E ++L+EAI   L  L +  E KL+  NVE+  +  + K +   S EE+E+ L K+  
Sbjct: 183 KEDLSLEEAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKLLK 241

Length = 241

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

 Score =  256 bits (657), Expect = 7e-87
 Identities = 112/229 (48%), Positives = 152/229 (66%), Gaps = 11/229 (4%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+GRL+QVEYA EA+K G+TA+GI T +GVVLA +KRITS L+EPSSI+KI
Sbjct: 3   YDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKI 62

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQFG 124
            +ID HIG A SGL+AD+R+L DRAR+E   +  TY E +D+E++A+ + +L     Q G
Sbjct: 63  FKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHG 122

Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
                    RPFGVA+L AG+D  GP+LF  DPSG   ++ A AIG+G +   + L++ Y
Sbjct: 123 G-------VRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEY 175

Query: 185 HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTA-DKMYHLYSKEE 232
            E ++L EAI   L  L   +E+KL   NVE+  +T  DK +   S EE
Sbjct: 176 REDLSLDEAIELALKALYSAVEDKLTPENVEVAYITVEDKKFRKLSVEE 224

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 =  242 bits (620), Expect = 3e-81
 Identities = 109/217 (50%), Positives = 142/217 (65%), Gaps = 10/217 (4%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+GRL+QVEYA EA+K G+TA+GI   EGVVLA +KRITS L+EP SI+KI
Sbjct: 2   YDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKI 61

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQFG 124
            +ID H+G A SGL+AD+R+L DRARVE   H  TY E +D+E + + + +L     Q G
Sbjct: 62  YKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHG 121

Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
                    RPFGVA+L AG+D  GP+LF  DPSG Y ++ A AIGSG +   + L++ Y
Sbjct: 122 G-------VRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEY 174

Query: 185 HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTA 221
            E M+L+EAI   L  L   +EE     NVE+  VT 
Sbjct: 175 KEDMSLEEAIELALKALYAALEENETPENVEIAYVTV 211

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

 Score =  234 bits (600), Expect = 6e-78
 Identities = 100/239 (41%), Positives = 152/239 (63%), Gaps = 9/239 (3%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGISTSEGVVLAAEKRITSVLMEPSS-IK 65
           YDR +  FSPEGRLFQVEYA+EA+K  G+T +GI   +GVVLAA+KR TS L+  SS ++
Sbjct: 3   YDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVE 62

Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           KI +ID HIG A +GL AD+++L   AR E   +   Y E + +E++A+ +SN+  ++  
Sbjct: 63  KIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQ 122

Query: 126 SDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
           S       RP+GV++L AG+D  GP+L+  DPSG+Y ++ A AIGSGS+ A   L++ Y 
Sbjct: 123 S------GRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYR 176

Query: 186 ESMTLKEAINHVLTILKQVMEEKLNST-NVELCTVTADKMYHLYSKEELEEELSKVSSI 243
           E ++L+EAI   +  L+  +E    S   +E+  +T D+ +     EE+++ L  +S  
Sbjct: 177 EDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLSEK 235

Length = 236

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score =  199 bits (507), Expect = 5e-64
 Identities = 78/231 (33%), Positives = 136/231 (58%), Gaps = 4/231 (1%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           Y   + TFSP G+L Q+EYA+ A+  G+ ++GI  + GVVLA EK++ S L++ SS+ K+
Sbjct: 1   YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKV 60

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
            +I  HIG   SG+  D R+L  +AR     ++  Y E + +  + + ++++  ++    
Sbjct: 61  EQITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEY---- 116

Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES 187
            +S   RPFGV++L AG D  GP L+ +DPSG+Y  + A AIG     A+  L++ Y+E 
Sbjct: 117 TQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNED 176

Query: 188 MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELS 238
           + L++AI+  +  LK+  E ++   N+E+      K + L +  E+++ L+
Sbjct: 177 LELEDAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYLA 227

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|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score =  198 bits (505), Expect = 7e-64
 Identities = 89/220 (40%), Positives = 135/220 (61%), Gaps = 13/220 (5%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS-SI 64
             YD     FSPEGRL+QVEYA+EAI    T +GI   +G+VLAAEK++TS L++ S S 
Sbjct: 1   RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSS 60

Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---I 121
           +KI +ID HI CA +G+ +D+ IL + AR+    + ++Y E + +E + Q + ++     
Sbjct: 61  EKIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYT 120

Query: 122 QFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
           Q+G         RPFGV+ L+AG D   G QL+  DPSG Y+ + A AIG+ ++ AQ  L
Sbjct: 121 QYGG-------LRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLL 173

Query: 181 QEVYHESMTLKEAINHVLTILKQVME-EKLNSTNVELCTV 219
           ++ Y + MTL+EA+   + +L + M+  KL S  +E  T+
Sbjct: 174 KQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL 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|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score =  192 bits (490), Expect = 9e-62
 Identities = 81/210 (38%), Positives = 131/210 (62%), Gaps = 7/210 (3%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+G LFQVEYA EA++ G+TA+G+   + VVL  EK+  + L +P +++KI
Sbjct: 1   YDRAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKI 60

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D H+  A +GL AD+R+L +RAR+EC +H  T ++ + +E + + ++ L  ++    
Sbjct: 61  CMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRY---- 116

Query: 128 EESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
            +S   RPFG++ L  G D  G P+L+  DPSGTY+ + A AIG  S+  ++ L++ Y E
Sbjct: 117 TQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKE 176

Query: 187 SMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
            MT  + I   +  L +V++    S N+EL
Sbjct: 177 EMTRDDTIKLAIKALLEVVQ--SGSKNIEL 204

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|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score =  184 bits (470), Expect = 5e-59
 Identities = 80/188 (42%), Positives = 122/188 (64%), Gaps = 9/188 (4%)

Query: 35  STAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +GI   +GVVLAA+KR+TS L+   S+++KI +ID HIGCA +GL AD++ L +R R
Sbjct: 1   TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60

Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQL 152
            E   +   Y E + +E++A+ ++NL  ++  S       RP GV++L AG+D + GPQL
Sbjct: 61  KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQS------LRPLGVSLLVAGVDEEGGPQL 114

Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS- 211
           + +DPSG+Y ++ A AIGSGS+ A   L+++Y   MTL+EAI   L  LK  +E  L S 
Sbjct: 115 YSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSG 174

Query: 212 TNVELCTV 219
            N+E+  +
Sbjct: 175 GNIEVAVI 182

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

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

 Score =  183 bits (466), Expect = 3e-58
 Identities = 72/193 (37%), Positives = 113/193 (58%), Gaps = 9/193 (4%)

Query: 31  IKLGSTAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAASGLIADSRIL 88
           +K G+T +GI   +GVVLAA+KR T  S L+   +++KI +ID HIG A +GL AD++ L
Sbjct: 1   VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60

Query: 89  TDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK 148
            D AR E   +   Y   + +E   +    L         + +  RP+GV++L AG D  
Sbjct: 61  VDYARAEAQLYRLRYGRPISVELAKRIADKLQAYT-----QYSGRRPYGVSLLIAGYDED 115

Query: 149 G-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME- 206
           G P L+ +DPSG+  ++ A AIGSGS+ A   L+++Y   MTL+EA+   +  LK+ +E 
Sbjct: 116 GGPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIER 175

Query: 207 EKLNSTNVELCTV 219
           + L+  N+E+  +
Sbjct: 176 DALSGGNIEVAVI 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|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score =  179 bits (455), Expect = 2e-56
 Identities = 83/211 (39%), Positives = 121/211 (57%), Gaps = 5/211 (2%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
           + YD   +TFSP+GR+FQVEYA +A++   TAIGI   +GVVLA EK +TS L EP S K
Sbjct: 2   TGYDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNK 61

Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           +I  +D+HIG A +GL+AD R L  RAR E  N+   Y   + ++ +A  V+     +  
Sbjct: 62  RIFNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTL 121

Query: 126 SDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
                   RPFG ++L  G DS GPQL+ ++PSG    +   AIG G + A+  L+++  
Sbjct: 122 YSS----VRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKF 177

Query: 186 ESMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
             +T +EA+     I+  V +E +     EL
Sbjct: 178 SELTCREAVKEAAKIIYIVHDE-IKDKAFEL 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 = 212

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score =  177 bits (451), Expect = 9e-56
 Identities = 88/219 (40%), Positives = 124/219 (56%), Gaps = 16/219 (7%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YD  V T+SP+GRLFQVEYA+EA+K GS  +G+ +    VL A KR TS L   S  KKI
Sbjct: 1   YDTDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSEL--SSYQKKI 58

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQFG 124
            ++D HIG A +GL AD+R+L+   R EC N+ F YD  + +  +   V+  A    Q  
Sbjct: 59  FKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRY 118

Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
                    RP+GV +L AG D  GP LF   PSG Y ++ A +IG+ S+ A+  L+  +
Sbjct: 119 G-------RRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHF 171

Query: 185 HESM--TLKEAINHVLTILKQVM--EEKLNSTNVELCTV 219
            E    +L+E I H L  L++ +  E++L   NV +  V
Sbjct: 172 EEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIV 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|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional

 Score =  172 bits (438), Expect = 2e-53
 Identities = 93/245 (37%), Positives = 142/245 (57%), Gaps = 18/245 (7%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI-KK 66
           YD    TFSPEGRL+QVEYA+EAI   S  +GI   EGV+L A+K I+S L++P  I +K
Sbjct: 5   YDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEK 64

Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQF 123
           I +ID HI CA +GL AD+ IL ++ R+    + +TY E   +E +   + +L     QF
Sbjct: 65  IYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQF 124

Query: 124 GDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQE 182
           G         RPFGV+ LFAG D   G QL+H DPSG Y+ + A AIG  ++ AQ  L++
Sbjct: 125 GG-------LRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQ 177

Query: 183 VYHESMTLKEAINHVLTILKQVMEEKLNSTN-VELCTVTADK-----MYHLYSKEELEEE 236
            + E +TL++ +     +L + M+      + +E+  ++  +     +  + S++E+ E 
Sbjct: 178 EWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAEL 237

Query: 237 LSKVS 241
           L KV+
Sbjct: 238 LKKVT 242

Length = 253

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score =  155 bits (393), Expect = 6e-47
 Identities = 65/215 (30%), Positives = 117/215 (54%), Gaps = 10/215 (4%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGISTSEGVVLAAEKRITSVLMEPSSIKK 66
           +DR +  FSPEGRL+QVEYA +A+K    T++ +   +  V+  +K++   L++PS++  
Sbjct: 2   FDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTH 61

Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           +  I   IGC  +G+IADSR    RAR E A   + Y  +M ++ +A+ ++++   +   
Sbjct: 62  LFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVY--- 118

Query: 127 DEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY- 184
             + A  RP GV+M+  G+D   GPQL+  DP+G +  + A A G   + A   L++   
Sbjct: 119 -TQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLK 177

Query: 185 ---HESMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
                  + +E +   ++ L+ V+     +T +E+
Sbjct: 178 KKPDLIESYEETVELAISCLQTVLSTDFKATEIEV 212

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

>gnl|CDD|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 =  138 bits (350), Expect = 3e-41
 Identities = 58/170 (34%), Positives = 92/170 (54%), Gaps = 9/170 (5%)

Query: 35  STAIGISTSEGVVLAAEKRITSVLMEP-SSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           ST++ I    GVVLAA+KR++S L    S + KI + +  I    +GL AD++ L  R R
Sbjct: 1   STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60

Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
                +   Y E + + ++A+ ++ L   +          RPFGV ++ AG+D  G  L+
Sbjct: 61  EALQLYRLRYGEPISVVALAKELAKLLQVYTQ-------GRPFGVNLIVAGVDEGGGNLY 113

Query: 154 HLDPSGTYTQF-DAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILK 202
           ++DPSG   +   A A GS S+ A+  L+++Y   MTL+EA+   L  LK
Sbjct: 114 YIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALK 163

N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-layered alpha, beta, beta, alpha core structure. This family of hydrolases includes penicillin acylase, the 20S proteasome alpha and beta subunits, and glutamate synthase. The mechanism of activation of these proteins is conserved, although they differ in their substrate specificities. All known members catalyze the hydrolysis of amide bonds in either proteins or small molecules, and each one of them is synthesized as a preprotein. For each, an autocatalytic endoproteolytic process generates a new N-terminal residue. This mature N-terminal residue is central to catalysis and acts as both a polarizing base and a nucleophile during the reaction. The N-terminal amino group acts as the proton acceptor and activates either the nucleophilic hydroxyl in a Ser or Thr residue or the nucleophilic thiol in a Cys residue. The position of the N-terminal nucleophile in the active site and the mechanism of catalysis are conserved in this family, despite considerable variation in the protein sequences. Length = 164

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

 Score =  117 bits (296), Expect = 8e-33
 Identities = 58/193 (30%), Positives = 100/193 (51%), Gaps = 10/193 (5%)

Query: 34  GSTAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G+T +GI   +GVVLAA+KR +    +   + KK+ +ID +I    +G + D++ L    
Sbjct: 1   GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQL 152
           + E   +       M ++++A  +SN+          S    PF V +L  G+D +GP L
Sbjct: 61  KAEAKLYELRRGRPMSVKALATLLSNIL--------NSNRFFPFIVQLLVGGVDEEGPHL 112

Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNST 212
           + LDP+G   + D  A GSGS  A   L++ Y E M+++EA    +  +K  +E  + S 
Sbjct: 113 YSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASG 172

Query: 213 N-VELCTVTADKM 224
           N +++  +T D +
Sbjct: 173 NGIDVAVITKDGV 185

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 =  111 bits (280), Expect = 2e-30
 Identities = 58/194 (29%), Positives = 96/194 (49%), Gaps = 10/194 (5%)

Query: 36  TAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T +GI   +GVVLAA+KR +    +   ++KKI +ID  I    +G + D++ L    + 
Sbjct: 2   TTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKA 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
           E   +       M I+++A  +SN+          S+   P+ V +L  G+D +GP L+ 
Sbjct: 62  EARLYELRRGRPMSIKALATLLSNIL--------NSSKYFPYIVQLLIGGVDEEGPHLYS 113

Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-TN 213
           LDP G+  +    A GSGS  A   L++ Y E MT++EA    +  +K  +E    S   
Sbjct: 114 LDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDG 173

Query: 214 VELCTVTADKMYHL 227
           +++  +T D    L
Sbjct: 174 IDVVVITKDGYKEL 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|238893 cd01912, proteasome_beta, proteasome beta subunit

 Score =  105 bits (265), Expect = 3e-28
 Identities = 54/192 (28%), Positives = 94/192 (48%), Gaps = 11/192 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITSVLMEPSS-IKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T +GI   +GVVLAA+ R ++  +  S    KI +I  +I    +G  AD++ LT   + 
Sbjct: 2   TIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKR 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
               +      ++ +++ A  +SN+          S    P+ V+++  G+D   GP L+
Sbjct: 62  NLRLYELRNGRELSVKAAANLLSNIL--------YSYRGFPYYVSLIVGGVDKGGGPFLY 113

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
           ++DP G+  +    A GSGS+ A   L   Y   MTL+EA+  V   +   +E  L+S  
Sbjct: 114 YVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGG 173

Query: 213 NVELCTVTADKM 224
            V++  +T D +
Sbjct: 174 GVDVAVITKDGV 185

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

 Score = 72.6 bits (179), Expect = 9e-16
 Identities = 49/195 (25%), Positives = 87/195 (44%), Gaps = 13/195 (6%)

Query: 36  TAIGISTSEGVVLAAEKRITS--VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           T +G+   +GVVL A+ R T   ++ +  + +KI  I  +I C  +G  AD+  +T+   
Sbjct: 2   TIVGVVFKDGVVLGADTRATEGPIVAD-KNCEKIHYIAPNIYCCGAGTAADTEAVTNMIS 60

Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
                H      K  + +    +     ++             G A++  G+D  GP L+
Sbjct: 61  SNLELHRLNTGRKPRVVTALTMLKQHLFRYQGH---------IGAALVLGGVDYTGPHLY 111

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHV-LTILKQVMEEKLNST 212
            + P G+  +     +GSGS  A   L++ Y   MT +EA   V   I   +  +  + +
Sbjct: 112 SIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDLGSGS 171

Query: 213 NVELCTVTADKMYHL 227
           NV+LC +T D + +L
Sbjct: 172 NVDLCVITKDGVEYL 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 = 189

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

 Score = 63.4 bits (155), Expect = 2e-12
 Identities = 40/165 (24%), Positives = 79/165 (47%), Gaps = 17/165 (10%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIAD----SRILTD 90
           T +      GV++A + R T+   +   ++KK++EI+ ++    +G  AD     R+L  
Sbjct: 2   TTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLG- 60

Query: 91  RARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGP 150
               EC  +     E++ + + ++ +SN+  Q+        +S    +  +  G D  GP
Sbjct: 61  ---RECRLYELRNKERISVAAASKLLSNMLYQYKGMG----LS----MGTMICGWDKTGP 109

Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAIN 195
            L+++D  GT  + D  ++GSGS  A   L   Y   ++++EA +
Sbjct: 110 GLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYD 154

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

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

 Score = 61.9 bits (151), Expect = 1e-11
 Identities = 46/204 (22%), Positives = 90/204 (44%), Gaps = 26/204 (12%)

Query: 34  GSTAIGISTSEGVVLAAEKRITSVLMEPSS-IKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G T + I+ ++  V+A + R++      S    KI ++       +SG  AD   LT R 
Sbjct: 8   GGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRL 67

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQ---FGDSDEESAMSRPFGVAMLFAGLDSKG 149
           +     + ++++++M  E++AQ +S +      F           P+ V  + AG+D +G
Sbjct: 68  KARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFF-----------PYYVFNILAGIDEEG 116

Query: 150 -PQLFHLDPSGTYTQFDAKAIGSGSEGAQ---------QSLQEVYHESMTLKEAINHVLT 199
              ++  DP G+Y +    A GS S   Q         ++   V    ++L+EA++ V  
Sbjct: 117 KGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKD 176

Query: 200 ILKQVMEEKLNS-TNVELCTVTAD 222
                 E  + +  ++E+  +T D
Sbjct: 177 AFTSAAERDIYTGDSLEIVIITKD 200

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|204518 pfam10584, Proteasome_A_N, Proteasome subunit A N-terminal signature

 Score = 55.5 bits (135), Expect = 5e-11
 Identities = 17/23 (73%), Positives = 21/23 (91%)

Query: 8  YDRGVNTFSPEGRLFQVEYAIEA 30
          YDR + TFSP+GRLFQVEYA++A
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMKA 23

This domain is conserved in the A subunits of the proteasome complex proteins. Length = 23

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

 Score = 59.5 bits (145), Expect = 6e-11
 Identities = 50/193 (25%), Positives = 76/193 (39%), Gaps = 14/193 (7%)

Query: 36  TAIGISTSEGVVLAAEKRITSVLMEPSS--IKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           T I +    GVVL A+ R TS     ++    K+ ++   I C  SG  AD++ + D  R
Sbjct: 2   TIIAVEYDGGVVLGADSR-TSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVR 60

Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQL 152
                H     E   +++ A    NL   +   +  SA        ++ AG D   G Q+
Sbjct: 61  YYLDMHSIELGEPPLVKTAASLFKNLCYNY--KEMLSA-------GIIVAGWDEQNGGQV 111

Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNST 212
           + +   G   +      GSGS      +   Y   MTL+E I  V   L   M    +S 
Sbjct: 112 YSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSG 171

Query: 213 NV-ELCTVTADKM 224
            V  L  +T D +
Sbjct: 172 GVIRLVIITKDGV 184

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

>gnl|CDD|198016 smart00948, Proteasome_A_N, Proteasome subunit A N-terminal signature Add an annotation

 Score = 55.2 bits (134), Expect = 8e-11
 Identities = 18/23 (78%), Positives = 21/23 (91%)

Query: 8  YDRGVNTFSPEGRLFQVEYAIEA 30
          YDR + TFSP+GRLFQVEYA+EA
Sbjct: 1  YDRSLTTFSPDGRLFQVEYAMEA 23

This domain is conserved in the A subunits of the proteasome complex proteins. Length = 23

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

 Score = 53.1 bits (127), Expect = 2e-08
 Identities = 36/163 (22%), Positives = 74/163 (45%), Gaps = 13/163 (7%)

Query: 34  GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G+T +      G+++A + + T+   +   S+KK++EI+  +    +G  AD        
Sbjct: 39  GTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWEREL 98

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAM--LFAGLDSKGP 150
            ++C  +     E + + + ++ ++N+   +          +  G++M  +  G D KGP
Sbjct: 99  AMQCRLYELRNGELISVAAASKILANIVWNY----------KGMGLSMGTMICGWDKKGP 148

Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA 193
            LF++D  GT    +  + GSGS  A   L   +   +  +EA
Sbjct: 149 GLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEA 191

Length = 247

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

 Score = 44.1 bits (105), Expect = 2e-05
 Identities = 46/166 (27%), Positives = 70/166 (42%), Gaps = 18/166 (10%)

Query: 36  TAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T IGI   + V+LAA+     S+L+      KI ++  H   A SG   D     +   +
Sbjct: 3   TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEY--I 60

Query: 95  ECANHWFTYDEKMDIESVAQAVS----NLAIQFGDSDEESAMSR-PFGVAMLFAGLDSK- 148
           +     +      ++ S   A +     LA        ES  SR P+ V +L AG D   
Sbjct: 61  QKNIQLYKMRNGYEL-SPKAAANFTRRELA--------ESLRSRTPYQVNLLLAGYDKVE 111

Query: 149 GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAI 194
           GP L+++D  GT  +    A G G+      L   Y   MT++EA+
Sbjct: 112 GPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEAL 157

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|163403 TIGR03691, 20S_bact_alpha, proteasome, alpha subunit, bacterial type

 Score = 39.7 bits (93), Expect = 5e-04
 Identities = 44/204 (21%), Positives = 88/204 (43%), Gaps = 31/204 (15%)

Query: 25  EYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIA 83
           E A + I  G + + ++ ++G++  AE         PS S+ KI E+   IG AA G   
Sbjct: 18  ELARKGIARGRSVVVLTYADGILFVAEN--------PSRSLHKISELYDRIGFAAVGKYN 69

Query: 84  DSRILTDRARVECAN-HWFTYDEKMDIESVAQAVSNLAIQ-----FGDSDEESAMSRPFG 137
           +   L  RA +  A+   ++YD +   +   + ++N   Q     F      +   +P+ 
Sbjct: 70  EFENLR-RAGIRYADMRGYSYDRR---DVTGRGLANAYAQTLGTIF------TEQQKPYE 119

Query: 138 VAMLFA--GLDSKGPQLFHLDPSGTYT-QFDAKAIGSGSEGAQQSLQEVYHESMTLKEAI 194
           V +  A  G      QL+ +   G+   +     +G  +E    +L+E Y + ++L +A+
Sbjct: 120 VEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESYRDGLSLADAL 179

Query: 195 N---HVLTILKQVMEEKLNSTNVE 215
                 L       + +L++ ++E
Sbjct: 180 GLAVQALRAGGNGEKRELDAASLE 203

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 [Protein fate, Degradation of proteins, peptides, and glycopeptides]. Length = 228

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	251
KOG0176|consensus	241		100.0
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	100.0
PRK03996	241	proteasome subunit alpha; Provisional	100.0
PTZ00246	253	proteasome subunit alpha; Provisional	100.0
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	100.0
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	100.0
KOG0183|consensus	249		100.0
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	100.0
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	100.0
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	100.0
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	100.0
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	100.0
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	100.0
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	100.0
KOG0181|consensus	233		100.0
KOG0184|consensus	254		100.0
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	100.0
KOG0178|consensus	249		100.0
KOG0863|consensus	264		100.0
KOG0182|consensus	246		100.0
PTZ00488	247	Proteasome subunit beta type-5; Provisional	100.0
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	100.0
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	100.0
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	100.0
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	100.0
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
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	100.0
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	100.0
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	100.0
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	100.0
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	100.0
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	100.0
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	100.0
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	100.0
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	100.0
KOG0175|consensus	285		100.0
KOG0177|consensus	200		100.0
KOG0179|consensus	235		100.0
KOG0174|consensus	224		100.0
KOG0173|consensus	271		100.0
KOG0185|consensus	256		100.0
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.98
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.97
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.97
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.97
KOG0180|consensus	204		99.96
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	99.5
COG3484	255	Predicted proteasome-type protease [Posttranslatio	99.33
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	99.25
PF09894	194	DUF2121: Uncharacterized protein conserved in arch	96.1
COG4079	293	Uncharacterized protein conserved in archaea [Func	94.35
KOG3361|consensus	157		82.28

>KOG0176|consensus

Probab=100.00  E-value=1.6e-66  Score=408.64  Aligned_cols=239  Identities=71%  Similarity=1.096  Sum_probs=231.5

Q ss_pred             CCCCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEecc
Q psy5094           1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASG   80 (251)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG   80 (251)
                      ||++|++||+.+++|||||||||||||++|++.|+|.|||+.++|||||++||.+++|+.+....||++|++||+|++||
T Consensus         1 mfltrseydrgVNTfSpEGRlfQVEYaieAikLGsTaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid~HIgca~SG   80 (241)
T KOG0176|consen    1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEIDDHIGCAMSG   80 (241)
T ss_pred             CcccHHHhcccccccCCCceeeehhhHHHHHhcCCceeeeeccceEEEEEeccccCcccCchhhhhheehhhceeeeccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCcccc-ccccCCcceeeEEEEEcCCCCeEEEECCCC
Q psy5094          81 LIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSG  159 (251)
Q Consensus        81 ~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~-~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G  159 (251)
                      +.+|++.+++++|.+|++|++.|+++++++.+++.++++..+|....+. ..++|||||++|+||+|+.||+||+.||+|
T Consensus        81 l~aDarTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~msRPFGValliAG~D~~gpqL~h~dPSG  160 (241)
T KOG0176|consen   81 LIADARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIMSRPFGVALLIAGHDETGPQLYHLDPSG  160 (241)
T ss_pred             cccchHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhhcCCcceEEEEeeccCCCceEEEeCCCC
Confidence            9999999999999999999999999999999999999999888776443 567899999999999999999999999999


Q ss_pred             ceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHh
Q psy5094         160 TYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK  239 (251)
Q Consensus       160 ~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~  239 (251)
                      ++.+|++-|+|+|+.-+.+.|++.|+++++++||+.+++..|+.+++..++.+|+++.+|++++++++++++|++.++.+
T Consensus       161 tf~~~~AKAIGSgsEga~~~L~~e~~~~ltL~ea~~~~L~iLkqVMeeKl~~~Nvev~~vt~e~~f~~~t~EE~~~~i~~  240 (241)
T KOG0176|consen  161 TFIRYKAKAIGSGSEGAESSLQEEYHKDLTLKEAEKIVLKILKQVMEEKLNSNNVEVAVVTPEGEFHIYTPEEVEQVIKR  240 (241)
T ss_pred             ceEEecceeccccchHHHHHHHHHHhhcccHHHHHHHHHHHHHHHHHHhcCccceEEEEEcccCceEecCHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999989999999999998764

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=100.00  E-value=7.4e-62  Score=409.84  Aligned_cols=226  Identities=35%  Similarity=0.640  Sum_probs=219.0

Q ss_pred             CCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHH
Q psy5094           8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRI   87 (251)
Q Consensus         8 yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   87 (251)
                      ||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|++.+++++.+++.+||++|++|++|+++|..+|++.
T Consensus         1 yd~~~t~fsp~Grl~QveyA~~av~~G~t~igik~~dgVvlaad~~~~~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (227)
T cd03750           1 YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGMVYSGMGPDFRV   80 (227)
T ss_pred             CCCCCceECCCCeEhHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecCCccccCCCCcceEEEEcCCEEEEEeEcHHhHHH
Confidence            89999999999999999999999999999999999999999999999887877889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEE
Q psy5094          88 LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAK  167 (251)
Q Consensus        88 l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~  167 (251)
                      +.+.++.+++.|++.++++++++.+++.|++.+|.|+++++.    |||+|++||+|||++||+||++||+|++.+++++
T Consensus        81 l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~----rP~~v~~li~G~D~~g~~Ly~~d~~G~~~~~~~~  156 (227)
T cd03750          81 LVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGV----RPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKAT  156 (227)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCC----CChheEEEEEEEeCCCCEEEEECCCCCEEeeeEE
Confidence            999999999999999999999999999999999999998766    9999999999999889999999999999999999


Q ss_pred             EeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHH
Q psy5094         168 AIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEEL  237 (251)
Q Consensus       168 a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~  237 (251)
                      |+|+|+..++++||++|+++|+++||++++++||+.+.++++++++++|++|++++++++++++||++++
T Consensus       157 a~G~g~~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~~~l~~~~iev~iv~~~~~~~~~~~~ei~~~~  226 (227)
T cd03750         157 AIGKNYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYL  226 (227)
T ss_pred             EECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCEEECCHHHHHHHh
Confidence            9999999999999999999999999999999999999988888899999999998789999999999876

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

>PRK03996 proteasome subunit alpha; Provisional

Probab=100.00  E-value=1.8e-60  Score=404.83  Aligned_cols=236  Identities=46%  Similarity=0.772  Sum_probs=225.5

Q ss_pred             CCCCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEecc
Q psy5094           1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASG   80 (251)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG   80 (251)
                      |...+++||.++|+|||+|||+|||||.+|+++|+|+|||+++||||||+|++.++++...++.+||+.|+++++|+++|
T Consensus         3 ~~~~~~~y~~~~~~fsp~Gr~~Q~eya~~av~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG   82 (241)
T PRK03996          3 MQPQQMGYDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGAASAG   82 (241)
T ss_pred             CCccccccCCCCceECCCCeEhHHHHHHHHHHhCCCEEEEEeCCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEcc
Confidence            34478999999999999999999999999999999999999999999999999998777778899999999999999999


Q ss_pred             chhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCc
Q psy5094          81 LIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGT  160 (251)
Q Consensus        81 ~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~  160 (251)
                      ..+|++.++++++.+++.|++.++++++++.+++.+++.+|.|+++++.    |||+|++||||||++||+||.+||+|+
T Consensus        83 ~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~----rP~~~~~ilaG~d~~gp~Ly~id~~G~  158 (241)
T PRK03996         83 LVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGV----RPFGVALLIAGVDDGGPRLFETDPSGA  158 (241)
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCc----cchheEEEEEEEeCCcCEEEEECCCCC
Confidence            9999999999999999999999999999999999999999999998776    999999999999988999999999999


Q ss_pred             eeecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCC-EEEcCHHHHHHHHHh
Q psy5094         161 YTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKM-YHLYSKEELEEELSK  239 (251)
Q Consensus       161 ~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~-~~~~~~~ei~~~~~~  239 (251)
                      +.+++++|+|+|+..++++|++.|+++|+++||++++++||+.+.+++.++++++|++|+++++ ++.++++|++++++.
T Consensus       159 ~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eeai~l~~~al~~~~~~~~~~~~i~i~ii~~~~~~~~~~~~~ei~~~~~~  238 (241)
T PRK03996        159 YLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEK  238 (241)
T ss_pred             eecceEEEECCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCcEEECCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999988777888999999999865 999999999999876


Q ss_pred             h
Q psy5094         240 V  240 (251)
Q Consensus       240 ~  240 (251)
                      +
T Consensus       239 ~  239 (241)
T PRK03996        239 L  239 (241)
T ss_pred             h
Confidence            5

>PTZ00246 proteasome subunit alpha; Provisional

Probab=100.00  E-value=6.5e-60  Score=403.96  Aligned_cols=235  Identities=37%  Similarity=0.624  Sum_probs=222.1

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchh
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIA   83 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~   83 (251)
                      .++||+++|+|||+|||+|||||++|+++|+|+|||+++||||||+|++.+++++. .++.+||++|+++++|+++|..+
T Consensus         2 ~~~yd~~~~~fsp~Grl~QvEYA~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~   81 (253)
T PTZ00246          2 SRRYDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTA   81 (253)
T ss_pred             CCccCCCCceECCCCEEhHHHHHHHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHH
Confidence            56899999999999999999999999999999999999999999999999997765 45689999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEc-CCCCeEEEECCCCcee
Q psy5094          84 DSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYT  162 (251)
Q Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~~  162 (251)
                      |++.+.+.+|.+++.|++.++++++++.+++.++..+|.|+|+++.    |||+|++||+||| +.||+||.+||+|++.
T Consensus        82 D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~----rP~~v~~li~G~D~~~gp~Ly~~D~~Gs~~  157 (253)
T PTZ00246         82 DANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGL----RPFGVSFLFAGYDENLGYQLYHTDPSGNYS  157 (253)
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCc----ccCCEEEEEEEEeCCCCcEEEEECCCCCEe
Confidence            9999999999999999999999999999999999999999998766    9999999999999 4789999999999999


Q ss_pred             ecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCC-----CEEEcCHHHHHHH
Q psy5094         163 QFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADK-----MYHLYSKEELEEE  236 (251)
Q Consensus       163 ~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~-----~~~~~~~~ei~~~  236 (251)
                      +++++|+|+|+.+++++|++.|+++|+++||++++++||+.+.+++. ++++++|++|++++     .|++++++||+++
T Consensus       158 ~~~~~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~al~~~~~~d~~s~~~vev~ii~~~~~~~~~~~~~l~~~ei~~~  237 (253)
T PTZ00246        158 GWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAEL  237 (253)
T ss_pred             cceEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEecCCcCCCCCeEECCHHHHHHH
Confidence            99999999999999999999999999999999999999999998875 67899999999874     3899999999999


Q ss_pred             HHhhccC
Q psy5094         237 LSKVSSI  243 (251)
Q Consensus       237 ~~~~~~~  243 (251)
                      +.++.+.
T Consensus       238 l~~~~~~  244 (253)
T PTZ00246        238 LKKVTQE  244 (253)
T ss_pred             HHHHhhh
Confidence            9988754

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=100.00  E-value=2.3e-58  Score=384.27  Aligned_cols=210  Identities=40%  Similarity=0.626  Sum_probs=201.6

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHH
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADS   85 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   85 (251)
                      ++||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|++.++.++..++.+||++|++|++|+++|..+|+
T Consensus         2 ~~yd~~~t~fsp~Grl~Qveya~~a~~~G~tvIgik~kdgVvla~d~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   81 (212)
T cd03751           2 TGYDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVDRHIGIAVAGLLADG   81 (212)
T ss_pred             CCccCCCceECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEEccccccccCcchhcceeEecCcEEEEEEEChHhH
Confidence            78999999999999999999999999999999999999999999999998877767788999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecC
Q psy5094          86 RILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFD  165 (251)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~  165 (251)
                      +.+.++++.+++.|++.++++++++.+++.|++++|.|+++++.    |||+|++||+|||++||+||.+||+|++.+++
T Consensus        82 ~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~----rP~~vs~li~G~D~~gp~Ly~~D~~Gs~~~~~  157 (212)
T cd03751          82 RHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSV----RPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYF  157 (212)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCc----CCceEEEEEEEEeCCcCEEEEECCCCCEEeeE
Confidence            99999999999999999999999999999999999999998776    99999999999998899999999999999999


Q ss_pred             EEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhh-cCCCCcEEEEEE
Q psy5094         166 AKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTV  219 (251)
Q Consensus       166 ~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~-d~~~~~i~i~~i  219 (251)
                      ++|+|+|+..++++||+.|+++||++||+++++++|+.+.+. +.+..+|||.++
T Consensus       158 ~~a~G~g~~~a~~~Lek~~~~dms~eeai~l~~~~L~~~~~~~~~~~~~iei~~~  212 (212)
T cd03751         158 GCAIGKGKQAAKTELEKLKFSELTCREAVKEAAKIIYIVHDEIKDKAFELELSWV  212 (212)
T ss_pred             EEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhhccCCCCccEEEEEC
Confidence            999999999999999999999999999999999999999985 468889999874

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

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=100.00  E-value=4.6e-58  Score=386.13  Aligned_cols=223  Identities=49%  Similarity=0.811  Sum_probs=212.1

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHH
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADS   85 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   85 (251)
                      .+||.++|+|||+|||+|||||.+++++|+|+|||+++||||||+|++.+.++...++.+||++|+++++|++||..+|+
T Consensus         1 ~~~~~~~~~f~p~Grl~Qieya~~av~~G~tvigi~~~dgvvlaad~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   80 (224)
T TIGR03633         1 MGYDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGAATSGLVADA   80 (224)
T ss_pred             CCCCCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCccccCCCccceEEEECCCEEEEEeecHHhH
Confidence            47999999999999999999999999999999999999999999999998777777889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecC
Q psy5094          86 RILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFD  165 (251)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~  165 (251)
                      +.+.+.++.++..|++.++++++++.+++.|++.+|.|+++++.    |||+|++||||+|++||+||.+||.|++.+++
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~----rP~~v~~ll~G~d~~~~~Ly~~D~~G~~~~~~  156 (224)
T TIGR03633        81 RVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGV----RPFGVALLIAGVDDGGPRLFETDPSGALLEYK  156 (224)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCc----cccceEEEEEEEeCCcCEEEEECCCCCeecce
Confidence            99999999999999999999999999999999999999998766    99999999999998899999999999999999


Q ss_pred             EEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCC-EEEcCHHH
Q psy5094         166 AKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKM-YHLYSKEE  232 (251)
Q Consensus       166 ~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~-~~~~~~~e  232 (251)
                      ++++|+++.+++++|++.|+++|+.+||++++++||+.+.++..++++++|++|+++++ |++++++|
T Consensus       157 ~~a~G~g~~~~~~~L~~~~~~~~~~eeai~l~~~al~~~~~d~~~~~~i~i~ii~~~g~~~~~~~~~~  224 (224)
T TIGR03633       157 ATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSAVEDKLTPENVEVAYITVEDKKFRKLSVEE  224 (224)
T ss_pred             EEEECCCCHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEEcCCCcEEECCCCC
Confidence            99999999999999999999999999999999999999988335778899999999865 88888875

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.

>KOG0183|consensus

Probab=100.00  E-value=2.9e-58  Score=366.13  Aligned_cols=232  Identities=36%  Similarity=0.655  Sum_probs=220.5

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHH
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADS   85 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   85 (251)
                      +.||+.+|+|||||+|+|||||++|+.+|+|+||++++|+|||+++++...+|...+...||..+++|++|+++|+.+|+
T Consensus         2 srydraltvFSPDGhL~QVEYAqEAvrkGstaVgvrg~~~vvlgvEkkSv~~Lq~~r~~rkI~~ld~hV~mafaGl~aDA   81 (249)
T KOG0183|consen    2 SRYDRALTVFSPDGHLFQVEYAQEAVRKGSTAVGVRGNNCVVLGVEKKSVPKLQDERTVRKISMLDDHVVMAFAGLTADA   81 (249)
T ss_pred             CccccceEEECCCCCEEeeHhHHHHHhcCceEEEeccCceEEEEEeecchhhhhhhhhhhhheeecceeeEEecCCCccc
Confidence            67999999999999999999999999999999999999999999999988889888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCC-CeEEEECCCCceeec
Q psy5094          86 RILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQF  164 (251)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g-p~Ly~id~~G~~~~~  164 (251)
                      +.+++.+|.+|+.|+++.+.|++++.++++|+.+.|+|||.+|.    ||||+++||+|||.+| |+||++||+|.+.+|
T Consensus        82 rilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~gr----RPFGvs~Li~GfD~~g~p~lyqtePsG~f~ew  157 (249)
T KOG0183|consen   82 RILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGR----RPFGVSTLIGGFDPDGTPRLYQTEPSGIFSEW  157 (249)
T ss_pred             eeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCc----ccccceEEEEeeCCCCCeeeEeeCCCcchhhh
Confidence            99999999999999999999999999999999999999999988    9999999999999776 999999999999999


Q ss_pred             CEEEeCCCchhHHHHHHhhhcCC--CCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhcc
Q psy5094         165 DAKAIGSGSEGAQQSLQEVYHES--MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       165 ~~~a~G~g~~~~~~~Le~~~~~~--~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~  242 (251)
                      .+.|+|.+++.++.+|||.|.+.  .+..++++|++++|.++.  +..+++|+++++++.+.+++++.++|+.++..++.
T Consensus       158 ka~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVv--qs~~~nie~aVm~~~~~~~~l~~~~I~~~v~~ie~  235 (249)
T KOG0183|consen  158 KANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVV--QSGGKNIEVAVMKRRKDLKMLESEEIDDIVKEIEQ  235 (249)
T ss_pred             hccccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHHh--hcCCCeeEEEEEecCCceeecCHHHHHHHHHHHHH
Confidence            99999999999999999999875  788999999999988874  34677999999999977999999999999988875


Q ss_pred             C
Q psy5094         243 I  243 (251)
Q Consensus       243 ~  243 (251)
                      +
T Consensus       236 E  236 (249)
T KOG0183|consen  236 E  236 (249)
T ss_pred             H
Confidence            4

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=100.00  E-value=5.1e-57  Score=376.98  Aligned_cols=210  Identities=40%  Similarity=0.699  Sum_probs=200.4

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhH
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      ++||+.+|+|||||||+|+|||.+|+++|+|+|||+++||||||+|++.+++++. +++.+||++|+++++|+++|..+|
T Consensus         1 ~~yd~~~~~fsp~Grl~Qveya~~a~~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (213)
T cd03752           1 RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSD   80 (213)
T ss_pred             CCcCCCCceECCCCEEhHHHhHHHHHhcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHh
Confidence            4799999999999999999999999999999999999999999999999997655 458999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEc-CCCCeEEEECCCCceee
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~~~  163 (251)
                      ++.+.++++.+++.|++.++++++++.+++.|+..+|.|++.++.    |||+|++|++||| +.||+||.+||+|++.+
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~----RP~~v~~li~G~D~~~g~~ly~~d~~G~~~~  156 (213)
T cd03752          81 ANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGL----RPFGVSFLYAGWDKHYGFQLYQSDPSGNYSG  156 (213)
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCc----ccceeEEEEEEEeCCCCCEEEEECCCCCeee
Confidence            999999999999999999999999999999999999999998766    9999999999999 46899999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEE
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTV  219 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i  219 (251)
                      ++++|+|+++..++++||+.|+++|+++||++++++||+.+.+++. ++.+++|++|
T Consensus       157 ~~~~a~G~gs~~~~~~Le~~y~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ei~~~  213 (213)
T cd03752         157 WKATAIGNNNQAAQSLLKQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL  213 (213)
T ss_pred             eeEEEECCCcHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEC
Confidence            9999999999999999999999999999999999999999999874 7788999875

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=6.8e-57  Score=374.69  Aligned_cols=206  Identities=39%  Similarity=0.719  Sum_probs=197.5

Q ss_pred             CCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHH
Q psy5094           8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRI   87 (251)
Q Consensus         8 yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   87 (251)
                      ||.++|+|||||||+|||||++|+++|+|+|||+++||||||+|++.+..++.++..+||++|++|++|+++|+.+|++.
T Consensus         1 ~d~~~~~fsp~Gr~~Qveya~~av~~G~t~Igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (207)
T cd03755           1 YDRAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCLAFAGLTADARV   80 (207)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCCCCcccCCCccCcEEEECCCEEEEEecchhhHHH
Confidence            89999999999999999999999999999999999999999999998777776778999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCE
Q psy5094          88 LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDA  166 (251)
Q Consensus        88 l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~  166 (251)
                      +.+.++.+++.|++.++++++++.+++.|++++|+|+++++.    |||+|++||+|||+ +||+||.+||+|++.++++
T Consensus        81 l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~----rP~~vs~ii~G~D~~~~p~Ly~iD~~G~~~~~~~  156 (207)
T cd03755          81 LINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGV----RPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKA  156 (207)
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCc----ccceeEEEEEEEeCCCCeEEEEECCCcCEEcceE
Confidence            999999999999999999999999999999999999998766    99999999999995 5899999999999999999


Q ss_pred             EEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEE
Q psy5094         167 KAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTV  219 (251)
Q Consensus       167 ~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i  219 (251)
                      +|+|+|+..++++||+.|+++|+.+||++++++||+.+.+  .+++++||+++
T Consensus       157 ~a~G~gs~~~~~~Le~~~~~~ms~eeai~l~~~~l~~~~~--~~~~~~e~~~~  207 (207)
T cd03755         157 NAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIKALLEVVQ--SGSKNIELAVM  207 (207)
T ss_pred             EEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhC--CCCCeEEEEEC
Confidence            9999999999999999999999999999999999999987  67788999875

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

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

Probab=100.00  E-value=2.3e-56  Score=377.32  Aligned_cols=232  Identities=42%  Similarity=0.715  Sum_probs=220.3

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhcC-CcEEEEEeCCeEEEEEeccCCCcc-cCCCccCcEEEEcCcEEEEeccchh
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLG-STAIGISTSEGVVLAAEKRITSVL-MEPSSIKKIVEIDKHIGCAASGLIA   83 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~G-~tvvgi~~~~gVvla~d~~~~~~~-~~~~~~~KI~~i~~~i~~~~sG~~~   83 (251)
                      .+||+.+++|||+|+++|+|||.+++.+| +|+|||+++||||||+|+|.++++ +..++.+||++|+|||+|+++|+.+
T Consensus         1 ~~~~~~~~~fsp~g~l~q~e~a~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~a   80 (236)
T COG0638           1 AGYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAA   80 (236)
T ss_pred             CCCcCcceeECCCCchHHHHHHHHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcH
Confidence            47999999999999999999999999976 999999999999999999999975 4467799999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceee
Q psy5094          84 DSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~  163 (251)
                      |++.++++++.+++.|++.++++++++.+++++++++|.|+++  +    |||++++||||+|+++|+||++||+|++.+
T Consensus        81 Da~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~--~----rP~gv~~iiaG~d~~~p~Ly~~Dp~G~~~~  154 (236)
T COG0638          81 DAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--G----RPYGVSLLVAGVDDGGPRLYSTDPSGSYNE  154 (236)
T ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC--c----ccceEEEEEEEEcCCCCeEEEECCCCceee
Confidence            9999999999999999999999999999999999999999986  4    999999999999997799999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhcc
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~  242 (251)
                      ++++|+|+|+..++++||+.|+++|+++||++++++||+.+.+||. ++++++|++|+++++++.++++|+..++..+++
T Consensus       155 ~~~~a~Gsgs~~a~~~Le~~y~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~vi~~~~~~~~~~~~~~~~~~~~~~~  234 (236)
T COG0638         155 YKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLSE  234 (236)
T ss_pred             cCEEEEcCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEEEEEcCCCeEEcCHHHHHHHHHHHhh
Confidence            9999999999999999999999999999999999999999999887 777899999999878999999999999888765


Q ss_pred             C
Q psy5094         243 I  243 (251)
Q Consensus       243 ~  243 (251)
                      .
T Consensus       235 ~  235 (236)
T COG0638         235 K  235 (236)
T ss_pred             c
Confidence            4

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=100.00  E-value=1.1e-56  Score=374.43  Aligned_cols=210  Identities=51%  Similarity=0.844  Sum_probs=203.2

Q ss_pred             CCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHH
Q psy5094           7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSR   86 (251)
Q Consensus         7 ~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   86 (251)
                      +||.++|+|||+|||+|+|||.+++++|+|+|||+++||||||+|++.+.++...++.+||++|+++++|+++|+.+|++
T Consensus         1 ~y~~~~~~fsp~G~l~Q~eya~~av~~G~t~igik~~dgvvla~d~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~   80 (211)
T cd03756           1 GYDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGAATSGLVADAR   80 (211)
T ss_pred             CCCCCCceECCCCeEhHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCCcccCCCccceEEEEcCCEEEEEecCHHHHH
Confidence            59999999999999999999999999999999999999999999999987777778999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCE
Q psy5094          87 ILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDA  166 (251)
Q Consensus        87 ~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~  166 (251)
                      .+.+.++.+++.|++.++++++++.+++.|++.+|.|+++++.    |||++++||+|||+.||+||.+||.|++.++++
T Consensus        81 ~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~----rP~~v~~ll~G~D~~~~~ly~vd~~G~~~~~~~  156 (211)
T cd03756          81 VLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGV----RPFGVALLIAGVDDGGPRLFETDPSGAYNEYKA  156 (211)
T ss_pred             HHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCe----echhEEEEEEEEeCCCCEEEEECCCCCeeeeEE
Confidence            9999999999999999999999999999999999999998766    999999999999998999999999999999999


Q ss_pred             EEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEE
Q psy5094         167 KAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVT  220 (251)
Q Consensus       167 ~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~  220 (251)
                      +|+|+++..++++|++.|+++|+++||++++++||+.+.+++.++++++|++|+
T Consensus       157 ~a~G~g~~~~~~~Le~~~~~~m~~~ea~~l~~~~l~~~~~~~~~~~~~~v~ii~  210 (211)
T cd03756         157 TAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKALYAALEENETPENVEIAYVT  210 (211)
T ss_pred             EEECCCCHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEe
Confidence            999999999999999999999999999999999999999988888899999986

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=1.5e-56  Score=373.50  Aligned_cols=207  Identities=42%  Similarity=0.680  Sum_probs=197.1

Q ss_pred             CCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHH
Q psy5094           8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRI   87 (251)
Q Consensus         8 yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   87 (251)
                      ||+++|+|||||||+|||||++|+++|+|+|||+++||||||+|++.++++  .++.+||++|+++++|++||+.+|++.
T Consensus         1 yd~~~t~fsp~Grl~Qveya~~av~~G~t~IgIk~~dgVvlaad~r~~~~l--~~~~~KI~~I~~~i~~~~sG~~~D~~~   78 (211)
T cd03749           1 YDTDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSEL--SSYQKKIFKVDDHIGIAIAGLTADARV   78 (211)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccCcccc--CCccccEEEeCCCEEEEEEeChHhHHH
Confidence            899999999999999999999999999999999999999999999987775  346699999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEE
Q psy5094          88 LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAK  167 (251)
Q Consensus        88 l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~  167 (251)
                      +.++++.+++.|+++++++++++.+++.+++.+|+|+++++.    |||+|++||+|||+.||+||++||+|++.+++++
T Consensus        79 l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~----rP~~v~~ii~G~D~~gp~Ly~~Dp~G~~~~~~~~  154 (211)
T cd03749          79 LSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGR----RPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKAT  154 (211)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCC----CCceEEEEEEEEcCCCCeEEEECCCcCEeeeeEE
Confidence            999999999999999999999999999999999999997665    9999999999999889999999999999999999


Q ss_pred             EeCCCchhHHHHHHhhhc--CCCCHHHHHHHHHHHHHHHhhhc--CCCCcEEEEEEE
Q psy5094         168 AIGSGSEGAQQSLQEVYH--ESMTLKEAINHVLTILKQVMEEK--LNSTNVELCTVT  220 (251)
Q Consensus       168 a~G~g~~~~~~~Le~~~~--~~~s~~ea~~l~~~~l~~~~~~d--~~~~~i~i~~i~  220 (251)
                      |+|+|+..++++||++|+  ++|+++||+++++++|+.+.+++  .++++|||++|+
T Consensus       155 a~G~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~  211 (211)
T cd03749         155 SIGARSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG  211 (211)
T ss_pred             EECCCcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence            999999999999999998  59999999999999999999865  788899999984

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

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=100.00  E-value=1.5e-56  Score=374.46  Aligned_cols=209  Identities=32%  Similarity=0.639  Sum_probs=199.2

Q ss_pred             CCCCCCceeCCCCcchhhhhHHHHHhc-CCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHH
Q psy5094           7 EYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADS   85 (251)
Q Consensus         7 ~yd~~~~~fsp~G~l~q~eya~~a~~~-G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   85 (251)
                      +||+.+|+|||||||+|||||++|+++ |+|+|||+++||||||+|++.+.+++..+..+||++|+++++|+++|+.+|+
T Consensus         1 ~yd~~~~~fsp~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~~i~~~~~~Ki~~I~~~i~~~~sG~~~D~   80 (215)
T cd03754           1 GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIGCVMTGMIADS   80 (215)
T ss_pred             CCCCCCeeECCCCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEeccccccccCCcccCceEEEcCCEEEEEEechhhH
Confidence            699999999999999999999999985 8899999999999999999998877666688999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeec
Q psy5094          86 RILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQF  164 (251)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~  164 (251)
                      +.+.+++|.+++.|+++++++++++.+++.+++++|.|+++++.    |||++++|+||||+ +||+||++||+|++.++
T Consensus        81 ~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~----RP~~v~~ii~G~D~~~gp~Ly~~Dp~Gs~~~~  156 (215)
T cd03754          81 RSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYM----RPLGVSMILIGIDEELGPQLYKCDPAGYFAGY  156 (215)
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCC----cCCeeEEEEEEEeCCCCeEEEEEcCCccEEeE
Confidence            99999999999999999999999999999999999999998766    99999999999995 68999999999999999


Q ss_pred             CEEEeCCCchhHHHHHHhhhcCC--C--CHHHHHHHHHHHHHHHhhhcCCCCcEEEEEE
Q psy5094         165 DAKAIGSGSEGAQQSLQEVYHES--M--TLKEAINHVLTILKQVMEEKLNSTNVELCTV  219 (251)
Q Consensus       165 ~~~a~G~g~~~~~~~Le~~~~~~--~--s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i  219 (251)
                      +++|+|+|+..++++||++|+++  |  |.+||++++++||..+.++|+++.+++|++|
T Consensus       157 ~~~a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~~~~~~ei~~~  215 (215)
T cd03754         157 KATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDFKATEIEVGVV  215 (215)
T ss_pred             EEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            99999999999999999999985  7  9999999999999999999988889999875

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=3.6e-56  Score=371.97  Aligned_cols=212  Identities=77%  Similarity=1.114  Sum_probs=200.9

Q ss_pred             CCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHH
Q psy5094           8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRI   87 (251)
Q Consensus         8 yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   87 (251)
                      ||+++|+|||||||+|+|||++++++|+|+|||+++||||||+|++.+++++..++.+||+.|+++++|+++|+.+|++.
T Consensus         1 ~~~~~~~f~p~G~~~Q~eya~~a~~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (213)
T cd03753           1 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGCAMSGLIADART   80 (213)
T ss_pred             CCCCCccCCCCCeEhHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccCCcCcCCCccceEEEEcCCEEEEEecCHHHHHH
Confidence            89999999999999999999999999999999999999999999999888777788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCcccc-ccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCE
Q psy5094          88 LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDA  166 (251)
Q Consensus        88 l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~-~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~  166 (251)
                      +.+.++.+++.|++.++++++++.+++.|++.+|+|+++.+. ..+.|||+|++||+|||++||+||.+||.|++.++++
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            999999999999999999999999999999999999885431 2234999999999999999999999999999999999


Q ss_pred             EEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEE
Q psy5094         167 KAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTV  219 (251)
Q Consensus       167 ~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i  219 (251)
                      +|+|+++..++++|++.|+++|+++||++++++||+.+.+++.++++++|++|
T Consensus       161 ~a~G~~~~~~~~~L~~~~~~~ls~eeai~l~~~~l~~~~~~~~~~~~~ei~~~  213 (213)
T cd03753         161 KAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSILKQVMEEKLNSTNVELATV  213 (213)
T ss_pred             EEECCCcHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEC
Confidence            99999999999999999999999999999999999999888888899999875

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.

>KOG0181|consensus

Probab=100.00  E-value=4.1e-57  Score=354.73  Aligned_cols=232  Identities=34%  Similarity=0.607  Sum_probs=224.9

Q ss_pred             CCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccch
Q psy5094           3 LTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLI   82 (251)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~   82 (251)
                      |+..+|..++|+|||+|+|-|+|||..|+.+|.+.|||+-.||||||++++..+.|......+||+.|.+||+|.+||+.
T Consensus         1 m~d~~y~fslTtFSpsGKL~QieyAL~Av~~G~~SvGi~A~nGvVlatekk~~s~L~~~~sv~KV~~i~~~IG~vYSGmg   80 (233)
T KOG0181|consen    1 MGDFGYSFSLTTFSPSGKLVQIEYALTAVVNGQTSVGIKAANGVVLATEKKDVSPLVDEESVRKVEKITPHIGCVYSGMG   80 (233)
T ss_pred             CCCcccceeeEEEcCCCceehHHHHHHHHhCCCCceeeeecCceEEEeccCCCCccchhhhhhhHhhccCCcceEEecCC
Confidence            45568999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCcee
Q psy5094          83 ADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYT  162 (251)
Q Consensus        83 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~  162 (251)
                      +|++.+++..|+.++.|...|++++|+..+++.++..+|+|||++|.    ||||+++++||||+++|.||++||+|+++
T Consensus        81 pD~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGv----rPFGvslliaG~~~~~p~LyQvdPSGsyf  156 (233)
T KOG0181|consen   81 PDYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGV----RPFGVSLLIAGWDEGGPLLYQVDPSGSYF  156 (233)
T ss_pred             CceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCc----cccceEEEEeecCCCceeEEEECCcccee
Confidence            99999999999999999999999999999999999999999999988    99999999999999999999999999999


Q ss_pred             ecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHh
Q psy5094         163 QFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK  239 (251)
Q Consensus       163 ~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~  239 (251)
                      .|+++|+|.+...++++||++|++++.+++++..++.+|++..+...+++||+|.++..+ +|+++++.||++++..
T Consensus       157 ~wkatA~Gkn~v~aktFlEkR~~edleldd~ihtailtlkE~fege~~~~nieigv~~~~-~F~~lt~~eI~d~l~~  232 (233)
T KOG0181|consen  157 AWKATAMGKNYVNAKTFLEKRYNEDLELDDAIHTAILTLKESFEGEMTAKNIEIGVCGEN-GFRRLTPAEIEDYLAS  232 (233)
T ss_pred             ehhhhhhccCcchHHHHHHHHhccccccchHHHHHHHHHHHHhccccccCceEEEEecCC-ceeecCHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999999999999999955 8999999999999865

>KOG0184|consensus

Probab=100.00  E-value=4.2e-56  Score=355.53  Aligned_cols=237  Identities=37%  Similarity=0.570  Sum_probs=220.0

Q ss_pred             CCCCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEecc
Q psy5094           1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASG   80 (251)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG   80 (251)
                      |--+.++||+..++|||+||++|+|||+||+.+|+|+||||||||||++++|..+++|+.++...||+.|++||+|+++|
T Consensus         1 MSsIGtGyDls~s~fSpdGrvfQveYA~KAven~~T~IGIk~kdGVVl~vEKli~SkLy~p~sn~ri~~V~r~iG~avaG   80 (254)
T KOG0184|consen    1 MSSIGTGYDLSASTFSPDGRVFQVEYAQKAVENSGTCIGIKCKDGVVLAVEKLITSKLYEPGSNERIFSVDRHIGMAVAG   80 (254)
T ss_pred             CCcccccccccceeeCCCCceehHHHHHHHHhcCCcEEEEecCCeEEEEEeeeecccccccCCCCceEeecccccEEEec
Confidence            44567899999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCc
Q psy5094          81 LIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGT  160 (251)
Q Consensus        81 ~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~  160 (251)
                      +.+|.+.+.+++|.++.+|+.+|+.++|+..++.+++++.|.||.++..    |||||+.++++||.+||+||.++|+|.
T Consensus        81 l~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~v----RpfG~~~~~~~yd~~g~~LymiepSG~  156 (254)
T KOG0184|consen   81 LIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSV----RPFGASTILGSYDDEGPQLYMIEPSGS  156 (254)
T ss_pred             cccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhcc----ccccceEEEEEEeCCCceEEEEcCCCC
Confidence            9999999999999999999999999999999999999999999998766    999999999999999999999999999


Q ss_pred             eeecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC-EEEcCHHHHHHHHH
Q psy5094         161 YTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM-YHLYSKEELEEELS  238 (251)
Q Consensus       161 ~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~-~~~~~~~ei~~~~~  238 (251)
                      .+.++++|+|.|.+.+++.|||.--.+|+.+|+++.+.+.++.+.+..- +...||+.|+..+.+ .++.-|+||.+..+
T Consensus       157 ~~~Y~~aaiGKgrq~aKtElEKL~~~~mt~~e~VkeaakIiY~~HDe~KdK~feiEm~wvg~eTnG~h~~vp~el~~ea~  236 (254)
T KOG0184|consen  157 SYGYKGAAIGKGRQAAKTELEKLKIDEMTCKELVKEAAKIIYKVHDENKDKEFEIEMGWVGEETNGLHEKVPSELLEEAE  236 (254)
T ss_pred             ccceeeeeccchhHHHHHHHHhcccccccHHHHHHHHHheeEeecccccCcceEEEEEEEEeecCCccccCcHHHHHHHH
Confidence            9999999999999999999999988899999999999999999987643 455799999988744 66666668777666


Q ss_pred             hhc
Q psy5094         239 KVS  241 (251)
Q Consensus       239 ~~~  241 (251)
                      ++.
T Consensus       237 ~~a  239 (254)
T KOG0184|consen  237 KYA  239 (254)
T ss_pred             HHH
Confidence            555

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=100.00  E-value=5.9e-55  Score=363.63  Aligned_cols=208  Identities=52%  Similarity=0.873  Sum_probs=199.8

Q ss_pred             CCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHH
Q psy5094           8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRI   87 (251)
Q Consensus         8 yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   87 (251)
                      ||.++|+|||||||+|+|||++++++|+|+||++++||||||+|++.+.+++..++.+||++|+++++|+++|..+|++.
T Consensus         1 ~~~~~~~f~~~G~~~q~eya~~~~~~G~tvigi~~~dgVvlaaD~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   80 (209)
T cd01911           1 YDRSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGCAVAGLTADARV   80 (209)
T ss_pred             CCCCCccCCCCCEEeHHHHHHHHHHcCCCEEEEEECCEEEEEEEecCCccccCCcccceEEEecCCeEEEeccCcHhHHH
Confidence            89999999999999999999999999999999999999999999999987766788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-CCeEEEECCCCceeecCE
Q psy5094          88 LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDA  166 (251)
Q Consensus        88 l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-gp~Ly~id~~G~~~~~~~  166 (251)
                      +.+.++.+++.|++.++++++++.+++++++++|.|+++++.    |||+|++||+|||++ ||+||.+||.|++.++++
T Consensus        81 l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~----rP~~v~~iv~G~d~~~~~~Ly~iD~~G~~~~~~~  156 (209)
T cd01911          81 LVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGV----RPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKA  156 (209)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCc----cChhheEEEEEEcCCCCcEEEEECCCCCeeeeeE
Confidence            999999999999999999999999999999999999998766    999999999999965 899999999999999999


Q ss_pred             EEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEE
Q psy5094         167 KAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTV  219 (251)
Q Consensus       167 ~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i  219 (251)
                      +++|+|+..++++|++.|+++|+.+||++++++||+.+.++|.++++++|+++
T Consensus       157 ~a~G~g~~~~~~~L~~~~~~~ms~~ea~~l~~~~l~~~~~~d~~~~~~~i~i~  209 (209)
T cd01911         157 TAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVLEEDKKAKNIEIAVV  209 (209)
T ss_pred             EEeCCCcHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHhccCCCCcEEEEEC
Confidence            99999999999999999999999999999999999999999887778999874

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

>KOG0178|consensus

Probab=100.00  E-value=2.8e-54  Score=342.54  Aligned_cols=235  Identities=36%  Similarity=0.625  Sum_probs=221.1

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchh
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIA   83 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~   83 (251)
                      ...||...|+|||||||+|||||++++.+.+|+|||.++||||||++++.+++++. +.+.+||+.|+|+++|+++|+.+
T Consensus         2 sr~ydsrttiFspEGRLyQVEyAmeais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~   81 (249)
T KOG0178|consen    2 SRRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTS   81 (249)
T ss_pred             CcCcCCcccccCCCcchHHHHHHHHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccc
Confidence            46799999999999999999999999999999999999999999999999998876 56789999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCcee
Q psy5094          84 DSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYT  162 (251)
Q Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~  162 (251)
                      |+..|++.+|..++.|.++|++++|++.|++.|++..|.|||+.|.    |||||++|.+|||+ .|.+||+.||+|++.
T Consensus        82 DAnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~----RPFGVSfLYaGwd~~~gyqLy~SdPSGny~  157 (249)
T KOG0178|consen   82 DANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGK----RPFGVSFLYAGWDDRYGYQLYQSDPSGNYG  157 (249)
T ss_pred             cHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCc----CCCceeeeeeceecCcceEEEecCCCCCcc
Confidence            9999999999999999999999999999999999999999999988    99999999999995 579999999999999


Q ss_pred             ecCEEEeCCCchhHHHHHHhhhcCCCC-HHHHHHHHHHHHHHHhhhc-CCCCcEEEEEEEcCCC---EEEcCHHHHHHHH
Q psy5094         163 QFDAKAIGSGSEGAQQSLQEVYHESMT-LKEAINHVLTILKQVMEEK-LNSTNVELCTVTADKM---YHLYSKEELEEEL  237 (251)
Q Consensus       163 ~~~~~a~G~g~~~~~~~Le~~~~~~~s-~~ea~~l~~~~l~~~~~~d-~~~~~i~i~~i~~~~~---~~~~~~~ei~~~~  237 (251)
                      .|++.++|.++..++..|+..|+++.. +++|+.++++.|....+.. +....+|++.++++..   ++++.++||.+++
T Consensus       158 gWka~ciG~N~~Aa~s~Lkqdykdd~~~~~eA~~laikvL~kt~d~~~lt~eklEia~~~k~~~k~v~~i~~~~ev~kll  237 (249)
T KOG0178|consen  158 GWKATCIGANSGAAQSMLKQDYKDDENDLEEAKALAIKVLSKTLDSGSLTAEKLEIATITKDCNKTVLKILKKDEVLKLL  237 (249)
T ss_pred             ccceeeeccchHHHHHHHHhhhccccccHHHHHHHHHHHHHhhcccCCCChhheEEEEEEecCCceEEEecCHHHHHHHH
Confidence            999999999999999999999988655 9999999999999988876 5788899999999755   7899999999999


Q ss_pred             HhhccC
Q psy5094         238 SKVSSI  243 (251)
Q Consensus       238 ~~~~~~  243 (251)
                      +++...
T Consensus       238 ~k~~~~  243 (249)
T KOG0178|consen  238 EKYHET  243 (249)
T ss_pred             HHhhhh
Confidence            887643

>KOG0863|consensus

Probab=100.00  E-value=1.1e-53  Score=343.48  Aligned_cols=240  Identities=34%  Similarity=0.587  Sum_probs=224.8

Q ss_pred             CCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccch
Q psy5094           3 LTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLI   82 (251)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~   82 (251)
                      |+|..||..+|+|||+|||+|||||++|++.|++.||+|.++..||++-++..+.+  +..++||++|++|+++.++|+.
T Consensus         1 Mfrnqyd~d~t~wsPqGrl~QvEya~EavkqGsatVGLks~thaVLvAl~r~~seL--ss~QkKi~~iD~h~g~siAGLt   78 (264)
T KOG0863|consen    1 MFRNQYDNDVTTWSPQGRLHQVEYAMEAVKQGSATVGLKSRTHAVLVALKRAQSEL--SSHQKKIFKIDDHIGISIAGLT   78 (264)
T ss_pred             CCcccccCceeEECCcceehHHHHHHHHHhcccceEeecccceEEEeeeccchhHH--HHhhheeEecccccceEEeccC
Confidence            68999999999999999999999999999999999999999999999988877766  4577999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCcee
Q psy5094          83 ADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYT  162 (251)
Q Consensus        83 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~  162 (251)
                      +|++.+.+++|.+|..+++.|++++|+..+...|++.+|..||+++.    |||||.++++|+|+.||+||+++|+|++.
T Consensus        79 ~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygr----RpYGVGllv~gYDe~G~hl~e~~Psg~v~  154 (264)
T KOG0863|consen   79 ADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGR----RPYGVGLLVAGYDESGPHLYEFCPSGNVF  154 (264)
T ss_pred             cchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCC----ccccceEEEEeecCCCceeEEEcCCccEE
Confidence            99999999999999999999999999999999999999999999987    99999999999999999999999999999


Q ss_pred             ecCEEEeCCCchhHHHHHHhhhc--CCCCHHHHHHHHHHHHHHHhhh--cCCCCcEEEEEEEcCCCEEEcCHHHHHHHHH
Q psy5094         163 QFDAKAIGSGSEGAQQSLQEVYH--ESMTLKEAINHVLTILKQVMEE--KLNSTNVELCTVTADKMYHLYSKEELEEELS  238 (251)
Q Consensus       163 ~~~~~a~G~g~~~~~~~Le~~~~--~~~s~~ea~~l~~~~l~~~~~~--d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~  238 (251)
                      ++++.++|+.++.++++||++..  ++++.+|.+..++.||+.....  +++..+++|+|+.++.+|.+++.+++.+++.
T Consensus       155 e~~g~sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivgkd~pf~~~d~~~~~k~~~  234 (264)
T KOG0863|consen  155 ECKGMSIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVGKDEPFTILDQKDVAKYVD  234 (264)
T ss_pred             EEeeeecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEeCCCceEeecHHHHHHHHH
Confidence            99999999999999999999876  4999999999999999998753  4688899999999999999999999999887


Q ss_pred             hhccCCCCCC
Q psy5094         239 KVSSIHDPTR  248 (251)
Q Consensus       239 ~~~~~~~~~~  248 (251)
                      ..+...+|.+
T Consensus       235 ~~~~~~~p~~  244 (264)
T KOG0863|consen  235 LFKKVDEPRE  244 (264)
T ss_pred             HhhcCCCccc
Confidence            6665555543

>KOG0182|consensus

Probab=100.00  E-value=5.8e-51  Score=323.90  Aligned_cols=236  Identities=31%  Similarity=0.604  Sum_probs=226.7

Q ss_pred             CCcCCCCCCCceeCCCCcchhhhhHHHHHhc-CCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccc
Q psy5094           3 LTRSEYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGL   81 (251)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~-G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~   81 (251)
                      ++..+||+.+|+|||||||+|||||.||+++ |-|+||++++|++|+++.++++.+|+.++....+|+|..+|+|+++|.
T Consensus         4 gs~agfDrhitIFspeGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tvt~~f~itk~ig~v~tG~   83 (246)
T KOG0182|consen    4 GSSAGFDRHITIFSPEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTVTHLFRITKKIGCVITGM   83 (246)
T ss_pred             CCcCCccceEEEECCCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccceeEEEeeccceEEEecC
Confidence            4678999999999999999999999999997 889999999999999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEc-CCCCeEEEECCCCc
Q psy5094          82 IADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGT  160 (251)
Q Consensus        82 ~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~  160 (251)
                      .+|++..+.++|.++..+++.||.+||++.|+++++++-|.|+|+.-+    ||+||.+++.|+| +.||.+|.+||.|-
T Consensus        84 ~aDar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~m----Rplg~~~~~i~~D~E~gP~vYk~DpAGy  159 (246)
T KOG0182|consen   84 IADARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAM----RPLGVAATLIGVDEERGPSVYKTDPAGY  159 (246)
T ss_pred             CcchHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhh----cccceeEEEEEeccccCcceEeecCccc
Confidence            999999999999999999999999999999999999999999999877    9999999999999 56899999999999


Q ss_pred             eeecCEEEeCCCchhHHHHHHhhhcCC--CCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCC-EEEcCHHHHHHHH
Q psy5094         161 YTQFDAKAIGSGSEGAQQSLQEVYHES--MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKM-YHLYSKEELEEEL  237 (251)
Q Consensus       161 ~~~~~~~a~G~g~~~~~~~Le~~~~~~--~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~-~~~~~~~ei~~~~  237 (251)
                      +..+++.+.|-....+..+|||+++++  ++.++++++++.||..+...|...+.+||.+++++.+ |++|+.+||++.|
T Consensus       160 y~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk~se~EVgvv~~~~p~f~~Ls~~eie~hL  239 (246)
T KOG0182|consen  160 YYGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFKSSELEVGVVTVDNPEFRILSAEEIEEHL  239 (246)
T ss_pred             cccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccCCcceEEEEEEcCCcceeeccHHHHHHHH
Confidence            999999999999999999999999986  7799999999999999999899999999999999977 9999999999999


Q ss_pred             Hhhcc
Q psy5094         238 SKVSS  242 (251)
Q Consensus       238 ~~~~~  242 (251)
                      ..|.+
T Consensus       240 ~~IAE  244 (246)
T KOG0182|consen  240 QAIAE  244 (246)
T ss_pred             HHhhh
Confidence            88875

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=100.00  E-value=1.1e-45  Score=313.74  Aligned_cols=205  Identities=19%  Similarity=0.279  Sum_probs=190.8

Q ss_pred             HHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCC
Q psy5094          30 AIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMD  108 (251)
Q Consensus        30 a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  108 (251)
                      .+++|+|+|||+++||||||+|++.++ .++.+++.+||++|++|++++++|..+|++.+.+++|.+++.|++.++++++
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            467899999999999999999999997 5666889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCC
Q psy5094         109 IESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESM  188 (251)
Q Consensus       109 ~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~  188 (251)
                      ++.++++|++++|.+..        .|+.+++|+||||++||+||++||.|++.+++++|+|+|+..++++||+.|+++|
T Consensus       115 v~~la~~ls~~l~~~R~--------~~~~v~~iiaG~D~~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k~dm  186 (247)
T PTZ00488        115 VAAASKILANIVWNYKG--------MGLSMGTMICGWDKKGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDL  186 (247)
T ss_pred             HHHHHHHHHHHHHhcCC--------CCeeEEEEEEEEeCCCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCcCCC
Confidence            99999999999976521        3555668999999889999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccC
Q psy5094         189 TLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSSI  243 (251)
Q Consensus       189 s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~  243 (251)
                      |.+||++++++||+.+.+||. ++++++|++|+++ +++.++++||+++++.+++.
T Consensus       187 s~eEai~l~~kal~~~~~Rd~~sg~~~ei~iI~k~-g~~~l~~~ei~~~l~~~~~~  241 (247)
T PTZ00488        187 NDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKD-GWKKISADDCFDLHQKYAAE  241 (247)
T ss_pred             CHHHHHHHHHHHHHHHHHhccccCCCeEEEEEcCC-ccEECCHHHHHHHHHHHhhh
Confidence            999999999999999999985 7889999999987 68999999999999988754

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=100.00  E-value=2.4e-45  Score=308.29  Aligned_cols=211  Identities=21%  Similarity=0.343  Sum_probs=187.8

Q ss_pred             eCCCCcch-hhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHH
Q psy5094          15 FSPEGRLF-QVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR   93 (251)
Q Consensus        15 fsp~G~l~-q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~   93 (251)
                      .+|+.-+. .-|||++|+++|+|+|||+++||||||+|++       .++.+||++|+||++|+++|+.+|++.+++.++
T Consensus         7 ~~~~~~~~~~~EYA~kav~~g~T~VGIk~kdgVVLaaek~-------~~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r   79 (228)
T TIGR03691         7 VSPEQIMRDRAELARKGIARGRSVVVLTYADGILFVAENP-------SRSLHKISELYDRIGFAAVGKYNEFENLRRAGI   79 (228)
T ss_pred             cCHHHHHhhHHHHHHHHHHcCCcEEEEEeCCeEEEEEecC-------CCCcCcEEEecCCEEEEEcCCHHHHHHHHHHHH
Confidence            46666666 4799999999999999999999999999997       346789999999999999999999999999999


Q ss_pred             HHHHHHHhhhC-CCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEc--CCCCeEEEECCCCceeecC-EEEe
Q psy5094          94 VECANHWFTYD-EKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD--SKGPQLFHLDPSGTYTQFD-AKAI  169 (251)
Q Consensus        94 ~~~~~~~~~~~-~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d--~~gp~Ly~id~~G~~~~~~-~~a~  169 (251)
                      .+++.|++.++ .+++++.+++.+++.+..++ ++.    .|||+|++|++|||  +.||+||++||+|++.+++ ++|+
T Consensus        80 ~~a~~~~~~~~~~~~~v~~la~~~tq~~~~~~-~~~----~RP~gvs~Li~G~d~~~~gp~Ly~vDpsG~~~~~~~~~ai  154 (228)
T TIGR03691        80 RYADMRGYSYDRRDVTGRGLANAYAQTLGTIF-TEQ----QKPYEVEICVAEVGETPDQDQLYRITFDGSIVDERGFVVM  154 (228)
T ss_pred             HHHHHHhhhcCCCCccHHHHHHHHHhhccccc-ccc----cCcceEEEEEEEEcCCCCCCEEEEECCCCCceeccceEEE
Confidence            99999999998 68999999887777665444 232    39999999999998  4689999999999999866 8999


Q ss_pred             CCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhh--hc-CCCCcEEEEEEEcCC---CEEEcCHHHHHHHH
Q psy5094         170 GSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME--EK-LNSTNVELCTVTADK---MYHLYSKEELEEEL  237 (251)
Q Consensus       170 G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~--~d-~~~~~i~i~~i~~~~---~~~~~~~~ei~~~~  237 (251)
                      |+|++.++++||++|+++||++||++++++||+.+.+  ++ +++.++||+++++++   +|++++++||++++
T Consensus       155 G~gs~~a~~~Lek~y~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv~ii~k~~~~~~f~~l~~~ei~~~l  228 (228)
T TIGR03691       155 GGTTEPIATALKESYRDGLSLADALGLAVQALRAGGNGEKRELDAASLEVAVLDRSRPRRAFRRITGEALERLL  228 (228)
T ss_pred             CCChHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhccccccCCccceEEEEEeCCCCccceEECCHHHHHhhC
Confidence            9999999999999999999999999999999999964  33 688899999999754   49999999998764

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.

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=100.00  E-value=5.4e-45  Score=305.51  Aligned_cols=204  Identities=20%  Similarity=0.264  Sum_probs=187.3

Q ss_pred             cCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHH
Q psy5094          33 LGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIES  111 (251)
Q Consensus        33 ~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~  111 (251)
                      +|+|+|||+++||||||+|++.++ +++.+++.+||++|++|++|+++|..+|++.+.+++|.+++.|++.++++++++.
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            489999999999999999999998 6777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC--CCCeEEEECCCC-ceeecCEEEeCCCchhHHHHHHhhhcCCC
Q psy5094         112 VAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS--KGPQLFHLDPSG-TYTQFDAKAIGSGSEGAQQSLQEVYHESM  188 (251)
Q Consensus       112 l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~--~gp~Ly~id~~G-~~~~~~~~a~G~g~~~~~~~Le~~~~~~~  188 (251)
                      +++.|++++|.++.. .+    |||+|++||||||+  ++|+||++||+| ++..++++|+|+|+..++++||+.|+++|
T Consensus        81 la~~ls~~~~~~~~~-~~----rp~~v~~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~~~~m  155 (219)
T TIGR03690        81 KANRLAAMVRGNLPA-AM----QGLAVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDL  155 (219)
T ss_pred             HHHHHHHHHHhhhhh-cc----CCceEEEEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcCCCCc
Confidence            999999999887642 23    99999999999995  579999999999 57778999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhhcC-CCC--c-----EEEEEEEcCCCEEEcCHHHHHHHHHhhcc
Q psy5094         189 TLKEAINHVLTILKQVMEEKL-NST--N-----VELCTVTADKMYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       189 s~~ea~~l~~~~l~~~~~~d~-~~~--~-----i~i~~i~~~~~~~~~~~~ei~~~~~~~~~  242 (251)
                      |.+||++++++||+.+.++|. +++  +     ++|++|+++ ++++++++||+++++.+.+
T Consensus       156 s~eeai~l~~~al~~~~~~d~~s~~~~~~~~~~~ei~ii~~~-g~~~l~~~ei~~~~~~~~~  216 (219)
T TIGR03690       156 DEDDALRVAVEALYDAADDDSATGGPDLVRGIYPTVVVITAD-GARRVPESELEELARAIVE  216 (219)
T ss_pred             CHHHHHHHHHHHHHHHHhcccccCCcccccccccEEEEEccC-ceEEcCHHHHHHHHHHHHh
Confidence            999999999999999999886 333  2     399999866 7999999999999987764

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.

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=100.00  E-value=8.1e-45  Score=297.82  Aligned_cols=185  Identities=23%  Similarity=0.350  Sum_probs=175.3

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|++.++ .++.+++.+||++|++|++|+++|..+|++.+++++|.+++.|++.+++++|++.++
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            5899999999999999999999 466678999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      +++++++|.+++        .||+|++||||||++||+||++||.|++.+++++|+|+|+.+++++||+.|+++|+.+||
T Consensus        81 ~~ls~~l~~~~~--------~~~~v~~li~G~D~~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~eea  152 (188)
T cd03761          81 KLLSNMLYQYKG--------MGLSMGTMICGWDKTGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEA  152 (188)
T ss_pred             HHHHHHHHhcCC--------CCeEEEEEEEEEeCCCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcCCCCCCHHHH
Confidence            999999998876        799999999999998999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEc
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLY  228 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~  228 (251)
                      ++++.+||+.+.++|. ++++++|++|+++ +++++
T Consensus       153 ~~l~~~~l~~~~~rd~~sg~~~~v~ii~~~-g~~~~  187 (188)
T cd03761         153 YDLARRAIYHATHRDAYSGGNVNLYHVRED-GWRKI  187 (188)
T ss_pred             HHHHHHHHHHHHHhcccCCCCeEEEEEcCC-ceEEc
Confidence            9999999999999886 7789999999988 54543

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

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=100.00  E-value=3.6e-44  Score=295.12  Aligned_cols=187  Identities=24%  Similarity=0.267  Sum_probs=175.1

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|++.+++ ++.+++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999884 57788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +++++++|.|++.     + |||++++||+|||+ .||+||++||+|++.+++++|+|+|+.+++++||+.|+++||.+|
T Consensus        82 ~~l~~~~~~~~~~-----~-rP~~~~~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~ms~ee  155 (193)
T cd03758          82 NFTRRELAESLRS-----R-TPYQVNLLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEE  155 (193)
T ss_pred             HHHHHHHHHHhhc-----C-CCeEEEEEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccCCCCCHHH
Confidence            9999999988763     1 79999999999995 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEc
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLY  228 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~  228 (251)
                      |++++.+|++.+.+||. ++++++|++|+++ +++++
T Consensus       156 ai~l~~~a~~~~~~rd~~~~~~i~i~ii~~~-g~~~~  191 (193)
T cd03758         156 ALELMKKCIKELKKRFIINLPNFTVKVVDKD-GIRDL  191 (193)
T ss_pred             HHHHHHHHHHHHHHhccccCCceEEEEEcCC-CeEeC
Confidence            99999999999999886 7789999999988 55543

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=3.6e-44  Score=296.14  Aligned_cols=189  Identities=19%  Similarity=0.222  Sum_probs=175.0

Q ss_pred             cCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHH-HHHhhhCCCCCHH
Q psy5094          33 LGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECA-NHWFTYDEKMDIE  110 (251)
Q Consensus        33 ~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~-~~~~~~~~~i~~~  110 (251)
                      +|+|+|||+++||||||+|++.++ .++.+++.+||++|+++++|+++|..+|++.+++++|.+++ .+++.++.+++++
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            589999999999999999999996 67778889999999999999999999999999999999986 5778899999999


Q ss_pred             HHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcC--C
Q psy5094         111 SVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE--S  187 (251)
Q Consensus       111 ~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~  187 (251)
                      .+++++++++  |+++++.    |||+|++|+||||+ +||+||.+||.|++.+++++|+|+|+.+++++||+.|++  +
T Consensus        81 ~la~~i~~~~--y~~~~~~----rP~~v~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~  154 (197)
T cd03760          81 EIHSYLTRVL--YNRRSKM----NPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPD  154 (197)
T ss_pred             HHHHHHHHHH--HHHhhcC----CCceEEEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCC
Confidence            9999999986  6676544    99999999999996 789999999999999999999999999999999999999  9


Q ss_pred             CCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEc
Q psy5094         188 MTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLY  228 (251)
Q Consensus       188 ~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~  228 (251)
                      ||.+||++++++||+.+.++|. ++++++|++|+++ ++++.
T Consensus       155 ms~eea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~-g~~~~  195 (197)
T cd03760         155 LTEEEARALIEECMKVLYYRDARSINKYQIAVVTKE-GVEIE  195 (197)
T ss_pred             CCHHHHHHHHHHHHHHHHHhccccCCceEEEEECCC-CEEeC
Confidence            9999999999999999999985 7889999999998 55544

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=8.1e-44  Score=293.52  Aligned_cols=184  Identities=17%  Similarity=0.253  Sum_probs=171.3

Q ss_pred             cCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHH
Q psy5094          33 LGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIES  111 (251)
Q Consensus        33 ~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~  111 (251)
                      +|+|+|||+++||||||+|++.+++++. .++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.
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            6999999999999999999999987755 567899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecC-EEEeCCCchhHHHHHHhhhcCCCC
Q psy5094         112 VAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFD-AKAIGSGSEGAQQSLQEVYHESMT  189 (251)
Q Consensus       112 l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~-~~a~G~g~~~~~~~Le~~~~~~~s  189 (251)
                      ++++|+++++  +++      .+||+|++||||||+ +||+||++||.|++..+. ++|+|+|+..++++||+.|+++|+
T Consensus        82 la~~l~~~ly--~~r------~~P~~v~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s  153 (195)
T cd03759          82 FSSLISSLLY--EKR------FGPYFVEPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDME  153 (195)
T ss_pred             HHHHHHHHHH--Hhc------CCCceEEEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhccCCCCC
Confidence            9999999984  342      289999999999995 569999999999998877 999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         190 LKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       190 ~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                      .+||++++++||+.+.++|. ++++++|++|++++.
T Consensus       154 ~~ea~~l~~~~l~~~~~rd~~~~~~~~i~ii~~~g~  189 (195)
T cd03759         154 PDELFETISQALLSAVDRDALSGWGAVVYIITKDKV  189 (195)
T ss_pred             HHHHHHHHHHHHHHHHhhCcccCCceEEEEEcCCcE
Confidence            99999999999999999985 778999999998854

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

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=100.00  E-value=1.8e-43  Score=289.26  Aligned_cols=182  Identities=30%  Similarity=0.487  Sum_probs=173.3

Q ss_pred             CCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5094          34 GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESV  112 (251)
Q Consensus        34 G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  112 (251)
                      |+|+|||+++||||||+|++.++ +++..++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++++++++.+
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            79999999999999999999986 56778889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         113 AQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       113 ~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +++|++++|.+.        .|||+|++|+||||++||+||.+||+|++.+++++++|+++.+++++||+.|+++||++|
T Consensus        81 a~~l~~~~~~~~--------~rP~~v~~ivaG~d~~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  152 (185)
T TIGR03634        81 ATLLSNILNSNR--------FFPFIVQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEE  152 (185)
T ss_pred             HHHHHHHHHhcC--------CCCeEEEEEEEEEeCCCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCCCCCCHHH
Confidence            999999998762        299999999999998899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCC
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADK  223 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~  223 (251)
                      |++++++||+.+.+++. ++++++|++|+++|
T Consensus       153 a~~l~~~~l~~~~~r~~~~~~~~~v~ii~~~g  184 (185)
T TIGR03634       153 AKKLAVRAIKSAIERDVASGNGIDVAVITKDG  184 (185)
T ss_pred             HHHHHHHHHHHHHHhcccCCCCEEEEEEcCCC
Confidence            99999999999999886 67889999999885

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.

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=100.00  E-value=7.4e-43  Score=286.29  Aligned_cols=185  Identities=30%  Similarity=0.473  Sum_probs=175.0

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|++.++ .++.+++.+||++|+++++++++|..+|++.+.+.++.+++.|++.++++++++.++
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            6899999999999999999998 566678999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      +++++++|.+.        .|||+|++|+||+|++||+||.+||+|++.+++++|+|+|+.+++++|++.|+++|+++||
T Consensus        81 ~~i~~~~~~~~--------~~P~~~~~lvaG~d~~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~~~~ea  152 (188)
T cd03764          81 TLLSNILNSSK--------YFPYIVQLLIGGVDEEGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEA  152 (188)
T ss_pred             HHHHHHHHhcC--------CCCcEEEEEEEEEeCCCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcCCCCCCHHHH
Confidence            99999998753        2999999999999988899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEc
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLY  228 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~  228 (251)
                      ++++++||+.+.++|. ++++++|++|+++ +++++
T Consensus       153 ~~l~~~~l~~~~~rd~~~~~~i~i~iv~~~-g~~~~  187 (188)
T cd03764         153 KKLAIRAIKSAIERDSASGDGIDVVVITKD-GYKEL  187 (188)
T ss_pred             HHHHHHHHHHHHhhcCCCCCcEEEEEECCC-CeEeC
Confidence            9999999999999986 7788999999988 57765

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.

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=100.00  E-value=9.5e-43  Score=290.59  Aligned_cols=186  Identities=23%  Similarity=0.324  Sum_probs=173.2

Q ss_pred             HhcCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5094          31 IKLGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDI  109 (251)
Q Consensus        31 ~~~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  109 (251)
                      +++|+|+|||+++||||||+|++.+++++. .++.+||++|+++++|+++|..+|++.+.+.++.+++.|++.+++++++
T Consensus         5 ~~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~   84 (212)
T cd03757           5 TDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMST   84 (212)
T ss_pred             cCCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCCH
Confidence            578999999999999999999999997644 7889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc---
Q psy5094         110 ESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH---  185 (251)
Q Consensus       110 ~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~---  185 (251)
                      +.++++++++++.  ++      .+||++++||||||+ ++|+||++||.|++.+++++|+|+|+.+++++||+.|+   
T Consensus        85 ~~la~~ls~~ly~--~R------~~P~~~~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~  156 (212)
T cd03757          85 EAIAQLLSTILYS--RR------FFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKN  156 (212)
T ss_pred             HHHHHHHHHHHHh--hc------CCCeEEEEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhc
Confidence            9999999999954  32      279999999999995 46999999999999999999999999999999999985   


Q ss_pred             ------CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         186 ------ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       186 ------~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                            ++||++||++++++||+.+.++|. ++++++|++|+++|.
T Consensus       157 ~~~~~~~~ms~eea~~l~~~~l~~~~~rd~~sg~~i~i~iit~~g~  202 (212)
T cd03757         157 QNNVERTPLSLEEAVSLVKDAFTSAAERDIYTGDSLEIVIITKDGI  202 (212)
T ss_pred             cCcCCCCCCCHHHHHHHHHHHHHHHHHhCcccCCCEEEEEEcCCCE
Confidence                  899999999999999999999985 778999999999854

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=2.3e-42  Score=283.54  Aligned_cols=185  Identities=26%  Similarity=0.427  Sum_probs=173.8

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.+++ ++..++.+||++|+++++|+++|..+|++.+.+.++.+++.|++.++++++++.++
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            58999999999999999999995 56678899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      +++++.+|.|.         .||+|++|+||||++||+||.+||.|++.+++++|+|+++..++++|++.|+++||++||
T Consensus        81 ~~l~~~l~~~~---------~p~~v~~ivaG~d~~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~~~~ls~~ea  151 (189)
T cd03763          81 TMLKQHLFRYQ---------GHIGAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEA  151 (189)
T ss_pred             HHHHHHHHHcC---------CccceeEEEEeEcCCCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhcCCCCCHHHH
Confidence            99999998652         599999999999988999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcC
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYS  229 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~  229 (251)
                      ++++++||+.+.++|. ++++++|++|+++ +++...
T Consensus       152 ~~l~~~~l~~~~~rd~~~~~~~~v~ii~~~-g~~~~~  187 (189)
T cd03763         152 KKLVCEAIEAGIFNDLGSGSNVDLCVITKD-GVEYLR  187 (189)
T ss_pred             HHHHHHHHHHHHHhcCcCCCceEEEEEcCC-cEEEec
Confidence            9999999999999996 7788999999998 555544

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

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=100.00  E-value=1.4e-42  Score=291.95  Aligned_cols=189  Identities=18%  Similarity=0.266  Sum_probs=169.4

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEc----CcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCC-CCCH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEID----KHIGCAASGLIADSRILTDRARVECANHWFTYDE-KMDI  109 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~----~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~-~i~~  109 (251)
                      +-+|||+++||||||+|+|.+++++..++.+||++|+    +|++|+.||..+|++.+++++|.+++.|++.+++ ++|+
T Consensus         1 ~~~vGIk~kdGVVLaadkr~~~~l~~~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v   80 (236)
T cd03765           1 TYCLGIKLDAGLVFASDSRTNAGVDNISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPTM   80 (236)
T ss_pred             CeEEEEEeCCeEEEEEccCccCCCccccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCH
Confidence            4589999999999999999988876656789999998    8999999999999999999999999999999999 8999


Q ss_pred             HHHHHHHHHHHHHhcCcccccc--ccCCcceeeEEEEEc-CCCCeEEEECCCCceeec----CEEEeCCCchhHHHHHHh
Q psy5094         110 ESVAQAVSNLAIQFGDSDEESA--MSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQF----DAKAIGSGSEGAQQSLQE  182 (251)
Q Consensus       110 ~~l~~~ls~~~~~~~~~~~~~~--~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~~~~----~~~a~G~g~~~~~~~Le~  182 (251)
                      +.+++.++++++++.++.+...  +.|||+|++|||||| +.||+||++||+|++.++    +++|+|. +.+++++||+
T Consensus        81 ~~la~~i~~~l~~~~~q~~~~~~~~~rp~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek  159 (236)
T cd03765          81 FDAARYVGETLREVQEQDREALKKAGIDFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDR  159 (236)
T ss_pred             HHHHHHHHHHHHHHHhhcccccccCCcceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHHH
Confidence            9999999998765433332111  248999999999998 578999999999999998    5689996 7999999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         183 VYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       183 ~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                      .|+++||++||++++++||..+.++|. ++++|+|++|+++|.
T Consensus       160 ~yk~~ms~eeai~la~~al~~a~~rd~~sg~~iev~vI~k~G~  202 (236)
T cd03765         160 VITPDTSLEDAAKCALVSMDSTMRSNLSVGPPLDLLVYERDSL  202 (236)
T ss_pred             hcCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEECCCe
Confidence            999999999999999999999999985 778899999999844

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=100.00  E-value=8.2e-42  Score=280.11  Aligned_cols=181  Identities=24%  Similarity=0.347  Sum_probs=171.1

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|++.++ .++.+++.+||++|+++++|+++|..+|++.+.++++.+++.|+..++++++++.++
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            5899999999999999999999 566678999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +++++++|+++         |||++++||||+|+ +||+||.+||.|++.+++++++|+|+.+++++|++.|+++|+++|
T Consensus        81 ~~l~~~~~~~~---------~~~~~~~ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~~~~~s~~e  151 (188)
T cd03762          81 SLFKNLCYNYK---------EMLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEE  151 (188)
T ss_pred             HHHHHHHHhcc---------ccceeeEEEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcCCCCCCHHH
Confidence            99999997663         78999999999995 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                      |++++++||+.+.++|. ++++++|++|++++.
T Consensus       152 a~~l~~~al~~~~~rd~~~~~~~~i~~i~~~g~  184 (188)
T cd03762         152 CIKFVKNALSLAMSRDGSSGGVIRLVIITKDGV  184 (188)
T ss_pred             HHHHHHHHHHHHHHhccccCCCEEEEEECCCCE
Confidence            99999999999999986 778999999998844

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=100.00  E-value=8e-41  Score=274.34  Aligned_cols=181  Identities=28%  Similarity=0.432  Sum_probs=172.3

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|++.++++.. .++.+||++|+++++++++|..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999997655 88999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +++++++|.+++        |||++++||||+|+ ++|+||.+||.|++.+++++++|+++++++++|++.|+++|+++|
T Consensus        81 ~~l~~~~~~~~~--------~P~~~~~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~~~~~s~~e  152 (189)
T cd01912          81 NLLSNILYSYRG--------FPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEE  152 (189)
T ss_pred             HHHHHHHHhcCC--------CCeEEEEEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhccCCCCCHHH
Confidence            999999987765        79999999999996 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCC
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADK  223 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~  223 (251)
                      |++++.+||+.+.+++. ++++++|++|++++
T Consensus       153 a~~~~~~~l~~~~~~d~~~~~~~~v~vi~~~g  184 (189)
T cd01912         153 AVELVKKAIDSAIERDLSSGGGVDVAVITKDG  184 (189)
T ss_pred             HHHHHHHHHHHHHHhcCccCCcEEEEEECCCC
Confidence            99999999999999886 67789999999984

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.

>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=5.1e-41  Score=275.42  Aligned_cols=185  Identities=37%  Similarity=0.642  Sum_probs=172.6

Q ss_pred             HhcCCcEEEEEeCCeEEEEEeccCCC-ccc-CCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCC
Q psy5094          31 IKLGSTAIGISTSEGVVLAAEKRITS-VLM-EPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMD  108 (251)
Q Consensus        31 ~~~G~tvvgi~~~~gVvla~d~~~~~-~~~-~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  108 (251)
                      +++|+|+|||+++|||+||+|++.+. +.+ .++..+||++|+++++++++|..+|++.+.++++.+++.|++.++.+++
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            57999999999999999999999996 333 4445799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCC-CeEEEECCCCceeec-CEEEeCCCchhHHHHHHhhhcC
Q psy5094         109 IESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQF-DAKAIGSGSEGAQQSLQEVYHE  186 (251)
Q Consensus       109 ~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g-p~Ly~id~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~  186 (251)
                      ++.+++.++++++.++++...    ||+++++|+||||+++ |+||.+||+|++.++ +++|+|+|+..++++|++.|++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~----~p~~~~~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~~~  156 (190)
T PF00227_consen   81 PEYLAKAIASLIQNYTYRSGR----RPYGVSLLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLYKP  156 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTT----STTSEEEEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHHTT
T ss_pred             chhhhhhhHHHHhhhcccccc----cCccccceeeeeccccccceeeeccccccccccccccchhcchhhhHHHHhhccC
Confidence            999999999999999887654    9999999999999766 999999999999999 7999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEE
Q psy5094         187 SMTLKEAINHVLTILKQVMEEKL-NSTNVELCTV  219 (251)
Q Consensus       187 ~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i  219 (251)
                      +|+++||++++++||+.+.++|. ++++++|++|
T Consensus       157 ~~~~~ea~~~~~~~l~~~~~~d~~~~~~~~v~vi  190 (190)
T PF00227_consen  157 DLSLEEAIELALKALKEAIDRDILSGDNIEVAVI  190 (190)
T ss_dssp             TSSHHHHHHHHHHHHHHHHHHBTTSTSEEEEEEE
T ss_pred             CCCHHHHHHHHHHHHHHHHhhCCccCCeEEEEEC
Confidence            99999999999999999999885 7889999986

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 ....

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=100.00  E-value=7.8e-40  Score=266.67  Aligned_cols=179  Identities=44%  Similarity=0.740  Sum_probs=170.1

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|++.++++.. .++.+||++|+++++|+++|..+|++.+.+.++.++..|++.++++++++.++
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            68999999999999999999986654 78899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +.+++++|+++++  .    |||++++|+||+|+ .||+||.+||.|++.+++++++|+++..++++|++.|+++||.+|
T Consensus        81 ~~l~~~~~~~~~~--~----~p~~~~~lv~G~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~~e  154 (182)
T cd01906          81 KLLANLLYEYTQS--L----RPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEE  154 (182)
T ss_pred             HHHHHHHHHhCCC--c----cChheEEEEEEEeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHccCCCCHHH
Confidence            9999999999885  3    99999999999996 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEE
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTV  219 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i  219 (251)
                      |++++++||+.+.+++. ++.+++|++|
T Consensus       155 a~~l~~~~l~~~~~~~~~~~~~~~i~ii  182 (182)
T cd01906         155 AIELALKALKSALERDLYSGGNIEVAVI  182 (182)
T ss_pred             HHHHHHHHHHHHHcccCCCCCCEEEEEC
Confidence            99999999999999987 6778999875

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

>KOG0175|consensus

Probab=100.00  E-value=2.3e-37  Score=252.78  Aligned_cols=209  Identities=22%  Similarity=0.339  Sum_probs=195.4

Q ss_pred             HhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5094          31 IKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDI  109 (251)
Q Consensus        31 ~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  109 (251)
                      ..+|+|++|+++++|||+|+|+|.+. +++..+..+||.+|+++..-..+|-++|++.+-+.+.++|++|++++++.|||
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            46999999999999999999999999 67889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCC
Q psy5094         110 ESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMT  189 (251)
Q Consensus       110 ~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s  189 (251)
                      ...++.|++++++|..        -.+.+.++|+|||+.||.||.+|..|+..+.+-+++|+|+.+|+++|+..|+++||
T Consensus       148 saASKllsN~~y~YkG--------mGLsmGtMi~G~Dk~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgYr~dls  219 (285)
T KOG0175|consen  148 SAASKLLSNMVYQYKG--------MGLSMGTMIAGWDKKGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGYRYDLS  219 (285)
T ss_pred             HHHHHHHHHHHhhccC--------cchhheeeEeeccCCCCceEEEcCCCCEecCceEeecCCCceeEEeeccCCCCCCC
Confidence            9999999999988865        34778999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccCCCCCC
Q psy5094         190 LKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSSIHDPTR  248 (251)
Q Consensus       190 ~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~~~~~~  248 (251)
                      .+||.+|+++++..+.-||. +++-+.++.|+++ +|..+...++.++...+-+..+|+.
T Consensus       220 ~eEA~~L~rrAI~hAThRDaySGG~vnlyHv~ed-GW~~v~~~Dv~~L~~~~~e~~~~~~  278 (285)
T KOG0175|consen  220 DEEAYDLARRAIYHATHRDAYSGGVVNLYHVKED-GWVKVSNTDVSELHYHYYEVAPPEA  278 (285)
T ss_pred             HHHHHHHHHHHHHHHHhcccccCceEEEEEECCc-cceecCCccHHHHHHHHHHhcCccc
Confidence            99999999999999998886 7888999999998 8999999999999666666666553

>KOG0177|consensus

Probab=100.00  E-value=5.2e-36  Score=234.90  Aligned_cols=187  Identities=21%  Similarity=0.245  Sum_probs=174.1

Q ss_pred             cEEEEEeCCeEEEEEeccCCCcc-cCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHH
Q psy5094          36 TAIGISTSEGVVLAAEKRITSVL-MEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQ  114 (251)
Q Consensus        36 tvvgi~~~~gVvla~d~~~~~~~-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~  114 (251)
                      +++||++.|+|++|+||...+++ +..++.+|+..|++++.|.++|..+|+.++.+++.+.++.|+.++|.++|++.+++
T Consensus         3 ~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aah   82 (200)
T KOG0177|consen    3 TLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAH   82 (200)
T ss_pred             eEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHH
Confidence            68999999999999999988865 55889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCccccccccCCcceeeEEEEEc-CCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         115 AVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       115 ~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      ++.+.+.++.++      .+||.|++|+||+| +.||.||++|..|+..+.++++.|.++.++.++|+++|+|+||.+||
T Consensus        83 FtR~~La~~LRs------r~~yqV~~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y~pdmt~eea  156 (200)
T KOG0177|consen   83 FTRRELAESLRS------RTPYQVNILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYYKPDMTIEEA  156 (200)
T ss_pred             HHHHHHHHHHhc------CCCceEEEEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhhCCCCCHHHH
Confidence            999999887663      27999999999999 55799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcC
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYS  229 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~  229 (251)
                      +++..+|+.++.+|-. +-.++.+.+|+|+ |.+.++
T Consensus       157 ~~lmkKCv~El~kRlvin~~~f~v~IVdkd-Gir~~~  192 (200)
T KOG0177|consen  157 LDLMKKCVLELKKRLVINLPGFIVKIVDKD-GIRKLD  192 (200)
T ss_pred             HHHHHHHHHHHHHhcccCCCCcEEEEEcCC-Cceecc
Confidence            9999999999999975 8889999999999 555443

>KOG0179|consensus

Probab=100.00  E-value=2.2e-35  Score=234.64  Aligned_cols=189  Identities=24%  Similarity=0.364  Sum_probs=174.0

Q ss_pred             HHHhcCCcEEEEEeCCeEEEEEeccCCCcc-cCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCC
Q psy5094          29 EAIKLGSTAIGISTSEGVVLAAEKRITSVL-MEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKM  107 (251)
Q Consensus        29 ~a~~~G~tvvgi~~~~gVvla~d~~~~~~~-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i  107 (251)
                      .-..+|+|+|||++.|++|+|+|||.++++ +.++...||++++|+++++.+|+.+|+..|...++...++|+..++..|
T Consensus        24 PY~~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~m  103 (235)
T KOG0179|consen   24 PYEDNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKM  103 (235)
T ss_pred             ccccCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccc
Confidence            346899999999999999999999999976 4478999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCC-CeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc-
Q psy5094         108 DIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH-  185 (251)
Q Consensus       108 ~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~-  185 (251)
                      ++..+|+.|+..++  .+      |+.||.+..+++|+|+.| +.+|+.||.|++.+..+.|.|+++..++++|+.... 
T Consensus       104 s~~s~A~lls~~LY--~k------RFFPYYv~~ilaGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~  175 (235)
T KOG0179|consen  104 SIHSAAQLLSTILY--SK------RFFPYYVFNILAGIDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGH  175 (235)
T ss_pred             cHHHHHHHHHHHHh--hc------ccccceeeeeeecccccCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccC
Confidence            99999999999995  33      458999999999999765 999999999999999999999999999999997643 


Q ss_pred             ----------CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCE
Q psy5094         186 ----------ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMY  225 (251)
Q Consensus       186 ----------~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~  225 (251)
                                ..+|+|+|+.++..+|..+.+||+ .++.++|+++++++..
T Consensus       176 kn~~~e~~~~~~Ls~e~ai~lv~d~F~SAaERdI~tGD~l~i~I~tk~gV~  226 (235)
T KOG0179|consen  176 KNQNLENAERTPLSLERAIRLVKDAFTSAAERDIYTGDKLEICIITKDGVE  226 (235)
T ss_pred             cCcccccCcccccCHHHHHHHHHHHhhhhhhcccccCCcEEEEEEecCCEE
Confidence                      378999999999999999999999 5678999999998653

>KOG0174|consensus

Probab=100.00  E-value=9.7e-36  Score=234.05  Aligned_cols=201  Identities=19%  Similarity=0.295  Sum_probs=184.2

Q ss_pred             HHhcCCcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCC
Q psy5094          30 AIKLGSTAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMD  108 (251)
Q Consensus        30 a~~~G~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  108 (251)
                      .+..|+|++|+++++||||++|+|.+.+ ++.++-.+|+.+|.|+|+||.||.++|.|.+.+.++.+...|...++.+++
T Consensus        15 evstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~   94 (224)
T KOG0174|consen   15 EVSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPL   94 (224)
T ss_pred             ccccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCch
Confidence            4689999999999999999999999994 677999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCC
Q psy5094         109 IESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES  187 (251)
Q Consensus       109 ~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~  187 (251)
                      +...++.+++++|+|..         -+.+.+||||||+ .|.++|.+---|...+.+++.-|+|+.+++++++..|+++
T Consensus        95 v~~aA~l~r~~~Y~~re---------~L~AgliVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~r~n  165 (224)
T KOG0174|consen   95 VHTAASLFREICYNYRE---------MLSAGLIVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANWRPN  165 (224)
T ss_pred             HHHHHHHHHHHHHhCHH---------hhhcceEEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhcCCC
Confidence            99999999999987753         3779999999994 5799999988888889999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC-EEEcCHHHHHHHHHh
Q psy5094         188 MTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM-YHLYSKEELEEELSK  239 (251)
Q Consensus       188 ~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~-~~~~~~~ei~~~~~~  239 (251)
                      ||+||++.++++|+..++++|- +++.|.+.+|+++|. .+++.++++..+..+
T Consensus       166 Mt~EE~~~fvk~Av~lAi~rDGsSGGviR~~~I~~~Gver~~~~~d~~~~~~v~  219 (224)
T KOG0174|consen  166 MTLEECVRFVKNAVSLAIERDGSSGGVIRLVIINKAGVERRFFPGDKLGQFAVE  219 (224)
T ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEEccCCceEEEecCCcccccccc
Confidence            9999999999999999999997 556799999999977 557888887665543

>KOG0173|consensus

Probab=100.00  E-value=2.9e-35  Score=239.93  Aligned_cols=188  Identities=27%  Similarity=0.457  Sum_probs=176.9

Q ss_pred             HHHHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCC
Q psy5094          27 AIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDE  105 (251)
Q Consensus        27 a~~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~  105 (251)
                      +.++.++|+|+||+.++||||+++|+|.+. +++..++..||..|.++|+||.+|..+|...+.+.+..+.++|++..++
T Consensus        30 ~p~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R  109 (271)
T KOG0173|consen   30 APKATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGR  109 (271)
T ss_pred             CCcccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccCC
Confidence            457788999999999999999999999999 5677899999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc
Q psy5094         106 KMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH  185 (251)
Q Consensus       106 ~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~  185 (251)
                      ++++-...++|.+.+.+|+.         -.++.+|++|+|..|||||.+-|.|+....+|.++|+|+..+.++||.+|+
T Consensus       110 ~~rVv~A~~mlkQ~LFrYqG---------~IgA~LiiGGvD~TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~k  180 (271)
T KOG0173|consen  110 KPRVVTALRMLKQHLFRYQG---------HIGAALILGGVDPTGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRWK  180 (271)
T ss_pred             CCceeeHHHHHHHHHHHhcC---------cccceeEEccccCCCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhcC
Confidence            99999999999999977764         367899999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCC
Q psy5094         186 ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADK  223 (251)
Q Consensus       186 ~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~  223 (251)
                      ++|+.|||++|+.+|+...+-.|+ +++|+++|+|++.+
T Consensus       181 ~dlt~eea~~Lv~eAi~AGi~nDLgSGsnvdlcVI~~~~  219 (271)
T KOG0173|consen  181 PDLTKEEAIKLVCEAIAAGIFNDLGSGSNVDLCVITKKG  219 (271)
T ss_pred             cccCHHHHHHHHHHHHHhhhccccCCCCceeEEEEeCCC
Confidence            999999999999999999988887 78899999999653

>KOG0185|consensus

Probab=100.00  E-value=6.7e-34  Score=229.78  Aligned_cols=228  Identities=17%  Similarity=0.263  Sum_probs=197.5

Q ss_pred             CCceeCCCCcchh------hhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchh
Q psy5094          11 GVNTFSPEGRLFQ------VEYAIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIA   83 (251)
Q Consensus        11 ~~~~fsp~G~l~q------~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~   83 (251)
                      .+++|.|.|...-      +..-+.+.-+|+++||+|++|||+||+|+..++ ++...++.++|++++||+.+|++|..+
T Consensus        12 a~~~f~~~~~~m~~a~~~~~qrt~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdis   91 (256)
T KOG0185|consen   12 APGTFYPSGSLMENAGDYPIQRTLNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDIS   91 (256)
T ss_pred             CCCcCcCccchhhhccCCCcccccCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHH
Confidence            3567888865421      222345567899999999999999999999999 577789999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHH-HHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCC-CeEEEECCCCce
Q psy5094          84 DSRILTDRARVECAN-HWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTY  161 (251)
Q Consensus        84 D~~~l~~~~~~~~~~-~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g-p~Ly~id~~G~~  161 (251)
                      |+|.+.+.+.+.... ..+..++.+.++.++++|++.+  |.+++.+    .|++..++|||+|++| |.|..+|-.|..
T Consensus        92 D~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvl--Y~rRsKm----nPlwntlvVgGv~~~g~~~lg~V~~~G~~  165 (256)
T KOG0185|consen   92 DFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVL--YARRSKM----NPLWNTLVVGGVDNTGEPFLGYVDLLGVA  165 (256)
T ss_pred             HHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHH--HHhhhcc----CchhhheeEeeecCCCCeeEEEEeecccc
Confidence            999999999877655 3366679999999999999999  5576666    8999999999999854 999999999999


Q ss_pred             eecCEEEeCCCchhHHHHHHhhhc---CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHH
Q psy5094         162 TQFDAKAIGSGSEGAQQSLQEVYH---ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEEL  237 (251)
Q Consensus       162 ~~~~~~a~G~g~~~~~~~Le~~~~---~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~  237 (251)
                      .+.+..|+|.|...+.++|++.|.   ++++.+||.+++.+|++.+..||. +.+++++++|+++ |+.+-.|..|...|
T Consensus       166 Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fqva~v~~e-Gv~i~~p~qv~~~W  244 (256)
T KOG0185|consen  166 YESPVVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQVATVDEE-GVTISKPYQVKTNW  244 (256)
T ss_pred             ccCchhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceEEEEEccc-ceEecCceeeeecc
Confidence            999999999999999999999998   589999999999999999999998 5667999999996 77888888888888


Q ss_pred             HhhccCCCC
Q psy5094         238 SKVSSIHDP  246 (251)
Q Consensus       238 ~~~~~~~~~  246 (251)
                      . +.+++++
T Consensus       245 ~-fa~~~~g  252 (256)
T KOG0185|consen  245 D-FAETIKG  252 (256)
T ss_pred             h-hhhhccc
Confidence            4 5555544

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.98  E-value=2.6e-31  Score=213.48  Aligned_cols=165  Identities=16%  Similarity=0.197  Sum_probs=141.7

Q ss_pred             CCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEE-cCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHH
Q psy5094          34 GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEI-DKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIES  111 (251)
Q Consensus        34 G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~  111 (251)
                      |+|+|||+++||||||+|+|.+. .++.+++.+||++| +++++|+++|..+|++.|.+.++.+++.|+..  .   ++.
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~~--~---~~~   75 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQGN--L---LRA   75 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccCc--c---HHH
Confidence            78999999999999999999998 56778999999999 99999999999999999999999999998832  2   466


Q ss_pred             HHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeec--CEEEeCCCchhHHHHHHhhhc-CCC
Q psy5094         112 VAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQF--DAKAIGSGSEGAQQSLQEVYH-ESM  188 (251)
Q Consensus       112 l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~--~~~a~G~g~~~~~~~Le~~~~-~~~  188 (251)
                      +++.+..+.. +..       .+|+.+.+|++  |+  |+||.+||.|++.+.  +++++|+|+.++.++||+.|+ ++|
T Consensus        76 ~a~l~~~l~~-~~~-------~~~l~~~~lv~--d~--~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~~~~m  143 (172)
T PRK05456         76 AVELAKDWRT-DRY-------LRRLEAMLIVA--DK--EHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLENTDL  143 (172)
T ss_pred             HHHHHHHHHh-ccC-------CCccEEEEEEE--cC--CcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhhcCCC
Confidence            6655544321 111       16888999994  43  799999999999766  899999999999999999999 999


Q ss_pred             CHHHHHHHHHHHHHHHhhhcC-CCCcEEEEE
Q psy5094         189 TLKEAINHVLTILKQVMEEKL-NSTNVELCT  218 (251)
Q Consensus       189 s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~  218 (251)
                         ||++++++|++.+.+||. ++++|++-.
T Consensus       144 ---eA~~la~kai~~A~~Rd~~sg~~i~v~~  171 (172)
T PRK05456        144 ---SAEEIAEKALKIAADICIYTNHNITIEE  171 (172)
T ss_pred             ---CHHHHHHHHHHHHHHhCeeCCCcEEEEE
Confidence               999999999999999997 777887753

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

Probab=99.97  E-value=6.4e-30  Score=204.03  Aligned_cols=163  Identities=14%  Similarity=0.137  Sum_probs=138.6

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcC-cEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDK-HIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESV  112 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  112 (251)
                      +|+|||+++||||||+|+|.+. .++.+++.+||++|++ |++|+++|..+|++.|.++++.+++.|+.+.++     .+
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            6899999999999999999998 5677899999999999 999999999999999999999999999988774     44


Q ss_pred             HHHHHHHHHHhcCccccccccCCcc-eeeEEEEEcCCCCeEEEECCCCceeec--CEEEeCCCchhHHHHHHhhhcCC-C
Q psy5094         113 AQAVSNLAIQFGDSDEESAMSRPFG-VAMLFAGLDSKGPQLFHLDPSGTYTQF--DAKAIGSGSEGAQQSLQEVYHES-M  188 (251)
Q Consensus       113 ~~~ls~~~~~~~~~~~~~~~~rP~~-~~~lv~G~d~~gp~Ly~id~~G~~~~~--~~~a~G~g~~~~~~~Le~~~~~~-~  188 (251)
                      ++.+..++ .| +       .+|+. +.++++++|    +||.+||.|.+.+.  +++++|+|+.+++++||..|+++ |
T Consensus        76 a~l~~~l~-~~-~-------~~~~l~a~~iv~~~~----~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk~~~m  142 (171)
T cd01913          76 VELAKDWR-TD-R-------YLRRLEAMLIVADKE----HTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLDHTDL  142 (171)
T ss_pred             HHHHHHHH-hc-c-------CcCceEEEEEEeCCC----cEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhccCCC
Confidence            55544443 12 1       15555 666665443    89999999999998  49999999999999999999995 9


Q ss_pred             CHHHHHHHHHHHHHHHhhhcC-CCCcEEEEE
Q psy5094         189 TLKEAINHVLTILKQVMEEKL-NSTNVELCT  218 (251)
Q Consensus       189 s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~  218 (251)
                      +   +.+++.+|++.+.++|. ++++|++-.
T Consensus       143 s---~~~la~~Av~~A~~rd~~tg~~i~~~~  170 (171)
T cd01913         143 S---AEEIARKALKIAADICIYTNHNITVEE  170 (171)
T ss_pred             C---HHHHHHHHHHHHHhhCcccCCCEEEEe
Confidence            9   55999999999999997 677787753

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

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

Probab=99.97  E-value=4.5e-29  Score=198.05  Aligned_cols=161  Identities=36%  Similarity=0.528  Sum_probs=154.0

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+||+++++||++|+|++.+.+... .....|++.++++++++++|..+|++.+.++++.+++.|++.++.++++..++
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALA   80 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Confidence            58999999999999999999987655 77899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeec-CEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQF-DAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +.+++.++.+++   .    ||+++++|++|+|+++|+||.+||.|++.++ +++++|+++..+.++|++.++++++.++
T Consensus        81 ~~~~~~~~~~~~---~----~p~~~~~iiag~~~~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~~~~~~~~  153 (164)
T cd01901          81 KELAKLLQVYTQ---G----RPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEE  153 (164)
T ss_pred             HHHHHHHHHhcC---C----CCcceEEEEEEEcCCCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhcCCCCHHH
Confidence            999999999887   3    9999999999999988999999999999999 9999999999999999999999999999


Q ss_pred             HHHHHHHHHH
Q psy5094         193 AINHVLTILK  202 (251)
Q Consensus       193 a~~l~~~~l~  202 (251)
                      +++++.+||+
T Consensus       154 ~~~~~~~~l~  163 (164)
T cd01901         154 AVELALKALK  163 (164)
T ss_pred             HHHHHHHHHh
Confidence            9999999885

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

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.97  E-value=2.9e-29  Score=200.27  Aligned_cols=163  Identities=14%  Similarity=0.163  Sum_probs=136.4

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEE-cCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEI-DKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESV  112 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  112 (251)
                      +|+|||+++||||||+|+|.+. .++.+++.+||++| ++|++||++|..+|++.|.++++.+++.|+...     .+.+
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            6899999999999999999998 56779999999999 599999999999999999999999999988742     3555


Q ss_pred             HHHHHHHHHHhcCccccccccCC-cceeeEEEEEcCCCCeEEEECCCCceeec--CEEEeCCCchhHHHHHHhhh-cCCC
Q psy5094         113 AQAVSNLAIQFGDSDEESAMSRP-FGVAMLFAGLDSKGPQLFHLDPSGTYTQF--DAKAIGSGSEGAQQSLQEVY-HESM  188 (251)
Q Consensus       113 ~~~ls~~~~~~~~~~~~~~~~rP-~~~~~lv~G~d~~gp~Ly~id~~G~~~~~--~~~a~G~g~~~~~~~Le~~~-~~~~  188 (251)
                      ++.++++. -| +       .+| +.+.+|++|+    ++||.+||.|.+.+.  +++++|+|+.+++++||..| +++|
T Consensus        76 a~l~~~~~-~~-~-------~~~~l~a~~iv~~~----~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~~~~~  142 (171)
T TIGR03692        76 VELAKDWR-TD-R-------YLRRLEAMLIVADK----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLRNTDL  142 (171)
T ss_pred             HHHHHHHh-hc-c-------cccccEEEEEEEcC----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhhcCCC
Confidence            66655531 11 1       133 3377777644    389999999999996  69999999999999999999 4677


Q ss_pred             CHHHHHHHHHHHHHHHhhhcC-CCCcEEEEE
Q psy5094         189 TLKEAINHVLTILKQVMEEKL-NSTNVELCT  218 (251)
Q Consensus       189 s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~  218 (251)
                      +   |++++.++++.+.++|. ++++|++-.
T Consensus       143 s---a~~la~~Av~~A~~rd~~sg~~i~v~~  170 (171)
T TIGR03692       143 S---AEEIAREALKIAADICIYTNHNITIEE  170 (171)
T ss_pred             C---HHHHHHHHHHHHHhhCccCCCCEEEEe
Confidence            7   99999999999999997 677787753

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

Probab=99.96  E-value=1.1e-28  Score=190.93  Aligned_cols=185  Identities=19%  Similarity=0.256  Sum_probs=172.7

Q ss_pred             hcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHH
Q psy5094          32 KLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIE  110 (251)
Q Consensus        32 ~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~  110 (251)
                      -+|+++||.++|++|.||+|.|... ......+.+||++++|++++|.+|+..|++.+.++++..-..|+++.+++|-++
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            4899999999999999999999988 556688999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-CCeEEEECCCCceee-cCEEEeCCCchhHHHHHHhhhcCCC
Q psy5094         111 SVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQ-FDAKAIGSGSEGAQQSLQEVYHESM  188 (251)
Q Consensus       111 ~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-gp~Ly~id~~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~~~  188 (251)
                      .+++++|.++|+.        |+.||-+..+|||+|++ .|.+...|..|.... .+|++.|.++....+.+|..|+|+|
T Consensus        86 ~~s~mvS~~lYek--------RfgpYf~~PvVAGl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly~pnm  157 (204)
T KOG0180|consen   86 TFSSMVSSLLYEK--------RFGPYFTEPVVAGLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALYEPNM  157 (204)
T ss_pred             HHHHHHHHHHHHh--------hcCCcccceeEeccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhcCCCC
Confidence            9999999999653        24799999999999965 599999999999974 7999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         189 TLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       189 s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                      ..++..+.+.+++-.+.+||. ++.+..+.+|+||+.
T Consensus       158 epd~LFetisQa~Lna~DRDalSGwGa~vyiI~kdkv  194 (204)
T KOG0180|consen  158 EPDELFETISQALLNAVDRDALSGWGAVVYIITKDKV  194 (204)
T ss_pred             CHHHHHHHHHHHHHhHhhhhhhccCCeEEEEEccchh
Confidence            999999999999999999986 888999999999955

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

Probab=99.50  E-value=1.1e-14  Score=76.10  Aligned_cols=23  Identities=74%  Similarity=1.324  Sum_probs=22.2

Q ss_pred             CCCCCceeCCCCcchhhhhHHHH
Q psy5094           8 YDRGVNTFSPEGRLFQVEYAIEA   30 (251)
Q Consensus         8 yd~~~~~fsp~G~l~q~eya~~a   30 (251)
                      ||.++|+|||+|||+|||||+||
T Consensus         1 YD~~~t~FSp~Grl~QVEYA~~A   23 (23)
T PF10584_consen    1 YDRSITTFSPDGRLFQVEYAMKA   23 (23)
T ss_dssp             TSSSTTSBBTTSSBHHHHHHHHH
T ss_pred             CCCCceeECCCCeEEeeEeeecC
Confidence            89999999999999999999987

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 ....

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

Probab=99.33  E-value=1.1e-11  Score=99.13  Aligned_cols=188  Identities=16%  Similarity=0.211  Sum_probs=140.7

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEE----cCcEEEEeccchhHHHHHHHHHHHHHHH-HHhhhCCCCCH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEI----DKHIGCAASGLIADSRILTDRARVECAN-HWFTYDEKMDI  109 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i----~~~i~~~~sG~~~D~~~l~~~~~~~~~~-~~~~~~~~i~~  109 (251)
                      +.|||++...|.|+++|+|...+.-.....+|++--    +.-++++.+|..+-.|.+++.+.+..+. ..-.--.-.+.
T Consensus         2 TYCv~l~l~~GlVf~sDsRTNAGvD~istfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~sm   81 (255)
T COG3484           2 TYCVGLILDFGLVFGSDSRTNAGVDYISTFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIPSM   81 (255)
T ss_pred             ceEEEEEeccceEEecccccccCchHHHHHHHHhhccCCCceEEEEEecCccHHHHHHHHHHHHHhhccchhhhhcchhH
Confidence            469999999999999999987754323344555433    2336788899999999999988776641 11111123466


Q ss_pred             HHHHHHHHHHHHHhcCcccccc--ccCCcceeeEEEEEcCCC-CeEEEECCCCceee----cCEEEeCCCchhHHHHHHh
Q psy5094         110 ESVAQAVSNLAIQFGDSDEESA--MSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQ----FDAKAIGSGSEGAQQSLQE  182 (251)
Q Consensus       110 ~~l~~~ls~~~~~~~~~~~~~~--~~rP~~~~~lv~G~d~~g-p~Ly~id~~G~~~~----~~~~a~G~g~~~~~~~Le~  182 (251)
                      -..+..+++...+-..+....+  ..--|.|++|++|.=.++ |.||.+-|.|++.+    .+|.-+|.. .+-+++|++
T Consensus        82 ~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~pp~Ly~IYpqGNFIqaT~etpf~QiGEt-KYGKPildR  160 (255)
T COG3484          82 YEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEPPRLYLIYPQGNFIQATPETPFLQIGET-KYGKPILDR  160 (255)
T ss_pred             HHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCCceeEEEccCCCeeecCCCCceeEcccc-ccCchhhhh
Confidence            6677777776654433322211  124689999999987655 89999999999984    689999954 788999999


Q ss_pred             hhcCCCCHHHHHHHHHHHHHHHhhhcCCCC-cEEEEEEEcCC
Q psy5094         183 VYHESMTLKEAINHVLTILKQVMEEKLNST-NVELCTVTADK  223 (251)
Q Consensus       183 ~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~-~i~i~~i~~~~  223 (251)
                      .+..+++++||.+.++-++....+..++.+ .+++.++.+|.
T Consensus       161 ~i~~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~ds  202 (255)
T COG3484         161 TITYDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEADS  202 (255)
T ss_pred             hhhccCCHHHHhhheEEecchhhhccccccCCceeEEEeccc
Confidence            999999999999999999999888877655 58888888873

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

Probab=99.25  E-value=9.9e-11  Score=90.61  Aligned_cols=168  Identities=17%  Similarity=0.203  Sum_probs=118.9

Q ss_pred             cCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEE-cCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHH
Q psy5094          33 LGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEI-DKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIE  110 (251)
Q Consensus        33 ~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~  110 (251)
                      +++|||+++-++-|+||.|.+++- +.+...+.+|+..| +.++..|++|..+|+..|.+.+...++.|.-    .+ .+
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~g----~L-~r   77 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQG----DL-FR   77 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHccC----cH-HH
Confidence            689999999999999999999988 45555565555555 4589999999999999999999988887641    10 11


Q ss_pred             HHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceee--cCEEEeCCCchhHHHHHHhhhcC-C
Q psy5094         111 SVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQ--FDAKAIGSGSEGAQQSLQEVYHE-S  187 (251)
Q Consensus       111 ~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~--~~~~a~G~g~~~~~~~Le~~~~~-~  187 (251)
                      ..+....++   ++.+     ..|-+.+-+|++  |+  -.+|-+.-.|-+.+  ...+++|||..++.+-....+.. +
T Consensus        78 aavelaKdw---r~Dk-----~lr~LEAmllVa--d~--~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~~~~  145 (178)
T COG5405          78 AAVELAKDW---RTDK-----YLRKLEAMLLVA--DK--THILIITGNGDVIEPEDDIIAIGSGGNYALSAARALMENTE  145 (178)
T ss_pred             HHHHHHHhh---hhhh-----HHHHHhhheeEe--CC--CcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHhccC
Confidence            222222222   1111     124566777776  44  44888889998885  46999999999999887777643 4


Q ss_pred             CCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEE
Q psy5094         188 MTLKEAINHVLTILKQVMEEKL-NSTNVELCTVT  220 (251)
Q Consensus       188 ~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~  220 (251)
                      +|   |-+++.++|..+.+-.+ +..+|.|-.++
T Consensus       146 ls---A~eIa~~sl~iA~eiciyTN~ni~ve~l~  176 (178)
T COG5405         146 LS---AREIAEKSLKIAGDICIYTNHNIVVEELR  176 (178)
T ss_pred             CC---HHHHHHHHHhhhheEEEecCCcEEEEEee
Confidence            44   55678888888876655 45567766554

>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=96.10  E-value=0.38  Score=39.10  Aligned_cols=154  Identities=19%  Similarity=0.235  Sum_probs=88.4

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQ  114 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~  114 (251)
                      +.+||..+++|+|||.|+|                     =+++-|.......|-+         .+..|.--+=+.|.+
T Consensus         2 SLII~y~GknGaViaGDkR---------------------~I~F~G~~~~re~LEe---------eLYsG~IktdeEL~k   51 (194)
T PF09894_consen    2 SLIIAYYGKNGAVIAGDKR---------------------NIAFRGDEEKREKLEE---------ELYSGKIKTDEELLK   51 (194)
T ss_pred             eEEEEEecCCCcEEeccce---------------------eeeecCCHHHHHHHHH---------HHhCCccCCHHHHHH
Confidence            4689999999999999988                     1456676665544433         222344445566665


Q ss_pred             HHHHHHHHhcCcccccccc--CCcceeeEEEEEc------CCCCeEEEE-------CCCCceeec-------CEEEeCCC
Q psy5094         115 AVSNLAIQFGDSDEESAMS--RPFGVAMLFAGLD------SKGPQLFHL-------DPSGTYTQF-------DAKAIGSG  172 (251)
Q Consensus       115 ~ls~~~~~~~~~~~~~~~~--rP~~~~~lv~G~d------~~gp~Ly~i-------d~~G~~~~~-------~~~a~G~g  172 (251)
                      ...++=-...-.   +-+.  +-.+ .++++-+-      ...-.+|..       |-.|.-...       ...+.|..
T Consensus        52 kA~Elgv~i~I~---D~r~KV~~~~-~vlvGEV~s~~g~~skRRRiY~t~g~~~Ivei~~~~i~~~~~g~~sgiIVfGNk  127 (194)
T PF09894_consen   52 KAEELGVKIKIT---DDREKVRKIG-DVLVGEVTSISGKDSKRRRIYATKGKYAIVEIENDEITNKSRGEGSGIIVFGNK  127 (194)
T ss_pred             HHHHcCCEEEEe---cCchheEEeC-CEEEEEEEEEcCccceeeEEEecCCCEEEEEecCCeEEEEecCCceeEEEECCH
Confidence            554431000000   0000  1122 24444333      222345543       222222111       12333322


Q ss_pred             --chhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCC-CCcEEEEEEEcC
Q psy5094         173 --SEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLN-STNVELCTVTAD  222 (251)
Q Consensus       173 --~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~-~~~i~i~~i~~~  222 (251)
                        .+.+...|.++|++.|+++++.++..++|..+.+...+ ++.+++...++.
T Consensus       128 ~~K~ia~~~lkk~~~~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~~~~~~~  180 (194)
T PF09894_consen  128 FTKEIANKELKKYWKPKMSLKDIENIFEKIMEEVASKTPSVSKEYDIYITTKK  180 (194)
T ss_pred             HHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhcCCCccCcEEEEEeccc
Confidence              16688899999999999999999999999999766554 556888777654

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

>COG4079 Uncharacterized protein conserved in archaea [Function unknown]

Probab=94.35  E-value=2.4  Score=35.83  Aligned_cols=169  Identities=17%  Similarity=0.277  Sum_probs=99.8

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQ  114 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~  114 (251)
                      +.+|+..+++|.|+|.|+|                     -+.+-|.-.|-..+-+         ++..|.--+-++|++
T Consensus         2 tLviay~gknGaviaGDrR---------------------~i~frgdee~re~lEe---------kLYsGeIkteEEL~r   51 (293)
T COG4079           2 TLVIAYIGKNGAVIAGDRR---------------------EITFRGDEEDREKLEE---------KLYSGEIKTEEELAR   51 (293)
T ss_pred             eEEEEEecCCCcEEeccce---------------------EEEEecChhHHHHHHH---------HhhcCccccHHHHHH
Confidence            4689999999999999977                     1445666666554443         334555567777777


Q ss_pred             HHHHHHHHhcCccccccccCCcceeeEEEEEcCCC------CeEEEECCCCcee--e-----cCEEEeCC-------Cc-
Q psy5094         115 AVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG------PQLFHLDPSGTYT--Q-----FDAKAIGS-------GS-  173 (251)
Q Consensus       115 ~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g------p~Ly~id~~G~~~--~-----~~~~a~G~-------g~-  173 (251)
                      .+.++=-+++-.... --.|-..-+++++-+...+      -.+|..  .|++.  +     .-....|.       |. 
T Consensus        52 ~aeel~Vki~vtDdr-~KVrk~~d~VvvGEV~s~~~~~vkRRRvYAT--~Ga~aIvel~gs~vts~~~g~g~aiIv~Gnk  128 (293)
T COG4079          52 KAEELGVKITVTDDR-NKVRKRNDGVVVGEVSSVERGIVKRRRVYAT--AGAYAIVELRGSEVTSTSQGKGSAIIVFGNK  128 (293)
T ss_pred             HHHHcCCEEEEEcch-HhhhcccCcEEEEEeecccccceeeeEEeec--CCceEEEEecCCeeEeeecCCCceEEEECcH
Confidence            766552111110000 0012233345555554322      234433  23221  1     12222333       22 


Q ss_pred             ---hhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCC-CEEEcCHHHHHHH
Q psy5094         174 ---EGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADK-MYHLYSKEELEEE  236 (251)
Q Consensus       174 ---~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~-~~~~~~~~ei~~~  236 (251)
                         +.+..+|.+.|.+.++++++.++..++|..+..... -++..+++.++..- ++.++-++++..+
T Consensus       129 ~~Ke~aneflk~~l~~k~~lqd~~dal~elfe~vss~tpsVskeydiy~vs~~~d~~~rl~kkDie~L  196 (293)
T COG4079         129 FTKEVANEFLKDNLTKKSKLQDAVDALMELFETVSSKTPSVSKEYDIYQVSSNVDPVLRLVKKDIETL  196 (293)
T ss_pred             HHHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHhhcCCCcccceeEEEEecCCcCHHHHHHHHHHHHH
Confidence               457778999999999999999999999988875544 35678888887652 2556666666554

>KOG3361|consensus

Probab=82.28  E-value=2.4  Score=32.33  Aligned_cols=84  Identities=23%  Similarity=0.308  Sum_probs=59.9

Q ss_pred             EEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHH
Q psy5094         153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEE  232 (251)
Q Consensus       153 y~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~e  232 (251)
                      ..+|-+|.+...+|-..|-|+..+-+-+-..|-..+|++||.++--.-+   .+. ++--.+.+       -.-.+.++.
T Consensus        71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTewvkgkt~dea~kIkNteI---AKe-L~LPPVKL-------HCSMLAEDA  139 (157)
T KOG3361|consen   71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEWVKGKTLDEALKIKNTEI---AKE-LSLPPVKL-------HCSMLAEDA  139 (157)
T ss_pred             EEECCCCcEEEeeeeecccchHhhhhHHHHHHHccccHHHHHhcccHHH---HHh-ccCCchhh-------hhHHHHHHH
Confidence            4678899999999999999999999999999999999999987652211   111 11100100       033678888


Q ss_pred             HHHHHHhhccCCCCC
Q psy5094         233 LEEELSKVSSIHDPT  247 (251)
Q Consensus       233 i~~~~~~~~~~~~~~  247 (251)
                      |...+..+++..++.
T Consensus       140 IKaAikdyk~Kq~~~  154 (157)
T KOG3361|consen  140 IKAAIKDYKEKQNKP  154 (157)
T ss_pred             HHHHHHHHHHhccCC
Confidence            888888888776643

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	251
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		1e-102
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		1e-101
1vsy_E	250	Proteasome Activator Complex Length = 250		5e-77
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		6e-77
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		6e-77
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		6e-77
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		1e-73
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		7e-72
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		4e-48
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		7e-45
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		8e-45
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		8e-45
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		5e-44
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		1e-43
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		2e-43
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		3e-43
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		4e-43
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		5e-38
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		5e-38
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		3e-37
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		2e-36
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		2e-36
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		2e-36
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		2e-35
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		9e-35
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		1e-34
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		1e-34
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		1e-34
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		1e-34
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		1e-34
1vsy_C	232	Proteasome Activator Complex Length = 232		1e-34
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		2e-34
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		3e-33
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		3e-33
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		4e-33
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		5e-33
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		6e-33
1iru_F	263	Crystal Structure Of The Mammalian 20s Proteasome A		2e-32
3unb_E	263	Mouse Constitutive 20s Proteasome In Complex With P		2e-32
1g0u_E	234	A Gated Channel Into The Proteasome Core Particle L		1e-30
3sdi_E	233	Structure Of Yeast 20s Open-Gate Proteasome With Co		2e-30
1fnt_F	234	Crystal Structure Of The 20s Proteasome From Yeast		7e-30
4g4s_F	235	Structure Of Proteasome-Pba1-Pba2 Complex Length =		7e-30
1ryp_F	233	Crystal Structure Of The 20s Proteasome From Yeast		9e-30
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		1e-29
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		2e-29
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		2e-29
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		1e-28
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		2e-28
1vsy_D	227	Proteasome Activator Complex Length = 227		7e-28
1vsy_B	231	Proteasome Activator Complex Length = 231		5e-25
1ryp_A	243	Crystal Structure Of The 20s Proteasome From Yeast		1e-20
1g0u_G	252	A Gated Channel Into The Proteasome Core Particle L		1e-20
1ya7_H	217	Implications For Interactions Of Proteasome With Pa		8e-15
1pma_B	211	Proteasome From Thermoplasma Acidophilum Length = 2		8e-15
3c91_H	203	Thermoplasma Acidophilum 20s Proteasome With An Ope		6e-14
1j2q_H	202	20s Proteasome In Complex With Calpain-inhibitor I		3e-12
3unf_H	234	Mouse 20s Immunoproteasome In Complex With Pr-957 L		4e-12
3unf_K	204	Mouse 20s Immunoproteasome In Complex With Pr-957 L		1e-09
3h4p_a	219	Proteasome 20s Core Particle From Methanocaldococcu		3e-09
1iru_I	234	Crystal Structure Of The Mammalian 20s Proteasome A		6e-09
3unb_K	205	Mouse Constitutive 20s Proteasome In Complex With P		2e-08
3nzj_K	287	Crystal Structure Of Yeast 20s Proteasome In Comple		3e-08
3unb_H	234	Mouse Constitutive 20s Proteasome In Complex With P		3e-08
4b4t_5	287	Near-Atomic Resolution Structural Model Of The Yeas		6e-08
1g0u_K	212	A Gated Channel Into The Proteasome Core Particle L		2e-07
3nzj_H	261	Crystal Structure Of Yeast 20s Proteasome In Comple		2e-07
1iru_L	204	Crystal Structure Of The Mammalian 20s Proteasome A		2e-07
1ryp_L	212	Crystal Structure Of The 20s Proteasome From Yeast		3e-07
1ryp_I	222	Crystal Structure Of The 20s Proteasome From Yeast		2e-06
1fnt_I	232	Crystal Structure Of The 20s Proteasome From Yeast		2e-06
3unb_N	205	Mouse Constitutive 20s Proteasome In Complex With P		3e-05
1iru_H	205	Crystal Structure Of The Mammalian 20s Proteasome A		3e-04

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

Iteration: 1
 Score =  368 bits (945), Expect = e-102,   Method: Compositional matrix adjust.
 Identities = 176/229 (76%), Positives = 197/229 (86%), Gaps = 1/229 (0%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120
Query: 121 IQFGDSD-EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180
Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           LQEVYH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H++
Sbjct: 181 LQEVYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMF 229

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

Iteration: 1
 Score =  364 bits (934), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 174/229 (75%), Positives = 196/229 (85%), Gaps = 1/229 (0%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEY IEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120
Query: 121 IQFGDSD-EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           +QFG+ D +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180
Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           LQE+YH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H++
Sbjct: 181 LQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMF 229

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

Iteration: 1
 Score =  283 bits (725), Expect = 5e-77,   Method: Compositional matrix adjust.
 Identities = 143/231 (61%), Positives = 176/231 (76%), Gaps = 3/231 (1%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIGI+T EGVVL  EKR TS L+E
Sbjct: 1   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 60
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             SI+KIVEID+HIGCA SGL AD+R + + AR     H   YDE +++ES+ Q+V +LA
Sbjct: 61  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 120
Query: 121 IQFGD--SDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQ 177
           ++FG+  S EE  MSRPFGVA+L AG D+  G QLFH +PSGT+ +++AKAIGSGSEGAQ
Sbjct: 121 LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ 180
Query: 178 QSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             L   +H S+TLKEA   VL ILKQVMEEKL+  N +L  +T    + +Y
Sbjct: 181 AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIY 231

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

Iteration: 1
 Score =  283 bits (724), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 143/231 (61%), Positives = 176/231 (76%), Gaps = 3/231 (1%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIGI+T EGVVL  EKR TS L+E
Sbjct: 3   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 62
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             SI+KIVEID+HIGCA SGL AD+R + + AR     H   YDE +++ES+ Q+V +LA
Sbjct: 63  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 122
Query: 121 IQFGD--SDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQ 177
           ++FG+  S EE  MSRPFGVA+L AG D+  G QLFH +PSGT+ +++AKAIGSGSEGAQ
Sbjct: 123 LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ 182
Query: 178 QSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             L   +H S+TLKEA   VL ILKQVMEEKL+  N +L  +T    + +Y
Sbjct: 183 AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIY 233

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

Iteration: 1
 Score =  283 bits (724), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 143/231 (61%), Positives = 176/231 (76%), Gaps = 3/231 (1%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIGI+T EGVVL  EKR TS L+E
Sbjct: 2   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 61
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             SI+KIVEID+HIGCA SGL AD+R + + AR     H   YDE +++ES+ Q+V +LA
Sbjct: 62  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 121
Query: 121 IQFGD--SDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQ 177
           ++FG+  S EE  MSRPFGVA+L AG D+  G QLFH +PSGT+ +++AKAIGSGSEGAQ
Sbjct: 122 LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ 181
Query: 178 QSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             L   +H S+TLKEA   VL ILKQVMEEKL+  N +L  +T    + +Y
Sbjct: 182 AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIY 232

>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 =  283 bits (724), Expect = 6e-77,   Method: Compositional matrix adjust.
 Identities = 143/231 (61%), Positives = 176/231 (76%), Gaps = 3/231 (1%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIGI+T EGVVL  EKR TS L+E
Sbjct: 1   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 60
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             SI+KIVEID+HIGCA SGL AD+R + + AR     H   YDE +++ES+ Q+V +LA
Sbjct: 61  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 120
Query: 121 IQFGD--SDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQ 177
           ++FG+  S EE  MSRPFGVA+L AG D+  G QLFH +PSGT+ +++AKAIGSGSEGAQ
Sbjct: 121 LRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQ 180
Query: 178 QSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
             L   +H S+TLKEA   VL ILKQVMEEKL+  N +L  +T    + +Y
Sbjct: 181 AELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIY 231

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

Iteration: 1
 Score =  273 bits (697), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 139/229 (60%), Positives = 170/229 (74%), Gaps = 8/229 (3%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGV+TFSPEGRLFQVEY++EAIKLGSTAIGI+T EGVVL  EKR TS L+E
Sbjct: 1   MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLE 60
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             SI+KIVEID+HIGCA SGL AD+R + + AR     H   YDE +++ES+ Q+V +LA
Sbjct: 61  SDSIEKIVEIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLA 120
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
                    +AMSRPFGVA+L AG D+  G QLFH +PSGT+ +++AKAIGSGSEGAQ  
Sbjct: 121 AA-------AAMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAE 173
Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           L   +H S+TLKEA   VL ILKQVMEEKL+  N +L  +T    + +Y
Sbjct: 174 LLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIY 222

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

Iteration: 1
 Score =  266 bits (681), Expect = 7e-72,   Method: Compositional matrix adjust.
 Identities = 135/223 (60%), Positives = 168/223 (75%), Gaps = 3/223 (1%)
Query: 9   DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIV 68
           DRGV+TFSPEGRLFQVEY++EAIKLGSTAIGI+T EGVVL  EKR TS L+E  SI+KIV
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60
Query: 69  EIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD--S 126
           EID+HIGCA SGL AD+R + + AR     H   YDE +++ES+ Q+V +LA++FG+  S
Sbjct: 61  EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120
Query: 127 DEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
            EE  MSRPFGVA+L AG D+  G QLFH +PSGT+ +++AKAIGSGSEGAQ  L   +H
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWH 180
Query: 186 ESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
            S+TLKEA   VL ILKQVMEEKL+  N +L  +T    + +Y
Sbjct: 181 SSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIY 223

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

Iteration: 1
 Score =  187 bits (476), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 93/215 (43%), Positives = 140/215 (65%), Gaps = 5/215 (2%)
Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
           S YDR +  FSPEGRL+QVEYA EA++ G+TAIGI+  +GVVLA ++RITS L++  SI+
Sbjct: 10  SAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIE 69
Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           KI +ID H+  A SGL+AD+R+L DRAR+E   +  TY E++ IE +A+ + ++   +  
Sbjct: 70  KIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAY-- 127
Query: 126 SDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
              +    RPFGV++L AG+D    +LF  DPSG   ++ A AIGSG     + L++ Y 
Sbjct: 128 --TQHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELLEKEYR 185
Query: 186 ESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVT 220
           + +TL E +   +T L +  E+ +   NV++C +T
Sbjct: 186 DDITLDEGLELAITALTKANED-IKPENVDVCIIT 219

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

Iteration: 1
 Score =  177 bits (448), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 88/221 (39%), Positives = 137/221 (61%), Gaps = 4/221 (1%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+GRLFQVEYA EA+K GSTA+G+  + GV+L ++K++ S L+E +SI+KI
Sbjct: 2   YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 61
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             ID ++    SGL+AD+R+L D AR+       TY   ++IE++ + V++   Q+    
Sbjct: 62  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---- 117
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES 187
            +    RP+GV+++FAG+D  GP+LF  DP+GT  ++ A AIGSG +     L+  Y E+
Sbjct: 118 TQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKEN 177
Query: 188 MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           +  KEA+   +  LK  +EE       E+ ++T    Y +Y
Sbjct: 178 LPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIY 218

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

Iteration: 1
 Score =  176 bits (447), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 88/221 (39%), Positives = 137/221 (61%), Gaps = 4/221 (1%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+GRLFQVEYA EA+K GSTA+G+  + GV+L ++K++ S L+E +SI+KI
Sbjct: 12  YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 71
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             ID ++    SGL+AD+R+L D AR+       TY   ++IE++ + V++   Q+    
Sbjct: 72  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---- 127
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES 187
            +    RP+GV+++FAG+D  GP+LF  DP+GT  ++ A AIGSG +     L+  Y E+
Sbjct: 128 TQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKEN 187
Query: 188 MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           +  KEA+   +  LK  +EE       E+ ++T    Y +Y
Sbjct: 188 LPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIY 228

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

Iteration: 1
 Score =  176 bits (447), Expect = 8e-45,   Method: Compositional matrix adjust.
 Identities = 88/221 (39%), Positives = 137/221 (61%), Gaps = 4/221 (1%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+GRLFQVEYA EA+K GSTA+G+  + GV+L ++K++ S L+E +SI+KI
Sbjct: 8   YDRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 67
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             ID ++    SGL+AD+R+L D AR+       TY   ++IE++ + V++   Q+    
Sbjct: 68  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---- 123
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES 187
            +    RP+GV+++FAG+D  GP+LF  DP+GT  ++ A AIGSG +     L+  Y E+
Sbjct: 124 TQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKEN 183
Query: 188 MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           +  KEA+   +  LK  +EE       E+ ++T    Y +Y
Sbjct: 184 LPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIY 224

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

Iteration: 1
 Score =  174 bits (440), Expect = 5e-44,   Method: Compositional matrix adjust.
 Identities = 87/221 (39%), Positives = 136/221 (61%), Gaps = 4/221 (1%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           Y R +  FSP+GRLFQVEYA EA+K GSTA+G+  + GV+L ++K++ S L+E +SI+KI
Sbjct: 8   YSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKI 67
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             ID ++    SGL+AD+R+L D AR+       TY   ++IE++ + V++   Q+    
Sbjct: 68  QLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY---- 123
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES 187
            +    RP+GV+++FAG+D  GP+LF  DP+GT  ++ A AIGSG +     L+  Y E+
Sbjct: 124 TQYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKEN 183
Query: 188 MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           +  KEA+   +  LK  +EE       E+ ++T    Y +Y
Sbjct: 184 LPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIY 224

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

Iteration: 1
 Score =  173 bits (438), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 89/222 (40%), Positives = 137/222 (61%), Gaps = 5/222 (2%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           M L +  YDR +  FSP+GRLFQVEYA EA+K G+TAIGI   EGV+L A+KR+ S L+E
Sbjct: 1   MHLPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLE 60
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             +I+KI +ID+HI  A SGL+AD+R+L DRAR+E   +  TYD  + ++ +A+ + +  
Sbjct: 61  KDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFK 120
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
            Q+     +    RPFGV++L AG++   P+L+  DPSG   ++ A AIG G     +  
Sbjct: 121 QQY----TQYGGVRPFGVSLLIAGVNEV-PKLYETDPSGALLEYKATAIGMGRMAVTEFF 175
Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD 222
           ++ Y + ++  +A+   L  +   +E +L   N+E+  V  D
Sbjct: 176 EKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVD 217

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

Iteration: 1
 Score =  172 bits (436), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 87/213 (40%), Positives = 133/213 (62%), Gaps = 5/213 (2%)
Query: 10  RGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVE 69
           R +  FSP+GRLFQVEYA EA+K G+TAIGI   EGV+L A+KR+ S L+E  +I+KI +
Sbjct: 1   RAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEADTIEKIYK 60
Query: 70  IDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE 129
           ID+HI  A SGL+AD+R+L DRAR+E   +  TYDE + ++ +A+ + +   Q+     +
Sbjct: 61  IDEHICAATSGLVADARVLIDRARIEAQINRLTYDEPITVKELAKKICDFKQQY----TQ 116
Query: 130 SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMT 189
               RPFGV++L AG+D   P+L+  DPSG   ++ A AIG G     +  ++ Y + ++
Sbjct: 117 YGGVRPFGVSLLIAGVDEV-PKLYETDPSGALLEYKATAIGMGRNAVTEFFEKEYRDDLS 175
Query: 190 LKEAINHVLTILKQVMEEKLNSTNVELCTVTAD 222
             +A+   L  +   +E +L   N+E+  V  D
Sbjct: 176 FDDAMVLGLVAMGLSIESELVPENIEVGYVKVD 208

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

Iteration: 1
 Score =  171 bits (434), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 86/219 (39%), Positives = 135/219 (61%), Gaps = 4/219 (1%)
Query: 10  RGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVE 69
           R +  FSP+GRLFQVEYA EA+K GSTA+G+  + GV+L ++K++ S L+E +SI+KI  
Sbjct: 10  RAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQL 69
Query: 70  IDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE 129
           ID ++    SGL+AD+R+L D AR+       TY   ++IE++ + V++   Q+     +
Sbjct: 70  IDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY----TQ 125
Query: 130 SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMT 189
               RP+GV+++FAG+D  GP+LF  DP+GT  ++ A AIGSG +     L+  Y E++ 
Sbjct: 126 YGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLP 185
Query: 190 LKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
            KEA+   +  LK  +EE       E+ ++T    Y +Y
Sbjct: 186 EKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIY 224

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

Iteration: 1
 Score =  171 bits (433), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 86/219 (39%), Positives = 135/219 (61%), Gaps = 4/219 (1%)
Query: 10  RGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVE 69
           R +  FSP+GRLFQVEYA EA+K GSTA+G+  + GV+L ++K++ S L+E +SI+KI  
Sbjct: 14  RAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQL 73
Query: 70  IDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE 129
           ID ++    SGL+AD+R+L D AR+       TY   ++IE++ + V++   Q+     +
Sbjct: 74  IDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQY----TQ 129
Query: 130 SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMT 189
               RP+GV+++FAG+D  GP+LF  DP+GT  ++ A AIGSG +     L+  Y E++ 
Sbjct: 130 YGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLP 189
Query: 190 LKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLY 228
            KEA+   +  LK  +EE       E+ ++T    Y +Y
Sbjct: 190 EKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIY 228

>pdb|3UNE|C Chain C, Mouse Constitutive 20s Proteasome Length = 248

Iteration: 1
 Score =  154 bits (389), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 80/223 (35%), Positives = 133/223 (59%), Gaps = 17/223 (7%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+G LFQVEYA EA+K GSTA+G+   + VVL  EK+  + L +  +++KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D ++  A +GL AD+RI+ +RARVEC +H  T ++ + +E + + +++L  ++  S+
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 128 EESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY-- 184
                 RPFG++ L  G D  G P+L+  DPSGTY  + A AIG G++  ++ L++ Y  
Sbjct: 123 GR----RPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTD 178
Query: 185 ----HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADK 223
                + +T+K  I  +L +++          N+EL  +  D+
Sbjct: 179 DAIETDDLTIKLVIKALLEVVQS------GGKNIELAVMRRDQ 215

>pdb|1IRU|D Chain D, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 248

Iteration: 1
 Score =  154 bits (389), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 80/223 (35%), Positives = 133/223 (59%), Gaps = 17/223 (7%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+G LFQVEYA EA+K GSTA+G+   + VVL  EK+  + L +  +++KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D ++  A +GL AD+RI+ +RARVEC +H  T ++ + +E + + +++L  ++  S+
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 128 EESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY-- 184
                 RPFG++ L  G D  G P+L+  DPSGTY  + A AIG G++  ++ L++ Y  
Sbjct: 123 GR----RPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTD 178
Query: 185 ----HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADK 223
                + +T+K  I  +L +++          N+EL  +  D+
Sbjct: 179 EAIETDDLTIKLVIKALLEVVQS------GGKNIELAVMRRDQ 215

>pdb|3UNB|C Chain C, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 248

Iteration: 1
 Score =  151 bits (382), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 79/223 (35%), Positives = 132/223 (59%), Gaps = 17/223 (7%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+G LFQVEYA EA+K GSTA+G+   + VVL   K+  + L +  +++KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGKDIVVLGVAKKSVAKLQDERTVRKI 62
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D ++  A +GL AD+RI+ +RARVEC +H  T ++ + +E + + +++L  ++  S+
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSN 122
Query: 128 EESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY-- 184
                 RPFG++ L  G D  G P+L+  DPSGTY  + A AIG G++  ++ L++ Y  
Sbjct: 123 GR----RPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTD 178
Query: 185 ----HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADK 223
                + +T+K  I  +L +++          N+EL  +  D+
Sbjct: 179 DAIETDDLTIKLVIKALLEVVQS------GGKNIELAVMRRDQ 215

>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 =  149 bits (375), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 81/216 (37%), Positives = 129/216 (59%), Gaps = 7/216 (3%)
Query: 7   EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEP-SSIK 65
            YD     FSPEGRL+QVEYA+E+I    TAIGI  S+G+VLAAE+++TS L+E  +S +
Sbjct: 5   RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTE 64
Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           K+ +++  I  A +GL AD+ IL + AR+   N+  TY+E + +E + + +S++   +  
Sbjct: 65  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY-- 122
Query: 126 SDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
              +    RPFGV+ ++AG D + G QL+  +PSG YT + A ++G+ +  AQ  LQ  Y
Sbjct: 123 --TQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY 180
Query: 185 HESMTLKEAINHVLTILKQVMEEK-LNSTNVELCTV 219
            + M + +AI   L  L +  +   L    +E  T+
Sbjct: 181 KDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATI 216

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

Iteration: 1
 Score =  149 bits (375), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 81/216 (37%), Positives = 129/216 (59%), Gaps = 7/216 (3%)
Query: 7   EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEP-SSIK 65
            YD     FSPEGRL+QVEYA+E+I    TAIGI  S+G+VLAAE+++TS L+E  +S +
Sbjct: 5   RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTE 64
Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           K+ +++  I  A +GL AD+ IL + AR+   N+  TY+E + +E + + +S++   +  
Sbjct: 65  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY-- 122
Query: 126 SDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
              +    RPFGV+ ++AG D + G QL+  +PSG YT + A ++G+ +  AQ  LQ  Y
Sbjct: 123 --TQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY 180
Query: 185 HESMTLKEAINHVLTILKQVMEEK-LNSTNVELCTV 219
            + M + +AI   L  L +  +   L    +E  T+
Sbjct: 181 KDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATI 216

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

Iteration: 1
 Score =  149 bits (375), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 81/216 (37%), Positives = 129/216 (59%), Gaps = 7/216 (3%)
Query: 7   EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEP-SSIK 65
            YD     FSPEGRL+QVEYA+E+I    TAIGI  S+G+VLAAE+++TS L+E  +S +
Sbjct: 4   RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTE 63
Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           K+ +++  I  A +GL AD+ IL + AR+   N+  TY+E + +E + + +S++   +  
Sbjct: 64  KLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY-- 121
Query: 126 SDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
              +    RPFGV+ ++AG D + G QL+  +PSG YT + A ++G+ +  AQ  LQ  Y
Sbjct: 122 --TQHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDY 179
Query: 185 HESMTLKEAINHVLTILKQVMEEK-LNSTNVELCTV 219
            + M + +AI   L  L +  +   L    +E  T+
Sbjct: 180 KDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATI 215

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

Iteration: 1
 Score =  145 bits (367), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 79/208 (37%), Positives = 127/208 (61%), Gaps = 7/208 (3%)
Query: 15  FSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEP-SSIKKIVEIDKH 73
           FSPEGRL+QVEYA+E+I    TAIGI  S+G+VLAAE+++TS L+E  +S +K+ +++  
Sbjct: 3   FSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDK 62
Query: 74  IGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMS 133
           I  A +GL AD+ IL + AR+   N+  TY+E + +E + + +S++   +     +    
Sbjct: 63  IAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY----TQHGGL 118
Query: 134 RPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE 192
           RPFGV+ ++AG D + G QL+  +PSG YT + A ++G+ +  AQ  LQ  Y + M + +
Sbjct: 119 RPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDD 178
Query: 193 AINHVLTILKQVMEEK-LNSTNVELCTV 219
           AI   L  L +  +   L    +E  T+
Sbjct: 179 AIELALKTLSKTTDSSALTYDRLEFATI 206

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

Iteration: 1
 Score =  143 bits (360), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 81/227 (35%), Positives = 124/227 (54%), Gaps = 10/227 (4%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YD   + FSP+GR FQVEYA++A++ G+T+IGI  ++GVV A EK ITS L+ P    KI
Sbjct: 2   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 61
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D+HIGC  SGLI D R L +R R E A+    Y   + I + A  +     Q+  + 
Sbjct: 62  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLG----QYVQAH 117
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV---Y 184
                 RPFGV+ +F G+D  G  L+ L+PSG+Y  +   A G G + A+  L+++   +
Sbjct: 118 TLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 177
Query: 185 HESMTLKEAINHVLTILKQVME---EKLNSTNVELCTVTADKMYHLY 228
            E ++ +EA+     I+    E   EK     +  C+++     H +
Sbjct: 178 PEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKF 224

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

Iteration: 1
 Score =  143 bits (360), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 81/227 (35%), Positives = 124/227 (54%), Gaps = 10/227 (4%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YD   + FSP+GR FQVEYA++A++ G+T+IGI  ++GVV A EK ITS L+ P    KI
Sbjct: 4   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 63
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D+HIGC  SGLI D R L +R R E A+    Y   + I + A  +     Q+  + 
Sbjct: 64  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLG----QYVQAH 119
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV---Y 184
                 RPFGV+ +F G+D  G  L+ L+PSG+Y  +   A G G + A+  L+++   +
Sbjct: 120 TLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 179
Query: 185 HESMTLKEAINHVLTILKQVME---EKLNSTNVELCTVTADKMYHLY 228
            E ++ +EA+     I+    E   EK     +  C+++     H +
Sbjct: 180 PEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKF 226

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

Iteration: 1
 Score =  143 bits (360), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 81/227 (35%), Positives = 124/227 (54%), Gaps = 10/227 (4%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YD   + FSP+GR FQVEYA++A++ G+T+IGI  ++GVV A EK ITS L+ P    KI
Sbjct: 8   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 67
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D+HIGC  SGLI D R L +R R E A+    Y   + I + A  +     Q+  + 
Sbjct: 68  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLG----QYVQAH 123
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV---Y 184
                 RPFGV+ +F G+D  G  L+ L+PSG+Y  +   A G G + A+  L+++   +
Sbjct: 124 TLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 183
Query: 185 HESMTLKEAINHVLTILKQVME---EKLNSTNVELCTVTADKMYHLY 228
            E ++ +EA+     I+    E   EK     +  C+++     H +
Sbjct: 184 PEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKF 230

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

Iteration: 1
 Score =  143 bits (360), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 73/214 (34%), Positives = 120/214 (56%), Gaps = 4/214 (1%)
Query: 3   LTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS 62
           + +  Y   + TFSP G+L Q+EYA+ A+  G+ ++GI  + GVVLA EK+  S+L +  
Sbjct: 1   MAKRGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER 60
Query: 63  SIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQ 122
           S+ K+  I KHIG   SG+  D R+L  RAR     ++  Y E +    + Q V+++  +
Sbjct: 61  SVHKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQE 120
Query: 123 FGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQE 182
           +     +S   RPFGV++L  G +   P LF  DPSG Y  + A A+G      +  L++
Sbjct: 121 Y----TQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEK 176
Query: 183 VYHESMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
            Y+E + L++AI+  +  LK+  E ++   N+E+
Sbjct: 177 RYNEDLELEDAIHTAILTLKESFEGQMTEDNIEV 210

>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 =  143 bits (360), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 81/227 (35%), Positives = 124/227 (54%), Gaps = 10/227 (4%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YD   + FSP+GR FQVEYA++A++ G+T+IGI  ++GVV A EK ITS L+ P    KI
Sbjct: 8   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 67
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D+HIGC  SGLI D R L +R R E A+    Y   + I + A  +     Q+  + 
Sbjct: 68  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLG----QYVQAH 123
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV---Y 184
                 RPFGV+ +F G+D  G  L+ L+PSG+Y  +   A G G + A+  L+++   +
Sbjct: 124 TLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 183
Query: 185 HESMTLKEAINHVLTILKQVME---EKLNSTNVELCTVTADKMYHLY 228
            E ++ +EA+     I+    E   EK     +  C+++     H +
Sbjct: 184 PEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKF 230

>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 =  143 bits (360), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 81/227 (35%), Positives = 124/227 (54%), Gaps = 10/227 (4%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YD   + FSP+GR FQVEYA++A++ G+T+IGI  ++GVV A EK ITS L+ P    KI
Sbjct: 7   YDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKI 66
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D+HIGC  SGLI D R L +R R E A+    Y   + I + A  +     Q+  + 
Sbjct: 67  QVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLG----QYVQAH 122
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV---Y 184
                 RPFGV+ +F G+D  G  L+ L+PSG+Y  +   A G G + A+  L+++   +
Sbjct: 123 TLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVDHH 182
Query: 185 HESMTLKEAINHVLTILKQVME---EKLNSTNVELCTVTADKMYHLY 228
            E ++ +EA+     I+    E   EK     +  C+++     H +
Sbjct: 183 PEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKF 229

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

Iteration: 1
 Score =  143 bits (360), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 78/207 (37%), Positives = 126/207 (60%), Gaps = 7/207 (3%)
Query: 16  SPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEP-SSIKKIVEIDKHI 74
           SPEGRL+QVEYA+E+I    TAIGI  S+G+VLAAE+++TS L+E  +S +K+ +++  I
Sbjct: 1   SPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKI 60
Query: 75  GCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSR 134
             A +GL AD+ IL + AR+   N+  TY+E + +E + + +S++   +     +    R
Sbjct: 61  AVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGY----TQHGGLR 116
Query: 135 PFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA 193
           PFGV+ ++AG D + G QL+  +PSG YT + A ++G+ +  AQ  LQ  Y + M + +A
Sbjct: 117 PFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYKDDMKVDDA 176
Query: 194 INHVLTILKQVMEEK-LNSTNVELCTV 219
           I   L  L +  +   L    +E  T+
Sbjct: 177 IELALKTLSKTTDSSALTYDRLEFATI 203

>pdb|1IRU|B Chain B, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 233

Iteration: 1
 Score =  142 bits (358), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 73/209 (34%), Positives = 118/209 (56%), Gaps = 4/209 (1%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           Y   + TFSP G+L Q+EYA+ A+  G+ ++GI  + GVVLA EK+  S+L +  S+ K+
Sbjct: 5   YSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKV 64
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             I KHIG   SG+  D R+L  RAR     ++  Y E +    + Q V+++  ++    
Sbjct: 65  EPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEY---- 120
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES 187
            +S   RPFGV++L  G +   P LF  DPSG Y  + A A+G      +  L++ Y+E 
Sbjct: 121 TQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNED 180
Query: 188 MTLKEAINHVLTILKQVMEEKLNSTNVEL 216
           + L++AI+  +  LK+  E ++   N+E+
Sbjct: 181 LELEDAIHTAILTLKESFEGQMTEDNIEV 209

>pdb|1FNT|D Chain D, Crystal Structure Of The 20s Proteasome From Yeast In Complex With The Proteasome Activator Pa26 From Trypanosome Brucei At 3.2 Angstroms Resolution Length = 254

Iteration: 1
 Score =  138 bits (348), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 80/226 (35%), Positives = 131/226 (57%), Gaps = 18/226 (7%)
Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME----P 61
           S YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+     VVL  E+R T  L +    P
Sbjct: 2   SGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITP 61
Query: 62  SSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAI 121
           S + K   ID H+  + SGL ADSRIL ++ARVE  +H  T ++ + +E + + V+ +  
Sbjct: 62  SKVSK---IDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQ 118
Query: 122 QFGDSDEESAMSRPFGVAMLFAGLDSKG--PQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           ++     +S   RPFGV+ L AG D +   P+L+  +PSG Y+ + A+ IG  S+  ++ 
Sbjct: 119 RY----TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREF 174
Query: 180 LQEVYHES---MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD 222
           L++ Y       T++E +   +  L +V++    + N+E+  V  D
Sbjct: 175 LEKNYDRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPD 218

>pdb|1G0U|C Chain C, A Gated Channel Into The Proteasome Core Particle Length = 243

Iteration: 1
 Score =  138 bits (347), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 80/226 (35%), Positives = 131/226 (57%), Gaps = 18/226 (7%)
Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME----P 61
           S YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+     VVL  E+R T  L +    P
Sbjct: 2   SGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITP 61
Query: 62  SSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAI 121
           S + K   ID H+  + SGL ADSRIL ++ARVE  +H  T ++ + +E + + V+ +  
Sbjct: 62  SKVSK---IDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQ 118
Query: 122 QFGDSDEESAMSRPFGVAMLFAGLDSKG--PQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           ++     +S   RPFGV+ L AG D +   P+L+  +PSG Y+ + A+ IG  S+  ++ 
Sbjct: 119 RY----TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREF 174
Query: 180 LQEVYHES---MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD 222
           L++ Y       T++E +   +  L +V++    + N+E+  V  D
Sbjct: 175 LEKNYDRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPD 218

>pdb|1RYP|D Chain D, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 241

Iteration: 1
 Score =  138 bits (347), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 79/224 (35%), Positives = 130/224 (58%), Gaps = 18/224 (8%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME----PSS 63
           YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+     VVL  E+R T  L +    PS 
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61
Query: 64  IKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQF 123
           + K   ID H+  + SGL ADSRIL ++ARVE  +H  T ++ + +E + + V+ +  ++
Sbjct: 62  VSK---IDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY 118
Query: 124 GDSDEESAMSRPFGVAMLFAGLDSKG--PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQ 181
                +S   RPFGV+ L AG D +   P+L+  +PSG Y+ + A+ IG  S+  ++ L+
Sbjct: 119 ----TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLE 174
Query: 182 EVYHES---MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD 222
           + Y       T++E +   +  L +V++    + N+E+  V  D
Sbjct: 175 KNYDRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPD 216

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

Iteration: 1
 Score =  137 bits (346), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 82/222 (36%), Positives = 128/222 (57%), Gaps = 14/222 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKR-ITSVLMEPSSIKK 66
           YD     FSPEGRL+QVEYA+EAI    T +GI  ++GV+LAAE+R I  +L E    +K
Sbjct: 5   YDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEK 64
Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQF 123
           I ++++ + C+ +G+ +D+ +LT+  R+    +   Y E +  E +  A+ ++     QF
Sbjct: 65  IYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQF 124
Query: 124 GDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQE 182
           G         RPFGV++L+ G D   G QL+  DPSG Y  + A  IG+ S  A   L++
Sbjct: 125 GG-------KRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQ 177
Query: 183 VYHES-MTLKEAINHVLTILKQVME-EKLNSTNVELCTVTAD 222
            Y E  MTLK A+   + +L + M+  KL++  VE+ T+T +
Sbjct: 178 DYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRE 219

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

Iteration: 1
 Score =  137 bits (344), Expect = 6e-33,   Method: Compositional matrix adjust.
 Identities = 82/222 (36%), Positives = 128/222 (57%), Gaps = 14/222 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKR-ITSVLMEPSSIKK 66
           YD     FSPEGRL+QVEYA+EAI    T +GI  ++GV+LAAE+R I  +L E    +K
Sbjct: 5   YDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEK 64
Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQF 123
           I ++++ + C+ +G+ +D+ +LT+  R+    +   Y E +  E +  A+ ++     QF
Sbjct: 65  IYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQF 124
Query: 124 GDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQE 182
           G         RPFGV++L+ G D   G QL+  DPSG Y  + A  IG+ S  A   L++
Sbjct: 125 GG-------KRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQ 177
Query: 183 VYHES-MTLKEAINHVLTILKQVME-EKLNSTNVELCTVTAD 222
            Y E  MTLK A+   + +L + M+  KL++  VE+ T+T +
Sbjct: 178 DYKEGEMTLKSALALAVKVLNKTMDVSKLSAEKVEIATLTRE 219

>pdb|1IRU|F Chain F, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 263

Iteration: 1
 Score =  135 bits (340), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 81/233 (34%), Positives = 123/233 (52%), Gaps = 16/233 (6%)
Query: 3   LTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS 62
           + R++YD  V  +SP+GR+ Q+EYA+EA+K GS  +G+ +    VL A KR  S L   +
Sbjct: 1   MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA--A 58
Query: 63  SIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQ 122
             KKI+ +D HIG + +GL AD+R+L +  R EC +  F +D  +        VS L   
Sbjct: 59  HQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPL-------PVSRLVSL 111
Query: 123 FGDSDE---ESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
            G   +   +    RP+GV +L AG D  GP +F   PS  Y    A +IG+ S+ A+  
Sbjct: 112 IGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTY 171
Query: 180 LQEVYHESM--TLKEAINHVLTILKQVM--EEKLNSTNVELCTVTADKMYHLY 228
           L+    E M   L E + H L  L++ +  E+ L + NV +  V  D  + +Y
Sbjct: 172 LERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIY 224

>pdb|3UNB|E Chain E, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 263

Iteration: 1
 Score =  135 bits (340), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 81/233 (34%), Positives = 123/233 (52%), Gaps = 16/233 (6%)
Query: 3   LTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS 62
           + R++YD  V  +SP+GR+ Q+EYA+EA+K GS  +G+ +    VL A KR  S L   +
Sbjct: 1   MFRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA--A 58
Query: 63  SIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQ 122
             KKI+ +D HIG + +GL AD+R+L +  R EC +  F +D  +        VS L   
Sbjct: 59  HQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPL-------PVSRLVSL 111
Query: 123 FGDSDE---ESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
            G   +   +    RP+GV +L AG D  GP +F   PS  Y    A +IG+ S+ A+  
Sbjct: 112 IGSKTQIPTQRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTY 171
Query: 180 LQEVYHESM--TLKEAINHVLTILKQVM--EEKLNSTNVELCTVTADKMYHLY 228
           L+    E M   L E + H L  L++ +  E+ L + NV +  V  D  + +Y
Sbjct: 172 LERHMSEFMECNLDELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIY 224

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

Iteration: 1
 Score =  129 bits (324), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 77/233 (33%), Positives = 121/233 (51%), Gaps = 13/233 (5%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MF  R+ YD    TFSP GRLFQVEYA+EAIK GS  +G+ ++   VL A KR    L  
Sbjct: 1   MF--RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-- 56
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
            S  KKI++ D+H+G + +GL  D+R+L++  R +C      ++ K+ +E     + + A
Sbjct: 57  SSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA 116
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
                 + +SA  RP+GV +L  G D  G  L    PSG  T+    AIG+ S+GA+  L
Sbjct: 117 ----QKNTQSAGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYL 172
Query: 181 QEVYHESMTLKEAINHVL-----TILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           +      + +    + ++      I + + +E L   N+ +  V  D  + +Y
Sbjct: 173 ERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIY 225

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

Iteration: 1
 Score =  129 bits (323), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 75/229 (32%), Positives = 119/229 (51%), Gaps = 11/229 (4%)
Query: 5   RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI 64
           R+ YD    TFSP GRLFQVEYA+EAIK GS  +G+ ++   VL A KR    L   S  
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQ 59
Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
           KKI++ D+H+G + +GL  D+R+L++  R +C      ++ K+ +E     + + A    
Sbjct: 60  KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA---- 115
Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
             + +SA  RP+GV +L  G D  G  L    PSG  T+    AIG+ S+GA+  L+   
Sbjct: 116 QKNTQSAGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTL 175
Query: 185 HESMTLKEAINHVL-----TILKQVMEEKLNSTNVELCTVTADKMYHLY 228
              + +    + ++      I + + +E L   N+ +  V  D  + +Y
Sbjct: 176 DTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIY 224

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

Iteration: 1
 Score =  127 bits (318), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 76/233 (32%), Positives = 120/233 (51%), Gaps = 13/233 (5%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MF  R+ YD    TFSP GRLFQVEYA+EAIK GS  +G+ ++   VL A KR    L  
Sbjct: 1   MF--RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-- 56
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
            S  KKI++ D+H+G + +GL  D+R+L++  R +C      ++ K+ +E     + + A
Sbjct: 57  SSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA 116
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
                 + +S   RP+GV +L  G D  G  L    PSG  T+    AIG+ S+GA+  L
Sbjct: 117 ----QKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYL 172
Query: 181 QEVYHESMTLKEAINHVL-----TILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           +      + +    + ++      I + + +E L   N+ +  V  D  + +Y
Sbjct: 173 ERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIY 225

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

Iteration: 1
 Score =  127 bits (318), Expect = 7e-30,   Method: Compositional matrix adjust.
 Identities = 76/233 (32%), Positives = 120/233 (51%), Gaps = 13/233 (5%)
Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MF  R+ YD    TFSP GRLFQVEYA+EAIK GS  +G+ ++   VL A KR    L  
Sbjct: 2   MF--RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL-- 57
Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
            S  KKI++ D+H+G + +GL  D+R+L++  R +C      ++ K+ +E     + + A
Sbjct: 58  SSYQKKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA 117
Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
                 + +S   RP+GV +L  G D  G  L    PSG  T+    AIG+ S+GA+  L
Sbjct: 118 ----QKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYL 173
Query: 181 QEVYHESMTLKEAINHVL-----TILKQVMEEKLNSTNVELCTVTADKMYHLY 228
           +      + +    + ++      I + + +E L   N+ +  V  D  + +Y
Sbjct: 174 ERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIY 226

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

Iteration: 1
 Score =  126 bits (317), Expect = 9e-30,   Method: Compositional matrix adjust.
 Identities = 74/229 (32%), Positives = 118/229 (51%), Gaps = 11/229 (4%)
Query: 5   RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI 64
           R+ YD    TFSP GRLFQVEYA+EAIK GS  +G+ ++   VL A KR    L   S  
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQ 59
Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
           KKI++ D+H+G + +GL  D+R+L++  R +C      ++ K+ +E     + + A    
Sbjct: 60  KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKA---- 115
Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
             + +S   RP+GV +L  G D  G  L    PSG  T+    AIG+ S+GA+  L+   
Sbjct: 116 QKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTL 175
Query: 185 HESMTLKEAINHVL-----TILKQVMEEKLNSTNVELCTVTADKMYHLY 228
              + +    + ++      I + + +E L   N+ +  V  D  + +Y
Sbjct: 176 DTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIY 224

>pdb|3UNB|F Chain F, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 255

Iteration: 1
 Score =  126 bits (317), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 69/201 (34%), Positives = 113/201 (56%), Gaps = 5/201 (2%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YD   +TFSP+GR+FQVEYA++A++  STAIGI   +GVV   EK + S L E  S K++
Sbjct: 8   YDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRL 67
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D+H+G A +GL+AD+R L D AR E +N    +   + ++ +A  V+     +    
Sbjct: 68  FNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAY---- 123
Query: 128 EESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
              +  RPFG + +     +  G QL+ +DPSG    +   AIG   + A+  ++++  +
Sbjct: 124 TLYSAVRPFGCSFMLGSYSANDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMK 183
Query: 187 SMTLKEAINHVLTILKQVMEE 207
            MT ++ +  V  I+  V +E
Sbjct: 184 EMTCRDVVKEVAKIIYIVHDE 204

>pdb|1IRU|G Chain G, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 254

Iteration: 1
 Score =  125 bits (315), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 69/201 (34%), Positives = 113/201 (56%), Gaps = 5/201 (2%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YD   +TFSP+GR+FQVEYA++A++  STAIGI   +GVV   EK + S L E  S K++
Sbjct: 7   YDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRL 66
Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D+H+G A +GL+AD+R L D AR E +N    +   + ++ +A  V+     +    
Sbjct: 67  FNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAY---- 122
Query: 128 EESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
              +  RPFG + +      + G QL+ +DPSG    +   AIG   + A+  ++++  +
Sbjct: 123 TLYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQMK 182
Query: 187 SMTLKEAINHVLTILKQVMEE 207
            MT ++ +  V  I+  V +E
Sbjct: 183 EMTCRDIVKEVAKIIYIVHDE 203

>pdb|1RYP|B Chain B, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 250

Iteration: 1
 Score =  125 bits (314), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 75/218 (34%), Positives = 123/218 (56%), Gaps = 14/218 (6%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           Y   + TFSP G+L Q++YA+ A+K G T++GI  + GVV+A EK+ +S L    ++ K+
Sbjct: 5   YSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKV 64
Query: 68  VEIDKHIGCAASGLIADSRILTDRAR-VECANHWFTYDE----KMDIESVAQAVSNLAIQ 122
             +   IG   SG+  D R+L D++R V   ++   Y E    K+ +  VA+ +      
Sbjct: 65  SLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEAT-- 122
Query: 123 FGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQ 181
                 +S   RPFGV++L AG D   G  L+ +DPSG+Y  + A AIG GS  A+  L+
Sbjct: 123 ------QSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLE 176
Query: 182 EVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTV 219
           + +++ + L++AI+  L  LK+ +E + N   +EL  +
Sbjct: 177 KRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAII 214

>pdb|1IRU|A Chain A, Crystal Structure Of The Mammalian 20s Proteasome At 2.75 A Resolution Length = 246

Iteration: 1
 Score =  123 bits (308), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 64/219 (29%), Positives = 120/219 (54%), Gaps = 8/219 (3%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGISTSEGVVLAAEKRITSVLMEPSSIKK 66
           +DR +  FSPEGRL+QVEYA +AI  G  T++ +   +  V+  +K++   L++ S++  
Sbjct: 9   FDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTH 68
Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           + +I ++IGC  +G+ ADSR    RAR E AN  + Y  ++ ++ + + +++++  +   
Sbjct: 69  LFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVY--- 125
Query: 127 DEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
             ++A  RP G  M+  G+D  +GPQ++  DP+G Y  F A A G     +   L++   
Sbjct: 126 -TQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVK 184
Query: 186 ESM--TLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD 222
           +    T ++ +   +T L  V+      + +E+  VT +
Sbjct: 185 KKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVE 223

>pdb|3UNB|G Chain G, Mouse Constitutive 20s Proteasome In Complex With Pr-957 Length = 246

Iteration: 1
 Score =  122 bits (305), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 64/219 (29%), Positives = 119/219 (54%), Gaps = 8/219 (3%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGISTSEGVVLAAEKRITSVLMEPSSIKK 66
           +DR +  FSPEGRL+QVEYA +AI  G  T++ +   +  V+  +K++   L++ S++  
Sbjct: 9   FDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTH 68
Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           + +I + IGC  +G+ ADSR    RAR E AN  + Y  ++ ++ + + +++++  +   
Sbjct: 69  LFKITESIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVY--- 125
Query: 127 DEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
             ++A  RP G  M+  G+D  +GPQ++  DP+G Y  F A A G     +   L++   
Sbjct: 126 -TQNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLEKKVK 184
Query: 186 ESM--TLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD 222
           +    T ++ +   +T L  V+      + +E+  VT +
Sbjct: 185 KKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVE 223

>pdb|1VSY|D Chain D, Proteasome Activator Complex Length = 227

Iteration: 1
 Score =  120 bits (301), Expect = 7e-28,   Method: Compositional matrix adjust.
 Identities = 72/211 (34%), Positives = 120/211 (56%), Gaps = 18/211 (8%)
Query: 21  LFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME----PSSIKKIVEIDKHIGC 76
           +FQVEYA+EA+K G+ A+G+     VVL  E+R T  L +    PS + KI   D H+  
Sbjct: 1   IFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKI---DSHVVL 57
Query: 77  AASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPF 136
           + SGL ADSRIL ++ARVE  +H  T ++ + +E + + V+ +  ++     +S   RPF
Sbjct: 58  SFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT----QSGGVRPF 113
Query: 137 GVAMLFAGLDSKG--PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES---MTLK 191
           GV+ L AG D +   P+L+  +PSG Y+ + A+ IG  S+  ++ L++ Y       T++
Sbjct: 114 GVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNYDRKEPPATVE 173
Query: 192 EAINHVLTILKQVMEEKLNSTNVELCTVTAD 222
           E +   +  L +V++    + N+E+  V  D
Sbjct: 174 ECVKLTVRSLLEVVQ--TGAKNIEITVVKPD 202

>pdb|1VSY|B Chain B, Proteasome Activator Complex Length = 231

Iteration: 1
 Score =  110 bits (276), Expect = 5e-25,   Method: Compositional matrix adjust.
 Identities = 68/203 (33%), Positives = 114/203 (56%), Gaps = 14/203 (6%)
Query: 23  QVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLI 82
           Q++YA+ A+K G T++GI  + GVV+A EK+ +S L    ++ K+  +   IG   SG+ 
Sbjct: 1   QIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMG 60
Query: 83  ADSRILTDRAR-VECANHWFTYDE----KMDIESVAQAVSNLAIQFGDSDEESAMSRPFG 137
            D R+L D++R V   ++   Y E    K+ +  VA+ +            +S   RPFG
Sbjct: 61  PDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEAT--------QSGGVRPFG 112
Query: 138 VAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINH 196
           V++L AG D   G  L+ +DPSG+Y  + A AIG GS  A+  L++ +++ + L++AI+ 
Sbjct: 113 VSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKRWNDELELEDAIHI 172
Query: 197 VLTILKQVMEEKLNSTNVELCTV 219
            L  LK+ +E + N   +EL  +
Sbjct: 173 ALLTLKESVEGEFNGDTIELAII 195

>pdb|1RYP|A Chain A, Crystal Structure Of The 20s Proteasome From Yeast At 2.4 Angstroms Resolution Length = 243

Iteration: 1
 Score = 96.7 bits (239), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/229 (26%), Positives = 117/229 (51%), Gaps = 13/229 (5%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAI-KLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKK 66
           YDR +  FSPEGRL+QVEYA +A  +    ++ +   +  V+ ++K++   L++P+++  
Sbjct: 3   YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 62
Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           I  I + IG   +G I D+R    RA+ E A   + Y   M  + +A+ ++NL+  +   
Sbjct: 63  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIY--- 119
Query: 127 DEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
             + A  RP GV + F  +D + GP ++  DP+G Y  + A A G   +    +L+  + 
Sbjct: 120 -TQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFK 178
Query: 186 ESM-------TLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHL 227
           +S        + ++ +   +T +   +  + +  ++E+   T DK + L
Sbjct: 179 KSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTL 227

>pdb|1G0U|G Chain G, A Gated Channel Into The Proteasome Core Particle Length = 252

Iteration: 1
 Score = 96.7 bits (239), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/229 (26%), Positives = 117/229 (51%), Gaps = 13/229 (5%)
Query: 8   YDRGVNTFSPEGRLFQVEYAIEAI-KLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKK 66
           YDR +  FSPEGRL+QVEYA +A  +    ++ +   +  V+ ++K++   L++P+++  
Sbjct: 12  YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 71
Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           I  I + IG   +G I D+R    RA+ E A   + Y   M  + +A+ ++NL+  +   
Sbjct: 72  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIY--- 128
Query: 127 DEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
             + A  RP GV + F  +D + GP ++  DP+G Y  + A A G   +    +L+  + 
Sbjct: 129 -TQRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFK 187
Query: 186 ESM-------TLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHL 227
           +S        + ++ +   +T +   +  + +  ++E+   T DK + L
Sbjct: 188 KSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTL 236

>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 = 77.4 bits (189), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 89/172 (51%), Gaps = 12/172 (6%)
Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAASGLIADSR 86
           + ++ G+T +GI+  + V++A E+R+T  + +M  +  KK+ +ID + G   +GL+ D++
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNG-KKLFQIDTYTGMTIAGLVGDAQ 61
Query: 87  ILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD 146
           +L    + E   +       M IE+VA  +SN+  Q            P+ V +L  G+D
Sbjct: 62  VLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQ--------VKYMPYMVQLLVGGID 113
Query: 147 SKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVL 198
           +  P +F +D +G   +    + GSGS      L+  Y E MT+ E ++ V+
Sbjct: 114 T-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVI 164

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

Iteration: 1
 Score = 77.4 bits (189), Expect = 8e-15,   Method: Compositional matrix adjust.
 Identities = 48/172 (27%), Positives = 89/172 (51%), Gaps = 12/172 (6%)
Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAASGLIADSR 86
           + ++ G+T +GI+  + V++A E+R+T  + +M  +  KK+ +ID + G   +GL+ D++
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNG-KKLFQIDTYTGMTIAGLVGDAQ 61
Query: 87  ILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD 146
           +L    + E   +       M IE+VA  +SN+  Q            P+ V +L  G+D
Sbjct: 62  VLVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQ--------VKYMPYMVQLLVGGID 113
Query: 147 SKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVL 198
           +  P +F +D +G   +    + GSGS      L+  Y E MT+ E ++ V+
Sbjct: 114 T-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVI 164

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

Iteration: 1
 Score = 74.3 bits (181), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 47/166 (28%), Positives = 85/166 (51%), Gaps = 12/166 (7%)
Query: 35  STAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           +T +GI+  + V++A E+R+T  + +M  +  KK+ +ID + G   +GL+ D+++L    
Sbjct: 1   TTTVGITLKDAVIMATERRVTMENFIMHKNG-KKLFQIDTYTGMTIAGLVGDAQVLVRYM 59
Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQL 152
           + E   +       M IE+VA  +SN+  Q            P+ V +L  G+D+  P +
Sbjct: 60  KAELELYRLQRRVNMPIEAVATLLSNMLNQ--------VKYMPYMVQLLVGGIDT-APHV 110
Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVL 198
           F +D +G   +    + GSGS      L+  Y E MT+ E ++ V+
Sbjct: 111 FSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVI 156

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

Iteration: 1
 Score = 68.6 bits (166), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 49/195 (25%), Positives = 91/195 (46%), Gaps = 11/195 (5%)
Query: 35  STAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +G+   +GVV+A EKR T    +   + KKI +I   +    +G + D++ L    +
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
           +E   +    + K  + ++A   SNL          S    P+ V +L  G+DS+G  ++
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLL--------NSYRYFPYLVQLLIGGIDSEGKSIY 112
Query: 154 HLDP-SGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAIN-HVLTILKQVMEEKLNS 211
            +DP  G   + D  A GSGS  A   L++ +   + + EA+   V  I   +  +  + 
Sbjct: 113 SIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASG 172
Query: 212 TNVELCTVTADKMYH 226
             +++  +T D+ Y 
Sbjct: 173 DGIDVVKITEDEFYQ 187

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

Iteration: 1
 Score = 68.2 bits (165), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 49/190 (25%), Positives = 92/190 (48%), Gaps = 13/190 (6%)
Query: 35  STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T  G+   +GV+L A+ R T+  ++   S +KI  I   I C  +G+ AD+ + T  A 
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
            +   H  +   +  + +V + +     ++             G +++  G+D  GPQL+
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQGH---------VGASLVVGGVDLNGPQLY 111
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLT--ILKQVMEEKLNS 211
            + P G+Y++    A+GSG   A   L++ +  +MTL EA   +L   I   ++ +  + 
Sbjct: 112 EVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTL-EAAQELLVEAITAGILSDLGSG 170
Query: 212 TNVELCTVTA 221
            NV+ C +TA
Sbjct: 171 GNVDACVITA 180

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

Iteration: 1
 Score = 60.5 bits (145), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/164 (23%), Positives = 79/164 (48%), Gaps = 13/164 (7%)
Query: 35  STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +      GV++A + R T+   +    + K++EI+ ++    SG  AD +       
Sbjct: 1   TTTLAFKFQHGVIVAVDSRATAGSYISSLRMNKVIEINPYLLGTMSGCAADCQYWERLLA 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAM--LFAGLDSKGPQ 151
            EC  ++    E++ + + ++ +SN+ +Q+          R  G++M  +  G D KGP 
Sbjct: 61  KECRLYYLRNGERISVSAASKLLSNMMLQY----------RGMGLSMGSMICGWDKKGPG 110
Query: 152 LFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAIN 195
           L+++D +GT       + GSG+  A   +   Y + ++ +EA +
Sbjct: 111 LYYVDDNGTRLSGQMFSTGSGNTYAYGVMDSGYRQDLSPEEAYD 154

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

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 52/192 (27%), Positives = 85/192 (44%), Gaps = 12/192 (6%)
Query: 35  STAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +G+   + V+LA +KR +   L+     KK+ +ID +I    +G + D++ +     
Sbjct: 2   TTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRLLI 61
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQL 152
            E   +       +   + A  +SN+          S+   PF   ++  G D  +G +L
Sbjct: 62  AEAKLYKMRTGRNIPPLACATLLSNIL--------HSSRMFPFLTQIIIGGYDLLEGAKL 113
Query: 153 FHLDPSGTYTQFDA-KAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS 211
           F LDP G   +     A GSGS  A   L+  Y   M+++E I   L  LK  ME    S
Sbjct: 114 FSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSVEEGIKLALNALKSAMERDTFS 173
Query: 212 TN-VELCTVTAD 222
            N + L  +T D
Sbjct: 174 GNGISLAVITKD 185

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

Iteration: 1
 Score = 57.8 bits (138), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 44/193 (22%), Positives = 87/193 (45%), Gaps = 13/193 (6%)
Query: 35  STAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T  G+   +G+VL A+ R T  +++   +  KI  I  +I C  +G  AD+ + T    
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPF-GVAMLFAGLDSKGPQL 152
                H  +      + +  + +  +  ++          R + G A++  G+D  GP L
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRY----------RGYIGAALVLGGVDVTGPHL 110
Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS- 211
           + + P G+  +     +GSGS  A    ++ +   M  +EA N V   +   +   L S 
Sbjct: 111 YSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSG 170
Query: 212 TNVELCTVTADKM 224
           +N++LC ++ +K+
Sbjct: 171 SNIDLCVISKNKL 183

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

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 44/214 (20%), Positives = 94/214 (43%), Gaps = 20/214 (9%)
Query: 35  STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +      GV++AA+ R T+   +   ++KK++EI+ ++    +G  AD         
Sbjct: 1   TTTLAFKFLHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAM--LFAGLDSKGPQ 151
            +C  +     E++ + + ++ ++N+  Q+          +  G++M  +  G D +GP 
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQY----------KGMGLSMGTMICGWDKRGPG 110
Query: 152 LFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS 211
           L+++D  G      A ++GSGS  A   +   Y   + ++EA +     + Q       +
Sbjct: 111 LYYVDSEGNRISGTAFSVGSGSVYAYGVMDRGYSYDLKVEEAYDLARRAIYQ-------A 163
Query: 212 TNVELCTVTADKMYHLYXXXXXXXXXXXVSSIHD 245
           T  +  +  A  +YH+            V+ +HD
Sbjct: 164 TYRDAYSGGAVNLYHVREDGWIRVSSDNVADLHD 197

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 47/202 (23%), Positives = 93/202 (46%), Gaps = 16/202 (7%)
Query: 31  IKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILT 89
           I  G+T +      G+++A + R T+   +   ++KK++EI+  +    +G  AD +   
Sbjct: 72  IAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWE 131
Query: 90  DRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAM--LFAGLDS 147
                +C  H     E++ + + ++ +SNL  Q+          +  G++M  +  G   
Sbjct: 132 TWLGSQCRLHELREKERISVAAASKILSNLVYQY----------KGAGLSMGTMICGYTR 181
Query: 148 K-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAIN-HVLTILKQVM 205
           K GP ++++D  GT  + D   +GSG   A   L   Y   +++++A+     +IL    
Sbjct: 182 KEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAH 241
Query: 206 EEKLNSTNVELCTVTADK-MYH 226
            +  +  +V L  VT D  +YH
Sbjct: 242 RDAYSGGSVNLYHVTEDGWIYH 263

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

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 44/195 (22%), Positives = 84/195 (43%), Gaps = 11/195 (5%)
Query: 35  STAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T  G+   +G+VL A+ R T  +++   +  KI  I  +I C  +G  AD+ + T    
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
                H  T      + +  + +  +  ++             G A++  G+D  GP L+
Sbjct: 61  SNLELHSLTTGRLPRVVTANRMLKQMLFRYQGY---------IGAALVLGGVDVTGPHLY 111
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
            + P G+  +     +GSGS  A    ++ +   M  +EA   V   +   +   L S +
Sbjct: 112 SIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKKLVSEAIAAGIFNDLGSGS 171
Query: 213 NVELCTVTADKMYHL 227
           N++LC ++  K+  L
Sbjct: 172 NIDLCVISKSKLDFL 186

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

Iteration: 1
 Score = 54.3 bits (129), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 46/202 (22%), Positives = 93/202 (46%), Gaps = 16/202 (7%)
Query: 31  IKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILT 89
           I  G+T +      G+++A + R T+   +   ++K+++EI+  +    +G  AD +   
Sbjct: 72  IAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWE 131
Query: 90  DRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAM--LFAGLDS 147
                +C  H     E++ + + ++ +SNL  Q+          +  G++M  +  G   
Sbjct: 132 TWLGSQCRLHELREKERISVAAASKILSNLVYQY----------KGAGLSMGTMICGYTR 181
Query: 148 K-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAIN-HVLTILKQVM 205
           K GP ++++D  GT  + D   +GSG   A   L   Y   +++++A+     +IL    
Sbjct: 182 KEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAH 241
Query: 206 EEKLNSTNVELCTVTADK-MYH 226
            +  +  +V L  VT D  +YH
Sbjct: 242 RDAYSGGSVNLYHVTEDGWIYH 263

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

Iteration: 1
 Score = 52.8 bits (125), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 45/198 (22%), Positives = 91/198 (45%), Gaps = 16/198 (8%)
Query: 35  STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +      G+++A + R T+   +   ++KK++EI+  +    +G  AD +       
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAM--LFAGLDSK-GP 150
            +C  H     E++ + + ++ +SNL  Q+          +  G++M  +  G   K GP
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQY----------KGAGLSMGTMICGYTRKEGP 110
Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAIN-HVLTILKQVMEEKL 209
            ++++D  GT  + D   +GSG   A   L   Y   +++++A+     +IL     +  
Sbjct: 111 TIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAY 170
Query: 210 NSTNVELCTVTADK-MYH 226
           +  +V L  VT D  +YH
Sbjct: 171 SGGSVNLYHVTEDGWIYH 188

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 47/197 (23%), Positives = 85/197 (43%), Gaps = 11/197 (5%)
Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
           +A   G+T +G+  + GVV+AA+ R T   ++   +  K+  I   I CA +G  AD+  
Sbjct: 24  KATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEA 83
Query: 88  LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS 147
           +T         H      +  + S  Q +     ++             G  ++ AG+D 
Sbjct: 84  VTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKY---------QGHIGAYLIVAGVDP 134
Query: 148 KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEE 207
            G  LF +   G+       ++GSGS  A   L+  + + +T +EAI      ++  +  
Sbjct: 135 TGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWN 194
Query: 208 KLNS-TNVELCTVTADK 223
            L S +NV++C +   K
Sbjct: 195 DLGSGSNVDVCVMEIGK 211

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

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 34/164 (20%), Positives = 77/164 (46%), Gaps = 13/164 (7%)
Query: 35  STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +      GV++AA+ R T+   +   ++KK++EI+ ++    +G  AD         
Sbjct: 1   TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLA 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAM--LFAGLDSKGPQ 151
            +C  +     E++ + + ++ ++N+  Q+          +  G++M  +  G D +GP 
Sbjct: 61  RQCRIYELRNKERISVAAASKLLANMVYQY----------KGMGLSMGTMICGWDKRGPG 110
Query: 152 LFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAIN 195
           L+++D  G        ++GSGS  A   +   Y   + +++A +
Sbjct: 111 LYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYD 154

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

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 44/198 (22%), Positives = 91/198 (45%), Gaps = 16/198 (8%)
Query: 35  STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +      G+++A + R T+   +   ++K+++EI+  +    +G  AD +       
Sbjct: 1   TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLG 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAM--LFAGLDSK-GP 150
            +C  H     E++ + + ++ +SNL  Q+          +  G++M  +  G   K GP
Sbjct: 61  SQCRLHELREKERISVAAASKILSNLVYQY----------KGAGLSMGTMICGYTRKEGP 110
Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAIN-HVLTILKQVMEEKL 209
            ++++D  GT  + D   +GSG   A   L   Y   +++++A+     +IL     +  
Sbjct: 111 TIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAY 170
Query: 210 NSTNVELCTVTADK-MYH 226
           +  +V L  VT D  +YH
Sbjct: 171 SGGSVNLYHVTEDGWIYH 188

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 45/191 (23%), Positives = 82/191 (42%), Gaps = 11/191 (5%)
Query: 35  STAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +G+  + GVV+AA+ R T   ++   +  K+  I   I CA +G  AD+  +T    
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
                H      +  + S  Q +     ++             G  ++ AG+D  G  LF
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKY---------QGHIGAYLIVAGVDPTGSHLF 111
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
            +   G+       ++GSGS  A   L+  + + +T +EAI      ++  +   L S +
Sbjct: 112 SIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGS 171
Query: 213 NVELCTVTADK 223
           NV++C +   K
Sbjct: 172 NVDVCVMEIGK 182

>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 = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 45/191 (23%), Positives = 82/191 (42%), Gaps = 11/191 (5%)
Query: 35  STAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +G+  + GVV+AA+ R T   ++   +  K+  I   I CA +G  AD+  +T    
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
                H      +  + S  Q +     ++             G  ++ AG+D  G  LF
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKY---------QGHIGAYLIVAGVDPTGSHLF 111
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
            +   G+       ++GSGS  A   L+  + + +T +EAI      ++  +   L S +
Sbjct: 112 SIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGS 171
Query: 213 NVELCTVTADK 223
           NV++C +   K
Sbjct: 172 NVDVCVMEIGK 182

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

Iteration: 1
 Score = 45.4 bits (106), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 43/182 (23%), Positives = 73/182 (40%), Gaps = 11/182 (6%)
Query: 35  STAIGISTSEGVVLAAEKRITSVLMEPSSIK-KIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T + +  + GVVL A+ R T+     + +  K+  I  HI C  SG  AD++ + D   
Sbjct: 1   TTIMAVQFNGGVVLGADSRTTTGSYIANRVTDKLTPIHDHIFCCRSGSAADTQAVADAVT 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQL 152
            +   H    +E   + + A     +  ++     E  M+      ++ AG D + G Q+
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRY----REDLMA-----GIIIAGWDPQEGGQV 111
Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNST 212
           + +   G   +      GSGS      +   Y E MT  E +      L   ME   +S 
Sbjct: 112 YSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKDECLQFTANALALAMERDGSSG 171
Query: 213 NV 214
            V
Sbjct: 172 GV 173

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

Iteration: 1
 Score = 42.4 bits (98), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 42/182 (23%), Positives = 72/182 (39%), Gaps = 11/182 (6%)
Query: 35  STAIGISTSEGVVLAAEKRITSVLMEPSSIK-KIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T + +    GVVL A+ R T+     + +  K+  I   I C  SG  AD++ + D   
Sbjct: 1   TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVT 60
Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQL 152
            +   H    +E   + + A     +  ++     E  M+      ++ AG D + G Q+
Sbjct: 61  YQLGFHSIELNEPPLVHTAASLFKEMCYRY----REDLMA-----GIIIAGWDPQEGGQV 111
Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNST 212
           + +   G   +      GSGS      +   Y E MT +E +      L   ME   +S 
Sbjct: 112 YSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSG 171
Query: 213 NV 214
            V
Sbjct: 172 GV 173

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	251
1iru_E	241	20S proteasome; cell cycle, immune response, prote	1e-127
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-119
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	1e-116
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	1e-115
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-114
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	1e-113
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	1e-113
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	1e-112
1iru_F	263	20S proteasome; cell cycle, immune response, prote	1e-110
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	1e-109
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-109
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	1e-108
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	1e-108
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	1e-107
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	1e-106
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	1e-105
1iru_G	254	20S proteasome; cell cycle, immune response, prote	1e-105
1iru_C	261	20S proteasome; cell cycle, immune response, prote	1e-102
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	1e-63
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	7e-63
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	1e-61
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	3e-61
1iru_I	234	20S proteasome; cell cycle, immune response, prote	2e-56
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	3e-55
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	9e-55
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	2e-44
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	4e-41
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	1e-40
1iru_L	204	20S proteasome; cell cycle, immune response, prote	9e-38
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	5e-37
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	2e-35
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	1e-32
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	5e-31
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	1e-30
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	3e-30
1iru_H	205	20S proteasome; cell cycle, immune response, prote	7e-30
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	1e-29
1iru_K	201	20S proteasome; cell cycle, immune response, prote	8e-28
1iru_M	213	20S proteasome; cell cycle, immune response, prote	2e-27
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	2e-26
1iru_J	205	20S proteasome; cell cycle, immune response, prote	3e-26
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	3e-26
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	7e-25
1iru_N	219	20S proteasome; cell cycle, immune response, prote	8e-25
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	1e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-05
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	4e-04

>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 =  358 bits (922), Expect = e-127
 Identities = 179/241 (74%), Positives = 204/241 (84%), Gaps = 1/241 (0%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MFLTRSEYDRGVNTFSPEGRLFQVEY IEAIKLGSTAIGI TSEGV LA EKRITS LME
Sbjct: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLME 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           PSSI+KIVEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA
Sbjct: 61  PSSIEKIVEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLA 120

Query: 121 IQFG-DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQS 179
           +QFG +  +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ S
Sbjct: 121 LQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSS 180

Query: 180 LQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK 239
           LQE+YH+SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H+++KEELEE +  
Sbjct: 181 LQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD 240

Query: 240 V 240
           +
Sbjct: 241 I 241

>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 =  339 bits (872), Expect = e-119
 Identities = 75/237 (31%), Positives = 128/237 (54%), Gaps = 5/237 (2%)

Query: 5   RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI 64
              Y   + TFSP G+L Q+EYA+ A+  G+ ++GI  + GVVLA EK+  S+L +  S+
Sbjct: 2   ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSV 61

Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
            K+  I KHIG   SG+  D R+L  RAR     ++  Y E +    + Q V+++  ++ 
Sbjct: 62  HKVEPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYT 121

Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
               +S   RPFGV++L  G +   P LF  DPSG Y  + A A+G      +  L++ Y
Sbjct: 122 ----QSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRY 177

Query: 185 HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVS 241
           +E + L++AI+  +  LK+  E ++   N+E+        +   +  E+++ L+ ++
Sbjct: 178 NEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAIA 233

>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 =  330 bits (848), Expect = e-116
 Identities = 91/237 (38%), Positives = 145/237 (61%), Gaps = 4/237 (1%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           M   +  Y R +  FSP+GRLFQVEYA EA+K GSTA+G+  + GV+L ++K++ S L+E
Sbjct: 1   MQQGQMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIE 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
            +SI+KI  ID ++    SGL+AD+R+L D AR+       TY   ++IE++ + V++  
Sbjct: 61  QNSIEKIQLIDDYVAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQM 120

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
            Q+     +    RP+GV+++FAG+D  GP+LF  DP+GT  ++ A AIGSG +     L
Sbjct: 121 QQYT----QYGGVRPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFL 176

Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEEL 237
           +  Y E++  KEA+   +  LK  +EE       E+ ++T    Y +Y +EE+++ L
Sbjct: 177 EREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL 233

>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 =  328 bits (842), Expect = e-115
 Identities = 137/236 (58%), Positives = 173/236 (73%), Gaps = 3/236 (1%)

Query: 9   DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIV 68
           DRGV+TFSPEGRLFQVEY++EAIKLGSTAIGI+T EGVVL  EKR TS L+E  SI+KIV
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60

Query: 69  EIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG--DS 126
           EID+HIGCA SGL AD+R + + AR     H   YDE +++ES+ Q+V +LA++FG   S
Sbjct: 61  EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120

Query: 127 DEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
            EE  MSRPFGVA+L AG D+  G QLFH +PSGT+ +++AKAIGSGSEGAQ  L   +H
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWH 180

Query: 186 ESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVS 241
            S+TLKEA   VL ILKQVMEEKL+  N +L  +T    + +Y  E+  E + ++ 
Sbjct: 181 SSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELK 236

>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 =  326 bits (837), Expect = e-114
 Identities = 67/247 (27%), Positives = 133/247 (53%), Gaps = 10/247 (4%)

Query: 1   MFL-TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGISTSEGVVLAAEKRITSVL 58
           M   + + +DR +  FSPEGRL+QVEYA +AI  G  T++ +   +  V+  +K++   L
Sbjct: 1   MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKL 60

Query: 59  MEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSN 118
           ++ S++  + +I ++IGC  +G+ ADSR    RAR E AN  + Y  ++ ++ + + +++
Sbjct: 61  LDSSTVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIAD 120

Query: 119 LAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQ 177
           ++  +     ++A  RP G  M+  G+D  +GPQ++  DP+G Y  F A A G     + 
Sbjct: 121 ISQVYT----QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTEST 176

Query: 178 QSLQEVYHES--MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD-KMYHLYSKEELE 234
             L++   +    T ++ +   +T L  V+      + +E+  VT +   + + ++ E++
Sbjct: 177 SFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEID 236

Query: 235 EELSKVS 241
             L  ++
Sbjct: 237 AHLVALA 243

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

 Score =  323 bits (831), Expect = e-113
 Identities = 93/242 (38%), Positives = 148/242 (61%), Gaps = 6/242 (2%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           M L +  YDR +  FSP+GRLFQVEYA EA+K G+TAIGI   EGV+L A+KR+ S L+E
Sbjct: 1   MHLPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLE 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             +I+KI +ID+HI  A SGL+AD+R+L DRAR+E   +  TYD  + ++ +A+ + +  
Sbjct: 61  KDTIEKIYKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFK 120

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
            Q+     +    RPFGV++L AG++ + P+L+  DPSG   ++ A AIG G     +  
Sbjct: 121 QQYT----QYGGVRPFGVSLLIAGVN-EVPKLYETDPSGALLEYKATAIGMGRMAVTEFF 175

Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD-KMYHLYSKEELEEELSK 239
           ++ Y + ++  +A+   L  +   +E +L   N+E+  V  D + +   S EEL+  + +
Sbjct: 176 EKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVER 235

Query: 240 VS 241
            +
Sbjct: 236 AN 237

>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 =  323 bits (829), Expect = e-113
 Identities = 74/252 (29%), Positives = 130/252 (51%), Gaps = 21/252 (8%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
             Y   + TFSP G+L Q++YA+ A+K G T++GI  + GVV+A EK+ +S L    ++ 
Sbjct: 3   DRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLS 62

Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVEC-ANHWFTYDEKMDIESVAQAVSNLAIQFG 124
           K+  +   IG   SG+  D R+L D++R     ++   Y E    + +   V+ +  +  
Sbjct: 63  KVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEAT 122

Query: 125 DSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
               +S   RPFGV++L AG D   G  L+ +DPSG+Y  + A AIG GS  A+  L++ 
Sbjct: 123 ----QSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKR 178

Query: 184 YHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD---------------KMYHLY 228
           +++ + L++AI+  L  LK+ +E + N   +EL  +  +                 +   
Sbjct: 179 WNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKL 238

Query: 229 SKEELEEELSKV 240
           + +E+ + L  +
Sbjct: 239 TSQEINDRLEAL 250

>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 =  322 bits (828), Expect = e-112
 Identities = 65/245 (26%), Positives = 124/245 (50%), Gaps = 14/245 (5%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIK-LGSTAIGISTSEGVVLAAEKRITSVLMEPSSI 64
           + YDR +  FSPEGRL+QVEYA +A       ++ +   +  V+ ++K++   L++P+++
Sbjct: 1   AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV 60

Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
             I  I + IG   +G I D+R    RA+ E A   + Y   M  + +A+ ++NL+  + 
Sbjct: 61  SYIFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT 120

Query: 125 DSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
               + A  RP GV + F  +D + GP ++  DP+G Y  + A A G   +    +L+  
Sbjct: 121 ----QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENH 176

Query: 184 YHES-------MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEE 236
           + +S        + ++ +   +T +   +  + +  ++E+   T DK +   S E +EE 
Sbjct: 177 FKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDK-FFTLSAENIEER 235

Query: 237 LSKVS 241
           L  ++
Sbjct: 236 LVAIA 240

>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 =  318 bits (816), Expect = e-110
 Identities = 79/244 (32%), Positives = 127/244 (52%), Gaps = 12/244 (4%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           MF  R++YD  V  +SP+GR+ Q+EYA+EA+K GS  +G+ +    VL A KR  S L  
Sbjct: 1   MF--RNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSEL-- 56

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
            +  KKI+ +D HIG + +GL AD+R+L +  R EC +  F +D  + +  +   + +  
Sbjct: 57  AAHQKKILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKT 116

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
                   +    RP+GV +L AG D  GP +F   PS  Y    A +IG+ S+ A+  L
Sbjct: 117 QIPT----QRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYL 172

Query: 181 QEVYHESM--TLKEAINHVLTILKQVME--EKLNSTNVELCTVTADKMYHLYSKEELEEE 236
           +    E M   L E + H L  L++ +   + L + NV +  V  D  + +Y  +++   
Sbjct: 173 ERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPF 232

Query: 237 LSKV 240
           L  +
Sbjct: 233 LEGL 236

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

 Score =  315 bits (810), Expect = e-109
 Identities = 98/241 (40%), Positives = 151/241 (62%), Gaps = 6/241 (2%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
             +  S YDR +  FSPEGRL+QVEYA EA++ G+TAIGI+  +GVVLA ++RITS L++
Sbjct: 5   QMVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVK 64

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
             SI+KI +ID H+  A SGL+AD+R+L DRAR+E   +  TY E++ IE +A+ + ++ 
Sbjct: 65  IRSIEKIFQIDDHVAAATSGLVADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIK 124

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
             +     +    RPFGV++L AG+D    +LF  DPSG   ++ A AIGSG     + L
Sbjct: 125 QAYT----QHGGVRPFGVSLLIAGIDKNEARLFETDPSGALIEYKATAIGSGRPVVMELL 180

Query: 181 QEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTA-DKMYHLYSKEELEEELSK 239
           ++ Y + +TL E +   +T L +  E+ +   NV++C +T  D  +     EE+++ + K
Sbjct: 181 EKEYRDDITLDEGLELAITALTKANED-IKPENVDVCIITVKDAQFKKIPVEEIKKLIEK 239

Query: 240 V 240
           V
Sbjct: 240 V 240

>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 =  314 bits (808), Expect = e-109
 Identities = 83/236 (35%), Positives = 142/236 (60%), Gaps = 9/236 (3%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+G LFQVEYA EA+K GSTA+G+   + VVL  EK+  + L +  +++KI
Sbjct: 3   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 62

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D ++  A +GL AD+RI+ +RARVEC +H  T ++ + +E + + +++L  ++    
Sbjct: 63  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYT--- 119

Query: 128 EESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
            +S   RPFG++ L  G D  G P+L+  DPSGTY  + A AIG G++  ++ L++ Y +
Sbjct: 120 -QSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTD 178

Query: 187 SMTLK--EAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
                    I  V+  L +V++      N+EL  +  D+   + + EE+E+ ++++
Sbjct: 179 EAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEI 232

>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 =  311 bits (798), Expect = e-108
 Identities = 77/238 (32%), Positives = 121/238 (50%), Gaps = 11/238 (4%)

Query: 5   RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI 64
           R+ YD    TFSP GRLFQVEYA+EAIK GS  +G+ ++   VL A KR    L   S  
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQ 59

Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
           KKI++ D+H+G + +GL  D+R+L++  R +C      ++ K+ +E     + + A +  
Sbjct: 60  KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNT 119

Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
               +S   RP+GV +L  G D  G  L    PSG  T+    AIG+ S+GA+  L+   
Sbjct: 120 ----QSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTL 175

Query: 185 HESM----TLKEAINHVLTILKQVM-EEKLNSTNVELCTVTADKMYHLYSKEELEEEL 237
              +       E I   +  + Q + +E L   N+ +  V  D  + +Y  E + + +
Sbjct: 176 DTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI 233

>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 =  310 bits (797), Expect = e-108
 Identities = 80/242 (33%), Positives = 126/242 (52%), Gaps = 11/242 (4%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
           + YD   + FSP+GR FQVEYA++A++ G+T+IGI  ++GVV A EK ITS L+ P    
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61

Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           KI  +D+HIGC  SGLI D R L +R R E A+    Y   + I + A  +         
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHT- 120

Query: 126 SDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQ---E 182
                   RPFGV+ +F G+D  G  L+ L+PSG+Y  +   A G G + A+  L+   +
Sbjct: 121 ---LYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVD 177

Query: 183 VYHESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTA---DKMYHLYSKEELEEELS 238
            + E ++ +EA+     I+    E+ K     +E+   +    + ++     + L+E + 
Sbjct: 178 HHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAID 237

Query: 239 KV 240
             
Sbjct: 238 FA 239

>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 =  308 bits (790), Expect = e-107
 Identities = 84/243 (34%), Positives = 138/243 (56%), Gaps = 12/243 (4%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEP-SSI 64
             YD     FSPEGRL+QVEYA+E+I    TAIGI  S+G+VLAAE+++TS L+E  +S 
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST 62

Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
           +K+ +++  I  A +GL AD+ IL + AR+   N+  TY+E + +E + + +S++   + 
Sbjct: 63  EKLYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYT 122

Query: 125 DSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
               +    RPFGV+ ++AG D + G QL+  +PSG YT + A ++G+ +  AQ  LQ  
Sbjct: 123 ----QHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMD 178

Query: 184 YHESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTADK-----MYHLYSKEELEEEL 237
           Y + M + +AI   L  L +  +   L    +E  T+            ++  +E+++ L
Sbjct: 179 YKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDIL 238

Query: 238 SKV 240
            K 
Sbjct: 239 VKT 241

>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 =  309 bits (793), Expect = e-106
 Identities = 81/247 (32%), Positives = 126/247 (51%), Gaps = 11/247 (4%)

Query: 1   MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME 60
           M    + YD   + FSP+GR FQVEYA++A++ G+T+IGI  ++GVV A EK ITS L+ 
Sbjct: 1   MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLV 60

Query: 61  PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA 120
           P    KI  +D+HIGC  SGLI D R L +R R E A+    Y   + I + A  +    
Sbjct: 61  PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYV 120

Query: 121 IQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
                        RPFGV+ +F G+D  G  L+ L+PSG+Y  +   A G G + A+  L
Sbjct: 121 QAHT----LYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAEL 176

Query: 181 Q---EVYHESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTAD---KMYHLYSKEEL 233
           +   + + E ++ +EA+     I+    E+ K     +E+   +      ++     + L
Sbjct: 177 EKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLL 236

Query: 234 EEELSKV 240
           +E +   
Sbjct: 237 QEAIDFA 243

>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 =  304 bits (781), Expect = e-105
 Identities = 80/239 (33%), Positives = 138/239 (57%), Gaps = 12/239 (5%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKK 66
           YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+     VVL  E+R T  L +   +  K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61

Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           + +ID H+  + SGL ADSRIL ++ARVE  +H  T ++ + +E + + V+ +  ++   
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYT-- 119

Query: 127 DEESAMSRPFGVAMLFAGLDS--KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
             +S   RPFGV+ L AG D     P+L+  +PSG Y+ + A+ IG  S+  ++ L++ Y
Sbjct: 120 --QSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNY 177

Query: 185 HES---MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
                  T++E +   +  L +V++    + N+E+  V  D      S EE+ + ++++
Sbjct: 178 DRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQI 234

>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 =  304 bits (781), Expect = e-105
 Identities = 77/238 (32%), Positives = 126/238 (52%), Gaps = 7/238 (2%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
           + YD   +TFSP+GR+FQVEYA++A++  STAIGI   +GVV   EK + S L E  S K
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64

Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           ++  +D+H+G A +GL+AD+R L D AR E +N    +   + ++ +A  V+     +  
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYT- 123

Query: 126 SDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
                +  RPFG + +        G QL+ +DPSG    +   AIG   + A+  ++++ 
Sbjct: 124 ---LYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQ 180

Query: 185 HESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTAD-KMYHLYSKEELEEELSKV 240
            + MT ++ +  V  I+  V +E K  +  +EL  V       H    +++ EE  K 
Sbjct: 181 MKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKY 238

>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 =  295 bits (758), Expect = e-102
 Identities = 80/242 (33%), Positives = 136/242 (56%), Gaps = 11/242 (4%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI- 64
             YD     FSPEGRL+QVEYA+EAI    T +GI  ++GV+LAAE+R    L++     
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62

Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
           +KI ++++ + C+ +G+ +D+ +LT+  R+    +   Y E +  E +  A+ ++   + 
Sbjct: 63  EKIYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYT 122

Query: 125 DSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
               +    RPFGV++L+ G D   G QL+  DPSG Y  + A  IG+ S  A   L++ 
Sbjct: 123 ----QFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQD 178

Query: 184 YHE-SMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTAD---KMYHLYSKEELEEELS 238
           Y E  MTLK A+   + +L + M+  KL++  VE+ T+T +    +  +  ++E+E+ + 
Sbjct: 179 YKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIK 238

Query: 239 KV 240
           K 
Sbjct: 239 KH 240

>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H 1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H Length = 217

 Score =  197 bits (503), Expect = 1e-63
 Identities = 53/217 (24%), Positives = 103/217 (47%), Gaps = 11/217 (5%)

Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
           + ++ G+T +GI+  + V++A E+R+T    +   + KK+ +ID + G   +GL+ D+++
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQV 62

Query: 88  LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS 147
           L    + E   +       M IE+VA  +SN+  Q            P+ V +L  G+D 
Sbjct: 63  LVRYMKAELELYRLQRRVNMPIEAVATLLSNMLNQV--------KYMPYMVQLLVGGID- 113

Query: 148 KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEE 207
             P +F +D +G   +    + GSGS      L+  Y E MT+ E ++ V+  +    + 
Sbjct: 114 TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQR 173

Query: 208 KLNS-TNVELCTVTADKMYHLYSKEELEEELSKVSSI 243
              S   +++  +T    Y     +++E  + K+  I
Sbjct: 174 DSASGGMIDVAVITRKDGYVQLPTDQIESRIRKLGLI 210

>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 =  195 bits (499), Expect = 7e-63
 Identities = 48/207 (23%), Positives = 96/207 (46%), Gaps = 11/207 (5%)

Query: 35  STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T  G+   +GV+L A+ R T+  ++   S +KI  I   I C  +G+ AD+ + T  A 
Sbjct: 1   TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMAA 60

Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
            +   H  +   +  + +V + +     ++             G +++  G+D  GPQL+
Sbjct: 61  SKMELHALSTGREPRVATVTRILRQTLFRYQG---------HVGASLVVGGVDLNGPQLY 111

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVL-TILKQVMEEKLNST 212
            + P G+Y++    A+GSG   A   L++ +  +MTL+ A   ++  I   ++ +  +  
Sbjct: 112 EVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAAQELLVEAITAGILSDLGSGG 171

Query: 213 NVELCTVTADKMYHLYSKEELEEELSK 239
           NV+ C +TA       +     E + +
Sbjct: 172 NVDACVITAGGAKLQRALSTPTEPVQR 198

>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 =  193 bits (492), Expect = 1e-61
 Identities = 48/226 (21%), Positives = 89/226 (39%), Gaps = 12/226 (5%)

Query: 14  TFSPEGRLFQVEYAI-EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEID 71
            +     L +  +   +A   G+T +G+  + GVV+AA+ R T   ++   +  K+  I 
Sbjct: 8   NYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRIS 67

Query: 72  KHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESA 131
             I CA +G  AD+  +T         H      +  + S  Q +     ++        
Sbjct: 68  PKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQG------ 121

Query: 132 MSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLK 191
                G  ++ AG+D  G  LF +   G+       ++GSGS  A   L+  + + +T +
Sbjct: 122 ---HIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKE 178

Query: 192 EAINHVLTILKQVMEEKLNS-TNVELCTVTADKMYHLYSKEELEEE 236
           EAI      ++  +   L S +NV++C +   K             
Sbjct: 179 EAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNV 224

>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 =  192 bits (489), Expect = 3e-61
 Identities = 44/244 (18%), Positives = 97/244 (39%), Gaps = 29/244 (11%)

Query: 16  SPEGRLFQ-VEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHI 74
           SPE  + +  E A + I    + + ++ + GV+  AE           S++KI E+   +
Sbjct: 8   SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENP-------SRSLQKISELYDRV 60

Query: 75  GCAASGLIADSRILTDRARVECANHWFTYDEK-MDIESVAQAVSNLAIQFGDSDEESAMS 133
           G AA+G   +   L            + YD + +    +A   +            +  +
Sbjct: 61  GFAAAGKFNEFDNLRRGGIQFADTRGYAYDRRDVTGRQLANVYAQTLGT-----IFTEQA 115

Query: 134 RPFGVAMLFAGL----DSKGPQLFHLDPSGTYT-QFDAKAIGSGSEGAQQSLQEVYHESM 188
           +P+ V +  A +    ++K P+L+ +   G+   +     +G  +E    +L+E Y E+ 
Sbjct: 116 KPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFVVMGGTTEPIANALKESYAENA 175

Query: 189 TLKEAINHVLTILKQVM-------EEKLNSTNVELCTVTAD---KMYHLYSKEELEEELS 238
           +L +A+   +  L+          +  L   ++E+  + A+   + +   +   L+  L 
Sbjct: 176 SLTDALRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALLV 235

Query: 239 KVSS 242
              S
Sbjct: 236 DQES 239

>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 =  179 bits (455), Expect = 2e-56
 Identities = 44/214 (20%), Positives = 90/214 (42%), Gaps = 11/214 (5%)

Query: 35  STAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T  G+   +G+VL A+ R T  ++    +  KI  I  +I C  +G  AD+ + T    
Sbjct: 1   TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLIS 60

Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
                H  +      + +  + +  +  ++             G A++  G+D  GP L+
Sbjct: 61  SNLELHSLSTGRLPRVVTANRMLKQMLFRYRG---------YIGAALVLGGVDVTGPHLY 111

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
            + P G+  +     +GSGS  A    ++ +   M  +EA N V   +   +   L S +
Sbjct: 112 SIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGS 171

Query: 213 NVELCTVTADKMYHLYSKEELEEELSKVSSIHDP 246
           N++LC ++ +K+  L       ++ +++      
Sbjct: 172 NIDLCVISKNKLDFLRPYTVPNKKGTRLGRYRCE 205

>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 =  175 bits (447), Expect = 3e-55
 Identities = 45/204 (22%), Positives = 82/204 (40%), Gaps = 11/204 (5%)

Query: 35  STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +G+  + GVV+AA+ R T   ++   +  K+  I   I CA +G  AD+  +T    
Sbjct: 1   TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIG 60

Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
                H      +  + S  Q +     ++             G  ++ AG+D  G  LF
Sbjct: 61  SNIELHSLYTSREPRVVSALQMLKQHLFKYQG---------HIGAYLIVAGVDPTGSHLF 111

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
            +   G+       ++GSGS  A   L+  + + +T +EAI      ++  +   L S +
Sbjct: 112 SIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGS 171

Query: 213 NVELCTVTADKMYHLYSKEELEEE 236
           NV++C +   K             
Sbjct: 172 NVDVCVMEIGKDAEYLRNYLTPNV 195

>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 =  175 bits (446), Expect = 9e-55
 Identities = 42/242 (17%), Positives = 94/242 (38%), Gaps = 27/242 (11%)

Query: 16  SPEGRLFQ-VEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHI 74
           S E  +    E A + I  G + + ++  +GV+  AE          +++ K+ E+   +
Sbjct: 8   SAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP-------STALHKVSELYDRL 60

Query: 75  GCAASGLIADSRILTDRARVECANHWFTYD-EKMDIESVAQAVSNLAIQFGDSDEESAMS 133
           G AA G   +   L     V      ++YD   +   S+A A +            +   
Sbjct: 61  GFAAVGKYNEFENLRRAGIVHADMRGYSYDRRDVTGRSLANAYAQTLGT-----IFTEQP 115

Query: 134 RPFGVAMLFAGL----DSKGPQLFHLDPSGTYT-QFDAKAIGSGSEGAQQSLQEVYHESM 188
           +P+ V +  A +      K PQL+ +   G+   +     +G  +E    +++E Y   +
Sbjct: 116 KPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADL 175

Query: 189 TLKEAINHVLTILKQVM-----EEKLNSTNVELCTVTAD---KMYHLYSKEELEEELSKV 240
            L+ A+   +  L+Q       +  ++  ++E+  +      + +   +   LE+ +   
Sbjct: 176 DLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVPAE 235

Query: 241 SS 242
            +
Sbjct: 236 PA 237

>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 =  149 bits (379), Expect = 2e-44
 Identities = 46/239 (19%), Positives = 97/239 (40%), Gaps = 15/239 (6%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSI 64
           +   + +   + + R    +     I  G+T +      G+++A + R T+   +   ++
Sbjct: 50  ASPQQFLRAHTDDSRNPDCK---IKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTV 106

Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
           KK++EI+  +    +G  AD +        +C  H     E++ + + ++ +SNL  Q+ 
Sbjct: 107 KKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSNLVYQY- 165

Query: 125 DSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
                        +  +  G   K GP ++++D  GT  + D   +GSG   A   L   
Sbjct: 166 -------KGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSN 218

Query: 184 YHESMTLKEAINHVLTILKQVMEEKLNS-TNVELCTVTADKMYHLYSKEELEEELSKVS 241
           Y   +++++A+      +         S  +V L  VT D  +  +   ++ E   KV 
Sbjct: 219 YKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTEDG-WIYHGNHDVGELFWKVK 276

>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 =  139 bits (352), Expect = 4e-41
 Identities = 42/209 (20%), Positives = 87/209 (41%), Gaps = 12/209 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T +      G+++A + R T+   +   ++K+++EI+  +    +G  AD +        
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
           +C  H     E++ + + ++ +SNL  Q+              +  +  G   K GP ++
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQY--------KGAGLSMGTMICGYTRKEGPTIY 113

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
           ++D  GT  + D   +GSG   A   L   Y   +++++A+      +         S  
Sbjct: 114 YVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGG 173

Query: 213 NVELCTVTADKMYHLYSKEELEEELSKVS 241
           +V L  VT D  +  +   ++ E   KV 
Sbjct: 174 SVNLYHVTEDG-WIYHGNHDVGELFWKVK 201

>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 =  140 bits (354), Expect = 1e-40
 Identities = 41/252 (16%), Positives = 90/252 (35%), Gaps = 23/252 (9%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKK 66
            +  +   S   R      + +    G+T + ++   GV+LA ++R T   L+    ++ 
Sbjct: 39  PENRIGHRSHSTRGGDGMESGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEA 98

Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           +   D++     +G    +  L     VE  ++       +  +  A  ++++       
Sbjct: 99  VYVTDEYSAAGIAGTAGIAIELVRLFAVELEHYEKIEGVPLTFDGKANRLASMVRGNLG- 157

Query: 127 DEESAMSRPFGVAMLFAGLD------SKGPQLFHLDPSGTYTQFDAK--AIGSGSEGAQQ 178
               A  +   V  L  G D      S+  ++   D  G   +  A   A+GSGS  A+ 
Sbjct: 158 ----AAMQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKS 213

Query: 179 SLQEVYHESMTLKEAINHVLTILKQVMEEKLNS--------TNVELCTVTADKMYHLYSK 230
           +L+++Y      + A+   +  L    ++   +              T+T        S+
Sbjct: 214 ALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQAG-AVHVSE 272

Query: 231 EELEEELSKVSS 242
           E   E   ++ +
Sbjct: 273 ETTSELARRIVA 284

>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 =  130 bits (329), Expect = 9e-38
 Identities = 41/208 (19%), Positives = 86/208 (41%), Gaps = 11/208 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T +      GV++AA+ R T+   +   ++KK++EI+ ++    +G  AD          
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
           +C  +     E++ + + ++ ++N+  Q+              +  +  G D +GP L++
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQYKG--------MGLSMGTMICGWDKRGPGLYY 113

Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-TN 213
           +D  G        ++GSGS  A   +   Y   + +++A +     + Q       S   
Sbjct: 114 VDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGA 173

Query: 214 VELCTVTADKMYHLYSKEELEEELSKVS 241
           V L  V  D    + S + + +   K S
Sbjct: 174 VNLYHVREDGWIRV-SSDNVADLHEKYS 200

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

 Score =  128 bits (324), Expect = 5e-37
 Identities = 54/209 (25%), Positives = 100/209 (47%), Gaps = 12/209 (5%)

Query: 35  STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
           +T +G+   +GVV+A EKR T    +   + KKI +I   +    +G + D++ L    +
Sbjct: 1   TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIK 60

Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
           +E   +    + K  + ++A   SNL   +           P+ V +L  G+DS+G  ++
Sbjct: 61  IEANLYEIRRERKPTVRAIATLTSNLLNSYRY--------FPYLVQLLIGGIDSEGKSIY 112

Query: 154 HLDPSGT-YTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS- 211
            +DP G    + D  A GSGS  A   L++ +   + + EA+   +  +   M+    S 
Sbjct: 113 SIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASG 172

Query: 212 TNVELCTVTADKMYHLYSKEELEEELSKV 240
             +++  +T D+ Y   S EE+E+ L+K 
Sbjct: 173 DGIDVVKITEDEFYQY-SPEEVEQILAKF 200

>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 =  125 bits (315), Expect = 2e-35
 Identities = 39/224 (17%), Positives = 83/224 (37%), Gaps = 23/224 (10%)

Query: 36  TAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T + ++   GV+LA ++R T   +  S  ++K+   D++     +G    +  L     V
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD------SK 148
           E  ++       +  +  A  ++++           A  +   V  L  G D      S+
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGNLG-----AAMQGLAVVPLLVGYDLDADDESR 116

Query: 149 GPQLFHLDPSGTYTQFDAK--AIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME 206
             ++   D  G   +  A   A+GSGS  A+ +L+++Y      + A+   +  L    +
Sbjct: 117 AGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAAD 176

Query: 207 EKLNS--------TNVELCTVTADKMYHLYSKEELEEELSKVSS 242
           +   +              T+T        S+E   E   ++ +
Sbjct: 177 DDSATGGPDLTRGIYPTAVTITQAG-AVHVSEETTSELARRIVA 219

>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 =  115 bits (289), Expect = 5e-31
 Identities = 33/229 (14%), Positives = 78/229 (34%), Gaps = 23/229 (10%)

Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
             +  G+T + +    GVV+A ++R T   ++    ++K+   D +     +G  A +  
Sbjct: 52  AQLPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVE 111

Query: 88  LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD- 146
                 VE  ++       +        ++ +          +A  +      L AG D 
Sbjct: 112 FARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGN-----LAAAMQGLLALPLLAGYDI 166

Query: 147 -----SKGPQLFHLDPSGTY--TQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLT 199
                    ++   D +G +   +   +A+GSGS  A+ S++++Y +       +   + 
Sbjct: 167 HASDPQSAGRIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVE 226

Query: 200 ILKQVMEEKLNSTNV--------ELCTVTADKMYHLYSKEELEEELSKV 240
            L    ++   +               + AD       +  + E    +
Sbjct: 227 ALYDAADDDSATGGPDLVRGIFPTAVIIDADG-AVDVPESRIAELARAI 274

>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 =  111 bits (281), Expect = 1e-30
 Identities = 40/203 (19%), Positives = 80/203 (39%), Gaps = 12/203 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T + +    GVV+ ++ R+++   +      K+  + + I CA SG  AD++ + D A  
Sbjct: 2   TIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMAAY 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
           +   H    +E   + + A  V N++ ++ +              ++ AG D +     +
Sbjct: 62  QLELHGLELEEPPLVLAAANVVKNISYKYRE---------DLLAHLIVAGWDQREGGQVY 112

Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-TN 213
               G   +      GSGS      +   Y   MT +E        +   M    +S   
Sbjct: 113 GTMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPEECRRFTTNAITLAMNRDGSSGGV 172

Query: 214 VELCTVTADKM-YHLYSKEELEE 235
           + L T+TA  + + +   +EL +
Sbjct: 173 IYLVTITAAGVDHRVILGDELPK 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 =  110 bits (278), Expect = 3e-30
 Identities = 40/209 (19%), Positives = 87/209 (41%), Gaps = 14/209 (6%)

Query: 31  IKLGSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILT 89
           + LG++ + ++  +GV+L A+ R T+     +    K+  +   I C  SG  AD++ + 
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65

Query: 90  DRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK- 148
           D  +     +   Y      E+ A     L  +  D              ++ AG D K 
Sbjct: 66  DIVQYHLELYTSQYGTPS-TETAASVFKELCYENKD---------NLTAGIIVAGYDDKN 115

Query: 149 GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEK 208
             +++ +   G+  +      GSGS        + + E+M+ +E ++ +   L Q ++  
Sbjct: 116 KGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWD 175

Query: 209 LNS-TNVELCTVTADKM-YHLYSKEELEE 235
            +S   + +  +TA  +   ++  +E E+
Sbjct: 176 GSSGGVIRMVVLTAAGVERLIFYPDEYEQ 204

>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 =  109 bits (276), Expect = 7e-30
 Identities = 40/196 (20%), Positives = 71/196 (36%), Gaps = 12/196 (6%)

Query: 36  TAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T + +    GVVL A+ R T+     +    K+  I   I C  SG  AD++ + D    
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
           +   H    +E   + + A     +  ++ +              ++ AG D + G Q++
Sbjct: 62  QLGFHSIELNEPPLVHTAASLFKEMCYRYRE---------DLMAGIIIAGWDPQEGGQVY 112

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
            +   G   +      GSGS      +   Y E MT +E +      L   ME   +S  
Sbjct: 113 SVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGG 172

Query: 213 NVELCTVTADKMYHLY 228
            + L  +    +    
Sbjct: 173 VIRLAAIAESGVERQV 188

>1ryp_K 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_K 1g0u_J* 1jd2_J* 1g65_J 1vsy_K 1z7q_K 2f16_J* 2fak_J* 2fny_J* 2gpl_J* 2zcy_J* 3bdm_J* 3d29_J* 3dy3_J* 3dy4_J* 3e47_J* 3gpj_J* 3gpt_J* 3gpw_J* 3hye_J* ... Length = 198

 Score =  109 bits (274), Expect = 1e-29
 Identities = 38/203 (18%), Positives = 77/203 (37%), Gaps = 11/203 (5%)

Query: 36  TAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
             +GI   + V+LA+ K +T  + +   S  K  ++  H   + +G   D+    +  + 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK--GPQL 152
               +    D ++  ++V+  V     +   S       RP+ V +L  G D K   P+L
Sbjct: 63  NIQLYSIREDYELSPQAVSSFVRQELAKSIRS------RRPYQVNVLIGGYDKKKNKPEL 116

Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS- 211
           + +D  GT  +    A G         L   Y   MT +E ++ +   ++++ +      
Sbjct: 117 YQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDF 176

Query: 212 TNVELCTVTADKMYHLYSKEELE 234
             V +  V  D         + +
Sbjct: 177 KGVIVKIVDKDG-IRQVDDFQAQ 198

>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 =  104 bits (262), Expect = 8e-28
 Identities = 30/206 (14%), Positives = 74/206 (35%), Gaps = 10/206 (4%)

Query: 36  TAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
             IGI   + V++A+++    +++       K+ ++ + I     G   D+    +  + 
Sbjct: 3   YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQK 62

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
               +      ++   + A            S        P+ V +L AG D   GP L+
Sbjct: 63  NVQLYKMRNGYELSPTAAANFTRRNLADCLRSRT------PYHVNLLLAGYDEHEGPALY 116

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
           ++D      +    A G G+      L   Y  +++ + A+  +   L+++ +  + +  
Sbjct: 117 YMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNLP 176

Query: 213 NVELCTVTADKMYHLYSKEELEEELS 238
              +  +  +   H        ++ S
Sbjct: 177 TFSVRIIDKNG-IHDLDNISFPKQGS 201

>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 =  103 bits (260), Expect = 2e-27
 Identities = 41/204 (20%), Positives = 82/204 (40%), Gaps = 24/204 (11%)

Query: 34  GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G T + I+  +  ++A++ R++    +      K  ++        SG   D   LT   
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNL--AIQFGDSDEESAMSRPFGVAMLFAGLDSKG- 149
                 +  + ++ M   ++A  +S +  + +F           P+ V  +  GLD +G 
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSRRFF----------PYYVYNIIGGLDEEGK 118

Query: 150 PQLFHLDPSGTYTQFDAKAIGSGSEGAQ---------QSLQEVYHESMTLKEAINHVLTI 200
             ++  DP G+Y +   KA GS S   Q         +++Q V H  ++L  A+  V  +
Sbjct: 119 GAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDV 178

Query: 201 LKQVMEEKLNS-TNVELCTVTADK 223
                E  + +   + +C VT + 
Sbjct: 179 FISAAERDVYTGDALRICIVTKEG 202

>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 =  101 bits (253), Expect = 2e-26
 Identities = 33/195 (16%), Positives = 72/195 (36%), Gaps = 14/195 (7%)

Query: 34  GSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G   + ++  + V +A + R+ S  +  S   +KI     H+    +GL  D   L +  
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMF 66

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG--P 150
           R +   +    +  ++ E+  Q VS+   +            P+ V  + AG++SK   P
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYER--------RFGPYFVGPVVAGINSKSGKP 118

Query: 151 QLFHLDPSGTYTQFDA-KAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL 209
            +   D  G   +       G+ S+      + +Y  ++  ++    +   L    +   
Sbjct: 119 FIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDA 178

Query: 210 NS-TNVELCTVTADK 223
            S     +  +  D+
Sbjct: 179 LSGWGAVVYIIKKDE 193

>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 =  100 bits (252), Expect = 3e-26
 Identities = 34/198 (17%), Positives = 70/198 (35%), Gaps = 17/198 (8%)

Query: 34  GSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G   + +     V +AA++R        +   +KI  +   +    +GL  D + +  R 
Sbjct: 8   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQ--FGDSDEESAMSRPFGVAMLFAGLDSK-- 148
           +     +      ++   ++   V+NL  +  FG          P+    + AGLD K  
Sbjct: 68  KFRLNLYELKEGRQIKPYTLMSMVANLLYEKRFG----------PYYTEPVIAGLDPKTF 117

Query: 149 GPQLFHLDPSGT-YTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEE 207
            P +  LD  G      D    G+ +E      + ++  +M        +   +   ++ 
Sbjct: 118 KPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDR 177

Query: 208 KLNS-TNVELCTVTADKM 224
              S   V +  +  DK+
Sbjct: 178 DAVSGMGVIVHIIEKDKI 195

>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 =  100 bits (252), Expect = 3e-26
 Identities = 43/218 (19%), Positives = 84/218 (38%), Gaps = 29/218 (13%)

Query: 34  GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G T +GI+  +  VLA + R  +   +      K+ +   +I  +A+G  AD   L  R 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 93  RVECANHWFTYDEK-MDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-P 150
           +     + F +++K + I S A+ + +L               P+ V  + AGLD  G  
Sbjct: 69  KNSVKWYHFDHNDKKLSINSAARNIQHLLYGKR--------FFPYYVHTIIAGLDEDGKG 120

Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQ-----------------QSLQEVYHESMTLKEA 193
            ++  DP G+Y +   +A G+ +                         +   + ++++E 
Sbjct: 121 AVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEV 180

Query: 194 INHVLTILKQVMEEKLNS-TNVELCTVTADKMYHLYSK 230
           I  V        E  +     +E+  VT D +   + +
Sbjct: 181 IKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKEFYE 218

>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 = 97.8 bits (244), Expect = 7e-25
 Identities = 34/221 (15%), Positives = 84/221 (38%), Gaps = 19/221 (8%)

Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
           + I  G++ I +    GV++AA+   +   L+  + +++++ +  +     SG I+D + 
Sbjct: 3   QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 62

Query: 88  LTDRARVECANHWFTYD-----EKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLF 142
           +    +     + +        E ++   + + ++ +  Q            P   A++ 
Sbjct: 63  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRS------KMNPLWNAIIV 116

Query: 143 AGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE-----SMTLKEAINH 196
           AG+ S G   L +++  G        A G G+  A   L++V          T++ A   
Sbjct: 117 AGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEA 176

Query: 197 VLTILKQVMEEKLNS-TNVELCTVTADKMYHLYSKEELEEE 236
           ++  ++ +      S  N  L  +  +         ++E  
Sbjct: 177 IVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM 217

>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 = 96.9 bits (242), Expect = 8e-25
 Identities = 38/200 (19%), Positives = 72/200 (36%), Gaps = 13/200 (6%)

Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAASGLIADSR 86
             +  G++ +G+    GVV+AA+   +  S+    + I +I+ ++      ASG  AD +
Sbjct: 3   NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRN-ISRIMRVNNSTMLGASGDYADFQ 61

Query: 87  ILTDRARVECANHWFTYD-EKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGL 145
            L         +     D       ++   ++                 P    M+  G 
Sbjct: 62  YLKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSRRSKMN------PLWNTMVIGGY 115

Query: 146 DSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY--HESMTLKEAINHVLTILKQ 203
                 L ++D  G   +  + A G G+  AQ  L+EV      ++  EA + V   ++ 
Sbjct: 116 ADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRV 175

Query: 204 VMEEKLNS-TNVELCTVTAD 222
           +      S    +  TVT  
Sbjct: 176 LYYRDARSYNRFQTATVTEK 195

>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 = 97.5 bits (243), Expect = 1e-24
 Identities = 35/221 (15%), Positives = 86/221 (38%), Gaps = 19/221 (8%)

Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
           + I  G++ I +    GV++AA+   +   L+  + +++++ +  +     SG I+D + 
Sbjct: 36  QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 95

Query: 88  LTDRARVEC-----ANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLF 142
           +    +         N     +E ++   + + ++ +  Q            P   A++ 
Sbjct: 96  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRS------KMNPLWNAIIV 149

Query: 143 AGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH-----ESMTLKEAINH 196
           AG+ S G   L +++  G        A G G+  A   L++V          T++ A   
Sbjct: 150 AGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEA 209

Query: 197 VLTILKQVME-EKLNSTNVELCTVTADKMYHLYSKEELEEE 236
           ++  ++ +   +  +S N  L  +  +         ++E  
Sbjct: 210 IVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM 250

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 44.1 bits (103), Expect = 3e-05
 Identities = 33/213 (15%), Positives = 66/213 (30%), Gaps = 46/213 (21%)

Query: 52  KRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECAN----HWFTYDEKM 107
            ++   L+E    K ++ ID  +G   + +  D  +     +V+C       W       
Sbjct: 138 LKLRQALLELRPAKNVL-IDGVLGSGKTWVALD--VCLSY-KVQCKMDFKIFWLNLKNCN 193

Query: 108 DIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAK 167
             E+V + +  L  Q  D +  S       + +    + ++  +L    P   Y      
Sbjct: 194 SPETVLEMLQKLLYQI-DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKP---Y------ 243

Query: 168 AIGSGSEGAQQSL---QEVYHESMTLKEAINH--------VLTILKQVMEEKLNSTNVEL 216
                    +  L     V +      +A N         + T  KQV +    +T    
Sbjct: 244 ---------ENCLLVLLNVQN-----AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH- 288

Query: 217 CTVTADKMYHLYSKEELEEELSKVSSIHDPTRP 249
             ++ D      + +E++  L K         P
Sbjct: 289 --ISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319

>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 = 39.2 bits (91), Expect = 4e-04
 Identities = 21/164 (12%), Positives = 55/164 (33%), Gaps = 18/164 (10%)

Query: 34  GSTAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAA-SGLIADSRILTD 90
            +T   +       ++ + ++T    ++   + +K+ ++      A  +G +AD+  L +
Sbjct: 5   ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64

Query: 91  RARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGP 150
           +   +   +        +++  A  ++        SD+         + M    L     
Sbjct: 65  KFEAKLEEY------NGNLKRAAVELAKE----WRSDKVLRKLEAMLIVMNQDTLLLVSG 114

Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAI 194
               ++P          AIGSG   A  + + +   +     A 
Sbjct: 115 TGEVIEPDDGIL-----AIGSGGNYALAAGRALKKHAGESMSAS 153

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	251
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	100.0
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	100.0
1iru_E	241	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_B	233	20S proteasome; cell cycle, immune response, prote	100.0
1iru_A	246	20S proteasome; cell cycle, immune response, prote	100.0
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	100.0
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_F	263	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	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
1iru_D	248	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	100.0
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	100.0
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	100.0
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	100.0
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	100.0
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	100.0
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	100.0
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	100.0
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	100.0
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	100.0
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	100.0
1iru_L	204	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	100.0
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	100.0
1iru_N	219	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_H	205	20S proteasome; cell cycle, immune response, prote	100.0
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	100.0
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	100.0
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	100.0
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	100.0
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	100.0
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_M	213	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	100.0
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	100.0
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_J	205	20S proteasome; cell cycle, immune response, prote	100.0
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	100.0
1iru_I	234	20S proteasome; cell cycle, immune response, prote	100.0
1iru_K	201	20S proteasome; cell cycle, immune response, prote	100.0
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	100.0
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	100.0
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	100.0

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

Probab=100.00  E-value=3.7e-64  Score=424.51  Aligned_cols=232  Identities=39%  Similarity=0.661  Sum_probs=213.1

Q ss_pred             CCCCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEecc
Q psy5094           1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASG   80 (251)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG   80 (251)
                      |||++++||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|
T Consensus         1 ~~m~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~~~~~~~~~Ki~~i~~~i~~~~aG   80 (233)
T 1yar_A            1 MQQGQMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSG   80 (233)
T ss_dssp             ------------CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEE
T ss_pred             CCcccccCCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEeccCCcccccccccCeEEEecCCEEEEEee
Confidence            89999999999999999999999999999999999999999999999999999999987788999999999999999999


Q ss_pred             chhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCc
Q psy5094          81 LIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGT  160 (251)
Q Consensus        81 ~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~  160 (251)
                      ..+|++.+.++++.+++.|+++++++++++.+++.+++++|.|+++.+.    |||++++||||||++||+||.+||.|+
T Consensus        81 ~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~~~~~~~~----rp~~v~~lvaG~D~~gp~Ly~id~~G~  156 (233)
T 1yar_A           81 LVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGV----RPYGVSLIFAGIDQIGPRLFDCDPAGT  156 (233)
T ss_dssp             BHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTB----CCCCEEEEEEEECSSCEEEEEECTTCC
T ss_pred             CHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCc----CcceEEEEEEEEeCCCCEEEEECCCCC
Confidence            9999999999999999999999999999999999999999999998766    999999999999998999999999999


Q ss_pred             eeecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHH
Q psy5094         161 YTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEE  236 (251)
Q Consensus       161 ~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~  236 (251)
                      +.+++++++|+|+..++++||+.|+++|+++||++++++||..+.++|+++++++|++|++++++++++++||+++
T Consensus       157 ~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea~~la~~al~~~~~~d~s~~~i~v~vi~~~~~~~~~~~~ei~~~  232 (233)
T 1yar_A          157 INEYKATAIGSGKDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKF  232 (233)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTT
T ss_pred             EEeeeEEEEcCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCEEECCHHHHHhh
Confidence            9999999999999999999999999999999999999999999999988878899999999977999999999875

>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=1.8e-63  Score=423.47  Aligned_cols=236  Identities=39%  Similarity=0.676  Sum_probs=224.3

Q ss_pred             CCCCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEecc
Q psy5094           1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASG   80 (251)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG   80 (251)
                      |||++++||+.+|+|||||||+|||||.+++++|+|+|||+++||||||+|+|.+.+++..++.+||++|++|++|+++|
T Consensus         1 ~~~~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG   80 (246)
T 1j2p_A            1 MHLPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSG   80 (246)
T ss_dssp             ---CCTTSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEE
T ss_pred             CCccccCcCCCCceECCCCeehHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCccccccCccCcEEEECCCEEEEEeE
Confidence            89999999999999999999999999999999999999999999999999999999887788899999999999999999


Q ss_pred             chhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCc
Q psy5094          81 LIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGT  160 (251)
Q Consensus        81 ~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~  160 (251)
                      ..+|++.+.++++.+++.|++.++++++++.+++.+++++|.|+++.+.    |||++++|||||| +||+||.+||.|+
T Consensus        81 ~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~----rp~~v~~lvaG~D-~gp~Ly~idp~G~  155 (246)
T 1j2p_A           81 LVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGV----RPFGVSLLIAGVN-EVPKLYETDPSGA  155 (246)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTB----CCCCEEEEEEEES-SSEEEEEECTTCC
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCc----ccccEEEEEEEEC-CCCEEEEECCCce
Confidence            9999999999999999999999999999999999999999999998766    9999999999999 8999999999999


Q ss_pred             eeecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEE-cCCCEEEcCHHHHHHHHHh
Q psy5094         161 YTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVT-ADKMYHLYSKEELEEELSK  239 (251)
Q Consensus       161 ~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~-~~~~~~~~~~~ei~~~~~~  239 (251)
                      +.+++++|+|+|+..++++|++.|+++|+++||++++++||..+.++..++++++|++|+ +++++++++++||++++..
T Consensus       156 ~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~l~~~ei~~~~~~  235 (246)
T 1j2p_A          156 LLEYKATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVER  235 (246)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHHH
T ss_pred             EEeeeEEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCceEECCHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999884577789999999 7668999999999999988


Q ss_pred             hc
Q psy5094         240 VS  241 (251)
Q Consensus       240 ~~  241 (251)
                      +.
T Consensus       236 ~~  237 (246)
T 1j2p_A          236 AN  237 (246)
T ss_dssp             HH
T ss_pred             HH
Confidence            75

>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=8.8e-64  Score=424.16  Aligned_cols=240  Identities=75%  Similarity=1.124  Sum_probs=220.4

Q ss_pred             CCCCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEecc
Q psy5094           1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASG   80 (251)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG   80 (251)
                      |||++++||+.+|+|||||||+|||||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|
T Consensus         1 ~~m~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG   80 (241)
T 1iru_E            1 MFLTRSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSG   80 (241)
T ss_dssp             -------CCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEE
T ss_pred             CCCccCCCCCCCceECCCCccHHHHHHHHHHHcCCcEEEEEcCCEEEEEEecccCCcCcCccccceEEEEcCCEEEEEee
Confidence            89999999999999999999999999999999999999999999999999999999876688899999999999999999


Q ss_pred             chhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccc-cccccCCcceeeEEEEEcCCCCeEEEECCCC
Q psy5094          81 LIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDE-ESAMSRPFGVAMLFAGLDSKGPQLFHLDPSG  159 (251)
Q Consensus        81 ~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~-~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G  159 (251)
                      ..+|++.+.++++.+++.|+++++++++++.+++.+++++|.|+++.+ ..+|.|||++++||||||++||+||.+||.|
T Consensus        81 ~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a~~l~~~~~~y~~~~~~~~l~~rp~~v~~lvaG~D~~gp~Ly~idp~G  160 (241)
T 1iru_E           81 LIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEEDADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSG  160 (241)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCBCSTTCCSSCBSSCCCEEEEEEEEETTEEEEEEECTTS
T ss_pred             ChHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhccccccccccccceEEEEEEEEeCCCCEEEEECCCC
Confidence            999999999999999999999999999999999999999999988765 0122399999999999998889999999999


Q ss_pred             ceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHh
Q psy5094         160 TYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSK  239 (251)
Q Consensus       160 ~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~  239 (251)
                      ++.+++++|+|+|+..++++||+.|+++|+++||++++++||..+.++..++.+++|++|++++.+++++++||++++++
T Consensus       161 ~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~l~~~ei~~~~~~  240 (241)
T 1iru_E          161 TFVQCDARAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKD  240 (241)
T ss_dssp             CEEEBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHHHHHTT
T ss_pred             cEEecceEEECCCcHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECCCCeEECCHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999998855778999999999988999999999999865


Q ss_pred             h
Q psy5094         240 V  240 (251)
Q Consensus       240 ~  240 (251)
                      +
T Consensus       241 ~  241 (241)
T 1iru_E          241 I  241 (241)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=8.1e-63  Score=418.73  Aligned_cols=232  Identities=27%  Similarity=0.537  Sum_probs=222.9

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhc-CCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~-G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      ++||+.+|+|||||||+|||||+||+++ |+|+|||+++||||||+|+|.+.+++..++.+||++|++|++|+++|..+|
T Consensus         1 ~~yd~~~t~fsp~Grl~QvEYA~~av~~~Gtt~vgi~~~dgVvlaad~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   80 (243)
T 1ryp_A            1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPD   80 (243)
T ss_dssp             CGGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHH
T ss_pred             CCCCCCCceECCCCeeHHHHHHHHHHhcCCCcEEEEEeCCEEEEEEEecCCccccCCCcCCceEEECCCEEEEEEecHHH
Confidence            5899999999999999999999999999 999999999999999999999977887889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceee
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~  163 (251)
                      ++.++++++.+++.|++.+++++|++.+++++++++|.|+++++.    |||+|++||||||+ +||+||++||.|++.+
T Consensus        81 ~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~l~~y~~~~~~----rP~~v~~lvaG~D~~~gp~Ly~~dp~G~~~~  156 (243)
T 1ryp_A           81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYM----RPLGVILTFVSVDEELGPSIYKTDPAGYYVG  156 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTS----CCCSCEEEEEEEETTTEEEEEEECTTSCEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCc----cccceEEEEEEEcCCCCcEEEEEcCCCCEEE
Confidence            999999999999999999999999999999999999999987665    99999999999996 7899999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcC-------CCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHH
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHE-------SMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEE  236 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~-------~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~  236 (251)
                      ++++++|+|++.++++||+.|++       +||++||++++++||..+.++|.++++++|++|++++ +++++++||+++
T Consensus       157 ~~~~a~G~gs~~a~~~Le~~~~~~~~~~~~~ms~eea~~l~~~al~~~~~rd~s~~~iev~vi~~~g-~~~l~~~ei~~~  235 (243)
T 1ryp_A          157 YKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDK-FFTLSAENIEER  235 (243)
T ss_dssp             BSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETTE-EEECCHHHHHHH
T ss_pred             EEEEEECCCcHHHHHHHHHHhhhcccccccCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCC-eEECCHHHHHHH
Confidence            99999999999999999999999       9999999999999999999998888899999999995 999999999999


Q ss_pred             HHhhcc
Q psy5094         237 LSKVSS  242 (251)
Q Consensus       237 ~~~~~~  242 (251)
                      ++.+++
T Consensus       236 ~~~~~~  241 (243)
T 1ryp_A          236 LVAIAE  241 (243)
T ss_dssp             HHHHTT
T ss_pred             HHHhhc
Confidence            998854

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

Probab=100.00  E-value=1.4e-62  Score=414.76  Aligned_cols=231  Identities=32%  Similarity=0.580  Sum_probs=222.9

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      +++||+.+|+|||||||+|||||++++++|+|+|||+++||||||+|+|.+.+++..++.+||++|++|++|+++|..+|
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   81 (233)
T 1iru_B            2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPD   81 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHH
T ss_pred             CCCccCCceeECCCCeEehhHhHHHHHHcCCcEEEEEeCCEEEEEEEecCCccccccccCCeEEEECCCEEEEEEEccHH
Confidence            68999999999999999999999999999999999999999999999999988888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeec
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQF  164 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~  164 (251)
                      ++.+.++++.+++.|+++++++++++.+++++++++|.|+++++.    |||++++||||||++||+||.+||.|++.++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~y~~~~~~----rP~~v~~lvaG~D~~gp~Ly~id~~G~~~~~  157 (233)
T 1iru_B           82 YRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGV----RPFGVSLLICGWNEGRPYLFQSDPSGAYFAW  157 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTB----CCCSEEEEEEEECSSSEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCcCCC----CCcEEEEEEEEEeCCCCeEEEECCCCCEEEe
Confidence            999999999999999999999999999999999999999998665    9999999999999889999999999999999


Q ss_pred             CEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhh
Q psy5094         165 DAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV  240 (251)
Q Consensus       165 ~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~  240 (251)
                      +++++|+|+..++++||+.|+++||++||++++++||..+.++|.++++++|++|+++ ++++++++||+++++.+
T Consensus       158 ~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~sg~~i~v~vi~~~-g~~~l~~~ei~~~~~~~  232 (233)
T 1iru_B          158 KATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEA-GFRRLTPTEVKDYLAAI  232 (233)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETT-EEEECCHHHHHHHHTTC
T ss_pred             eEEEECCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEECC-CEEECCHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999999999877889999999998 59999999999999765

>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=1.6e-62  Score=417.67  Aligned_cols=238  Identities=28%  Similarity=0.587  Sum_probs=226.3

Q ss_pred             CCCCc-CCCCCCCceeCCCCcchhhhhHHHHHhc-CCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEe
Q psy5094           1 MFLTR-SEYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAA   78 (251)
Q Consensus         1 ~~~~~-~~yd~~~~~fsp~G~l~q~eya~~a~~~-G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~   78 (251)
                      |||++ ++||+.+|+|||+|||+|||||.+++++ |+|+|||+++||||||+|+|.+.+++..++.+||++|++|++|++
T Consensus         1 ~~m~~~~~yd~~~t~fsp~Grl~QvEya~~av~~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~   80 (246)
T 1iru_A            1 MSRGSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVM   80 (246)
T ss_dssp             -CCSCCCTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEE
T ss_pred             CCCCccCCcCCCCccCCCCCeehHHHHHHHHHhcCCCCEEEEEeCCEEEEEEeecCCCcccCCCccCceEEECCCEEEEE
Confidence            88876 7999999999999999999999999999 999999999999999999999987887889999999999999999


Q ss_pred             ccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECC
Q psy5094          79 SGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDP  157 (251)
Q Consensus        79 sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~  157 (251)
                      +|..+|++.+.++++.+++.|+++++++++++.+++.+++++|.|+++.+.    |||+|++||||||+ +||+||.+||
T Consensus        81 aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~l~~~~~~y~~~~~~----rp~~v~~lvaG~D~~~gp~Ly~idp  156 (246)
T 1iru_A           81 TGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEM----RPLGCCMILIGIDEEQGPQVYKCDP  156 (246)
T ss_dssp             EECHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSB----CCCSEEEEEEEEETTTEEEEEEECT
T ss_pred             eccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCC----CCcceEEEEEEEeCCCCeEEEEEcC
Confidence            999999999999999999999999999999999999999999999987655    99999999999996 7899999999


Q ss_pred             CCceeecCEEEeCCCchhHHHHHHhhhcC--CCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCC-EEEcCHHHHH
Q psy5094         158 SGTYTQFDAKAIGSGSEGAQQSLQEVYHE--SMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKM-YHLYSKEELE  234 (251)
Q Consensus       158 ~G~~~~~~~~a~G~g~~~~~~~Le~~~~~--~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~-~~~~~~~ei~  234 (251)
                      .|++.+++++|+|+|++.++++||+.|++  +|+++||++++++||..+.++|.++++++|++|++++. +++++++||+
T Consensus       157 ~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~sg~~i~v~vi~~~g~~~~~l~~~ei~  236 (246)
T 1iru_A          157 AGYYCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEID  236 (246)
T ss_dssp             TSCEEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHH
T ss_pred             CeeEEEeeEEEECCCcHHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCcEEEEEEECCCCeEEECCHHHHH
Confidence            99999999999999999999999999999  99999999999999999999887778999999999866 8999999999


Q ss_pred             HHHHhhcc
Q psy5094         235 EELSKVSS  242 (251)
Q Consensus       235 ~~~~~~~~  242 (251)
                      ++++.+++
T Consensus       237 ~~~~~~~~  244 (246)
T 1iru_A          237 AHLVALAE  244 (246)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHhhc
Confidence            99988853

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

Probab=100.00  E-value=5.3e-63  Score=423.82  Aligned_cols=236  Identities=41%  Similarity=0.714  Sum_probs=218.6

Q ss_pred             CCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccch
Q psy5094           3 LTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLI   82 (251)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~   82 (251)
                      +.+++||+.+|+|||+|||+|||||++|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..
T Consensus         7 ~~~~~yd~~~t~fSp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~li~~~~~~KI~~i~d~i~~~~aG~~   86 (264)
T 3h4p_A            7 VPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQIDDHVAAATSGLV   86 (264)
T ss_dssp             ---------CCCCCSSSSCHHHHHHHHHHHHSCCEEEECCSSEEEEEEECCCCSTTBCTTTCCCEEEEETTEEEEEEECS
T ss_pred             CCccccCCCcceECCCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEecCccCCccccCccccEEEecCcEEEEeccch
Confidence            55789999999999999999999999999999999999999999999999999998878899999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCcee
Q psy5094          83 ADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYT  162 (251)
Q Consensus        83 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~  162 (251)
                      +|++.++++++.+++.|++.++++++++.+++.|++++|.|+++++.    |||+|++||||||++||+||++||.|++.
T Consensus        87 aD~~~l~~~~r~~~~~y~~~~~~~i~v~~la~~l~~~~~~yt~~~~~----rP~~v~~lvaG~D~~gp~Ly~iDp~G~~~  162 (264)
T 3h4p_A           87 ADARVLIDRARLEAQIYRLTYGEEISIEMLAKKICDIKQAYTQHGGV----RPFGVSLLIAGIDKNEARLFETDPSGALI  162 (264)
T ss_dssp             HHHHHHHTTHHHHHHHHHHTTCSCCCHHHHHHHHHHHHHHTTSBSSC----CCCSEEEEEEEEETTEEEEEEECTTCCCE
T ss_pred             HHHHHHHHHHHHHHHhhHHhcCCCCCHHHHHHHHHHHHHHHhhccCC----CCeeEEEEEEEEeCCcCEEEEECCCceEE
Confidence            99999999999999999999999999999999999999999998765    99999999999999899999999999999


Q ss_pred             ecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCC-CEEEcCHHHHHHHHHhhc
Q psy5094         163 QFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADK-MYHLYSKEELEEELSKVS  241 (251)
Q Consensus       163 ~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~-~~~~~~~~ei~~~~~~~~  241 (251)
                      +++++|+|+|+..++++|++.|+++|+++||++++++||..+.++ .++++++|++|++++ +|++++++||+++++.++
T Consensus       163 ~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~a~~~-~sg~~iev~vi~~~~~~~~~l~~~ei~~~~~~~~  241 (264)
T 3h4p_A          163 EYKATAIGSGRPVVMELLEKEYRDDITLDEGLELAITALTKANED-IKPENVDVCIITVKDAQFKKIPVEEIKKLIEKVK  241 (264)
T ss_dssp             EESEEEESTTHHHHTTTHHHHCCTTCCSHHHHHHHHHHHHHHSSS-CCTTSEEEEEEETTTTEEEECCTTTTGGGTTTTT
T ss_pred             ecCeEEECCCHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhc-cCCCeEEEEEEEeCCCcEEECCHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999988 788899999999864 599999999999998887


Q ss_pred             cC
Q psy5094         242 SI  243 (251)
Q Consensus       242 ~~  243 (251)
                      +.
T Consensus       242 ~~  243 (264)
T 3h4p_A          242 KK  243 (264)
T ss_dssp             TS
T ss_pred             Hh
Confidence            54

>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=1e-61  Score=412.17  Aligned_cols=232  Identities=37%  Similarity=0.634  Sum_probs=222.9

Q ss_pred             CCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHH
Q psy5094           7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADS   85 (251)
Q Consensus         7 ~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~   85 (251)
                      +||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.+++++. +++.+||++|++|++|+++|..+|+
T Consensus         4 ~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~   83 (244)
T 1ryp_C            4 RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADA   83 (244)
T ss_dssp             GGCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHH
T ss_pred             ccCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHHH
Confidence            899999999999999999999999999999999999999999999999998766 8899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEc-CCCCeEEEECCCCceeec
Q psy5094          86 RILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQF  164 (251)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~~~~  164 (251)
                      +.+.++++.+++.|++.++++++++.+++.+++++|.|+++.+.    |||++++|||||| ++||+||.+||.|++.++
T Consensus        84 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~----rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~  159 (244)
T 1ryp_C           84 EILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGL----RPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGW  159 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSC----CCCCEEEEEEEEETTTEEEEEEECTTCCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCc----cceEEEEEEEEEcCCCCCEEEEECCCccEEee
Confidence            99999999999999999999999999999999999999987655    9999999999999 778999999999999999


Q ss_pred             CEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhh-cCCCCcEEEEEEE--cCCC---EEEcCHHHHHHHHH
Q psy5094         165 DAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVT--ADKM---YHLYSKEELEEELS  238 (251)
Q Consensus       165 ~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~-d~~~~~i~i~~i~--~~~~---~~~~~~~ei~~~~~  238 (251)
                      +++|+|+|+..++++||+.|+++|+++||++++++||..+.++ +.++++++|++|+  ++++   +++++++||+++++
T Consensus       160 ~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~~~~~~~~~~l~~~ei~~~~~  239 (244)
T 1ryp_C          160 KAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILV  239 (244)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHHH
T ss_pred             eEEEECCCcHHHHHHHHHhhhcCCCHHHHHHHHHHHHHHHhccccCCCCcEEEEEEEeecCCCceeEEECCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999998 5677789999999  9876   99999999999999


Q ss_pred             hhcc
Q psy5094         239 KVSS  242 (251)
Q Consensus       239 ~~~~  242 (251)
                      .++.
T Consensus       240 ~~~~  243 (244)
T 1ryp_C          240 KTGI  243 (244)
T ss_dssp             HHTC
T ss_pred             Hhhc
Confidence            8864

>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=5.7e-62  Score=417.68  Aligned_cols=232  Identities=33%  Similarity=0.580  Sum_probs=221.5

Q ss_pred             CcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchh
Q psy5094           4 TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIA   83 (251)
Q Consensus         4 ~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~   83 (251)
                      ++++||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.++++.  ++.+||++|++|++|+++|..+
T Consensus         2 ~~~~yd~~~t~fsP~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl~--~~~~KI~~i~~~i~~~~aG~~a   79 (263)
T 1iru_F            2 FRNQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA--AHQKKILHVDNHIGISIAGLTA   79 (263)
T ss_dssp             --CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHH
T ss_pred             CcCCCCCCCccCCCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEecccccccc--cchhcEEEEcCCEEEEEeCCHH
Confidence            47999999999999999999999999999999999999999999999999999864  4779999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceee
Q psy5094          84 DSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~  163 (251)
                      |++.+.++++.+++.|++.++++++++.+++.+++++|.|+++++.    |||+|++||||||++||+||++||+|++.+
T Consensus        80 D~~~l~~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~~~t~~~~~----RP~~v~~lvaG~D~~gp~Ly~idp~G~~~~  155 (263)
T 1iru_F           80 DARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGR----RPYGVGLLIAGYDDMGPHIFQTCPSANYFD  155 (263)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTC----CCCCEEEEEEEEETTEEEEEEECSSSCEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHhhccccc----ccceEEEEEEEEcCCCCEEEEECCCCCEEE
Confidence            9999999999999999999999999999999999999999987665    999999999999998999999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcC--CCCHHHHHHHHHHHHHHHhhhc--CCCCcEEEEEEEcCCCEEEcCHHHHHHHHHh
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHE--SMTLKEAINHVLTILKQVMEEK--LNSTNVELCTVTADKMYHLYSKEELEEELSK  239 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~--~~s~~ea~~l~~~~l~~~~~~d--~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~  239 (251)
                      ++++++|+|+..++++||+.|++  +|+++||++++++||..+.++|  .++++++|++|++++++++++++||++++..
T Consensus       156 ~~~~aiGsgs~~a~~~Le~~~~~~~~ms~eea~~la~~al~~~~~rd~~~sg~~iev~vi~~~~~~~~l~~~ei~~~~~~  235 (263)
T 1iru_F          156 CRAMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEG  235 (263)
T ss_dssp             ESEEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTT
T ss_pred             eeEEEcCcccHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccccCCCCcEEEEEEECCCCeEECCHHHHHHHHHH
Confidence            99999999999999999999998  9999999999999999999988  5778999999999978999999999999998


Q ss_pred             hc
Q psy5094         240 VS  241 (251)
Q Consensus       240 ~~  241 (251)
                      ++
T Consensus       236 ~~  237 (263)
T 1iru_F          236 LE  237 (263)
T ss_dssp             CC
T ss_pred             Hh
Confidence            86

>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=4.7e-61  Score=407.40  Aligned_cols=230  Identities=35%  Similarity=0.613  Sum_probs=220.3

Q ss_pred             CCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCC-CccCcEEEEcCcEEEEeccchhHH
Q psy5094           7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEP-SSIKKIVEIDKHIGCAASGLIADS   85 (251)
Q Consensus         7 ~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~-~~~~KI~~i~~~i~~~~sG~~~D~   85 (251)
                      +||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.+++++.. ++.+||++|++|++|+++|..+|+
T Consensus         1 ~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~   80 (241)
T 1ryp_D            1 GYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADS   80 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCceeECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHH
Confidence            6999999999999999999999999999999999999999999999999977654 589999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC--CCCeEEEECCCCceee
Q psy5094          86 RILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS--KGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~--~gp~Ly~id~~G~~~~  163 (251)
                      +.+.++++.+++.|++.++++++++.+++++++++|.|+++++.    |||++++||||||+  +||+||.+||.|++.+
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~----rP~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~  156 (241)
T 1ryp_D           81 RILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGV----RPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSS  156 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTB----CCCSEEEEEEECCTTCCSCEEEEECTTSCEEE
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHccCCCC----CCcceeeEEEEEcCCCCCeeEEEECCCCCEEE
Confidence            99999999999999999999999999999999999999998766    99999999999997  7899999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhh---cCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhh
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVY---HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV  240 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~---~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~  240 (251)
                      ++++|+|+|+..++++||+.|   +++||++||++++++||..+.+  .++++++|++|++++++++++++||++++..+
T Consensus       157 ~~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~l~~~al~~~~~--~sg~~i~v~vi~~~~~~~~l~~~ei~~~~~~~  234 (241)
T 1ryp_D          157 WSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQI  234 (241)
T ss_dssp             BSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC--SCSTTEEEEEEETTTEEEECCHHHHHHHHHHH
T ss_pred             eeeEEECCCcHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc--CCCCcEEEEEEECCCcEEECCHHHHHHHHHHH
Confidence            999999999999999999999   9999999999999999999987  77889999999999789999999999999888


Q ss_pred             cc
Q psy5094         241 SS  242 (251)
Q Consensus       241 ~~  242 (251)
                      ++
T Consensus       235 ~~  236 (241)
T 1ryp_D          235 EQ  236 (241)
T ss_dssp             TH
T ss_pred             hh
Confidence            64

>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=3.7e-61  Score=412.37  Aligned_cols=238  Identities=33%  Similarity=0.577  Sum_probs=224.0

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchh
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIA   83 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~   83 (251)
                      .++||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.+++++. +++.+||++|++|++|+++|..+
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~a   81 (261)
T 1iru_C            2 SRRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITS   81 (261)
T ss_dssp             CTTTCCCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHH
T ss_pred             CCccCCCCccCCCCCeehHHHhHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHH
Confidence            45999999999999999999999999999999999999999999999999997655 45589999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCcee
Q psy5094          84 DSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYT  162 (251)
Q Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~  162 (251)
                      |++.++++++.+++.|++.+++++|++.+++.+++++|.|++.++.    |||+|++||||||+ +||+||.+||.|++.
T Consensus        82 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~----rP~~v~~lvaG~D~~~gp~Ly~idp~G~~~  157 (261)
T 1iru_C           82 DANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGK----RPFGVSLLYIGWDKHYGFQLYQSDPSGNYG  157 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSC----CCCCEEEEEEEEETTTEEEEEEEETTTEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCc----CcceEEEEEEEEeCCCCcEEEEECCCceEE
Confidence            9999999999999999999999999999999999999999987665    99999999999994 789999999999999


Q ss_pred             ecCEEEeCCCchhHHHHHHhhhcC-CCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC---EEEcCHHHHHHHH
Q psy5094         163 QFDAKAIGSGSEGAQQSLQEVYHE-SMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM---YHLYSKEELEEEL  237 (251)
Q Consensus       163 ~~~~~a~G~g~~~~~~~Le~~~~~-~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~---~~~~~~~ei~~~~  237 (251)
                      +++++|+|+|+..++++|++.|++ +||++||++++++||..+.++|. ++++++|++|+++++   +++++++||++++
T Consensus       158 ~~~~~aiGsgs~~a~~~Le~~~~~~~ms~eeA~~la~~al~~~~~~d~~sg~~i~v~vi~~~~~~~~~~~l~~~ei~~~l  237 (261)
T 1iru_C          158 GWKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLI  237 (261)
T ss_dssp             ECSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHH
T ss_pred             eeeeEEeCcccHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEcCCCeeeEEECCHHHHHHHH
Confidence            999999999999999999999999 99999999999999999999875 677899999999864   8999999999999


Q ss_pred             HhhccCCCC
Q psy5094         238 SKVSSIHDP  246 (251)
Q Consensus       238 ~~~~~~~~~  246 (251)
                      ..+.+..++
T Consensus       238 ~~~~~~~~~  246 (261)
T 1iru_C          238 KKHEEEEAK  246 (261)
T ss_dssp             HHHHTTTTT
T ss_pred             HHHHhchhh
Confidence            999755444

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F

Probab=100.00  E-value=3.9e-61  Score=410.72  Aligned_cols=237  Identities=32%  Similarity=0.488  Sum_probs=224.3

Q ss_pred             CCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccch
Q psy5094           3 LTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLI   82 (251)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~   82 (251)
                      .+.++||+.+|+|||+|||+|||||.+|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..
T Consensus         2 ~~~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~   81 (254)
T 1iru_G            2 SIGTGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLL   81 (254)
T ss_dssp             CCCSSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECH
T ss_pred             CcccccCCCCccCCcCCccHHHHhHHHHHhcCCCEEEEEECCEEEEEEecccCCCCcCcCcCCcEEEECCCEEEEEecCh
Confidence            35789999999999999999999999999999999999999999999999999987667888999999999999999999


Q ss_pred             hHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEc-CCCCeEEEECCCCce
Q psy5094          83 ADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTY  161 (251)
Q Consensus        83 ~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~  161 (251)
                      +|++.++++++.+++.|++++++++|++.+++.+++++|.|+++++.    |||+|++|||||| ++||+||++||.|++
T Consensus        82 aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~----rP~~v~~lvaG~D~~~gp~Ly~idp~G~~  157 (254)
T 1iru_G           82 ADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAV----RPFGCSFMLGSYSVNDGAQLYMIDPSGVS  157 (254)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSB----CCCSEEEEEEEEETTTEEEEEEECTTCCE
T ss_pred             HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcccccc----ccceEEEEEEEEeCCCCcEEEEEcCCCCE
Confidence            99999999999999999999999999999999999999999988766    9999999999999 778999999999999


Q ss_pred             eecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcC--CCEEEcCHHHHHHHHH
Q psy5094         162 TQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTAD--KMYHLYSKEELEEELS  238 (251)
Q Consensus       162 ~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~--~~~~~~~~~ei~~~~~  238 (251)
                      .+++++++|+|+..++++|++.|+++|+++||+++++++|+.+.+++. ++.+++|++|+++  +++++++++|++++++
T Consensus       158 ~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~~~~iev~vi~~~~~g~~~~l~~~~i~~~~~  237 (254)
T 1iru_G          158 YGYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEK  237 (254)
T ss_dssp             EEBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHH
T ss_pred             EeeeeEEecCccHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhhccCCCCcEEEEEEEcCCCCCeEECCHHHHHHHHH
Confidence            999999999999999999999999999999999999999999988775 6668999999987  5599999999999998


Q ss_pred             hhccC
Q psy5094         239 KVSSI  243 (251)
Q Consensus       239 ~~~~~  243 (251)
                      .+++.
T Consensus       238 ~~~~~  242 (254)
T 1iru_G          238 YAKES  242 (254)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            87643

>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=6.6e-61  Score=408.01  Aligned_cols=230  Identities=36%  Similarity=0.659  Sum_probs=221.0

Q ss_pred             CCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHH
Q psy5094           8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRI   87 (251)
Q Consensus         8 yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   87 (251)
                      ||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..+|++.
T Consensus         3 yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~   82 (248)
T 1iru_D            3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADARI   82 (248)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHHH
T ss_pred             ccCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecccccCccCCCCCcEEEEcCCEEEEEeecHHHHHH
Confidence            99999999999999999999999999999999999999999999999999877788999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEc-CCCCeEEEECCCCceeecCE
Q psy5094          88 LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQFDA  166 (251)
Q Consensus        88 l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~~~~~~  166 (251)
                      +.++++.+++.|++.++++++++.+++++++++|.|+++++.    |||+|++|||||| ++||+||.+||.|++.++++
T Consensus        83 l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~~~~~~~----rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~  158 (248)
T 1iru_D           83 VINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGR----RPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKA  158 (248)
T ss_dssp             HHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTB----CCCCEEEEEEEECSSSCEEEEEECTTSCEEEBSE
T ss_pred             HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhccCCc----ccccEEEEEEEEeCCCCcEEEEEcCCCcEEEeeE
Confidence            999999999999999999999999999999999999998766    9999999999999 77899999999999999999


Q ss_pred             EEeCCCchhHHHHHHhhhcCCC--CHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccC
Q psy5094         167 KAIGSGSEGAQQSLQEVYHESM--TLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVSSI  243 (251)
Q Consensus       167 ~a~G~g~~~~~~~Le~~~~~~~--s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~  243 (251)
                      +++|+|+..++++||+.|+++|  +++||++++++||..+.+  .++++++|++|++++++++++++||++++..+++.
T Consensus       159 ~aiG~gs~~a~~~Le~~~~~~m~~s~eea~~la~~al~~~~~--~sg~~i~v~vi~~~g~~~~l~~~ei~~~~~~~~~~  235 (248)
T 1iru_D          159 NAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKE  235 (248)
T ss_dssp             EEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC--TTSTTCCEEEEESSSCEECCCHHHHHHHTTTTTTT
T ss_pred             EEECCCcHHHHHHHHHhhcccccCCHHHHHHHHHHHHHHHHc--CCCCcEEEEEEECCCcEEECCHHHHHHHHHHHHhc
Confidence            9999999999999999999999  999999999999999887  46778999999999779999999999999888644

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

Probab=100.00  E-value=8.9e-62  Score=409.90  Aligned_cols=227  Identities=33%  Similarity=0.569  Sum_probs=215.1

Q ss_pred             CcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchh
Q psy5094           4 TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIA   83 (251)
Q Consensus         4 ~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~   83 (251)
                      ++++||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.++++.  ++.+||++|++|++|+++|..+
T Consensus         1 ~~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~--~~~~Ki~~i~~~i~~~~aG~~a   78 (233)
T 1ryp_F            1 FRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAP   78 (233)
T ss_dssp             CHHHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHH
T ss_pred             CCCcccCCCccCCCCCeehHHHHHHHHHHcCCCEEEEEcCCEEEEEEEeccccccc--cccCcEEEEcCCEEEEEEechH
Confidence            46789999999999999999999999999999999999999999999999998864  4779999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceee
Q psy5094          84 DSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~  163 (251)
                      |++.+.++++.+++.|++.+++++|++.+++.+++++|.|+|+.+.    |||+|++||||||++||+||++||.|++.+
T Consensus        79 D~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~----rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~  154 (233)
T 1ryp_F           79 DARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGG----RPYGVGLLIIGYDKSGAHLLEFQPSGNVTE  154 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTC----CCCCEEEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCC----cCcceEEEEEEEeCCcCEEEEECCCCCeee
Confidence            9999999999999999999999999999999999999999987665    899999999999998999999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcC--CC--CHHHHHHHHHHHHHHHhhhc-CCCCcEEEEEEEcCCCEEEcCHHHHHHH
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHE--SM--TLKEAINHVLTILKQVMEEK-LNSTNVELCTVTADKMYHLYSKEELEEE  236 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~--~~--s~~ea~~l~~~~l~~~~~~d-~~~~~i~i~~i~~~~~~~~~~~~ei~~~  236 (251)
                      ++++|+|+|++.++++||+.|++  +|  |++||+++++++|..+.+++ .++.+++|++|++++++++++++||+++
T Consensus       155 ~~~~aiG~gs~~a~~~Le~~~~~~~~m~~s~eea~~~a~~al~~~~~d~~~s~~~i~v~vi~~~~~~~~l~~~ei~~~  232 (233)
T 1ryp_F          155 LYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKY  232 (233)
T ss_dssp             ESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGGGG
T ss_pred             eeEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEECCCCEEECCHHHHHhh
Confidence            99999999999999999999999  99  99999999999999998332 4788999999999978999999999765

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

Probab=100.00  E-value=1.1e-60  Score=405.43  Aligned_cols=234  Identities=57%  Similarity=0.887  Sum_probs=221.3

Q ss_pred             CCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHHH
Q psy5094           9 DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRIL   88 (251)
Q Consensus         9 d~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l   88 (251)
                      |+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.+++++..++.+||++|++|++|+++|..+|++.+
T Consensus         1 d~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l   80 (242)
T 1ryp_E            1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARSM   80 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHHH
T ss_pred             CCCCceECCCCcChHHHhHHHHHHcCCCEEEEEECCEEEEEEeecCCCcCccCccCCceEEEcCCEEEEEeecHHHHHHH
Confidence            78999999999999999999999999999999999999999999999987668889999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCcccc--ccccCCcceeeEEEEEc-CCCCeEEEECCCCceeecC
Q psy5094          89 TDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE--SAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQFD  165 (251)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~--~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~~~~~  165 (251)
                      .++++.+++.|++.++++++++.+++.+++++|.|+++.+.  ++|.|||++++|||||| ++||+||.+||.|++.+++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~~~~l~~RP~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~  160 (242)
T 1ryp_E           81 IEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYN  160 (242)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccccccCcceEEEEEEEEeCCCCCEEEEECCCCCEeccC
Confidence            99999999999999999999999999999999999988761  22349999999999999 7789999999999999999


Q ss_pred             EEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhcc
Q psy5094         166 AKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       166 ~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~  242 (251)
                      ++++|+|+..++++||+.|+++||++||++++++||..+.++..++.+++|++|++++.+++++++||+++++.+++
T Consensus       161 ~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~ei~~~~~~~~~  237 (242)
T 1ryp_E          161 AKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELKE  237 (242)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHHHHHHHHHHH
T ss_pred             EEEECCCCHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCeEECCHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999998866788999999999977999999999999988864

>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-60  Score=410.62  Aligned_cols=232  Identities=34%  Similarity=0.568  Sum_probs=213.6

Q ss_pred             CCCCcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEecc
Q psy5094           1 MFLTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASG   80 (251)
Q Consensus         1 ~~~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG   80 (251)
                      |-.+.++||+++|+|||+|||+|||||++|+++|+|+|||+++||||||+|+|.+++++..+..+||++|++|++|+++|
T Consensus         1 m~~~~~~yd~~~t~fSP~Grl~QvEYA~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~~~~KI~~I~d~i~~~~aG   80 (288)
T 3nzj_F            1 MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSG   80 (288)
T ss_dssp             ----CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCTTCSCCCEEETTTEEEEEEE
T ss_pred             CCCCcCCccCCcccCCCCCchHHHHHHHHHHhcCCcEEEEEECCEEEEEEcCCcccCCccccccceEEEEcCCEEEEecC
Confidence            66788999999999999999999999999999999999999999999999999999877666789999999999999999


Q ss_pred             chhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCc
Q psy5094          81 LIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGT  160 (251)
Q Consensus        81 ~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~  160 (251)
                      +.+|++.|+++++.+++.|++.++++++++.++++|++++|.|+++.+.    |||+|++||||||++||+||++||.|+
T Consensus        81 ~~aD~~~l~~~lr~e~~~y~~~~~~~i~v~~lA~~l~~~l~~yt~~~~~----rP~gv~~lvaG~D~~Gp~Ly~iDp~G~  156 (288)
T 3nzj_F           81 LIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSV----RPFGVSTIFGGVDKNGAHLYMLEPSGS  156 (288)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTB----CCCCEEEEEEEEETTEEEEEEECTTSC
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHhccC----CCceEEEEEEEEeCCCCEEEEECCCCC
Confidence            9999999999999999999999999999999999999999999997655    999999999999999999999999999


Q ss_pred             eeecCEEEeCCCchhHHHHHHhh---hcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEc--CCC-EEEcCHHHH
Q psy5094         161 YTQFDAKAIGSGSEGAQQSLQEV---YHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTA--DKM-YHLYSKEEL  233 (251)
Q Consensus       161 ~~~~~~~a~G~g~~~~~~~Le~~---~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~--~~~-~~~~~~~ei  233 (251)
                      +.+++++++|+|++.++++|++.   |+++||++||++++++||..+.+++. ++.+++|++|++  +++ +++++.+++
T Consensus       157 ~~~~~~~aiGsgs~~a~~~Lek~~~~~~~~ms~eEAv~la~~al~~a~~~~~~~~~~iev~vIt~~~~~~~~~~vp~~~~  236 (288)
T 3nzj_F          157 YWGYKGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLL  236 (288)
T ss_dssp             EEEBSEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSEEEEEEEEEETTTSTTCCEECCHHHH
T ss_pred             EEEcCEEEEcCcHHHHHHHHHHhccccCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEecCCCceEEECCHHHH
Confidence            99999999999999999999999   99999999999999999999999875 566899999999  344 456666665


Q ss_pred             HHH
Q psy5094         234 EEE  236 (251)
Q Consensus       234 ~~~  236 (251)
                      ++.
T Consensus       237 ~~~  239 (288)
T 3nzj_F          237 QEA  239 (288)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=5.9e-60  Score=402.68  Aligned_cols=231  Identities=32%  Similarity=0.550  Sum_probs=219.6

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      .++||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|+|.+.+++..++.+||++|++|++|+++|..+|
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD   81 (250)
T 1ryp_B            2 TDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPD   81 (250)
T ss_dssp             CCCCCSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHH
T ss_pred             CCcccCCceeECCCCccHHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCCccccCcccCceEEECCCEEEEeeeCHHH
Confidence            35999999999999999999999999999999999999999999999999877887889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHH-HHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCcee
Q psy5094          85 SRILTDRARVECAN-HWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYT  162 (251)
Q Consensus        85 ~~~l~~~~~~~~~~-~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~  162 (251)
                      ++.+.++++.+++. |++.++.+++++.+++.+++++++++++.+.    |||++++||||||+ +||+||.+||.|++.
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~----rp~~v~~lvaG~D~~~gp~Ly~idp~G~~~  157 (250)
T 1ryp_B           82 YRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGV----RPFGVSLLIAGHDEFNGFSLYQVDPSGSYF  157 (250)
T ss_dssp             HHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTB----CCCCEEEEEEEEETTTEEEEEEECTTSCEE
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCc----ccceEEEEEEEEcCCCCcEEEEECCCCCEE
Confidence            99999999999999 9999999999999999999999999987655    99999999999996 689999999999999


Q ss_pred             ecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcC---------------CCEEE
Q psy5094         163 QFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD---------------KMYHL  227 (251)
Q Consensus       163 ~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~---------------~~~~~  227 (251)
                      +++++|+|+|+..++++||+.|+++||++||++++++||..+.+++.++++++|++|+++               .+|++
T Consensus       158 ~~~~~aiGsgs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~sg~~i~v~vi~~~~~~~~~~~~~~~~~~~~~~~  237 (250)
T 1ryp_B          158 PWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRK  237 (250)
T ss_dssp             EBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEE
T ss_pred             eeceeEecCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHhccccCCCCEEEEEEEccccccccccccccCCCCCeEE
Confidence            999999999999999999999999999999999999999999988778889999999986               23999


Q ss_pred             cCHHHHHHHHHh
Q psy5094         228 YSKEELEEELSK  239 (251)
Q Consensus       228 ~~~~ei~~~~~~  239 (251)
                      ++++||+++++.
T Consensus       238 l~~~ei~~~l~~  249 (250)
T 1ryp_B          238 LTSQEINDRLEA  249 (250)
T ss_dssp             CCHHHHHHHHTT
T ss_pred             CCHHHHHHHHHh
Confidence            999999999865

>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=3.1e-59  Score=396.80  Aligned_cols=232  Identities=35%  Similarity=0.586  Sum_probs=215.4

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      .++||+++|+|||+|||+|||||.+|+++|+|+|||+++||||||+|+|.+++++..+..+||++|++|++|+++|..+|
T Consensus         1 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~~~i~~~~aG~~aD   80 (244)
T 1ryp_G            1 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPD   80 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHH
T ss_pred             CCCccCCcccCCcCCchHHHHhHHHHHHCCCCEEEEEECCEEEEEEecccCCCCccccccCceEEecCCEEEEEcccHHH
Confidence            36899999999999999999999999999999999999999999999999998766556699999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeec
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQF  164 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~  164 (251)
                      ++.+.++++.+++.|+++++++++++.+++++++++|.|+++++.    |||++++||||||++||+||.+||.|++.++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~----rp~~v~~lvaG~D~~gp~Ly~idp~G~~~~~  156 (244)
T 1ryp_G           81 GRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSV----RPFGVSTIFGGVDKNGAHLYMLEPSGSYWGY  156 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTB----CCCCEEEEEEEEETTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCc----cCceEEEEEEEEeCCcCEEEEECCCCCEEEe
Confidence            999999999999999999999999999999999999999998655    9999999999999889999999999999999


Q ss_pred             CEEEeCCCchhHHHHHHhh---hcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEc-C-CCEEEcCHHHHHHHHH
Q psy5094         165 DAKAIGSGSEGAQQSLQEV---YHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTA-D-KMYHLYSKEELEEELS  238 (251)
Q Consensus       165 ~~~a~G~g~~~~~~~Le~~---~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~-~-~~~~~~~~~ei~~~~~  238 (251)
                      +++++|+|++.++++||+.   |+++||++||++++++||..+.+++. ++.+++|++|++ + .+++++.++++.+..+
T Consensus       157 ~~~aiG~gs~~a~~~Le~~~~~~~~~ms~eea~~la~~al~~~~~~d~~s~~~iev~vi~~~~~~g~~~~~~~~~~~~~~  236 (244)
T 1ryp_G          157 KGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAI  236 (244)
T ss_dssp             SEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHH
T ss_pred             eEEEECCChHHHHHHHHHhHhhcCCCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEEecCCCCeeeeChHHHHHHHH
Confidence            9999999999999999997   99999999999999999999999987 567899999997 1 2567777777766555


Q ss_pred             hh
Q psy5094         239 KV  240 (251)
Q Consensus       239 ~~  240 (251)
                      +.
T Consensus       237 ~~  238 (244)
T 1ryp_G          237 DF  238 (244)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A

Probab=100.00  E-value=1.3e-51  Score=352.51  Aligned_cols=218  Identities=20%  Similarity=0.348  Sum_probs=196.3

Q ss_pred             CceeCCCCcch-hhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHHHHH
Q psy5094          12 VNTFSPEGRLF-QVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTD   90 (251)
Q Consensus        12 ~~~fsp~G~l~-q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~   90 (251)
                      +.-|||+|++. |||||.+++++|+|+|||+++||||||+|+|       +++.+||++|++|++|+++|..+|++.|++
T Consensus         4 p~~~sPe~~~~~qvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r-------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~   76 (259)
T 1q5q_A            4 PYYASAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP-------STALHKVSELYDRLGFAAVGKYNEFENLRR   76 (259)
T ss_dssp             -----CHHHHHHHHHHHHHHHHTSCCEEEEECSSEEEEEECCS-------CSSSCSEEEEETTEEEEEEECHHHHHHHHH
T ss_pred             CcccCHHHHHHHHHHHHHHHHhcCCcEEEEEeCCEEEEEEecC-------CCCcCcEEEeCCCEEEEEccCHHHHHHHHH
Confidence            45789999995 9999999999999999999999999999999       467899999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhC-CCCCHHHHHHHHHH-HHHHhcCccccccccCCcceeeEEEEEc----CCCCeEEEECCCCcee-e
Q psy5094          91 RARVECANHWFTYD-EKMDIESVAQAVSN-LAIQFGDSDEESAMSRPFGVAMLFAGLD----SKGPQLFHLDPSGTYT-Q  163 (251)
Q Consensus        91 ~~~~~~~~~~~~~~-~~i~~~~l~~~ls~-~~~~~~~~~~~~~~~rP~~~~~lv~G~d----~~gp~Ly~id~~G~~~-~  163 (251)
                      +++.+++.|++.++ ++++++.+++.+++ +.|.|+.  +    .|||+|++||||||    .+||+||++||+|++. +
T Consensus        77 ~~~~~~~~~~~~~~~~~i~v~~la~~l~~~l~q~yt~--~----~rP~~v~~lvaG~D~~~~~~gp~Ly~idp~G~~~~~  150 (259)
T 1q5q_A           77 AGIVHADMRGYSYDRRDVTGRSLANAYAQTLGTIFTE--Q----PKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDE  150 (259)
T ss_dssp             HHHHHHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHH--S----SSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEE
T ss_pred             HHHHHHHHHHHHcCCcCCCHHHHHHHHHHHHHHHhcc--C----CCCceEEEEEEEEcccCCCCCCEEEEECCCCceeeC
Confidence            99999999999988 49999999999999 6666763  2    39999999999999    7889999999999999 7


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHh-----hhcCCCCcEEEEEEEcCC---CEEEcCHHHHHH
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVM-----EEKLNSTNVELCTVTADK---MYHLYSKEELEE  235 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~-----~~d~~~~~i~i~~i~~~~---~~~~~~~~ei~~  235 (251)
                      ++++++|+|+..++++|++.|+++|+++||++++++||..+.     ++|+++.+++|++|++++   +|++++++||++
T Consensus       151 ~~~~aiG~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~~~~~rd~sg~~iev~vi~~~~~~~~~~~l~~~ei~~  230 (259)
T 1q5q_A          151 QHFVVMGGTTEPIATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQ  230 (259)
T ss_dssp             SSEEEESSSHHHHHHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHT
T ss_pred             CCEEEECCChHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHhhcccccccCCCCcEEEEEEECCCCcCCeEECCHHHHHH
Confidence            899999999999999999999999999999999999999998     788877889999999996   799999999999


Q ss_pred             HHHhhcc
Q psy5094         236 ELSKVSS  242 (251)
Q Consensus       236 ~~~~~~~  242 (251)
                      ++..+.+
T Consensus       231 ~~~~~~~  237 (259)
T 1q5q_A          231 LVPAEPA  237 (259)
T ss_dssp             TSCCC--
T ss_pred             HHHHhhh
Confidence            9887764

>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=8.3e-50  Score=338.64  Aligned_cols=214  Identities=21%  Similarity=0.363  Sum_probs=191.7

Q ss_pred             CCCCcch-hhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHH
Q psy5094          16 SPEGRLF-QVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV   94 (251)
Q Consensus        16 sp~G~l~-q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~   94 (251)
                      ||+.-+. ++|||.+|+++|+|+|||+++||||||+|+|       .++.+||++|++|++|+++|..+|++.|.+.++.
T Consensus         8 ~p~~~~~~r~EYA~~av~~GtT~vgi~~kdgVVlaadkr-------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~~~~   80 (248)
T 3mi0_A            8 SPEQAMRERSELARKGIARAKSVVALAYAGGVLFVAENP-------SRSLQKISELYDRVGFAAAGKFNEFDNLRRGGIQ   80 (248)
T ss_dssp             CHHHHHHHHHHHHHHHHHTSCCEEEEEETTEEEEEEECC-------CSSSCSEEEEETTEEEEEEECHHHHHHHHHHHHH
T ss_pred             CHHHhcccchHHHHHHHhCCCcEEEEEeCCEEEEEEeCC-------CCCCCCeEEECCCEEEEEccCHHHHHHHHHHHHH
Confidence            5665554 7999999999999999999999999999999       4688999999999999999999999999999999


Q ss_pred             HHHHHHhhhC-CCCCHHHHHHHHH-HHHHHhcCccccccccCCcceeeEEEEEcC----CCCeEEEECCCCceee-cCEE
Q psy5094          95 ECANHWFTYD-EKMDIESVAQAVS-NLAIQFGDSDEESAMSRPFGVAMLFAGLDS----KGPQLFHLDPSGTYTQ-FDAK  167 (251)
Q Consensus        95 ~~~~~~~~~~-~~i~~~~l~~~ls-~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~----~gp~Ly~id~~G~~~~-~~~~  167 (251)
                      +++.|++.++ .+++++.++++++ .+.|.|++  +    .|||+|++||||||+    +||+||++||+|++.+ ++++
T Consensus        81 ~~~l~~~~~~~~~i~v~~la~~l~~~l~q~yt~--~----~rP~gv~~liaG~D~~~~~~gp~Ly~~Dp~G~~~~e~~~~  154 (248)
T 3mi0_A           81 FADTRGYAYDRRDVTGRQLANVYAQTLGTIFTE--Q----AKPYEVELCVAEVAHYGETKRPELYRITYDGSIADEPHFV  154 (248)
T ss_dssp             HHHHHHHHSCGGGCCHHHHHHHHHHHHHHHHHH--S----SSCCCEEEEEEECCCTTCCCCCEEEEECTTSCEEEESSEE
T ss_pred             HHHHHHHhcCCCCCCHHHHHHHHHHHHHHHhcc--C----CCCceEEEEEEEEcCCCCCCCCEEEEECCCeEEeecccEE
Confidence            9999999999 8999999999999 67788886  2    299999999999998    7899999999999995 9999


Q ss_pred             EeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHh-------hhcCCCCcEEEEEEEcCCC---EEEcCHHHHHHHH
Q psy5094         168 AIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVM-------EEKLNSTNVELCTVTADKM---YHLYSKEELEEEL  237 (251)
Q Consensus       168 a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~-------~~d~~~~~i~i~~i~~~~~---~~~~~~~ei~~~~  237 (251)
                      |+|+|++.++++||+.|+++|+++||++++++||+.+.       ++++++++++|++|++++.   |++++++||++++
T Consensus       155 a~Gsgs~~a~~~Le~~y~~~mt~eeai~la~~aL~~~~~~~~~~~~~~~~~~~iev~vv~~~g~~~~f~~l~~~ei~~~l  234 (248)
T 3mi0_A          155 VMGGTTEPIANALKESYAENASLTDALRIAVAALRAGSADTSGGDQPTLGVASLEVAVLDANRPRRAFRRITGSALQALL  234 (248)
T ss_dssp             EESSCHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHC------------CCTTEEEEEEETTSSSCCEEECCHHHHHHTC
T ss_pred             EECccHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhcccCcccccCCCcEEEEEEECCCCcccEEECCHHHHHHHH
Confidence            99999999999999999999999999999999999998       6678889999999999953   9999999999999


Q ss_pred             Hhhcc
Q psy5094         238 SKVSS  242 (251)
Q Consensus       238 ~~~~~  242 (251)
                      .++..
T Consensus       235 ~~~~~  239 (248)
T 3mi0_A          235 VDQES  239 (248)
T ss_dssp             -----
T ss_pred             HHcCC
Confidence            87653

>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=1.5e-47  Score=319.68  Aligned_cols=206  Identities=25%  Similarity=0.426  Sum_probs=189.9

Q ss_pred             HHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCC
Q psy5094          29 EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKM  107 (251)
Q Consensus        29 ~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i  107 (251)
                      +++++|+|+|||+++||||||+|+|.++ +++.+++.+||++|+++++|+++|..+|++.+.++++.+++.|++++++++
T Consensus         3 ~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T 1yar_H            3 QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKAELELYRLQRRVNM   82 (217)
T ss_dssp             ------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCC
T ss_pred             CCCCCCccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCC
Confidence            4678999999999999999999999998 577788999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCC
Q psy5094         108 DIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES  187 (251)
Q Consensus       108 ~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~  187 (251)
                      |++.+++.+++.+|.++        .|||++++|||||| +||+||.+||.|++.+++++|+|+|++.++++||+.|+++
T Consensus        83 ~v~~la~~l~~~~~~~r--------~rp~~v~~lvaG~D-~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~  153 (217)
T 1yar_H           83 PIEAVATLLSNMLNQVK--------YMPYMVQLLVGGID-TAPHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEK  153 (217)
T ss_dssp             CHHHHHHHHHHHHHHTT--------TSCCCEEEEEEEES-SSEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTT
T ss_pred             CHHHHHHHHHHHHHhcC--------CCCceEEEEEEEEC-CCCEEEEECCCCCeEecCEEEEcCCHHHHHHHHHhhcccC
Confidence            99999999999998753        28999999999999 8999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccC
Q psy5094         188 MTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSSI  243 (251)
Q Consensus       188 ~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~  243 (251)
                      ||++||++++++||..+.++|. ++++++|++|+++.++++++++||+++++.++-.
T Consensus       154 ~s~eea~~la~~al~~~~~rd~~s~~~i~v~vi~~~~g~~~~~~~ei~~~~~~~~~~  210 (217)
T 1yar_H          154 MTVDEGVDLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKLGLI  210 (217)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHHTCC
T ss_pred             CCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCCEEEcCHHHHHHHHHHHHHH
Confidence            9999999999999999999986 6778999999995589999999999999988743

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

Probab=100.00  E-value=2.6e-47  Score=318.55  Aligned_cols=201  Identities=26%  Similarity=0.377  Sum_probs=189.5

Q ss_pred             CCcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5094          34 GSTAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESV  112 (251)
Q Consensus        34 G~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  112 (251)
                      |+|+|||+++||||||+|+|.+++ ++..++.+||++|++|++|+++|..+|++.++++++.+++.|++.++++++++.+
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            799999999999999999999985 6668899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecC-EEEeCCCchhHHHHHHhhhcCCCCH
Q psy5094         113 AQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFD-AKAIGSGSEGAQQSLQEVYHESMTL  190 (251)
Q Consensus       113 ~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~-~~a~G~g~~~~~~~Le~~~~~~~s~  190 (251)
                      ++++++++|.++.        |||++++||||||+ +||+||.+||.|++.+++ ++++|+|++.++++||+.|+++|++
T Consensus        81 a~~l~~~~~~~~~--------~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~~ms~  152 (219)
T 3h4p_a           81 ATLLSNILHSSRM--------FPFLTQIIIGGYDLLEGAKLFSLDPLGGMNEEKTFTATGSGSPIAYGVLEAGYDRDMSV  152 (219)
T ss_dssp             HHHHHHHHHHTTT--------TTCCCCCEEEEEETTTEEEEEEECSSCCEEECSSEEEESTTHHHHHHHHHTSCCTTCCH
T ss_pred             HHHHHHHHHHhcC--------CCceEEEEEEEEeCCCCcEEEEECCCCceEecCCEEEEcCCHHHHHHHHHHhcCCCCCH
Confidence            9999999988732        89999999999997 789999999999999999 9999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccC
Q psy5094         191 KEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSSI  243 (251)
Q Consensus       191 ~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~  243 (251)
                      +||++++++||..+.++|. ++++++|++|+++ ++++++++||++++..++..
T Consensus       153 eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~-g~~~l~~~ei~~~l~~~~~~  205 (219)
T 3h4p_a          153 EEGIKLALNALKSAMERDTFSGNGISLAVITKD-GVKIFEDEEIEKILDSMKAK  205 (219)
T ss_dssp             HHHHHHHHHHHHHHHTSCSSCCSCCCEEEEETT-EEEECCHHHHHHHHHHCC--
T ss_pred             HHHHHHHHHHHHHHHhhcCCCCCcEEEEEEeCC-CeEEcCHHHHHHHHHHhhcc
Confidence            9999999999999999986 6678999999998 79999999999999999843

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

Probab=100.00  E-value=1.4e-46  Score=310.48  Aligned_cols=198  Identities=26%  Similarity=0.441  Sum_probs=188.4

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.++ +++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++++++++|++.++
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            6899999999999999999998 577788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecC-EEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFD-AKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~-~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +.+++++|.++        .|||++++||||||++||+||.+||.|++.+++ ++|+|+|+++++++||+.|+++||++|
T Consensus        81 ~~l~~~~~~~r--------~rp~~~~~lvaG~D~~gp~Ly~id~~G~~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~ee  152 (202)
T 1j2q_H           81 TLTSNLLNSYR--------YFPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDE  152 (202)
T ss_dssp             HHHHHHHHHTT--------TSCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHhhC--------CCCceEEEEEEEEeCCCCEEEEECCCCCeeecCCEEEEcCCHHHHHHHHHhhcCCCcCHHH
Confidence            99999998753        289999999999999899999999999999999 999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhc
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVS  241 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~  241 (251)
                      |++++++||..+.++|. ++++++|++|+++ ++++++++|++++++.++
T Consensus       153 a~~la~~al~~~~~~d~~s~~~i~v~vi~~~-g~~~l~~~ei~~~~~~~~  201 (202)
T 1j2q_H          153 AVELAVRAIYSAMKRDSASGDGIDVVKITED-EFYQYSPEEVEQILAKFR  201 (202)
T ss_dssp             HHHHHHHHHHHHHTTCTTSCSCEEEEEECSS-CEEECHHHHHHHHGGGTT
T ss_pred             HHHHHHHHHHHHHhcCCCCCCcEEEEEEeCC-CeEEeCHHHHHHHHHHhh
Confidence            99999999999999986 6778999999998 799999999999998775

>3nzj_K Proteasome component PRE2; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_K* 3nzx_K* 4b4t_5

Probab=100.00  E-value=8.8e-47  Score=326.07  Aligned_cols=218  Identities=21%  Similarity=0.320  Sum_probs=189.6

Q ss_pred             CCCCcchhh------hhHHHHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHH
Q psy5094          16 SPEGRLFQV------EYAIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRIL   88 (251)
Q Consensus        16 sp~G~l~q~------eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l   88 (251)
                      ||+.-+.+.      .++..++++|+|+|||+++||||||+|+|.++ .++..++.+||++|+++++|+++|..+|++.+
T Consensus        51 ~p~~~~~~~~~~~~~~~~~~~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~l  130 (287)
T 3nzj_K           51 SPQQFLRAHTDDSRNPDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFW  130 (287)
T ss_dssp             -------------------------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHHH
T ss_pred             CHHHHHHHhcccccccchhhheccCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHHH
Confidence            455555433      26788999999999999999999999999998 56778899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEc-CCCCeEEEECCCCceeecCEE
Q psy5094          89 TDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQFDAK  167 (251)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~~~~~~~  167 (251)
                      .++++.+++.|+++++++++++.+++++++++|.|++        +||++++|||||| ++||+||.+||.|++.+++++
T Consensus       131 ~~~lr~~~~~y~~~~~~~isv~~la~~ls~~l~~~r~--------~p~~v~~lvaG~D~~~gp~Ly~iDp~G~~~~~~~~  202 (287)
T 3nzj_K          131 ETWLGSQCRLHELREKERISVAAASKILSNLVYQYKG--------AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIF  202 (287)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTT--------SCCCEEEEEEEEETTTEEEEEEEETTCCEEECSEE
T ss_pred             HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhhcC--------CCceEEEEEEEEcCCCCCEEEEECCCceEEEcCeE
Confidence            9999999999999999999999999999999998876        6999999999999 678999999999999999999


Q ss_pred             EeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhcc
Q psy5094         168 AIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       168 a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~  242 (251)
                      |+|+|+..++++||+.|+++||++||++++++||..+.++|. ++++++|++|+++ ++++++++||++++.++++
T Consensus       203 AiGsgs~~a~~~Le~~y~~dms~eEAi~la~~aL~~a~~rD~~sg~~i~V~vItkd-g~~~l~~~ev~~~l~~~~e  277 (287)
T 3nzj_K          203 CVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGGSVNLYHVTED-GWIYHGNHDVGELFWKVKE  277 (287)
T ss_dssp             EESTTHHHHHHHHHTSCCTTCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETT-EEEEEEEEEHHHHHHHHHH
T ss_pred             EEecchHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHhhCcCCCCceEEEEEeCC-CEEEeCHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999997 6678999999998 7999999999998777764

>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=3.4e-46  Score=323.21  Aligned_cols=232  Identities=15%  Similarity=0.144  Sum_probs=174.5

Q ss_pred             cCCCCCCCceeCCCCcc-----hh--hhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEE
Q psy5094           5 RSEYDRGVNTFSPEGRL-----FQ--VEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGC   76 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l-----~q--~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~   76 (251)
                      .++|+......+|+.--     +|  +|||++ +++|+|+|||+++||||||+|+|.+++ ++.+++.+||++|++|++|
T Consensus        22 ~~~f~~~~~~~~~~~l~~~~~~~~~~~~ya~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~  100 (291)
T 2jay_A           22 LSSFTDFLRRQAPELLPASISGGAPLAGGDAQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTAT  100 (291)
T ss_dssp             -------------------------------------CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEE
T ss_pred             CccHHHHhhhcChhhccccccccCcCcccccc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEE
Confidence            35677777788777432     22  699999 999999999999999999999999985 6668899999999999999


Q ss_pred             EeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-C-----C
Q psy5094          77 AASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-G-----P  150 (251)
Q Consensus        77 ~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-g-----p  150 (251)
                      +++|..+|++.+.++++.+++.|++.++++++++.+++.+++++|.+++ ..+    |||+|++||||||++ +     |
T Consensus       101 ~~aG~~aD~~~l~~~lr~~~~~y~~~~~~~i~v~~la~~la~~l~~~~~-~~~----rpf~v~~lvaG~D~~g~~~~~~p  175 (291)
T 2jay_A          101 GIAGTAAVAVEFARLYAVELEHYEKLEGVPLTFAGKINRLAIMVRGNLA-AAM----QGLLALPLLAGYDIHASDPQSAG  175 (291)
T ss_dssp             EEESCHHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHTCHH-HHH----HTCCCEEEEEEECTTCSCSTTCE
T ss_pred             EEcccHHHHHHHHHHHHHHHHHhhhhcCCCCCHHHHHHHHHHHHHHhhh-hhc----cccceeEEEEEEeCCCCcCCCCC
Confidence            9999999999999999999999999999999999999999999988754 233    899999999999975 4     8


Q ss_pred             eEEEECCCCcee--ecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcE--------EEEEEE
Q psy5094         151 QLFHLDPSGTYT--QFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNV--------ELCTVT  220 (251)
Q Consensus       151 ~Ly~id~~G~~~--~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i--------~i~~i~  220 (251)
                      +||++||+|++.  +++++++|+|+.+++++|++.|+++|+++||++++++||+.+.++|...+++        +|++|+
T Consensus       176 ~Ly~iDp~G~~~e~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eEAi~la~~aL~~a~~~D~~sg~~e~vr~~~~~v~vi~  255 (291)
T 2jay_A          176 RIVSFDAAGGWNIEEEGYQAVGSGSLFAKSSMKKLYSQVTDGDSGLRVAVEALYDAADDDSATGGPDLVRGIFPTAVIID  255 (291)
T ss_dssp             EEEEECTTSCEEECSSSEEEESTTHHHHHHHHHHHGGGCCSHHHHHHHHHHHHHHC----------------CCEEEEEE
T ss_pred             EEEEECCCCcEEecCCCEEEEecCHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHhhCCCCCCcccccccCCEEEEEE
Confidence            999999999999  8999999999999999999999999999999999999999999998865555        699999


Q ss_pred             cCCCEEEcCHHHHHHHHHhhccC
Q psy5094         221 ADKMYHLYSKEELEEELSKVSSI  243 (251)
Q Consensus       221 ~~~~~~~~~~~ei~~~~~~~~~~  243 (251)
                      ++ ++++++++||++++..+.+.
T Consensus       256 ~d-g~~~l~~~ei~~~~~~~~~~  277 (291)
T 2jay_A          256 AD-GAVDVPESRIAELARAIIES  277 (291)
T ss_dssp             TT-EEEECCHHHHHHHHHHC---
T ss_pred             CC-CeEEcCHHHHHHHHHHHHHh
Confidence            98 79999999999999988643

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

Probab=100.00  E-value=3.8e-46  Score=308.31  Aligned_cols=199  Identities=20%  Similarity=0.318  Sum_probs=189.8

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.++ +++..++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
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            6899999999999999999998 577788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      +.+++.+|.+++        +||++++||||||++||+||.+||+|++.+++++|+|+|++.++++||+.|+++||++||
T Consensus        81 ~~l~~~~~~~r~--------~~~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiG~gs~~a~~~Le~~~~~~~s~eea  152 (204)
T 1iru_L           81 KLLANMVYQYKG--------MGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQA  152 (204)
T ss_dssp             HHHHHHHHTTTT--------SCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHH
T ss_pred             HHHHHHHHHhCC--------CCeeEEEEEEEEeCCCCEEEEECCCCcEEEeCCEEEEcCHHHHHHHHhccCCCCCCHHHH
Confidence            999999988765        799999999999998999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhcc
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~  242 (251)
                      ++++++||..+.++|. ++++++|++|+++ ++++++++|+++++.+++.
T Consensus       153 ~~l~~~al~~~~~rd~~s~~~i~v~vi~~~-g~~~l~~~ei~~~~~~~~~  201 (204)
T 1iru_L          153 YDLARRAIYQATYRDAYSGGAVNLYHVRED-GWIRVSSDNVADLHEKYSG  201 (204)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSEEEEEEECSS-CEEEEEEEEHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhCccCCCceEEEEEeCC-ceEEeCHHHHHHHHHHhcc
Confidence            9999999999999986 7789999999997 7999999999999998854

>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=6.6e-46  Score=308.67  Aligned_cols=204  Identities=20%  Similarity=0.324  Sum_probs=192.5

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.++ +++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
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            6899999999999999999998 577788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEc-CCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d-~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +++++++|.|++        .||++++|||||| ++||+||.+||.|++.+++++|+|+|+.+++++||+.|+++||++|
T Consensus        81 ~~l~~~~~~~~~--------~p~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~ee  152 (212)
T 1ryp_L           81 KILSNLVYQYKG--------AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVED  152 (212)
T ss_dssp             HHHHHHHHHTTT--------SCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHhhCC--------CCceEEEEEEEEeCCCCCEEEEEcCCceeEecCCEEEcCCHHHHHHHHHhhCCCCCCHHH
Confidence            999999999887        6999999999999 6689999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccCCCCC
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSSIHDPT  247 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~~~~~  247 (251)
                      |++++++||..+.++|. ++++++|++|+++ ++++++++|+++++.+++++.++.
T Consensus       153 a~~la~~al~~~~~rd~~s~~~i~v~vi~~~-g~~~~~~~ei~~~~~~~~~~~~~~  207 (212)
T 1ryp_L          153 ALYLGKRSILAAAHRDAYSGGSVNLYHVTED-GWIYHGNHDVGELFWKVKEEEGSF  207 (212)
T ss_dssp             HHHHHHHHHHHHHHHBTTCCSEEEEEEEETT-EEEEEEEEEHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHHHHHhccccCCceEEEEEcCC-ceEEECHHHHHHHHHHHHHhhhhh
Confidence            99999999999999986 6788999999987 799999999999988887665543

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

Probab=100.00  E-value=1.2e-45  Score=320.08  Aligned_cols=211  Identities=17%  Similarity=0.178  Sum_probs=195.5

Q ss_pred             HHHHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCC
Q psy5094          27 AIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDE  105 (251)
Q Consensus        27 a~~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~  105 (251)
                      |.+|+++|+|+|||+++||||||+|+|.++ +++..++.+||++|+++++|+++|..+|++.++++++.+++.|++.+++
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            889999999999999999999999999998 6777889999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-C-----CeEEEECCCCceeec--CEEEeCCCchhHH
Q psy5094         106 KMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-G-----PQLFHLDPSGTYTQF--DAKAIGSGSEGAQ  177 (251)
Q Consensus       106 ~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-g-----p~Ly~id~~G~~~~~--~~~a~G~g~~~~~  177 (251)
                      +++++.+++.|++++|.++++. +    |||+|++||||||++ |     |+||++||+|++.++  +++++|+|+.+++
T Consensus       138 ~isv~~la~~la~~l~~~~~~~-~----rp~~v~lLvaG~D~~~g~~~~~p~Ly~iDp~G~~~e~~~~~~AiGsgs~~a~  212 (294)
T 1q5r_H          138 PLTFDGKANRLASMVRGNLGAA-M----QGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAK  212 (294)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHHH-T----TTTCEEEEEEEECTTCSCTTSCEEEEEECSSSCEEECCSSEEEESTTHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhh-c----CCcceEEEEEEEeCCCCcCCCCCEEEEECCCCeEEecCCCeEEEecCcHHHH
Confidence            9999999999999999887643 3    999999999999965 6     899999999999998  9999999999999


Q ss_pred             HHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCC-C--cE-----EEEEEEcCCCEEEcCHHHHHHHHHhhccC
Q psy5094         178 QSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T--NV-----ELCTVTADKMYHLYSKEELEEELSKVSSI  243 (251)
Q Consensus       178 ~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~-~--~i-----~i~~i~~~~~~~~~~~~ei~~~~~~~~~~  243 (251)
                      ++||+.|+++|+++||++++++||..+.++|... +  ++     +|++|+++ ++++++++|+++++..+.+.
T Consensus       213 ~~Le~~y~~~ms~eEAi~la~~aL~~a~~rD~~sG~~~~ir~i~~ev~vI~~~-g~~~l~~~ei~~~l~~i~~~  285 (294)
T 1q5r_H          213 SALKKIYSPDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQA-GAVHVSEETTSELARRIVAE  285 (294)
T ss_dssp             HHHHHHCCSSCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETT-EEEECCHHHHHHHHHHHCC-
T ss_pred             HHHHHhccCCCCHHHHHHHHHHHHHHHHhhccccCCchhhcccCCEEEEEECC-CEEEcCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999998743 2  25     99999987 79999999999999998755

>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=1e-46  Score=314.97  Aligned_cols=209  Identities=18%  Similarity=0.170  Sum_probs=193.1

Q ss_pred             HHHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHh-hhCC
Q psy5094          28 IEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWF-TYDE  105 (251)
Q Consensus        28 ~~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-~~~~  105 (251)
                      ++++++|+|+|||+++||||||+|+|.++ .++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++ .+++
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (219)
T 1iru_N            2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGH   81 (219)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSC
T ss_pred             CCCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence            36789999999999999999999999998 566678999999999999999999999999999999999999998 9999


Q ss_pred             CCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc
Q psy5094         106 KMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH  185 (251)
Q Consensus       106 ~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~  185 (251)
                      +++++.+++.+++.++.  ++.+.    |||++++||||+|++||+||.+||.|++.+++++++|+|++.++++||+.|+
T Consensus        82 ~~~v~~la~~l~~~ly~--~r~~~----~P~~v~~lvaG~D~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~  155 (219)
T 1iru_N           82 SYSPRAIHSWLTRAMYS--RRSKM----NPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLE  155 (219)
T ss_dssp             CCCHHHHHHHHHHHHHH--HHHTT----CCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHH--hcccC----CCceEEEEEEEEECCCCEEEEECCCCCeEECCeEEECccHHHHHHHHHhhcC
Confidence            99999999999999964  33333    8999999999999889999999999999999999999999999999999999


Q ss_pred             C--CCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccCC
Q psy5094         186 E--SMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSSIH  244 (251)
Q Consensus       186 ~--~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~~  244 (251)
                      +  +||++||++++++||..+.++|. ++++++|++|+++ ++++++++||+..|. +.++.
T Consensus       156 ~~~~mt~eea~~l~~~al~~~~~~d~~sg~~i~v~vi~~~-g~~~~~~~~i~~~~~-~~~~~  215 (219)
T 1iru_N          156 KQPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEK-GVEIEGPLSTETNWD-IAHMI  215 (219)
T ss_dssp             SCSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETT-EEEEEEEECCCCCCG-GGGCS
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCC-CEEEcCCeeccchhh-HHHhh
Confidence            9  99999999999999999999986 6788999999998 699999999988873 55543

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

Probab=100.00  E-value=2.8e-46  Score=315.20  Aligned_cols=210  Identities=16%  Similarity=0.219  Sum_probs=193.5

Q ss_pred             HHHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHh-----
Q psy5094          28 IEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWF-----  101 (251)
Q Consensus        28 ~~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-----  101 (251)
                      ++++++|+|+|||+++||||||+|+|.++ .++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++     
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~   81 (233)
T 1ryp_N            2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLA   81 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTT
T ss_pred             cccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHhhccchh
Confidence            36789999999999999999999999998 566688999999999999999999999999999999999999999     


Q ss_pred             hhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-CCeEEEECCCCceeecCEEEeCCCchhHHHHH
Q psy5094         102 TYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL  180 (251)
Q Consensus       102 ~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L  180 (251)
                      .++++++++.+++++++.++.  ++.+.    |||++++||||||++ ||+||.+||.|++.+++++++|+|+.+++++|
T Consensus        82 ~~~~~~~v~~la~~l~~~ly~--~r~~~----~P~~v~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~L  155 (233)
T 1ryp_N           82 DAEEALEPSYIFEYLATVMYQ--RRSKM----NPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLL  155 (233)
T ss_dssp             TTTTSCCHHHHHHHHHHHHHH--HHHTT----CCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHH
T ss_pred             hcCCCCCHHHHHHHHHHHHHH--hcCCC----CCceEEEEEEEEcCCCCEEEEEECCCcCeEEcCEEEECcCHHHHHHHH
Confidence            899999999999999999954  43333    899999999999975 89999999999999999999999999999999


Q ss_pred             HhhhcC-----CCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHH-HHhhccCC
Q psy5094         181 QEVYHE-----SMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEE-LSKVSSIH  244 (251)
Q Consensus       181 e~~~~~-----~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~-~~~~~~~~  244 (251)
                      |+.|++     +||++||++++++||..+.++|. ++++++|++|++++++++++++||+++ | .+.++.
T Consensus       156 e~~~~~~~~~~~ms~eea~~la~~al~~~~~rd~~sg~~i~v~vi~~~~g~~~~~~~~i~~~~w-~~~~~~  225 (233)
T 1ryp_N          156 RKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKW-DFAKDI  225 (233)
T ss_dssp             TTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSCCC-GGGGGC
T ss_pred             HHhhccccccCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEECCCCeEEcChHhcccccc-hhhhhc
Confidence            999999     99999999999999999999997 677899999999867999999999998 8 355443

>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=3.1e-45  Score=303.10  Aligned_cols=196  Identities=20%  Similarity=0.300  Sum_probs=185.4

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.+++ ++..++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999996 77778899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +.+++++|.|+         +||++++|+||||+ +||+||.+||.|++.+++++++|+|++.++++||+.|+++||++|
T Consensus        81 ~~l~~~~~~~~---------~p~~~~~lvaG~D~~~gp~ly~~d~~G~~~~~~~~a~Gsgs~~a~~~Le~~~~~~~s~ee  151 (205)
T 1iru_H           81 SLFKEMCYRYR---------EDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEE  151 (205)
T ss_dssp             HHHHHHHHHTT---------TTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHhcC---------cCccEEEEEEEEeCCCCCEEEEECCCCcEEecCEEEECCCHHHHHHHHHHhcCCCCCHHH
Confidence            99999998775         48999999999996 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC-EEEcCHHHHHHHHHh
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKM-YHLYSKEELEEELSK  239 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~-~~~~~~~ei~~~~~~  239 (251)
                      |++++++||..+.++|. ++++++|++|++++. +++++++||++++++
T Consensus       152 a~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~~~~~l~~~ei~~~~~~  200 (205)
T 1iru_H          152 CLQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFAVA  200 (205)
T ss_dssp             HHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCCCC
T ss_pred             HHHHHHHHHHHHHHhccccCCcEEEEEEeCCCeEEEEeChHHhhHHHhh
Confidence            99999999999999985 678999999999965 789999999887764

>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=2.3e-44  Score=303.73  Aligned_cols=202  Identities=18%  Similarity=0.200  Sum_probs=188.3

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.++ +++.+++.+||++|+++++|+++|..+|++.++++++.+++.|++.++++++++.++
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            6899999999999999999998 677788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-C-----CeEEEECCCCceeec--CEEEeCCCchhHHHHHHhhhc
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-G-----PQLFHLDPSGTYTQF--DAKAIGSGSEGAQQSLQEVYH  185 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-g-----p~Ly~id~~G~~~~~--~~~a~G~g~~~~~~~Le~~~~  185 (251)
                      +.|++++|.++++. .    |||++++||||||++ |     |+||.+||+|++.++  +++|+|+|+.+++++||+.|+
T Consensus        81 ~~l~~~~~~~~~~~-~----rp~~v~~lvaG~D~~~g~~~~~p~Ly~idp~G~~~~~~~~~~aiGsgs~~a~~~Le~~~~  155 (235)
T 1q5q_H           81 NRLASMVRGNLGAA-M----QGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYS  155 (235)
T ss_dssp             HHHHHHHHTTHHHH-T----TTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhh-h----cccceEEEEEEEECCCCccCCCCEEEEECCCCceEEeCCCeEEECCCHHHHHHHHHhhcC
Confidence            99999999877642 3    899999999999976 7     999999999999999  999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhhhcCCCCc---E-----EEEEEEcCCCEEEcCHHHHHHHHHhhcc
Q psy5094         186 ESMTLKEAINHVLTILKQVMEEKLNSTN---V-----ELCTVTADKMYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       186 ~~~s~~ea~~l~~~~l~~~~~~d~~~~~---i-----~i~~i~~~~~~~~~~~~ei~~~~~~~~~  242 (251)
                      ++||++||++++++||..+.++|...++   +     +|++|+++ ++++++++|+++++..+.+
T Consensus       156 ~~ms~eeA~~la~~al~~a~~~d~~sg~~~~i~~~~~ev~vi~~~-g~~~l~~~ei~~~~~~~~~  219 (235)
T 1q5q_H          156 PDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQA-GAVHVSEETTSELARRIVA  219 (235)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETT-EEEECCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHhhCcccCCcccccccccEEEEEeCC-CeEEeCHHHHHHHHHHHHH
Confidence            9999999999999999999999875332   3     99999987 6999999999999988874

>3nzj_H Proteasome component PUP1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 3nzw_H* 3nzx_H* 4b4t_2

Probab=100.00  E-value=2.6e-44  Score=307.01  Aligned_cols=199  Identities=23%  Similarity=0.337  Sum_probs=178.4

Q ss_pred             HHHHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCC
Q psy5094          27 AIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDE  105 (251)
Q Consensus        27 a~~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~  105 (251)
                      .+||+++|+|+|||+++||||||+|+|.++ .++..++.+||++|++|++|+++|..+|++.+.++++.+++.|++.+++
T Consensus        22 ~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~~~~  101 (261)
T 3nzj_H           22 QPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGSNIELHSLYTSR  101 (261)
T ss_dssp             --------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred             CCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHHHHHHHHHhHHhhCC
Confidence            478999999999999999999999999998 4566889999999999999999999999999999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc
Q psy5094         106 KMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH  185 (251)
Q Consensus       106 ~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~  185 (251)
                      +++++.+++.+++.++.|.         +||++++||||||++||+||++||.|++.+++++|+|+|+..++++||+.|+
T Consensus       102 ~~~v~~~a~~l~~~l~~~~---------~~~gv~llvaG~D~~Gp~Ly~iDp~G~~~~~~~~aiGsgs~~a~~~Le~~~~  172 (261)
T 3nzj_H          102 EPRVVSALQMLKQHLFKYQ---------GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWK  172 (261)
T ss_dssp             CCCHHHHHHHHHHHHHHTT---------TCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCC
T ss_pred             CCCHHHHHHHHHHHHHHhc---------CcccEEEEEEEEeCCCCEEEEECCCccEEecCeEEeccchHHHHHHHHHHhc
Confidence            9999999999999987642         7999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHH
Q psy5094         186 ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELE  234 (251)
Q Consensus       186 ~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~  234 (251)
                      ++|+++||++++++||..+.++|. ++++++|++|++++.++++.+..++
T Consensus       173 ~~ms~eEA~~la~~al~~a~~rD~~sg~~iev~vI~kdg~~~~~~~~~~~  222 (261)
T 3nzj_H          173 QDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTP  222 (261)
T ss_dssp             SSCCHHHHHHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEECC
T ss_pred             cCCCHHHHHHHHHHHHHHHHhhCCCCCCcEEEEEEECCCcEEEeccccCC
Confidence            999999999999999999999987 6789999999999766665554443

>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=2.2e-44  Score=297.95  Aligned_cols=189  Identities=19%  Similarity=0.308  Sum_probs=178.7

Q ss_pred             HHHHhcCCcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCC
Q psy5094          28 IEAIKLGSTAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEK  106 (251)
Q Consensus        28 ~~a~~~G~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~  106 (251)
                      .+++++|+|+|||+++||||||+|+|.+++ ++..++.+||++|++|++|+++|..+|++.+.++++.+++.|++.+++ 
T Consensus         3 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~-   81 (205)
T 1ryp_H            3 KGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGT-   81 (205)
T ss_dssp             TTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSS-
T ss_pred             CCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHHHHHHHHHHHHHhCC-
Confidence            578999999999999999999999999996 677788999999999999999999999999999999999999999999 


Q ss_pred             CCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc
Q psy5094         107 MDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH  185 (251)
Q Consensus       107 i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~  185 (251)
                      ++++.+++.+++++|.|++        + |++++||||||+ +||+||.+||.|++.+++++++|+|++.++++||+.|+
T Consensus        82 ~~v~~la~~l~~~~~~~~~--------~-~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~  152 (205)
T 1ryp_H           82 PSTETAASVFKELCYENKD--------N-LTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFR  152 (205)
T ss_dssp             CCHHHHHHHHHHHHHHTTT--------T-CCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCC
T ss_pred             CCHHHHHHHHHHHHHhhhc--------C-ceEEEEEEEEecCCCcEEEEECCCccEEecCEEEEEecHHHHHHHHHhccC
Confidence            9999999999999999865        4 899999999996 78999999999999999999999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEE
Q psy5094         186 ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYH  226 (251)
Q Consensus       186 ~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~  226 (251)
                      ++||++||++++++||..+.++|. ++++++|++|++++..+
T Consensus       153 ~~~s~eea~~l~~~al~~a~~~d~~sg~~i~v~vi~~~g~~~  194 (205)
T 1ryp_H          153 ENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVER  194 (205)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEE
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhCCccCCeEEEEEEcCCCEEE
Confidence            999999999999999999999987 67899999999985533

>1g0u_M Proteasome component PRE4; ubiquitin, degradation, protease, NTN-hydrolase; 2.40A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 2zcy_M* 3bdm_M* 3mg6_M* 3mg7_M* 3mg8_M* 3nzj_M* 3nzw_M* 3nzx_M*

Probab=100.00  E-value=1.4e-45  Score=316.32  Aligned_cols=215  Identities=15%  Similarity=0.213  Sum_probs=195.2

Q ss_pred             hhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHh-
Q psy5094          24 VEYAIEAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWF-  101 (251)
Q Consensus        24 ~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-  101 (251)
                      .+.+.+++++|+|+|||+++||||||+|+|.++ .++.+++.+||++|+++++|+++|..+|++.|+++++.+++.|++ 
T Consensus        31 ~~~~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~lr~~~~~~~~~  110 (266)
T 1g0u_M           31 MVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYD  110 (266)
T ss_dssp             ---CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hhhhccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHHHHHHHHhhhc
Confidence            456778999999999999999999999999998 466678999999999999999999999999999999999999998 


Q ss_pred             ----hhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-CCeEEEECCCCceeecCEEEeCCCchhH
Q psy5094         102 ----TYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGA  176 (251)
Q Consensus       102 ----~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-gp~Ly~id~~G~~~~~~~~a~G~g~~~~  176 (251)
                          .++++++++.++++++++++.  ++.+.    |||++++||||||++ ||+||.+||.|++.+++++++|+|+..+
T Consensus       111 ~~~~~~~~~~~v~~la~~l~~~ly~--~r~~~----~P~~v~~lvaG~D~~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a  184 (266)
T 1g0u_M          111 NPLADAEEALEPSYIFEYLATVMYQ--RRSKM----NPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMA  184 (266)
T ss_dssp             CTTTTTTTSCCHHHHHHHHHHHHHH--HHHTT----CCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHTH
T ss_pred             cchhhcCCCCCHHHHHHHHHHHHHH--hccCC----CCceEEEEEEEEcCCCCEEEEEECCCCCEEeCCEEEEccCHHHH
Confidence                899999999999999999954  43333    899999999999975 8999999999999999999999999999


Q ss_pred             HHHHHhhhcC-----CCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHH-HHhhccCCC
Q psy5094         177 QQSLQEVYHE-----SMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEE-LSKVSSIHD  245 (251)
Q Consensus       177 ~~~Le~~~~~-----~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~-~~~~~~~~~  245 (251)
                      +++||+.|++     +||++||++++++||..+.++|. ++++++|++|++++++++++++||+++ | ++.++..
T Consensus       185 ~~~Le~~~~~~~~~~~ms~eeA~~la~~al~~a~~rd~~sg~~i~v~vI~k~~g~~~~~~~ei~~~~w-~~~~~~~  259 (266)
T 1g0u_M          185 NPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENMKW-DFAKDIK  259 (266)
T ss_dssp             HHHHTTTCSSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCCCCC-GGGGGCC
T ss_pred             HHHHHHhhcccccCCCCCHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEECCCCeEEcCHHHhhhhhh-hHHhhhc
Confidence            9999999999     99999999999999999999987 677899999999867999999999998 7 3554433

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

Probab=100.00  E-value=4.2e-44  Score=301.54  Aligned_cols=194  Identities=25%  Similarity=0.415  Sum_probs=183.4

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcc-cCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVL-MEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.++++ +..++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
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            689999999999999999999975 4468899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      +++++++++|.         +||++++||||||++||+||++||.|++.+++++|+|+|+..++++||+.|+++|+++||
T Consensus        81 ~~l~~~l~~~~---------~p~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA  151 (234)
T 3unf_H           81 RILRQTLFRYQ---------GHVGASLVVGGVDLNGPQLYEVHPHGSYSRLPFTALGSGQGAAVALLEDRFQPNMTLEAA  151 (234)
T ss_dssp             HHHHHHHHHTT---------TCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEEETTHHHHHHHHHHHCCSSCCHHHH
T ss_pred             HHHHHHHHhcC---------CCccEEEEEEEEeCCCCEEEEECCCCCEEeccEEEEcCCchhhHHHHHhccCCCCCHHHH
Confidence            99999998652         799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHH
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELS  238 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~  238 (251)
                      ++++++||..+.++|. ++++++|++|+++ ++++++++|++..|.
T Consensus       152 ~~la~~al~~~~~~D~~sg~~iev~vi~~d-g~~~l~~~~i~~~~~  196 (234)
T 3unf_H          152 QELLVEAITAGILSDLGSGGNVDACVITAG-GAKLQRALSTPTEPV  196 (234)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSCEEEEEEESS-CEEEEEEEECCCCCC
T ss_pred             HHHHHHHHHHHHhhcCCCCCcEEEEEEECC-CEEEeCceecccccc
Confidence            9999999999999987 7789999999998 899999998876654

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

Probab=100.00  E-value=1.6e-43  Score=291.29  Aligned_cols=189  Identities=20%  Similarity=0.228  Sum_probs=176.9

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.+++++. +++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~la   81 (198)
T 1ryp_K            2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVS   81 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             ceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEEeccCHHHHHHHHHHHHHHHHHHHHhcCCCCCHHHHH
Confidence            68999999999999999999986544 67899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC--CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS--KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLK  191 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~--~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~  191 (251)
                      +.+++.+|.+++.      .+||++++||||||+  +||+||.+||.|++.+++++++|+|++.++++||+.|+++||++
T Consensus        82 ~~l~~~l~~~~~~------r~p~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~aiG~g~~~a~~~Le~~~~~~~s~e  155 (198)
T 1ryp_K           82 SFVRQELAKSIRS------RRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTE  155 (198)
T ss_dssp             HHHHHHHHHHTTS------SSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHH
T ss_pred             HHHHHHHHHhccc------CCCceEEEEEEEEeCCCCCcEEEEECCCCCEEECCEEEEcccHHHHHHHHHhhcCCCCCHH
Confidence            9999999988753      149999999999995  78999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCH
Q psy5094         192 EAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSK  230 (251)
Q Consensus       192 ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~  230 (251)
                      ||++++++||..+.++|. ++++++|++|+++ +++++++
T Consensus       156 ea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~-g~~~~~~  194 (198)
T 1ryp_K          156 EGLDLLKLCVQELEKRMPMDFKGVIVKIVDKD-GIRQVDD  194 (198)
T ss_dssp             HHHHHHHHHHHHHHHHCSBCCCCEEEEEEETT-EEEEECC
T ss_pred             HHHHHHHHHHHHHHHhCccCCCceEEEEEcCC-CEEEecc
Confidence            999999999999999985 7889999999998 7787765

>1iru_M 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_L* 3une_L 3unf_L* 3unh_L

Probab=100.00  E-value=1.2e-42  Score=289.25  Aligned_cols=186  Identities=21%  Similarity=0.323  Sum_probs=173.8

Q ss_pred             HhcCCcEEEEEeCCeEEEEEeccCCCccc-CCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5094          31 IKLGSTAIGISTSEGVVLAAEKRITSVLM-EPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDI  109 (251)
Q Consensus        31 ~~~G~tvvgi~~~~gVvla~d~~~~~~~~-~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  109 (251)
                      +++|+|+|||+++||||||+|+|.+++++ .+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.+++++++
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   85 (213)
T 1iru_M            6 VFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTT   85 (213)
T ss_dssp             CCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCH
T ss_pred             cCCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHHHHHHHHHHHhcCCCCCH
Confidence            57999999999999999999999999654 46789999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCC-CeEEEECCCCceeecCEEEeCCCchhHHHHHHhh-----
Q psy5094         110 ESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV-----  183 (251)
Q Consensus       110 ~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~-----  183 (251)
                      +.+++++++++  |+++      .|||++++||||||++| |+||.+||.|++.+++++|+|+|+++++++||+.     
T Consensus        86 ~~la~~l~~~~--y~~r------~~P~~v~~lvaG~D~~g~p~Ly~id~~G~~~~~~~~aiGsg~~~a~~~Le~~~~~~~  157 (213)
T 1iru_M           86 GAIAAMLSTIL--YSRR------FFPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKN  157 (213)
T ss_dssp             HHHHHHHHHHH--HHTT------TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHH--HhhC------CCCceEEEEEEEEcCCCCEEEEEECCCCCEEECCEEEEeeCHHHHHHHHhhcccccc
Confidence            99999999999  4453      28999999999999655 9999999999999999999999999999999999     


Q ss_pred             ----hcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         184 ----YHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       184 ----~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                          |+++||++||++++++||..+.++|. ++++++|++|++++.
T Consensus       158 ~~~~~~~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~  203 (213)
T 1iru_M          158 MQNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGI  203 (213)
T ss_dssp             CSSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEE
T ss_pred             ccccCCCCCCHHHHHHHHHHHHHHHHHhCCccCCcEEEEEEcCCCe
Confidence                88899999999999999999999996 678999999999843

>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=1.6e-42  Score=290.10  Aligned_cols=190  Identities=23%  Similarity=0.332  Sum_probs=177.1

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcc-cCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVL-MEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.++++ +..++.+||++|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++
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            689999999999999999999865 4467889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      +.+++++++|.         |||++++||||+|++||+||.+||.|++.+++++|+|+|+..++++||+.|+++||++||
T Consensus        81 ~~l~~~l~~~~---------~p~~v~~lvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA  151 (222)
T 1ryp_I           81 QMLKQHLFKYQ---------GHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEA  151 (222)
T ss_dssp             HHHHHHHHHTT---------TCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHH
T ss_pred             HHHHHHHhhcC---------CCCCeeEEEEEEeCCCCEEEEECCCCCEEecCEEEECCCHHHHHHHHHhhCCCCcCHHHH
Confidence            99999997652         799999999999998999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHH
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEEL  233 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei  233 (251)
                      ++++++||..+.++|. ++++++|++|+++++++++.+.++
T Consensus       152 ~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~~~~~~  192 (222)
T 1ryp_I          152 IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLT  192 (222)
T ss_dssp             HHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEEEC
T ss_pred             HHHHHHHHHHHHhccccCCCcEEEEEEECCCCEEEEeceec
Confidence            9999999999999987 677899999999853777655443

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

Probab=100.00  E-value=1.9e-43  Score=291.07  Aligned_cols=192  Identities=21%  Similarity=0.281  Sum_probs=177.9

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+++||||||+|+|.+++ ++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
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            68999999999999999999986 67788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceee-cCEEEeCCCchhHHHHHHhhhcCCCCHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQ-FDAKAIGSGSEGAQQSLQEVYHESMTLK  191 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~~~s~~  191 (251)
                      +++++++|.+.         |||++++||||||+ +||+||.  |+|++.+ ..++++|+|++.++++||+.|+++||++
T Consensus        81 ~~l~~~l~~~~---------~p~~v~~lvaG~D~~~~p~ly~--p~G~~~~~~~~~~~Gsgs~~a~~~Le~~~~~~ms~e  149 (199)
T 3unf_N           81 NVVKNISYKYR---------EDLLAHLIVAGWDQREGGQVYG--TMGGMLIRQPFTIGGSGSSYIYGYVDAAYKPGMTPE  149 (199)
T ss_dssp             HHHHHHHHHTT---------TTCCCCEEEEEEETTTEEEEEE--CGGGCCEECSEEEEEGGGGGGHHHHHHHCCSSCCHH
T ss_pred             HHHHHHHHhcC---------CCceEEEEEEEEeCCCCcEEEE--ECCCceecCCEEEEccCHHHHHHHHHhhcCCCCCHH
Confidence            99999998652         79999999999997 6799999  9999765 5566779999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC-EEEcCHHHHHHHH
Q psy5094         192 EAINHVLTILKQVMEEKL-NSTNVELCTVTADKM-YHLYSKEELEEEL  237 (251)
Q Consensus       192 ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~-~~~~~~~ei~~~~  237 (251)
                      ||++++++||..+.++|. ++++++|++|++++. +++++++||+++|
T Consensus       150 ea~~la~~al~~~~~~d~~sg~~i~v~vi~~~g~~~~~l~~~ei~~~~  197 (199)
T 3unf_N          150 ECRRFTTNAITLAMNRDGSSGGVIYLVTITAAGVDHRVILGDELPKFY  197 (199)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCCSCEEEEEECSSCEEEEEECGGGSCCCC
T ss_pred             HHHHHHHHHHHHHHHhccccCCCeEEEEEcCCCEEEEEcCcccCcccc
Confidence            999999999999999997 667899999999964 8899999987654

>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=3.7e-42  Score=287.92  Aligned_cols=187  Identities=24%  Similarity=0.357  Sum_probs=174.3

Q ss_pred             HHhcCCcEEEEEeCCeEEEEEeccCCCcc-cCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhC-CCC
Q psy5094          30 AIKLGSTAIGISTSEGVVLAAEKRITSVL-MEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYD-EKM  107 (251)
Q Consensus        30 a~~~G~tvvgi~~~~gVvla~d~~~~~~~-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i  107 (251)
                      .+++|+|+|||+++||||||+|+|.++++ +.+++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++ +++
T Consensus         5 ~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   84 (222)
T 1ryp_M            5 YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKL   84 (222)
T ss_dssp             CCCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             cccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            46799999999999999999999999965 4578999999999999999999999999999999999999999999 999


Q ss_pred             CHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCC-CeEEEECCCCceeecCEEEeCCCchhHHHHHHhh---
Q psy5094         108 DIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV---  183 (251)
Q Consensus       108 ~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~---  183 (251)
                      +++.+++++++.+  |+++      .+||++++||||||++| |+||.+||.|++.+++++|+|+|+.+++++||+.   
T Consensus        85 ~v~~la~~l~~~l--y~~r------~~P~~v~~ivaG~D~~g~p~Ly~~dp~G~~~~~~~~a~Gsg~~~a~~~Le~~~~~  156 (222)
T 1ryp_M           85 SINSAARNIQHLL--YGKR------FFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNF  156 (222)
T ss_dssp             CHHHHHHHHHHHH--HTTT------TSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSC
T ss_pred             CHHHHHHHHHHHH--HhcC------CCCceEEEEEEEEcCCCCeEEEEECCCcCEEecCEEEEcCcHHHHHHHHhccccc
Confidence            9999999999998  4442      37999999999999655 9999999999999999999999999999999998   


Q ss_pred             --------------hcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         184 --------------YHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       184 --------------~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                                    |+++||++||++++++||..+.++|+ ++++++|++|++++.
T Consensus       157 ~~~~~~~~~~~~~~~~~~~s~eeA~~la~~al~~a~~rd~~sg~~i~v~vi~~~g~  212 (222)
T 1ryp_M          157 KNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGV  212 (222)
T ss_dssp             TTCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEE
T ss_pred             ccccccccccccccCCCCCCHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEcCCCe
Confidence                          78999999999999999999999997 678899999999843

>1iru_J 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_I* 3une_I 3unf_I* 3unh_I

Probab=100.00  E-value=4.4e-42  Score=284.15  Aligned_cols=186  Identities=16%  Similarity=0.225  Sum_probs=172.6

Q ss_pred             HhcCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5094          31 IKLGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDI  109 (251)
Q Consensus        31 ~~~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  109 (251)
                      +.+|+|+|||+++||||||+|+|.+++++. +++.+||++|++|++|+++|..+|++.+.++++.+++.|++.+++++++
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v   84 (205)
T 1iru_J            5 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   84 (205)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             cCCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHHHHHHHHHHHhhcCCCCCH
Confidence            468999999999999999999999997654 5689999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC--CCCeEEEECCCCceeec-CEEEeCCCchhHHHHHHhhhcC
Q psy5094         110 ESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS--KGPQLFHLDPSGTYTQF-DAKAIGSGSEGAQQSLQEVYHE  186 (251)
Q Consensus       110 ~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~--~gp~Ly~id~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~  186 (251)
                      +.+++.+++.+  |+++      ..||++++||||||+  +||+||.+||.|++.++ .++++|+|+++++++||+.|++
T Consensus        85 ~~la~~l~~~~--y~~r------~~P~~v~~lvaG~D~~~~~p~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~~  156 (205)
T 1iru_J           85 YTLMSMVANLL--YEKR------FGPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEP  156 (205)
T ss_dssp             HHHHHHHHHHH--HTTT------TSCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHH--HHhc------CCCceEEEEEEEEeCCCCCeEEEEECCCCCccccCCeeEeeeCHHHHHHHHhcccCC
Confidence            99999999999  6664      269999999999994  78999999999999654 6799999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         187 SMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       187 ~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                      +||++||++++++||..+.++|. ++++++|++|++++.
T Consensus       157 ~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~  195 (205)
T 1iru_J          157 NMDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDKI  195 (205)
T ss_dssp             SCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBE
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCcccCCceEEEEEcCCCE
Confidence            99999999999999999999997 577999999999844

>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=1e-41  Score=281.69  Aligned_cols=186  Identities=17%  Similarity=0.240  Sum_probs=172.6

Q ss_pred             HHhcCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCC
Q psy5094          30 AIKLGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMD  108 (251)
Q Consensus        30 a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  108 (251)
                      .+.+|+|+|||+++||||||+|+|.+++++. +++.+||++|+ |++|+++|..+|++.+.++++.+++.|+++++++++
T Consensus         4 ~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~   82 (204)
T 1ryp_J            4 SSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIE   82 (204)
T ss_dssp             GGSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCC
T ss_pred             cCCCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHHHHHHHHHHhhccCCCCC
Confidence            3579999999999999999999999997654 56899999999 999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC--CCCeEEEECCCCceeec-CEEEeCCCchhHHHHHHhhhc
Q psy5094         109 IESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS--KGPQLFHLDPSGTYTQF-DAKAIGSGSEGAQQSLQEVYH  185 (251)
Q Consensus       109 ~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~--~gp~Ly~id~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~  185 (251)
                      ++.+++.+++.+  |+++.      .||++++||||||+  +||+||.+||.|++.++ .++++|+|+++++++||+.|+
T Consensus        83 v~~la~~l~~~~--y~~~~------~P~~v~~lvaG~D~~~~gp~Ly~idp~G~~~~~~~~~aiG~gs~~a~~~Le~~~~  154 (204)
T 1ryp_J           83 PETFTQLVSSSL--YERRF------GPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYE  154 (204)
T ss_dssp             HHHHHHHHHHHH--HTTTT------SCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHH--HHhcC------CCceEEEEEEEEeCCCCceEEEEECCCCCccccCceeEeccCHHHHHHHHhhhcC
Confidence            999999999999  66642      59999999999995  78999999999999664 679999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         186 ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       186 ~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                      ++|+++||++++++||..+.++|. ++++++|++|++++.
T Consensus       155 ~~~s~eea~~l~~~al~~~~~~d~~s~~~i~v~vi~~~g~  194 (204)
T 1ryp_J          155 PNLEPEDLFETISQALLNAADRDALSGWGAVVYIIKKDEV  194 (204)
T ss_dssp             SSCCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCE
T ss_pred             CCcCHHHHHHHHHHHHHHHHHhCcccCCcEEEEEEcCCCE
Confidence            999999999999999999999986 678899999999854

>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=1.8e-42  Score=291.91  Aligned_cols=193  Identities=21%  Similarity=0.383  Sum_probs=178.9

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCccc-CCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVLM-EPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~~-~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.+++++ ..++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
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            6899999999999999999999654 467889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      +++++.++.|+         +||++++||||||++||+||.+||.|++.+++++++|+|+..++++||+.|+++||++||
T Consensus        81 ~~l~~~l~~~~---------~~~~v~llvaG~D~~gp~Ly~idp~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~ms~eeA  151 (234)
T 1iru_I           81 RMLKQMLFRYR---------GYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEA  151 (234)
T ss_dssp             HHHHHHHHHTT---------TCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHH
T ss_pred             HHHHHHHHhcC---------CCCceeEEEEEEcCCCCEEEEECCCCCEEecCEEEECCchHHHHHHHHHhccCCCCHHHH
Confidence            99999997653         699999999999998999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHH
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEEL  237 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~  237 (251)
                      ++++++||..+.++|. ++++++|++|+++ +++.+.+.+++.-|
T Consensus       152 ~~la~~al~~a~~~d~~sg~~i~v~vi~k~-g~~~~~~~~~~~~~  195 (234)
T 1iru_I          152 KNLVSEAIAAGIFNDLGSGSNIDLCVISKN-KLDFLRPYTVPNKK  195 (234)
T ss_dssp             HTHHHHHHHHHHHHCTTCCSCEEEEEEETT-EEECCSEEECCCCC
T ss_pred             HHHHHHHHHHHHHhcccCCCCEEEEEEECC-cEEEEcceecCccc
Confidence            9999999999999987 5789999999998 67877765554444

>1iru_K 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_J* 3une_J 3unf_J* 3unh_J

Probab=100.00  E-value=9.8e-42  Score=281.25  Aligned_cols=188  Identities=16%  Similarity=0.218  Sum_probs=172.6

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.++ +++..++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++++++.++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~~~~~~~~~~~~~~~~~v~~~a   81 (201)
T 1iru_K            2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAA   81 (201)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            6899999999999999999998 577788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +++++.+..+.+.      .|||++++||||||+ +||+||.+||.|++.+++++++|+|+++++++||+.|+++||++|
T Consensus        82 ~~~~~~l~~~~~~------~~p~~~~~lvaG~D~~~gp~Ly~id~~G~~~~~~~~aiGsgs~~a~~~Le~~~~~~~s~ee  155 (201)
T 1iru_K           82 NFTRRNLADCLRS------RTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRER  155 (201)
T ss_dssp             HHHHHHHHHHHTS------SSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHHHHhc------CCCccEEEEEEEEeCCCCeEEEEECCCcCeEECCEEEECCcHHHHHHHHHhcccCCCCHHH
Confidence            9998765212121      169999999999996 689999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcC
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYS  229 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~  229 (251)
                      |++++++||..+.++|. ++++++|++|+++ ++++++
T Consensus       156 a~~l~~~al~~a~~rd~~sg~~i~v~vi~~~-g~~~~~  192 (201)
T 1iru_K          156 AVELLRKCLEELQKRFILNLPTFSVRIIDKN-GIHDLD  192 (201)
T ss_dssp             HHHHHHHHHHHHHHTBCBCCCCEEEEEEETT-EEECCC
T ss_pred             HHHHHHHHHHHHHhhccccCCceEEEEEcCC-CeEEee
Confidence            99999999999999997 6778999999998 667655

>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=8.4e-35  Score=235.75  Aligned_cols=168  Identities=13%  Similarity=0.142  Sum_probs=145.6

Q ss_pred             hcCCcEEEEEeCCeEEEEEeccCCC-cc-cCCCccCcEEEE-cCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCC
Q psy5094          32 KLGSTAIGISTSEGVVLAAEKRITS-VL-MEPSSIKKIVEI-DKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMD  108 (251)
Q Consensus        32 ~~G~tvvgi~~~~gVvla~d~~~~~-~~-~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  108 (251)
                      .+|+|+|||+++||||||+|+|.+. .+ +.+++.+||++| ++|++|+++|..+|++.+.++++.+++.|+   +  ..
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            5899999999999999999999998 56 778899999999 999999999999999999999999999988   2  22


Q ss_pred             HHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceee--cCEEEeCCCchhHHHHHHhhhcC
Q psy5094         109 IESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQ--FDAKAIGSGSEGAQQSLQEVYHE  186 (251)
Q Consensus       109 ~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~--~~~~a~G~g~~~~~~~Le~~~~~  186 (251)
                      ++.++ .+++.   +++....    |||++++|||    +||+||.+||.|++.+  ++++|+|+|+++++++||+.|++
T Consensus        78 ~~~~~-~l~~~---~~~~~~~----rp~~~~~lva----d~p~ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~  145 (180)
T 2z3b_A           78 KRAAV-ELAKE---WRSDKVL----RKLEAMLIVM----NQDTLLLVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKH  145 (180)
T ss_dssp             HHHHH-HHHHH---HHHCTTG----GGCCCCEEEE----CSSCEEEECTTCCEECCSSSEEEESTTHHHHHHHHHHHHHH
T ss_pred             HHHHH-HHHHH---HHhhhCc----CcceEEEEEE----cCCeEEEECCCCcEEEeCCCEEEECCCHHHHHHHHHHhhhc
Confidence            22222 34444   4443333    8999999999    4799999999999998  59999999999999999999998


Q ss_pred             ---CCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEE
Q psy5094         187 ---SMTLKEAINHVLTILKQVMEEKL-NSTNVELCTV  219 (251)
Q Consensus       187 ---~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i  219 (251)
                         +|+.+|   ++.+||+.+.++|. ++++++|.+|
T Consensus       146 ~~~~mt~ee---l~~~al~~a~~rd~~sg~~i~v~~i  179 (180)
T 2z3b_A          146 AGESMSASE---IARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             HGGGCCHHH---HHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             cCCCCCHHH---HHHHHHHHHHHhcCccCCeEEEEEE
Confidence               999999   46799999999997 6778999887

>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=3.4e-34  Score=230.35  Aligned_cols=165  Identities=18%  Similarity=0.212  Sum_probs=142.5

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEE-cCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEI-DKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESV  112 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  112 (251)
                      +|+|||+++||||||+|+|.++ .++.+++.+||++| ++|++++++|..+|++.+.++++.+++.|+++     .++.+
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            6899999999999999999998 57778899999999 99999999999999999999999999988854     24444


Q ss_pred             HHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecC--EEEeCCCchhHHHHHHhhhc-CCCC
Q psy5094         113 AQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFD--AKAIGSGSEGAQQSLQEVYH-ESMT  189 (251)
Q Consensus       113 ~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~--~~a~G~g~~~~~~~Le~~~~-~~~s  189 (251)
                      ++.    .+.++++.+.    |||++.+|++  |  ||+||.+||.|++.+++  +.++|+|+++++++||+.|+ ++||
T Consensus        76 ~~l----~~~~~~~~~~----~~~~~~~lv~--D--~p~Ly~~d~~G~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~ms  143 (171)
T 1m4y_A           76 VEL----AKDWRTDRVL----RRLEALLLVA--D--KENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLS  143 (171)
T ss_dssp             HHH----HHHHHHCTTG----GGCCCEEEEE--C--SSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCC
T ss_pred             HHH----HHHHHHhCCC----CceEEEEEEE--c--CCEEEEECCCCCEEecCCCEEEECCcHHHHHHHHHHhcccCCCC
Confidence            444    3333333222    7899998888  5  89999999999999987  99999999999999999999 9999


Q ss_pred             HHHHHHHHHHHHHHHhhhcC-CCCcEEEEEE
Q psy5094         190 LKEAINHVLTILKQVMEEKL-NSTNVELCTV  219 (251)
Q Consensus       190 ~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i  219 (251)
                      .   ++++++||+.+.++|. ++++++|.++
T Consensus       144 ~---~~l~~~al~~a~~rd~~sg~~i~v~~~  171 (171)
T 1m4y_A          144 A---REIVEKAMTIAGEICIYTNQNIVIEEV  171 (171)
T ss_dssp             H---HHHHHHHHHHHHHHCTTCCSCCEEEEC
T ss_pred             H---HHHHHHHHHHHHHhCcccCCeEEEEEC
Confidence            7   6789999999999987 6778988763

>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=8.4e-34  Score=228.70  Aligned_cols=166  Identities=14%  Similarity=0.136  Sum_probs=143.4

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEE-cCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEI-DKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESV  112 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  112 (251)
                      +|+|||+++||||||+|+|.+++ ++.+++.+||++| ++|++++++|..+|++.+.++++.+++.|++      ++...
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            68999999999999999999985 6778899999999 9999999999999999999999999999885      34444


Q ss_pred             HHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecC---EEEeCCCchhHHHHHHhhhc-CCC
Q psy5094         113 AQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFD---AKAIGSGSEGAQQSLQEVYH-ESM  188 (251)
Q Consensus       113 ~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~---~~a~G~g~~~~~~~Le~~~~-~~~  188 (251)
                      +..|++.+   +++.+.    ||+  .++++|+|  ||+||.+||+|++.+++   ++|+|+|+++++++||+.|+ ++|
T Consensus        75 ~~~l~~~~---~~~~~~----r~~--~~~l~g~d--~p~Ly~~d~~G~~~~~~~~~~~a~Gsgs~~a~~~le~~~~~~~m  143 (174)
T 1g3k_A           75 AVELAKDW---RTDRAL----RKL--EAMLIVAD--EKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVENTEL  143 (174)
T ss_dssp             HHHHHHHH---HHSTTG----GGC--CCEEEEEC--SSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHH---HhccCc----Ccc--eEEEEEEC--CCEEEEEcCCCcEEecCCCcEEEEcccHHHHHHHHHHhcccCCC
Confidence            44444444   443222    675  57888887  79999999999999988   99999999999999999999 999


Q ss_pred             CHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEE
Q psy5094         189 TLKEAINHVLTILKQVMEEKL-NSTNVELCTVT  220 (251)
Q Consensus       189 s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~  220 (251)
                      +.+   +++++||+.+.++|. ++++++|.+|+
T Consensus       144 t~~---~l~~~al~~a~~rd~~sg~~i~v~~i~  173 (174)
T 1g3k_A          144 SAH---EIVEKSLRIAGDICVFTNTNFTIEELP  173 (174)
T ss_dssp             CHH---HHHHHHHHHHHHHCTTCCSCCEEEEEC
T ss_pred             CHH---HHHHHHHHHHHHhccccCCceEEEEec
Confidence            955   799999999999987 67889999985

---

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	251
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	2e-87
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	3e-76
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	3e-76
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	4e-76
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	8e-75
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-73
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	4e-73
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	5e-73
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	1e-72
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	1e-70
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	4e-70
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	5e-70
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	9e-70
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-69
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	9e-68
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	9e-67
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	3e-53
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	1e-41
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	4e-41
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-40
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	3e-40
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	1e-39
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	4e-39
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	9e-39
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-38
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	6e-37
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-35
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	3e-35
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	3e-34
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	4e-32
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	4e-32
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	2e-31
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	8e-29
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	4e-26
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	1e-10
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	4e-10
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	1e-04

>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 =  257 bits (657), Expect = 2e-87
 Identities = 173/234 (73%), Positives = 198/234 (84%), Gaps = 1/234 (0%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDRGVNTFSPEGRLFQVEY IEAIKLGSTAIGI TSEGV LA EKRITS LMEPSSI+KI
Sbjct: 1   YDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKI 60

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
           VEID HIGCA SGLIAD++ L D+ARVE  NHWFTY+E M +ESV QAVSNLA+QFG+ D
Sbjct: 61  VEIDAHIGCAMSGLIADAKTLIDKARVETQNHWFTYNETMTVESVTQAVSNLALQFGEED 120

Query: 128 -EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
            +  AMSRPFGVA+LF G+D KGPQLFH+DPSGT+ Q DA+AIGS SEGAQ SLQE+YH+
Sbjct: 121 ADPGAMSRPFGVALLFGGVDEKGPQLFHMDPSGTFVQCDARAIGSASEGAQSSLQELYHK 180

Query: 187 SMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
           SMTLKEAI   L ILKQVMEEKLN+TN+EL TV   + +H+++KEELEE +  +
Sbjct: 181 SMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI 234

>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 =  229 bits (585), Expect = 3e-76
 Identities = 76/237 (32%), Positives = 125/237 (52%), Gaps = 7/237 (2%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
           + YD   +TFSP+GR+FQVEYA++A++  STAIGI   +GVV   EK + S L E  S K
Sbjct: 5   TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNK 64

Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           ++  +D+H+G A +GL+AD+R L D AR E +N    +   + ++ +A  V+     +  
Sbjct: 65  RLFNVDRHVGMAVAGLLADARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYT- 123

Query: 126 SDEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
                +  RPFG + +          QL+ +DPSG    +   AIG   + A+  ++++ 
Sbjct: 124 ---LYSAVRPFGCSFMLGSYSVNDGAQLYMIDPSGVSYGYWGCAIGKARQAAKTEIEKLQ 180

Query: 185 HESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTAD-KMYHLYSKEELEEELSK 239
            + MT ++ +  V  I+  V +E K  +  +EL  V       H    +++ EE  K
Sbjct: 181 MKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEK 237

>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 =  228 bits (583), Expect = 3e-76
 Identities = 77/236 (32%), Positives = 119/236 (50%), Gaps = 11/236 (4%)

Query: 5   RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI 64
           R+ YD    TFSP GRLFQVEYA+EAIK GS  +G+ ++   VL A KR    L   S  
Sbjct: 2   RNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADEL--SSYQ 59

Query: 65  KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFG 124
           KKI++ D+H+G + +GL  D+R+L++  R +C      ++ K+ +E     + + A +  
Sbjct: 60  KKIIKCDEHMGLSLAGLAPDARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKN- 118

Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
               +S   RP+GV +L  G D  G  L    PSG  T+    AIG+ S+GA+  L+   
Sbjct: 119 ---TQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTAIGARSQGAKTYLERTL 175

Query: 185 HES----MTLKEAINHVLTILKQVM-EEKLNSTNVELCTVTADKMYHLYSKEELEE 235
                      E I   +  + Q + +E L   N+ +  V  D  + +Y  E + +
Sbjct: 176 DTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAK 231

>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 =  228 bits (583), Expect = 4e-76
 Identities = 136/236 (57%), Positives = 173/236 (73%), Gaps = 3/236 (1%)

Query: 9   DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIV 68
           DRGV+TFSPEGRLFQVEY++EAIKLGSTAIGI+T EGVVL  EKR TS L+E  SI+KIV
Sbjct: 1   DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIV 60

Query: 69  EIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD--S 126
           EID+HIGCA SGL AD+R + + AR     H   YDE +++ES+ Q+V +LA++FG+  S
Sbjct: 61  EIDRHIGCAMSGLTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGAS 120

Query: 127 DEESAMSRPFGVAMLFAGLDSKGP-QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
            EE  MSRPFGVA+L AG D+    QLFH +PSGT+ +++AKAIGSGSEGAQ  L   +H
Sbjct: 121 GEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYNAKAIGSGSEGAQAELLNEWH 180

Query: 186 ESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVS 241
            S+TLKEA   VL ILKQVMEEKL+  N +L  +T    + +Y  E+  E + ++ 
Sbjct: 181 SSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELK 236

>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 =  225 bits (575), Expect = 8e-75
 Identities = 66/243 (27%), Positives = 132/243 (54%), Gaps = 9/243 (3%)

Query: 4   TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGISTSEGVVLAAEKRITSVLMEPS 62
           + + +DR +  FSPEGRL+QVEYA +AI  G  T++ +   +  V+  +K++   L++ S
Sbjct: 4   SSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSS 63

Query: 63  SIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQ 122
           ++  + +I ++IGC  +G+ ADSR    RAR E AN  + Y  ++ ++ + + +++++  
Sbjct: 64  TVTHLFKITENIGCVMTGMTADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQV 123

Query: 123 FGDSDEESAMSRPFGVAMLFAGLD-SKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQ 181
           +     ++A  RP G  M+  G+D  +GPQ++  DP+G Y  F A A G     +   L+
Sbjct: 124 YT----QNAEMRPLGCCMILIGIDEEQGPQVYKCDPAGYYCGFKATAAGVKQTESTSFLE 179

Query: 182 EVYHES--MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADK-MYHLYSKEELEEELS 238
           +   +    T ++ +   +T L  V+      + +E+  VT +   + + ++ E++  L 
Sbjct: 180 KKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHLV 239

Query: 239 KVS 241
            ++
Sbjct: 240 ALA 242

>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 =  221 bits (565), Expect = 2e-73
 Identities = 91/235 (38%), Positives = 144/235 (61%), Gaps = 6/235 (2%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+GRLFQVEYA EA+K G+TAIGI   EGV+L A+KR+ S L+E  +I+KI
Sbjct: 5   YDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKI 64

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
            +ID+HI  A SGL+AD+R+L DRAR+E   +  TYD  + ++ +A+ + +   Q+    
Sbjct: 65  YKIDEHICAATSGLVADARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQY---- 120

Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES 187
            +    RPFGV++L AG  ++ P+L+  DPSG   ++ A AIG G     +  ++ Y + 
Sbjct: 121 TQYGGVRPFGVSLLIAG-VNEVPKLYETDPSGALLEYKATAIGMGRMAVTEFFEKEYRDD 179

Query: 188 MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD-KMYHLYSKEELEEELSKVS 241
           ++  +A+   L  +   +E +L   N+E+  V  D + +   S EEL+  + + +
Sbjct: 180 LSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERAN 234

>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 =  221 bits (563), Expect = 4e-73
 Identities = 77/239 (32%), Positives = 123/239 (51%), Gaps = 10/239 (4%)

Query: 7   EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKK 66
           +YD  V  +SP+GR+ Q+EYA+EA+K GS  +G+ +    VL A KR  S L      KK
Sbjct: 2   QYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAHQ--KK 59

Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           I+ +D HIG + +GL AD+R+L +  R EC +  F +D  + +  +   + +        
Sbjct: 60  ILHVDNHIGISIAGLTADARLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPT-- 117

Query: 127 DEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
             +    RP+GV +L AG D  GP +F   PS  Y    A +IG+ S+ A+  L+    E
Sbjct: 118 --QRYGRRPYGVGLLIAGYDDMGPHIFQTCPSANYFDCRAMSIGARSQSARTYLERHMSE 175

Query: 187 SM--TLKEAINHVLTILKQVM--EEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVS 241
            M   L E + H L  L++ +  E+ L + NV +  V  D  + +Y  +++   L  + 
Sbjct: 176 FMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLE 234

>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 =  221 bits (563), Expect = 5e-73
 Identities = 82/240 (34%), Positives = 126/240 (52%), Gaps = 10/240 (4%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
           + YD   + FSP+GR FQVEYA++A++ G+T+IGI  ++GVV A EK ITS L+ P    
Sbjct: 2   TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNV 61

Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
           KI  +D+HIGC  SGLI D R L +R R E A+    Y   + I + A  +         
Sbjct: 62  KIQVVDRHIGCVYSGLIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAH-- 119

Query: 126 SDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV-- 183
                   RPFGV+ +F G+D  G  L+ L+PSG+Y  +   A G G + A+  L+++  
Sbjct: 120 --TLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGYKGAATGKGRQSAKAELEKLVD 177

Query: 184 -YHESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTAD--KMYHLYSKEELEEELSK 239
            + E ++ +EA+     I+    E+ K     +E+   +       H + K +L +E   
Sbjct: 178 HHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAID 237

>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 =  219 bits (558), Expect = 1e-72
 Identities = 87/222 (39%), Positives = 139/222 (62%), Gaps = 4/222 (1%)

Query: 14  TFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKH 73
            FSP+GRLFQVEYA EA+K GSTA+G+  + GV+L ++K++ S L+E +SI+KI  ID +
Sbjct: 2   VFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDY 61

Query: 74  IGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMS 133
           +    SGL+AD+R+L D AR+       TY   ++IE++ + V++   Q+     +    
Sbjct: 62  VAAVTSGLVADARVLVDFARISAQQEKVTYGSLVNIENLVKRVADQMQQYT----QYGGV 117

Query: 134 RPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA 193
           RP+GV+++FAG+D  GP+LF  DP+GT  ++ A AIGSG +     L+  Y E++  KEA
Sbjct: 118 RPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSGKDAVVSFLEREYKENLPEKEA 177

Query: 194 INHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEE 235
           +   +  LK  +EE       E+ ++T    Y +Y +EE+++
Sbjct: 178 VTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKK 219

>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 =  214 bits (546), Expect = 1e-70
 Identities = 80/239 (33%), Positives = 139/239 (58%), Gaps = 12/239 (5%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKK 66
           YDR ++ FSP+G +FQVEYA+EA+K G+ A+G+     VVL  E+R T  L +   +  K
Sbjct: 2   YDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSK 61

Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           + +ID H+  + SGL ADSRIL ++ARVE  +H  T ++ + +E + + V+ +  ++   
Sbjct: 62  VSKIDSHVVLSFSGLNADSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRY--- 118

Query: 127 DEESAMSRPFGVAMLFAGLDSK--GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
             +S   RPFGV+ L AG D +   P+L+  +PSG Y+ + A+ IG  S+  ++ L++ Y
Sbjct: 119 -TQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWSAQTIGRNSKTVREFLEKNY 177

Query: 185 HE---SMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
                  T++E +   +  L +V++    + N+E+  V  D      S EE+ + ++++
Sbjct: 178 DRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQI 234

>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 =  213 bits (544), Expect = 4e-70
 Identities = 74/252 (29%), Positives = 130/252 (51%), Gaps = 21/252 (8%)

Query: 6   SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
             Y   + TFSP G+L Q++YA+ A+K G T++GI  + GVV+A EK+ +S L    ++ 
Sbjct: 3   DRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLS 62

Query: 66  KIVEIDKHIGCAASGLIADSRILTDRARVECA-NHWFTYDEKMDIESVAQAVSNLAIQFG 124
           K+  +   IG   SG+  D R+L D++R     ++   Y E    + +   V+ +  +  
Sbjct: 63  KVSLLTPDIGAVYSGMGPDYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEA- 121

Query: 125 DSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEV 183
               +S   RPFGV++L AG D   G  L+ +DPSG+Y  + A AIG GS  A+  L++ 
Sbjct: 122 ---TQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWKATAIGKGSVAAKTFLEKR 178

Query: 184 YHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADK---------------MYHLY 228
           +++ + L++AI+  L  LK+ +E + N   +EL  +  +                 +   
Sbjct: 179 WNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKL 238

Query: 229 SKEELEEELSKV 240
           + +E+ + L  +
Sbjct: 239 TSQEINDRLEAL 250

>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 =  213 bits (543), Expect = 5e-70
 Identities = 82/236 (34%), Positives = 141/236 (59%), Gaps = 9/236 (3%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           YDR +  FSP+G LFQVEYA EA+K GSTA+G+   + VVL  EK+  + L +  +++KI
Sbjct: 2   YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKI 61

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             +D ++  A +GL AD+RI+ +RARVEC +H  T ++ + +E + + +++L  ++    
Sbjct: 62  CALDDNVCMAFAGLTADARIVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRY---- 117

Query: 128 EESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
            +S   RPFG++ L  G D    P+L+  DPSGTY  + A AIG G++  ++ L++ Y +
Sbjct: 118 TQSNGRRPFGISALIVGFDFDGTPRLYQTDPSGTYHAWKANAIGRGAKSVREFLEKNYTD 177

Query: 187 SMTL--KEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV 240
                    I  V+  L +V++      N+EL  +  D+   + + EE+E+ ++++
Sbjct: 178 EAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEI 231

>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 =  213 bits (542), Expect = 9e-70
 Identities = 80/240 (33%), Positives = 136/240 (56%), Gaps = 11/240 (4%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSS-IKK 66
           YD     FSPEGRL+QVEYA+EAI    T +GI  ++GV+LAAE+R    L++     +K
Sbjct: 4   YDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEK 63

Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           I ++++ + C+ +G+ +D+ +LT+  R+    +   Y E +  E +  A+ ++   +   
Sbjct: 64  IYKLNEDMACSVAGITSDANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYT-- 121

Query: 127 DEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
             +    RPFGV++L+ G D   G QL+  DPSG Y  + A  IG+ S  A   L++ Y 
Sbjct: 122 --QFGGKRPFGVSLLYIGWDKHYGFQLYQSDPSGNYGGWKATCIGNNSAAAVSMLKQDYK 179

Query: 186 ES-MTLKEAINHVLTILKQVME-EKLNSTNVELCTVTAD---KMYHLYSKEELEEELSKV 240
           E  MTLK A+   + +L + M+  KL++  VE+ T+T +    +  +  ++E+E+ + K 
Sbjct: 180 EGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIKKH 239

>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 =  212 bits (540), Expect = 1e-69
 Identities = 65/243 (26%), Positives = 123/243 (50%), Gaps = 14/243 (5%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIK-LGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKK 66
           YDR +  FSPEGRL+QVEYA +A       ++ +   +  V+ ++K++   L++P+++  
Sbjct: 3   YDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSY 62

Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           I  I + IG   +G I D+R    RA+ E A   + Y   M  + +A+ ++NL+  +   
Sbjct: 63  IFCISRTIGMVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYT-- 120

Query: 127 DEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
             + A  RP GV + F  +D + GP ++  DP+G Y  + A A G   +    +L+  + 
Sbjct: 121 --QRAYMRPLGVILTFVSVDEELGPSIYKTDPAGYYVGYKATATGPKQQEITTNLENHFK 178

Query: 186 ESM-------TLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELS 238
           +S        + ++ +   +T +   +  + +  ++E+   T DK +   S E +EE L 
Sbjct: 179 KSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDK-FFTLSAENIEERLV 237

Query: 239 KVS 241
            ++
Sbjct: 238 AIA 240

>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 =  207 bits (527), Expect = 9e-68
 Identities = 75/234 (32%), Positives = 128/234 (54%), Gaps = 5/234 (2%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
           Y   + TFSP G+L Q+EYA+ A+  G+ ++GI  + GVVLA EK+  S+L +  S+ K+
Sbjct: 5   YSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKV 64

Query: 68  VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
             I KHIG   SG+  D R+L  RAR     ++  Y E +    + Q V+++  ++    
Sbjct: 65  EPITKHIGLVYSGMGPDYRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEY---- 120

Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES 187
            +S   RPFGV++L  G +   P LF  DPSG Y  + A A+G      +  L++ Y+E 
Sbjct: 121 TQSGGVRPFGVSLLICGWNEGRPYLFQSDPSGAYFAWKATAMGKNYVNGKTFLEKRYNED 180

Query: 188 MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVS 241
           + L++AI+  +  LK+  E ++   N+E+        +   +  E+++ L+ ++
Sbjct: 181 LELEDAIHTAILTLKESFEGQMTEDNIEVGICNEAG-FRRLTPTEVKDYLAAIA 233

>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 =  204 bits (521), Expect = 9e-67
 Identities = 82/240 (34%), Positives = 136/240 (56%), Gaps = 12/240 (5%)

Query: 8   YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSS-IKK 66
           YD     FSPEGRL+QVEYA+E+I    TAIGI  S+G+VLAAE+++TS L+E  +  +K
Sbjct: 5   YDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEK 64

Query: 67  IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
           + +++  I  A +GL AD+ IL + AR+   N+  TY+E + +E + + +S++   +   
Sbjct: 65  LYKLNDKIAVAVAGLTADAEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYT-- 122

Query: 127 DEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
             +    RPFGV+ ++AG D +   QL+  +PSG YT + A ++G+ +  AQ  LQ  Y 
Sbjct: 123 --QHGGLRPFGVSFIYAGYDDRYGYQLYTSNPSGNYTGWKAISVGANTSAAQTLLQMDYK 180

Query: 186 ESMTLKEAINHVLTILKQVMEE-KLNSTNVELCTVTAD-----KMYHLYSKEELEEELSK 239
           + M + +AI   L  L +  +   L    +E  T+            ++  +E+++ L K
Sbjct: 181 DDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDILVK 240

>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 =  169 bits (430), Expect = 3e-53
 Identities = 39/229 (17%), Positives = 89/229 (38%), Gaps = 24/229 (10%)

Query: 23  QVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLI 82
           + E A + I  G + + ++  +GV+  AE   T++        K+ E+   +G AA G  
Sbjct: 8   RSELARKGIARGRSVVVLTFRDGVLFVAENPSTAL-------HKVSELYDRLGFAAVGKY 60

Query: 83  ADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLF 142
            +   L     V      ++YD     +   ++++N   Q   +       +P+ V +  
Sbjct: 61  NEFENLRRAGIVHADMRGYSYD---RRDVTGRSLANAYAQTLGTIFTEQP-KPYEVEICV 116

Query: 143 AGLDS----KGPQLFHLDPSGTYTQFDAKAIG-SGSEGAQQSLQEVYHESMTLKEAINHV 197
           A +      K PQL+ +   G+        +    +E    +++E Y   + L+ A+   
Sbjct: 117 AEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPIATAMRESYRADLDLEAAVGIA 176

Query: 198 LTILKQVMEE-----KLNSTNVELCTVTAD---KMYHLYSKEELEEELS 238
           +  L+Q          ++  ++E+  +      + +   +   LE+ + 
Sbjct: 177 VNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVP 225

>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 =  139 bits (351), Expect = 1e-41
 Identities = 40/208 (19%), Positives = 86/208 (41%), Gaps = 11/208 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T +      GV++AA+ R T+   +   ++KK++EI+ ++    +G  AD          
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLLAR 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
           +C  +     E++ + + ++ ++N+  Q+              +  +  G D +GP L++
Sbjct: 62  QCRIYELRNKERISVAAASKLLANMVYQY--------KGMGLSMGTMICGWDKRGPGLYY 113

Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEE-KLNSTN 213
           +D  G        ++GSGS  A   +   Y   + +++A +     + Q       +   
Sbjct: 114 VDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQAYDLARRAIYQATYRDAYSGGA 173

Query: 214 VELCTVTADKMYHLYSKEELEEELSKVS 241
           V L  V  D  +   S + + +   K S
Sbjct: 174 VNLYHVREDG-WIRVSSDNVADLHEKYS 200

>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 =  138 bits (348), Expect = 4e-41
 Identities = 49/219 (22%), Positives = 85/219 (38%), Gaps = 14/219 (6%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T +G+  + GVV+AA+ R T   ++   +  K+  I   I CA +G  AD+  +T     
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLIGS 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
               H      +  + S  Q +     +              G  ++ AG+D  G  LF 
Sbjct: 62  NIELHSLYTSREPRVVSALQMLKQHLFK---------YQGHIGAYLIVAGVDPTGSHLFS 112

Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVL-TILKQVMEEKLNSTN 213
           +   G+       ++GSGS  A   L+  + + +T +EAI      I   +  +  + +N
Sbjct: 113 IHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSN 172

Query: 214 VELCTVTADK---MYHLYSKEELEEELSKVSSIHDPTRP 249
           V++C +   K       Y    + EE  K       T  
Sbjct: 173 VDVCVMEIGKDAEYLRNYLTPNVREEKQKSYKFPRGTTA 211

>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 =  136 bits (342), Expect = 2e-40
 Identities = 53/208 (25%), Positives = 101/208 (48%), Gaps = 12/208 (5%)

Query: 36  TAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T +G+   +GVV+A EKR T    +   + KKI +I   +    +G + D++ L    ++
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARIIKI 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
           E   +    + K  + ++A   SN           S    P+ V +L  G+DS+G  ++ 
Sbjct: 62  EANLYEIRRERKPTVRAIATLTSN--------LLNSYRYFPYLVQLLIGGIDSEGKSIYS 113

Query: 155 LDPSGTYTQF-DAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME-EKLNST 212
           +DP G   +  D  A GSGS  A   L++ +   + + EA+   +  +   M+ +  +  
Sbjct: 114 IDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDEAVELAVRAIYSAMKRDSASGD 173

Query: 213 NVELCTVTADKMYHLYSKEELEEELSKV 240
            +++  +T D+ ++ YS EE+E+ L+K 
Sbjct: 174 GIDVVKITEDE-FYQYSPEEVEQILAKF 200

>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 =  136 bits (344), Expect = 3e-40
 Identities = 35/216 (16%), Positives = 84/216 (38%), Gaps = 9/216 (4%)

Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
           + I  G++ I +    GV++AA+   +   L+  + +++++ +  +     SG I+D + 
Sbjct: 3   QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQH 62

Query: 88  LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS 147
           +    +     + +        E++  +     +        S M  P   A++ AG+ S
Sbjct: 63  IERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKM-NPLWNAIIVAGVQS 121

Query: 148 KGP-QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE-----SMTLKEAINHVLTIL 201
            G   L +++  G        A G G+  A   L++V          T++ A   ++  +
Sbjct: 122 NGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAM 181

Query: 202 KQVME-EKLNSTNVELCTVTADKMYHLYSKEELEEE 236
           + +   +  +S N  L  +  +         ++E  
Sbjct: 182 RVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM 217

>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 =  134 bits (338), Expect = 1e-39
 Identities = 50/207 (24%), Positives = 98/207 (47%), Gaps = 11/207 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T +GI+  + V++A E+R+T    +   + KK+ +ID + G   +GL+ D+++L    + 
Sbjct: 2   TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRYMKA 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
           E   +       M IE+VA  +SN+  Q            P+ V +L  G+D   P +F 
Sbjct: 62  ELELYRLQRRVNMPIEAVATLLSNMLNQV--------KYMPYMVQLLVGGID-TAPHVFS 112

Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME-EKLNSTN 213
           +D +G   +    + GSGS      L+  Y E MT+ E ++ V+  +    + +  +   
Sbjct: 113 IDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEGVDLVIRAISAAKQRDSASGGM 172

Query: 214 VELCTVTADKMYHLYSKEELEEELSKV 240
           +++  +T    Y     +++E  + K+
Sbjct: 173 IDVAVITRKDGYVQLPTDQIESRIRKL 199

>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 =  133 bits (335), Expect = 4e-39
 Identities = 43/211 (20%), Positives = 88/211 (41%), Gaps = 11/211 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T  G+   +G+VL A+ R T  ++    +  KI  I  +I C  +G  AD+ + T     
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLISS 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
               H  +      + +  + +  +  +              G A++  G+D  GP L+ 
Sbjct: 62  NLELHSLSTGRLPRVVTANRMLKQMLFR---------YRGYIGAALVLGGVDVTGPHLYS 112

Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVL-TILKQVMEEKLNSTN 213
           + P G+  +     +GSGS  A    ++ +   M  +EA N V   I   +  +  + +N
Sbjct: 113 IYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEAKNLVSEAIAAGIFNDLGSGSN 172

Query: 214 VELCTVTADKMYHLYSKEELEEELSKVSSIH 244
           ++LC ++ +K+  L       ++ +++    
Sbjct: 173 IDLCVISKNKLDFLRPYTVPNKKGTRLGRYR 203

>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 =  132 bits (332), Expect = 9e-39
 Identities = 43/209 (20%), Positives = 90/209 (43%), Gaps = 12/209 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T +      G+++A + R T+   +   ++K+++EI+  +    +G  AD +        
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWLGS 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
           +C  H     E++ + + ++ +SNL  Q+              +  +  G   K GP ++
Sbjct: 62  QCRLHELREKERISVAAASKILSNLVYQY--------KGAGLSMGTMICGYTRKEGPTIY 113

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVL-TILKQVMEEKLNST 212
           ++D  GT  + D   +GSG   A   L   Y   +++++A+     +IL     +  +  
Sbjct: 114 YVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAAHRDAYSGG 173

Query: 213 NVELCTVTADKMYHLYSKEELEEELSKVS 241
           +V L  VT D  +  +   ++ E   KV 
Sbjct: 174 SVNLYHVTEDG-WIYHGNHDVGELFWKVK 201

>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 =  131 bits (330), Expect = 1e-38
 Identities = 40/204 (19%), Positives = 76/204 (37%), Gaps = 13/204 (6%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T + +    GVVL A+ R T+   +      K+  I   I C  SG  AD++ + D    
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAVTY 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQLF 153
           +   H    +E   + + A     +  ++ +              ++ AG D  +G Q++
Sbjct: 62  QLGFHSIELNEPPLVHTAASLFKEMCYRYRE---------DLMAGIIIAGWDPQEGGQVY 112

Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
            +   G   +      GSGS      +   Y E MT +E +      L   ME   +S  
Sbjct: 113 SVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEECLQFTANALALAMERDGSSGG 172

Query: 213 NVELCTVTADKM-YHLYSKEELEE 235
            + L  +    +   +   +++ +
Sbjct: 173 VIRLAAIAESGVERQVLLGDQIPK 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 =  127 bits (319), Expect = 6e-37
 Identities = 40/209 (19%), Positives = 87/209 (41%), Gaps = 14/209 (6%)

Query: 31  IKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILT 89
           + LG++ + ++  +GV+L A+ R T+   +      K+  +   I C  SG  AD++ + 
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIA 65

Query: 90  DRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK- 148
           D  +     +   Y      E+ A     L  +  D              ++ AG D K 
Sbjct: 66  DIVQYHLELYTSQYGTPST-ETAASVFKELCYENKD---------NLTAGIIVAGYDDKN 115

Query: 149 GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEK 208
             +++ +   G+  +      GSGS        + + E+M+ +E ++ +   L Q ++  
Sbjct: 116 KGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFRENMSKEETVDFIKHSLSQAIKWD 175

Query: 209 LNS-TNVELCTVTADKM-YHLYSKEELEE 235
            +S   + +  +TA  +   ++  +E E+
Sbjct: 176 GSSGGVIRMVVLTAAGVERLIFYPDEYEQ 204

>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 =  124 bits (311), Expect = 2e-35
 Identities = 38/212 (17%), Positives = 75/212 (35%), Gaps = 12/212 (5%)

Query: 29  EAIKLGSTAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRI 87
             +  G++ +G+    GVV+AA+   +   L    +I +I+ ++      ASG  AD + 
Sbjct: 3   NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQY 62

Query: 88  LTDRARVECANHWFTYD-EKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD 146
           L         +     D       ++   ++             +   P    M+  G  
Sbjct: 63  LKQVLGQMVIDEELLGDGHSYSPRAIHSWLTRAMYSR------RSKMNPLWNTMVIGGYA 116

Query: 147 SKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH--ESMTLKEAINHVLTILKQV 204
                L ++D  G   +  + A G G+  AQ  L+EV      ++  EA + V   ++ +
Sbjct: 117 DGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEKQPVLSQTEARDLVERCMRVL 176

Query: 205 ME-EKLNSTNVELCTVTADKMYHLYSKEELEE 235
              +  +    +  TVT      +      E 
Sbjct: 177 YYRDARSYNRFQTATVTEKG-VEIEGPLSTET 207

>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 =  123 bits (310), Expect = 3e-35
 Identities = 42/211 (19%), Positives = 77/211 (36%), Gaps = 27/211 (12%)

Query: 34  GSTAIGISTSEGVVLAAEKRITSVLM-EPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G T +GI+  +  VLA + R  +          K+ +   +I  +A+G  AD   L  R 
Sbjct: 9   GGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-PQ 151
           +     + F +++K           N A +            P+ V  + AGLD  G   
Sbjct: 69  KNSVKWYHFDHNDKK-------LSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGA 121

Query: 152 LFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH-----------------ESMTLKEAI 194
           ++  DP G+Y +   +A G+ +      L    +                 + ++++E I
Sbjct: 122 VYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVI 181

Query: 195 NHVLTILKQVMEEKLNS-TNVELCTVTADKM 224
             V        E  +     +E+  VT D +
Sbjct: 182 KLVRDSFTSATERHIQVGDGLEILIVTKDGV 212

>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 =  120 bits (301), Expect = 3e-34
 Identities = 37/203 (18%), Positives = 77/203 (37%), Gaps = 11/203 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
             +GI   + V+LA+ K +T  +     S  K  ++  H   + +G   D+    +  + 
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQA 62

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK--GPQL 152
               +    D ++  ++V+  V     +           RP+ V +L  G D K   P+L
Sbjct: 63  NIQLYSIREDYELSPQAVSSFVRQELAKS------IRSRRPYQVNVLIGGYDKKKNKPEL 116

Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME-EKLNS 211
           + +D  GT  +    A G         L   Y   MT +E ++ +   ++++ +   ++ 
Sbjct: 117 YQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDLLKLCVQELEKRMPMDF 176

Query: 212 TNVELCTVTADKMYHLYSKEELE 234
             V +  V  D         + +
Sbjct: 177 KGVIVKIVDKDG-IRQVDDFQAQ 198

>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 =  114 bits (287), Expect = 4e-32
 Identities = 29/195 (14%), Positives = 69/195 (35%), Gaps = 13/195 (6%)

Query: 34  GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G   + +     V +AA++R      +  +  +KI  +   +    +GL  D + +  R 
Sbjct: 7   GGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 66

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGP-- 150
           +     +      ++   ++   V+NL  +            P+    + AGLD K    
Sbjct: 67  KFRLNLYELKEGRQIKPYTLMSMVANLLYEK--------RFGPYYTEPVIAGLDPKTFKP 118

Query: 151 QLFHLDPSGTYTQFDAKAIG-SGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME-EK 208
            +  LD  G     D   +  + +E      + ++  +M        +   +   ++ + 
Sbjct: 119 FICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEPNMDPDHLFETISQAMLNAVDRDA 178

Query: 209 LNSTNVELCTVTADK 223
           ++   V +  +  DK
Sbjct: 179 VSGMGVIVHIIEKDK 193

>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 =  114 bits (287), Expect = 4e-32
 Identities = 33/195 (16%), Positives = 75/195 (38%), Gaps = 14/195 (7%)

Query: 34  GSTAIGISTSEGVVLAAEKRITSVLMEPSS-IKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G   + ++  + V +A + R+ S  +  S+  +KI     H+    +GL  D   L +  
Sbjct: 8   GGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEMF 66

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG--P 150
           R +   +    +  ++ E+  Q VS+   +            P+ V  + AG++SK   P
Sbjct: 67  RYKTNLYKLKEERAIEPETFTQLVSSSLYER--------RFGPYFVGPVVAGINSKSGKP 118

Query: 151 QLFHLDPSGTYTQFDAK-AIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME-EK 208
            +   D  G   +       G+ S+      + +Y  ++  ++    +   L    + + 
Sbjct: 119 FIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEPEDLFETISQALLNAADRDA 178

Query: 209 LNSTNVELCTVTADK 223
           L+     +  +  D+
Sbjct: 179 LSGWGAVVYIIKKDE 193

>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 =  113 bits (283), Expect = 2e-31
 Identities = 36/217 (16%), Positives = 79/217 (36%), Gaps = 13/217 (5%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T + ++   GV+LA ++R T   L+    ++K+   D++     +G    +  L     V
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLFAV 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
           E  ++       +  +  A  ++++      +  +     P  V       D     ++ 
Sbjct: 62  ELEHYEKIEGVPLTFDGKANRLASMVRGNLGAAMQGLAVVPLLVGYDLDADDESRAGRIV 121

Query: 154 HLDPSGTYTQFDAK--AIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS 211
             D  G   +  A   A+GSGS  A+ +L+++Y      + A+   +  L    ++   +
Sbjct: 122 SYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYSPDSDEETALRAAIESLYDAADDDSAT 181

Query: 212 --------TNVELCTVTADKMYHLYSKEELEEELSKV 240
                         T+T        S+E   E   ++
Sbjct: 182 GGPDLTRGIYPTAVTITQAG-AVHVSEETTSELARRI 217

>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 =  106 bits (264), Expect = 8e-29
 Identities = 32/205 (15%), Positives = 75/205 (36%), Gaps = 10/205 (4%)

Query: 35  STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
              IGI   + V++A+++   S ++       K+ ++ + I     G   D+    +  +
Sbjct: 2   EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQ 61

Query: 94  VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQL 152
                +      ++   + A            S        P+ V +L AG D   GP L
Sbjct: 62  KNVQLYKMRNGYELSPTAAANFTRRNLADCLRSR------TPYHVNLLLAGYDEHEGPAL 115

Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME-EKLNS 211
           +++D      +    A G G+      L   Y  +++ + A+  +   L+++ +   LN 
Sbjct: 116 YYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRERAVELLRKCLEELQKRFILNL 175

Query: 212 TNVELCTVTADKMYHLYSKEELEEE 236
               +  +  + ++ L       ++
Sbjct: 176 PTFSVRIIDKNGIHDL-DNISFPKQ 199

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 213

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

 Score = 99.2 bits (246), Expect = 4e-26
 Identities = 41/202 (20%), Positives = 75/202 (37%), Gaps = 20/202 (9%)

Query: 34  GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
           G T + I+  +  ++A++ R++    +      K  ++        SG   D   LT   
Sbjct: 9   GGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

Query: 93  RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQL 152
                 +  + ++ M   ++A  +S +               P+ V  +  GLD +G   
Sbjct: 69  EARLKMYKHSNNKAMTTGAIAAMLSTILYSR--------RFFPYYVYNIIGGLDEEGKGA 120

Query: 153 FH-LDPSGTYTQFDAKAIGSGSEGAQQSL---------QEVYHESMTLKEAINHVLTILK 202
            +  DP G+Y +   KA GS S   Q  L         Q V H  ++L  A+  V  +  
Sbjct: 121 VYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNMQNVEHVPLSLDRAMRLVKDVFI 180

Query: 203 QVME-EKLNSTNVELCTVTADK 223
              E +      + +C VT + 
Sbjct: 181 SAAERDVYTGDALRICIVTKEG 202

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

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

 Score = 56.7 bits (136), Expect = 1e-10
 Identities = 14/163 (8%), Positives = 41/163 (25%), Gaps = 16/163 (9%)

Query: 34  GSTAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDR 91
            +T   +       ++ + ++T    ++   + +K+ ++      A              
Sbjct: 5   ATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64

Query: 92  ARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQ 151
                   +    ++             A++         + R     ++    +     
Sbjct: 65  KFEAKLEEYNGNLKRA------------AVELAKEWRSDKVLRKLEAMLIVM--NQDTLL 110

Query: 152 LFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAI 194
           L               AIGSG   A  + + +   +     A 
Sbjct: 111 LVSGTGEVIEPDDGILAIGSGGNYALAAGRALKKHAGESMSAS 153

>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 = 55.1 bits (132), Expect = 4e-10
 Identities = 21/167 (12%), Positives = 54/167 (32%), Gaps = 16/167 (9%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T + +  +   V+  + ++T    +   + +K+ ++ +    A         +       
Sbjct: 2   TILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFE 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
                W     K  +E      ++  ++               +  L    D +   +  
Sbjct: 62  AKLREWGGNLTKAAVELAKDWRTDRVLR--------------RLEALLLVADKENIFIIS 107

Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQ-EVYHESMTLKEAINHVLTI 200
            +        DA AIGSG   A  + +  + +  ++ +E +   +TI
Sbjct: 108 GNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLSAREIVEKAMTI 154

>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 = 39.4 bits (91), Expect = 1e-04
 Identities = 16/143 (11%), Positives = 39/143 (27%), Gaps = 14/143 (9%)

Query: 36  TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
           T + +  +  VV+  + +++    +   + +K+  +      A                 
Sbjct: 2   TIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFE 61

Query: 95  ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
                   +  K  +E      ++              +     AML    + +   +  
Sbjct: 62  RKLEMHQGHLLKSAVELAKDWRTD-------------RALRKLEAMLIVADEKESLIITG 108

Query: 155 LDPSGTYTQFDAKAIGSGSEGAQ 177
           +       +    AIGSG   A 
Sbjct: 109 IGDVVQPEEDQILAIGSGGNYAL 131

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	251
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	100.0
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	100.0
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	100.0
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	100.0
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	100.0
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	100.0
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	100.0
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	100.0
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	100.0
d1ryp1_	222	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
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.92
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.9
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.89

>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=2.5e-63  Score=417.58  Aligned_cols=233  Identities=74%  Similarity=1.122  Sum_probs=223.3

Q ss_pred             CCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHH
Q psy5094           8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRI   87 (251)
Q Consensus         8 yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~   87 (251)
                      ||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+.+++..++.+||++|+++++|+++|..+|++.
T Consensus         1 yd~~~t~fsp~G~l~QvEYa~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~   80 (234)
T d1irue_           1 YDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHIGCAMSGLIADAKT   80 (234)
T ss_dssp             CCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEETTEEEEEEECHHHHHH
T ss_pred             CCCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCccCCCcccCcccCEEEccCcEEEEEeeccchHHH
Confidence            89999999999999999999999999999999999999999999999888877888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCcccc-ccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCE
Q psy5094          88 LTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE-SAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDA  166 (251)
Q Consensus        88 l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~-~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~  166 (251)
                      +++.++.++..|++.++++++++.+++.+++++|.|+++.+. ..+.|||+|++|+||||++||+||.+||.|++.++++
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            999999999999999999999999999999999999998764 3356999999999999999999999999999999999


Q ss_pred             EEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhh
Q psy5094         167 KAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV  240 (251)
Q Consensus       167 ~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~  240 (251)
                      +|+|+|++.++++|++.|+++|+++||++++++||+.+.+++.++++++|++|++++++++++++||+++++++
T Consensus       161 ~a~G~gs~~~~~~Le~~~~~~~~~eeai~~a~~al~~~~~~~~~~~~iei~ii~~~~~~k~l~~~ei~~~l~~i  234 (234)
T d1irue_         161 RAIGSASEGAQSSLQELYHKSMTLKEAIKSSLIILKQVMEEKLNATNIELATVQPGQNFHMFTKEELEEVIKDI  234 (234)
T ss_dssp             EEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEECSSSCCEECCHHHHHHHHTTC
T ss_pred             EEeCCchHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhccCCCCCEEEEEEECCCCEEECCHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999988888889999999998889999999999998754

>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=5.4e-62  Score=411.77  Aligned_cols=236  Identities=28%  Similarity=0.587  Sum_probs=223.2

Q ss_pred             CCcCCCCCCCceeCCCCcchhhhhHHHHHhcCC-cEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccc
Q psy5094           3 LTRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGL   81 (251)
Q Consensus         3 ~~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~-tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~   81 (251)
                      ++.++||+++|+|||||||+|||||+||+++|+ |+|||+++||||||+|++.+++++..++.+||++|++|++|+++|.
T Consensus         3 ~~~~gyd~~~t~Fsp~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~   82 (244)
T d1irua_           3 GSSAGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKITENIGCVMTGM   82 (244)
T ss_dssp             SCCCTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESSSSCEEEEEEC
T ss_pred             CCCCCcCCCCceECCCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCccceEEEecCCcEEEEecc
Confidence            577899999999999999999999999999875 8999999999999999999887777788999999999999999999


Q ss_pred             hhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCc
Q psy5094          82 IADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGT  160 (251)
Q Consensus        82 ~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~  160 (251)
                      .+|++.+.+.++.+++.|++.++++++++.+++.+++++|.++++++.    |||+|++||+|||+ +||+||.+||+|+
T Consensus        83 ~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~----rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~  158 (244)
T d1irua_          83 TADSRSQVQRARYEAANWKYKYGYEIPVDMLCKRIADISQVYTQNAEM----RPLGCCMILIGIDEEQGPQVYKCDPAGY  158 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSB----CCCSEEEEEEEEETTTEEEEEEECTTSC
T ss_pred             hHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHhccccc----CccceeeEEEEEcCCCCcEEEEEcCCcc
Confidence            999999999999999999999999999999999999999999998766    99999999999996 5799999999999


Q ss_pred             eeecCEEEeCCCchhHHHHHHhhhc--CCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCC-EEEcCHHHHHHHH
Q psy5094         161 YTQFDAKAIGSGSEGAQQSLQEVYH--ESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKM-YHLYSKEELEEEL  237 (251)
Q Consensus       161 ~~~~~~~a~G~g~~~~~~~Le~~~~--~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~-~~~~~~~ei~~~~  237 (251)
                      +.+++++|+|+|+..++++||++|+  ++|+++||++++++||+.+.++|.++++++|++|+++++ +++++++||++++
T Consensus       159 ~~~~~~~a~G~gs~~~~~~Le~~~~~~~d~t~eeai~l~~~~l~~~~~~d~~~~~iev~ii~~~~~~~~~l~~~ei~~~l  238 (244)
T d1irua_         159 YCGFKATAAGVKQTESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEAEIDAHL  238 (244)
T ss_dssp             EEEBSEEEEETTHHHHHHHHHHHTTSCCCCCHHHHHHHHHHHHHHHTTCCCCTTSEEEEEEETTEEEEEECCHHHHHHHH
T ss_pred             EEecceEeccCchhHHHHHHHhccccccCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEeCCCcEEECCHHHHHHHH
Confidence            9999999999999999999999995  489999999999999999999998888899999999864 8999999999999


Q ss_pred             Hhhcc
Q psy5094         238 SKVSS  242 (251)
Q Consensus       238 ~~~~~  242 (251)
                      ..+.+
T Consensus       239 ~~~~~  243 (244)
T d1irua_         239 VALAE  243 (244)
T ss_dssp             HHHHT
T ss_pred             HHHhc
Confidence            88764

>d1j2pa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

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

Probab=100.00  E-value=2.5e-61  Score=407.46  Aligned_cols=233  Identities=39%  Similarity=0.669  Sum_probs=222.7

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      ..+||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+++++..++.+||++|+++++|+++|..+|
T Consensus         2 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~t~Igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   81 (243)
T d1j2pa_           2 QMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHICAATSGLVAD   81 (243)
T ss_dssp             CTTSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECSSSEEEEEEECHHH
T ss_pred             CCCcCCCCccCCCCCcchHHHHHHHHHHcCCCEEEEEECCEEEEEEecCccccCccccccccEeecCCcEEEEeeecccH
Confidence            46899999999999999999999999999999999999999999999999998777778899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeec
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQF  164 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~  164 (251)
                      ++.+.++++.+++.|++.++.+++++.+++.++..+|.++++.+.    |||+|++|+||+|+ +|+||.+||+|++.++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~----rP~~~~~il~G~D~-~p~Ly~~Dp~G~~~~~  156 (243)
T d1j2pa_          82 ARVLIDRARIEAQINRLTYDIPITVKELAKKICDFKQQYTQYGGV----RPFGVSLLIAGVNE-VPKLYETDPSGALLEY  156 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTB----CCCCEEEEEEEESS-SEEEEEECTTCCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccC----CccceeEEEEEecC-CceEEEEeccCceeee
Confidence            999999999999999999999999999999999999999998876    99999999999986 5999999999999999


Q ss_pred             CEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCC-CEEEcCHHHHHHHHHhhcc
Q psy5094         165 DAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADK-MYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       165 ~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~-~~~~~~~~ei~~~~~~~~~  242 (251)
                      +++|+|+|+..++++|++.|+++||++||++++++||+.+.++|+++++++|+++++++ ++++++++||+++++.+++
T Consensus       157 ~~~a~G~g~~~a~~~Le~~y~~~ms~eeai~la~~~l~~~~~~d~~~~~iei~iv~~~~~~~~~l~~~ei~~~~~~~~e  235 (243)
T d1j2pa_         157 KATAIGMGRMAVTEFFEKEYRDDLSFDDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFKEVSPEELKPYVERANE  235 (243)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHHTSCCCGGGEEEEEEETTTCCCEECCHHHHHHHHHHHHH
T ss_pred             eEEEeCCCcHHHHHHHHhhcccCCCHHHHHHHHHHHHHHHHhcccCCCceEEEEEEeCCCcEEECCHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999888899999999864 5999999999999887764

>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=2e-61  Score=409.68  Aligned_cols=238  Identities=33%  Similarity=0.580  Sum_probs=223.5

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCccc-CCCccCcEEEEcCcEEEEeccchhH
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLM-EPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~-~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      .+||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+++++ .+++.+||++|++|++|+++|..+|
T Consensus         2 ~~yd~~~t~fsp~Grl~QvEyA~kav~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   81 (250)
T d1iruc_           2 RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSD   81 (250)
T ss_dssp             TTTCCCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHH
T ss_pred             CccCCCCeeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccch
Confidence            589999999999999999999999999999999999999999999999998654 4678899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceee
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~  163 (251)
                      ++.+++.++.++..|++.++++++++.+++.+++++|.+++++++    |||++++||+|+|+ +||+||.+||+|++.+
T Consensus        82 ~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~~~----rP~~~~~li~G~D~~~gp~Ly~~Dp~G~~~~  157 (250)
T d1iruc_          82 ANVLTNELRLIAQRYLLQYQEPIPCEQLVTALCDIKQAYTQFGGK----RPFGVSLLYIGWDKHYGFQLYQSDPSGNYGG  157 (250)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBSSC----CCCCEEEEEEEEETTTEEEEEEEETTTEEEE
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhhccC----CcceEEEEEEEEcCCCCCEEEEEcccccEee
Confidence            999999999999999999999999999999999999999998877    99999999999996 5799999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcC-CCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC---EEEcCHHHHHHHHH
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHE-SMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM---YHLYSKEELEEELS  238 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~-~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~---~~~~~~~ei~~~~~  238 (251)
                      ++++|+|+|+..++++|++.|++ +||++||++++++||+.+.++|. ++++++|++|+++++   +++++++||+++++
T Consensus       158 ~~~~a~G~gs~~a~~~Le~~y~~~~ms~eeai~la~~al~~~~~~d~~~~~~iei~ii~~~~~~~~~~~l~~~Ei~~~l~  237 (250)
T d1iruc_         158 WKATCIGNNSAAAVSMLKQDYKEGEMTLKSALALAIKVLNKTMDVSKLSAEKVEIATLTRENGKTVIRVLKQKEVEQLIK  237 (250)
T ss_dssp             CSEEEESTTTTHHHHHHHHHCCTTCCCHHHHHHHHHHHHHHSSSCTTCCSTTCEEEEEECCSSSCEEEECCHHHHHHHHH
T ss_pred             eeEEEeCcChHHHHHHHHhhcccCCCCHHHHHHHHHHHHHHHhcccCCCCCeEEEEEEEcCCCceeEEECCHHHHHHHHH
Confidence            99999999999999999999985 89999999999999999998874 778999999999875   88999999999999


Q ss_pred             hhccC-CCCC
Q psy5094         239 KVSSI-HDPT  247 (251)
Q Consensus       239 ~~~~~-~~~~  247 (251)
                      ++++. -+++
T Consensus       238 ~~~e~~~~a~  247 (250)
T d1iruc_         238 KHEEEEAKAE  247 (250)
T ss_dssp             HHHTTTTTTS
T ss_pred             HHHHHhhhHh
Confidence            98854 3443

>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=2.1e-61  Score=409.68  Aligned_cols=232  Identities=32%  Similarity=0.552  Sum_probs=220.0

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      .+.||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+++++..++.+||++|++|++|+++|..+|
T Consensus         2 ~~~yd~~~t~fsp~G~l~QvEyA~kav~~G~tvvgi~~~dgVvlaad~r~~~~~~~~~~~~ki~~I~~~i~~~~sG~~~D   81 (250)
T d1rypb_           2 TDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGPD   81 (250)
T ss_dssp             CCCCCSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEETTEEEEEEECHHH
T ss_pred             CccccCCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCccccccccceeEeccCCEEEEeeecccH
Confidence            47899999999999999999999999999999999999999999999998887777888899999999999999999999


Q ss_pred             HHHHHHHHHHHHH-HHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCcee
Q psy5094          85 SRILTDRARVECA-NHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYT  162 (251)
Q Consensus        85 ~~~l~~~~~~~~~-~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~  162 (251)
                      ++.+++.++.+++ .|+..++.+++++.+++.+++++|.|+++.+.    |||++++||+|+|+ +||+||++||.|++.
T Consensus        82 ~~~l~~~~~~~~~~~y~~~~~~~~~~~~la~~~~~~~~~~~~~~~~----rp~~v~~li~G~D~~~gp~Ly~id~~G~~~  157 (250)
T d1rypb_          82 YRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGV----RPFGVSLLIAGHDEFNGFSLYQVDPSGSYF  157 (250)
T ss_dssp             HHHHHHHHHHHHHHTTHHHHSSCCCHHHHHHHHHHHHHHTTTSBTB----CCCCEEEEEEEEETTTEEEEEEECTTSCEE
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHhhhcCC----cCeeEEEEEEEecCCCCCEEEEEcCcEEEE
Confidence            9999999999986 58999999999999999999999999998766    99999999999995 679999999999999


Q ss_pred             ecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCC---------------EEE
Q psy5094         163 QFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKM---------------YHL  227 (251)
Q Consensus       163 ~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~---------------~~~  227 (251)
                      +++++|+|+|+..++++|++.|+++|+++||++++++||+.+.++|.++.+++|++|++++.               |++
T Consensus       158 ~~~~~a~G~gs~~a~~~Le~~~~~~ms~eea~~la~~al~~~~~~d~s~~~iev~vi~~~~~~~~~~~~v~~~~~~~fr~  237 (250)
T d1rypb_         158 PWKATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRK  237 (250)
T ss_dssp             EBSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCCSCCSTTTEEEEEECSCCGGGTSEESCSSCCCCSEEE
T ss_pred             EeeEEecCcchHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHhhccCCCCCEEEEEEeCCCcccccccccccccCCceEE
Confidence            99999999999999999999999999999999999999999999988888999999988642               899


Q ss_pred             cCHHHHHHHHHhh
Q psy5094         228 YSKEELEEELSKV  240 (251)
Q Consensus       228 ~~~~ei~~~~~~~  240 (251)
                      ++++||+++++.+
T Consensus       238 ls~eei~~~l~~l  250 (250)
T d1rypb_         238 LTSQEINDRLEAL  250 (250)
T ss_dssp             CCHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHhC
Confidence            9999999999754

>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=3e-62  Score=410.66  Aligned_cols=227  Identities=33%  Similarity=0.557  Sum_probs=215.7

Q ss_pred             CcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchh
Q psy5094           4 TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIA   83 (251)
Q Consensus         4 ~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~   83 (251)
                      +|++||+.+|+|||||||+|||||+||+++|+|+|||+++||||||+|++.++++.  .+.+||+.|+++++|+++|..+
T Consensus         1 ~~~~yd~~~t~FspdGrl~QvEyA~kav~~g~t~igi~~~dgvvlaad~~~~~~l~--~~~~KI~~I~~~i~~~~sG~~~   78 (233)
T d1rypf_           1 FRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCDEHMGLSLAGLAP   78 (233)
T ss_dssp             CHHHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEETTEEEEEEECHH
T ss_pred             CCccccCCCceECCCCcChHHHHHHHHHHcCCCEEEEEECCeEEEEEeccccccCC--cchheEEEcCCCEEEEEeeccc
Confidence            57899999999999999999999999999999999999999999999999988763  5668999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceee
Q psy5094          84 DSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~  163 (251)
                      |++.++++++.+|+.|++.++++++++.+++.|++++|+|+++++.    |||++++||+|+|++||+||++||+|++.+
T Consensus        79 D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~l~~~~~~~t~~~~~----RP~gv~~il~G~d~~g~~Ly~idp~G~~~~  154 (233)
T d1rypf_          79 DARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGG----RPYGVGLLIIGYDKSGAHLLEFQPSGNVTE  154 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHBTTC----CCCCEEEEEEEEETTEEEEEEECTTSCEEE
T ss_pred             cHHHHHHHHHHHHHhhhhhcCCCCcHHHHHHHHHHHHHHHhccccc----CCccceEEEEEEcCCCCEEEEEccccceec
Confidence            9999999999999999999999999999999999999999998776    999999999999999999999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhh----cCCCCHHHHHHHHHHHHHHHhhhc-CCCCcEEEEEEEcCCCEEEcCHHHHHHH
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVY----HESMTLKEAINHVLTILKQVMEEK-LNSTNVELCTVTADKMYHLYSKEELEEE  236 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~----~~~~s~~ea~~l~~~~l~~~~~~d-~~~~~i~i~~i~~~~~~~~~~~~ei~~~  236 (251)
                      ++++|+|+|++.++++|++.|    +++|+++||++++++||+.+.+++ .++.+++|++|++++++++++++||+++
T Consensus       155 ~~~~aiG~gs~~a~~~Le~~~~~~~~~dms~eeai~l~~~~l~~~~~~d~~~~~~iev~ii~k~~~~~~l~~~ei~~~  232 (233)
T d1rypf_         155 LYGTAIGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKY  232 (233)
T ss_dssp             ESEEEESTTHHHHHHHHHHHHHHHTTCCSCHHHHHHHHHHHHTTSCCSSCCCTTTEEEEEEETTEEEEEEEGGGGGGG
T ss_pred             ccEEEecCchHHHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHHhccCCCCCeEEEEEEECCCCeEECCHHHHHhh
Confidence            999999999999999999865    569999999999999999998877 4788999999999989999999999865

>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=2e-61  Score=408.29  Aligned_cols=234  Identities=32%  Similarity=0.514  Sum_probs=216.7

Q ss_pred             CcCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchh
Q psy5094           4 TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIA   83 (251)
Q Consensus         4 ~~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~   83 (251)
                      +.++||+++|+|||||||+|||||++|+++|+|+|||+++||||||+|++.+++++..++.+||++|++|++|+++|..+
T Consensus         3 ~~~~yd~~~t~Fsp~Grl~QvEYa~~av~~G~t~VGik~~dgVvlaad~~~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~   82 (245)
T d1irug_           3 IGTGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVDRHVGMAVAGLLA   82 (245)
T ss_dssp             CCSSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEETTEEEEEEECHH
T ss_pred             CccccCCCCceECCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEeccccccccccCccceEEEcCCCEEEEeccCch
Confidence            57899999999999999999999999999999999999999999999999888877788889999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCcee
Q psy5094          84 DSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYT  162 (251)
Q Consensus        84 D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~  162 (251)
                      |++.++++++.+++.|++.++.+++++.+++.+++++|.|+++++.    |||+|++||+|+|+ +||+||.+||+|++.
T Consensus        83 D~~~l~~~~~~~~~~~~~~~g~~i~~~~la~~la~~~~~~t~~~~~----rP~~vs~li~G~D~~~gp~Ly~iDp~G~~~  158 (245)
T d1irug_          83 DARSLADIAREEASNFRSNFGYNIPLKHLADRVAMYVHAYTLYSAV----RPFGCSFMLGSYSVNDGAQLYMIDPSGVSY  158 (245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSBSSB----CCCSEEEEEEEEETTTEEEEEEECTTCCEE
T ss_pred             hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhccccc----cccceEEEEEEEcCCCCceEEEEcCCceEE
Confidence            9999999999999999999999999999999999999999998876    99999999999994 579999999999999


Q ss_pred             ecCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcC-CCEEEcCHHHHHHHHHhh
Q psy5094         163 QFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTAD-KMYHLYSKEELEEELSKV  240 (251)
Q Consensus       163 ~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~-~~~~~~~~~ei~~~~~~~  240 (251)
                      +++++|+|+|++.++++|++.|+++||.+||++++++||+.+.+++. +..+++|.+|+++ ++++++.++|+.+.++++
T Consensus       159 ~~~~~a~G~gs~~a~~~Le~~~~~dmt~eea~~l~~~~l~~~~~~~~~~~~~iei~~v~~~~~~~~~~~~~e~~~~~~~~  238 (245)
T d1irug_         159 GYWGCAIGKARQAAKTEIEKLQMKEMTCRDIVKEVAKIIYIVHDEVKDKAFELELSWVGELTNGRHEIVPKDIREEAEKY  238 (245)
T ss_dssp             EBSEEEESTTHHHHHHHHTTSCGGGCCHHHHHHHHHHHHHHHSCSSSSCCEEEEEEECBTTTTTCCEECCHHHHHHHHHH
T ss_pred             eeeEEEECCccHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEEEEecCCCeEEEChHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999987754 5668999999886 345666666766665554


Q ss_pred             c
Q psy5094         241 S  241 (251)
Q Consensus       241 ~  241 (251)
                      .
T Consensus       239 ~  239 (245)
T d1irug_         239 A  239 (245)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=7.7e-61  Score=399.17  Aligned_cols=221  Identities=40%  Similarity=0.676  Sum_probs=213.4

Q ss_pred             ceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHH
Q psy5094          13 NTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA   92 (251)
Q Consensus        13 ~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~   92 (251)
                      |+|||||||+|||||+||+++|+|+|||+++||||||+|++.+.+++..++.+||++|++|++|+++|..+|++.+.+.+
T Consensus         1 t~fsp~G~l~QvEYa~~av~~G~t~vgi~~~dgVvlaad~r~~~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~   80 (221)
T d1yara1           1 TVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDFA   80 (221)
T ss_dssp             CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHHH
T ss_pred             CeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCccceEEEecCCceEEeeeccchHHHHHHHH
Confidence            79999999999999999999999999999999999999999887777788889999999999999999999999999999


Q ss_pred             HHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCC
Q psy5094          93 RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSG  172 (251)
Q Consensus        93 ~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g  172 (251)
                      +.+++.|++.++++++++.+++.++.++|.++++.+.    |||++++|+||+|++||+||++||.|++.+++++|+|+|
T Consensus        81 ~~~~~~~~~~~~~~~~~~~l~~~~a~~~~~~~~~~~~----rP~~~~~li~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g  156 (221)
T d1yara1          81 RISAQQEKVTYGSLVNIENLVKRVADQMQQYTQYGGV----RPYGVSLIFAGIDQIGPRLFDCDPAGTINEYKATAIGSG  156 (221)
T ss_dssp             HHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTBTTB----CCCCEEEEEEEECSSCEEEEEECTTCCEEEBSEEEESTT
T ss_pred             HHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhhhccC----CCcceEEEEEEEecCCCeEEEEcCCccEEEeeEEEECCc
Confidence            9999999999999999999999999999999998776    999999999999999999999999999999999999999


Q ss_pred             chhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHH
Q psy5094         173 SEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEEL  237 (251)
Q Consensus       173 ~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~  237 (251)
                      +..++++|++.|+++||++||++++++||+.+.+++.+.++++|++|++++++|+++++||+++|
T Consensus       157 ~~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~~~~~ei~~i~~~~~~r~l~~~ei~~~l  221 (221)
T d1yara1         157 KDAVVSFLEREYKENLPEKEAVTLGIKALKSSLEEGEELKAPEIASITVGNKYRIYDQEEVKKFL  221 (221)
T ss_dssp             HHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHTSCSSCCCCCCEEEEEETTSCCEECCHHHHHTTC
T ss_pred             hHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEcCCCEEECCHHHHHHhC
Confidence            99999999999999999999999999999999988888889999999998899999999998753

>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=4e-61  Score=405.01  Aligned_cols=232  Identities=32%  Similarity=0.567  Sum_probs=219.1

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHH
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADS   85 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~   85 (251)
                      ..||+.+|+|||||||+|||||.||+++|+|+|||+++||||||+|++.++++..  +.+||++|+++++|++||..+|+
T Consensus         1 ~~yd~~~tiFsp~Grl~QvEYA~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~--~~~KI~~I~~~i~~~~sG~~~D~   78 (238)
T d1iruf_           1 NQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAA--HQKKILHVDNHIGISIAGLTADA   78 (238)
T ss_dssp             CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTBC--CCCCEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccccCCCC--ccceEEEeCCceEEEEeccchHH
Confidence            4799999999999999999999999999999999999999999999999987754  45799999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecC
Q psy5094          86 RILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFD  165 (251)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~  165 (251)
                      +.+++.++.+++.|++.++++++++.+++.+++..|.|++++++    |||++++||||||++||+||++||+|++.+++
T Consensus        79 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~l~~~~~~y~~~~~~----rP~~v~~il~G~D~~gp~Ly~~D~~G~~~~~~  154 (238)
T d1iruf_          79 RLLCNFMRQECLDSRFVFDRPLPVSRLVSLIGSKTQIPTQRYGR----RPYGVGLLIAGYDDMGPHIFQTCPSANYFDCR  154 (238)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTC----CCCCEEEEEEEEETTEEEEEEECSSSCEEEES
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHHHhhccCC----CcccceEEEEEEcCCCceEEEEcCCCCEEeee
Confidence            99999999999999999999999999999999999999998776    99999999999999999999999999999999


Q ss_pred             EEEeCCCchhHHHHHHhhhcCC--CCHHHHHHHHHHHHHHHhhhc--CCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhc
Q psy5094         166 AKAIGSGSEGAQQSLQEVYHES--MTLKEAINHVLTILKQVMEEK--LNSTNVELCTVTADKMYHLYSKEELEEELSKVS  241 (251)
Q Consensus       166 ~~a~G~g~~~~~~~Le~~~~~~--~s~~ea~~l~~~~l~~~~~~d--~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~  241 (251)
                      ++|+|+|+..++++|++.|+++  ++++||++++++||+.+...+  .++.+|+|++|++++++++++++||+++++.++
T Consensus       155 ~~a~G~g~~~~~~~Lek~~~~~~~~~~~eav~lai~al~~~~~~~~~~~~~~iev~ii~k~~~~~~l~~~ei~~~l~~i~  234 (238)
T d1iruf_         155 AMSIGARSQSARTYLERHMSEFMECNLNELVKHGLRALRETLPAEQDLTTKNVSIGIVGKDLEFTIYDDDDVSPFLEGLE  234 (238)
T ss_dssp             EEEESTTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTSCTTCCCCTTTEEEEEEETTEEEEEECSGGGHHHHTTCC
T ss_pred             eEEECCCchhhHHHHHhhcccccCCCHHHHHHHHHHHHHHHHhhcccCCCCcEEEEEEeCCCCEEECCHHHHHHHHHHHH
Confidence            9999999999999999999985  599999999999999887543  577889999999998899999999999999887


Q ss_pred             cC
Q psy5094         242 SI  243 (251)
Q Consensus       242 ~~  243 (251)
                      +.
T Consensus       235 ek  236 (238)
T d1iruf_         235 ER  236 (238)
T ss_dssp             CC
T ss_pred             hC
Confidence            64

>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=1.8e-60  Score=399.90  Aligned_cols=231  Identities=32%  Similarity=0.580  Sum_probs=222.6

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      ..+||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+++++..++.+||++|+++++|+++|..+|
T Consensus         2 ~~gyd~~~t~fsp~Gr~~Qveya~kav~~G~tvigik~~dgVvlaaD~r~~~~~~~~~~~~ki~~i~~~i~~~~sG~~~D   81 (233)
T d1irub_           2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITKHIGLVYSGMGPD   81 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESSSSEEEEEEECHHH
T ss_pred             CCCcCCCCCeECCCCcChHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCcccCCccccccceEEEecCceEEEEeccchH
Confidence            46999999999999999999999999999999999999999999999999988777888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeec
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQF  164 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~  164 (251)
                      ++.++++++.+++.|++.++++++++.+++.+++++|++++....    |||++.++++|+|++||+||.+||.|++.++
T Consensus        82 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~----~p~~~~~li~g~d~~~~~ly~id~~G~~~~~  157 (233)
T d1irub_          82 YRVLVHRARKLAQQYYLVYQEPIPTAQLVQRVASVMQEYTQSGGV----RPFGVSLLICGWNEGRPYLFQSDPSGAYFAW  157 (233)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTTSBTB----CCCSEEEEEEEECSSSEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccc----ccceEEEeeeecccCCceEEEEcCCcceEec
Confidence            999999999999999999999999999999999999999988765    9999999999999999999999999999999


Q ss_pred             CEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhh
Q psy5094         165 DAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV  240 (251)
Q Consensus       165 ~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~  240 (251)
                      +++|+|+|+.+++++|++.|+++|+++||++++++||+.+.+++++.++++|++|+++ ++++++++||++++..+
T Consensus       158 ~~~a~G~gs~~~~~~Le~~~~~~ms~eea~~l~~~~L~~~~~~d~~~~~vev~ii~~~-g~~~l~~~eI~~~l~~i  232 (233)
T d1irub_         158 KATAMGKNYVNGKTFLEKRYNEDLELEDAIHTAILTLKESFEGQMTEDNIEVGICNEA-GFRRLTPTEVKDYLAAI  232 (233)
T ss_dssp             SEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHTTCCSCCCSSSEEEEEEETT-EEEECCHHHHHHHHTTC
T ss_pred             cceecCCcHHHHHHHHHhhcccCccHHHHHHHHHHHHHHHHhccCCCCcEEEEEEeCC-CeEECCHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999888888999999987 79999999999999765

>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=9.9e-61  Score=403.67  Aligned_cols=235  Identities=57%  Similarity=0.881  Sum_probs=222.6

Q ss_pred             CCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHHH
Q psy5094           9 DRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRIL   88 (251)
Q Consensus         9 d~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l   88 (251)
                      |+++|+|||||||+|||||+||+++|+|+|||+++||||||+|+|.+.++...++.+||+.|+++++|+++|..+|++.+
T Consensus         1 d~~~t~fsp~G~l~Qveya~~a~~~G~t~Vgi~~~dgVvla~d~r~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l   80 (242)
T d1rype_           1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSGLTADARSM   80 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEETTEEEEEEESGGGHHHH
T ss_pred             CCCcceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCccCcCcccCccceEEEcCCCEEEEEeecchhHHHH
Confidence            78999999999999999999999999999999999999999999998888777888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCcccc--ccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecC
Q psy5094          89 TDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEE--SAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFD  165 (251)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~--~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~  165 (251)
                      +++++.+++.|++.++++++++.+++.|++++|.|+++.+.  ..+.|||+|++||+|+|+ ++|+||.+||+|++.+++
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~rP~~~~~ii~G~D~~~~p~L~~idp~G~~~~~~  160 (242)
T d1rype_          81 IEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEPSGTFYRYN  160 (242)
T ss_dssp             HHHHHHHHHHHHHHHSSCCCHHHHHHHHHTTTTCCBSSCTTSCCCBSSCCSEEEEEEEEETTTEEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHhccccccchhccccceEEEEEEEeccccceEEEEEcCCCceeccc
Confidence            99999999999999999999999999999999999887654  334699999999999995 559999999999999999


Q ss_pred             EEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccC
Q psy5094         166 AKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVSSI  243 (251)
Q Consensus       166 ~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~  243 (251)
                      ++|+|+|+..++++|+++|+++||++||++++++||+.+.+++.++++++|++|+++.++++++++||++++.++++.
T Consensus       161 ~~a~G~gs~~~~~~Le~~~~~~ms~~ea~~la~~~l~~~~~~~~~~~~~~v~~i~~~~g~~~l~~~~i~~~~~~i~e~  238 (242)
T d1rype_         161 AKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELIKELKEK  238 (242)
T ss_dssp             EEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSCCCTTSEEEEEEETTTEEEECCHHHHHHHHHHHHHH
T ss_pred             eeecccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHhccCCCCceEEEEEECCCCeEECCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999888889999999998899999999999999988753

>d1rypg_ d.153.1.4 (G:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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

Probab=100.00  E-value=5.2e-60  Score=399.49  Aligned_cols=234  Identities=34%  Similarity=0.566  Sum_probs=218.6

Q ss_pred             cCCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           5 RSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         5 ~~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      .++||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+++++..+..+||++|+++++|+++|..+|
T Consensus         1 ~~gyd~~~t~fsp~Grl~QvEya~kav~~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D   80 (244)
T d1rypg_           1 GTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSGLIPD   80 (244)
T ss_dssp             CCCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEETTTEEEEEEECHHH
T ss_pred             CCCcCCCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCCCccccccceEEEccCceEEEEccchhh
Confidence            47999999999999999999999999999999999999999999999999998766667789999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeec
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQF  164 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~  164 (251)
                      ++.+++.++.+++.|++.++++++++.+++.++.++|.|+++++.    |||++++|+||||++||+||.+||+|++.++
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~t~~~~~----RP~~~~~iiaG~D~~gp~Ly~idp~Gs~~~~  156 (244)
T d1rypg_          81 GRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSV----RPFGVSTIFGGVDKNGAHLYMLEPSGSYWGY  156 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSCTTB----CCCCEEEEEEEEETTEEEEEEECTTSCEEEB
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHhhccccc----CCceEEEEEEEEeCCCCEEEEEcCCccEEec
Confidence            999999999999999999999999999999999999999999877    9999999999999999999999999999999


Q ss_pred             CEEEeCCCchhHHHHHHh---hhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcC---CCEEEcCHHHHHHHH
Q psy5094         165 DAKAIGSGSEGAQQSLQE---VYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTAD---KMYHLYSKEELEEEL  237 (251)
Q Consensus       165 ~~~a~G~g~~~~~~~Le~---~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~---~~~~~~~~~ei~~~~  237 (251)
                      +++|+|+|+..++++||+   .|+++||++||++++++||+.+.+++. +..+++|.+|+.+   +.++.++.|++++++
T Consensus       157 ~~~a~G~gs~~~~~~Lek~~~~~~~~mt~eeai~la~~~L~~~~~~~~~~~~~iev~ii~~~~~~~~~~~~~~e~~~~~~  236 (244)
T d1rypg_         157 KGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAI  236 (244)
T ss_dssp             SEEEESTTHHHHHHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHGGGGTTSCEEEEEEEEETTTTTTSEEECCTHHHHHHH
T ss_pred             CeEecCCccHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEEEEcCCCeEEECCHHHHHHHH
Confidence            999999999999999996   689999999999999999999998765 5568999999853   227788888888888


Q ss_pred             Hhhcc
Q psy5094         238 SKVSS  242 (251)
Q Consensus       238 ~~~~~  242 (251)
                      +..++
T Consensus       237 ~~~~~  241 (244)
T d1rypg_         237 DFAQK  241 (244)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77664

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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

Probab=100.00  E-value=1.6e-60  Score=402.67  Aligned_cols=232  Identities=27%  Similarity=0.530  Sum_probs=220.0

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhc-CCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~-G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      .+||+.+|+|||||||+|||||+||+++ |+|+|||+++||||||+|+|.+++++..+..+||++|++|++|+++|..+|
T Consensus         1 ~gyd~~~t~fsp~Grl~QvEYA~~av~~~g~T~igik~~dgVvlaad~r~~~~l~~~~~~~KI~~i~~~i~~~~sG~~~D   80 (243)
T d1rypa_           1 AGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIGMVVNGPIPD   80 (243)
T ss_dssp             CGGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECSSSCEEEEESCHHH
T ss_pred             CCCCCCCCeECCCCeehHHHHHHHHHHccCceEEEEEcCCEEEEEEeccccccccccCcccceEecCCCEEEEEecCcHH
Confidence            3799999999999999999999999997 558999999999999999999888888888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceee
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~  163 (251)
                      ++.+.++++.+++.|++.++.+++++.+++.+++++|.|+++.+.    |||+|++|++|||+ .||+||++||+|++.+
T Consensus        81 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~ls~~~~~~~~~~~~----rP~~v~~ll~G~D~~~g~~Ly~~Dp~G~~~~  156 (243)
T d1rypa_          81 ARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYM----RPLGVILTFVSVDEELGPSIYKTDPAGYYVG  156 (243)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBTTS----CCCSCEEEEEEEETTTEEEEEEECTTSCEEE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcccc----cCccceEEEEEEccCCCCeEEEEcCCEEEEe
Confidence            999999999999999999999999999999999999999998766    99999999999995 5799999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcC-------CCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHH
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHE-------SMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEE  236 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~-------~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~  236 (251)
                      ++++|+|+|+..++++|+++|++       +++.+||++++++||+.+.+++.++++++|++++++ ++++++++||+++
T Consensus       157 ~~~~a~G~gs~~~~~~Le~~~~~~~~~~~~~~s~eeav~la~~~l~~~~~~d~~~~~iei~iitk~-g~~~l~~eeI~~~  235 (243)
T d1rypa_         157 YKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKD-KFFTLSAENIEER  235 (243)
T ss_dssp             BSEEEESTTHHHHHHHHHHHHHHHCSSSCCCSSHHHHHHHHHHHHHHHHTCCCCTTSEEEEEEETT-EEEECCHHHHHHH
T ss_pred             cceEEeCccHHHHHHHHHHHhhcccccccccccHHHHHHHHHHHHHHHhhccCCCCcEEEEEEeCC-ceEEeCHHHHHHH
Confidence            99999999999999999999985       469999999999999999999998889999999998 7899999999999


Q ss_pred             HHhhcc
Q psy5094         237 LSKVSS  242 (251)
Q Consensus       237 ~~~~~~  242 (251)
                      +..+.+
T Consensus       236 l~~i~e  241 (243)
T d1rypa_         236 LVAIAE  241 (243)
T ss_dssp             HHHHTT
T ss_pred             HHHHhc
Confidence            988765

>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=1.8e-60  Score=402.17  Aligned_cols=232  Identities=36%  Similarity=0.652  Sum_probs=216.4

Q ss_pred             CCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHH
Q psy5094           7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSR   86 (251)
Q Consensus         7 ~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   86 (251)
                      .||+.+|+|||||||+|||||++|+++|+|+|||+++||||||+|++.+.+++.+++.+||++|+++++|++||..+|++
T Consensus         1 ~yd~~~t~Fsp~Grl~QvEya~kav~~G~Tvvgik~~dgVvla~d~r~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~   80 (243)
T d1irud_           1 SYDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNVCMAFAGLTADAR   80 (243)
T ss_dssp             CCCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESSSSCEEEEEECHHHHH
T ss_pred             CCCCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccccCcccCCCccccEEECCCCEEEEEEEchhhHH
Confidence            59999999999999999999999999999999999999999999999777788888999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-CCeEEEECCCCceeecC
Q psy5094          87 ILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFD  165 (251)
Q Consensus        87 ~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-gp~Ly~id~~G~~~~~~  165 (251)
                      .+++.++.+|+.|++.++.+++++.+++.+++++|.|+++++.    |||++++||+|||++ ||+||.+||+|++.+++
T Consensus        81 ~l~~~~~~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~----rp~~v~~li~G~D~~~~p~Ly~idp~G~~~~~~  156 (243)
T d1irud_          81 IVINRARVECQSHRLTVEDPVTVEYITRYIASLKQRYTQSNGR----RPFGISALIVGFDFDGTPRLYQTDPSGTYHAWK  156 (243)
T ss_dssp             HHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHTTSBTTB----CCCCEEEEEEEECSSSCEEEEEECTTSCEEEBS
T ss_pred             HHHHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHhcccC----CccceEEEEEEEcCCCCCEEEEecCcEEEEecc
Confidence            9999999999999999999999999999999999999998876    999999999999954 79999999999999999


Q ss_pred             EEEeCCCchhHHHHHHhhhcCCC--CHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccC
Q psy5094         166 AKAIGSGSEGAQQSLQEVYHESM--TLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVSSI  243 (251)
Q Consensus       166 ~~a~G~g~~~~~~~Le~~~~~~~--s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~  243 (251)
                      ++|+|+|+..++++|++.|+++|  +.++++++++++|.....  .++++++|++|++++++++++++||++++..+++.
T Consensus       157 ~~a~G~gs~~a~~~Lek~~~~~~~~~~~~~i~~ai~~l~~~~~--~~~~~vei~ii~k~~~~~~l~~~eI~~~l~~i~~~  234 (243)
T d1irud_         157 ANAIGRGAKSVREFLEKNYTDEAIETDDLTIKLVIKALLEVVQ--SGGKNIELAVMRRDQSLKILNPEEIEKYVAEIEKE  234 (243)
T ss_dssp             EEEESTTHHHHHHHHTTTCCSSTTCSHHHHHHHHHHHHHTTSC--TTSTTCCEEEEESSSCEECCCHHHHHHHTTTTTTT
T ss_pred             EEEECCChHHHHHHHHHhcccCCCccHHHHHHHHHHHHHHHhc--CCCCcEEEEEEECCCCEEECCHHHHHHHHHHHHhh
Confidence            99999999999999999999988  667788888777765543  35668999999999889999999999999999865


Q ss_pred             C
Q psy5094         244 H  244 (251)
Q Consensus       244 ~  244 (251)
                      .
T Consensus       235 ~  235 (243)
T d1irud_         235 K  235 (243)
T ss_dssp             T
T ss_pred             h
Confidence            3

>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=1.7e-59  Score=395.85  Aligned_cols=231  Identities=35%  Similarity=0.606  Sum_probs=218.4

Q ss_pred             CCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccC-CCccCcEEEEcCcEEEEeccchhHH
Q psy5094           7 EYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADS   85 (251)
Q Consensus         7 ~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~-~~~~~KI~~i~~~i~~~~sG~~~D~   85 (251)
                      +||+++|+|||||||+|||||+||+++|+|+|||+++||||||+|++.+++++. ..+.+||++|++|++|+++|..+|+
T Consensus         1 gyd~~~t~fsp~Grl~QvEya~kav~~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~   80 (241)
T d1rypd_           1 GYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADS   80 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHH
T ss_pred             CCCCCCceECCCCcEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccchH
Confidence            699999999999999999999999999999999999999999999999997654 5688999999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC--CCCeEEEECCCCceee
Q psy5094          86 RILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS--KGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        86 ~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~--~gp~Ly~id~~G~~~~  163 (251)
                      +.+++.++.+++.|++.++++++++.+++.++.++|.|+++.+.    |||+|++|+||||+  +||+||.+||+|++.+
T Consensus        81 ~~l~~~~~~~~~~~~~~~~~~i~~~~la~~i~~~~~~~t~~~~~----rP~~v~~li~G~d~~~~~p~Ly~idp~G~~~~  156 (241)
T d1rypd_          81 RILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGV----RPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSS  156 (241)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHTTSSTTB----CCCSEEEEEEECCTTCCSCEEEEECTTSCEEE
T ss_pred             HHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhcccc----CcccceEEEEEEccccCcceEEEecCCEEEEe
Confidence            99999999999999999999999999999999999999998876    99999999999994  4799999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcC---CCCHHHHHHHHHHHHHHHhhhcCCCCcEEEEEEEcCCCEEEcCHHHHHHHHHhh
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHE---SMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKV  240 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~---~~s~~ea~~l~~~~l~~~~~~d~~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~  240 (251)
                      ++++|+|+|++.++++|++.|++   +|+.+||++++++||+.+.+  .++.+++|+++++++++++++++||++++..+
T Consensus       157 ~~~~a~G~gs~~~~~~Le~~~~~~~~~~t~~e~i~lal~al~~~~~--~~~~~iei~ii~~d~~~~~l~~~ei~~~l~~i  234 (241)
T d1rypd_         157 WSAQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQ--TGAKNIEITVVKPDSDIVALSSEEINQYVTQI  234 (241)
T ss_dssp             BSEEEESTTHHHHHHHHHTTCCTTSCCCSHHHHHHHHHHHHHHHHC--SCSTTEEEEEEETTTEEEECCHHHHHHHHHHH
T ss_pred             eCeEEECcCHHHHHHHHHHhhhcccCCCCHHHHHHHHHHHHHHHhc--CCCCcEEEEEEECCCCEEECCHHHHHHHHHHH
Confidence            99999999999999999999964   69999999999999999875  45678999999999899999999999999998


Q ss_pred             ccC
Q psy5094         241 SSI  243 (251)
Q Consensus       241 ~~~  243 (251)
                      ++.
T Consensus       235 ~~~  237 (241)
T d1rypd_         235 EQE  237 (241)
T ss_dssp             THH
T ss_pred             HHH
Confidence            754

>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=2e-59  Score=396.06  Aligned_cols=231  Identities=35%  Similarity=0.617  Sum_probs=218.9

Q ss_pred             CCCCCCCceeCCCCcchhhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcc-cCCCccCcEEEEcCcEEEEeccchhH
Q psy5094           6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVL-MEPSSIKKIVEIDKHIGCAASGLIAD   84 (251)
Q Consensus         6 ~~yd~~~~~fsp~G~l~q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~-~~~~~~~KI~~i~~~i~~~~sG~~~D   84 (251)
                      ++||+++|+|||||||+|||||++|+++|+|+|||+++||||||+|++.++++ +.+++.+||++|+++++++++|..+|
T Consensus         3 ~~yd~~~t~fsp~G~~~Qveya~~ai~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D   82 (244)
T d1rypc_           3 RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTAD   82 (244)
T ss_dssp             GGGCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHH
T ss_pred             CccCCCceeECCCCcChHHHHHHHHHhcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccCc
Confidence            56999999999999999999999999999999999999999999999999964 55778899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceee
Q psy5094          85 SRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQ  163 (251)
Q Consensus        85 ~~~l~~~~~~~~~~~~~~~~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~  163 (251)
                      ++.+++.++.+++.|++.++++++++.+++.++++++.|+++.++    |||++++||+|+|+ +||+||.+||.|++.+
T Consensus        83 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~----rP~~~~~ll~G~d~~~gp~Ly~id~~Gs~~~  158 (244)
T d1rypc_          83 AEILINTARIHAQNYLKTYNEDIPVEILVRRLSDIKQGYTQHGGL----RPFGVSFIYAGYDDRYGYQLYTSNPSGNYTG  158 (244)
T ss_dssp             HHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHBSSC----CCCCEEEEEEEEETTTEEEEEEECTTCCEEE
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhhhhhcccc----CccceeEEEEEEecCCCceEEEecCCCcEee
Confidence            999999999999999999999999999999999999999988766    99999999999995 5799999999999999


Q ss_pred             cCEEEeCCCchhHHHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC-----EEEcCHHHHHHHH
Q psy5094         164 FDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM-----YHLYSKEELEEEL  237 (251)
Q Consensus       164 ~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~-----~~~~~~~ei~~~~  237 (251)
                      ++++|+|+|+..++++|++.|+++|+++||++++++||+.+.++|. ++++++|++|++++.     ++.++++||++++
T Consensus       159 ~~~~a~G~g~~~a~~~Le~~~~~~ms~eeai~l~~~al~~a~~~d~~~~~~iei~ii~~~~~~~~~~~~~~~~~Ei~~~l  238 (244)
T d1rypc_         159 WKAISVGANTSAAQTLLQMDYKDDMKVDDAIELALKTLSKTTDSSALTYDRLEFATIRKGANDGEVYQKIFKPQEIKDIL  238 (244)
T ss_dssp             BSEEEESTTHHHHHHHHHHHCCTTCCHHHHHHHHHHHHHHHCSSSSCCGGGEEEEEEECCSSSSSCEEEECCHHHHHHHH
T ss_pred             eeeeeccchhHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEECCCcccceeEEECCHHHHHHHH
Confidence            9999999999999999999999999999999999999999999986 567899999999854     7899999999998


Q ss_pred             Hhh
Q psy5094         238 SKV  240 (251)
Q Consensus       238 ~~~  240 (251)
                      .+.
T Consensus       239 ~k~  241 (244)
T d1rypc_         239 VKT  241 (244)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            765

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

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

Probab=100.00  E-value=3.1e-47  Score=317.60  Aligned_cols=204  Identities=20%  Similarity=0.337  Sum_probs=180.1

Q ss_pred             hhhhHHHHHhcCCcEEEEEeCCeEEEEEeccCCCcccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhh
Q psy5094          23 QVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFT  102 (251)
Q Consensus        23 q~eya~~a~~~G~tvvgi~~~~gVvla~d~~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~  102 (251)
                      |+|||.+|+++|+|+|||+++||||||+|+|.       +..+||++|++||+||++|..+|++.++++++.+|+.|++.
T Consensus         8 q~eyA~~av~~GtT~vgi~~~~GVvlaad~r~-------~s~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~   80 (227)
T d1q5qa_           8 RSELARKGIARGRSVVVLTFRDGVLFVAENPS-------TALHKVSELYDRLGFAAVGKYNEFENLRRAGIVHADMRGYS   80 (227)
T ss_dssp             HHHHHHHHHHTSCCEEEEECSSEEEEEECCSC-------SSSCSEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCEEEEEECCEEEEEEccCC-------CCcceEEEecCceEEEecCchHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999984       45689999999999999999999999999999999999999


Q ss_pred             hC-CCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC----CCCeEEEECCCCceeecC-EEEeCCCchhH
Q psy5094         103 YD-EKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS----KGPQLFHLDPSGTYTQFD-AKAIGSGSEGA  176 (251)
Q Consensus       103 ~~-~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~----~gp~Ly~id~~G~~~~~~-~~a~G~g~~~~  176 (251)
                      ++ .+++++.+++.++++++.... .+    .|||+|++||||||.    +||+||.+||+|++.+++ +++.|+++..+
T Consensus        81 ~~~~~~~~~~la~~~~~~~~~~~~-~~----~rP~gvs~lvaG~D~~g~~~~p~Ly~vDpsG~~~~~~~~~~~g~~s~~~  155 (227)
T d1q5qa_          81 YDRRDVTGRSLANAYAQTLGTIFT-EQ----PKPYEVEICVAEVGRVGSPKAPQLYRITYDGSIVDEQHFVVMGGTTEPI  155 (227)
T ss_dssp             SCGGGCCHHHHHHHHHHHHHHHHH-HS----SSCCCEEEEEEECCCSSCCCCCEEEEEETTSCEEEESSEEEESSSHHHH
T ss_pred             hCCCCCcHHHHHHHHHHHHHHHHH-hc----CCCceEEEEEEEEecCCCCCCCEEEEEccccceeeecccccCCCchHHH
Confidence            98 468999999999988654322 22    399999999999984    469999999999988755 56677788999


Q ss_pred             HHHHHhhhcCCCCHHHHHHHHHHHHHHHhhhc-----CCCCcEEEEEEEcCCC---EEEcCHHHHHHHHH
Q psy5094         177 QQSLQEVYHESMTLKEAINHVLTILKQVMEEK-----LNSTNVELCTVTADKM---YHLYSKEELEEELS  238 (251)
Q Consensus       177 ~~~Le~~~~~~~s~~ea~~l~~~~l~~~~~~d-----~~~~~i~i~~i~~~~~---~~~~~~~ei~~~~~  238 (251)
                      +++|++.|+++||++||++++++||+.+.+++     +...+++|+++++++.   ||+++++||+++++
T Consensus       156 ~~~Le~~y~~~ms~eea~~la~~aL~~a~~~d~~~~~~~~~~ievavi~k~~~~~~fr~l~~~ei~~~l~  225 (227)
T d1q5qa_         156 ATAMRESYRADLDLEAAVGIAVNALRQGGAGEGEKRNVDVASLEVAVLDQSRPRRAFRRIAGTALEQLVP  225 (227)
T ss_dssp             HHHHHHHCCTTCCHHHHHHHHHHHHTTCC--------CCSSCSEEEEEETTSSSCCEEECCHHHHHTTSC
T ss_pred             HHHHHHhccCCCCHHHHHHHHHHHHHHHhhcccccCCcCcceEEEEEEECCCCccceEEcCHHHHHHHhc
Confidence            99999999999999999999999999998765     3456799999999864   99999999998874

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

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

Probab=100.00  E-value=3.8e-46  Score=306.13  Aligned_cols=197  Identities=25%  Similarity=0.423  Sum_probs=186.9

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+++||||||+|+|.+. +++.+++.+||++|+++++||++|..+|++.+.+.++.+++.|++.++.+++++.++
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            6999999999999999999987 566788999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      ++++++++.+++        |||++++|+||+|. +|+||.+||+|++.+++++|+|+|+..++++|++.|+++||.+||
T Consensus        81 ~~l~~~~~~~~~--------~p~~~~~lvaG~d~-~p~l~~~d~~G~~~~~~~~a~G~g~~~~~~~L~~~~~~~~s~eea  151 (203)
T d1yarh1          81 TLLSNMLNQVKY--------MPYMVQLLVGGIDT-APHVFSIDAAGGSVEDIYASTGSGSPFVYGVLESQYSEKMTVDEG  151 (203)
T ss_dssp             HHHHHHHHHTTT--------SCCCEEEEEEEESS-SEEEEEECTTCCEEEESEEEESTTHHHHHHHHHHHCCTTCCHHHH
T ss_pred             HHHHHHHHhhcc--------CCccceeEEEEEcC-CCeeEecCCccceecccccccCCCcHHHHHHHHHhccCCCCHHHH
Confidence            999999987654        89999999999986 599999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhh
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKV  240 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~  240 (251)
                      ++++++||+.+.++|. ++++++|++|++++++++++++||+.+++++
T Consensus       152 ~~l~~~~l~~~~~~d~~~~~~v~v~ii~~~~g~~~l~~~ei~~~~~~~  199 (203)
T d1yarh1         152 VDLVIRAISAAKQRDSASGGMIDVAVITRKDGYVQLPTDQIESRIRKL  199 (203)
T ss_dssp             HHHHHHHHHHHHHHCTTCCSCCEEEEEETTTEEEECCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCCCCeEEEEEEECCCCEEECCHHHHHHHHHHh
Confidence            9999999999999986 6678999999988899999999999999875

>d1irul_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

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

Probab=100.00  E-value=2.3e-46  Score=306.95  Aligned_cols=198  Identities=20%  Similarity=0.319  Sum_probs=187.9

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+++||||||+|++.++ .++.+++.+||++|+++++|+++|..+|++.+.+.++.+++.|++.++.+++++.++
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            7999999999999999999988 466678899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      +.+++++|.+++        +||+++++++|+|++||+||.+||.|++.+++++|+|+|+++++++|++.|+++||.+||
T Consensus        81 ~~l~~~~~~~~~--------~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~eea  152 (201)
T d1irul_          81 KLLANMVYQYKG--------MGLSMGTMICGWDKRGPGLYYVDSEGNRISGATFSVGSGSVYAYGVMDRGYSYDLEVEQA  152 (201)
T ss_dssp             HHHHHHHHTTTT--------SCCCBEEEEEEECSSSEEEEEEESSSCEEECSEEEESTTHHHHHHHHHTTCCTTCCHHHH
T ss_pred             HHHHHHhhhccC--------CCceEEEEEEEEecCCceEEEEccCceEEEeeeEEecCchHHHHHHHHhhccCCCCHHHH
Confidence            999999987654        899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhc
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVS  241 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~  241 (251)
                      ++++++||+.+.++|. ++++++|++|+++ ++++++++||.++.++++
T Consensus       153 ~~l~~~~l~~~~~~d~~sg~~~~v~~i~~~-G~~~i~~~ev~~~~~~~~  200 (201)
T d1irul_         153 YDLARRAIYQATYRDAYSGGAVNLYHVRED-GWIRVSSDNVADLHEKYS  200 (201)
T ss_dssp             HHHHHHHHHHHHHHBTTCCSEEEEEEECSS-CEEEEEEEEHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCCCCCceEEEEEeCC-ceEEECHHHHHHHHHhhc
Confidence            9999999999999986 7778999999998 678899999999988775

>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=3e-45  Score=300.23  Aligned_cols=199  Identities=27%  Similarity=0.446  Sum_probs=187.5

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+++||||||+|+|.+. +++.+++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++.+++++.++
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            7999999999999999999987 566688899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceee-cCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQ-FDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +.+++++|.+++        +||++++|+||+|++||+||.+||+|++.+ ..++|+|+|+.+++++|++.|+++|+++|
T Consensus        81 ~~~~~~~~~~~~--------~p~~~~~lvaG~d~~~~~l~~~d~~G~~~~~~~~~a~G~g~~~~~~~Le~~~~~~ms~~e  152 (202)
T d1j2qh_          81 TLTSNLLNSYRY--------FPYLVQLLIGGIDSEGKSIYSIDPIGGAIEEKDIVATGSGSLTAYGVLEDRFTPEIGVDE  152 (202)
T ss_dssp             HHHHHHHHHTTT--------SCCCEEEEEEEEETTEEEEEEECTTCCEEEESSEEEESTTHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHhhhcc--------cceeeEEEEEEEcCCCceEEEEeCCCCeEeecceEEccCChHHHHHHHHhhcCCCCCHHH
Confidence            999999998775        899999999999999999999999999876 46899999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhcc
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~  242 (251)
                      |++++++||+.+.++|. ++++++|++|+++ ++++++++||++++.++++
T Consensus       153 a~~l~~~al~~~~~~d~~~g~~v~v~~i~~~-g~~~~~~~ei~~~l~~~~k  202 (202)
T d1j2qh_         153 AVELAVRAIYSAMKRDSASGDGIDVVKITED-EFYQYSPEEVEQILAKFRK  202 (202)
T ss_dssp             HHHHHHHHHHHHHTTCTTSCSCEEEEEECSS-CEEECHHHHHHHHGGGTTC
T ss_pred             HHHHHHHHHHHHHHhcCCCCCeEEEEEEECC-CEEEeCHHHHHHHHHHhhC
Confidence            99999999999999987 5668999999998 6899999999999988764

>d1rypl_ d.153.1.4 (L:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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

Probab=100.00  E-value=1.7e-45  Score=304.14  Aligned_cols=205  Identities=20%  Similarity=0.322  Sum_probs=191.2

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+|+||||||+|+|.++ .++..++.+||++|+++++|+++|..+|++.++++++.+++.|++.++++++++.++
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            7999999999999999999988 466678999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +.+++++|+|++        .|+++..+++|+|+ +||+||.+||+|++.+++++|+|+|+.+++++|++.|+++|+++|
T Consensus        81 ~~ls~~~~~~~~--------~p~~~~~~l~G~~~~~g~~Ly~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~mt~~e  152 (212)
T d1rypl_          81 KILSNLVYQYKG--------AGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVED  152 (212)
T ss_dssp             HHHHHHHHHTTT--------SCCCBEEEEEEEETTTEEEEEEEETTCCEEECSEEEESTTHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHHhcc--------CCcceEeeeeEeecCCCCEEEEECCCceEEecceEEEccCcccchhHHHHhccCCCCHHH
Confidence            999999987754        68889999999875 579999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHHHhhccCCCCCC
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEELSKVSSIHDPTR  248 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~~~~~~~  248 (251)
                      |++++++||+.+.++|. ++++++|++|+++ ++++++++||.+++.++++++.|.+
T Consensus       153 a~~l~~~al~~~~~rd~~sg~~v~v~vi~~~-g~~~~~~~ev~~~~~~~~~~~~~~~  208 (212)
T d1rypl_         153 ALYLGKRSILAAAHRDAYSGGSVNLYHVTED-GWIYHGNHDVGELFWKVKEEEGSFN  208 (212)
T ss_dssp             HHHHHHHHHHHHHHHBTTCCSEEEEEEEETT-EEEEEEEEEHHHHHHHHHHHHCCCT
T ss_pred             HHHHHHHHHHHHHHhcCCCCCceEEEEEcCC-ceEEeCHHHHHHHHHHHHHhhcccc
Confidence            99999999999999987 6778999999998 7899999999999888887766554

>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=7.9e-45  Score=297.13  Aligned_cols=192  Identities=19%  Similarity=0.214  Sum_probs=179.7

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      +|+|||+++||||||+|+|.+.+ ++.+++.+||++|++|++|+++|..+|++.+.+.++.+++.|++.++.+++++.++
T Consensus         2 ~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   81 (198)
T d1rypk_           2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAVS   81 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHH
T ss_pred             eEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEEecCCcccHHHHHHHHHHHHHHHHHHhCCCcchHHHH
Confidence            68999999999999999999985 45578899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC--CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS--KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLK  191 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~--~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~  191 (251)
                      +++++.++.++++      .|||++++||||||+  +||+||++||.|++.+++++++|+|+.+++++|++.|+++|+.+
T Consensus        82 ~~i~~~~~~~~~~------~~P~~~~~liaG~D~~~~~p~L~~id~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~e  155 (198)
T d1rypk_          82 SFVRQELAKSIRS------RRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTE  155 (198)
T ss_dssp             HHHHHHHHHHTTS------SSCCCEEEEEEEEETTTTEEEEEEECTTCCEEECSEEECTTHHHHHHHHHHHHCCTTCCHH
T ss_pred             HHHHHHHHHHHhc------ccccceEEEEEEEecCCCceEEEEecccccEEecceEEEeccchhhHHHHHhcccccCCHH
Confidence            9999999887653      289999999999994  47999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHH
Q psy5094         192 EAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEEL  233 (251)
Q Consensus       192 ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei  233 (251)
                      ||++++++||+.+.++|. ++++++|++|+++ |+++++++|+
T Consensus       156 ea~~l~~~~l~~~~~~d~~s~~~~~v~vi~~d-G~~~~~~~~~  197 (198)
T d1rypk_         156 EGLDLLKLCVQELEKRMPMDFKGVIVKIVDKD-GIRQVDDFQA  197 (198)
T ss_dssp             HHHHHHHHHHHHHHHHCSBCCCCEEEEEEETT-EEEEECCCSC
T ss_pred             HHHHHHHHHHHHHHHhcCcCCCcEEEEEEcCC-CeEEcchhcc
Confidence            999999999999999986 6678999999998 8899988765

>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=2.2e-44  Score=295.97  Aligned_cols=196  Identities=19%  Similarity=0.321  Sum_probs=179.6

Q ss_pred             HHhcCCcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCC
Q psy5094          30 AIKLGSTAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMD  108 (251)
Q Consensus        30 a~~~G~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  108 (251)
                      .+++|+|+|||+++||||||+|+|.+.+ ++.+++.+||++|++|++|+++|..+|++.+.++++.+++.|++.++++ +
T Consensus         5 ~v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~-~   83 (205)
T d1ryph_           5 EVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQYHLELYTSQYGTP-S   83 (205)
T ss_dssp             CCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHHHHHHHHHHHHHHSSC-C
T ss_pred             cccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHHHHHHHHHHHHHcCCc-c
Confidence            3789999999999999999999999884 5667889999999999999999999999999999999999999999965 5


Q ss_pred             HHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCC
Q psy5094         109 IESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES  187 (251)
Q Consensus       109 ~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~  187 (251)
                      +..+++.++++++.+.         +||++++|+||||+ ++|+||++||.|++.+++++|+|+|+.+++++|++.|+++
T Consensus        84 ~~~~~~~~~~~~~~~~---------~p~~~~~lvaG~d~~~~p~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~  154 (205)
T d1ryph_          84 TETAASVFKELCYENK---------DNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKNFREN  154 (205)
T ss_dssp             HHHHHHHHHHHHHHTT---------TTCCEEEEEEEEETTTEEEEEEECTTSCCEEESEEEESGGGGGGHHHHHHHCCTT
T ss_pred             HHHHHHHHHHHHHhCc---------cCceEEEEEEeecCCCCcEEEEECCCCcEEecCeEEeecCcHHHHHHHHhhhhcc
Confidence            7889999999986531         79999999999995 5699999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC-EEEcCHHHHHH
Q psy5094         188 MTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM-YHLYSKEELEE  235 (251)
Q Consensus       188 ~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~-~~~~~~~ei~~  235 (251)
                      ||.+||++++++||+.+.++|. ++++++|++|+++|. ++.+.++|++.
T Consensus       155 ms~~ea~~l~~~al~~a~~rD~~sg~~v~v~iitk~G~~~~~~~~~e~~~  204 (205)
T d1ryph_         155 MSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQ  204 (205)
T ss_dssp             CCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECHHHHTC
T ss_pred             cCHHHHHHHHHHHHHHHHHhcCcCCCCEEEEEEcCCceEEEecCcccccc
Confidence            9999999999999999999997 677899999999954 44688999863

>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=1.7e-43  Score=290.06  Aligned_cols=194  Identities=20%  Similarity=0.310  Sum_probs=179.9

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+++||||||+|+|.++ .++.+++.+||++|++|++|+++|..+|++.+.+.++.+++.|++.++.+++++.++
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            7999999999999999999998 466688899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +++++.+|.++         +||++++|++|+|+ ++|+||.+||.|++.+.+++|+|+|+.+++++|++.|+++|+.+|
T Consensus        81 ~~l~~~l~~~~---------~p~~~~~lvaG~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~L~~~~~~~~~~~e  151 (202)
T d1iruh_          81 SLFKEMCYRYR---------EDLMAGIIIAGWDPQEGGQVYSVPMGGMMVRQSFAIGGSGSSYIYGYVDATYREGMTKEE  151 (202)
T ss_dssp             HHHHHHHHHTT---------TTCCEEEEEEEEETTTEEEEEEECTTSCCEECSEEEESGGGGGGHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHhhc---------cceeEEEEEEEeecCCCcEEEEECCCCceeecceeEEeCCHHHHHHHHHHhhccCCcHHH
Confidence            99999997653         79999999999996 569999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC-EEEcCHHHHHHHH
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKM-YHLYSKEELEEEL  237 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~-~~~~~~~ei~~~~  237 (251)
                      |++++++||+.+.++|. ++++++|++|+++|. ++.+++|||+.++
T Consensus       152 a~~l~~~al~~a~~rD~~sg~~i~v~vi~~~G~~~~~~~~d~~~~~~  198 (202)
T d1iruh_         152 CLQFTANALALAMERDGSSGGVIRLAAIAESGVERQVLLGDQIPKFA  198 (202)
T ss_dssp             HHHHHHHHHHHHHHHBTTCCSCEEEEEEETTEEEEEEECGGGSCCCC
T ss_pred             HHHHHHHHHHHHHhhCCCCCCCEEEEEEeCCCeEEEEcCHHHhhhhh
Confidence            99999999999999997 677899999999855 4568888765543

>d1ryp2_ d.153.1.4 (2:) Proteasome beta subunit (catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

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

Probab=100.00  E-value=3.1e-44  Score=300.66  Aligned_cols=202  Identities=16%  Similarity=0.244  Sum_probs=184.6

Q ss_pred             HHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhh----
Q psy5094          29 EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTY----  103 (251)
Q Consensus        29 ~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~----  103 (251)
                      +++.+|+|+|||+++||||||+|++.+. +++..++.+||++|++|++|+++|..+|++.+.+.++.+++.|++.+    
T Consensus         3 ~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~   82 (233)
T d1ryp2_           3 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLLKDLVTENAYDNPLAD   82 (233)
T ss_dssp             CCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHTTCTTTT
T ss_pred             CCccccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHHHHHHHHHHHhhCCCC
Confidence            5788999999999999999999999886 56778889999999999999999999999999999999999998876    


Q ss_pred             -CCCCCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCC-CeEEEECCCCceeecCEEEeCCCchhHHHHHH
Q psy5094         104 -DEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQ  181 (251)
Q Consensus       104 -~~~i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le  181 (251)
                       +..++++.+++++++.++  +++..    .|||++++||+|+|++| |+||.+||.|++.+++++|+|+|+.+++++|+
T Consensus        83 ~~~~~~~~~~a~~l~~~~y--~~~~~----~~P~~~~~liaG~d~~g~~~ly~~d~~G~~~~~~~~a~G~g~~~a~~~Le  156 (233)
T d1ryp2_          83 AEEALEPSYIFEYLATVMY--QRRSK----MNPLWNAIIVAGVQSNGDQFLRYVNLLGVTYSSPTLATGFGAHMANPLLR  156 (233)
T ss_dssp             TTTSCCHHHHHHHHHHHHH--HHHHT----TCCCCEEEEEEEECTTSCEEEEEEETTCCEECCSEEECTHHHHHHHHHHT
T ss_pred             CCcccCHHHHHHHHHHHHH--hhccc----cCCceeEEEEEEEcCCCCeEEEEEcCCCcEEeeeeEEecCccHHHHHHHH
Confidence             567999999999999874  44333    39999999999999765 78999999999999999999999999999999


Q ss_pred             hhhc-----CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHH
Q psy5094         182 EVYH-----ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEE  236 (251)
Q Consensus       182 ~~~~-----~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~  236 (251)
                      +.|+     ++|+.+||++++++||+.+.++|. ++++|+|++|++|++++++.+++|+..
T Consensus       157 ~~~~~~~~~~~ms~eeA~~l~~~al~~~~~rD~~sg~~i~i~~itkd~g~~~~~~~~ie~~  217 (233)
T d1ryp2_         157 KVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLTFKKNLQVENM  217 (233)
T ss_dssp             TTCCSGGGGGGCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTTEEEEEEEEECCSC
T ss_pred             HHHhhcccccccCHHHHHHHHHHHHHHHHHhcccCCCCEEEEEEECCCCEEECChhcchhh
Confidence            9997     799999999999999999999997 677899999999988999999999773

>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=9.6e-43  Score=289.14  Aligned_cols=192  Identities=21%  Similarity=0.387  Sum_probs=179.9

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+|+||||||+|++.+++ ++.+++.+||++|++|++|+++|..+|++.+.+.++.+++.|++.++.+++++.++
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            79999999999999999999995 55578889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      ++++++++++.         +||++++|+||+|++||+||.+||.|++.+++++|+|+|+.+++++|++.|+++||.+||
T Consensus        81 ~~l~~~~y~~~---------~p~~~~~ivaG~D~~g~~L~~id~~G~~~~~~~~a~Gsgs~~a~~~L~~~~~~~~s~~ea  151 (220)
T d1irui_          81 RMLKQMLFRYR---------GYIGAALVLGGVDVTGPHLYSIYPHGSTDKLPYVTMGSGSLAAMAVFEDKFRPDMEEEEA  151 (220)
T ss_dssp             HHHHHHHHHTT---------TCSCEEEEEEEECSSCEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHSCCTTCCHHHH
T ss_pred             HHHHhhhhhcc---------cccceeEEEEEEeCCCcEEEEEeCCCcEEEeeEEEEccccHHHHHHHHHhcccCCCHHHH
Confidence            99999986532         799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHH
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEE  236 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~  236 (251)
                      ++++++||+.+.++|. ++++|+|++|+++ +++++.+.+++..
T Consensus       152 ~~l~~~al~~~~~~D~~sg~~i~i~vitkd-g~~~~~~~~~~~~  194 (220)
T d1irui_         152 KNLVSEAIAAGIFNDLGSGSNIDLCVISKN-KLDFLRPYTVPNK  194 (220)
T ss_dssp             HTHHHHHHHHHHHHCTTCCSCEEEEEEETT-EEECCSEEECCCC
T ss_pred             HHHHHHHHHHhhccCCCCCCcEEEEEEECC-CeEEeCcccccch
Confidence            9999999999999986 6778999999998 7788888776543

>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=6.6e-43  Score=290.50  Aligned_cols=188  Identities=23%  Similarity=0.354  Sum_probs=175.0

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+++||||||+|+|.+.+ ++.+++.+||++|+++++||++|..+|++.+.+.++.+++.|++.++.++++..++
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            69999999999999999999884 66678899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA  193 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~ea  193 (251)
                      +.+++.++.+         .+||++++|+||+|++||+||.+||.|++.+++++|+|+|+++++++|++.|+++|+++||
T Consensus        81 ~~l~~~~~~~---------~~p~~~~~l~aG~d~~g~~Ly~id~~G~~~~~~~~a~Gsg~~~a~~~Le~~~k~~ms~eea  151 (222)
T d1rypi_          81 QMLKQHLFKY---------QGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGSLAAMAVLESHWKQDLTKEEA  151 (222)
T ss_dssp             HHHHHHHHHT---------TTCSCEEEEEEEEETTEEEEEEECTTSCEEECSEEEESTTHHHHHHHHHHHCCSSCCHHHH
T ss_pred             HHHHHHHHhh---------hhccceeEEEEEEcCCCcEEEEEecCcceEEeeEEEECCCcHHHHHHHHhhccCCCCHHHH
Confidence            9999988543         2799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHH
Q psy5094         194 INHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKE  231 (251)
Q Consensus       194 ~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~  231 (251)
                      ++++++||+.+.++|. ++++++|+++++++..+++.+.
T Consensus       152 ~~l~~~al~~a~~~D~~sg~~i~i~vi~~~~~~~~~~~~  190 (222)
T d1rypi_         152 IKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNY  190 (222)
T ss_dssp             HHHHHHHHHHHHHHCTTCCSCEEEEEEETTSCEEEEEEE
T ss_pred             HHHHHHHHHHHhcccCCCCCcEEEEEEEcCCCeEEecCc
Confidence            9999999999999997 6678999999998776655543

>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=1.6e-42  Score=287.26  Aligned_cols=202  Identities=18%  Similarity=0.168  Sum_probs=181.4

Q ss_pred             HHHhcCCcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHh-hhCCC
Q psy5094          29 EAIKLGSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWF-TYDEK  106 (251)
Q Consensus        29 ~a~~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~-~~~~~  106 (251)
                      +++.+|+|+|||+++||||||+|+|.+. .++..++.+||++|+++++||++|..+|++.+.+.++.++..+++ .++.+
T Consensus         3 ~~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~   82 (217)
T d1iru2_           3 NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVLGQMVIDEELLGDGHS   82 (217)
T ss_dssp             SCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHHHHHHHHHHHHCSSCC
T ss_pred             CCcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHHHHHHHHHhhhhcCCCC
Confidence            4578999999999999999999999987 566678899999999999999999999999999999999988765 45789


Q ss_pred             CCHHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc-
Q psy5094         107 MDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH-  185 (251)
Q Consensus       107 i~~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~-  185 (251)
                      ++++.+++.+++.++  +++...    +||++++|++|+|+++|+||.+||.|++.+++++|+|+|+.+++++|++.|+ 
T Consensus        83 ~~v~~~a~~l~~~~y--~~~~~~----~p~~~~~li~G~d~~~~~l~~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~  156 (217)
T d1iru2_          83 YSPRAIHSWLTRAMY--SRRSKM----NPLWNTMVIGGYADGESFLGYVDMLGVAYEAPSLATGYGAYLAQPLLREVLEK  156 (217)
T ss_dssp             CCHHHHHHHHHHHHH--HHHHTT----CCCCEEEEEEEEETTEEEEEEECSSCCEEECSEEECTTHHHHTHHHHHHHHTS
T ss_pred             CCHHHHHHHHHHHHH--Hhcccc----CcccceEEEEEEcCCCcEEEEEecCceeEeeeEEeccCcHHHHHHHHHHHhcc
Confidence            999999999999884  444333    8999999999999999999999999999999999999999999999999765 


Q ss_pred             -CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHHHHHHH
Q psy5094         186 -ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEELEEEL  237 (251)
Q Consensus       186 -~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~ei~~~~  237 (251)
                       ++|+.+||++++++||+.+.++|. ++++++|++|+++ +++++.+++++.-|
T Consensus       157 ~~~lt~~ea~~l~~~al~~a~~rd~~sg~~i~i~vi~~~-G~~~~~~~~~~~~~  209 (217)
T d1iru2_         157 QPVLSQTEARDLVERCMRVLYYRDARSYNRFQTATVTEK-GVEIEGPLSTETNW  209 (217)
T ss_dssp             CSCCCHHHHHHHHHHHHHHHHHHBTTCCSCEEEEEEETT-EEEEEEEECCCCCC
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHhcCcCCCcEEEEEEeCC-CEEEcCCeeccccH
Confidence             899999999999999999999986 6778999999998 77777777766544

>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=9.9e-41  Score=273.86  Aligned_cols=186  Identities=17%  Similarity=0.223  Sum_probs=171.9

Q ss_pred             HhcCCcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCH
Q psy5094          31 IKLGSTAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDI  109 (251)
Q Consensus        31 ~~~G~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~  109 (251)
                      .-+|+|+|||+++||||||+|++.+.+ ++..++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++.++++
T Consensus         4 ~~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~~~~   83 (204)
T d1iruj_           4 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRLKFRLNLYELKEGRQIKP   83 (204)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHHHHHHHHHHHHSSSCCCH
T ss_pred             eeCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHHHHhhhhhhhhcccccch
Confidence            348999999999999999999999985 5568889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCC--CeEEEECCCCceee-cCEEEeCCCchhHHHHHHhhhcC
Q psy5094         110 ESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG--PQLFHLDPSGTYTQ-FDAKAIGSGSEGAQQSLQEVYHE  186 (251)
Q Consensus       110 ~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g--p~Ly~id~~G~~~~-~~~~a~G~g~~~~~~~Le~~~~~  186 (251)
                      +.+++++++++|.+++        +||++++||||+|+++  |.+|.+|+.|.... ..++++|+|+++++++|++.|++
T Consensus        84 ~~~a~~l~~~~~~~~~--------~p~~~~~lvaG~D~~~~~~~~~~~d~~g~~~~~~~~~~~G~g~~~~~~~l~~~~~~  155 (204)
T d1iruj_          84 YTLMSMVANLLYEKRF--------GPYYTEPVIAGLDPKTFKPFICSLDLIGCPMVTDDFVVSGTCAEQMYGMCESLWEP  155 (204)
T ss_dssp             HHHHHHHHHHHHTTTT--------SCCSCCCEEEEECTTSCCEEEEEECTTCCEEECSSEEEEETTHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHHHhhh--------ccceeEEEEEEEcCCCCceEEEEecCCCceeeecceEEechhHHHHHHHHHhcccc
Confidence            9999999999976543        8999999999999654  77999999998765 56899999999999999999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         187 SMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       187 ~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                      +|+.+||++++++||+.+.++|. ++++++|++|++++.
T Consensus       156 ~ms~~ea~~l~~~al~~a~~rd~~sg~~~~v~ii~k~gi  194 (204)
T d1iruj_         156 NMDPDHLFETISQAMLNAVDRDAVSGMGVIVHIIEKDKI  194 (204)
T ss_dssp             SCCHHHHHHHHHHHHHHHGGGBTTSCSCEEEEEEESSBE
T ss_pred             CCCHHHHHHHHHHHHHHHHhhcccCCCcEEEEEEeCCCE
Confidence            99999999999999999999997 667899999999954

>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=1e-40  Score=277.29  Aligned_cols=202  Identities=18%  Similarity=0.207  Sum_probs=184.6

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+++||||||+|++.++ +++..++.+||++|+++++|+++|..+|++.+.++++.+++.|++.++.++++..++
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            7999999999999999999988 466678899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEc------CCCCeEEEECCCCceee--cCEEEeCCCchhHHHHHHhhhc
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD------SKGPQLFHLDPSGTYTQ--FDAKAIGSGSEGAQQSLQEVYH  185 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d------~~gp~Ly~id~~G~~~~--~~~~a~G~g~~~~~~~Le~~~~  185 (251)
                      +.+++.+|.+++..     .+|+++.++++|++      ..+|+||.+||+|++.+  .+++|+|+|+.+++++|++.|+
T Consensus        81 ~~~~~~~~~~~~~~-----~~~~~~~~~~~g~~~~g~d~~~~~~l~~~d~~G~~~~~~~~~~a~GsG~~~a~~~Le~~~~  155 (224)
T d1q5qh_          81 NRLASMVRGNLGAA-----MQGLAVVPLLVGYDLDADDESRAGRIVSYDVVGGRYEERAGYHAVGSGSLFAKSALKKIYS  155 (224)
T ss_dssp             HHHHHHHHTTHHHH-----TTTCCEEEEEEEECTTCSSTTSCEEEEEECTTSCEEECCSSEEEESTTHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHhhccc-----ccCccceeeEEEeecccccccCCceEEEEEccCcEEEeccceeeecCccHHHHHHHHHhhc
Confidence            99999998776532     38999999999887      34699999999999875  4789999999999999999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhhhcCC-CC-------cEEEEEEEcCCCEEEcCHHHHHHHHHhhcc
Q psy5094         186 ESMTLKEAINHVLTILKQVMEEKLN-ST-------NVELCTVTADKMYHLYSKEELEEELSKVSS  242 (251)
Q Consensus       186 ~~~s~~ea~~l~~~~l~~~~~~d~~-~~-------~i~i~~i~~~~~~~~~~~~ei~~~~~~~~~  242 (251)
                      ++||++||++++++||+.+.++|.. ++       ++.+++++++ ++++++++|++++++++.+
T Consensus       156 ~~mt~~ea~~l~~~al~~a~~rD~~SGg~~~~~~~~~~~~~i~~~-g~~~l~~~ei~~~~~~~~~  219 (224)
T d1q5qh_         156 PDSDEETALRAAIESLYDAADDDSATGGPDLTRGIYPTAVTITQA-GAVHVSEETTSELARRIVA  219 (224)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHCTTTCCCBTTTTBCCEEEEEETT-EEEECCHHHHHHHHHHHHH
T ss_pred             ccCCHHHHHHHHHHHHHHHHhhccccCCcccccccceEEEEEeCC-cEEEcCHHHHHHHHHHHHH
Confidence            9999999999999999999999874 33       3789999998 8999999999999988764

>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=4.9e-40  Score=269.50  Aligned_cols=186  Identities=18%  Similarity=0.240  Sum_probs=171.0

Q ss_pred             hcCCcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHH
Q psy5094          32 KLGSTAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIE  110 (251)
Q Consensus        32 ~~G~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~  110 (251)
                      .+|+|+|||+++||||||+|++.+.+ +...++.+||+++ ++++++++|..+|++.+.++++.+++.|++.++.+++++
T Consensus         6 ~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   84 (204)
T d1rypj_           6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEMFRYKTNLYKLKEERAIEPE   84 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             cCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHHHHHHHHHHHHhcCCCCcch
Confidence            58999999999999999999999985 5557888999999 599999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcC-CC-CeEEEECCCCceeec-CEEEeCCCchhHHHHHHhhhcCC
Q psy5094         111 SVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS-KG-PQLFHLDPSGTYTQF-DAKAIGSGSEGAQQSLQEVYHES  187 (251)
Q Consensus       111 ~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~-~g-p~Ly~id~~G~~~~~-~~~a~G~g~~~~~~~Le~~~~~~  187 (251)
                      .+++++++.+|.+++        +||+++++++|||+ +| |+||++||+|++.++ .++++|+|+.+++++|++.|+++
T Consensus        85 ~la~~l~~~l~~~~~--------~p~~v~~li~G~d~~~g~~~L~~~D~~G~~~~~~~~~~~G~g~~~a~~~l~~~~~~~  156 (204)
T d1rypj_          85 TFTQLVSSSLYERRF--------GPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPN  156 (204)
T ss_dssp             HHHHHHHHHHHTTTT--------SCCCEEEEEEEECTTTCCEEEEEECTTCCEECCSSEEEEETTHHHHHHHHHHHCCSS
T ss_pred             HHHHHHHHHHHhhcc--------cceeeeEEEEEEecCCCcceEEEeCCCCccccccCcEEeecchHHHHHHHHhccccC
Confidence            999999999976543        89999999999994 44 899999999999875 58888999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEE
Q psy5094         188 MTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKMYH  226 (251)
Q Consensus       188 ~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~  226 (251)
                      |+++||++++++||..+.++|. ++++++|++|++++..+
T Consensus       157 ms~~ea~~l~~~al~~a~~~d~~sg~~~~v~ii~kdg~~~  196 (204)
T d1rypj_         157 LEPEDLFETISQALLNAADRDALSGWGAVVYIIKKDEVVK  196 (204)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTBTTSCSCEEEEEEESSCEEE
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCccCCeEEEEEEECCceEE
Confidence            9999999999999999999997 67789999999996543

>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=7.3e-40  Score=271.87  Aligned_cols=186  Identities=24%  Similarity=0.339  Sum_probs=169.0

Q ss_pred             HhcCCcEEEEEeCCeEEEEEeccCCCcc-cCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhC-CCCC
Q psy5094          31 IKLGSTAIGISTSEGVVLAAEKRITSVL-MEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYD-EKMD  108 (251)
Q Consensus        31 ~~~G~tvvgi~~~~gVvla~d~~~~~~~-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~i~  108 (251)
                      +++|+|+|||+++||||||+|+|.+.+. +..++.+||++|++|++++++|..+|++.+.++++.+++.|++.++ .+++
T Consensus         6 ~~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~   85 (222)
T d1ryp1_           6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRFKNSVKWYHFDHNDKKLS   85 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHHHHHHHHHHHHTTTCCCC
T ss_pred             cCCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHHHHHhhhhhhhcCCCCCc
Confidence            3789999999999999999999998854 5578899999999999999999999999999999999999998876 5789


Q ss_pred             HHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCC-CeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc--
Q psy5094         109 IESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH--  185 (251)
Q Consensus       109 ~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~g-p~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~--  185 (251)
                      +..+++.++.+++..        +.|||+++++++|+|++| |+||.+||.|++.+++++|+|+|+.+++++||+.|+  
T Consensus        86 ~~~~~~~~~~~~~~~--------~~~p~~~~~li~G~d~~~~~~Ly~~D~~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~  157 (222)
T d1ryp1_          86 INSAARNIQHLLYGK--------RFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGAAASLIMPFLDNQVNFK  157 (222)
T ss_dssp             HHHHHHHHHHHHHTT--------TTSCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTSCT
T ss_pred             HHHHHHHHHHHHHhh--------hhhhheeeeeEEEEeCCCCeEEEEECCCcEEEEeceEEEcccHHHHHHHHHHhhccc
Confidence            999998888877532        238999999999999765 789999999999999999999999999999999987  


Q ss_pred             ---------------CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         186 ---------------ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       186 ---------------~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                                     ++||.+||++++++||..+.++|. ++++++|++|++||.
T Consensus       158 ~~~~~~~~~~~~~~~~~lt~~ea~~l~~~al~~a~~rd~~sg~~v~v~iitkdGv  212 (222)
T d1ryp1_         158 NQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGV  212 (222)
T ss_dssp             TCBCTTSTTCSBCCCCCCCHHHHHHHHHHHHHHHHHHBTTCCSEEEEEEEETTEE
T ss_pred             cccCcccchhhhcccccccHHHHHHHHHHHHHHHHHhcccCCCcEEEEEEeCCCE
Confidence                           689999999999999999999998 566799999999844

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

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

Probab=100.00  E-value=2.6e-38  Score=260.24  Aligned_cols=185  Identities=20%  Similarity=0.274  Sum_probs=172.0

Q ss_pred             hcCCcEEEEEeCCeEEEEEeccCCCc-ccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHH
Q psy5094          32 KLGSTAIGISTSEGVVLAAEKRITSV-LMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIE  110 (251)
Q Consensus        32 ~~G~tvvgi~~~~gVvla~d~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~  110 (251)
                      .+|+|+|||+++||||||+|++.+.+ ++..++.+||++|++|++++++|..+|++.+.++++.+++.|++.++.++++.
T Consensus         7 ~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~   86 (213)
T d1iru1_           7 FNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKIIEARLKMYKHSNNKAMTTG   86 (213)
T ss_dssp             CCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHHHHHHHHHHHHHSSCCCHH
T ss_pred             CCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHHHHHHHHHHHHhhCCchhHH
Confidence            68999999999999999999999885 55577889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-CCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc----
Q psy5094         111 SVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH----  185 (251)
Q Consensus       111 ~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~----  185 (251)
                      .+++.++..+|.+++        +|++++.+++|+|.+ +|.+|.+||.|++.+++++++|+|+.+++++|++.|.    
T Consensus        87 ~~~~~~~~~~~~~~~--------~~~~~~~~~~g~d~~~~~~l~~~d~~g~~~~~~~~a~G~g~~~a~~~l~~~~~~~~~  158 (213)
T d1iru1_          87 AIAAMLSTILYSRRF--------FPYYVYNIIGGLDEEGKGAVYSFDPVGSYQRDSFKAGGSASAMLQPLLDNQVGFKNM  158 (213)
T ss_dssp             HHHHHHHHHHHTTTT--------SCCCEEEEEEEECTTSCEEEEEECTTSCEEEESEEEEETTHHHHHHHHHHHTTCCSC
T ss_pred             HHHHHHHHHHHHHHh--------hhcccccceEEEecCCCcEEEecCCcceeeecCeeeecCccHHHHHHHHHhhcccch
Confidence            999999999987654        799999999999955 5899999999999999999999999999999998764    


Q ss_pred             -----CCCCHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCC
Q psy5094         186 -----ESMTLKEAINHVLTILKQVMEEKL-NSTNVELCTVTADKM  224 (251)
Q Consensus       186 -----~~~s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~  224 (251)
                           ++||++||++++++||..+.++|. ++++++|++|+++|.
T Consensus       159 ~~~~~~~~s~~ea~~~~~~~l~~~~~~d~~sg~~~~v~~i~k~G~  203 (213)
T d1iru1_         159 QNVEHVPLSLDRAMRLVKDVFISAAERDVYTGDALRICIVTKEGI  203 (213)
T ss_dssp             SSCCCCCCCHHHHHHHHHHHHHHHHHHBTTSCSEEEEEEEETTEE
T ss_pred             hcccccCCCHHHHHHHHHHHHHHHHHhcCCCCCceEEEEEeCCCE
Confidence                 689999999999999999999997 566799999999843

>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=1.9e-38  Score=257.64  Aligned_cols=191  Identities=16%  Similarity=0.203  Sum_probs=176.3

Q ss_pred             CcEEEEEeCCeEEEEEeccCCCcc-cCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITSVL-MEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~~~-~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ++||||+++||||||+|+|.+.+. ..+++.+||++|+++++++++|..+|++.+.+.++.+++.|+..++.+++++.++
T Consensus         2 t~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~~~~~~~~~~~~~~~~~~~~~~~   81 (199)
T d1iruk_           2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYIQKNVQLYKMRNGYELSPTAAA   81 (199)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHHHHHHHHHHHHHHSSCCCHHHHH
T ss_pred             eEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEEecccchHHHHHHHHHHHHhhhhhhhcCCcCcHHHHH
Confidence            689999999999999999998854 4467889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCC-CCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~-gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +.++..++.+.+.      .+|++++++++|+|.+ +|+||.+||.|.+.+++++++|+|+.+++++|++.|+++|+++|
T Consensus        82 ~~l~~~~~~~~~~------~~~~~~~~~~aG~d~~~~~~l~~~~~~g~~~~~~~~a~G~gs~~a~~~l~~~~~~~~~~~e  155 (199)
T d1iruk_          82 NFTRRNLADCLRS------RTPYHVNLLLAGYDEHEGPALYYMDYLAALAKAPFAAHGYGAFLTLSILDRYYTPTISRER  155 (199)
T ss_dssp             HHHHHHHHHHHTS------SSCCCEEEEEEEEETTTEEEEEEECTTCCEEECSEEEESHHHHHHHHHHHHHCCTTCCHHH
T ss_pred             HHHHHHHHHHhhc------cCCcceeeeecceeccCCceEEeecccceEEeeeeeeecccchhhhHHHHHhccCCCCHHH
Confidence            9999988766543      2799999999999965 69999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEEEcCCCEEEcCHHH
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTVTADKMYHLYSKEE  232 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i~~~~~~~~~~~~e  232 (251)
                      |++++++||+.+.++|. ++++++|++|+++ |++++++..
T Consensus       156 a~~l~~~al~~~~~~d~~sg~~~~v~vv~~~-g~~~~~~~~  195 (199)
T d1iruk_         156 AVELLRKCLEELQKRFILNLPTFSVRIIDKN-GIHDLDNIS  195 (199)
T ss_dssp             HHHHHHHHHHHHHHTBCBCCCCEEEEEEETT-EEECCCCBC
T ss_pred             HHHHHHHHHHHHHHhcCCcCCceEEEEEcCC-CeEEcCCcc
Confidence            99999999999999986 6778999999998 677776543

>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=99.92  E-value=3.8e-26  Score=182.62  Aligned_cols=173  Identities=12%  Similarity=0.025  Sum_probs=127.4

Q ss_pred             hcCCcEEEEEeCCeEEEEEeccCCC-cccCC-CccCcEEEEcCc-EEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCC
Q psy5094          32 KLGSTAIGISTSEGVVLAAEKRITS-VLMEP-SSIKKIVEIDKH-IGCAASGLIADSRILTDRARVECANHWFTYDEKMD  108 (251)
Q Consensus        32 ~~G~tvvgi~~~~gVvla~d~~~~~-~~~~~-~~~~KI~~i~~~-i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~  108 (251)
                      -+|||+|||+++||||||+|+|.+. +++.. ...+|++.++++ ++++.+|...|.+.+.+..+.+.+.++....    
T Consensus         3 ~~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~----   78 (180)
T d2z3ba1           3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKFEAKLEEYNGNLK----   78 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHHHHHHHHTTTCHH----
T ss_pred             CCCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHHHHHHHHhhccccc----
Confidence            3799999999999999999999998 45554 457899999775 8888899999999999888776654432221    


Q ss_pred             HHHHHHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCC
Q psy5094         109 IESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESM  188 (251)
Q Consensus       109 ~~~l~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~  188 (251)
                       ..+......... .....   .+..++.+....+|++..++.++..++.|      +.++|+|+.+++++|++.|+++|
T Consensus        79 -~~~~~~~~~~~~-~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~a~GSGs~~A~g~l~~~~~~~~  147 (180)
T d2z3ba1          79 -RAAVELAKEWRS-DKVLR---KLEAMLIVMNQDTLLLVSGTGEVIEPDDG------ILAIGSGGNYALAAGRALKKHAG  147 (180)
T ss_dssp             -HHHHHHHHHHHH-CTTGG---GCCCCEEEECSSCEEEECTTCCEECCSSS------EEEESTTHHHHHHHHHHHHHHHG
T ss_pred             -hhHHHHHHHHhH-HHHHH---HhhcceeeeeccccccccCCceeeccccc------EEEEcCchHHHHHHHHHHhhcCC
Confidence             222222221111 11110   11234445555556665666666665554      88999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhhcC-CCCcEEEEEE
Q psy5094         189 TLKEAINHVLTILKQVMEEKL-NSTNVELCTV  219 (251)
Q Consensus       189 s~~ea~~l~~~~l~~~~~~d~-~~~~i~i~~i  219 (251)
                      +.+||++++++||+.|.++|+ ++++++|..|
T Consensus       148 s~~eA~~l~~~Al~~A~e~dvyT~~~~~~~~i  179 (180)
T d2z3ba1         148 ESMSASEIARAALETAGEICVYTNDQIILEEL  179 (180)
T ss_dssp             GGCCHHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             CccCHHHHHHHHHHHHHhhcEEcCCcEEEEEe
Confidence            999999999999999999997 7778888766

>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=99.90  E-value=2.9e-24  Score=169.97  Aligned_cols=167  Identities=13%  Similarity=0.046  Sum_probs=130.6

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEEEeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVA  113 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l~  113 (251)
                      ||+|||+++||||||+|+|.+. +++.+++.+||++|+++++++.+|..+|.+.+...+..+...+...     ......
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~~~~~~~~~~~~-----~~~~~~   75 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRFEAKLREWGG-----NLTKAA   75 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHHTTT-----CHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHHHHHHHHHHhhc-----cchhhH
Confidence            6999999999999999999999 6777899999999999999999999999998887766554443321     112222


Q ss_pred             HHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhc-CCCCHHH
Q psy5094         114 QAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH-ESMTLKE  192 (251)
Q Consensus       114 ~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~-~~~s~~e  192 (251)
                      ...+..+....         .++....++.+.+.++|+++..|+.|.....+++|+|+|+.++++.|+..++ ++++   
T Consensus        76 ~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~a~GSGs~~A~g~l~~~~~~~~~~---  143 (171)
T d1m4ya_          76 VELAKDWRTDR---------VLRRLEALLLVADKENIFIISGNGEVIQPDDDAAAIGSGGPYALAAAKALLRNTDLS---  143 (171)
T ss_dssp             HHHHHHHHHCT---------TGGGCCCEEEEECSSCEEEECTTSCEECCSSSEEEESTTHHHHHHHHHHHHHHCCCC---
T ss_pred             HHHHHHHHHhh---------hhcccccccceecCCcceEEecCCceeeecCCEEEEcchHHHHHHHHHhhccCCCCC---
Confidence            22222222221         2334455666677888999999999999999999999999999999998765 4664   


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEE
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCT  218 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~  218 (251)
                      |.+++++||+.|.++|+ ++++++|..
T Consensus       144 a~el~~~Ai~~A~e~dvyTg~~~~i~~  170 (171)
T d1m4ya_         144 AREIVEKAMTIAGEICIYTNQNIVIEE  170 (171)
T ss_dssp             HHHHHHHHHHHHHHHCTTCCSCCEEEE
T ss_pred             HHHHHHHHHHHHHhhceEcCCcEEEEE
Confidence            77789999999999997 777888754

>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=99.89  E-value=1.1e-22  Score=161.12  Aligned_cols=169  Identities=14%  Similarity=0.038  Sum_probs=122.4

Q ss_pred             CcEEEEEeCCeEEEEEeccCCC-cccCCCccCcEEEEcCcEEE-EeccchhHHHHHHHHHHHHHHHHHhhhCCCCCHHHH
Q psy5094          35 STAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGC-AASGLIADSRILTDRARVECANHWFTYDEKMDIESV  112 (251)
Q Consensus        35 ~tvvgi~~~~gVvla~d~~~~~-~~~~~~~~~KI~~i~~~i~~-~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~l  112 (251)
                      ||+|||+++||||||+|+|.+. +++.+++.+||++|++++++ +.+|...+.+.+.+..+...+.      .+.+....
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~   74 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFELFERKLEM------HQGHLLKS   74 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHHHHHHHH------TTTCHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHHHHHHHHHh------hcCcchhH
Confidence            6999999999999999999999 56778999999999887555 4555555544444433322221      12233333


Q ss_pred             HHHHHHHHHHhcCccccccccCCcceeeEEEEEcCCCCeEEEECCCCceeecCEEEeCCCchhHHHHHHhhhcCCCCHHH
Q psy5094         113 AQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE  192 (251)
Q Consensus       113 ~~~ls~~~~~~~~~~~~~~~~rP~~~~~lv~G~d~~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~s~~e  192 (251)
                      +..++..+.....        .+.....++++.+++++.++..|+.|.+.+.++.|+|+|+.++++.|+..++  ++.++
T Consensus        75 ~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~GSGs~~A~~~l~~~~~--~~~~~  144 (173)
T d1g3ka_          75 AVELAKDWRTDRA--------LRKLEAMLIVADEKESLIITGIGDVVQPEEDQILAIGSGGNYALSAARALVE--NTELS  144 (173)
T ss_dssp             HHHHHHHHHHSTT--------GGGCCCEEEEECSSCEEEEETTTEEECCCTTCEEEESTTHHHHHHHHHHHHH--HCCCC
T ss_pred             HHHHHHHHHHhhh--------hcccccccccccCCCcceecccCceEEecCCCEEEecchHHHHHHHHHHhhh--cCCCC
Confidence            3444444422211        3343444555555667999999999999999999999999999999998874  44557


Q ss_pred             HHHHHHHHHHHHhhhcC-CCCcEEEEEE
Q psy5094         193 AINHVLTILKQVMEEKL-NSTNVELCTV  219 (251)
Q Consensus       193 a~~l~~~~l~~~~~~d~-~~~~i~i~~i  219 (251)
                      |.+++++||+.|.++|+ ++++++|-.|
T Consensus       145 A~ela~~Ai~~Aae~dvyTgd~~~i~~~  172 (173)
T d1g3ka_         145 AHEIVEKSLRIAGDICVFTNTNFTIEEL  172 (173)
T ss_dssp             HHHHHHHHHHHHHHHCTTCCSCCEEEEE
T ss_pred             HHHHHHHHHHHHHhhcEEcCCcEEEEEC
Confidence            89999999999999997 7778888654