Psyllid ID: psy4377

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80-
Protein Sequence
MCDKADCKKAKPAVQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccEEEEEEcccEEEEEEcccccccccccccccEEEEEcccEEEEEcccHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cccHHHHHHccccccccccccccEEEEEEEcccEEEEEcccccccccccccccHHEEEccccEEEEccccHHHHHHHHHcc
Coil and Loop (DISEMBL)
mcdkadckkakpavqppqplscasvfglqfdRGVLLAADSLVSFEGLALFCNAQRIVKVNESillgggnnfadLQYLQDSV
Flexible Loop (DISEMBL)
mcdkadckkakpavqppqplSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESillgggnnfadlqylqdsv
Low Complexity Region (SEG)
McdkadckkakpavqppqpLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV
Disordered region (IsUnstruct)
********************SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYL****
Disordered Region (DISOPRED)
*******************LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV
Disordered Region (DISEMBL)
*****************QPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV
Disordered Region (DISPRO)
*CD**DCKKAKPAVQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MCDKADCKKAKPAVQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	81	2.2.26 [Sep-21-2011]
Q9VNA5	268	Proteasome subunit beta t	yes	N/A	0.703	0.212	0.473	1e-10
P34067	263	Proteasome subunit beta t	yes	N/A	0.851	0.262	0.442	2e-10
P28024	242	Proteasome subunit beta t	N/A	N/A	0.888	0.297	0.438	2e-10
P99026	264	Proteasome subunit beta t	yes	N/A	0.962	0.295	0.405	5e-10
Q29384	154	Proteasome subunit beta t	yes	N/A	0.962	0.506	0.379	1e-09
Q3T108	264	Proteasome subunit beta t	yes	N/A	0.827	0.253	0.441	2e-09
P28070	264	Proteasome subunit beta t	yes	N/A	0.938	0.287	0.402	4e-09
Q9USQ9	262	Probable proteasome subun	yes	N/A	0.827	0.255	0.367	6e-07
P30657	266	Proteasome subunit beta t	yes	N/A	0.851	0.259	0.314	9e-06

>sp|Q9VNA5|PSB4_DROME Proteasome subunit beta type-4 OS=Drosophila melanogaster GN=Prosbeta7 PE=2 SV=1

 Score = 65.1 bits (157), Expect = 1e-10,   Method: Composition-based stats.
 Identities = 27/57 (47%), Positives = 45/57 (78%)

Query: 25  VFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           V G+++D GV+LAAD+LVS+  +A + N +R+ KVN++ILLGG  +FAD+Q ++ ++
Sbjct: 60  VLGIRYDSGVMLAADTLVSYGSMARYQNIERVFKVNKNILLGGSGDFADIQSIKRNI 116

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: 3EC: .EC: 4EC: .EC: 2EC: 5EC: .EC: 1

>sp|P34067|PSB4_RAT Proteasome subunit beta type-4 OS=Rattus norvegicus GN=Psmb4 PE=1 SV=2

 Score = 64.3 bits (155), Expect = 2e-10,   Method: Composition-based stats.
 Identities = 31/70 (44%), Positives = 47/70 (67%), Gaps = 1/70 (1%)

Query: 10  AKPAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGG 68
           A+P  +   P+ +  SV G++FD GV++AAD L S+  LA F N  RI++VN+S +LG  
Sbjct: 39  ARPITRTQNPMVTGTSVLGVKFDCGVVIAADMLGSYGSLARFRNISRIMRVNDSTMLGAS 98

Query: 69  NNFADLQYLQ 78
            ++AD QYL+
Sbjct: 99  GDYADFQYLK 108

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. SMAD1/OAZ1/PSMB4 complex mediates the degradation of the CREBBP/EP300 repressor SNIP1.

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P28024|PSB4_XENLA Proteasome subunit beta type-4 (Fragment) OS=Xenopus laevis GN=psmb4 PE=2 SV=2

 Score = 63.9 bits (154), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 32/73 (43%), Positives = 46/73 (63%), Gaps = 1/73 (1%)

Query: 10 AKPAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGG 68
          A P      P+ +  SV G++FD GV++AAD L S+  LA F N  RI+KVNE+ +LG  
Sbjct: 18 AGPVRHTLNPMVTGTSVLGVKFDGGVIIAADMLGSYGSLARFRNISRIMKVNENTILGAS 77

Query: 69 NNFADLQYLQDSV 81
           ++AD QYL+  +
Sbjct: 78 GDYADYQYLKQVI 90

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.

Xenopus laevis (taxid: 8355)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P99026|PSB4_MOUSE Proteasome subunit beta type-4 OS=Mus musculus GN=Psmb4 PE=1 SV=1

 Score = 63.2 bits (152), Expect = 5e-10,   Method: Composition-based stats.
 Identities = 32/79 (40%), Positives = 48/79 (60%), Gaps = 1/79 (1%)

Query: 1   MCDKADCKKAKPAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKV 59
           + D A      P  +   P+ +  SV G++FD GV++AAD L S+  LA F N  RI++V
Sbjct: 31  LMDPASAPCEGPITRTQNPMVTGTSVLGVKFDGGVVIAADMLGSYGSLARFRNISRIMRV 90

Query: 60  NESILLGGGNNFADLQYLQ 78
           N+S +LG   ++AD QYL+
Sbjct: 91  NDSTMLGASGDYADFQYLK 109

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. Mediates the lipopolysaccharide-induced signal macrophage proteasome. SMAD1/OAZ1/PSMB4 complex mediates the degradation of the CREBBP/EP300 repressor SNIP1.

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q29384|PSB4_PIG Proteasome subunit beta type-4 (Fragment) OS=Sus scrofa GN=PSMB4 PE=2 SV=1

 Score = 61.6 bits (148), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 30/79 (37%), Positives = 46/79 (58%), Gaps = 1/79 (1%)

Query: 1   MCDKADCKKAKPAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKV 59
           + D        P  +   P+ +  SV G++F+ GV++AAD L S+  LA F N  RI++V
Sbjct: 31  IVDPXSVLYGSPITRTQNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRV 90

Query: 60  NESILLGGGNNFADLQYLQ 78
           N S +LG   ++AD QYL+
Sbjct: 91  NNSTMLGASGDYADFQYLK 109

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

Sus scrofa (taxid: 9823)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q3T108|PSB4_BOVIN Proteasome subunit beta type-4 OS=Bos taurus GN=PSMB4 PE=1 SV=1

 Score = 60.8 bits (146), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 30/68 (44%), Positives = 44/68 (64%), Gaps = 1/68 (1%)

Query: 12  PAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNN 70
           P  +   P+ +  SV GL+F+ GV++AAD L S+  LA F N  RI++VN S +LG   +
Sbjct: 42  PITRTQNPMVTGTSVLGLKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGD 101

Query: 71  FADLQYLQ 78
           +AD QYL+
Sbjct: 102 YADFQYLK 109

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|P28070|PSB4_HUMAN Proteasome subunit beta type-4 OS=Homo sapiens GN=PSMB4 PE=1 SV=4

 Score = 60.1 bits (144), Expect = 4e-09,   Method: Composition-based stats.
 Identities = 31/77 (40%), Positives = 46/77 (59%), Gaps = 1/77 (1%)

Query: 3   DKADCKKAKPAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNE 61
           D A      P  +   P+ +  SV G++F+ GV++AAD L S+  LA F N  RI++VN 
Sbjct: 33  DPASALYRGPITRTQNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNN 92

Query: 62  SILLGGGNNFADLQYLQ 78
           S +LG   ++AD QYL+
Sbjct: 93  STMLGASGDYADFQYLK 109

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. Mediates the lipopolysaccharide-induced signal macrophage proteasome (By similarity). SMAD1/OAZ1/PSMB4 complex mediates the degradation of the CREBBP/EP300 repressor SNIP1.

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9USQ9|PSB7_SCHPO Probable proteasome subunit beta type-7 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPBC577.10 PE=3 SV=1

 Score = 52.8 bits (125), Expect = 6e-07,   Method: Composition-based stats.
 Identities = 25/68 (36%), Positives = 44/68 (64%), Gaps = 1/68 (1%)

Query: 12 PAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNN 70
          P  +  QP+ + +SV  L+F  GV++AAD+L S+  LA F + +R+ KV ++ ++G G +
Sbjct: 32 PIQRTVQPIVTGSSVLALKFADGVMIAADNLASYGSLARFYDVERLTKVGDNTIVGAGGD 91

Query: 71 FADLQYLQ 78
           +D Q +Q
Sbjct: 92 ISDYQQIQ 99

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

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

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P30657|PSB7_YEAST Proteasome subunit beta type-7 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PRE4 PE=1 SV=1

 Score = 48.9 bits (115), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 22/70 (31%), Positives = 44/70 (62%), Gaps = 1/70 (1%)

Query: 10 AKPAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGG 68
          A P V   QP+ +  SV  +++D GV++AAD+L S+  L  F   +R++ V ++ ++G  
Sbjct: 28 ASPMVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGIS 87

Query: 69 NNFADLQYLQ 78
           + +D+Q+++
Sbjct: 88 GDISDMQHIE 97

The proteasome degrades poly-ubiquitinated proteins in the cytoplasm and in the nucleus. It is essential for the regulated turnover of proteins and for the removal of misfolded proteins. The proteasome is a multicatalytic proteinase complex that is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH. It has an ATP-dependent proteolytic activity. PRE3 and PRE4 are necessary for the peptidyl-glutamyl-peptide-hydrolyzing activity.

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

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	81
195111662	266	GI10207 [Drosophila mojavensis] gi|19391	0.728	0.221	0.508	4e-10
195497298	268	GE25292 [Drosophila yakuba] gi|194182141	0.728	0.220	0.474	9e-10
194898711	268	GG11060 [Drosophila erecta] gi|190650614	0.728	0.220	0.474	1e-09
156542911	262	PREDICTED: proteasome subunit beta type-	0.679	0.209	0.527	1e-09
194770872	268	GF20703 [Drosophila ananassae] gi|190618	0.728	0.220	0.457	1e-09
383854593	256	PREDICTED: proteasome subunit beta type-	0.716	0.226	0.517	2e-09
195396252	265	GJ10047 [Drosophila virilis] gi|19414345	0.728	0.222	0.491	2e-09
195568398	268	GD19625 [Drosophila simulans] gi|1941981	0.716	0.216	0.465	3e-09
89272522	243	proteasome (prosome macropain) subunit b	0.888	0.296	0.452	4e-09
24644201	268	proteasome beta7 subunit, isoform A [Dro	0.703	0.212	0.473	6e-09

>gi|195111662|ref|XP_002000397.1| GI10207 [Drosophila mojavensis] gi|193916991|gb|EDW15858.1| GI10207 [Drosophila mojavensis]

 Score = 68.6 bits (166), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 30/59 (50%), Positives = 46/59 (77%)

Query: 23  ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           +SV G++FD GVL+AAD+LVS+  LA + N +R+ ++N  ILLGGG +FAD+Q ++ S+
Sbjct: 56  SSVLGIRFDGGVLVAADTLVSYGSLARYQNIERVFQINNKILLGGGGDFADIQSIKRSI 114

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195497298|ref|XP_002096040.1| GE25292 [Drosophila yakuba] gi|194182141|gb|EDW95752.1| GE25292 [Drosophila yakuba]

 Score = 67.4 bits (163), Expect = 9e-10,   Method: Composition-based stats.
 Identities = 28/59 (47%), Positives = 47/59 (79%)

Query: 23  ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           +SV G+++D GV+LAAD+LVS+  LA + N +R+ K+N++ILLGG  +FAD+Q ++ ++
Sbjct: 58  SSVLGIRYDEGVMLAADTLVSYGSLARYQNIERVFKINKNILLGGSGDFADIQSIKRNI 116

Source: Drosophila yakuba

Species: Drosophila yakuba

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194898711|ref|XP_001978911.1| GG11060 [Drosophila erecta] gi|190650614|gb|EDV47869.1| GG11060 [Drosophila erecta]

 Score = 67.0 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 28/59 (47%), Positives = 47/59 (79%)

Query: 23  ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           +SV G+++D GV+LAAD+LVS+  LA + N +R+ K+N++ILLGG  +FAD+Q ++ ++
Sbjct: 58  SSVLGIRYDAGVMLAADTLVSYGSLARYQNIERVFKINKNILLGGSGDFADIQSIKRNI 116

Source: Drosophila erecta

Species: Drosophila erecta

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156542911|ref|XP_001601321.1| PREDICTED: proteasome subunit beta type-4-like [Nasonia vitripennis]

 Score = 67.0 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 29/55 (52%), Positives = 42/55 (76%)

Query: 24  SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
           SV GLQF  G+++AAD L S+  LA F N +R++KVN++I+LG G ++AD QYL+
Sbjct: 52  SVIGLQFKDGIVIAADVLASYGSLARFRNCERVIKVNDNIILGAGGDYADYQYLR 106

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|194770872|ref|XP_001967511.1| GF20703 [Drosophila ananassae] gi|190618521|gb|EDV34045.1| GF20703 [Drosophila ananassae]

 Score = 67.0 bits (162), Expect = 1e-09,   Method: Composition-based stats.
 Identities = 27/59 (45%), Positives = 47/59 (79%)

Query: 23  ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           +SV G++FD GV++AAD++VS+  L+ + +  R+ K+NE ILLGGG++FAD+Q ++ ++
Sbjct: 58  SSVLGIRFDGGVMIAADTMVSYGSLSRYQSIDRVFKINEKILLGGGDDFADIQSIKRTI 116

Source: Drosophila ananassae

Species: Drosophila ananassae

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383854593|ref|XP_003702805.1| PREDICTED: proteasome subunit beta type-4-like [Megachile rotundata]

 Score = 66.6 bits (161), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 30/58 (51%), Positives = 44/58 (75%)

Query: 24  SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           SV G+QF  G+L+AAD L S+  LA F N +R++KVN++I+LG G ++AD QYL+ S+
Sbjct: 51  SVVGIQFKDGILIAADVLGSYGSLARFRNLERVMKVNDNIILGAGGDYADYQYLKRSI 108

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195396252|ref|XP_002056746.1| GJ10047 [Drosophila virilis] gi|194143455|gb|EDW59858.1| GJ10047 [Drosophila virilis]

 Score = 66.2 bits (160), Expect = 2e-09,   Method: Composition-based stats.
 Identities = 29/59 (49%), Positives = 46/59 (77%)

Query: 23  ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           +SV G++FD GVL+AAD+LVS+  LA + + QR+ K+N +ILLGG  +FAD+Q ++ ++
Sbjct: 55  SSVVGIKFDGGVLVAADTLVSYGSLARYQDIQRVFKINNNILLGGSGDFADIQSIKRNI 113

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195568398|ref|XP_002102203.1| GD19625 [Drosophila simulans] gi|194198130|gb|EDX11706.1| GD19625 [Drosophila simulans]

 Score = 65.9 bits (159), Expect = 3e-09,   Method: Composition-based stats.
 Identities = 27/58 (46%), Positives = 46/58 (79%)

Query: 24  SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           SV G+++D GV+LAAD+LVS+  +A + N +R+ K+N++ILLGG  +FAD+Q ++ ++
Sbjct: 59  SVLGIRYDSGVMLAADTLVSYGSMARYQNIERVFKINKNILLGGSGDFADIQSIKRNI 116

Source: Drosophila simulans

Species: Drosophila simulans

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|89272522|emb|CAJ83434.1| proteasome (prosome macropain) subunit beta type 4 [Xenopus (Silurana) tropicalis]

 Score = 65.5 bits (158), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 33/73 (45%), Positives = 46/73 (63%), Gaps = 1/73 (1%)

Query: 10 AKPAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGG 68
          A P      P+ +  SV G++FD GV++AAD L S+  LA F N  RI+KVNES +LG  
Sbjct: 19 AAPVRHTLNPMVTGTSVLGVKFDGGVIIAADMLGSYGSLARFRNISRIMKVNESTILGAS 78

Query: 69 NNFADLQYLQDSV 81
           ++AD QYL+  +
Sbjct: 79 GDYADYQYLKQVI 91

Source: Xenopus (Silurana) tropicalis

Species: Xenopus (Silurana) tropicalis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|24644201|ref|NP_649529.1| proteasome beta7 subunit, isoform A [Drosophila melanogaster] gi|24644203|ref|NP_730922.1| proteasome beta7 subunit, isoform B [Drosophila melanogaster] gi|17380269|sp|Q9VNA5.1|PSB4_DROME RecName: Full=Proteasome subunit beta type-4; AltName: Full=Proteasome subunit beta type-7 gi|7296763|gb|AAF52041.1| proteasome beta7 subunit, isoform A [Drosophila melanogaster] gi|21430236|gb|AAM50796.1| LD24633p [Drosophila melanogaster] gi|23170445|gb|AAN13277.1| proteasome beta7 subunit, isoform B [Drosophila melanogaster] gi|220943926|gb|ACL84506.1| Prosbeta4-PA [synthetic construct] gi|220953802|gb|ACL89444.1| Prosbeta4-PA [synthetic construct]

 Score = 65.1 bits (157), Expect = 6e-09,   Method: Composition-based stats.
 Identities = 27/57 (47%), Positives = 45/57 (78%)

Query: 25  VFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           V G+++D GV+LAAD+LVS+  +A + N +R+ KVN++ILLGG  +FAD+Q ++ ++
Sbjct: 60  VLGIRYDSGVMLAADTLVSYGSMARYQNIERVFKVNKNILLGGSGDFADIQSIKRNI 116

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	81
FB|FBgn0250746	268	Prosbeta7 "Proteasome beta7 su	0.716	0.216	0.482	4.7e-11
UNIPROTKB|P28024	242	psmb4 "Proteasome subunit beta	0.716	0.239	0.5	3.3e-10
UNIPROTKB|D4A640	232	Psmb4 "Proteasome subunit beta	0.679	0.237	0.509	1e-09
MGI|MGI:1098257	264	Psmb4 "proteasome (prosome, ma	0.679	0.208	0.509	1.4e-09
RGD|61877	263	Psmb4 "proteasome (prosome, ma	0.679	0.209	0.509	1.8e-09
UNIPROTKB|P34067	263	Psmb4 "Proteasome subunit beta	0.679	0.209	0.509	1.8e-09
UNIPROTKB|Q29384	154	PSMB4 "Proteasome subunit beta	0.679	0.357	0.490	2.9e-09
UNIPROTKB|Q3T108	264	PSMB4 "Proteasome subunit beta	0.679	0.208	0.509	3.1e-09
UNIPROTKB|E2RBR6	264	PSMB4 "Proteasome subunit beta	0.679	0.208	0.490	4e-09
UNIPROTKB|P28070	264	PSMB4 "Proteasome subunit beta	0.679	0.208	0.490	6.8e-09

FB|FBgn0250746 Prosbeta7 "Proteasome beta7 subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 155 (59.6 bits), Expect = 4.7e-11, P = 4.7e-11
 Identities = 28/58 (48%), Positives = 46/58 (79%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
             SV G+++D GV+LAAD+LVS+  +A + N +R+ KVN++ILLGG  +FAD+Q ++ ++
Sbjct:    59 SVLGIRYDSGVMLAADTLVSYGSMARYQNIERVFKVNKNILLGGSGDFADIQSIKRNI 116

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

GO:0004175 "endopeptidase activity" evidence=ISS;NAS

GO:0006508 "proteolysis" evidence=NAS

GO:0005634 "nucleus" evidence=NAS

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

GO:0005737 "cytoplasm" evidence=NAS

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

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

GO:0009987 "cellular process" evidence=IMP

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0008283 "cell proliferation" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0051297 "centrosome organization" evidence=IMP

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

GO:0022008 "neurogenesis" evidence=IMP

UNIPROTKB|P28024 psmb4 "Proteasome subunit beta type-4" [Xenopus laevis (taxid:8355)]

 Score = 146 (56.5 bits), Expect = 3.3e-10, P = 3.3e-10
 Identities = 29/58 (50%), Positives = 41/58 (70%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
             SV G++FD GV++AAD L S+  LA F N  RI+KVNE+ +LG   ++AD QYL+  +
Sbjct:    33 SVLGVKFDGGVIIAADMLGSYGSLARFRNISRIMKVNENTILGASGDYADYQYLKQVI 90

GO:0005839 "proteasome core complex" evidence=ISS

UNIPROTKB|D4A640 Psmb4 "Proteasome subunit beta type" [Rattus norvegicus (taxid:10116)]

 Score = 141 (54.7 bits), Expect = 1.0e-09, P = 1.0e-09
 Identities = 28/55 (50%), Positives = 40/55 (72%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
             SV G++FD GV++AAD L S+  LA F N  RI++VN+S +LG   ++AD QYL+
Sbjct:    23 SVLGVKFDCGVVIAADMLGSYGSLARFRNISRIMRVNDSTMLGASGDYADFQYLK 77

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

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

MGI|MGI:1098257 Psmb4 "proteasome (prosome, macropain) subunit, beta type 4" [Mus musculus (taxid:10090)]

 Score = 142 (55.0 bits), Expect = 1.4e-09, P = 1.4e-09
 Identities = 28/55 (50%), Positives = 40/55 (72%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
             SV G++FD GV++AAD L S+  LA F N  RI++VN+S +LG   ++AD QYL+
Sbjct:    55 SVLGVKFDGGVVIAADMLGSYGSLARFRNISRIMRVNDSTMLGASGDYADFQYLK 109

GO:0000502 "proteasome complex" evidence=IEA

GO:0001530 "lipopolysaccharide binding" evidence=IDA

GO:0002862 "negative regulation of inflammatory response to antigenic stimulus" evidence=IMP

GO:0004175 "endopeptidase activity" evidence=IEA

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IDA

GO:0006508 "proteolysis" evidence=IEA

GO:0008233 "peptidase activity" evidence=IEA

GO:0016787 "hydrolase activity" evidence=IEA

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

RGD|61877 Psmb4 "proteasome (prosome, macropain) subunit, beta type 4" [Rattus norvegicus (taxid:10116)]

 Score = 141 (54.7 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 28/55 (50%), Positives = 40/55 (72%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
             SV G++FD GV++AAD L S+  LA F N  RI++VN+S +LG   ++AD QYL+
Sbjct:    54 SVLGVKFDCGVVIAADMLGSYGSLARFRNISRIMRVNDSTMLGASGDYADFQYLK 108

GO:0001530 "lipopolysaccharide binding" evidence=IEA;ISO

GO:0002862 "negative regulation of inflammatory response to antigenic stimulus" evidence=IEA;ISO

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

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

UNIPROTKB|P34067 Psmb4 "Proteasome subunit beta type-4" [Rattus norvegicus (taxid:10116)]

 Score = 141 (54.7 bits), Expect = 1.8e-09, P = 1.8e-09
 Identities = 28/55 (50%), Positives = 40/55 (72%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
             SV G++FD GV++AAD L S+  LA F N  RI++VN+S +LG   ++AD QYL+
Sbjct:    54 SVLGVKFDCGVVIAADMLGSYGSLARFRNISRIMRVNDSTMLGASGDYADFQYLK 108

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

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

UNIPROTKB|Q29384 PSMB4 "Proteasome subunit beta type-4" [Sus scrofa (taxid:9823)]

 Score = 136 (52.9 bits), Expect = 2.9e-09, P = 2.9e-09
 Identities = 27/55 (49%), Positives = 39/55 (70%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
             SV G++F+ GV++AAD L S+  LA F N  RI++VN S +LG   ++AD QYL+
Sbjct:    55 SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLK 109

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

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

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

UNIPROTKB|Q3T108 PSMB4 "Proteasome subunit beta type-4" [Bos taurus (taxid:9913)]

 Score = 139 (54.0 bits), Expect = 3.1e-09, P = 3.1e-09
 Identities = 28/55 (50%), Positives = 39/55 (70%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
             SV GL+F+ GV++AAD L S+  LA F N  RI++VN S +LG   ++AD QYL+
Sbjct:    55 SVLGLKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLK 109

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0002862 "negative regulation of inflammatory response to antigenic stimulus" evidence=IEA

GO:0001530 "lipopolysaccharide binding" evidence=IEA

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

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

UNIPROTKB|E2RBR6 PSMB4 "Proteasome subunit beta type" [Canis lupus familiaris (taxid:9615)]

 Score = 138 (53.6 bits), Expect = 4.0e-09, P = 4.0e-09
 Identities = 27/55 (49%), Positives = 40/55 (72%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
             SV G++F+ GV++AAD L S+  LA F N  RI++VN+S +LG   ++AD QYL+
Sbjct:    55 SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNDSTMLGASGDYADFQYLK 109

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005839 "proteasome core complex" evidence=IEA

GO:0002862 "negative regulation of inflammatory response to antigenic stimulus" evidence=IEA

GO:0001530 "lipopolysaccharide binding" evidence=IEA

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

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

UNIPROTKB|P28070 PSMB4 "Proteasome subunit beta type-4" [Homo sapiens (taxid:9606)]

 Score = 136 (52.9 bits), Expect = 6.8e-09, P = 6.8e-09
 Identities = 27/55 (49%), Positives = 39/55 (70%)

Query:    24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
             SV G++F+ GV++AAD L S+  LA F N  RI++VN S +LG   ++AD QYL+
Sbjct:    55 SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLK 109

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

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

GO:0001530 "lipopolysaccharide binding" evidence=IEA

GO:0002862 "negative regulation of inflammatory response to antigenic stimulus" evidence=IEA

GO:0005634 "nucleus" evidence=TAS

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

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	81
cd03760	197	cd03760, proteasome_beta_type_4, proteasome beta t	2e-17
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	2e-10
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	6e-08
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	1e-05
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	2e-04
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	2e-04
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	5e-04
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	7e-04

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

 Score = 72.2 bits (178), Expect = 2e-17
 Identities = 25/56 (44%), Positives = 38/56 (67%)

Query: 23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
           SV  +++  GV++AAD+L S+  LA F N +RI KV ++ LLG   ++AD QYL+
Sbjct: 3  TSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLK 58

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

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

 Score = 53.6 bits (130), Expect = 2e-10
 Identities = 20/56 (35%), Positives = 32/56 (57%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          ++ G++   GV+LAAD+  S   L    N  +I K++++ILLG   + AD Q L  
Sbjct: 2  TIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTR 57

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

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score = 46.7 bits (112), Expect = 6e-08
 Identities = 16/56 (28%), Positives = 28/56 (50%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          ++ G++   GV+LAAD  V+   L      ++I K+++ I        AD Q L +
Sbjct: 2  TIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVE 57

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|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 = 40.5 bits (95), Expect = 1e-05
 Identities = 15/54 (27%), Positives = 22/54 (40%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYL 77
          +   ++   GV+LAAD  +S           +I K  + I  G     AD Q L
Sbjct: 2  TSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTL 55

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

 Score = 37.7 bits (88), Expect = 2e-04
 Identities = 16/54 (29%), Positives = 27/54 (50%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYL 77
          +  G++   GV+LAAD   +   L    N ++I K+++ I +      AD Q L
Sbjct: 32 TTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVL 85

Length = 236

>gnl|CDD|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit

 Score = 37.2 bits (87), Expect = 2e-04
 Identities = 14/55 (25%), Positives = 25/55 (45%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          G+    GV+LAAD   S        N ++I ++++ I +    +  D Q L   +
Sbjct: 5  GIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRIL 59

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

 Score = 36.0 bits (84), Expect = 5e-04
 Identities = 14/55 (25%), Positives = 27/55 (49%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          G++   GV+LAAD   S        NA+++ ++++ I +    +  D Q L   +
Sbjct: 6  GIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60

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|215805 pfam00227, Proteasome, Proteasome subunit

 Score = 35.6 bits (83), Expect = 7e-04
 Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 1/55 (1%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALF-CNAQRIVKVNESILLGGGNNFADLQYL 77
          ++ G++   GV+LAAD   +     L     ++I K+++ I +      AD Q L
Sbjct: 6  TIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	81
KOG0185|consensus	256		99.86
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	99.8
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	99.8
KOG0174|consensus	224		99.78
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	99.77
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	99.77
PTZ00488	247	Proteasome subunit beta type-5; Provisional	99.76
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	99.75
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	99.74
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	99.72
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	99.72
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	99.71
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	99.71
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	99.7
KOG0173|consensus	271		99.7
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	99.7
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	99.69
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	99.68
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	99.67
KOG0179|consensus	235		99.67
PTZ00246	253	proteasome subunit alpha; Provisional	99.67
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	99.67
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	99.66
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	99.65
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	99.65
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	99.65
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	99.64
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	99.63
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	99.63
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	99.63
PRK03996	241	proteasome subunit alpha; Provisional	99.62
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	99.61
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	99.58
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	99.58
KOG0175|consensus	285		99.56
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	99.46
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	99.43
KOG0177|consensus	200		99.37
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	99.29
KOG0176|consensus	241		99.26
KOG0180|consensus	204		99.02
KOG0184|consensus	254		99.0
KOG0178|consensus	249		98.71
COG5405	178	HslV ATP-dependent protease HslVU (ClpYQ), peptida	98.62
KOG0183|consensus	249		98.38
KOG0181|consensus	233		98.29
KOG0863|consensus	264		98.25
KOG0182|consensus	246		97.11
COG3484	255	Predicted proteasome-type protease [Posttranslatio	86.94

>KOG0185|consensus

Probab=99.86  E-value=6.3e-22  Score=143.26  Aligned_cols=69  Identities=35%  Similarity=0.581  Sum_probs=66.0

Q ss_pred             cCCCCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          13 AVQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        13 ~~~~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +...+|++|||||||++|+||||||||++.|||++.++++++|++++++|+++|+||+.||+|+|.+.|
T Consensus        32 qrt~~p~vTGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVgdntllG~sGdisD~Q~i~r~L  100 (256)
T KOG0185|consen   32 QRTLNPIVTGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVGDNTLLGASGDISDFQYIQRVL  100 (256)
T ss_pred             ccccCceeccceEEEEEecCceEEEecccccchhhhhhcCceeeEEecCceEEecCccHHHHHHHHHHH
Confidence            446789999999999999999999999999999999999999999999999999999999999999875

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=99.80  E-value=9e-20  Score=126.26  Aligned_cols=60  Identities=20%  Similarity=0.288  Sum_probs=58.3

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEe-cCeEEEEecccHHHHHHHHHhC
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKV-NESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i-~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      |||++||+|+||||||||+|+++|.++.+++.+||++| ++|+++++||+.||+|+|.+.|
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l   61 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERF   61 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHH
Confidence            79999999999999999999999999999999999999 9999999999999999999864

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=99.80  E-value=1.2e-19  Score=127.45  Aligned_cols=66  Identities=18%  Similarity=0.169  Sum_probs=62.6

Q ss_pred             CCCCC-CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          16 PPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        16 ~~~~~-~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      |+||. +|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.+.+.+
T Consensus         1 ~~~~~~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~   67 (212)
T cd03757           1 FSPYTDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRL   67 (212)
T ss_pred             CCCccCCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHH
Confidence            57888 9999999999999999999999999999899999999999999999999999999998763

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.

>KOG0174|consensus

Probab=99.78  E-value=2.3e-19  Score=127.46  Aligned_cols=68  Identities=21%  Similarity=0.294  Sum_probs=63.5

Q ss_pred             CCCCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          14 VQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        14 ~~~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+..++++|||++|++|+|||||+||+|.|.|.++.++..+|+.+|+|+++||.||+.||.|.+.+++
T Consensus        11 ~~~~evstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~   78 (224)
T KOG0174|consen   11 LPKEEVSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIV   78 (224)
T ss_pred             CcccccccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEecCCchhhHHHHHHHH
Confidence            34446889999999999999999999999999999999999999999999999999999999998763

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=99.77  E-value=9e-19  Score=121.65  Aligned_cols=59  Identities=20%  Similarity=0.321  Sum_probs=56.8

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEe-cCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKV-NESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i-~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||++||+|+||||||+|+|.++|+++.+++.+||++| ++|+++|+||+.||+|+|.+.+
T Consensus         1 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~Ki~~i~~d~i~~~~aG~~aD~q~l~~~~   60 (171)
T TIGR03692         1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERF   60 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeceEEEcCCCCeEEEeCCCCEEEEecchHHHHHHHHHHH
Confidence            7999999999999999999999999999999999999 5999999999999999999864

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

>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=99.77  E-value=1e-18  Score=121.38  Aligned_cols=59  Identities=17%  Similarity=0.294  Sum_probs=57.0

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecC-eEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNE-SILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~-~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||++||+|+||||||+|+|.++|+++.+++.+||++|++ |+++|+||+.+|+|+|.+.+
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~   60 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERF   60 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHH
Confidence            799999999999999999999999999999999999999 99999999999999998864

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.

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=99.76  E-value=2.1e-18  Score=124.63  Aligned_cols=65  Identities=12%  Similarity=0.245  Sum_probs=61.8

Q ss_pred             CCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          17 PQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        17 ~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      -|+.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++++.||+.+|+|.|.+.+
T Consensus        34 ~~~~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l   98 (247)
T PTZ00488         34 IEFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWEREL   98 (247)
T ss_pred             cccCCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHH
Confidence            37789999999999999999999999999999999999999999999999999999999998864

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=99.75  E-value=3.2e-18  Score=118.63  Aligned_cols=61  Identities=41%  Similarity=0.719  Sum_probs=58.4

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|++++.+|..+|+|.+.+.+
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~   61 (197)
T cd03760           1 TGTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLL   61 (197)
T ss_pred             CCceEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999998753

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=99.74  E-value=6.6e-18  Score=117.05  Aligned_cols=61  Identities=15%  Similarity=0.245  Sum_probs=57.6

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|+|+|||+++||||||+|+|.+.+.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus         2 ~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~   62 (195)
T cd03759           2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKL   62 (195)
T ss_pred             CCceEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHH
Confidence            6999999999999999999999988888888999999999999999999999999998753

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=99.72  E-value=1.4e-17  Score=119.40  Aligned_cols=61  Identities=26%  Similarity=0.263  Sum_probs=58.4

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|||+|||+++||||||+|+|.++|.++.+++.+||++|++|++++.||+.+|+|.|.+.+
T Consensus        29 ~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~sG~~aDa~~lv~~~   89 (236)
T COG0638          29 GGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYA   89 (236)
T ss_pred             CCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEeccCcHhHHHHHHHH
Confidence            5799999999999999999999999999999999999999999999999999999998753

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=99.72  E-value=1.9e-17  Score=116.88  Aligned_cols=61  Identities=15%  Similarity=0.168  Sum_probs=58.2

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|+|+|||+++||||||+|+|.++|+++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~   61 (219)
T TIGR03690         1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLF   61 (219)
T ss_pred             CCcEEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHH
Confidence            4899999999999999999999999999999999999999999999999999999998753

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.

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=99.71  E-value=2e-17  Score=113.48  Aligned_cols=59  Identities=24%  Similarity=0.348  Sum_probs=56.4

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.|
T Consensus         1 ~t~igi~~~dgVvla~D~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l   59 (188)
T cd03762           1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYV   59 (188)
T ss_pred             CeEEEEEECCeEEEEEcccccCCceEEcCCcccEEEccCCEEEEecccHHHHHHHHHHH
Confidence            69999999999999999999999999999999999999999999999999999998753

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=99.71  E-value=2.4e-17  Score=112.68  Aligned_cols=59  Identities=24%  Similarity=0.345  Sum_probs=57.1

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      |+|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 G~t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~   59 (185)
T TIGR03634         1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRI   59 (185)
T ss_pred             CCcEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999875

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.

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=99.70  E-value=3.4e-17  Score=112.96  Aligned_cols=59  Identities=20%  Similarity=0.319  Sum_probs=56.4

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++|++++.||..+|+|.|.+.+
T Consensus         1 tT~igi~~kdgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~   59 (188)
T cd03761           1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVL   59 (188)
T ss_pred             CcEEEEEECCEEEEEEcCCccCCcEEEcCCcceEEEccCcEEEEeCccHHHHHHHHHHH
Confidence            69999999999999999999999999999999999999999999999999999998763

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

>KOG0173|consensus

Probab=99.70  E-value=2.4e-17  Score=120.40  Aligned_cols=79  Identities=20%  Similarity=0.296  Sum_probs=75.0

Q ss_pred             CChhhhhhhCCcCCCCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377           2 CDKADCKKAKPAVQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus         2 ~~~~~~~~a~~~~~~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      |+||..++.+..-.+.-..+|||++|+.|+||||++||+|++-|+.+..+|..||+.|.++|++|.+|..+|...+.+.
T Consensus        17 c~rn~~l~~~g~k~p~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m   95 (271)
T KOG0173|consen   17 CQRNAALLKKGLKAPKATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRM   95 (271)
T ss_pred             hhhHHHHHhcCCCCCcccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEccCCchhhHHHHHHH
Confidence            9999999988888887788999999999999999999999999999999999999999999999999999999988765

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=99.70  E-value=4.9e-17  Score=112.69  Aligned_cols=59  Identities=20%  Similarity=0.253  Sum_probs=56.5

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++|++++.||..+|+|.|.+.+
T Consensus         2 ~t~igi~~~dgVvlaad~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~   60 (193)
T cd03758           2 ETLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYI   60 (193)
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEecCcccEEEeCCCeEEEEccchHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999998753

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=99.69  E-value=6.8e-17  Score=111.22  Aligned_cols=59  Identities=22%  Similarity=0.345  Sum_probs=56.3

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|+++++++.||..+|+|.|.+.+
T Consensus         1 tt~igi~~~dgvvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~   59 (189)
T cd03763           1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMI   59 (189)
T ss_pred             CeEEEEEECCeEEEEEcCCcccCceEEcCCccceEEecCCEEEEcCccHHHHHHHHHHH
Confidence            69999999999999999999999999999999999999999999999999999998753

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=99.68  E-value=8.3e-17  Score=109.14  Aligned_cols=62  Identities=32%  Similarity=0.453  Sum_probs=57.6

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCC-ccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCN-AQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~-~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|+|+|||+++|||+||+|+|.++|+.+..++ .+||++|++|+++++||..+|+|.+.+.+
T Consensus         2 ~~G~t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l   64 (190)
T PF00227_consen    2 NNGTTVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRL   64 (190)
T ss_dssp             HTSBEEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHH
T ss_pred             CCCeEEEEEEECCEEEEEEccccccccccccccccceeeeccCcceeeccccccchHHHHhhh
Confidence            379999999999999999999999999997777 69999999999999999999999998753

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 ....

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=99.67  E-value=6.3e-17  Score=114.50  Aligned_cols=61  Identities=20%  Similarity=0.196  Sum_probs=57.1

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|+++++||..+|+|.+.+.+
T Consensus        25 ~~G~t~igik~~dgVvlaad~~~~-~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~   85 (227)
T cd03750          25 SSGAPSVGIKAANGVVLATEKKVP-SPLIDESSVHKVEQITPHIGMVYSGMGPDFRVLVKKA   85 (227)
T ss_pred             HcCCCEEEEEeCCEEEEEEeecCC-ccccCCCCcceEEEEcCCEEEEEeEcHHhHHHHHHHH
Confidence            469999999999999999999998 7888889999999999999999999999999998753

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.

>KOG0179|consensus

Probab=99.67  E-value=9.6e-17  Score=115.05  Aligned_cols=71  Identities=15%  Similarity=0.110  Sum_probs=66.6

Q ss_pred             CCcCCCCCCC-CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          11 KPAVQPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        11 ~~~~~~~~~~-~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +.+.+|+||. ||+|++||+++||.|||+|||.+.|..+.+++.+||+++.|+++++.||.+||+..|++.|
T Consensus        17 ~~~~~f~PY~~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i   88 (235)
T KOG0179|consen   17 MDHERFSPYEDNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLGSSGFYADTLALVKVI   88 (235)
T ss_pred             cccccCCccccCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEecccchhhHHHHHHHH
Confidence            4567899998 9999999999999999999999999999999999999999999999999999999998753

>PTZ00246 proteasome subunit alpha; Provisional

Probab=99.67  E-value=7.6e-17  Score=115.78  Aligned_cols=60  Identities=23%  Similarity=0.245  Sum_probs=57.1

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|+|.+++.++.+++.+||++|++|+++++||..+|++.+.+.
T Consensus        30 ~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   89 (253)
T PTZ00246         30 NASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADANILINQ   89 (253)
T ss_pred             hCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEEEEcHHHHHHHHHH
Confidence            499999999999999999999999999988889999999999999999999999998874

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=99.67  E-value=1.6e-16  Score=108.99  Aligned_cols=58  Identities=24%  Similarity=0.343  Sum_probs=56.0

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|++.|.+.
T Consensus         1 tt~iai~~~dgvvia~d~r~~~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~   58 (188)
T cd03764           1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRI   58 (188)
T ss_pred             CcEEEEEeCCEEEEEEccccccCCEEecCCcccEEEccCCEEEEcCccHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999875

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.

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=99.66  E-value=1.4e-16  Score=112.24  Aligned_cols=61  Identities=23%  Similarity=0.305  Sum_probs=56.8

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.+|+|+|||+++||||||+|+|.+ ++++.+++.+||++|++++++++||..+|+|.+.+.
T Consensus        26 v~~G~tvigi~~~dgvvlaad~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~   86 (224)
T TIGR03633        26 VKRGTTAVGIKTKDGVVLAVDKRIT-SKLVEPSSIEKIFKIDDHIGAATSGLVADARVLIDR   86 (224)
T ss_pred             HHcCCCEEEEEECCEEEEEEeccCC-ccccCCCccceEEEECCCEEEEEeecHHhHHHHHHH
Confidence            3469999999999999999999998 678888999999999999999999999999999875

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

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=99.65  E-value=1.6e-16  Score=111.42  Aligned_cols=62  Identities=19%  Similarity=0.260  Sum_probs=57.9

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|+|+|||+++||||||+|+|.+.+.++.+++.+||++|++|+++++||..+|++.+.+.+
T Consensus        27 ~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~   88 (213)
T cd03752          27 SHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDANILINYA   88 (213)
T ss_pred             hcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEEEecChHhHHHHHHHH
Confidence            35999999999999999999999988888888999999999999999999999999998753

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

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=99.65  E-value=1.7e-16  Score=110.98  Aligned_cols=61  Identities=21%  Similarity=0.309  Sum_probs=56.5

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|+|+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++.||..+|+|.+.+.+
T Consensus        26 ~~G~t~igik~~dgvvla~d~~~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~l   86 (211)
T cd03756          26 KRGTTALGIKCKEGVVLAVDKRIT-SKLVEPESIEKIYKIDDHVGAATSGLVADARVLIDRA   86 (211)
T ss_pred             HcCCCEEEEEECCEEEEEEeccCC-CcccCCCccceEEEEcCCEEEEEecCHHHHHHHHHHH
Confidence            369999999999999999999987 6788888999999999999999999999999998753

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

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=99.65  E-value=3.1e-16  Score=109.37  Aligned_cols=61  Identities=21%  Similarity=0.249  Sum_probs=56.1

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|+|+|||+++||||+|+|+|.+.+ ++..++.+||++|++++++++||..+|+|.+.+.+
T Consensus        25 ~~G~tvigi~~~dgVvlaaD~~~~~~-~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l   85 (209)
T cd01911          25 KNGSTAVGIKGKDGVVLAVEKKVTSK-LLDPSSVEKIFKIDDHIGCAVAGLTADARVLVNRA   85 (209)
T ss_pred             HcCCCEEEEEECCEEEEEEEecCCcc-ccCCcccceEEEecCCeEEEeccCcHhHHHHHHHH
Confidence            46999999999999999999999954 66678999999999999999999999999998764

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.

>cd01912 proteasome_beta proteasome beta subunit

Probab=99.64  E-value=5.6e-16  Score=105.68  Aligned_cols=58  Identities=34%  Similarity=0.450  Sum_probs=55.6

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|+++++++.||..+|+|.+.+.
T Consensus         1 tt~i~i~~~dgVvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~   58 (189)
T cd01912           1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRL   58 (189)
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEEcCCcCcEEEccCCEEEEccccHHHHHHHHHH
Confidence            6899999999999999999999999889999999999999999999999999998875

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=99.63  E-value=3.7e-16  Score=109.39  Aligned_cols=60  Identities=20%  Similarity=0.274  Sum_probs=55.3

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.+. .++..++.+||++|++|+++++||..+|+|.+.+.
T Consensus        25 ~~G~t~igik~~dgVvlaad~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   84 (213)
T cd03753          25 KLGSTAIGIKTKEGVVLAVEKRITS-PLMEPSSVEKIMEIDDHIGCAMSGLIADARTLIDH   84 (213)
T ss_pred             hcCCCEEEEEeCCEEEEEEecccCC-cCcCCCccceEEEEcCCEEEEEecCHHHHHHHHHH
Confidence            3699999999999999999999985 56777899999999999999999999999999875

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

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=99.63  E-value=3e-16  Score=110.58  Aligned_cols=60  Identities=25%  Similarity=0.294  Sum_probs=55.1

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.++ .+...++.+||++|++|+++++||..+|++.+.+.
T Consensus        28 ~~G~tvIgik~kdgVvla~d~r~~~-~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   87 (212)
T cd03751          28 ENSGTAIGIRCKDGVVLAVEKLVTS-KLYEPGSNKRIFNVDRHIGIAVAGLLADGRHLVSR   87 (212)
T ss_pred             hcCCCEEEEEeCCEEEEEEEccccc-cccCcchhcceeEecCcEEEEEEEChHhHHHHHHH
Confidence            3599999999999999999999985 66667789999999999999999999999999875

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.

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=99.63  E-value=8.9e-16  Score=103.46  Aligned_cols=59  Identities=27%  Similarity=0.307  Sum_probs=55.8

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||+|||+++|||+||+|+|.++|....+++.+||++|++++++++||..+|++.+.+.+
T Consensus         1 tt~igi~~~dgvvla~d~~~~~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~   59 (182)
T cd01906           1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERL   59 (182)
T ss_pred             CcEEEEEeCCEEEEEEecccCCcCeecCCCcceEEEECCCEEEEEeeCHHHHHHHHHHH
Confidence            68999999999999999999999888889999999999999999999999999998753

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

>PRK03996 proteasome subunit alpha; Provisional

Probab=99.62  E-value=1.2e-15  Score=108.68  Aligned_cols=60  Identities=23%  Similarity=0.315  Sum_probs=56.2

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.+ +.++..++.+||++|++|+++++||..+|+|.+.+.
T Consensus        34 ~~G~t~igik~~dgVvlaad~r~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   93 (241)
T PRK03996         34 KRGTTAVGVKTKDGVVLAVDKRIT-SPLIEPSSIEKIFKIDDHIGAASAGLVADARVLIDR   93 (241)
T ss_pred             HhCCCEEEEEeCCEEEEEEeccCC-CcccCCCccceEEEEcCCEEEEEcccHHHHHHHHHH
Confidence            469999999999999999999998 678888899999999999999999999999999865

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=99.61  E-value=8.8e-16  Score=107.24  Aligned_cols=60  Identities=15%  Similarity=0.131  Sum_probs=54.7

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|++.+ +.++.+++.+||++|++|+++++||..+|+|.+.+.
T Consensus        25 ~~G~t~Igik~~dgVvlaad~~~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   84 (207)
T cd03755          25 RKGTTAVGVRGKDCVVLGVEKKSV-AKLQDPRTVRKICMLDDHVCLAFAGLTADARVLINR   84 (207)
T ss_pred             HcCCCEEEEEeCCEEEEEEecCCC-CcccCCCccCcEEEECCCEEEEEecchhhHHHHHHH
Confidence            469999999999999999999976 457777789999999999999999999999999775

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=99.58  E-value=2.7e-15  Score=105.71  Aligned_cols=60  Identities=8%  Similarity=0.000  Sum_probs=53.7

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|+|+|||+++||||||+|+|.+.+ ++..++.+||++|++|+++++||..+|++.|.+.+
T Consensus        28 ~g~t~igi~~~d~Vvlaad~r~~~~-~i~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~   87 (215)
T cd03754          28 AGLTSVAVRGKDCAVVVTQKKVPDK-LIDPSTVTHLFRITDEIGCVMTGMIADSRSQVQRA   87 (215)
T ss_pred             CCccEEEEEeCCEEEEEEecccccc-ccCCcccCceEEEcCCEEEEEEechhhHHHHHHHH
Confidence            5889999999999999999998865 44455889999999999999999999999998753

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=99.58  E-value=2.7e-15  Score=105.29  Aligned_cols=59  Identities=22%  Similarity=0.197  Sum_probs=52.5

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|+|+|||+++||||||+|+|.+.+ +  .++.+||++|++|+++++||..+|++.|.+.+
T Consensus        25 ~~G~t~IgIk~~dgVvlaad~r~~~~-l--~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~   83 (211)
T cd03749          25 KQGSATVGLKSKTHAVLVALKRATSE-L--SSYQKKIFKVDDHIGIAIAGLTADARVLSRYM   83 (211)
T ss_pred             hcCCCEEEEEeCCEEEEEEeccCccc-c--CCccccEEEeCCCEEEEEEeChHhHHHHHHHH
Confidence            46999999999999999999997754 3  45779999999999999999999999998753

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.

>KOG0175|consensus

Probab=99.56  E-value=3.5e-15  Score=109.52  Aligned_cols=63  Identities=19%  Similarity=0.266  Sum_probs=60.7

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +.+|||++|++|++|||+|+|+|+|.|+++.++.+.||.+|+++.+-..+|-+||+|++.|+|
T Consensus        68 ~~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L  130 (285)
T KOG0175|consen   68 FAHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVL  130 (285)
T ss_pred             ecCCceEEEEEecCcEEEEEeccccccceeechhhceeeeechhhhhcccCcchhhHHHHHHH
Confidence            468999999999999999999999999999999999999999999999999999999999875

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=99.46  E-value=1.8e-13  Score=98.77  Aligned_cols=57  Identities=19%  Similarity=0.270  Sum_probs=50.5

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEec----CeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVN----ESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~----~~i~~~~sG~~aD~q~l~~~   80 (81)
                      |-+|||+++||||||||+|.+.+.... ++.+||++|+    +|++++.||..||+|.|.+.
T Consensus         1 ~~~vGIk~kdGVVLaadkr~~~~l~~~-~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~   61 (236)
T cd03765           1 TYCLGIKLDAGLVFASDSRTNAGVDNI-STYRKMFVFSVPGERVIVLLTAGNLATTQAVISL   61 (236)
T ss_pred             CeEEEEEeCCeEEEEEccCccCCCccc-cccceEEEecCCCCCEEEEEcCCcHHHHHHHHHH
Confidence            457999999999999999988764444 4799999998    99999999999999999875

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

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=99.43  E-value=2.5e-13  Score=97.23  Aligned_cols=52  Identities=17%  Similarity=0.321  Sum_probs=47.7

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .|+|+|||+++||||||+|++        +++.+||++|++|+++++||..+|++.+.+.
T Consensus        26 ~g~T~VGIk~kdgVVLaaek~--------~~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~   77 (228)
T TIGR03691        26 RGRSVVVLTYADGILFVAENP--------SRSLHKISELYDRIGFAAVGKYNEFENLRRA   77 (228)
T ss_pred             cCCcEEEEEeCCeEEEEEecC--------CCCcCcEEEecCCEEEEEcCCHHHHHHHHHH
Confidence            399999999999999999996        2478999999999999999999999998763

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.

>KOG0177|consensus

Probab=99.37  E-value=5.1e-13  Score=94.48  Aligned_cols=59  Identities=19%  Similarity=0.235  Sum_probs=56.3

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.|++||++.|||++||||..++|.++++++.+|+++|++|++++++|+.+|+.++.+.
T Consensus         1 Me~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~ey   59 (200)
T KOG0177|consen    1 METLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEY   59 (200)
T ss_pred             CceEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeeeecCCCceehHHHH
Confidence            46899999999999999999999999999999999999999999999999999998874

>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=99.29  E-value=1.2e-11  Score=79.63  Aligned_cols=58  Identities=26%  Similarity=0.150  Sum_probs=54.9

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+||++++|||++|+|++.+.+......+.+|+++++++++++.+|..+|++.+.+.
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~   58 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRR   58 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEEEecChHHHHHHHHH
Confidence            5899999999999999999999988878899999999999999999999999999875

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

>KOG0176|consensus

Probab=99.26  E-value=4e-12  Score=91.13  Aligned_cols=58  Identities=21%  Similarity=0.309  Sum_probs=54.8

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHH
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD   79 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~   79 (81)
                      .|+|.|||+.++||+||++.|.+ +.+.-++.+.|+++|++||+|++||..||...+.+
T Consensus        33 LGsTaIGv~TkEgVvL~vEKrit-SpLm~p~sveKi~eid~HIgca~SGl~aDarTlve   90 (241)
T KOG0176|consen   33 LGSTAIGVKTKEGVVLAVEKRIT-SPLMEPSSVEKIVEIDDHIGCAMSGLIADARTLVE   90 (241)
T ss_pred             cCCceeeeeccceEEEEEecccc-CcccCchhhhhheehhhceeeeccccccchHHHHH
Confidence            49999999999999999999988 67888899999999999999999999999999875

>KOG0180|consensus

Probab=99.02  E-value=4.5e-10  Score=79.17  Aligned_cols=61  Identities=21%  Similarity=0.274  Sum_probs=56.8

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||++++|++++++|.||+|.|.-.-+...+.+.+||++++++.++|.+|...|.|.+.+.|
T Consensus         7 nGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~GL~glatDvqtl~~~~   67 (204)
T KOG0180|consen    7 NGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYLGLTGLATDVQTLLERL   67 (204)
T ss_pred             cCceEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEEeccccchhHHHHHHHH
Confidence            8999999999999999999998776777788999999999999999999999999998753

>KOG0184|consensus

Probab=99.00  E-value=7.3e-10  Score=80.47  Aligned_cols=59  Identities=22%  Similarity=0.319  Sum_probs=54.0

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +++|.|||+.+||||++++...+ +.+-....-.||+.|++||.++++|.++|.+++...
T Consensus        33 n~~T~IGIk~kdGVVl~vEKli~-SkLy~p~sn~ri~~V~r~iG~avaGl~~Dg~~l~~~   91 (254)
T KOG0184|consen   33 NSGTCIGIKCKDGVVLAVEKLIT-SKLYEPGSNERIFSVDRHIGMAVAGLIPDGRHLVNR   91 (254)
T ss_pred             cCCcEEEEecCCeEEEEEeeeec-ccccccCCCCceEeecccccEEEeccccchHHHHHH
Confidence            69999999999999999999887 567777888999999999999999999999998753

>KOG0178|consensus

Probab=98.71  E-value=9.6e-09  Score=74.34  Aligned_cols=61  Identities=21%  Similarity=0.257  Sum_probs=54.5

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ++-+|.|||.-+|||||++..+.+.--+-.+...+||++|+|+++|+.+|..+|...|.+.
T Consensus        29 s~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~vaGlt~DAnvL~n~   89 (249)
T KOG0178|consen   29 SHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACAVAGLTSDANVLKNY   89 (249)
T ss_pred             hhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEEEecccccHHHHHHH
Confidence            3488999999999999999999886666667789999999999999999999999888764

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

Probab=98.62  E-value=3e-08  Score=69.18  Aligned_cols=60  Identities=18%  Similarity=0.278  Sum_probs=56.0

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecC-eEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNE-SILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~-~i~~~~sG~~aD~q~l~~~   80 (81)
                      ++||+++++-++=|+||+|.+.|.|+.+++.+..|+.+|.. .++.|++|..||...|.+.
T Consensus         3 h~TTiv~vr~~gkv~iagDGQVtlG~tvmK~narKvRkl~~gkvlaGFAGstADaftLfe~   63 (178)
T COG5405           3 HMTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFER   63 (178)
T ss_pred             eeEEEEEEeeCCeEEEecCceEeecceeeeccHHHHHHHcCCcEEEEecccchhHHHHHHH
Confidence            68999999999999999999999999999999999988876 8999999999999888764

>KOG0183|consensus

Probab=98.38  E-value=1.5e-07  Score=68.23  Aligned_cols=64  Identities=17%  Similarity=0.207  Sum_probs=56.8

Q ss_pred             hCCcCCCCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHH
Q psy4377          10 AKPAVQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD   79 (81)
Q Consensus        10 a~~~~~~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~   79 (81)
                      |-|++++     |+|++|+++++-|+|+-+.+.. ..+-..+...||..+++|+.+++||.-+|...+++
T Consensus        23 AqEAvrk-----GstaVgvrg~~~vvlgvEkkSv-~~Lq~~r~~rkI~~ld~hV~mafaGl~aDArilin   86 (249)
T KOG0183|consen   23 AQEAVRK-----GSTAVGVRGNNCVVLGVEKKSV-PKLQDERTVRKISMLDDHVVMAFAGLTADARILIN   86 (249)
T ss_pred             HHHHHhc-----CceEEEeccCceEEEEEeecch-hhhhhhhhhhhheeecceeeEEecCCCccceeehh
Confidence            4566677     9999999999999999999866 67887889999999999999999999999987654

>KOG0181|consensus

Probab=98.29  E-value=2.6e-07  Score=66.40  Aligned_cols=59  Identities=17%  Similarity=0.127  Sum_probs=53.7

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHH
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD   79 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~   79 (81)
                      .+|.+.+||+-.||||||+..... +.++....++|+++|.+||.|-.||+..|++.+.+
T Consensus        30 ~~G~~SvGi~A~nGvVlatekk~~-s~L~~~~sv~KV~~i~~~IG~vYSGmgpD~RvlV~   88 (233)
T KOG0181|consen   30 VNGQTSVGIKAANGVVLATEKKDV-SPLVDEESVRKVEKITPHIGCVYSGMGPDYRVLVH   88 (233)
T ss_pred             hCCCCceeeeecCceEEEeccCCC-CccchhhhhhhHhhccCCcceEEecCCCceeehhh
Confidence            359999999999999999999766 68999999999999999999999999999887654

>KOG0863|consensus

Probab=98.25  E-value=5.4e-07  Score=65.97  Aligned_cols=65  Identities=22%  Similarity=0.212  Sum_probs=56.0

Q ss_pred             hhCCcCCCCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377           9 KAKPAVQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus         9 ~a~~~~~~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      =|.|+++.     |++++|++.+.-.||+|=.|.. +.+  +....||++|++|+.++++|..+|.+.|.+.|
T Consensus        24 ya~Eavkq-----GsatVGLks~thaVLvAl~r~~-seL--ss~QkKi~~iD~h~g~siAGLt~Darvl~~Yl   88 (264)
T KOG0863|consen   24 YAMEAVKQ-----GSATVGLKSRTHAVLVALKRAQ-SEL--SSHQKKIFKIDDHIGISIAGLTADARVLSRYL   88 (264)
T ss_pred             HHHHHHhc-----ccceEeecccceEEEeeeccch-hHH--HHhhheeEecccccceEEeccCcchHHHHHHH
Confidence            35667777     9999999999999999999877 333  34789999999999999999999999998764

>KOG0182|consensus

Probab=97.11  E-value=0.0014  Score=47.77  Aligned_cols=58  Identities=9%  Similarity=0.023  Sum_probs=52.9

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHH
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD   79 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~   79 (81)
                      .|=|++|++.+|-+++++-.+.. ..++-.+.+.-+|+|+++|+++.+|..+|..+..+
T Consensus        35 ~gltsVavrgkDcavvvsqKkvp-DKLld~~tvt~~f~itk~ig~v~tG~~aDar~~v~   92 (246)
T KOG0182|consen   35 AGLTSVAVRGKDCAVVVTQKKVP-DKLLDSSTVTHLFRITKKIGCVITGMIADARSQVQ   92 (246)
T ss_pred             CCCceEEEcCCceEEEEecccCc-ccccccccceeEEEeeccceEEEecCCcchHHHHH
Confidence            58899999999999999999877 67888888999999999999999999999987654

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

Probab=86.94  E-value=0.92  Score=33.28  Aligned_cols=59  Identities=17%  Similarity=0.194  Sum_probs=43.3

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEec----CeEEEEecccHHHHHHHHHhC
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVN----ESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~----~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|-.+|++-+.|.|.++|+|...|.--. ....|++...    .-++++.+|..|=.|.+..+|
T Consensus         1 MTYCv~l~l~~GlVf~sDsRTNAGvD~i-stfkKl~~~~~pGdRvlvl~taGNLA~tQaV~~ll   63 (255)
T COG3484           1 MTYCVGLILDFGLVFGSDSRTNAGVDYI-STFKKLFVFELPGDRVLVLCTAGNLAITQAVLHLL   63 (255)
T ss_pred             CceEEEEEeccceEEecccccccCchHH-HHHHHHhhccCCCceEEEEEecCccHHHHHHHHHH
Confidence            3567999999999999999998773221 2445555432    337889999999999887653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	81
3unb_M	219	Mouse Constitutive 20s Proteasome In Complex With P		2e-10
1iru_N	219	Crystal Structure Of The Mammalian 20s Proteasome A		1e-09
1ryp_N	233	Crystal Structure Of The 20s Proteasome From Yeast		4e-05
1g0u_M	266	A Gated Channel Into The Proteasome Core Particle L		4e-05

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

Iteration: 1
 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 28/59 (47%), Positives = 42/59 (71%)
Query: 20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
          ++  SV G++FD GV++AAD L S+  LA F N  RI++VN+S +LG   ++AD QYL+
Sbjct: 6  VTGTSVLGVKFDGGVVIAADMLGSYGSLARFRNISRIMRVNDSTMLGASGDYADFQYLK 64

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

Iteration: 1
 Score = 58.2 bits (139), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 41/59 (69%)
Query: 20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
          ++  SV G++F+ GV++AAD L S+  LA F N  RI++VN S +LG   ++AD QYL+
Sbjct: 6  VTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLK 64

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 17/59 (28%), Positives = 39/59 (66%)
Query: 20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
          ++  SV  +++D GV++AAD+L S+  L  F   +R++ V ++ ++G   + +D+Q+++
Sbjct: 6  VTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIE 64

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

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 17/55 (30%), Positives = 37/55 (67%)
Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
          SV  +++D GV++AAD+L S+  L  F   +R++ V ++ ++G   + +D+Q+++
Sbjct: 43 SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIE 97

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	81
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	3e-13
1iru_N	219	20S proteasome; cell cycle, immune response, prote	7e-13
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	1e-12
1iru_K	201	20S proteasome; cell cycle, immune response, prote	2e-10
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	3e-10
1iru_M	213	20S proteasome; cell cycle, immune response, prote	2e-07
1iru_I	234	20S proteasome; cell cycle, immune response, prote	4e-06
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	1e-05
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	4e-05
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	8e-05
1iru_J	205	20S proteasome; cell cycle, immune response, prote	9e-05
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	1e-04
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	2e-04
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	2e-04
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	3e-04
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	3e-04
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	3e-04
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	4e-04
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	4e-04
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	5e-04
1iru_H	205	20S proteasome; cell cycle, immune response, prote	5e-04
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	5e-04

>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 = 61.2 bits (149), Expect = 3e-13
 Identities = 17/58 (29%), Positives = 38/58 (65%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          SV  +++D GV++AAD+L S+  L  F   +R++ V ++ ++G   + +D+Q+++  +
Sbjct: 10 SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 67

>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 = 59.9 bits (146), Expect = 7e-13
 Identities = 27/58 (46%), Positives = 40/58 (68%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          SV G++F+ GV++AAD L S+  LA F N  RI++VN S +LG   ++AD QYL+  +
Sbjct: 10 SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVL 67

>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 = 59.7 bits (145), Expect = 1e-12
 Identities = 17/58 (29%), Positives = 38/58 (65%)

Query: 24  SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           SV  +++D GV++AAD+L S+  L  F   +R++ V ++ ++G   + +D+Q+++  +
Sbjct: 43  SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL 100

>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 = 53.0 bits (128), Expect = 2e-10
 Identities = 12/58 (20%), Positives = 27/58 (46%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           + G+Q    VL+A+D + +   + +  +  ++ K++E ILL       D     + +
Sbjct: 3  YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEYI 60

>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 = 52.2 bits (126), Expect = 3e-10
 Identities = 8/58 (13%), Positives = 22/58 (37%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           + G++    V+LA+   V+     L  +  +  +++   L+       D     + +
Sbjct: 3  IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYI 60

>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 = 44.9 bits (107), Expect = 2e-07
 Identities = 7/58 (12%), Positives = 24/58 (41%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          ++  +  +   ++A+D+ +S        ++ +  K+ +  ++G      D   L   +
Sbjct: 11 TILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII 68

>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 = 41.5 bits (98), Expect = 4e-06
 Identities = 11/55 (20%), Positives = 23/55 (41%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          G+ +  G++L AD+  +   +    N  +I  ++ +I   G    AD       +
Sbjct: 5  GVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLI 59

>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 = 40.0 bits (94), Expect = 1e-05
 Identities = 8/58 (13%), Positives = 21/58 (36%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          ++ G+  +   +LA D+    +         ++    ++I++      AD   L    
Sbjct: 11 TILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF 68

>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 = 38.9 bits (91), Expect = 4e-05
 Identities = 12/55 (21%), Positives = 28/55 (50%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          G++F+ GV++AAD+  +   +    N  ++ +++  I   G    AD + +   +
Sbjct: 34 GVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLI 88

>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 = 37.6 bits (88), Expect = 8e-05
 Identities = 13/58 (22%), Positives = 28/58 (48%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          ++  ++FD GV++ +DS VS     +     ++  +++ I      + AD Q + D  
Sbjct: 2  TIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADMA 59

>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 = 37.5 bits (88), Expect = 9e-05
 Identities = 10/58 (17%), Positives = 25/58 (43%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          +V  ++    V +AAD     +   +  + Q+I  + + + +G      D+Q +   +
Sbjct: 10 AVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL 67

>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 = 37.6 bits (87), Expect = 1e-04
 Identities = 7/55 (12%), Positives = 19/55 (34%)

Query: 27  GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
            L++  GV++A D   +   +    + +++   ++    G     A         
Sbjct: 62  ALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARLY 116

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

 Score = 36.8 bits (86), Expect = 2e-04
 Identities = 10/55 (18%), Positives = 24/55 (43%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          GL    GV++A +   +         A++I ++ + + +    +  D Q+L   +
Sbjct: 5  GLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARII 59

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

 Score = 36.4 bits (85), Expect = 2e-04
 Identities = 1/55 (1%), Positives = 11/55 (20%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           +                    +    + + +   +I +   +        + + 
Sbjct: 6  MVPPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITS 60

>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 = 36.4 bits (85), Expect = 3e-04
 Identities = 14/55 (25%), Positives = 24/55 (43%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           + F  GV+L ADS  +           ++ +V++ I      + AD Q + D V
Sbjct: 14 AVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIV 68

>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 = 36.4 bits (85), Expect = 3e-04
 Identities = 11/55 (20%), Positives = 25/55 (45%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
            +F  G+++A DS  +          +R++++N  +L       AD Q+ +  +
Sbjct: 5  AFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWL 59

>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 = 36.5 bits (85), Expect = 3e-04
 Identities = 13/55 (23%), Positives = 23/55 (41%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          GL F  GV+L AD+  + + +    + ++I  +   I   G    AD +      
Sbjct: 5  GLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRMA 59

>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 = 36.1 bits (84), Expect = 4e-04
 Identities = 12/55 (21%), Positives = 28/55 (50%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          G++F+ GV++AAD+  +   +    N  ++ +++  I   G    AD + +   +
Sbjct: 5  GVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLI 59

>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 = 36.0 bits (83), Expect = 4e-04
 Identities = 11/55 (20%), Positives = 18/55 (32%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           L +  GVLLA D   +   L    + +++   +E    G          L    
Sbjct: 5  ALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRLF 59

>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 = 35.9 bits (83), Expect = 5e-04
 Identities = 10/55 (18%), Positives = 25/55 (45%)

Query: 27  GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
             +F  G+++A DS  +          ++++++N  +L       AD Q+ +  +
Sbjct: 80  AFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWL 134

>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 = 35.6 bits (83), Expect = 5e-04
 Identities = 15/55 (27%), Positives = 26/55 (47%)

Query: 27 GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           +QFD GV+L ADS  +           ++  +++ I      + AD Q + D+V
Sbjct: 5  AVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADAV 59

>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 = 35.7 bits (82), Expect = 5e-04
 Identities = 11/55 (20%), Positives = 17/55 (30%)

Query: 27  GLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
            L +  GVLLA D   +   L    + + +   +E    G          L    
Sbjct: 70  ALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRLF 124

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	81
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	99.82
1iru_M	213	20S proteasome; cell cycle, immune response, prote	99.8
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	99.79
1iru_J	205	20S proteasome; cell cycle, immune response, prote	99.78
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	99.77
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	99.77
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	99.77
1iru_N	219	20S proteasome; cell cycle, immune response, prote	99.76
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	99.76
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	99.76
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	99.75
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	99.73
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	99.72
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	99.72
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	99.72
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	99.72
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	99.72
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	99.71
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	99.71
1iru_K	201	20S proteasome; cell cycle, immune response, prote	99.71
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	99.71
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	99.71
1iru_E	241	20S proteasome; cell cycle, immune response, prote	99.7
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	99.7
1iru_C	261	20S proteasome; cell cycle, immune response, prote	99.7
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	99.7
1iru_L	204	20S proteasome; cell cycle, immune response, prote	99.7
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	99.69
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	99.69
1iru_H	205	20S proteasome; cell cycle, immune response, prote	99.69
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	99.69
1iru_A	246	20S proteasome; cell cycle, immune response, prote	99.68
1iru_B	233	20S proteasome; cell cycle, immune response, prote	99.68
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	99.68
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	99.68
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	99.67
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	99.67
1iru_I	234	20S proteasome; cell cycle, immune response, prote	99.67
1iru_G	254	20S proteasome; cell cycle, immune response, prote	99.66
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	99.66
1iru_D	248	20S proteasome; cell cycle, immune response, prote	99.66
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	99.66
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	99.66
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	99.63
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	99.62
1iru_F	263	20S proteasome; cell cycle, immune response, prote	99.61
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	99.57
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	99.56

>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=99.82  E-value=1e-20  Score=136.19  Aligned_cols=80  Identities=18%  Similarity=0.304  Sum_probs=56.7

Q ss_pred             CCChhhhhhhCCcCCCCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377           1 MCDKADCKKAKPAVQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus         1 ~~~~~~~~~a~~~~~~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .|.||...+++....+..+.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         8 ~~~rn~~~~~~~~~~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~   87 (261)
T 3nzj_H            8 NYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQL   87 (261)
T ss_dssp             ----------------------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEETTEEEEEEESHHHHHHHHHH
T ss_pred             hhhhHHHHHhcCCCCCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEcCCEEEEeccCHHHHHHHHHH
Confidence            38999999888777777778999999999999999999999999999999999999999999999999999999999875

>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=99.80  E-value=1.1e-19  Score=125.33  Aligned_cols=67  Identities=10%  Similarity=0.096  Sum_probs=63.1

Q ss_pred             CCCCCC-CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          15 QPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        15 ~~~~~~-~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +++|++ +|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus         1 ~~~p~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~   68 (213)
T 1iru_M            1 RFSPYVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKII   68 (213)
T ss_dssp             CCCSCCCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHHH
T ss_pred             CCCCccCCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEEccccHHHHHHHHHHH
Confidence            368888 9999999999999999999999999999999999999999999999999999999998753

>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=99.79  E-value=2.2e-19  Score=125.22  Aligned_cols=67  Identities=13%  Similarity=0.052  Sum_probs=63.1

Q ss_pred             CCCCCC-CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          15 QPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        15 ~~~~~~-~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .++|++ +|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus         1 ~~~p~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~   68 (222)
T 1ryp_M            1 QFNPYGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF   68 (222)
T ss_dssp             CCCCCCCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEEEEESHHHHHHHHHHH
T ss_pred             CCCccccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEEccccHHHHHHHHHHH
Confidence            367888 9999999999999999999999999999999999999999999999999999999998753

>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=99.78  E-value=4.6e-19  Score=121.66  Aligned_cols=64  Identities=16%  Similarity=0.194  Sum_probs=60.8

Q ss_pred             CCCC-CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          17 PQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        17 ~~~~-~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+. +|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         2 ~~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   66 (205)
T 1iru_J            2 SIMSYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQR   66 (205)
T ss_dssp             CCTTSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHH
T ss_pred             CcccCCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEccccHHHHHHHHHH
Confidence            5666 899999999999999999999999999999999999999999999999999999999875

>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=99.77  E-value=6.3e-19  Score=121.12  Aligned_cols=65  Identities=23%  Similarity=0.265  Sum_probs=61.3

Q ss_pred             CCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          16 PPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        16 ~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.++.+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         3 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   67 (205)
T 1ryp_H            3 KGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADI   67 (205)
T ss_dssp             TTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHH
T ss_pred             CCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcCCCEEEEccCCHHHHHHHHHH
Confidence            45667899999999999999999999999999999999999999999999999999999999875

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

Probab=99.77  E-value=6.3e-19  Score=119.88  Aligned_cols=62  Identities=21%  Similarity=0.335  Sum_probs=59.0

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCcc-ceeCCccceEEe-cCeEEEEecccHHHHHHHHHhC
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGL-ALFCNAQRIVKV-NESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~-v~~~~~~Ki~~i-~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|||+|||+++||||||+|+|.++|.+ +.+++.+||++| ++|+++++||+.+|+|.|.+.+
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~~~i~~~~aG~~aD~~~l~~~~   66 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEKF   66 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHHH
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECCCCEEEEeCchHHHHHHHHHHH
Confidence            4799999999999999999999999988 999999999999 9999999999999999998753

>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=99.77  E-value=6.1e-19  Score=122.59  Aligned_cols=63  Identities=14%  Similarity=0.239  Sum_probs=56.6

Q ss_pred             CCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          18 QPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        18 ~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ++.+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         4 ~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   66 (217)
T 1yar_H            4 TLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRY   66 (217)
T ss_dssp             -----CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CCCCCccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeCCCEEEEeCcCHHHHHHHHHH
Confidence            344899999999999999999999999999999999999999999999999999999999875

>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=99.76  E-value=8.2e-19  Score=121.60  Aligned_cols=65  Identities=42%  Similarity=0.711  Sum_probs=61.2

Q ss_pred             CCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          17 PQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        17 ~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .++.+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus         3 ~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~   67 (219)
T 1iru_N            3 NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQVL   67 (219)
T ss_dssp             SCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHHH
T ss_pred             CCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeCCCEEEEeccCHHHHHHHHHHH
Confidence            45678999999999999999999999999999999999999999999999999999999998753

>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=99.76  E-value=8.9e-19  Score=122.70  Aligned_cols=65  Identities=26%  Similarity=0.521  Sum_probs=61.3

Q ss_pred             CCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          17 PQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        17 ~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .++.+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus         3 ~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~   67 (233)
T 1ryp_N            3 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL   67 (233)
T ss_dssp             CCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHH
T ss_pred             ccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeCCCEEEEccccHHHHHHHHHHH
Confidence            45678999999999999999999999999999999999999999999999999999999998753

>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=99.76  E-value=1e-18  Score=125.18  Aligned_cols=68  Identities=25%  Similarity=0.486  Sum_probs=63.1

Q ss_pred             CCCCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          14 VQPPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        14 ~~~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ..+.++.+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus        33 ~~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~l  100 (266)
T 1g0u_M           33 NTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL  100 (266)
T ss_dssp             -CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECTTSEEEEEEEEHHHHHHHHHHH
T ss_pred             hhccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcCCCEEEEeccCHHHHHHHHHHH
Confidence            34567889999999999999999999999999999999999999999999999999999999998753

>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=99.75  E-value=2.3e-18  Score=118.03  Aligned_cols=63  Identities=16%  Similarity=0.158  Sum_probs=59.5

Q ss_pred             CCCC-CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          17 PQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        17 ~~~~-~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+. +|||+|||+++||||||+|+|.++|.++.+++.+||++|+ |+++++||..+|+|.|.+.
T Consensus         2 ~~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~~aG~~aD~~~l~~~   65 (204)
T 1ryp_J            2 DPSSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLNEM   65 (204)
T ss_dssp             CGGGSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEEEEECHHHHHHHHHH
T ss_pred             CCcCCCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEEeeEcHHHHHHHHHH
Confidence            4565 8999999999999999999999999999999999999999 9999999999999999875

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

Probab=99.73  E-value=6.2e-18  Score=113.56  Aligned_cols=59  Identities=22%  Similarity=0.325  Sum_probs=56.6

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEe-cCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKV-NESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i-~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++| ++|+++++||..+|+|.|.+.+
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~~   60 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFDRF   60 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCCCCEEEEeCccHHHHHHHHHHH
Confidence            6999999999999999999999999999999999999 9999999999999999998753

>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=99.72  E-value=4.9e-18  Score=123.77  Aligned_cols=64  Identities=16%  Similarity=0.259  Sum_probs=56.9

Q ss_pred             CCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          18 QPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        18 ~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ++.+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus        71 ~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~d~i~~~~aG~~AD~~~l~~~l  134 (287)
T 3nzj_K           71 KIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWL  134 (287)
T ss_dssp             -----CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECEECHHHHHHHHHHH
T ss_pred             heccCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEcCcEEEEecCCHHHHHHHHHHH
Confidence            5668999999999999999999999999999999999999999999999999999999998753

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

Probab=99.72  E-value=8e-18  Score=113.44  Aligned_cols=58  Identities=21%  Similarity=0.288  Sum_probs=56.1

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEe-cCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKV-NESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i-~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++| ++|+++++||..+|+|.|.+.
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~~~i~~~~aG~~aD~~~l~~~   59 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFEL   59 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECCCCEEEEeCccHHHHHHHHHH
Confidence            6999999999999999999999999999999999999 999999999999999999875

>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=99.72  E-value=8.5e-18  Score=122.83  Aligned_cols=62  Identities=18%  Similarity=0.134  Sum_probs=59.4

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus        62 v~~GtTiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~~~i~~~~aG~~aD~~~l~~~  123 (294)
T 1q5r_H           62 APHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYSAAGIAGTAGIAIELVRL  123 (294)
T ss_dssp             SCBCCCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEEBHHHHHHHHHH
T ss_pred             HhcCceEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEEeecHHHHHHHHHH
Confidence            45799999999999999999999999999999999999999999999999999999999875

>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=99.72  E-value=5e-18  Score=119.40  Aligned_cols=62  Identities=13%  Similarity=0.143  Sum_probs=58.5

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus        26 ~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~   87 (241)
T 1ryp_D           26 KRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEKA   87 (241)
T ss_dssp             TTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHHHHHHH
T ss_pred             HcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEEeecHHHHHHHHHHH
Confidence            35999999999999999999999999999888999999999999999999999999998753

>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=99.72  E-value=7.7e-18  Score=118.45  Aligned_cols=63  Identities=21%  Similarity=0.267  Sum_probs=58.8

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +.+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus        28 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~   90 (244)
T 1ryp_C           28 ISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINTA   90 (244)
T ss_dssp             HTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHHHHHHH
T ss_pred             HhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEECCCEEEEEEEcHHHHHHHHHHH
Confidence            346999999999999999999999999888789999999999999999999999999998753

>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=99.71  E-value=1.3e-17  Score=113.67  Aligned_cols=58  Identities=22%  Similarity=0.319  Sum_probs=56.2

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 TT~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   58 (199)
T 3unf_N            1 TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLHQRIFCALSGSAADAQAIADM   58 (199)
T ss_dssp             CEEEEEECSSCEEEEECCCEEETTEEEESSCCCEEEEETTEEEEECSCHHHHHHHHHH
T ss_pred             CeEEEEEeCCeEEEEECCcccCCceeEccccCceEEcCCCEEEEecccHHHHHHHHHH
Confidence            7999999999999999999999999999999999999999999999999999999875

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

Probab=99.71  E-value=9.8e-18  Score=116.80  Aligned_cols=59  Identities=24%  Similarity=0.302  Sum_probs=56.5

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      |||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~   59 (219)
T 3h4p_a            1 MTTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKIDDYIAMTIAGSVGDAQAIVRL   59 (219)
T ss_dssp             -CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEETTEEEECCSCHHHHHHHHHH
T ss_pred             CccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEecCCEEEEeeEcHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999999875

>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=99.71  E-value=1.3e-17  Score=114.14  Aligned_cols=59  Identities=20%  Similarity=0.201  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   59 (201)
T 1iru_K            1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEY   59 (201)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHH
T ss_pred             CceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEecCCEEEEeCcCHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999875

>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=99.71  E-value=1.1e-17  Score=121.93  Aligned_cols=62  Identities=11%  Similarity=0.103  Sum_probs=48.9

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus        54 v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~  115 (291)
T 2jay_A           54 LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYTATGIAGTAAVAVEFARL  115 (291)
T ss_dssp             ----CCEEEEEETTEEEEEECCC--------CCCCCCEEEEETTEEEEEESCHHHHHHHHHH
T ss_pred             ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeCCcEEEEEcccHHHHHHHHHH
Confidence            56899999999999999999999999999999999999999999999999999999999875

>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=99.71  E-value=1.7e-17  Score=113.11  Aligned_cols=59  Identities=14%  Similarity=0.162  Sum_probs=56.9

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 Mtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   59 (198)
T 1ryp_K            1 MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEY   59 (198)
T ss_dssp             CCCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHH
T ss_pred             CceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEEeccCHHHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999875

>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=99.70  E-value=1.5e-17  Score=116.95  Aligned_cols=61  Identities=21%  Similarity=0.230  Sum_probs=57.5

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.+|||+|||+++||||||+|+|.++|.++ +++.+||++|++|+++++||..+|+|.|.+.
T Consensus        31 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   91 (241)
T 1iru_E           31 IKLGSTAIGIQTSEGVCLAVEKRITSPLME-PSSIEKIVEIDAHIGCAMSGLIADAKTLIDK   91 (241)
T ss_dssp             HTTSCCEEEEEETTEEEEEEECCCCCTTBC-TTSCCSEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             HHcCCcEEEEEcCCEEEEEEecccCCcCcC-ccccceEEEEcCCEEEEEeeChHHHHHHHHH
Confidence            346999999999999999999999999888 8999999999999999999999999999875

>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=99.70  E-value=2.1e-17  Score=116.37  Aligned_cols=60  Identities=8%  Similarity=-0.013  Sum_probs=57.3

Q ss_pred             CC-CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LS-CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~-GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+ |+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus        27 ~~~Gtt~vgi~~~dgVvlaad~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   87 (243)
T 1ryp_A           27 NQTNINSLAVRGKDCTVVISQKKVP-DKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALR   87 (243)
T ss_dssp             TTTCCCEEEEECSSEEEEEEECCCC-CTTBCGGGCCSEEECSSSCEEEEESCHHHHHHHHHH
T ss_pred             hcCCCcEEEEEeCCEEEEEEEecCC-ccccCCCcCCceEEECCCEEEEEEecHHHHHHHHHH
Confidence            46 9999999999999999999999 899999999999999999999999999999999875

>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=99.70  E-value=1.1e-17  Score=119.19  Aligned_cols=63  Identities=22%  Similarity=0.235  Sum_probs=59.1

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +.+|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus        28 v~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~~   90 (261)
T 1iru_C           28 IGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNEL   90 (261)
T ss_dssp             HTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHHHHHHH
T ss_pred             HhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEEeEcHHHHHHHHHHH
Confidence            346999999999999999999999999999998899999999999999999999999998753

>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=99.70  E-value=1.9e-17  Score=115.81  Aligned_cols=61  Identities=23%  Similarity=0.278  Sum_probs=56.9

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.+|||+|||+++||||||+|+|.+++ ++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus        31 v~~Gtt~vgi~~~dgVvlaaD~r~~~~-~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   91 (233)
T 1yar_A           31 VKKGSTALGMKFANGVLLISDKKVRSR-LIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF   91 (233)
T ss_dssp             HTTSCCEEEEEETTEEEEEECCCCCCT-TBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHH
T ss_pred             HhcCCcEEEEEECCEEEEEEeccCCcc-cccccccCeEEEecCCEEEEEeeCHHHHHHHHHH
Confidence            346999999999999999999999986 6778999999999999999999999999999875

>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=99.70  E-value=2.8e-17  Score=112.61  Aligned_cols=58  Identities=19%  Similarity=0.313  Sum_probs=56.0

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   58 (204)
T 1iru_L            1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERL   58 (204)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCCEEEcCcccceEEcCCCEEEEccCcHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999875

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

Probab=99.69  E-value=3.2e-17  Score=112.19  Aligned_cols=58  Identities=17%  Similarity=0.343  Sum_probs=56.1

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 tt~vgi~~~dgVvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   58 (202)
T 1j2q_H            1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARI   58 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CcEEEEEeCCEEEEEECCCcCcCCEEeeccccCEEEcCCCEEEEecccHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999875

>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=99.69  E-value=1.5e-17  Score=116.89  Aligned_cols=61  Identities=16%  Similarity=0.165  Sum_probs=57.3

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.+|||+|||+++||||||+|+|.++|.++ +++.+||++|++|+++++||..+|+|.|.+.
T Consensus        23 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~-~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   83 (242)
T 1ryp_E           23 IKLGSTAIGIATKEGVVLGVEKRATSPLLE-SDSIEKIVEIDRHIGCAMSGLTADARSMIEH   83 (242)
T ss_dssp             HTTSCCEEEEECSSCEEEEEECCCSSTTBC-GGGCCCEEEEETTEEEEEEESGGGHHHHHHH
T ss_pred             HHcCCCEEEEEECCEEEEEEeecCCCcCcc-CccCCceEEEcCCEEEEEeecHHHHHHHHHH
Confidence            346999999999999999999999999877 8899999999999999999999999999875

>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=99.69  E-value=3.7e-17  Score=112.08  Aligned_cols=58  Identities=24%  Similarity=0.364  Sum_probs=56.0

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   58 (205)
T 1iru_H            1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADA   58 (205)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEecCCcCceEEcCCCEEEEcCccHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999875

>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=99.69  E-value=4.1e-17  Score=112.52  Aligned_cols=58  Identities=19%  Similarity=0.312  Sum_probs=56.1

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   58 (212)
T 1ryp_L            1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETW   58 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCCeEecCcccceeeeCCcEEEEccccHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999875

>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=99.68  E-value=4.2e-17  Score=114.96  Aligned_cols=59  Identities=12%  Similarity=0.025  Sum_probs=56.4

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      |+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus        36 Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~~   94 (246)
T 1iru_A           36 GLTSVAVRGKDCAVIVTQKKVP-DKLLDSSTVTHLFKITENIGCVMTGMTADSRSQVQRA   94 (246)
T ss_dssp             CCEEEEEECSSEEEEEEECCCC-CSSBCGGGCCSEEESSSSCEEEEEECHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCEEEEEEeecCC-CcccCCCccCceEEECCCEEEEEeccHHHHHHHHHHH
Confidence            9999999999999999999999 7899999999999999999999999999999998753

>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=99.68  E-value=4.7e-17  Score=113.76  Aligned_cols=60  Identities=18%  Similarity=0.119  Sum_probs=57.1

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.+ +.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus        29 ~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   88 (233)
T 1iru_B           29 AGGAPSVGIKAANGVVLATEKKQK-SILYDERSVHKVEPITKHIGLVYSGMGPDYRVLVHR   88 (233)
T ss_dssp             HTSCCEEEEECSSCEEEEEECCCC-CSSBCSTTCCSSEESSSSEEEEEEECHHHHHHHHHH
T ss_pred             HcCCcEEEEEeCCEEEEEEEecCC-ccccccccCCeEEEECCCEEEEEEEccHHHHHHHHH
Confidence            469999999999999999999998 789999999999999999999999999999999875

>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=99.68  E-value=5.8e-17  Score=114.64  Aligned_cols=60  Identities=18%  Similarity=0.173  Sum_probs=57.1

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|||+|||+++||||||+|+|.+ +.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus        29 ~~Gtt~vgi~~~dgVvlaaD~r~~-~~l~~~~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   88 (250)
T 1ryp_B           29 KQGVTSLGIKATNGVVIATEKKSS-SPLAMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDK   88 (250)
T ss_dssp             HTSCCEEEEEETTEEEEEEECCCS-CSSBCGGGCCSSEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             HcCCcEEEEEECCEEEEEEeccCC-CccccCcccCceEEECCCEEEEeeeCHHHHHHHHHH
Confidence            469999999999999999999998 889999999999999999999999999999999875

>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=99.68  E-value=6.7e-17  Score=114.33  Aligned_cols=58  Identities=22%  Similarity=0.299  Sum_probs=56.1

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..||+|.+.+.
T Consensus         1 TT~vgi~~kdgVVlaaD~r~t~g~~v~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~   58 (234)
T 3unf_H            1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCCGAGVAADTEMTTRM   58 (234)
T ss_dssp             CEEEEEECSSEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEESHHHHHHHHHH
T ss_pred             CeEEEEEeCCEEEEEECCCcccCCEeccCccccEEEecCCEEEEecccHHHHHHHHHH
Confidence            7999999999999999999999999999999999999999999999999999999875

>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=99.67  E-value=7.8e-17  Score=112.43  Aligned_cols=58  Identities=21%  Similarity=0.379  Sum_probs=56.0

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 TT~vgi~~~dgVvlaaD~r~t~g~~~~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~   58 (222)
T 1ryp_I            1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQL   58 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCeeecCCcccEEEecCCEEEEecccHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999875

>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=99.67  E-value=6.9e-17  Score=113.50  Aligned_cols=58  Identities=19%  Similarity=0.186  Sum_probs=56.2

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus         1 tT~vgi~~~dgVVlaaD~r~~~g~l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~   58 (235)
T 1q5q_H            1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRL   58 (235)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCCcCCEEecCCcCcEEEeCCcEEEEcCCcHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999875

>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=99.67  E-value=1e-16  Score=112.86  Aligned_cols=58  Identities=19%  Similarity=0.259  Sum_probs=56.0

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..||+|.|.+.
T Consensus         1 TTivgi~~~dgVVlaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~   58 (234)
T 1iru_I            1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQL   58 (234)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCceeccCcccceEEecCCEEEEecCcHHHHHHHHHH
Confidence            6999999999999999999999999999999999999999999999999999999875

>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=99.66  E-value=8.9e-17  Score=114.18  Aligned_cols=60  Identities=18%  Similarity=0.285  Sum_probs=56.6

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.++|.++. ++.+||++|++|+++++||..+|+|.|.+.
T Consensus        31 ~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~-~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~   90 (254)
T 1iru_G           31 ENSSTAIGIRCKDGVVFGVEKLVLSKLYEE-GSNKRLFNVDRHVGMAVAGLLADARSLADI   90 (254)
T ss_dssp             HTSCCEEEEECSSBEEEEEEEECSCTTBCT-TTTCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             hcCCCEEEEEECCEEEEEEecccCCCCcCc-CcCCcEEEECCCEEEEEecChHHHHHHHHH
Confidence            469999999999999999999999998885 799999999999999999999999999875

>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=99.66  E-value=8.1e-17  Score=113.82  Aligned_cols=61  Identities=20%  Similarity=0.177  Sum_probs=56.3

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.+|||+|||+++||||||+|+|.++|.++.+++ +||++|++|+++++||..+|+|.|.+.
T Consensus        27 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~-~KI~~i~~~i~~~~aG~~aD~~~l~~~   87 (244)
T 1ryp_G           27 VENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKN-VKIQVVDRHIGCVYSGLIPDGRHLVNR   87 (244)
T ss_dssp             HHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTS-CCCEEETTTEEEEEEECHHHHHHHHHH
T ss_pred             HHCCCCEEEEEECCEEEEEEecccCCCCcccccc-CceEEecCCEEEEEcccHHHHHHHHHH
Confidence            3469999999999999999999999998887655 999999999999999999999999875

>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=99.66  E-value=7.1e-17  Score=114.22  Aligned_cols=60  Identities=12%  Similarity=0.110  Sum_probs=56.3

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.++| ++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus        27 ~~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~   86 (248)
T 1iru_D           27 KKGSTAVGVRGRDIVVLGVEKKSVAK-LQDERTVRKICALDDNVCMAFAGLTADARIVINR   86 (248)
T ss_dssp             HTSCCEEEECCSSEEEEEECCCCCCS-SSCGGGGCSEEESSSSCEEEEEECHHHHHHHHHH
T ss_pred             HcCCCEEEEEeCCEEEEEEeeccccc-CccCCCCCcEEEEcCCEEEEEeecHHHHHHHHHH
Confidence            46999999999999999999999988 6777899999999999999999999999999875

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

Probab=99.66  E-value=2.4e-17  Score=118.34  Aligned_cols=60  Identities=20%  Similarity=0.338  Sum_probs=56.2

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.+++ ++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus        36 ~~Gtt~vgi~~~dgVVlaaD~r~~~~-li~~~~~~KI~~i~d~i~~~~aG~~aD~~~l~~~   95 (264)
T 3h4p_A           36 RRGTTAIGIACKDGVVLAVDRRITSK-LVKIRSIEKIFQIDDHVAAATSGLVADARVLIDR   95 (264)
T ss_dssp             HHSCCEEEECCSSEEEEEEECCCCST-TBCTTTCCCEEEEETTEEEEEEECSHHHHHHHTT
T ss_pred             hcCCcEEEEEECCEEEEEEecCccCC-ccccCccccEEEecCcEEEEeccchHHHHHHHHH
Confidence            36999999999999999999999976 7788999999999999999999999999999864

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

Probab=99.66  E-value=1.8e-16  Score=111.84  Aligned_cols=61  Identities=28%  Similarity=0.313  Sum_probs=56.1

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.+|||+|||+++||||||+|+|.+.+ ++.+++.+||++|++|+++++||..+|+|.|.+.
T Consensus        31 v~~Gtt~vgi~~~dgVvlaaD~r~~~~-l~~~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~   91 (246)
T 1j2p_A           31 VKRGATAIGIKCKEGVILIADKRVGSK-LLEKDTIEKIYKIDEHICAATSGLVADARVLIDR   91 (246)
T ss_dssp             HHTSCCEEEEEETTEEEEEEECCCSCT-TBCGGGCCSEEECSSSEEEEEEECHHHHHHHHHH
T ss_pred             HHcCCcEEEEEECCEEEEEEeccCCcc-ccccCccCcEEEECCCEEEEEeEccHHHHHHHHH
Confidence            347999999999999999999999976 5558899999999999999999999999999875

>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=99.63  E-value=5.2e-16  Score=108.59  Aligned_cols=57  Identities=19%  Similarity=0.156  Sum_probs=52.9

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|||+|||+++||||||+|+|.+.|. .  ++.+||++|++|+++++||..+|+|.|.+.
T Consensus        30 ~Gtt~vgi~~~dgVvlaaD~r~~~~l-~--~~~~Ki~~i~~~i~~~~aG~~aD~~~l~~~   86 (233)
T 1ryp_F           30 QGSVTVGLRSNTHAVLVALKRNADEL-S--SYQKKIIKCDEHMGLSLAGLAPDARVLSNY   86 (233)
T ss_dssp             TSCCEEEEECSSEEEEEEECCCSSTT-B--CCCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEcCCEEEEEEEecccccc-c--cccCcEEEEcCCEEEEEEechHHHHHHHHH
Confidence            69999999999999999999999873 2  488999999999999999999999999875

>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=99.62  E-value=3.7e-16  Score=113.87  Aligned_cols=61  Identities=18%  Similarity=0.166  Sum_probs=56.2

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|+|+|||+++||||||+|+|.++|.++.+ ..+||++|++|+++++||..+|+|.|.+.+
T Consensus        32 ~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~-~~~KI~~I~d~i~~~~aG~~aD~~~l~~~l   92 (288)
T 3nzj_F           32 ENGTTSIGIKCNDGVVFAVEKLITSKLLVPQ-KNVKIQVVDRHIGCVYSGLIPDGRHLVNRG   92 (288)
T ss_dssp             HTSCCEEEEEETTEEEEEEEEEECCTTBCTT-CSCCCEEETTTEEEEEEECHHHHHHHHHHH
T ss_pred             hcCCcEEEEEECCEEEEEEcCCcccCCcccc-ccceEEEEcCCEEEEecCcHHHHHHHHHHH
Confidence            3699999999999999999999999988765 679999999999999999999999998753

>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=99.61  E-value=9.8e-16  Score=109.54  Aligned_cols=57  Identities=19%  Similarity=0.155  Sum_probs=53.0

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|+|.++|.   .++.+||++|++|+++++||..+|+|.|.+.
T Consensus        31 ~Gtt~vgi~~~dgVVlaaD~r~~~gl---~~~~~KI~~i~~~i~~~~aG~~aD~~~l~~~   87 (263)
T 1iru_F           31 QGSATVGLKSKTHAVLVALKRAQSEL---AAHQKKILHVDNHIGISIAGLTADARLLCNF   87 (263)
T ss_dssp             HSCCEEEEECSSEEEEEEECCCSSTT---BCCCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             cCCcEEEEEeCCEEEEEEeccccccc---ccchhcEEEEcCCEEEEEeCCHHHHHHHHHH
Confidence            59999999999999999999999884   2488999999999999999999999999875

>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=99.57  E-value=1.7e-15  Score=108.21  Aligned_cols=52  Identities=21%  Similarity=0.390  Sum_probs=48.4

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|+|        +++.+||++|++|+++++||..+|+|.|.+.
T Consensus        26 ~GtT~vgi~~kdgVVlaadkr--------~~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~   77 (248)
T 3mi0_A           26 RAKSVVALAYAGGVLFVAENP--------SRSLQKISELYDRVGFAAAGKFNEFDNLRRG   77 (248)
T ss_dssp             TSCCEEEEEETTEEEEEEECC--------CSSSCSEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CCCcEEEEEeCCEEEEEEeCC--------CCCCCCeEEECCCEEEEEccCHHHHHHHHHH
Confidence            499999999999999999999        4589999999999999999999999998653

>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=99.56  E-value=4.9e-15  Score=105.80  Aligned_cols=54  Identities=17%  Similarity=0.290  Sum_probs=50.0

Q ss_pred             CCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          19 PLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        19 ~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +.+|+|+|||+++||||||+|+|        +++.+||++|++|+++++||..+|+|.|.+.
T Consensus        24 v~~Gtt~vgi~~~dgVVlaaD~r--------s~~~~KI~~I~d~i~~~~aG~~aD~~~l~~~   77 (259)
T 1q5q_A           24 IARGRSVVVLTFRDGVLFVAENP--------STALHKVSELYDRLGFAAVGKYNEFENLRRA   77 (259)
T ss_dssp             HHTSCCEEEEECSSEEEEEECCS--------CSSSCSEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             HhcCCcEEEEEeCCEEEEEEecC--------CCCcCcEEEeCCCEEEEEccCHHHHHHHHHH
Confidence            34699999999999999999999        4689999999999999999999999999873

---

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	81
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	4e-09
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-08
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	2e-08
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	4e-08
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	4e-08
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	4e-08
d1m4ya_	171	d.153.1.4 (A:) HslV (ClpQ) protease {Thermotoga ma	7e-08
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	1e-07
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-07
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	3e-07
d1g3ka_	173	d.153.1.4 (A:) HslV (ClpQ) protease {Haemophilus i	5e-07
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	6e-07
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	9e-07
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	2e-06
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	3e-06
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-06
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	7e-06
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	8e-06
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	1e-04
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	1e-04
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-04
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-04
d2z3ba1	180	d.153.1.4 (A:1-180) HslV (ClpQ) protease {Bacillus	5e-04
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	5e-04
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	7e-04
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	0.002
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	0.002
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	0.002
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	0.002
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	0.002

>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 = 48.2 bits (114), Expect = 4e-09
 Identities = 8/58 (13%), Positives = 22/58 (37%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
           + G++    V+LA+   V+     L  +  +  +++   L+       D     + +
Sbjct: 3  IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYI 60

>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 = 47.5 bits (112), Expect = 1e-08
 Identities = 11/56 (19%), Positives = 20/56 (35%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          ++  L +  GVLLA D   +   L    + +++   +E    G          L  
Sbjct: 2  TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVR 57

>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 = 46.7 bits (110), Expect = 2e-08
 Identities = 17/56 (30%), Positives = 37/56 (66%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          SV  +++D GV++AAD+L S+  L  F   +R++ V ++ ++G   + +D+Q+++ 
Sbjct: 10 SVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIER 65

>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 = 45.9 bits (108), Expect = 4e-08
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          +    +F  GV++AADS  +          ++++++N  +L       AD  + +  +
Sbjct: 2  TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL 59

>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 = 45.9 bits (108), Expect = 4e-08
 Identities = 27/56 (48%), Positives = 39/56 (69%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          SV G++F+ GV++AAD L S+  LA F N  RI++VN S +LG   ++AD QYL+ 
Sbjct: 10 SVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQ 65

>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 = 45.6 bits (107), Expect = 4e-08
 Identities = 12/53 (22%), Positives = 25/53 (47%)

Query: 25 VFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYL 77
          + G+Q    VL+A+D + +   + +  +  ++ K++E ILL       D    
Sbjct: 4  LIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQF 56

>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 = 44.7 bits (105), Expect = 7e-08
 Identities = 10/54 (18%), Positives = 23/54 (42%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYL 77
          ++  ++ +   ++  D  V+F    L  NA+++ K+ E  +L G          
Sbjct: 2  TILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMT 55

>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 = 44.4 bits (104), Expect = 1e-07
 Identities = 11/58 (18%), Positives = 25/58 (43%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          ++ G+ +  G++L AD+  +   +    N  +I  ++ +I   G    AD       +
Sbjct: 2  TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQLI 59

>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 = 44.0 bits (103), Expect = 2e-07
 Identities = 11/58 (18%), Positives = 26/58 (44%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          +    +F  G+++A DS  +          +R++++N  +L       AD Q+ +  +
Sbjct: 2  TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWL 59

>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 = 43.6 bits (102), Expect = 3e-07
 Identities = 12/58 (20%), Positives = 30/58 (51%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          ++ G++F+ GV++AAD+  +   +    N  ++ +++  I   G    AD + +   +
Sbjct: 2  TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLI 59

>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 = 42.5 bits (99), Expect = 5e-07
 Identities = 11/57 (19%), Positives = 26/57 (45%), Gaps = 1/57 (1%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNE-SILLGGGNNFADLQYLQD 79
          ++  ++ +  V++  D  VS     +  NA+++ ++    +L G     AD   L +
Sbjct: 2  TIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFE 58

>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 = 42.5 bits (99), Expect = 6e-07
 Identities = 8/54 (14%), Positives = 21/54 (38%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYL 77
          ++ G+  +   +LA D+    +         ++    ++I++      AD   L
Sbjct: 11 TILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDAL 64

>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 = 42.1 bits (98), Expect = 9e-07
 Identities = 10/56 (17%), Positives = 24/56 (42%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          +V  ++    V +AAD     +   +  + Q+I  + + + +G      D+Q +  
Sbjct: 9  AVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQ 64

>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 = 41.0 bits (95), Expect = 2e-06
 Identities = 6/53 (11%), Positives = 22/53 (41%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQY 76
          ++  +  +   ++A+D+ +S        ++ +  K+ +  ++G      D   
Sbjct: 11 TILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLT 63

>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 = 40.5 bits (94), Expect = 3e-06
 Identities = 8/53 (15%), Positives = 22/53 (41%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQY 76
          +  G+     V++A +  V+ E   +  N +++ +++    +       D Q 
Sbjct: 2  TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQV 54

>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 = 39.8 bits (92), Expect = 5e-06
 Identities = 9/53 (16%), Positives = 23/53 (43%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQY 76
          +  GL    GV++A +   +         A++I ++ + + +    +  D Q+
Sbjct: 2  TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQF 54

>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 = 39.3 bits (91), Expect = 7e-06
 Identities = 13/53 (24%), Positives = 23/53 (43%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQY 76
          S+  + F  GV+L ADS  +           ++ +V++ I      + AD Q 
Sbjct: 11 SIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQA 63

>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 = 39.3 bits (91), Expect = 8e-06
 Identities = 13/53 (24%), Positives = 24/53 (45%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQY 76
          ++  +QFD GV+L ADS  +           ++  +++ I      + AD Q 
Sbjct: 2  TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQA 54

>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 = 35.9 bits (82), Expect = 1e-04
 Identities = 10/55 (18%), Positives = 19/55 (34%), Gaps = 1/55 (1%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQ 78
           V  +     V +A D  +  + L +    ++I      + LG      D+  L 
Sbjct: 10 IVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLGITGLATDVTTLN 63

>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 = 36.2 bits (83), Expect = 1e-04
 Identities = 10/56 (17%), Positives = 24/56 (42%), Gaps = 1/56 (1%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          +  G+    GV+L  +   +   L    + ++IV+++  I        AD + + +
Sbjct: 28 TAIGIATKEGVVLGVEKRAT-SPLLESDSIEKIVEIDRHIGCAMSGLTADARSMIE 82

>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 = 35.8 bits (82), Expect = 2e-04
 Identities = 13/56 (23%), Positives = 28/56 (50%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          +  G+    G++LAA+  V+   L    + +++ K+N+ I +      AD + L +
Sbjct: 33 TAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILIN 88

>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 = 35.4 bits (81), Expect = 2e-04
 Identities = 13/53 (24%), Positives = 24/53 (45%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQY 76
          +  G+  + GVLLAA+     + L     +++I K+NE +        +D   
Sbjct: 32 TCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANV 84

>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 = 34.4 bits (78), Expect = 5e-04
 Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 2/58 (3%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKV--NESILLGGGNNFADLQYLQD 79
          ++F +Q      ++ D  V+F    +  +  R V+   N  +L G   + AD   L +
Sbjct: 7  TIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFE 64

>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 = 34.2 bits (78), Expect = 5e-04
 Identities = 8/56 (14%), Positives = 22/56 (39%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
             G++    V+L  +   + +         ++ K++  ++L      AD + L +
Sbjct: 30 CAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIE 85

>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 = 33.9 bits (77), Expect = 7e-04
 Identities = 9/56 (16%), Positives = 22/56 (39%), Gaps = 8/56 (14%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          SV  L F  GVL  A++  +           ++ ++ + +       + + + L+ 
Sbjct: 21 SVVVLTFRDGVLFVAENPST--------ALHKVSELYDRLGFAAVGKYNEFENLRR 68

>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 = 33.1 bits (75), Expect = 0.002
 Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 1/58 (1%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV 81
          +  G++   GV+L AD  V    L      ++I K++E I        AD + L D  
Sbjct: 33 TAIGIKCKEGVILIADKRVG-SKLLEKDTIEKIYKIDEHICAATSGLVADARVLIDRA 89

>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 = 33.1 bits (75), Expect = 0.002
 Identities = 12/56 (21%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          +  G++   GV+   + LV  + L    + +R+  V+  + +      AD + L D
Sbjct: 35 TAIGIRCKDGVVFGVEKLVLSK-LYEEGSNKRLFNVDRHVGMAVAGLLADARSLAD 89

>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 = 33.1 bits (75), Expect = 0.002
 Identities = 14/56 (25%), Positives = 26/56 (46%), Gaps = 1/56 (1%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          +  G+Q   GV LA +  ++   L    + ++IV+++  I        AD + L D
Sbjct: 29 TAIGIQTSEGVCLAVEKRIT-SPLMEPSSIEKIVEIDAHIGCAMSGLIADAKTLID 83

>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 = 32.8 bits (74), Expect = 0.002
 Identities = 10/56 (17%), Positives = 20/56 (35%), Gaps = 1/56 (1%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
             G++   GV+LA +       L    +  ++  + + I L       D + L  
Sbjct: 33 PSVGIKAANGVVLATEKKQK-SILYDERSVHKVEPITKHIGLVYSGMGPDYRVLVH 87

>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 = 32.7 bits (74), Expect = 0.002
 Identities = 11/56 (19%), Positives = 25/56 (44%), Gaps = 1/56 (1%)

Query: 24 SVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQD 79
          +  G++ + GV+ A + L++   L +     +I  V+  I         D ++L +
Sbjct: 32 TSIGIKCNDGVVFAVEKLIT-SKLLVPQKNVKIQVVDRHIGCVYSGLIPDGRHLVN 86

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	81
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.84
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.84
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.81
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	99.81
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.8
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	99.8
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	99.77
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.76
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	99.76
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.75
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	99.75
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.74
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	99.74
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	99.74
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	99.73
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	99.73
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	99.72
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	99.71
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.7
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.69
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	99.68
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	99.67
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.67
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	99.67
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	99.67
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	99.65
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	99.65
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	99.64
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.64
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.63
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.62
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	99.62
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.61
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.58
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	99.57
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.55
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	99.49

>d1iru1_ d.153.1.4 (1:) Proteasome beta subunit (catalytic) {Cow (Bos taurus) [TaxId: 9913]}

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

Probab=99.84  E-value=3.1e-21  Score=129.33  Aligned_cols=66  Identities=11%  Similarity=0.082  Sum_probs=63.3

Q ss_pred             CCCCCC-CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          15 QPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        15 ~~~~~~-~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+||. ||||+|||+++|||+||||+|.++|.++.+++.+||++|++|++++++|..+|.|.+.+.
T Consensus         1 ~f~p~~~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~   67 (213)
T d1iru1_           1 RFSPYVFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIGCSGFHGDCLTLTKI   67 (213)
T ss_dssp             CCCSCCCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CCCCccCCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEEecCccchHHHHHHH
Confidence            578998 999999999999999999999999999999999999999999999999999999999875

>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=99.84  E-value=2.1e-21  Score=132.43  Aligned_cols=67  Identities=13%  Similarity=0.052  Sum_probs=63.8

Q ss_pred             CCCCCC-CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          15 QPPQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        15 ~~~~~~-~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      +|+||+ ||||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.|
T Consensus         1 ~~~py~~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~   68 (222)
T d1ryp1_           1 QFNPYGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADGDALVKRF   68 (222)
T ss_dssp             CCCCCCCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEEEEESHHHHHHHHHHH
T ss_pred             CCCCccCCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEEeccChHHHHHHHHHH
Confidence            588988 9999999999999999999999999999999999999999999999999999999998753

>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=99.81  E-value=1.4e-20  Score=128.53  Aligned_cols=65  Identities=42%  Similarity=0.701  Sum_probs=62.5

Q ss_pred             CCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          16 PPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        16 ~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+++|||+|||+++||||||+|+|.++|.++.+++.+||++|++|+++|++|..+|+|.|.+.
T Consensus         2 ~~~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~   66 (217)
T d1iru2_           2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGASGDYADFQYLKQV   66 (217)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEETTTEEEEEEEEHHHHHHHHHH
T ss_pred             CCCcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeCCCeEEEeccccHHHHHHHHH
Confidence            57899999999999999999999999999999999999999999999999999999999998875

>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=99.81  E-value=1.8e-20  Score=129.10  Aligned_cols=66  Identities=26%  Similarity=0.512  Sum_probs=62.7

Q ss_pred             CCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          16 PPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        16 ~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      .+|+.+|||+|||+++||||||||+|.++|+++.+++.+||++|++|+++++||..+|+|.|.+.|
T Consensus         2 ~~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l   67 (233)
T d1ryp2_           2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNTVVGISGDISDMQHIERLL   67 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEETTTEEEEEEEEHHHHHHHHHHH
T ss_pred             CCCccccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeCCCEEEEeccCchHHHHHHHHH
Confidence            468999999999999999999999999999999999999999999999999999999999998753

>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=99.80  E-value=4e-20  Score=125.19  Aligned_cols=61  Identities=16%  Similarity=0.246  Sum_probs=59.0

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||||+|||+|+||||||||+|.++|.++.+++.+||++|++|+++|++|..+|+|.|.+.+
T Consensus         6 nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~sG~~aD~~~l~~~~   66 (204)
T d1iruj_           6 NGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGLAGLATDVQTVAQRL   66 (204)
T ss_dssp             SCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEECCSCHHHHHHHHHHH
T ss_pred             CCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEeccCchHHHHHHHHH
Confidence            8999999999999999999999999999999999999999999999999999999998753

>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=99.80  E-value=4.6e-20  Score=125.52  Aligned_cols=65  Identities=23%  Similarity=0.265  Sum_probs=61.3

Q ss_pred             CCCCCCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          16 PPQPLSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        16 ~~~~~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ..++.+|||+|||+|+||||||+|+|.++|.++.+++.+||++|++|++++.||..+|+|.|.+.
T Consensus         3 ~~~v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~~sG~~aD~~~l~~~   67 (205)
T d1ryph_           3 KGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADI   67 (205)
T ss_dssp             TTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEEBHHHHHHHHHH
T ss_pred             CCcccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEeeccchhHHHHHHHH
Confidence            34567899999999999999999999999999999999999999999999999999999999875

>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=99.77  E-value=2.7e-19  Score=121.89  Aligned_cols=59  Identities=19%  Similarity=0.317  Sum_probs=56.8

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||+|||+|+||||||||+|.++|.++.+++.+||++|++|+++++||..+|+|.|.+.+
T Consensus         1 TT~iai~~kdgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~   59 (212)
T d1rypl_           1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFLLGTMAGGAADCQFWETWL   59 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCceeecCCcceEEEECCcEEEEeccchHHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999998753

>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=99.76  E-value=3.2e-19  Score=120.48  Aligned_cols=59  Identities=19%  Similarity=0.318  Sum_probs=56.8

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||+|||+|+||||||||+|.++|.++.+++.+||++|++++++++||..+|+|.+.+.+
T Consensus         1 TT~igi~~~dgVvlaaD~~~t~g~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~   59 (201)
T d1irul_           1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTMAGGAADCSFWERLL   59 (201)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEECCBCHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCCEeecCCcccEEEeCCcEEEEEcCccchHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999998753

>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=99.76  E-value=7.1e-19  Score=118.23  Aligned_cols=63  Identities=16%  Similarity=0.151  Sum_probs=59.6

Q ss_pred             CCCC-CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          17 PQPL-SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        17 ~~~~-~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|++ ||+|+|||+++||||||+|+|.++|.++..++.+|++++ ++++++++|..+|++.|.+.
T Consensus         2 ~p~~~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i-~~i~~~~~G~~~D~~~l~~~   65 (204)
T d1rypj_           2 DPSSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHY-GHVFLGITGLATDVTTLNEM   65 (204)
T ss_dssp             CGGGSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEE-TTEEEEEEECHHHHHHHHHH
T ss_pred             CCCccCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEc-CCEEEEecCcchHHHHHHHH
Confidence            5777 999999999999999999999999999999999999999 59999999999999999875

>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=99.75  E-value=6.6e-19  Score=118.97  Aligned_cols=58  Identities=24%  Similarity=0.364  Sum_probs=56.4

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+|+||||||+|+|.++|.++.+++.+||++|++|++++.||..+|+|++.+.
T Consensus         1 TTivai~~~dgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~   58 (202)
T d1iruh_           1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCCRSGSAADTQAVADA   58 (202)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCccccCCeeecCCcceEEEcCCcEEEEeccchHHHHHHHHH
Confidence            7999999999999999999999999999999999999999999999999999999875

>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=99.75  E-value=6.8e-19  Score=118.81  Aligned_cols=58  Identities=16%  Similarity=0.292  Sum_probs=56.2

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+|+||||||+|+|.++|+++.+++.+||++|++|+++|+||..+|+|.+.+.
T Consensus         1 TT~igi~~kdgVvia~D~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~   58 (203)
T d1yarh1           1 TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTIAGLVGDAQVLVRY   58 (203)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCEeecCCcccEEEecCCeeeecCCCcchHHHHHHH
Confidence            7999999999999999999999999999999999999999999999999999999874

>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=99.74  E-value=1.2e-18  Score=119.20  Aligned_cols=58  Identities=19%  Similarity=0.259  Sum_probs=56.5

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+|+||||||+|+|.++|.++.+++.+||++|++|+++++||..+|+|.+.+.
T Consensus         1 TTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~aG~~~D~~~l~~~   58 (220)
T d1irui_           1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCCGAGTAADTDMTTQL   58 (220)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEEEEESHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCEeecCCcccEEEecCcEEEEEccccHHHHHHHHH
Confidence            7999999999999999999999999999999999999999999999999999999875

>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=99.74  E-value=1.2e-18  Score=117.38  Aligned_cols=59  Identities=14%  Similarity=0.162  Sum_probs=57.0

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ++|+|||+++||||||||+|.++|.++.+++.+||++|++|+++++||..+|+++|.+.
T Consensus         1 m~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~   59 (198)
T d1rypk_           1 MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEY   59 (198)
T ss_dssp             CCCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEEEEESHHHHHHHHHH
T ss_pred             CeEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEEecCCcccHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999874

>d1q5qh_ d.153.1.4 (H:) Proteasome beta subunit (catalytic) {Rhodococcus erythropolis [TaxId: 1833]}

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

Probab=99.74  E-value=1.3e-18  Score=118.07  Aligned_cols=58  Identities=19%  Similarity=0.186  Sum_probs=56.3

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+|+||||||+|+|.++|+++.+++.+||++|++|++++++|..+|+|.+.+.
T Consensus         1 TTivgi~~kdgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~   58 (224)
T d1q5qh_           1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYSAAGIAGTAGIAIELVRL   58 (224)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeecCCcceEEEeCCcEEEEecccchHHHHHHHH
Confidence            7999999999999999999999999999999999999999999999999999999875

>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=99.73  E-value=1.7e-18  Score=119.04  Aligned_cols=59  Identities=20%  Similarity=0.390  Sum_probs=56.7

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHhC
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDSV   81 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~l   81 (81)
                      ||+|||+|+||||||+|+|.++|.++.+++.+||++|++|+++|++|..+|+|.+.+.+
T Consensus         1 TTiVgik~~dGVviaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~l   59 (222)
T d1rypi_           1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAADTEAVTQLI   59 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCceeecCCcccEEEEcCCEEEEecccchHHHHHHHHH
Confidence            79999999999999999999999999999999999999999999999999999998753

>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=99.73  E-value=2.7e-18  Score=114.96  Aligned_cols=58  Identities=17%  Similarity=0.343  Sum_probs=56.3

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||+|||+++||||||+|+|.++|.++.+++.+||++|++++++|+||..+|++.|.+.
T Consensus         1 TT~vgi~~~dgVvlaaD~r~s~~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~   58 (202)
T d1j2qh_           1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMTTAGSVGDAQFLARI   58 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCeeccCccceEEEecCcEEEEecCcchhHHHHHHH
Confidence            7999999999999999999999999999999999999999999999999999999875

>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=99.72  E-value=3.6e-18  Score=111.97  Aligned_cols=59  Identities=20%  Similarity=0.201  Sum_probs=56.8

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +||+|||+++||||||||+|.++|.++.+++.+||++|+++++++++|..+|++.+.+.
T Consensus         1 Mt~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~~G~~aD~~~l~~~   59 (199)
T d1iruk_           1 MEYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLLCVGEAGDTVQFAEY   59 (199)
T ss_dssp             CCCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEEEEESTTHHHHHHHH
T ss_pred             CeEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEEecccchHHHHHHHH
Confidence            68999999999999999999999999999999999999999999999999999999875

>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=99.71  E-value=5.4e-18  Score=110.59  Aligned_cols=58  Identities=17%  Similarity=0.201  Sum_probs=55.7

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      ||++||+|+||||||||+|.|+|+++.+++.+|+++|+++++++.+|..+|.+.+.+.
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~~~g~~ad~~~~~~~   58 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLAGFAGSVADAMTLFD   58 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEEEEeechhhHHHHHH
Confidence            7999999999999999999999999999999999999999999999999999987754

>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=99.70  E-value=1.3e-17  Score=115.74  Aligned_cols=61  Identities=21%  Similarity=0.290  Sum_probs=58.5

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.++|.++.+++.+||++|++++++++||..+|+|.+.+.
T Consensus        29 ~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~   89 (244)
T d1rypc_          29 SHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVAVAGLTADAEILINT   89 (244)
T ss_dssp             TTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEEEEECHHHHHHHHHH
T ss_pred             hcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEEEecccCcHHHHHHH
Confidence            5699999999999999999999999999999999999999999999999999999999875

>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=99.69  E-value=8.8e-18  Score=117.16  Aligned_cols=61  Identities=23%  Similarity=0.247  Sum_probs=58.2

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|++.+++.++.+++.+||++|++|+++++||..+|+|.+.+.
T Consensus        28 ~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   88 (250)
T d1iruc_          28 GHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSVAGITSDANVLTNE   88 (250)
T ss_dssp             TTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEEEECHHHHHHHHHH
T ss_pred             hcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEEeecccchHHHHHHH
Confidence            4599999999999999999999999999999999999999999999999999999999875

>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=99.68  E-value=1.5e-17  Score=115.41  Aligned_cols=60  Identities=13%  Similarity=0.159  Sum_probs=57.8

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|++.+++.++.+.+.+||++|++|++++.||..+|+|.|.+.
T Consensus        27 ~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   86 (241)
T d1rypd_          27 RGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNADSRILIEK   86 (241)
T ss_dssp             TSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEEeeeccchHHHHHHH
Confidence            599999999999999999999999999998999999999999999999999999999875

>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=99.67  E-value=2.4e-17  Score=107.79  Aligned_cols=57  Identities=19%  Similarity=0.274  Sum_probs=48.0

Q ss_pred             ceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEE-EecccHHHHHHHHH
Q psy4377          23 ASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILL-GGGNNFADLQYLQD   79 (81)
Q Consensus        23 tTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~-~~sG~~aD~q~l~~   79 (81)
                      ||++||+|+||||||||+|+|+|+++.+++.+||++|++++++ +.+|...+.+.+.+
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~~~~~~~~~~~~~~~~   58 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVLAGFAGGTADAFTLFE   58 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEEEEESCHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEEEEeeehhHhHHHHHH
Confidence            7999999999999999999999999999999999999888555 55555555555443

>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=99.67  E-value=3.8e-17  Score=111.91  Aligned_cols=59  Identities=17%  Similarity=0.086  Sum_probs=55.4

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+|+||||||+|+|.+++.+ ..++.+|+++|++|+++++||..+|+|.+.+.
T Consensus        30 ~G~tvigik~~dgVvlaaD~r~~~~~~-~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~   88 (233)
T d1irub_          30 GGAPSVGIKAANGVVLATEKKQKSILY-DERSVHKVEPITKHIGLVYSGMGPDYRVLVHR   88 (233)
T ss_dssp             TSCCEEEEECSSCEEEEEECCCCCSSB-CSTTCCSSEESSSSEEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCEEEEEEeCCcccCCc-cccccceEEEecCceEEEEeccchHHHHHHHH
Confidence            699999999999999999999998875 47899999999999999999999999999875

>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=99.67  E-value=2.5e-17  Score=112.69  Aligned_cols=59  Identities=24%  Similarity=0.318  Sum_probs=55.6

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|+|.+ +.+...++.+||++|++|+++++||..+|++.+.+.
T Consensus        21 ~G~t~vgi~~~dgVvlaad~r~~-~~~~~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~   79 (221)
T d1yara1          21 KGSTALGMKFANGVLLISDKKVR-SRLIEQNSIEKIQLIDDYVAAVTSGLVADARVLVDF   79 (221)
T ss_dssp             TSCCEEEEEETTEEEEEECCCCC-CTTBCSTTCCSEEEEETTEEEEEEEBHHHHHHHHHH
T ss_pred             cCCcEEEEEeCCEEEEEEecccC-CcccccCccceEEEecCCceEEeeeccchHHHHHHH
Confidence            59999999999999999999987 778888999999999999999999999999999875

>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=99.67  E-value=6e-17  Score=106.84  Aligned_cols=60  Identities=20%  Similarity=0.324  Sum_probs=53.7

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCC-ccceEEecCe-EEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCN-AQRIVKVNES-ILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~-~~Ki~~i~~~-i~~~~sG~~aD~q~l~~~   80 (81)
                      +|||+|||+|+||||||||+|+|+|+++.++. .+|+++++++ ++++.+|..+|.+.+.+.
T Consensus         4 ~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~~~~~g~~~~~~~~~~~   65 (180)
T d2z3ba1           4 HATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVLAGFAGSVADAFTLFEK   65 (180)
T ss_dssp             CCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEEEEECSCHHHHHHHHHH
T ss_pred             CCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEecccceecccchHHHHHHHHHHH
Confidence            79999999999999999999999998887764 7889989775 888889999999998764

>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=99.65  E-value=3.9e-17  Score=113.04  Aligned_cols=60  Identities=17%  Similarity=0.185  Sum_probs=55.9

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.+++ +...++.+||++|++++++++||..+|+|.+.+.
T Consensus        24 ~~G~t~Vgi~~~dgVvla~d~r~~~~-~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~   83 (242)
T d1rype_          24 KLGSTAIGIATKEGVVLGVEKRATSP-LLESDSIEKIVEIDRHIGCAMSGLTADARSMIEH   83 (242)
T ss_dssp             TTSCCEEEEECSSCEEEEEECCCSST-TBCGGGCCCEEEEETTEEEEEEESGGGHHHHHHH
T ss_pred             HcCCCEEEEEeCCEEEEEEeCCccCc-CcccCccceEEEcCCCEEEEEeecchhHHHHHHH
Confidence            46999999999999999999999877 7778889999999999999999999999999875

>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=99.65  E-value=9.7e-17  Score=111.54  Aligned_cols=60  Identities=28%  Similarity=0.326  Sum_probs=55.3

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||||+|.++|.+. .++.+||++|++|+++++||..+|+|.+.+.
T Consensus        29 ~~G~t~Igik~~dgVvlaad~r~~~~~~~-~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   88 (243)
T d1j2pa_          29 KRGATAIGIKCKEGVILIADKRVGSKLLE-KDTIEKIYKIDEHICAATSGLVADARVLIDR   88 (243)
T ss_dssp             HTSCCEEEEEETTEEEEEEECCCSCTTBC-GGGCCSEEECSSSEEEEEEECHHHHHHHHHH
T ss_pred             HcCCCEEEEEECCEEEEEEecCccccCcc-ccccccEeecCCcEEEEeeecccHHHHHHHH
Confidence            36999999999999999999999988654 5788999999999999999999999999875

>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=99.64  E-value=4.2e-17  Score=113.50  Aligned_cols=59  Identities=19%  Similarity=0.177  Sum_probs=53.9

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|+|.+++ ++..++.+||++|++|++++.||..+|+|.+.+.
T Consensus        30 ~G~tvvgi~~~dgVvlaad~r~~~~-~~~~~~~~ki~~I~~~i~~~~sG~~~D~~~l~~~   88 (250)
T d1rypb_          30 QGVTSLGIKATNGVVIATEKKSSSP-LAMSETLSKVSLLTPDIGAVYSGMGPDYRVLVDK   88 (250)
T ss_dssp             TSCCEEEEEETTEEEEEEECCCSCS-SBCGGGCCSSEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCEEEEEEecccCCc-cccccccceeEeccCCEEEEeeecccHHHHHHHH
Confidence            4999999999999999999998865 4567889999999999999999999999998864

>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=99.64  E-value=1.1e-16  Score=110.37  Aligned_cols=59  Identities=22%  Similarity=0.229  Sum_probs=54.4

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|++.+++. +..++.+||++|++|++++.||..+|+|.+.+.
T Consensus        26 ~G~t~vgik~~dgVvlaad~~~~~~~-~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   84 (234)
T d1irue_          26 LGSTAIGIQTSEGVCLAVEKRITSPL-MEPSSIEKIVEIDAHIGCAMSGLIADAKTLIDK   84 (234)
T ss_dssp             TSCCEEEEEETTEEEEEEECCCCCTT-BCTTSCCSEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCEEEEEEecCccCCC-cccCcccCEEEccCcEEEEEeeccchHHHHHHH
Confidence            59999999999999999999988764 457889999999999999999999999999875

>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=99.63  E-value=6.8e-17  Score=112.54  Aligned_cols=59  Identities=19%  Similarity=0.199  Sum_probs=54.0

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+|+||||||+|+|.++|.++ .++.+||++|++|++++.||..+|+|.+.+.
T Consensus        29 ~G~t~igik~~dgVvlaad~~~~~~~~~-~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   87 (244)
T d1rypg_          29 NGTTSIGIKCNDGVVFAVEKLITSKLLV-PQKNVKIQVVDRHIGCVYSGLIPDGRHLVNR   87 (244)
T ss_dssp             TSCCEEEEEETTEEEEEEEEECCCTTBC-TTTSCCCEEETTTEEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCEEEEEEecccCCCCcc-ccccceEEEccCceEEEEccchhhHHHHHHH
Confidence            5999999999999999999999988666 4567899999999999999999999999864

>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=99.62  E-value=1.9e-16  Score=109.84  Aligned_cols=59  Identities=12%  Similarity=0.124  Sum_probs=56.1

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|+|.+ +.++.+++.+||++|+++++++.||..+|+|.+.+.
T Consensus        27 ~G~Tvvgik~~dgVvla~d~r~~-~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~   85 (243)
T d1irud_          27 KGSTAVGVRGRDIVVLGVEKKSV-AKLQDERTVRKICALDDNVCMAFAGLTADARIVINR   85 (243)
T ss_dssp             TSCCEEEECCSSEEEEEECCCCC-CSSSCGGGGCSEEESSSSCEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCEEEEEEecccc-CcccCCCccccEEECCCCEEEEEEEchhhHHHHHHH
Confidence            69999999999999999999955 899999999999999999999999999999999875

>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=99.62  E-value=2.6e-16  Score=109.03  Aligned_cols=59  Identities=8%  Similarity=0.011  Sum_probs=54.6

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|+|.+ +.++..++.+||++|++|+++++||..+|++.+.+.
T Consensus        29 ~g~T~igik~~dgVvlaad~r~~-~~l~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~   87 (243)
T d1rypa_          29 TNINSLAVRGKDCTVVISQKKVP-DKLLDPTTVSYIFCISRTIGMVVNGPIPDARNAALR   87 (243)
T ss_dssp             TCCCEEEEECSSEEEEEEECCCC-CTTBCGGGCCSEEECSSSCEEEEESCHHHHHHHHHH
T ss_pred             cCceEEEEEcCCEEEEEEecccc-ccccccCcccceEecCCCEEEEEecCcHHHHHHHHH
Confidence            47799999999999999999988 477888899999999999999999999999999875

>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=99.61  E-value=1.3e-16  Score=111.49  Aligned_cols=60  Identities=18%  Similarity=0.263  Sum_probs=54.8

Q ss_pred             CCCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          20 LSCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        20 ~~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      .+|+|+|||+++||||||+|+|.+++.+ ..++.+||++|++|++++.||..+|+|.+.+.
T Consensus        31 ~~G~t~VGik~~dgVvlaad~~~~~~~~-~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~   90 (245)
T d1irug_          31 ENSSTAIGIRCKDGVVFGVEKLVLSKLY-EEGSNKRLFNVDRHVGMAVAGLLADARSLADI   90 (245)
T ss_dssp             HTSCCEEEEECSSBEEEEEEEECSCTTB-CTTTTCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             HcCCcEEEEEeCCEEEEEEecccccccc-ccCccceEEEcCCCEEEEeccCchhHHHHHHH
Confidence            4699999999999999999999887654 57888999999999999999999999999875

>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=99.58  E-value=1.1e-15  Score=106.26  Aligned_cols=58  Identities=12%  Similarity=0.024  Sum_probs=53.0

Q ss_pred             CceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          22 CASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        22 GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      |+|+|||+++||||||+|+|.+ +.++..++.+||++|++|++++.||..+|+|.|.+.
T Consensus        35 g~t~igIk~~dgVVlaad~r~~-~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   92 (244)
T d1irua_          35 GLTSVAVRGKDCAVIVTQKKVP-DKLLDSSTVTHLFKITENIGCVMTGMTADSRSQVQR   92 (244)
T ss_dssp             CCEEEEEECSSEEEEEEECCCC-CSSBCGGGCCSEEESSSSCEEEEEECHHHHHHHHHH
T ss_pred             CccEEEEEcCCEEEEEEecccc-cccccCCccceEEEecCCcEEEEecchHHHHHHHHH
Confidence            5699999999999999999987 566667889999999999999999999999999875

>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=99.57  E-value=8.1e-16  Score=106.29  Aligned_cols=52  Identities=17%  Similarity=0.349  Sum_probs=48.1

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+|+||||||+|+|.+        ..+||++|++|++++.||..+|+|.|.+.
T Consensus        18 ~GtT~vgi~~~~GVvlaad~r~~--------s~~KI~~i~~~i~~~~sG~~aD~~~l~~~   69 (227)
T d1q5qa_          18 RGRSVVVLTFRDGVLFVAENPST--------ALHKVSELYDRLGFAAVGKYNEFENLRRA   69 (227)
T ss_dssp             TSCCEEEEECSSEEEEEECCSCS--------SSCSEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEECCEEEEEEccCCC--------CcceEEEecCceEEEecCchHHHHHHHHH
Confidence            49999999999999999999864        46899999999999999999999999875

>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=99.55  E-value=1.1e-15  Score=105.83  Aligned_cols=57  Identities=19%  Similarity=0.162  Sum_probs=51.9

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|+|.+.+..   .+.+||++|+++++++.||..+|++.+.+.
T Consensus        28 ~G~t~vgik~~dgVvlaad~~~~~~~~---~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   84 (238)
T d1iruf_          28 QGSATVGLKSKTHAVLVALKRAQSELA---AHQKKILHVDNHIGISIAGLTADARLLCNF   84 (238)
T ss_dssp             HSCCEEEEECSSEEEEEEECCCSSTTB---CCCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEeCCEEEEEEecccccCCC---CccceEEEeCCceEEEEeccchHHHHHHHH
Confidence            599999999999999999999987744   356899999999999999999999999875

>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=99.49  E-value=9.4e-15  Score=100.79  Aligned_cols=57  Identities=21%  Similarity=0.182  Sum_probs=51.8

Q ss_pred             CCceEEEEEcCCeEEEEEeCccccCccceeCCccceEEecCeEEEEecccHHHHHHHHHh
Q psy4377          21 SCASVFGLQFDRGVLLAADSLVSFEGLALFCNAQRIVKVNESILLGGGNNFADLQYLQDS   80 (81)
Q Consensus        21 ~GtTvigi~~~~GVvlaaDtr~s~g~~v~~~~~~Ki~~i~~~i~~~~sG~~aD~q~l~~~   80 (81)
                      +|+|+|||+++||||||+|++.+.+ +  ..+.+||++|++|++++.||..+|++.+.+.
T Consensus        30 ~g~t~igi~~~dgvvlaad~~~~~~-l--~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~   86 (233)
T d1rypf_          30 QGSVTVGLRSNTHAVLVALKRNADE-L--SSYQKKIIKCDEHMGLSLAGLAPDARVLSNY   86 (233)
T ss_dssp             TSCCEEEEECSSEEEEEEECCCSST-T--BCCCCCEEEEETTEEEEEEECHHHHHHHHHH
T ss_pred             cCCCEEEEEECCeEEEEEecccccc-C--CcchheEEEcCCCEEEEEeeccccHHHHHHH
Confidence            4999999999999999999998855 3  3577899999999999999999999999875