Psyllid ID: psy6595

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------11
Protein Sequence
MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT
Secondary Structure (PSIPRED)
cccEEHHHHHHHHHHccccEEEEEcccEEEEEEEcccccccccccccccEEEHHHHHHHHHHccEEEEEEEccEEEEEEEEcccccccccccccccEEEEcccEEEEc
Secondary Structure Prediction (SSPRO)
cccEHHHHHHHHHHcccccEEEEEcccEEEEEEEcccccccEEEcccccEHHHHHHHHHHcccccEEEEEcccEEEEEEEcccccccEccccccccEEEccccEEEcc
Coil and Loop (DISEMBL)
MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNqdfsflphmSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNtnklldegttsekIYKLHDSLNIIT
Flexible Loop (DISEMBL)
MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTnklldegttsekiyklhdslniit
Low Complexity Region (SEG)
MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT
Disordered region (IsUnstruct)
***LYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT**L*********IYK*********
Disordered Region (DISOPRED)
MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNK*****TTSEKIYKLHDSLNIIT
Disordered Region (DISEMBL)
MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT
Disordered Region (DISPRO)
*SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT
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	108	2.2.26 [Sep-21-2011]
P18053	264	Proteasome subunit alpha	yes	N/A	0.648	0.265	0.657	5e-20
Q9R1P0	261	Proteasome subunit alpha	yes	N/A	0.648	0.268	0.628	1e-18
P21670	261	Proteasome subunit alpha	yes	N/A	0.648	0.268	0.628	1e-18
P25789	261	Proteasome subunit alpha	yes	N/A	0.648	0.268	0.628	1e-18
Q3ZCK9	261	Proteasome subunit alpha	yes	N/A	0.648	0.268	0.628	1e-18
Q4R932	261	Proteasome subunit alpha	N/A	N/A	0.648	0.268	0.628	1e-18
Q9N599	250	Proteasome subunit alpha	yes	N/A	0.657	0.284	0.535	2e-17
P23638	258	Proteasome subunit alpha	yes	N/A	0.666	0.279	0.5	1e-15
Q09682	248	Probable proteasome subun	yes	N/A	0.564	0.245	0.580	7e-14
P34119	250	Proteasome subunit alpha	yes	N/A	0.629	0.272	0.536	9e-14

>sp|P18053|PSA4_DROME Proteasome subunit alpha type-4 OS=Drosophila melanogaster GN=Pros29 PE=1 SV=2

 Score = 96.3 bits (238), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 46/70 (65%), Positives = 55/70 (78%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAISHAGTCLGILA+DGILLAAE R+TNKLLD    S
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAEDGILLAAECRSTNKLLDSAIPS 62

Query: 95  EKIYKLHDSL 104
           EKIY+L+D++
Sbjct: 63  EKIYRLNDNM 72

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|Q9R1P0|PSA4_MOUSE Proteasome subunit alpha type-4 OS=Mus musculus GN=Psma4 PE=1 SV=1

 Score = 91.7 bits (226), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/70 (62%), Positives = 53/70 (75%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   S
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62

Query: 95  EKIYKLHDSL 104
           EKIYKL++ +
Sbjct: 63  EKIYKLNEDM 72

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

Mus musculus (taxid: 10090)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P21670|PSA4_RAT Proteasome subunit alpha type-4 OS=Rattus norvegicus GN=Psma4 PE=1 SV=1

 Score = 91.7 bits (226), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/70 (62%), Positives = 53/70 (75%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   S
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62

Query: 95  EKIYKLHDSL 104
           EKIYKL++ +
Sbjct: 63  EKIYKLNEDM 72

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

Rattus norvegicus (taxid: 10116)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P25789|PSA4_HUMAN Proteasome subunit alpha type-4 OS=Homo sapiens GN=PSMA4 PE=1 SV=1

 Score = 91.7 bits (226), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/70 (62%), Positives = 53/70 (75%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   S
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62

Query: 95  EKIYKLHDSL 104
           EKIYKL++ +
Sbjct: 63  EKIYKLNEDM 72

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

Homo sapiens (taxid: 9606)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q3ZCK9|PSA4_BOVIN Proteasome subunit alpha type-4 OS=Bos taurus GN=PSMA4 PE=1 SV=1

 Score = 91.7 bits (226), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/70 (62%), Positives = 53/70 (75%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   S
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62

Query: 95  EKIYKLHDSL 104
           EKIYKL++ +
Sbjct: 63  EKIYKLNEDM 72

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|Q4R932|PSA4_MACFA Proteasome subunit alpha type-4 OS=Macaca fascicularis GN=PSMA4 PE=2 SV=1

 Score = 91.7 bits (226), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 44/70 (62%), Positives = 53/70 (75%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   S
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62

Query: 95  EKIYKLHDSL 104
           EKIYKL++ +
Sbjct: 63  EKIYKLNEDM 72

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.

Macaca fascicularis (taxid: 9541)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q9N599|PSA4_CAEEL Proteasome subunit alpha type-4 OS=Caenorhabditis elegans GN=pas-3 PE=3 SV=2

 Score = 87.8 bits (216), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 38/71 (53%), Positives = 55/71 (77%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAISHAGTCLGIL+ +GI++AAE++N +KLLD+   +
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILSSEGIVVAAERKNVHKLLDDSVMT 62

Query: 95  EKIYKLHDSLN 105
           EK+Y+L D+++
Sbjct: 63  EKVYRLSDNIS 73

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

Caenorhabditis elegans (taxid: 6239)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|P23638|PSA3_YEAST Proteasome subunit alpha type-3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=PRE9 PE=1 SV=1

 Score = 82.0 bits (201), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 36/72 (50%), Positives = 55/72 (76%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYA+E+ISHAGT +GI+A DGI+LAAE++ T+ LL++ T++
Sbjct: 4   RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST 63

Query: 95  EKIYKLHDSLNI 106
           EK+YKL+D + +
Sbjct: 64  EKLYKLNDKIAV 75

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

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

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

>sp|Q09682|PSA3_SCHPO Probable proteasome subunit alpha type-3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPAC13C5.01c PE=3 SV=1

 Score = 75.9 bits (185), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 36/62 (58%), Positives = 51/62 (82%), Gaps = 1/62 (1%)

Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RLYQVEYA+EAI+HAG  LGI+A+DGI+LAAEK+ T+KLL++  ++EK+Y + D
Sbjct: 12  FSPE-GRLYQVEYALEAINHAGVALGIVAKDGIVLAAEKKVTSKLLEQEESAEKLYHIGD 70

Query: 103 SL 104
           ++
Sbjct: 71  NM 72

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|P34119|PSA4_DICDI Proteasome subunit alpha type-4 OS=Dictyostelium discoideum GN=psmA4 PE=2 SV=1

 Score = 75.5 bits (184), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 37/69 (53%), Positives = 50/69 (72%), Gaps = 1/69 (1%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTT- 93
           +R +Q  +      R+YQVEYAM AI HAG  +GILA+DGI+LAAEK+ T KLLD  T+ 
Sbjct: 3   RRYDQRTTIFSPEGRVYQVEYAMTAIRHAGATVGILAKDGIVLAAEKKTTAKLLDSSTSI 62

Query: 94  SEKIYKLHD 102
           SEK++K+ +
Sbjct: 63  SEKMFKIDE 71

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

Dictyostelium discoideum (taxid: 44689)

EC: 3

EC: .

EC: 4

EC: .

EC: 2

EC: 5

EC: .

EC: 1

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	108
391330552	267	PREDICTED: proteasome subunit alpha type	0.648	0.262	0.7	1e-20
91087493	258	PREDICTED: similar to proteasome alpha 4	0.648	0.271	0.714	2e-20
346469211	264	hypothetical protein [Amblyomma maculatu	0.648	0.265	0.7	2e-20
427785111	265	Putative 20s proteasome regulatory subun	0.648	0.264	0.7	2e-20
442758861	262	Putative 20s proteasome regulatory subun	0.648	0.267	0.685	5e-20
322801291	257	hypothetical protein SINV_09740 [Solenop	0.648	0.272	0.714	7e-20
332029633	470	Proteasome subunit alpha type-4 [Acromyr	0.564	0.129	0.822	1e-19
307186251	490	Proteasome subunit alpha type-4 [Campono	0.564	0.124	0.806	3e-19
156552814	257	PREDICTED: proteasome subunit alpha type	0.648	0.272	0.7	3e-19
289742271	261	20S proteasome regulatory subunit alpha	0.574	0.237	0.777	6e-19

>gi|391330552|ref|XP_003739722.1| PREDICTED: proteasome subunit alpha type-4-like [Metaseiulus occidentalis]

 Score =  103 bits (257), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 49/70 (70%), Positives = 56/70 (80%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAISHAGTCLGILA DGI+LA+E+RNTNKLLDE  TS
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILATDGIVLASERRNTNKLLDEVFTS 62

Query: 95  EKIYKLHDSL 104
           EKIYKLHD +
Sbjct: 63  EKIYKLHDDM 72

Source: Metaseiulus occidentalis

Species: Metaseiulus occidentalis

Genus: Metaseiulus

Family: Phytoseiidae

Order: Mesostigmata

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91087493|ref|XP_968456.1| PREDICTED: similar to proteasome alpha 4 subunit [Tribolium castaneum] gi|270009464|gb|EFA05912.1| hypothetical protein TcasGA2_TC008727 [Tribolium castaneum]

 Score =  103 bits (256), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 50/70 (71%), Positives = 56/70 (80%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAISHAGTCLGILA DGILLAAE+RNTNKLLDE  TS
Sbjct: 3   RRYDTRTTIFSPEGRLYQVEYAMEAISHAGTCLGILANDGILLAAERRNTNKLLDEVFTS 62

Query: 95  EKIYKLHDSL 104
           EKIYKL+D +
Sbjct: 63  EKIYKLNDDM 72

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346469211|gb|AEO34450.1| hypothetical protein [Amblyomma maculatum]

 Score =  102 bits (255), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 49/70 (70%), Positives = 55/70 (78%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DGILLAAE+RNTNKLLDE  T+
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILASDGILLAAERRNTNKLLDEVFTA 62

Query: 95  EKIYKLHDSL 104
           EKIYKLHD +
Sbjct: 63  EKIYKLHDDM 72

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427785111|gb|JAA58007.1| Putative 20s proteasome regulatory subunit alpha type psma4/pre9 [Rhipicephalus pulchellus]

 Score =  102 bits (255), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 49/70 (70%), Positives = 55/70 (78%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DGILLAAE+RNTNKLLDE  T+
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILASDGILLAAERRNTNKLLDEVFTA 62

Query: 95  EKIYKLHDSL 104
           EKIYKLHD +
Sbjct: 63  EKIYKLHDDM 72

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|442758861|gb|JAA71589.1| Putative 20s proteasome regulatory subunit alpha type psma4/pre9 [Ixodes ricinus]

 Score =  101 bits (252), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 48/70 (68%), Positives = 55/70 (78%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DGI+LAAE+RNTNKLLDE  T+
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILASDGIVLAAERRNTNKLLDEVFTA 62

Query: 95  EKIYKLHDSL 104
           EKIYKLHD +
Sbjct: 63  EKIYKLHDDM 72

Source: Ixodes ricinus

Species: Ixodes ricinus

Genus: Ixodes

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322801291|gb|EFZ21978.1| hypothetical protein SINV_09740 [Solenopsis invicta]

 Score =  101 bits (251), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 50/70 (71%), Positives = 55/70 (78%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAISHAGTCLGILA DGILLAAEKRNTNKLLDE   S
Sbjct: 3   RRYDTRTTIFSPEGRLYQVEYAMEAISHAGTCLGILANDGILLAAEKRNTNKLLDEVFFS 62

Query: 95  EKIYKLHDSL 104
           EKIYKL+D +
Sbjct: 63  EKIYKLNDDI 72

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332029633|gb|EGI69522.1| Proteasome subunit alpha type-4 [Acromyrmex echinatior]

 Score =  100 bits (249), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 51/62 (82%), Positives = 53/62 (85%), Gaps = 1/62 (1%)

Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RLYQVEYAMEAISHAGTCLGILA DGILLAAEKRNTNKLLDE   SEKIYKL+D
Sbjct: 225 FSPE-GRLYQVEYAMEAISHAGTCLGILANDGILLAAEKRNTNKLLDEVFFSEKIYKLND 283

Query: 103 SL 104
            +
Sbjct: 284 DI 285

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307186251|gb|EFN71914.1| Proteasome subunit alpha type-4 [Camponotus floridanus]

 Score = 99.4 bits (246), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 50/62 (80%), Positives = 52/62 (83%), Gaps = 1/62 (1%)

Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RLYQVEYAMEAISHAGTCLGILA DGILL AEKRNTNKLLDE   SEKIYKL+D
Sbjct: 245 FSPE-GRLYQVEYAMEAISHAGTCLGILANDGILLVAEKRNTNKLLDEVFFSEKIYKLND 303

Query: 103 SL 104
            +
Sbjct: 304 DI 305

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|156552814|ref|XP_001600177.1| PREDICTED: proteasome subunit alpha type-4-like [Nasonia vitripennis]

 Score = 99.0 bits (245), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 49/70 (70%), Positives = 55/70 (78%)

Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAISHAGTCLGILA DGILLAAEKRNTNKLLDE   S
Sbjct: 3   RRYDTRTTIFSPEGRLYQVEYAMEAISHAGTCLGILANDGILLAAEKRNTNKLLDEVFFS 62

Query: 95  EKIYKLHDSL 104
           EKIYKL++ +
Sbjct: 63  EKIYKLNEDV 72

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|289742271|gb|ADD19883.1| 20S proteasome regulatory subunit alpha type PSMA4/PRE9 [Glossina morsitans morsitans]

 Score = 98.2 bits (243), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 49/63 (77%), Positives = 54/63 (85%), Gaps = 1/63 (1%)

Query: 42  SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLH 101
           +F P   RLYQVEYAMEAISHAGTCLGILA+DGILLAAE RNTNKLLD    SEKIYKL+
Sbjct: 11  TFSPE-GRLYQVEYAMEAISHAGTCLGILAEDGILLAAECRNTNKLLDGSIFSEKIYKLN 69

Query: 102 DSL 104
           D++
Sbjct: 70  DNM 72

Source: Glossina morsitans morsitans

Species: Glossina morsitans

Genus: Glossina

Family: Glossinidae

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	108
FB|FBgn0261394	264	Prosalpha3 "Proteasome alpha3	0.564	0.231	0.758	3.1e-19
UNIPROTKB|H0YLS6	125	PSMA4 "Proteasome subunit alph	0.564	0.488	0.725	3.6e-18
UNIPROTKB|F1NC02	261	PSMA4 "Proteasome subunit alph	0.564	0.233	0.725	3.6e-18
UNIPROTKB|Q3ZCK9	261	PSMA4 "Proteasome subunit alph	0.564	0.233	0.725	3.6e-18
UNIPROTKB|H0YL69	236	PSMA4 "Proteasome subunit alph	0.564	0.258	0.725	3.6e-18
UNIPROTKB|H0YLC2	174	PSMA4 "Proteasome subunit alph	0.564	0.350	0.725	3.6e-18
UNIPROTKB|H0YMA1	209	PSMA4 "Proteasome subunit alph	0.564	0.291	0.725	3.6e-18
UNIPROTKB|H0YMI6	183	PSMA4 "Proteasome subunit alph	0.564	0.333	0.741	3.6e-18
UNIPROTKB|H0YMZ1	221	PSMA4 "Proteasome subunit alph	0.564	0.276	0.725	3.6e-18
UNIPROTKB|P25789	261	PSMA4 "Proteasome subunit alph	0.564	0.233	0.725	3.6e-18

FB|FBgn0261394 Prosalpha3 "Proteasome alpha3 subunit" [Drosophila melanogaster (taxid:7227)]

 Score = 230 (86.0 bits), Expect = 3.1e-19, P = 3.1e-19
 Identities = 47/62 (75%), Positives = 53/62 (85%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAISHAGTCLGILA+DGILLAAE R+TNKLLD    SEKIY+L+D
Sbjct:    12 FSPE-GRLYQVEYAMEAISHAGTCLGILAEDGILLAAECRSTNKLLDSAIPSEKIYRLND 70

Query:   103 SL 104
             ++
Sbjct:    71 NM 72

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

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

GO:0006508 "proteolysis" evidence=NAS

GO:0000502 "proteasome complex" evidence=NAS

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

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

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

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

GO:0000022 "mitotic spindle elongation" evidence=IMP

GO:0007052 "mitotic spindle organization" evidence=IMP

GO:0008283 "cell proliferation" evidence=IMP

GO:0005875 "microtubule associated complex" evidence=IDA

UNIPROTKB|H0YLS6 PSMA4 "Proteasome subunit alpha type" [Homo sapiens (taxid:9606)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 45/62 (72%), Positives = 51/62 (82%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct:    12 FSPE-GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

Query:   103 SL 104
              +
Sbjct:    71 DM 72

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

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|F1NC02 PSMA4 "Proteasome subunit alpha type" [Gallus gallus (taxid:9031)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 45/62 (72%), Positives = 51/62 (82%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct:    12 FSPE-GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

Query:   103 SL 104
              +
Sbjct:    71 DM 72

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

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|Q3ZCK9 PSMA4 "Proteasome subunit alpha type-4" [Bos taurus (taxid:9913)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 45/62 (72%), Positives = 51/62 (82%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct:    12 FSPE-GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

Query:   103 SL 104
              +
Sbjct:    71 DM 72

GO:0000932 "cytoplasmic mRNA processing body" evidence=ISS

GO:0005839 "proteasome core complex" evidence=ISS

GO:0005634 "nucleus" evidence=IEA

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

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

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

UNIPROTKB|H0YL69 PSMA4 "Proteasome subunit alpha type" [Homo sapiens (taxid:9606)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 45/62 (72%), Positives = 51/62 (82%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct:    12 FSPE-GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

Query:   103 SL 104
              +
Sbjct:    71 DM 72

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

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|H0YLC2 PSMA4 "Proteasome subunit alpha type" [Homo sapiens (taxid:9606)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 45/62 (72%), Positives = 51/62 (82%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct:    12 FSPE-GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

Query:   103 SL 104
              +
Sbjct:    71 DM 72

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

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|H0YMA1 PSMA4 "Proteasome subunit alpha type" [Homo sapiens (taxid:9606)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 45/62 (72%), Positives = 51/62 (82%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct:    12 FSPE-GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

Query:   103 SL 104
              +
Sbjct:    71 DM 72

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

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|H0YMI6 PSMA4 "Proteasome subunit alpha type" [Homo sapiens (taxid:9606)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 46/62 (74%), Positives = 51/62 (82%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct:    12 FSPE-GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

Query:   103 SL 104
              L
Sbjct:    71 YL 72

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

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|H0YMZ1 PSMA4 "Proteasome subunit alpha type" [Homo sapiens (taxid:9606)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 45/62 (72%), Positives = 51/62 (82%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct:    12 FSPE-GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

Query:   103 SL 104
              +
Sbjct:    71 DM 72

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

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

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

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

UNIPROTKB|P25789 PSMA4 "Proteasome subunit alpha type-4" [Homo sapiens (taxid:9606)]

 Score = 220 (82.5 bits), Expect = 3.6e-18, P = 3.6e-18
 Identities = 45/62 (72%), Positives = 51/62 (82%)

Query:    43 FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
             F P   RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct:    12 FSPE-GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

Query:   103 SL 104
              +
Sbjct:    71 DM 72

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

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

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

GO:0000932 "cytoplasmic mRNA processing body" evidence=ISS

GO:0005839 "proteasome core complex" evidence=ISS

GO:0000502 "proteasome complex" evidence=TAS

GO:0000075 "cell cycle checkpoint" evidence=TAS

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

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

GO:0000209 "protein polyubiquitination" evidence=TAS

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

GO:0000278 "mitotic cell cycle" evidence=TAS

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

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

GO:0005654 "nucleoplasm" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

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

GO:0006915 "apoptotic process" evidence=TAS

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

GO:0010467 "gene expression" evidence=TAS

GO:0016032 "viral reproduction" evidence=TAS

GO:0016070 "RNA metabolic process" evidence=TAS

GO:0016071 "mRNA metabolic process" evidence=TAS

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

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

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

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

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

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

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

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

GO:0005515 "protein binding" evidence=IPI

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9N599	PSA4_CAEEL	3, ., 4, ., 2, 5, ., 1	0.5352	0.6574	0.284	yes	N/A
P25789	PSA4_HUMAN	3, ., 4, ., 2, 5, ., 1	0.6285	0.6481	0.2681	yes	N/A
Q09682	PSA3_SCHPO	3, ., 4, ., 2, 5, ., 1	0.5806	0.5648	0.2459	yes	N/A
Q9R1P0	PSA4_MOUSE	3, ., 4, ., 2, 5, ., 1	0.6285	0.6481	0.2681	yes	N/A
P34119	PSA4_DICDI	3, ., 4, ., 2, 5, ., 1	0.5362	0.6296	0.272	yes	N/A
P21670	PSA4_RAT	3, ., 4, ., 2, 5, ., 1	0.6285	0.6481	0.2681	yes	N/A
P18053	PSA4_DROME	3, ., 4, ., 2, 5, ., 1	0.6571	0.6481	0.2651	yes	N/A
Q3ZCK9	PSA4_BOVIN	3, ., 4, ., 2, 5, ., 1	0.6285	0.6481	0.2681	yes	N/A

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.4.25.1	LOW CONFIDENCE prediction!
3rd Layer	3.4.25	LOW CONFIDENCE prediction!

---

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	108
cd03752	213	cd03752, proteasome_alpha_type_4, proteasome_alpha	1e-29
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	6e-22
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	2e-15
cd01911	209	cd01911, proteasome_alpha, proteasome alpha subuni	1e-14
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	2e-14
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	5e-14
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	6e-14
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	2e-13
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	2e-11
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	2e-11
cd03753	213	cd03753, proteasome_alpha_type_5, proteasome_alpha	1e-10
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	2e-10
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	3e-10
PRK03996	241	PRK03996, PRK03996, proteasome subunit alpha; Prov	2e-09
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	3e-09
TIGR03633	224	TIGR03633, arc_protsome_A, proteasome endopeptidas	7e-09
cd03751	212	cd03751, proteasome_alpha_type_3, proteasome_alpha	1e-08
cd03756	211	cd03756, proteasome_alpha_archeal, proteasome_alph	2e-08
cd03749	211	cd03749, proteasome_alpha_type_1, proteasome_alpha	2e-08
PTZ00246	253	PTZ00246, PTZ00246, proteasome subunit alpha; Prov	3e-08
COG0638	236	COG0638, PRE1, 20S proteasome, alpha and beta subu	3e-08
cd01906	182	cd01906, proteasome_protease_HslV, proteasome_prot	3e-08
pfam00227	188	pfam00227, Proteasome, Proteasome subunit	1e-07
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	2e-07
cd03750	227	cd03750, proteasome_alpha_type_2, proteasome_alpha	7e-06
cd03755	207	cd03755, proteasome_alpha_type_7, proteasome_alpha	4e-05
cd01901	164	cd01901, Ntn_hydrolase, The Ntn hydrolases (N-term	6e-05
cd03754	215	cd03754, proteasome_alpha_type_6, proteasome_alpha	8e-05
cd01912	189	cd01912, proteasome_beta, proteasome beta subunit	5e-04
cd03764	188	cd03764, proteasome_beta_archeal, Archeal proteaso	5e-04
TIGR03634	185	TIGR03634, arc_protsome_B, proteasome endopeptidas	0.001

>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4

 Score =  104 bits (262), Expect = 1e-29
 Identities = 43/56 (76%), Positives = 51/56 (91%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           RLYQVEYAMEAISHAGTCLGILA+DGI+LAAEK+ T+KLLD+  +SEKIYK+ D +
Sbjct: 15  RLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHI 70

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

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

 Score = 85.2 bits (212), Expect = 6e-22
 Identities = 28/54 (51%), Positives = 41/54 (75%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RL+QVEYA+EA+ +  T +GI  +DG++LA EK+ T+KLLD   + EKI+K+ D
Sbjct: 13  RLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPS-SVEKIFKIDD 65

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

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

 Score = 68.7 bits (168), Expect = 2e-15
 Identities = 29/52 (55%), Positives = 42/52 (80%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           RLYQVEYA+EAI++A   +GIL ++G++L A+K  ++KLLD G  +EKIYK+
Sbjct: 17  RLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKI 68

Length = 253

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

 Score = 65.9 bits (162), Expect = 1e-14
 Identities = 18/51 (35%), Positives = 34/51 (66%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQV 53
          RL+QVEYA+EA+ +  T +GI  +DG++LA EK++         + +++++
Sbjct: 13 RLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKI 63

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

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

 Score = 65.6 bits (161), Expect = 2e-14
 Identities = 25/54 (46%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA EA+    T +G+  +DG++LA +KR T+ L++  ++ EKI+K+ D
Sbjct: 22  RLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEP-SSIEKIFKIDD 74

Length = 241

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

 Score = 65.0 bits (159), Expect = 5e-14
 Identities = 28/55 (50%), Positives = 40/55 (72%), Gaps = 1/55 (1%)

Query: 49  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RL+QVEYA+EA+   G T +GI  +DG++LAA+KR T+ LL   +  EKI+K+ D
Sbjct: 15  RLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDD 69

Length = 236

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

 Score = 64.2 bits (157), Expect = 6e-14
 Identities = 28/54 (51%), Positives = 40/54 (74%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA EA+    T +GI  +DG++LA +KR T+KL+ E ++ EKI+K+ D
Sbjct: 15  RLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLV-EPSSIEKIFKIDD 67

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

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score = 63.1 bits (154), Expect = 2e-13
 Identities = 29/54 (53%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA EA+    T LGI  ++G++LA +KR T+KL+ E  + EKIYK+ D
Sbjct: 14  RLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLV-EPESIEKIYKIDD 66

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

>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 57.7 bits (140), Expect = 2e-11
 Identities = 26/54 (48%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RL+QVEYA+EAI    T +GI  ++G++LA EKR T+ L+ E ++ EKI ++ D
Sbjct: 13  RLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLM-EPSSVEKIMEIDD 65

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

>gnl|CDD|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score = 57.7 bits (140), Expect = 2e-11
 Identities = 23/58 (39%), Positives = 42/58 (72%), Gaps = 1/58 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNI 106
           R++QVEYA +A+ ++GT +GI  +DG++LA EK  T+KL + G ++++I+ +   + I
Sbjct: 16  RVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPG-SNKRIFNVDRHIGI 72

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

>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5

 Score = 55.4 bits (134), Expect = 1e-10
 Identities = 31/75 (41%), Positives = 40/75 (53%), Gaps = 6/75 (8%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
          RL+QVEYA+EAI    T +GI  ++G++LA EKR+    S L   S    VE  ME   H
Sbjct: 13 RLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRIT---SPLMEPSS---VEKIMEIDDH 66

Query: 63 AGTCLGILAQDGILL 77
           G  +  L  D   L
Sbjct: 67 IGCAMSGLIADARTL 81

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

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score = 54.6 bits (132), Expect = 2e-10
 Identities = 22/58 (37%), Positives = 36/58 (62%), Gaps = 3/58 (5%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNI 106
           RL+QVEYAMEA+      +G+ ++   +L A KR T++L    +  +KI+K+ D + I
Sbjct: 13  RLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSEL---SSYQKKIFKVDDHIGI 67

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

>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score = 54.3 bits (131), Expect = 3e-10
 Identities = 22/54 (40%), Positives = 31/54 (57%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
            L+QVEYA EA+    T +G+  +D ++L  EK++  KL D   T  KI  L D
Sbjct: 13  HLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDP-RTVRKICMLDD 65

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

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

 Score = 52.1 bits (126), Expect = 2e-09
 Identities = 18/34 (52%), Positives = 25/34 (73%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          RLYQVEYA EA+    T +G+  +DG++LA +KR
Sbjct: 22 RLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKR 55

Length = 241

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score = 51.9 bits (125), Expect = 3e-09
 Identities = 19/59 (32%), Positives = 37/59 (62%), Gaps = 1/59 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII 107
           +L Q+EYA+ A+S     +GI A +G++LA EK+  + L+DE +   K+ ++   + ++
Sbjct: 13  KLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVH-KVEQITPHIGMV 70

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

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

 Score = 50.7 bits (122), Expect = 7e-09
 Identities = 19/34 (55%), Positives = 25/34 (73%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          RLYQVEYA EA+    T +GI  +DG++LA +KR
Sbjct: 15 RLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKR 48

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

>gnl|CDD|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3

 Score = 50.0 bits (120), Expect = 1e-08
 Identities = 30/100 (30%), Positives = 48/100 (48%), Gaps = 20/100 (20%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEK----RLNQDFSFLPHMSRLYQVEYAME 58
          R++QVEYA +A+ ++GT +GI  +DG++LA EK    +L +  S      R++ V+    
Sbjct: 16 RVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGS----NKRIFNVD---- 67

Query: 59 AISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIY 98
             H G  +  L  DG  L +  R      +E       Y
Sbjct: 68 --RHIGIAVAGLLADGRHLVSRAR------EEAENYRDNY 99

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

>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal

 Score = 49.6 bits (119), Expect = 2e-08
 Identities = 19/34 (55%), Positives = 25/34 (73%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          RLYQVEYA EA+    T LGI  ++G++LA +KR
Sbjct: 14 RLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKR 47

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

>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1

 Score = 49.2 bits (118), Expect = 2e-08
 Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 8/81 (9%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
          RL+QVEYAMEA+      +G+ ++   +L A KR   + S   +  ++++V+       H
Sbjct: 13 RLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSELSS--YQKKIFKVD------DH 64

Query: 63 AGTCLGILAQDGILLAAEKRN 83
           G  +  L  D  +L+   R 
Sbjct: 65 IGIAIAGLTADARVLSRYMRQ 85

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

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

 Score = 49.1 bits (117), Expect = 3e-08
 Identities = 19/33 (57%), Positives = 28/33 (84%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEK 35
          RLYQVEYA+EAI++A   +GIL ++G++L A+K
Sbjct: 17 RLYQVEYALEAINNASLTVGILCKEGVILGADK 49

Length = 253

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

 Score = 48.8 bits (117), Expect = 3e-08
 Identities = 20/35 (57%), Positives = 28/35 (80%), Gaps = 1/35 (2%)

Query: 3  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKR 36
          RL+QVEYA+EA+   G T +GI  +DG++LAA+KR
Sbjct: 15 RLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKR 49

Length = 236

>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV

 Score = 48.6 bits (117), Expect = 3e-08
 Identities = 19/41 (46%), Positives = 29/41 (70%)

Query: 64  GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            T +GI  +DG++LAA+KR T+ LL   +T EKI+K+ D +
Sbjct: 1   TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHI 41

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

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

 Score = 46.8 bits (112), Expect = 1e-07
 Identities = 20/47 (42%), Positives = 31/47 (65%), Gaps = 3/47 (6%)

Query: 60  ISHAGTCLGILAQDGILLAAEKRNT--NKLLDEGTTSEKIYKLHDSL 104
           +    T +GI  +DG++LAA+KR T  +KLL + T  EKI+K+ D +
Sbjct: 1   VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTV-EKIFKIDDHI 46

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

>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score = 46.5 bits (111), Expect = 2e-07
 Identities = 19/56 (33%), Positives = 36/56 (64%), Gaps = 2/56 (3%)

Query: 49  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDS 103
           RLYQVEYA +A+ +AG T + +  +D  ++  +K+  +KL+D  T +  ++++ D 
Sbjct: 14  RLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTH-LFRITDE 68

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

>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2

 Score = 42.3 bits (100), Expect = 7e-06
 Identities = 15/35 (42%), Positives = 25/35 (71%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRL 37
          +L Q+EYA+ A+S     +GI A +G++LA EK++
Sbjct: 13 KLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKV 47

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

>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7

 Score = 40.4 bits (95), Expect = 4e-05
 Identities = 14/34 (41%), Positives = 22/34 (64%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
           L+QVEYA EA+    T +G+  +D ++L  EK+
Sbjct: 13 HLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKK 46

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

>gnl|CDD|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 = 39.7 bits (93), Expect = 6e-05
 Identities = 14/41 (34%), Positives = 23/41 (56%)

Query: 64  GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            T + I  + G++LAA+KR ++ L   G+   KI K  D +
Sbjct: 1   STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGI 41

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|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6

 Score = 39.1 bits (92), Expect = 8e-05
 Identities = 14/36 (38%), Positives = 25/36 (69%), Gaps = 1/36 (2%)

Query: 3  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRL 37
          RLYQVEYA +A+ +AG T + +  +D  ++  +K++
Sbjct: 14 RLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKV 49

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

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

 Score = 37.0 bits (87), Expect = 5e-04
 Identities = 14/41 (34%), Positives = 25/41 (60%)

Query: 64  GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            T +GI  +DG++LAA+ R +   L      +KI+K+ D++
Sbjct: 1   TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNI 41

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|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit

 Score = 36.8 bits (86), Expect = 5e-04
 Identities = 13/44 (29%), Positives = 26/44 (59%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
           T +GI+ +DG++LAA+KR +          +KI+++ D + +  
Sbjct: 2   TTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTI 45

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 = 0.001
 Identities = 12/44 (27%), Positives = 26/44 (59%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
           T +GI  +DG++LAA+KR +         ++K++++ D + +  
Sbjct: 3   TTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTI 46

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	108
KOG0184|consensus	254		99.89
KOG0176|consensus	241		99.82
KOG0184|consensus	254		99.8
KOG0178|consensus	249		99.8
KOG0176|consensus	241		99.79
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	99.79
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	99.79
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	99.78
PTZ00246	253	proteasome subunit alpha; Provisional	99.78
KOG0183|consensus	249		99.78
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	99.77
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	99.77
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	99.76
KOG0863|consensus	264		99.76
PTZ00246	253	proteasome subunit alpha; Provisional	99.74
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	99.74
cd03750	227	proteasome_alpha_type_2 proteasome_alpha_type_2. T	99.74
cd03752	213	proteasome_alpha_type_4 proteasome_alpha_type_4. T	99.73
PRK03996	241	proteasome subunit alpha; Provisional	99.73
KOG0178|consensus	249		99.73
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	99.73
cd03751	212	proteasome_alpha_type_3 proteasome_alpha_type_3. T	99.73
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	99.72
KOG0183|consensus	249		99.72
cd03755	207	proteasome_alpha_type_7 proteasome_alpha_type_7. T	99.71
cd03754	215	proteasome_alpha_type_6 proteasome_alpha_type_6. T	99.7
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	99.7
KOG0181|consensus	233		99.69
cd03756	211	proteasome_alpha_archeal proteasome_alpha_archeal.	99.68
cd03749	211	proteasome_alpha_type_1 proteasome_alpha_type_1. T	99.67
KOG0182|consensus	246		99.67
KOG0181|consensus	233		99.67
TIGR03633	224	arc_protsome_A proteasome endopeptidase complex, a	99.67
cd03753	213	proteasome_alpha_type_5 proteasome_alpha_type_5. T	99.67
PRK03996	241	proteasome subunit alpha; Provisional	99.66
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	99.65
cd01911	209	proteasome_alpha proteasome alpha subunit. The 20S	99.63
KOG0182|consensus	246		99.63
KOG0863|consensus	264		99.6
COG0638	236	PRE1 20S proteasome, alpha and beta subunits [Post	99.53
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	99.41
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	99.09
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	98.82
TIGR03691	228	20S_bact_alpha proteasome, alpha subunit, bacteria	98.8
PTZ00488	247	Proteasome subunit beta type-5; Provisional	98.76
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	98.75
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	98.75
PF10584	23	Proteasome_A_N: Proteasome subunit A N-terminal si	98.72
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	98.71
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	98.69
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	98.66
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	98.56
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	98.5
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	98.44
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	98.42
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	98.41
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	98.4
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	98.37
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	98.29
cd03759	195	proteasome_beta_type_3 proteasome beta type-3 subu	98.16
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	98.04
cd03757	212	proteasome_beta_type_1 proteasome beta type-1 subu	98.03
cd03760	197	proteasome_beta_type_4 proteasome beta type-4 subu	98.01
PF00227	190	Proteasome: Proteasome subunit; InterPro: IPR00135	97.97
PTZ00488	247	Proteasome subunit beta type-5; Provisional	97.95
TIGR03690	219	20S_bact_beta proteasome, beta subunit, bacterial	97.95
cd03761	188	proteasome_beta_type_5 proteasome beta type-5 subu	97.86
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	97.86
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	97.78
TIGR03634	185	arc_protsome_B proteasome endopeptidase complex, a	97.75
cd03758	193	proteasome_beta_type_2 proteasome beta type-2 subu	97.73
cd03765	236	proteasome_beta_bacterial Bacterial proteasome, be	97.72
cd03763	189	proteasome_beta_type_7 proteasome beta type-7 subu	97.66
cd01912	189	proteasome_beta proteasome beta subunit. The 20S p	97.62
cd03762	188	proteasome_beta_type_6 proteasome beta type-6 subu	97.61
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	97.58
cd03764	188	proteasome_beta_archeal Archeal proteasome, beta s	97.53
cd01906	182	proteasome_protease_HslV proteasome_protease_HslV.	97.51
PRK05456	172	ATP-dependent protease subunit HslV; Provisional	97.24
cd01913	171	protease_HslV Protease HslV and the ATPase/chapero	97.02
TIGR03692	171	ATP_dep_HslV ATP-dependent protease HslVU, peptida	96.95
KOG0180|consensus	204		96.72
KOG0179|consensus	235		96.51
cd01901	164	Ntn_hydrolase The Ntn hydrolases (N-terminal nucle	95.68
KOG0179|consensus	235		95.32
KOG0173|consensus	271		95.0
KOG0177|consensus	200		94.86
KOG0174|consensus	224		94.83
KOG0173|consensus	271		94.81
KOG0174|consensus	224		93.14
KOG0185|consensus	256		92.99
KOG0180|consensus	204		92.52
KOG0177|consensus	200		90.78
KOG0175|consensus	285		84.18

>KOG0184|consensus

Probab=99.89  E-value=1.2e-23  Score=149.34  Aligned_cols=78  Identities=35%  Similarity=0.615  Sum_probs=75.4

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEK   81 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~   81 (108)
                      ||+||||||+|||++++|||||||||||||+.+|...++|+.+..++||+.|+      +|++++++|+.+|++.|++..
T Consensus        19 GrvfQveYA~KAven~~T~IGIk~kdGVVl~vEKli~SkLy~p~sn~ri~~V~------r~iG~avaGl~~Dg~~l~~~a   92 (254)
T KOG0184|consen   19 GRVFQVEYAQKAVENSGTCIGIKCKDGVVLAVEKLITSKLYEPGSNERIFSVD------RHIGMAVAGLIPDGRHLVNRA   92 (254)
T ss_pred             CceehHHHHHHHHhcCCcEEEEecCCeEEEEEeeeecccccccCCCCceEeec------ccccEEEeccccchHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999      999999999999999999988


Q ss_pred             hhcc
Q psy6595          82 RNTN   85 (108)
Q Consensus        82 r~~~   85 (108)
                      |..+
T Consensus        93 r~ea   96 (254)
T KOG0184|consen   93 RDEA   96 (254)
T ss_pred             HHHH
Confidence            8643

>KOG0176|consensus

Probab=99.82  E-value=5.8e-21  Score=133.92  Aligned_cols=76  Identities=32%  Similarity=0.556  Sum_probs=74.0

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEK   81 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~   81 (108)
                      |||||||||+||++.|+|+|||++|+||||+.+|+..++|...++-.|++.|+      +|++|+++|+..|.+-|+.+.
T Consensus        19 GRlfQVEYaieAikLGsTaIGv~TkEgVvL~vEKritSpLm~p~sveKi~eid------~HIgca~SGl~aDarTlve~a   92 (241)
T KOG0176|consen   19 GRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLMEPSSVEKIVEID------DHIGCAMSGLIADARTLVERA   92 (241)
T ss_pred             ceeeehhhHHHHHhcCCceeeeeccceEEEEEeccccCcccCchhhhhheehh------hceeeeccccccchHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999      999999999999999999888


Q ss_pred             hh
Q psy6595          82 RN   83 (108)
Q Consensus        82 r~   83 (108)
                      |.
T Consensus        93 rv   94 (241)
T KOG0176|consen   93 RV   94 (241)
T ss_pred             HH
Confidence            85

>KOG0184|consensus

Probab=99.80  E-value=2.3e-20  Score=132.63  Aligned_cols=72  Identities=35%  Similarity=0.640  Sum_probs=68.8

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .||...++|||+||+||+|||+|||+++++++|++++||+||+.+|..+++|+.+.++ +||+.|++||||+.
T Consensus         7 GyDls~s~fSpdGrvfQveYA~KAven~~T~IGIk~kdGVVl~vEKli~SkLy~p~sn-~ri~~V~r~iG~av   78 (254)
T KOG0184|consen    7 GYDLSASTFSPDGRVFQVEYAQKAVENSGTCIGIKCKDGVVLAVEKLITSKLYEPGSN-ERIFSVDRHIGMAV   78 (254)
T ss_pred             cccccceeeCCCCceehHHHHHHHHhcCCcEEEEecCCeEEEEEeeeecccccccCCC-CceEeecccccEEE
Confidence            5788888999999999999999999999999999999999999999999999999998 99999999999973

>KOG0178|consensus

Probab=99.80  E-value=2.4e-20  Score=131.81  Aligned_cols=78  Identities=42%  Similarity=0.685  Sum_probs=73.9

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      |||||||||+||+++.++|+|+.++|||||+.+++..++|+..+ |..|||+|+      +++.|+++|.+.|+-+|.++
T Consensus        16 GRLyQVEyAmeais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~------d~iaC~vaGlt~DAnvL~n~   89 (249)
T KOG0178|consen   16 GRLYQVEYAMEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLN------DNIACAVAGLTSDANVLKNY   89 (249)
T ss_pred             cchHHHHHHHHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcC------CceEEEEecccccHHHHHHH
Confidence            99999999999999999999999999999999999999998775 789999999      99999999999999999999


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .|..+
T Consensus        90 aRi~A   94 (249)
T KOG0178|consen   90 ARIIA   94 (249)
T ss_pred             HHHHH
Confidence            98754

>KOG0176|consensus

Probab=99.79  E-value=4.2e-20  Score=129.62  Aligned_cols=75  Identities=32%  Similarity=0.565  Sum_probs=71.4

Q ss_pred             EeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          33 AEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        33 ~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ....|++..++|||+||+||+|||.+|++-|.+++|++++++++|+.+||.+++|..++++ .||+.||+||||++
T Consensus         4 trseydrgVNTfSpEGRlfQVEYaieAikLGsTaIGv~TkEgVvL~vEKritSpLm~p~sv-eKi~eid~HIgca~   78 (241)
T KOG0176|consen    4 TRSEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGVKTKEGVVLAVEKRITSPLMEPSSV-EKIVEIDDHIGCAM   78 (241)
T ss_pred             cHHHhcccccccCCCceeeehhhHHHHHhcCCceeeeeccceEEEEEeccccCcccCchhh-hhheehhhceeeec
Confidence            3456899999999999999999999999999999999999999999999999999999999 99999999999975

>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3

Probab=99.79  E-value=1.1e-19  Score=129.80  Aligned_cols=79  Identities=33%  Similarity=0.540  Sum_probs=72.3

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||+|||||+||+++|+|+|||+++||||++++++..+.+...+...||++|+      ++..++++|..+|...+...
T Consensus        14 ~Grl~Qveya~~a~~~G~tvIgik~kdgVvla~d~r~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   87 (212)
T cd03751          14 DGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVD------RHIGIAVAGLLADGRHLVSR   87 (212)
T ss_pred             CCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEEccccccccCcchhcceeEec------CcEEEEEEEChHhHHHHHHH
Confidence            399999999999999999999999999999999998877777666779999999      99999999999999999987


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .|...
T Consensus        88 ~r~~~   92 (212)
T cd03751          88 AREEA   92 (212)
T ss_pred             HHHHH
Confidence            77544

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.

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=99.79  E-value=1.3e-19  Score=130.38  Aligned_cols=79  Identities=27%  Similarity=0.421  Sum_probs=71.5

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||++|+++|+|+||++++||||++++++..+++...+...||++|+      ++.+++++|..+|...++..
T Consensus        11 ~Grl~QveyA~~av~~G~t~igik~~dgVvlaad~~~~~~l~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   84 (227)
T cd03750          11 SGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQIT------PHIGMVYSGMGPDFRVLVKK   84 (227)
T ss_pred             CCeEhHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecCCccccCCCCcceEEEEc------CCEEEEEeEcHHhHHHHHHH
Confidence            399999999999999999999999999999999998877776656778999999      99999999999999998877


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .|...
T Consensus        85 ~r~~~   89 (227)
T cd03750          85 ARKIA   89 (227)
T ss_pred             HHHHH
Confidence            76543

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

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=99.78  E-value=1.7e-19  Score=128.51  Aligned_cols=79  Identities=46%  Similarity=0.709  Sum_probs=72.4

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      .|||||||||+||+++|+|+||++++|||||+++++...++.+.+ ...||++|+      ++++++++|..+|...++.
T Consensus        13 ~Grl~Qveya~~a~~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~   86 (213)
T cd03752          13 EGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKID------DHIACAVAGITSDANILIN   86 (213)
T ss_pred             CCEEhHHHhHHHHHhcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEec------CCEEEEEecChHhHHHHHH
Confidence            499999999999999999999999999999999999888887766 679999999      9999999999999999998


Q ss_pred             hhhhcc
Q psy6595          80 EKRNTN   85 (108)
Q Consensus        80 ~~r~~~   85 (108)
                      ..|...
T Consensus        87 ~~r~~~   92 (213)
T cd03752          87 YARLIA   92 (213)
T ss_pred             HHHHHH
Confidence            777543

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

>PTZ00246 proteasome subunit alpha; Provisional

Probab=99.78  E-value=2.2e-19  Score=131.02  Aligned_cols=77  Identities=34%  Similarity=0.539  Sum_probs=70.8

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCc-cCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPH-MSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~-~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      -|||||||||+||+++|+|+|||+++|||||+++++..+.+.+.+. ..||++|+      +++.++++|..+|...+..
T Consensus        15 ~Grl~QvEYA~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~   88 (253)
T PTZ00246         15 EGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKID------SHIFCAVAGLTADANILIN   88 (253)
T ss_pred             CCEEhHHHHHHHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEec------CCEEEEEEEcHHHHHHHHH
Confidence            3999999999999999999999999999999999998888877664 68999999      9999999999999999987


Q ss_pred             hhhh
Q psy6595          80 EKRN   83 (108)
Q Consensus        80 ~~r~   83 (108)
                      ..|.
T Consensus        89 ~~r~   92 (253)
T PTZ00246         89 QCRL   92 (253)
T ss_pred             HHHH
Confidence            6664

>KOG0183|consensus

Probab=99.78  E-value=6e-20  Score=130.00  Aligned_cols=95  Identities=21%  Similarity=0.339  Sum_probs=83.2

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEK   81 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~   81 (108)
                      |+|||||||+|||++|+++||++.+++||+..+|+...+|.....-.||.-++      +|..++++|+++|.++|++..
T Consensus        15 GhL~QVEYAqEAvrkGstaVgvrg~~~vvlgvEkkSv~~Lq~~r~~rkI~~ld------~hV~mafaGl~aDArilinrA   88 (249)
T KOG0183|consen   15 GHLFQVEYAQEAVRKGSTAVGVRGNNCVVLGVEKKSVPKLQDERTVRKISMLD------DHVVMAFAGLTADARILINRA   88 (249)
T ss_pred             CCEEeeHhHHHHHhcCceEEEeccCceEEEEEeecchhhhhhhhhhhhheeec------ceeeEEecCCCccceeehhhH
Confidence            89999999999999999999999999999999999999998877788999999      999999999999999999998


Q ss_pred             hh---cccccccCccccceeeeccce
Q psy6595          82 RN---TNKLLDEGTTSEKIYKLHDSL  104 (108)
Q Consensus        82 r~---~~~l~~~~~~~~kI~~I~~~i  104 (108)
                      |.   +.+|.-+++.  .|.+|+.+|
T Consensus        89 rvecqShrlt~edpv--tveyitRyi  112 (249)
T KOG0183|consen   89 RVECQSHRLTLEDPV--TVEYITRYI  112 (249)
T ss_pred             hHhhhhhhcccCCCc--HHHHHHHHH
Confidence            85   3566555544  666666544

>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6

Probab=99.77  E-value=2.7e-19  Score=127.87  Aligned_cols=81  Identities=20%  Similarity=0.327  Sum_probs=71.0

Q ss_pred             CCcchHHHHHHHHHhc-cCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           1 MSRLYQVEYAMEAISH-AGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         1 ~Gr~~qveya~~av~~-g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      .|||+|||||+||+++ |+|+||++++||||++++++....+...+...||++|+      ++..++++|..+|+..+..
T Consensus        12 ~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~~i~~~~~~Ki~~I~------~~i~~~~sG~~~D~~~l~~   85 (215)
T cd03754          12 EGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRIT------DEIGCVMTGMIADSRSQVQ   85 (215)
T ss_pred             CCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEeccccccccCCcccCceEEEc------CCEEEEEEechhhHHHHHH
Confidence            3999999999999986 66999999999999999998877766555668999999      9999999999999999998


Q ss_pred             hhhhcccc
Q psy6595          80 EKRNTNKL   87 (108)
Q Consensus        80 ~~r~~~~l   87 (108)
                      ..|....+
T Consensus        86 ~~r~~~~~   93 (215)
T cd03754          86 RARYEAAE   93 (215)
T ss_pred             HHHHHHHH
Confidence            87765443

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

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=99.77  E-value=2.9e-19  Score=126.87  Aligned_cols=80  Identities=24%  Similarity=0.360  Sum_probs=70.6

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||+|||||+||+++|+|+|||+++||||++++++....+.......||++|+      ++..++++|..+|...+...
T Consensus        11 ~Gr~~Qveya~~av~~G~t~Igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   84 (207)
T cd03755          11 DGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLD------DHVCLAFAGLTADARVLINR   84 (207)
T ss_pred             CCeEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCCCCcccCCCccCcEEEEC------CCEEEEEecchhhHHHHHHH
Confidence            399999999999999999999999999999999987666655444578999999      99999999999999999888


Q ss_pred             hhhccc
Q psy6595          81 KRNTNK   86 (108)
Q Consensus        81 ~r~~~~   86 (108)
                      .|....
T Consensus        85 ~r~~~~   90 (207)
T cd03755          85 ARLECQ   90 (207)
T ss_pred             HHHHHH
Confidence            776543

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=99.76  E-value=6.3e-19  Score=125.60  Aligned_cols=79  Identities=29%  Similarity=0.475  Sum_probs=70.1

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||||||||++|+++|+|+|||+++||||++++++....+.  ....||++|+      ++..++++|..+|+..++..
T Consensus        11 ~Grl~Qveya~~av~~G~t~IgIk~~dgVvlaad~r~~~~l~--~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   82 (211)
T cd03749          11 QGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSELS--SYQKKIFKVD------DHIGIAIAGLTADARVLSRY   82 (211)
T ss_pred             CCeEeHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccCccccC--CccccEEEeC------CCEEEEEEeChHhHHHHHHH
Confidence            399999999999999999999999999999999998766654  3568999999      99999999999999999988


Q ss_pred             hhhcccc
Q psy6595          81 KRNTNKL   87 (108)
Q Consensus        81 ~r~~~~l   87 (108)
                      .|....+
T Consensus        83 ~r~~~~~   89 (211)
T cd03749          83 MRQECLN   89 (211)
T ss_pred             HHHHHHH
Confidence            7765433

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.

>KOG0863|consensus

Probab=99.76  E-value=3.8e-19  Score=127.02  Aligned_cols=75  Identities=31%  Similarity=0.534  Sum_probs=71.0

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEK   81 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~   81 (108)
                      |||+|||||+||+++|+++||+|+++..||++.++..+.|.  +...||+.||      +|++.+++|+++|+++|....
T Consensus        17 Grl~QvEya~EavkqGsatVGLks~thaVLvAl~r~~seLs--s~QkKi~~iD------~h~g~siAGLt~Darvl~~Yl   88 (264)
T KOG0863|consen   17 GRLHQVEYAMEAVKQGSATVGLKSRTHAVLVALKRAQSELS--SHQKKIFKID------DHIGISIAGLTADARVLSRYL   88 (264)
T ss_pred             ceehHHHHHHHHHhcccceEeecccceEEEeeeccchhHHH--HhhheeEecc------cccceEEeccCcchHHHHHHH
Confidence            99999999999999999999999999999999999888886  6789999999      999999999999999999888


Q ss_pred             hhc
Q psy6595          82 RNT   84 (108)
Q Consensus        82 r~~   84 (108)
                      |..
T Consensus        89 r~e   91 (264)
T KOG0863|consen   89 RQE   91 (264)
T ss_pred             HHH
Confidence            763

>PTZ00246 proteasome subunit alpha; Provisional

Probab=99.74  E-value=1.2e-18  Score=127.17  Aligned_cols=75  Identities=40%  Similarity=0.664  Sum_probs=68.8

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ...||..+++|||+|||+|+|||+||++++++++|++++|+++|++++|.++.++++....+||+.|++|+++++
T Consensus         2 ~~~yd~~~~~fsp~Grl~QvEYA~~av~~g~t~Igik~~dgVvlaad~r~s~~~~~~~~~~~KI~~I~~~i~~~~   76 (253)
T PTZ00246          2 SRRYDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAV   76 (253)
T ss_pred             CCccCCCCceECCCCEEhHHHHHHHHHHhCCCEEEEEECCEEEEEEecCCCCcCccCCCCcccEEEecCCEEEEE
Confidence            347999999999999999999999999999999999999999999999999999887643489999999999863

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=99.74  E-value=2.1e-18  Score=122.84  Aligned_cols=80  Identities=31%  Similarity=0.527  Sum_probs=71.6

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||+|||||++|+++|+|+||++++||||++++++....+...+...||++|+      +++.++++|..+|...+...
T Consensus        11 ~G~~~Q~eya~~a~~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   84 (213)
T cd03753          11 EGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEID------DHIGCAMSGLIADARTLIDH   84 (213)
T ss_pred             CCeEhHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccCCcCcCCCccceEEEEc------CCEEEEEecCHHHHHHHHHH
Confidence            499999999999999999999999999999999998777776666678999999      99999999999999999877


Q ss_pred             hhhccc
Q psy6595          81 KRNTNK   86 (108)
Q Consensus        81 ~r~~~~   86 (108)
                      .|....
T Consensus        85 ~r~~~~   90 (213)
T cd03753          85 ARVEAQ   90 (213)
T ss_pred             HHHHHH
Confidence            665443

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.

>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2

Probab=99.74  E-value=2e-18  Score=124.11  Aligned_cols=71  Identities=27%  Similarity=0.513  Sum_probs=65.6

Q ss_pred             ccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          37 LNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        37 ~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ||+.+++|||+||++|||||++|++++.+++|++++|+++|+.++|.++++..++.. +||+.|++|++|+.
T Consensus         1 yd~~~t~fsp~Grl~QveyA~~av~~G~t~igik~~dgVvlaad~~~~~~l~~~~~~-~KI~~I~~~i~~~~   71 (227)
T cd03750           1 YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSV-HKVEQITPHIGMVY   71 (227)
T ss_pred             CCCCCceECCCCeEhHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecCCccccCCCCc-ceEEEEcCCEEEEE
Confidence            578899999999999999999999999999999999999999999988888776665 99999999999863

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

>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4

Probab=99.73  E-value=2.7e-18  Score=122.34  Aligned_cols=72  Identities=61%  Similarity=0.913  Sum_probs=66.9

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +|++.+++|||+||++|+|||++|++++++++|++++|+++|+.++|.++++++.+...+||+.|++|++++
T Consensus         2 ~yd~~~~~fsp~Grl~Qveya~~a~~~G~t~igi~~~dgVvla~d~r~~~~~~~~~~~~~KI~~I~~~i~~~   73 (213)
T cd03752           2 RYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACA   73 (213)
T ss_pred             CcCCCCceECCCCEEhHHHhHHHHHhcCCCEEEEEeCCEEEEEEEeccCCcccCCCcCcceEEEecCCEEEE
Confidence            588999999999999999999999999999999999999999999999989888663349999999999986

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

>PRK03996 proteasome subunit alpha; Provisional

Probab=99.73  E-value=2.4e-18  Score=124.64  Aligned_cols=78  Identities=31%  Similarity=0.547  Sum_probs=70.4

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .||++|||||+||+++|+|+|||+++||||++++++..+.+...+...||++|+      ++..++++|..+|...++..
T Consensus        20 ~Gr~~Q~eya~~av~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   93 (241)
T PRK03996         20 DGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKID------DHIGAASAGLVADARVLIDR   93 (241)
T ss_pred             CCeEhHHHHHHHHHHhCCCEEEEEeCCEEEEEEeccCCCcccCCCccceEEEEc------CCEEEEEcccHHHHHHHHHH
Confidence            399999999999999999999999999999999998877776666678999999      99999999999999999866


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        94 ~~~~   97 (241)
T PRK03996         94 ARVE   97 (241)
T ss_pred             HHHH
Confidence            5543

>KOG0178|consensus

Probab=99.73  E-value=9.2e-19  Score=123.80  Aligned_cols=74  Identities=54%  Similarity=0.858  Sum_probs=70.5

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .++|+++.++|+|+||++|+|||++|+++.++++|+..+||+||+.++|.+++|.+.+...+|||.|+|||+|+
T Consensus         2 sr~ydsrttiFspEGRLyQVEyAmeais~aGt~iGila~DGvvLa~e~k~t~kll~t~~~~EKiY~l~d~iaC~   75 (249)
T KOG0178|consen    2 SRRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCIGILASDGVVLAGENKVTSKLLDTSIPMEKIYKLNDNIACA   75 (249)
T ss_pred             CcCcCCcccccCCCcchHHHHHHHHHHhhhcceeEEEecCceEEEeecccchhhhhccccHHHhhhcCCceEEE
Confidence            45789999999999999999999999999999999999999999999999999999877779999999999986

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=99.73  E-value=3.1e-18  Score=121.82  Aligned_cols=78  Identities=33%  Similarity=0.574  Sum_probs=69.9

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||+|+|||+||+++|+|+||++++||||++++++....+...+...||++|+      ++..++++|..+|...+...
T Consensus        12 ~G~l~Q~eya~~av~~G~t~igik~~dgvvla~d~~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   85 (211)
T cd03756          12 DGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKID------DHVGAATSGLVADARVLIDR   85 (211)
T ss_pred             CCeEhHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCCcccCCCccceEEEEc------CCEEEEEecCHHHHHHHHHH
Confidence            399999999999999999999999999999999998777766556678999999      99999999999999988876


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        86 l~~~   89 (211)
T cd03756          86 ARVE   89 (211)
T ss_pred             HHHH
Confidence            6543

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=99.73  E-value=3e-18  Score=122.32  Aligned_cols=72  Identities=33%  Similarity=0.585  Sum_probs=66.9

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+|++.+++|||+||++|||||++|++++++++|++++|+++|+.++|.++++...+.. +||+.|++|++++
T Consensus         2 ~~yd~~~t~fsp~Grl~Qveya~~a~~~G~tvIgik~kdgVvla~d~r~~~~~~~~~~~-~KI~~I~~~i~~~   73 (212)
T cd03751           2 TGYDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSN-KRIFNVDRHIGIA   73 (212)
T ss_pred             CCccCCCceECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEEccccccccCcchh-cceeEecCcEEEE
Confidence            46899999999999999999999999999999999999999999999988888876655 9999999999986

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

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=99.72  E-value=4.6e-18  Score=121.91  Aligned_cols=77  Identities=32%  Similarity=0.567  Sum_probs=69.1

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||+|||||++|+++|+|+||++++||||++++++....+.......||++|+      ++..++++|..+|...+...
T Consensus        13 ~Grl~Qieya~~av~~G~tvigi~~~dgvvlaad~r~~~~~~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~   86 (224)
T TIGR03633        13 DGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKID------DHIGAATSGLVADARVLIDR   86 (224)
T ss_pred             CCeEeHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCccccCCCccceEEEEC------CCEEEEEeecHHhHHHHHHH
Confidence            499999999999999999999999999999999998776666556678999999      99999999999999888866


Q ss_pred             hhh
Q psy6595          81 KRN   83 (108)
Q Consensus        81 ~r~   83 (108)
                      .|.
T Consensus        87 ~~~   89 (224)
T TIGR03633        87 ARI   89 (224)
T ss_pred             HHH
Confidence            544

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

>KOG0183|consensus

Probab=99.72  E-value=3.4e-18  Score=121.12  Aligned_cols=73  Identities=32%  Similarity=0.503  Sum_probs=69.8

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .+|++.+++|||||+++|+|||++|+.+|.++++++.+|++||..++++..+|.+++.. +||..+|+|++|+.
T Consensus         2 srydraltvFSPDGhL~QVEYAqEAvrkGstaVgvrg~~~vvlgvEkkSv~~Lq~~r~~-rkI~~ld~hV~maf   74 (249)
T KOG0183|consen    2 SRYDRALTVFSPDGHLFQVEYAQEAVRKGSTAVGVRGNNCVVLGVEKKSVPKLQDERTV-RKISMLDDHVVMAF   74 (249)
T ss_pred             CccccceEEECCCCCEEeeHhHHHHHhcCceEEEeccCceEEEEEeecchhhhhhhhhh-hhheeecceeeEEe
Confidence            36899999999999999999999999999999999999999999999999999999887 99999999999873

>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7

Probab=99.71  E-value=9.8e-18  Score=119.02  Aligned_cols=71  Identities=31%  Similarity=0.491  Sum_probs=64.5

Q ss_pred             ccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          37 LNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        37 ~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      |+..+++|||+||++|+|||++|++++++++|++++|+++|+.++|...++.+++.. +||+.|++|+++++
T Consensus         1 ~d~~~~~fsp~Gr~~Qveya~~av~~G~t~Igik~~dgVvlaad~~~~~~~~~~~~~-~KI~~I~~~i~~~~   71 (207)
T cd03755           1 YDRAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTV-RKICMLDDHVCLAF   71 (207)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCCCCcccCCCcc-CcEEEECCCEEEEE
Confidence            567889999999999999999999999999999999999999999988787766544 89999999999863

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=99.70  E-value=1.5e-17  Score=118.91  Aligned_cols=71  Identities=24%  Similarity=0.531  Sum_probs=64.2

Q ss_pred             cccccccccCccCCeeeehhHHHhhcc-cceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISH-AGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~-~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +|+..+++|||+||++|+|||+||+++ +++++|++++|+++|++++|.+..++.++.. +||+.|++|++|+
T Consensus         1 ~yd~~~~~fsp~Grl~Qveya~~a~~~~g~t~igi~~~d~Vvlaad~r~~~~~i~~~~~-~Ki~~I~~~i~~~   72 (215)
T cd03754           1 GFDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTV-THLFRITDEIGCV   72 (215)
T ss_pred             CCCCCCeeECCCCeEeHHHhHHHHHhcCCccEEEEEeCCEEEEEEeccccccccCCccc-CceEEEcCCEEEE
Confidence            478899999999999999999999986 5699999999999999999988888776655 8999999999986

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=99.70  E-value=1.7e-17  Score=117.79  Aligned_cols=77  Identities=31%  Similarity=0.585  Sum_probs=69.4

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||+|||||+||+++|+|+||++++|||+++++++....+...+...||++|+      ++..++++|..+|...+...
T Consensus        11 ~G~~~q~eya~~~~~~G~tvigi~~~dgVvlaaD~~~~~~~~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~   84 (209)
T cd01911          11 EGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKID------DHIGCAVAGLTADARVLVNR   84 (209)
T ss_pred             CCEEeHHHHHHHHHHcCCCEEEEEECCEEEEEEEecCCccccCCcccceEEEec------CCeEEEeccCcHhHHHHHHH
Confidence            499999999999999999999999999999999998877766555678999999      99999999999999988866


Q ss_pred             hhh
Q psy6595          81 KRN   83 (108)
Q Consensus        81 ~r~   83 (108)
                      .+.
T Consensus        85 l~~   87 (209)
T cd01911          85 ARV   87 (209)
T ss_pred             HHH
Confidence            654

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.

>KOG0181|consensus

Probab=99.69  E-value=6.5e-18  Score=118.35  Aligned_cols=73  Identities=27%  Similarity=0.496  Sum_probs=69.7

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +.+|..++++|||+||+.|||||+.|+.++.+++|++.+||+||+++|+..++|.++.+. +||+.|++||||+
T Consensus         3 d~~y~fslTtFSpsGKL~QieyAL~Av~~G~~SvGi~A~nGvVlatekk~~s~L~~~~sv-~KV~~i~~~IG~v   75 (233)
T KOG0181|consen    3 DFGYSFSLTTFSPSGKLVQIEYALTAVVNGQTSVGIKAANGVVLATEKKDVSPLVDEESV-RKVEKITPHIGCV   75 (233)
T ss_pred             CcccceeeEEEcCCCceehHHHHHHHHhCCCCceeeeecCceEEEeccCCCCccchhhhh-hhHhhccCCcceE
Confidence            446888999999999999999999999999999999999999999999999999999888 9999999999996

>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal

Probab=99.68  E-value=4.3e-17  Score=115.94  Aligned_cols=72  Identities=40%  Similarity=0.653  Sum_probs=65.3

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .|+..+++|+|+||++|+|||.+|++++++++|++.+|++++++++|.+..+...+.. +||+.|++|+++++
T Consensus         1 ~y~~~~~~fsp~G~l~Q~eya~~av~~G~t~igik~~dgvvla~d~~~~~~~~~~~~~-~KI~~I~~~i~~~~   72 (211)
T cd03756           1 GYDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESI-EKIYKIDDHVGAAT   72 (211)
T ss_pred             CCCCCCceECCCCeEhHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCCcccCCCcc-ceEEEEcCCEEEEE
Confidence            3788899999999999999999999999999999999999999999988777665544 89999999999863

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=99.67  E-value=4.2e-17  Score=116.21  Aligned_cols=68  Identities=34%  Similarity=0.547  Sum_probs=61.9

Q ss_pred             ccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          37 LNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        37 ~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ||+.+++|+|+||++|+|||++|++++++++|++++|+++|++++|...++.+  . .+||+.|++|++++
T Consensus         1 yd~~~t~fsp~Grl~Qveya~~av~~G~t~IgIk~~dgVvlaad~r~~~~l~~--~-~~KI~~I~~~i~~~   68 (211)
T cd03749           1 YDTDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSELSS--Y-QKKIFKVDDHIGIA   68 (211)
T ss_pred             CCCCCceECCCCeEeHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccCccccCC--c-cccEEEeCCCEEEE
Confidence            57888999999999999999999999999999999999999999998777643  2 38999999999986

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.

>KOG0182|consensus

Probab=99.67  E-value=3.9e-17  Score=115.64  Aligned_cols=74  Identities=27%  Similarity=0.561  Sum_probs=69.1

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccc-eeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~-~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ...+++.+++|||+||+||+|||+||+++.+ ++++.+.+|+.|++++|+..++|.|+++. +.+|+|++++||++
T Consensus         6 ~agfDrhitIFspeGrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tv-t~~f~itk~ig~v~   80 (246)
T KOG0182|consen    6 SAGFDRHITIFSPEGRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTV-THLFRITKKIGCVI   80 (246)
T ss_pred             cCCccceEEEECCCceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccc-eeEEEeeccceEEE
Confidence            3468999999999999999999999999955 99999999999999999999999999888 99999999999974

>KOG0181|consensus

Probab=99.67  E-value=4e-17  Score=114.39  Aligned_cols=79  Identities=25%  Similarity=0.387  Sum_probs=74.2

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      +|+|-|+|||..||.+|.+.|||+..|||||+.+|+..++|.+-.+..|+++|.      ++++++++|..||.++|+..
T Consensus        16 sGKL~QieyAL~Av~~G~~SvGi~A~nGvVlatekk~~s~L~~~~sv~KV~~i~------~~IG~vYSGmgpD~RvlV~~   89 (233)
T KOG0181|consen   16 SGKLVQIEYALTAVVNGQTSVGIKAANGVVLATEKKDVSPLVDEESVRKVEKIT------PHIGCVYSGMGPDYRVLVHK   89 (233)
T ss_pred             CCceehHHHHHHHHhCCCCceeeeecCceEEEeccCCCCccchhhhhhhHhhcc------CCcceEEecCCCceeehhhH
Confidence            699999999999999999999999999999999999999998877789999999      99999999999999999988


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .|..+
T Consensus        90 ~rkiA   94 (233)
T KOG0181|consen   90 SRKIA   94 (233)
T ss_pred             HHHHH
Confidence            87654

>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit

Probab=99.67  E-value=6.2e-17  Score=116.07  Aligned_cols=71  Identities=38%  Similarity=0.647  Sum_probs=64.9

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +|+..+++|+|+|||+|||||++|++++++++|++.+|+++|++.+|.+..+...+.. +||+.|++|++++
T Consensus         2 ~~~~~~~~f~p~Grl~Qieya~~av~~G~tvigi~~~dgvvlaad~r~~~~~~~~~~~-~KI~~i~~~i~~~   72 (224)
T TIGR03633         2 GYDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSI-EKIFKIDDHIGAA   72 (224)
T ss_pred             CCCCCCceECCCCeEeHHHHHHHHHHcCCCEEEEEECCEEEEEEeccCCccccCCCcc-ceEEEECCCEEEE
Confidence            5788999999999999999999999999999999999999999999987776655544 8999999999986

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.

>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5

Probab=99.67  E-value=6.3e-17  Score=115.25  Aligned_cols=71  Identities=35%  Similarity=0.598  Sum_probs=64.2

Q ss_pred             ccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          37 LNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        37 ~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      |+.++++|+|+||++|+|||++|++++++++|++.+|+++|+.++|.+..+...+.. +||+.|++|++|+.
T Consensus         1 ~~~~~~~f~p~G~~~Q~eya~~a~~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~-~KI~~I~~~i~~~~   71 (213)
T cd03753           1 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSV-EKIMEIDDHIGCAM   71 (213)
T ss_pred             CCCCCccCCCCCeEhHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccCCcCcCCCcc-ceEEEEcCCEEEEE
Confidence            567889999999999999999999999999999999999999999987777665555 89999999999863

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

>PRK03996 proteasome subunit alpha; Provisional

Probab=99.66  E-value=8.1e-17  Score=116.63  Aligned_cols=73  Identities=34%  Similarity=0.618  Sum_probs=66.8

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ...|+..+++|||+||++|+|||.+|++++++++|++++|+++|++++|.++.+...+.. +||+.|++|++++
T Consensus         7 ~~~y~~~~~~fsp~Gr~~Q~eya~~av~~G~t~igik~~dgVvlaad~r~~~~~~~~~~~-~KI~~I~~~i~~~   79 (241)
T PRK03996          7 QMGYDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSI-EKIFKIDDHIGAA   79 (241)
T ss_pred             ccccCCCCceECCCCeEhHHHHHHHHHHhCCCEEEEEeCCEEEEEEeccCCCcccCCCcc-ceEEEEcCCEEEE
Confidence            457899999999999999999999999999999999999999999999988777765555 8999999999986

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

Probab=99.65  E-value=1.3e-16  Score=115.78  Aligned_cols=77  Identities=34%  Similarity=0.616  Sum_probs=71.9

Q ss_pred             CcchHHHHHHHHHhcc-CcEEEEeeCCeEEEEEeecccccccccCc-cCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           2 SRLYQVEYAMEAISHA-GTCLGILAQDGILLAAEKRLNQDFSFLPH-MSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         2 Gr~~qveya~~av~~g-~~~vgi~~~~gvvl~~~k~~~~~l~~~s~-~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      ||++|+|||++|+.++ +|+||++++|||||+++|+..+.+++.+. ..|+++|+      ++++++++|..+|++.|+.
T Consensus        14 g~l~q~e~a~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~------d~i~~~~sG~~aDa~~lv~   87 (236)
T COG0638          14 GRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKID------DHIGMAIAGLAADAQVLVR   87 (236)
T ss_pred             CchHHHHHHHHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEec------CCEEEEeccCcHhHHHHHH
Confidence            8999999999999998 79999999999999999999888877776 78999999      9999999999999999998


Q ss_pred             hhhhc
Q psy6595          80 EKRNT   84 (108)
Q Consensus        80 ~~r~~   84 (108)
                      ..|..
T Consensus        88 ~~r~~   92 (236)
T COG0638          88 YARAE   92 (236)
T ss_pred             HHHHH
Confidence            88853

>cd01911 proteasome_alpha proteasome alpha subunit

Probab=99.63  E-value=2.8e-16  Score=111.58  Aligned_cols=71  Identities=39%  Similarity=0.686  Sum_probs=63.5

Q ss_pred             ccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          37 LNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        37 ~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      |+..+++|+|+||++|+|||+++++++++++|++++|++++++++|.+..+...+.. +||+.|++|+++++
T Consensus         1 ~~~~~~~f~~~G~~~q~eya~~~~~~G~tvigi~~~dgVvlaaD~~~~~~~~~~~~~-~KI~~i~~~i~~~~   71 (209)
T cd01911           1 YDRSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSV-EKIFKIDDHIGCAV   71 (209)
T ss_pred             CCCCCccCCCCCEEeHHHHHHHHHHcCCCEEEEEECCEEEEEEEecCCccccCCccc-ceEEEecCCeEEEe
Confidence            577889999999999999999999999999999999999999999987776654444 89999999999863

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.

>KOG0182|consensus

Probab=99.63  E-value=1.7e-16  Score=112.41  Aligned_cols=77  Identities=25%  Similarity=0.429  Sum_probs=71.9

Q ss_pred             CcchHHHHHHHHHhccC-cEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           2 SRLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         2 Gr~~qveya~~av~~g~-~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      |||||||||+||+++++ |+|++|.+|++|.+++|+...+|.+.+....+|+|.      +++++++.|..+|.+..+.+
T Consensus        20 GrLyQVEYafkAin~~gltsVavrgkDcavvvsqKkvpDKLld~~tvt~~f~it------k~ig~v~tG~~aDar~~v~r   93 (246)
T KOG0182|consen   20 GRLYQVEYAFKAINQAGLTSVAVRGKDCAVVVTQKKVPDKLLDSSTVTHLFRIT------KKIGCVITGMIADARSQVQR   93 (246)
T ss_pred             ceEEeeehHHHHhhcCCCceEEEcCCceEEEEecccCcccccccccceeEEEee------ccceEEEecCCcchHHHHHH
Confidence            99999999999999966 999999999999999999999999877789999999      99999999999999988877


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        94 ar~e   97 (246)
T KOG0182|consen   94 ARYE   97 (246)
T ss_pred             HHHH
Confidence            7643

>KOG0863|consensus

Probab=99.60  E-value=2.4e-16  Score=112.81  Aligned_cols=72  Identities=31%  Similarity=0.492  Sum_probs=66.9

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .+.|++..++|||+||++|+|||++|++.|++++|+++.+..||+..+|..++|.+   +|+||+.||+|+|+.+
T Consensus         3 rnqyd~d~t~wsPqGrl~QvEya~EavkqGsatVGLks~thaVLvAl~r~~seLss---~QkKi~~iD~h~g~si   74 (264)
T KOG0863|consen    3 RNQYDNDVTTWSPQGRLHQVEYAMEAVKQGSATVGLKSRTHAVLVALKRAQSELSS---HQKKIFKIDDHIGISI   74 (264)
T ss_pred             cccccCceeEECCcceehHHHHHHHHHhcccceEeecccceEEEeeeccchhHHHH---hhheeEecccccceEE
Confidence            35789999999999999999999999999999999999999999999998888876   6899999999999874

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

Probab=99.53  E-value=8.2e-15  Score=106.29  Aligned_cols=73  Identities=37%  Similarity=0.639  Sum_probs=66.9

Q ss_pred             cccccccccCccCCeeeehhHHHhhccc-ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHA-GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~-~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .++...++|+|+|+++|+|||++++.++ ++++|++++||+||+.++|.++++++.++..+||+.|+|||+|++
T Consensus         2 ~~~~~~~~fsp~g~l~q~e~a~~a~~~~gtT~vgik~~dgVVlaadkr~t~~~~~~~~~~~Ki~~I~d~i~~~~   75 (236)
T COG0638           2 GYDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAI   75 (236)
T ss_pred             CCcCcceeECCCCchHHHHHHHHHHHcCCceEEEEEecCEEEEEEeccCCCCceecccccceEEEecCCEEEEe
Confidence            4677889999999999999999999987 899999999999999999999998888774499999999999974

>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type

Probab=99.41  E-value=1.5e-13  Score=99.26  Aligned_cols=68  Identities=16%  Similarity=0.133  Sum_probs=60.0

Q ss_pred             HHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhccc
Q psy6595           7 VEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNK   86 (108)
Q Consensus         7 veya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~   86 (108)
                      =|||+||+++|+|+|||+++|||||+++++.       ....|||+|+      ++++++++|..+|+..|+...|....
T Consensus        17 ~EYA~kav~~g~T~VGIk~kdgVVLaaek~~-------~~~~KI~~I~------d~ig~~~sG~~~D~~~lv~~~r~~a~   83 (228)
T TIGR03691        17 AELARKGIARGRSVVVLTYADGILFVAENPS-------RSLHKISELY------DRIGFAAVGKYNEFENLRRAGIRYAD   83 (228)
T ss_pred             HHHHHHHHHcCCcEEEEEeCCeEEEEEecCC-------CCcCcEEEec------CCEEEEEcCCHHHHHHHHHHHHHHHH
Confidence            3999999999999999999999999999862       2467999999      99999999999999999987776433


Q ss_pred             c
Q psy6595          87 L   87 (108)
Q Consensus        87 l   87 (108)
                      .
T Consensus        84 ~   84 (228)
T TIGR03691        84 M   84 (228)
T ss_pred             H
Confidence            3

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.

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

Probab=99.09  E-value=3.2e-11  Score=57.39  Aligned_cols=23  Identities=39%  Similarity=0.650  Sum_probs=21.3

Q ss_pred             ccccccccCccCCeeeehhHHHh
Q psy6595          37 LNQDFSFLPHMSRLYQVEYAMEA   59 (108)
Q Consensus        37 ~~~~l~~~s~~gki~qieya~~a   59 (108)
                      ||..+++|||+||++|||||+||
T Consensus         1 YD~~~t~FSp~Grl~QVEYA~~A   23 (23)
T PF10584_consen    1 YDRSITTFSPDGRLFQVEYAMKA   23 (23)
T ss_dssp             TSSSTTSBBTTSSBHHHHHHHHH
T ss_pred             CCCCceeECCCCeEEeeEeeecC
Confidence            57889999999999999999987

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

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=98.82  E-value=1.6e-09  Score=76.20  Aligned_cols=65  Identities=18%  Similarity=0.263  Sum_probs=57.3

Q ss_pred             ccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhccc
Q psy6595          16 HAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNK   86 (108)
Q Consensus        16 ~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~   86 (108)
                      +|+|+|||+++|||||+++++..+.+.+.+ ...||++|+      ++..++++|..+|.+.++...|....
T Consensus         2 ~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~~r~~~~   67 (195)
T cd03759           2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIG------DRLYIGLAGLATDVQTLAQKLRFRVN   67 (195)
T ss_pred             CCceEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeC------CCEEEEccchHHHHHHHHHHHHHHHH
Confidence            689999999999999999999888877644 568999999      99999999999999999987776443

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=98.80  E-value=5.3e-09  Score=75.67  Aligned_cols=48  Identities=27%  Similarity=0.383  Sum_probs=42.7

Q ss_pred             ehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          53 VEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        53 ieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      =|||++|++++.+++|++++||+||+++++.       ++. +|||.|++|+||++
T Consensus        17 ~EYA~kav~~g~T~VGIk~kdgVVLaaek~~-------~~~-~KI~~I~d~ig~~~   64 (228)
T TIGR03691        17 AELARKGIARGRSVVVLTYADGILFVAENPS-------RSL-HKISELYDRIGFAA   64 (228)
T ss_pred             HHHHHHHHHcCCcEEEEEeCCeEEEEEecCC-------CCc-CcEEEecCCEEEEE
Confidence            4899999999999999999999999999863       234 89999999999974

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.

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=98.76  E-value=3.6e-09  Score=77.33  Aligned_cols=69  Identities=14%  Similarity=0.180  Sum_probs=59.3

Q ss_pred             HHhccCcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccc
Q psy6595          13 AISHAGTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKL   87 (108)
Q Consensus        13 av~~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l   87 (108)
                      -+++|+|+|||+++||||++++++... .+...+...||++|+      ++..++++|..+|.+.|+...|....+
T Consensus        35 ~~~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~~KI~~I~------~~i~~~~sG~~aD~~~l~~~lr~~~~~  104 (247)
T PTZ00488         35 EFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEIN------PTLLGTMAGGAADCSFWERELAMQCRL  104 (247)
T ss_pred             ccCCCceEEEEEeCCEEEEEEecCcccCCEEEcCCcCceEEcC------CCEEEEeCcCHHHHHHHHHHHHHHHHH
Confidence            357899999999999999999997764 666566789999999      999999999999999999887765433

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=98.75  E-value=3.5e-09  Score=75.49  Aligned_cols=67  Identities=18%  Similarity=0.277  Sum_probs=58.3

Q ss_pred             HhccCcEEEEeeCCeEEEEEeecccccccc-cCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhccc
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLNQDFSF-LPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNK   86 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~~~l~~-~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~   86 (108)
                      +++|+|+||++++|||+++++++....+.+ .....||++|+      ++..++++|..+|...++...|....
T Consensus         5 ~~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~aD~~~l~~~~r~~~~   72 (212)
T cd03757           5 TDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLT------DKCVLGSSGFQADILALTKRLKARIK   72 (212)
T ss_pred             cCCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcC------CCEEEEccchHHHHHHHHHHHHHHHH
Confidence            468999999999999999999988777755 45678999999      99999999999999999987775433

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

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=98.75  E-value=3.8e-09  Score=75.70  Aligned_cols=63  Identities=17%  Similarity=0.236  Sum_probs=56.0

Q ss_pred             ccCcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          16 HAGTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        16 ~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|+|+||++++||||++++++... .+..++...||++|+      ++..++++|..+|+..|+...|..
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~g~~~~~~~~~KI~~i~------~~i~~~~sG~~aD~~~l~~~~r~~   64 (219)
T TIGR03690         1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTD------EYSAVGIAGTAGLAIELVRLFQVE   64 (219)
T ss_pred             CCcEEEEEEECCEEEEEECCccccCcEEEcCCcceEEEcC------CcEEEEecccHHHHHHHHHHHHHH
Confidence            488999999999999999998776 666666789999999      999999999999999998777744

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.

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

Probab=98.72  E-value=7.2e-09  Score=49.27  Aligned_cols=13  Identities=69%  Similarity=0.999  Sum_probs=12.0

Q ss_pred             CCcchHHHHHHHH
Q psy6595           1 MSRLYQVEYAMEA   13 (108)
Q Consensus         1 ~Gr~~qveya~~a   13 (108)
                      -|||||||||+||
T Consensus        11 ~Grl~QVEYA~~A   23 (23)
T PF10584_consen   11 DGRLFQVEYAMKA   23 (23)
T ss_dssp             TSSBHHHHHHHHH
T ss_pred             CCeEEeeEeeecC
Confidence            3999999999998

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

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=98.71  E-value=8.7e-09  Score=72.54  Aligned_cols=62  Identities=15%  Similarity=0.139  Sum_probs=55.3

Q ss_pred             cCcEEEEeeCCeEEEEEeeccc-ccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          17 AGTCLGILAQDGILLAAEKRLN-QDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        17 g~~~vgi~~~~gvvl~~~k~~~-~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      |+|+|||+++|||||+++++.. ..+.......|||+|+      ++..++++|..+|...++...|..
T Consensus         2 G~T~igi~~kdgVvlaad~r~~~~~~~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~~r~~   64 (197)
T cd03760           2 GTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVG------DNTLLGASGDYADFQYLKRLLDQL   64 (197)
T ss_pred             CceEEEEEeCCcEEEEEcCcccccceeecCCCCcEEEec------CcEEEEeCcchHHHHHHHHHHHHH
Confidence            7899999999999999999877 5666666779999999      999999999999999999877754

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=98.69  E-value=9.8e-09  Score=71.13  Aligned_cols=65  Identities=22%  Similarity=0.377  Sum_probs=54.3

Q ss_pred             HhccCcEEEEeeCCeEEEEEeeccc--ccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLN--QDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~--~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      |++|+|+||++++|||+++++++..  +.+...+...|+++|+      +++.++++|..+|...+....+..
T Consensus         1 v~~G~t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~~ki~~i~------~~i~~~~sG~~~D~~~l~~~l~~~   67 (190)
T PF00227_consen    1 VNNGTTVVGIKGKDGVVLAADKRISYGSKLRSPNTVDKIFKIN------DNIIIGFSGLTADFQYLIRRLREE   67 (190)
T ss_dssp             HHTSBEEEEEEESSEEEEEEEEEEEETTEEEESSTSSSEEEEE------TTEEEEEEESHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEEEECCEEEEEEccccccccccccccccceeeecc------CcceeeccccccchHHHHhhhccc
Confidence            6799999999999999999998766  4443323358999999      999999999999999998776654

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 ....

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=98.66  E-value=1.1e-08  Score=71.65  Aligned_cols=64  Identities=14%  Similarity=0.158  Sum_probs=54.3

Q ss_pred             CcEEEEeeCCeEEEEEeeccccc-ccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQD-FSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKL   87 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~-l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l   87 (108)
                      +|+|||+++|||||+++++..+. +.......||++|+      ++..++++|..+|...|+...|....+
T Consensus         1 tT~igi~~kdgVvla~d~r~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~~r~~~~~   65 (188)
T cd03761           1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEIN------PYLLGTMAGGAADCQYWERVLGRECRL   65 (188)
T ss_pred             CcEEEEEECCEEEEEEcCCccCCcEEEcCCcceEEEcc------CcEEEEeCccHHHHHHHHHHHHHHHHH
Confidence            48999999999999999988774 44345779999999      999999999999999999887765433

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=98.56  E-value=2.9e-08  Score=69.04  Aligned_cols=62  Identities=23%  Similarity=0.350  Sum_probs=53.1

Q ss_pred             cCcEEEEeeCCeEEEEEeeccc-ccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          17 AGTCLGILAQDGILLAAEKRLN-QDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        17 g~~~vgi~~~~gvvl~~~k~~~-~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      |+++|||+++||||++++++.. ..+.......||++|+      ++..++++|..+|...+....|..
T Consensus         1 G~t~igi~~~dgVvla~d~~~~~~~~i~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~~~~~   63 (185)
T TIGR03634         1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQID------DYIAMTIAGSVGDAQSLVRILKAE   63 (185)
T ss_pred             CCcEEEEEeCCEEEEEEcCcccCCCEEecCCcccEEEcC------CCEEEEcCchHHHHHHHHHHHHHH
Confidence            6899999999999999998765 4455455678999999      999999999999999998766643

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.

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=98.50  E-value=5.9e-08  Score=68.22  Aligned_cols=61  Identities=20%  Similarity=0.244  Sum_probs=53.0

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .|+||++++||||++++++... .+...+...||++|+      ++..++++|..+|++.|+...|..
T Consensus         2 ~t~igi~~~dgVvlaad~r~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~aD~~~l~~~~~~~   63 (193)
T cd03758           2 ETLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLS------DHKLMACSGEAGDRLQFAEYIQKN   63 (193)
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEecCcccEEEeC------CCeEEEEccchHHHHHHHHHHHHH
Confidence            4899999999999999998754 445556789999999      999999999999999998777654

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

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=98.44  E-value=9.7e-08  Score=69.51  Aligned_cols=65  Identities=12%  Similarity=0.119  Sum_probs=55.1

Q ss_pred             cEEEEeeCCeEEEEEeecccccccccCccCCeeeeh---hHHHhhcccceeeeEeeCCeeeehhhhhhccccc
Q psy6595          19 TCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVE---YAMEAISHAGTCLGILAQDGILLAAEKRNTNKLL   88 (108)
Q Consensus        19 ~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qie---ya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~   88 (108)
                      -+|||+++|||||+++++...++...+...||++|+   .     ++++++.+|..+|+..|+...|....++
T Consensus         2 ~~vGIk~kdGVVLaadkr~~~~l~~~~~~~KI~~I~~~~d-----~~I~~~~sG~~aD~~~l~~~~r~~~~~~   69 (236)
T cd03765           2 YCLGIKLDAGLVFASDSRTNAGVDNISTYRKMFVFSVPGE-----RVIVLLTAGNLATTQAVISLLQRDLEDP   69 (236)
T ss_pred             eEEEEEeCCeEEEEEccCccCCCccccccceEEEecCCCC-----CEEEEEcCCcHHHHHHHHHHHHHHHHhh
Confidence            489999999999999999888877666678999994   1     5799999999999999998887655443

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=98.42  E-value=1.3e-07  Score=65.97  Aligned_cols=63  Identities=19%  Similarity=0.188  Sum_probs=52.4

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhccc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNK   86 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~   86 (108)
                      +|++||+++||||++++++... .+.......|+++|+      ++..++++|..+|...|....|....
T Consensus         1 ~t~igi~~~dgVvla~D~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~sG~~~D~~~l~~~l~~~~~   64 (188)
T cd03762           1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLH------DRIYCCRSGSAADTQAIADYVRYYLD   64 (188)
T ss_pred             CeEEEEEECCeEEEEEcccccCCceEEcCCcccEEEcc------CCEEEEecccHHHHHHHHHHHHHHHH
Confidence            4899999999999999998766 344334679999999      99999999999999999877655433

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=98.41  E-value=1.2e-07  Score=66.36  Aligned_cols=62  Identities=16%  Similarity=0.186  Sum_probs=52.5

Q ss_pred             CcEEEEeeCCeEEEEEeecccccc-cccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDF-SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTN   85 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l-~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~   85 (108)
                      +|+|||+++||||++++++..... .......|+|+|+      ++..++++|..+|...|....|...
T Consensus         1 tt~igi~~~dgvvlaad~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~sG~~~D~~~l~~~~~~~~   63 (189)
T cd03763           1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIA------PNIYCCGAGTAADTEAVTNMISSNL   63 (189)
T ss_pred             CeEEEEEECCeEEEEEcCCcccCceEEcCCccceEEec------CCEEEEcCccHHHHHHHHHHHHHHH
Confidence            489999999999999999877654 3344678999999      9999999999999999997666543

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=98.40  E-value=2.3e-07  Score=63.84  Aligned_cols=61  Identities=28%  Similarity=0.519  Sum_probs=53.0

Q ss_pred             CcEEEEeeCCeEEEEEeecccccccc-cCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSF-LPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~-~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +++||++++||||++++++....+.. .+...|+|+|+      ++..++++|..+|...+....+..
T Consensus         1 tt~igi~~~dgvvla~d~~~~~~~~~~~~~~~Ki~~i~------~~i~~~~sG~~~D~~~l~~~~~~~   62 (182)
T cd01906           1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKID------DHIGCAFAGLAADAQTLVERLRKE   62 (182)
T ss_pred             CcEEEEEeCCEEEEEEecccCCcCeecCCCcceEEEEC------CCEEEEEeeCHHHHHHHHHHHHHH
Confidence            58999999999999999987766655 56789999999      999999999999999998766643

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=98.37  E-value=1.8e-07  Score=65.07  Aligned_cols=60  Identities=20%  Similarity=0.258  Sum_probs=53.0

Q ss_pred             CcEEEEeeCCeEEEEEeecccccccc-cCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSF-LPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~-~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +++||++++|||||+++++....+.. .+...|+|+|+      ++..++++|..+|...+....+.
T Consensus         1 tt~i~i~~~dgVvla~d~~~~~~~~~~~~~~~Ki~~i~------~~i~~~~sG~~~D~~~l~~~~~~   61 (189)
T cd01912           1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKIS------DNILLGTAGSAADTQALTRLLKR   61 (189)
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEEcCCcCcEEEcc------CCEEEEccccHHHHHHHHHHHHH
Confidence            48999999999999999988777766 67789999999      99999999999999988866553

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

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=98.29  E-value=3.6e-07  Score=63.68  Aligned_cols=60  Identities=23%  Similarity=0.410  Sum_probs=51.9

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +|+||++++||||++++++... .+.......||++|+      ++..++++|..+|...|....|.
T Consensus         1 tt~iai~~~dgvvia~d~r~~~g~~~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~~~~   61 (188)
T cd03764           1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQID------DKIAMTIAGSVGDAQSLVRILKA   61 (188)
T ss_pred             CcEEEEEeCCEEEEEEccccccCCEEecCCcccEEEcc------CCEEEEcCccHHHHHHHHHHHHH
Confidence            4899999999999999998766 554455789999999      99999999999999998876654

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.

>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit

Probab=98.16  E-value=2.1e-06  Score=60.37  Aligned_cols=47  Identities=19%  Similarity=0.309  Sum_probs=41.1

Q ss_pred             ccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          62 HAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        62 ~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ++++++|++++|+++|++++|.++.+++.....+||+.|++|++|+.
T Consensus         2 ~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~~   48 (195)
T cd03759           2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGL   48 (195)
T ss_pred             CCceEEEEEcCCEEEEEEccccccCCEeEecCCCeEEEeCCCEEEEc
Confidence            57899999999999999999999998885533389999999999873

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.

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=98.04  E-value=2.8e-06  Score=59.15  Aligned_cols=66  Identities=8%  Similarity=0.072  Sum_probs=54.2

Q ss_pred             cCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeee-hhHHHhhcccceeeeEeeCCeeeehhhhhhccccc
Q psy6595          17 AGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQV-EYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLL   88 (108)
Q Consensus        17 g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qi-eya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~   88 (108)
                      |.|.||++.+||||++++++......+.+ ...|+++| +      ++..++.+|...|...|....+...+++
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~------d~i~~~~aG~~aD~q~l~~~l~~~~~~y   68 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYN------GKVLAGFAGSTADAFTLFERFEAKLEEH   68 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCC------CCEEEEEeccHHHHHHHHHHHHHHHHHc
Confidence            57999999999999999998766555555 45799999 8      9999999999999998887766543333

>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit

Probab=98.03  E-value=5.2e-06  Score=59.17  Aligned_cols=48  Identities=27%  Similarity=0.315  Sum_probs=41.4

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +++++++|++++|+++|+.++|.+..++......+||+.|++|+++++
T Consensus         6 ~~G~Tvigik~~dgVvlaaD~r~~~~~~~~~~~~~KI~~I~~~i~~~~   53 (212)
T cd03757           6 DNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGS   53 (212)
T ss_pred             CCCccEEEEEcCCEEEEEECCccccCCEeEeCCCCeEEEcCCCEEEEc
Confidence            779999999999999999999998888764323399999999999863

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

>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit

Probab=98.01  E-value=6.4e-06  Score=57.95  Aligned_cols=45  Identities=22%  Similarity=0.375  Sum_probs=39.7

Q ss_pred             cceeeeEeeCCeeeehhhhhhc-ccccccCccccceeeeccceeEeC
Q psy6595          63 AGTCLGILAQDGILLAAEKRNT-NKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        63 ~~~~v~~~~~D~~vl~~~~r~~-~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +++++|++++|+++|++++|.. .++..++.. +|||.|++|++++.
T Consensus         2 G~T~igi~~kdgVvlaad~r~~~~~~~~~~~~-~KI~~i~~~i~~~~   47 (197)
T cd03760           2 GTSVIAIKYKDGVIIAADTLGSYGSLARFKNV-ERIFKVGDNTLLGA   47 (197)
T ss_pred             CceEEEEEeCCcEEEEEcCcccccceeecCCC-CcEEEecCcEEEEe
Confidence            5789999999999999999987 677777666 99999999999863

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=97.97  E-value=7.4e-06  Score=56.64  Aligned_cols=47  Identities=38%  Similarity=0.637  Sum_probs=40.5

Q ss_pred             hcccceeeeEeeCCeeeehhhhhhc--ccccccCccccceeeeccceeEe
Q psy6595          60 ISHAGTCLGILAQDGILLAAEKRNT--NKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        60 v~~~~~~v~~~~~D~~vl~~~~r~~--~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      |++|++++|++++|+++|+.++|.+  +.+..++.. +||+.|++|+++.
T Consensus         1 v~~G~t~vgi~~~dgvvla~d~~~~~g~~~~~~~~~-~ki~~i~~~i~~~   49 (190)
T PF00227_consen    1 VNNGTTVVGIKGKDGVVLAADKRISYGSKLRSPNTV-DKIFKINDNIIIG   49 (190)
T ss_dssp             HHTSBEEEEEEESSEEEEEEEEEEEETTEEEESSTS-SSEEEEETTEEEE
T ss_pred             CCCCeEEEEEEECCEEEEEEcccccccccccccccc-ceeeeccCcceee
Confidence            4789999999999999999999887  666566555 8999999999875

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 ....

>PTZ00488 Proteasome subunit beta type-5; Provisional

Probab=97.95  E-value=8.7e-06  Score=59.58  Aligned_cols=47  Identities=19%  Similarity=0.325  Sum_probs=41.2

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEeC
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .++++++|++++|+++|++++|... .+..++.. +||+.|++|++++.
T Consensus        37 ~~G~T~IgIk~kdgVvlAaD~r~~~g~li~~~~~-~KI~~I~~~i~~~~   84 (247)
T PTZ00488         37 AHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSV-KKVIEINPTLLGTM   84 (247)
T ss_pred             CCCceEEEEEeCCEEEEEEecCcccCCEEEcCCc-CceEEcCCCEEEEe
Confidence            7799999999999999999998774 77766666 99999999999863

>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type

Probab=97.95  E-value=9.4e-06  Score=58.14  Aligned_cols=46  Identities=22%  Similarity=0.426  Sum_probs=40.0

Q ss_pred             ccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEeC
Q psy6595          62 HAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        62 ~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ++++++|++++|+++|+.++|.+. .+..++.. +||+.|++|++++.
T Consensus         1 ~G~T~igi~~kdgVvlaad~r~~~g~~~~~~~~-~KI~~i~~~i~~~~   47 (219)
T TIGR03690         1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDV-EKVYPTDEYSAVGI   47 (219)
T ss_pred             CCcEEEEEEECCEEEEEECCccccCcEEEcCCc-ceEEEcCCcEEEEe
Confidence            367999999999999999999886 77776666 99999999999863

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

>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit

Probab=97.86  E-value=1.6e-05  Score=55.61  Aligned_cols=43  Identities=23%  Similarity=0.349  Sum_probs=36.4

Q ss_pred             eeeeEeeCCeeeehhhhhhccc-ccccCccccceeeeccceeEeC
Q psy6595          65 TCLGILAQDGILLAAEKRNTNK-LLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        65 ~~v~~~~~D~~vl~~~~r~~~~-l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +++|++++|+++|+.++|.+.. +..++.. +||+.|++|++++.
T Consensus         2 T~igi~~kdgVvla~d~r~~~~~~~~~~~~-~KI~~I~~~i~~~~   45 (188)
T cd03761           2 TTLAFIFQGGVIVAVDSRATAGSYIASQTV-KKVIEINPYLLGTM   45 (188)
T ss_pred             cEEEEEECCEEEEEEcCCccCCcEEEcCCc-ceEEEccCcEEEEe
Confidence            7899999999999999998874 4444455 99999999999863

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.

>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=97.86  E-value=8.1e-06  Score=56.89  Aligned_cols=64  Identities=8%  Similarity=0.087  Sum_probs=52.5

Q ss_pred             CcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhc-ccceeeeEeeCCeeeehhhhhhcccc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAIS-HAGTCLGILAQDGILLAAEKRNTNKL   87 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~-~~~~~v~~~~~D~~vl~~~~r~~~~l   87 (108)
                      .|.||++++|||||+++++......+.+ ...|+++|+      + +..++.+|...|...|+...+...++
T Consensus         1 tTivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~------d~~i~~~~aG~~aD~~~l~~~~~~~~~~   66 (171)
T cd01913           1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLY------NGKVIAGFAGSTADAFTLFERFEAKLEQ   66 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeC------CCCEEEEecccHHHHHHHHHHHHHHHHH
Confidence            4789999999999999998766655555 457999998      8 99999999999999888665544333

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

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=97.78  E-value=1.2e-05  Score=56.02  Aligned_cols=65  Identities=8%  Similarity=0.082  Sum_probs=53.5

Q ss_pred             CcEEEEeeCCeEEEEEeecccccccccCc-cCCeeee-hhHHHhhcccceeeeEeeCCeeeehhhhhhccccc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFLPH-MSRLYQV-EYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLL   88 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~s~-~gki~qi-eya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~   88 (108)
                      .|.+|++++|||||+++++......+.+. ..|+++| +      ++..++.+|-..|...|+...+...+++
T Consensus         1 tTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~Ki~~i~~------d~i~~~~aG~~aD~q~l~~~~~~~~~~y   67 (171)
T TIGR03692         1 TTILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYN------GKVLAGFAGSTADAFTLFERFEAKLEEY   67 (171)
T ss_pred             CeEEEEEECCEEEEEECCceEeceEEEcCCCCeEEEeCC------CCEEEEecchHHHHHHHHHHHHHHHHHc
Confidence            47899999999999999987666656654 5799999 7      8899999999999999997766544443

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

>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit

Probab=97.75  E-value=3.2e-05  Score=53.66  Aligned_cols=45  Identities=27%  Similarity=0.588  Sum_probs=37.4

Q ss_pred             cceeeeEeeCCeeeehhhhhhc-ccccccCccccceeeeccceeEeC
Q psy6595          63 AGTCLGILAQDGILLAAEKRNT-NKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        63 ~~~~v~~~~~D~~vl~~~~r~~-~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      |++++|++++|+++|+.++|.+ ..+...+.. +|||.|++|+++++
T Consensus         1 G~t~igi~~~dgVvla~d~~~~~~~~i~~~~~-~KI~~i~~~i~~~~   46 (185)
T TIGR03634         1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNA-KKVFQIDDYIAMTI   46 (185)
T ss_pred             CCcEEEEEeCCEEEEEEcCcccCCCEEecCCc-ccEEEcCCCEEEEc
Confidence            4689999999999999999987 455555555 99999999999864

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.

>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit

Probab=97.73  E-value=3.4e-05  Score=54.17  Aligned_cols=44  Identities=32%  Similarity=0.434  Sum_probs=37.1

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .+++|++++||++|+.++|.+. .+..+++. +||+.|++|++++.
T Consensus         2 ~t~igi~~~dgVvlaad~r~~~~~~~~~~~~-~KI~~I~~~i~~~~   46 (193)
T cd03758           2 ETLIGIKGKDFVILAADTSAARSILVLKDDE-DKIYKLSDHKLMAC   46 (193)
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEecCc-ccEEEeCCCeEEEE
Confidence            4789999999999999999865 44665655 99999999999863

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

>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit

Probab=97.72  E-value=4.1e-05  Score=55.81  Aligned_cols=43  Identities=23%  Similarity=0.484  Sum_probs=38.1

Q ss_pred             eeeeEeeCCeeeehhhhhhcccccccCccccceeeec----cceeEeC
Q psy6595          65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLH----DSLNIIT  108 (108)
Q Consensus        65 ~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~----~~ig~~~  108 (108)
                      .++|++++||+||++++|.++++.+.++. +||+.|+    +|++|++
T Consensus         2 ~~vGIk~kdGVVLaadkr~~~~l~~~~~~-~KI~~I~~~~d~~I~~~~   48 (236)
T cd03765           2 YCLGIKLDAGLVFASDSRTNAGVDNISTY-RKMFVFSVPGERVIVLLT   48 (236)
T ss_pred             eEEEEEeCCeEEEEEccCccCCCcccccc-ceEEEecCCCCCEEEEEc
Confidence            58999999999999999998898876654 9999998    9999864

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=97.66  E-value=5.9e-05  Score=52.65  Aligned_cols=44  Identities=25%  Similarity=0.393  Sum_probs=36.1

Q ss_pred             eeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        65 ~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +++|++++||++|++.+|.+...+......+|||.|++|+++++
T Consensus         2 t~igi~~~dgvvlaad~r~~~g~~~~~~~~~Ki~~i~~~i~~~~   45 (189)
T cd03763           2 TIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCG   45 (189)
T ss_pred             eEEEEEECCeEEEEEcCCcccCceEEcCCccceEEecCCEEEEc
Confidence            68999999999999999988754443323389999999999864

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

>cd01912 proteasome_beta proteasome beta subunit

Probab=97.62  E-value=6.7e-05  Score=52.04  Aligned_cols=44  Identities=34%  Similarity=0.519  Sum_probs=38.2

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccc-cCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLD-EGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~-~~~~~~kI~~I~~~ig~~~  108 (108)
                      ++++|++.+|+++|++++|.+..+.. .+.. +|||.|++++++++
T Consensus         1 tt~i~i~~~dgVvla~d~~~~~~~~~~~~~~-~Ki~~i~~~i~~~~   45 (189)
T cd01912           1 TTIVGIKGKDGVVLAADTRASAGSLVASRNF-DKIFKISDNILLGT   45 (189)
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEEcCCc-CcEEEccCCEEEEc
Confidence            36899999999999999999888877 4555 99999999999863

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

>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit

Probab=97.61  E-value=7.2e-05  Score=52.07  Aligned_cols=44  Identities=23%  Similarity=0.432  Sum_probs=36.1

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .+++|++.+|+++|++++|.+. .+...+.. +||+.|++|+++++
T Consensus         1 ~t~igi~~~dgVvla~D~r~~~g~~~~~~~~-~Ki~~i~~~i~~~~   45 (188)
T cd03762           1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVT-DKLTQLHDRIYCCR   45 (188)
T ss_pred             CeEEEEEECCeEEEEEcccccCCceEEcCCc-ccEEEccCCEEEEe
Confidence            3789999999999999999877 44444444 99999999999864

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.

>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=97.58  E-value=6.2e-05  Score=49.69  Aligned_cols=62  Identities=26%  Similarity=0.289  Sum_probs=53.2

Q ss_pred             CcEEEEeeCCeEEEEEeecccccccc-cCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSF-LPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTN   85 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~-~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~   85 (108)
                      .++||+++++|++++++++....+.. ..+..|+++++      ++..++++|...|...+....+...
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~------~~~~~~~sG~~~d~~~~~~~~~~~~   63 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNE------DGIAWGLAGLAADAQTLVRRLREAL   63 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEec------CCeEEEEecChHHHHHHHHHHHHHH
Confidence            47999999999999999988777766 45678999999      9999999999999998887665543

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

>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit

Probab=97.53  E-value=0.0001  Score=51.27  Aligned_cols=44  Identities=30%  Similarity=0.632  Sum_probs=37.1

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .+++|++.+|+++++.++|.++ .+..++.. +||+.|++|+++++
T Consensus         1 tt~iai~~~dgvvia~d~r~~~g~~~~~~~~-~KI~~i~~~i~~~~   45 (188)
T cd03764           1 TTTVGIVCKDGVVLAADKRASMGNFIASKNV-KKIFQIDDKIAMTI   45 (188)
T ss_pred             CcEEEEEeCCEEEEEEccccccCCEEecCCc-ccEEEccCCEEEEc
Confidence            3789999999999999999876 55555555 99999999999863

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.

>cd01906 proteasome_protease_HslV proteasome_protease_HslV

Probab=97.51  E-value=0.00012  Score=50.31  Aligned_cols=44  Identities=43%  Similarity=0.625  Sum_probs=37.2

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccc-cCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLD-EGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~-~~~~~~kI~~I~~~ig~~~  108 (108)
                      ++++|++.+|+++|++.+|.+..+.. .+.. +|||.|++++++.+
T Consensus         1 tt~igi~~~dgvvla~d~~~~~~~~~~~~~~-~Ki~~i~~~i~~~~   45 (182)
T cd01906           1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTV-EKIFKIDDHIGCAF   45 (182)
T ss_pred             CcEEEEEeCCEEEEEEecccCCcCeecCCCc-ceEEEECCCEEEEE
Confidence            37899999999999999998887776 3444 89999999999863

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

>PRK05456 ATP-dependent protease subunit HslV; Provisional

Probab=97.24  E-value=0.00038  Score=48.48  Aligned_cols=45  Identities=13%  Similarity=0.068  Sum_probs=38.3

Q ss_pred             cceeeeEeeCCeeeehhhhhhcccccccCccccceeee-ccceeEe
Q psy6595          63 AGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL-HDSLNII  107 (108)
Q Consensus        63 ~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I-~~~ig~~  107 (108)
                      +.+++|++.+|+++|+...|.+...+..+...+||++| ++|++|+
T Consensus         1 gtTivgi~~~dgVvlaaD~r~s~g~~v~~~~~~KI~~i~~d~i~~~   46 (172)
T PRK05456          1 GTTILAVRRNGKVAIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAG   46 (172)
T ss_pred             CcEEEEEEECCEEEEEECCceEeCcEEEcCCCceEEEeCCCCEEEE
Confidence            35889999999999999999877666655556999999 9999886

>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=97.02  E-value=0.00082  Score=46.87  Aligned_cols=43  Identities=14%  Similarity=0.092  Sum_probs=37.3

Q ss_pred             eeeeEeeCCeeeehhhhhhcccccccCccccceeeecc-ceeEe
Q psy6595          65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD-SLNII  107 (108)
Q Consensus        65 ~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~-~ig~~  107 (108)
                      +.+|++.+|+++|+...|.+...+..+...+||++|++ |++|.
T Consensus         2 Tivgi~~~dgVvlaaD~r~t~G~~v~~~~~~Ki~~i~d~~i~~~   45 (171)
T cd01913           2 TILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAG   45 (171)
T ss_pred             eEEEEEECCEEEEEECCceEeccEEEcCCcceEEEeCCCCEEEE
Confidence            68999999999999999987766666556699999999 99886

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

>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit

Probab=96.95  E-value=0.0011  Score=46.22  Aligned_cols=44  Identities=14%  Similarity=0.080  Sum_probs=37.5

Q ss_pred             eeeeEeeCCeeeehhhhhhcccccccCccccceeee-ccceeEeC
Q psy6595          65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL-HDSLNIIT  108 (108)
Q Consensus        65 ~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I-~~~ig~~~  108 (108)
                      +.+|++.+|+++|+...|.+...+..+...+||++| ++|++|.+
T Consensus         2 Tivgi~~~dgVvlaaD~r~s~g~~v~~~~~~Ki~~i~~d~i~~~~   46 (171)
T TIGR03692         2 TILAVRRNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGF   46 (171)
T ss_pred             eEEEEEECCEEEEEECCceEeceEEEcCCCCeEEEeCCCCEEEEe
Confidence            689999999999999999887766665566999999 59999863

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

>KOG0180|consensus

Probab=96.72  E-value=0.0008  Score=47.02  Aligned_cols=69  Identities=16%  Similarity=0.251  Sum_probs=57.4

Q ss_pred             hccCcEEEEeeCCeEEEEEeecccccccccCc-cCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccc
Q psy6595          15 SHAGTCLGILAQDGILLAAEKRLNQDFSFLPH-MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLD   89 (108)
Q Consensus        15 ~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~-~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~   89 (108)
                      -+|+++|+...|++|.++++.+.......-+. -.|+|.+.      ++.-.-.+|+.+|...|..+-|....||.
T Consensus         6 ynGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~ig------dr~y~GL~glatDvqtl~~~~~fr~nLy~   75 (204)
T KOG0180|consen    6 YNGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIG------DRLYLGLTGLATDVQTLLERLRFRKNLYE   75 (204)
T ss_pred             ecCceEEEEeCCceEEEEeccccceeeeeeeccchhheecC------CeeEEeccccchhHHHHHHHHHHHHhHHH
Confidence            37999999999999999999988766555554 58999999      88889999999999999887776555554

>KOG0179|consensus

Probab=96.51  E-value=0.0016  Score=46.79  Aligned_cols=63  Identities=14%  Similarity=0.248  Sum_probs=52.8

Q ss_pred             HhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhh
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR   82 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r   82 (108)
                      ..+|+|+|+|...|..|++.+.+..+...+-+ ..+|+|++.      ++..+.-+|...|+.-|....+
T Consensus        26 ~~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~------D~~vl~~sGF~aD~l~L~k~i~   89 (235)
T KOG0179|consen   26 EDNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLG------DNIVLGSSGFYADTLALVKVIK   89 (235)
T ss_pred             ccCCceEEEEcCCceEEEecccccccceeeeccccchheecc------CceEEecccchhhHHHHHHHHH
Confidence            46899999999999999999988776666655 468999999      9999999999999876664433

>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=95.68  E-value=0.016  Score=37.97  Aligned_cols=44  Identities=32%  Similarity=0.357  Sum_probs=36.3

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +++++++.+|+++++...+.+..+.......+|++.+++++++.
T Consensus         1 ~t~i~i~~~~gvila~d~~~~~~~~~~~~~~~ki~~~~~~~~~~   44 (164)
T cd01901           1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWG   44 (164)
T ss_pred             CcEEEEEeCCEEEEEEecccCccCeecCCCcceEEEecCCeEEE
Confidence            36889999999999999998877776322348999999999886

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

>KOG0179|consensus

Probab=95.32  E-value=0.024  Score=40.81  Aligned_cols=47  Identities=23%  Similarity=0.336  Sum_probs=40.4

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +|+++++++-..|..|++...|.+.........++|||.++|++.+.
T Consensus        27 ~NGGT~vaIaG~dFavvA~DTR~s~gy~I~sR~~~Ki~~l~D~~vl~   73 (235)
T KOG0179|consen   27 DNGGTTVAIAGEDFAVVAGDTRMSSGYNINSRDQSKIFKLGDNIVLG   73 (235)
T ss_pred             cCCceEEEEcCCceEEEecccccccceeeeccccchheeccCceEEe
Confidence            89999999999999999999998766655555569999999998775

>KOG0173|consensus

Probab=95.00  E-value=0.016  Score=42.61  Aligned_cols=58  Identities=19%  Similarity=0.277  Sum_probs=46.3

Q ss_pred             HHHhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCee
Q psy6595          12 EAISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGI   75 (108)
Q Consensus        12 ~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~   75 (108)
                      ++.+-|.+.||+..|||||++++.+......+.+ .-.||+++-      +++.++-+|...|.-
T Consensus        32 ~~tkTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia------~~IyccGAGtAADte   90 (271)
T KOG0173|consen   32 KATKTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIA------PNIYCCGAGTAADTE   90 (271)
T ss_pred             cccccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcc------cceEEccCCchhhHH
Confidence            4567888999999999999999987665554443 346888888      999999888888854

>KOG0177|consensus

Probab=94.86  E-value=0.037  Score=39.17  Aligned_cols=64  Identities=19%  Similarity=0.198  Sum_probs=52.2

Q ss_pred             cEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhccccc
Q psy6595          19 TCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLL   88 (108)
Q Consensus        19 ~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~   88 (108)
                      +.+||+..|.|++|+++...+.++.. +.+.|++++.      ++..++..|-..|.+-..........|+
T Consensus         3 ~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls------~~~lm~~~Ge~GDt~qF~eyi~~Ni~LY   67 (200)
T KOG0177|consen    3 TLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLS------DHILMATVGEAGDTVQFTEYIQKNIQLY   67 (200)
T ss_pred             eEEEeecCCEEEEeecchhhcceEEecccccceEEec------cceeeeeecCCCceehHHHHHHhhhhHH
Confidence            57999999999999998776666655 4568999999      9999999999999998876665544444

>KOG0174|consensus

Probab=94.83  E-value=0.013  Score=41.79  Aligned_cols=68  Identities=18%  Similarity=0.183  Sum_probs=57.3

Q ss_pred             HHhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhccc
Q psy6595          13 AISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNK   86 (108)
Q Consensus        13 av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~   86 (108)
                      -+.-|.|.++++.++|||+.++.+......+.+ -..||-||.      +++.+|-+|-..|...+++..+-.-.
T Consensus        15 evstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~it------D~i~cCRSGSAADtQaiaD~~~Y~L~   83 (224)
T KOG0174|consen   15 EVSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPIT------DNIYCCRSGSAADTQAIADIVRYHLE   83 (224)
T ss_pred             ccccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceecc------ccEEEecCCchhhHHHHHHHHHHHHH
Confidence            467899999999999999999988766655554 457999999      99999999999999999988775433

>KOG0173|consensus

Probab=94.81  E-value=0.02  Score=42.17  Aligned_cols=47  Identities=23%  Similarity=0.376  Sum_probs=40.9

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +.+.+.++...+||++++...|.+..-...+.+.+||+.|.++|+|.
T Consensus        35 kTGTtIvgv~~k~gvIlgADtRaT~G~IvaDKnC~KIH~ia~~Iycc   81 (271)
T KOG0173|consen   35 KTGTTIVGVIFKDGVILGADTRATEGPIVADKNCEKIHFIAPNIYCC   81 (271)
T ss_pred             ccCcEEEEEEeCCeEEEeecccccCCCeeecchhHHHhhcccceEEc
Confidence            77778889999999999999998876666667779999999999974

>KOG0174|consensus

Probab=93.14  E-value=0.086  Score=37.66  Aligned_cols=48  Identities=17%  Similarity=0.325  Sum_probs=42.3

Q ss_pred             hcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          60 ISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        60 v~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +..+.+.++....||+||...-|.+...+..+....|+-+|+|+|+|-
T Consensus        16 vstGTTImAv~y~gGVvlGaDSRTs~GayvanRvtDKlT~itD~i~cC   63 (224)
T KOG0174|consen   16 VSTGTTIMAVEYDGGVVLGADSRTSTGAYVANRVTDKLTPITDNIYCC   63 (224)
T ss_pred             cccCceEEEEEEcCcEEEeccCCccchHHHHhhhcccceeccccEEEe
Confidence            467789999999999999999999888888777778999999999873

>KOG0185|consensus

Probab=92.99  E-value=0.095  Score=38.34  Aligned_cols=57  Identities=14%  Similarity=0.160  Sum_probs=46.7

Q ss_pred             ccCcEEEEeeCCeEEEEEeecc-cccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeeh
Q psy6595          16 HAGTCLGILAQDGILLAAEKRL-NQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLA   78 (108)
Q Consensus        16 ~g~~~vgi~~~~gvvl~~~k~~-~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~   78 (108)
                      -|++++++|.+|||+++++..- =-++.-|..-.|++.+.      ++.-...+|-.+|...|-
T Consensus        40 TGTSVla~ky~~GVviaaD~lgSYGslaR~~nVeRi~kVg------dntllG~sGdisD~Q~i~   97 (256)
T KOG0185|consen   40 TGTSVLALKYKDGVVIAADTLGSYGSLARYKNVERIFKVG------DNTLLGASGDISDFQYIQ   97 (256)
T ss_pred             ccceEEEEEecCceEEEecccccchhhhhhcCceeeEEec------CceEEecCccHHHHHHHH
Confidence            4788999999999999998742 24455677889999999      999899999888877554

>KOG0180|consensus

Probab=92.52  E-value=0.12  Score=36.31  Aligned_cols=46  Identities=20%  Similarity=0.325  Sum_probs=36.0

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeE
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNI  106 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~  106 (108)
                      -+|+++++...+|++.+++.+|.......-....+|||.+++++.+
T Consensus         6 ynGg~vvAM~gk~cvaIa~D~RlG~q~~tistdf~ki~~igdr~y~   51 (204)
T KOG0180|consen    6 YNGGSVVAMAGKNCVAIASDLRLGVQSQTISTDFQKIFKIGDRLYL   51 (204)
T ss_pred             ecCceEEEEeCCceEEEEeccccceeeeeeeccchhheecCCeeEE
Confidence            3688999999999999999999754443322235999999999875

>KOG0177|consensus

Probab=90.78  E-value=0.32  Score=34.55  Aligned_cols=44  Identities=30%  Similarity=0.399  Sum_probs=32.9

Q ss_pred             eeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        65 ~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +.+|++++|.+++++..........-+...+|++.+++|+-|++
T Consensus         3 ~llGIkg~dfvilAsDt~~~~si~~~k~~~dK~~~ls~~~lm~~   46 (200)
T KOG0177|consen    3 TLLGIKGPDFVILASDTSAARSILVLKDDHDKIHRLSDHILMAT   46 (200)
T ss_pred             eEEEeecCCEEEEeecchhhcceEEecccccceEEeccceeeee
Confidence            67899999999999877654333332223489999999998864

>KOG0175|consensus

Probab=84.18  E-value=1.2  Score=33.19  Aligned_cols=64  Identities=19%  Similarity=0.224  Sum_probs=50.9

Q ss_pred             HhccCcEEEEeeCCeEEEEEeecccccccccCc-cCCeeeehhHHHhhcccceeeeEeeCCee----eehhhhhh
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFLPH-MSRLYQVEYAMEAISHAGTCLGILAQDGI----LLAAEKRN   83 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~-~gki~qieya~~av~~~~~~v~~~~~D~~----vl~~~~r~   83 (108)
                      ..+|+|+++-+.+.||+++++.+-...-.+-+. ..|+..|+      ...--+.+|-..|+.    +|+.+.|.
T Consensus        68 ~~hGTTTLAF~f~~GvivAvDSRAs~G~YIasqtv~KVIeIn------~ylLGTmAGgAADCqfWer~L~kecRL  136 (285)
T KOG0175|consen   68 FAHGTTTLAFKFKGGVIVAVDSRASAGSYIASQTVKKVIEIN------PYLLGTMAGGAADCQFWERVLAKECRL  136 (285)
T ss_pred             ecCCceEEEEEecCcEEEEEeccccccceeechhhceeeeec------hhhhhcccCcchhhHHHHHHHHHHHHH
Confidence            468999999999999999999887766666653 58999999      777777888888975    66655553

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	108
3unb_B	261	Mouse Constitutive 20s Proteasome In Complex With P		9e-20
1iru_C	261	Crystal Structure Of The Mammalian 20s Proteasome A		1e-19
1ryp_C	244	Crystal Structure Of The 20s Proteasome From Yeast		8e-17
1z7q_C	258	Crystal Structure Of The 20s Proteasome From Yeast		8e-17
1g0u_B	245	A Gated Channel Into The Proteasome Core Particle L		9e-17
3oeu_B	235	Structure Of Yeast 20s Open-Gate Proteasome With Co		1e-16
1vsy_C	232	Proteasome Activator Complex Length = 232		2e-16
1j2q_A	237	20s Proteasome In Complex With Calpain-inhibitor I		8e-09
1j2p_A	246	Alpha-Ring From The Proteasome From Archaeoglobus F		1e-08
3h4p_A	264	Proteasome 20s Core Particle From Methanocaldococcu		3e-08
3unb_D	241	Mouse Constitutive 20s Proteasome In Complex With P		4e-07
2z5c_C	262	Crystal Structure Of A Novel Chaperone Complex For		5e-07
4g4s_E	261	Structure Of Proteasome-Pba1-Pba2 Complex Length =		5e-07
1fnt_E	260	Crystal Structure Of The 20s Proteasome From Yeast		5e-07
1vsy_E	250	Proteasome Activator Complex Length = 250		5e-07
1ryp_E	242	Crystal Structure Of The 20s Proteasome From Yeast		5e-07
1g0u_D	241	A Gated Channel Into The Proteasome Core Particle L		5e-07
3unb_F	255	Mouse Constitutive 20s Proteasome In Complex With P		1e-06
1iru_G	254	Crystal Structure Of The Mammalian 20s Proteasome A		1e-06
1iru_E	241	Crystal Structure Of The Mammalian 20s Proteasome A		2e-06
3une_C	248	Mouse Constitutive 20s Proteasome Length = 248		6e-06
1iru_D	248	Crystal Structure Of The Mammalian 20s Proteasome A		6e-06
2ku2_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		9e-06
2ku1_A	237	Dynamic Regulation Of Archaeal Proteasome Gate Open		9e-06
1yau_A	233	Structure Of Archeabacterial 20s Proteasome- Pa26 C		9e-06
1yar_A	233	Structure Of Archeabacterial 20s Proteasome Mutant		1e-05
1pma_A	233	Proteasome From Thermoplasma Acidophilum Length = 2		1e-05
3jrm_A	227	Crystal Structure Of Archaeal 20s Proteasome In Com		1e-05
3unb_G	246	Mouse Constitutive 20s Proteasome In Complex With P		2e-05
1fnt_D	254	Crystal Structure Of The 20s Proteasome From Yeast		3e-05
1vsy_D	227	Proteasome Activator Complex Length = 227		3e-05
3unb_C	248	Mouse Constitutive 20s Proteasome In Complex With P		3e-05
1ryp_D	241	Crystal Structure Of The 20s Proteasome From Yeast		3e-05
1g0u_C	243	A Gated Channel Into The Proteasome Core Particle L		3e-05
1iru_A	246	Crystal Structure Of The Mammalian 20s Proteasome A		5e-05
1fnt_G	287	Crystal Structure Of The 20s Proteasome From Yeast		7e-05
1z7q_G	288	Crystal Structure Of The 20s Proteasome From Yeast		7e-05
1g0u_F	248	A Gated Channel Into The Proteasome Core Particle L		8e-05
1ryp_G	244	Crystal Structure Of The 20s Proteasome From Yeast		8e-05
3oeu_F	242	Structure Of Yeast 20s Open-Gate Proteasome With Co		8e-05
3unb_A	234	Mouse Constitutive 20s Proteasome In Complex With P		2e-04
1iru_B	233	Crystal Structure Of The Mammalian 20s Proteasome A		2e-04
1ryp_B	250	Crystal Structure Of The 20s Proteasome From Yeast		7e-04

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

Iteration: 1
 Score = 91.7 bits (226), Expect = 9e-20,   Method: Compositional matrix adjust.
 Identities = 44/70 (62%), Positives = 53/70 (75%)
Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   S
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62
Query: 95  EKIYKLHDSL 104
           EKIYKL++ +
Sbjct: 63  EKIYKLNEDM 72

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

Iteration: 1
 Score = 91.7 bits (226), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 44/70 (62%), Positives = 53/70 (75%)
Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   S
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFS 62
Query: 95  EKIYKLHDSL 104
           EKIYKL++ +
Sbjct: 63  EKIYKLNEDM 72

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

Iteration: 1
 Score = 82.0 bits (201), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 36/72 (50%), Positives = 55/72 (76%)
Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYA+E+ISHAGT +GI+A DGI+LAAE++ T+ LL++ T++
Sbjct: 3   RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST 62
Query: 95  EKIYKLHDSLNI 106
           EK+YKL+D + +
Sbjct: 63  EKLYKLNDKIAV 74

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

Iteration: 1
 Score = 82.0 bits (201), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 36/72 (50%), Positives = 55/72 (76%)
Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYA+E+ISHAGT +GI+A DGI+LAAE++ T+ LL++ T++
Sbjct: 4   RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST 63
Query: 95  EKIYKLHDSLNI 106
           EK+YKL+D + +
Sbjct: 64  EKLYKLNDKIAV 75

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

Iteration: 1
 Score = 82.0 bits (201), Expect = 9e-17,   Method: Compositional matrix adjust.
 Identities = 36/72 (50%), Positives = 55/72 (76%)
Query: 35  KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTS 94
           +R +   +      RLYQVEYA+E+ISHAGT +GI+A DGI+LAAE++ T+ LL++ T++
Sbjct: 4   RRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST 63
Query: 95  EKIYKLHDSLNI 106
           EK+YKL+D + +
Sbjct: 64  EKLYKLNDKIAV 75

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

Iteration: 1
 Score = 81.6 bits (200), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 37/64 (57%), Positives = 53/64 (82%), Gaps = 1/64 (1%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RLYQVEYA+E+ISHAGT +GI+A DGI+LAAE++ T+ LL++ T++EK+YKL+D
Sbjct: 3   FSPE-GRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLND 61
Query: 103 SLNI 106
            + +
Sbjct: 62  KIAV 65

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

Iteration: 1
 Score = 80.5 bits (197), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 35/58 (60%), Positives = 51/58 (87%)
Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNI 106
           RLYQVEYA+E+ISHAGT +GI+A DGI+LAAE++ T+ LL++ T++EK+YKL+D + +
Sbjct: 5   RLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAV 62

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

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 40/60 (66%), Gaps = 2/60 (3%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RL+QVEYA EA+    T +GI  ++G++L A+KR  +KLL E  T EKIYK+ +
Sbjct: 6   FSPD-GRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLL-EADTIEKIYKIDE 63

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

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 29/62 (46%), Positives = 41/62 (66%), Gaps = 2/62 (3%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RL+QVEYA EA+    T +GI  ++G++L A+KR  +KLL E  T EKIYK+ +
Sbjct: 15  FSPD-GRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLL-EKDTIEKIYKIDE 72
Query: 103 SL 104
            +
Sbjct: 73  HI 74

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

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 27/60 (45%), Positives = 41/60 (68%), Gaps = 2/60 (3%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RLYQVEYA EA+    T +GI  +DG++LA ++R T+KL+ +  + EKI+++ D
Sbjct: 19  FSPE-GRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLV-KIRSIEKIFQIDD 76

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

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 27/59 (45%), Positives = 39/59 (66%), Gaps = 2/59 (3%)
Query: 42  SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           +F P   RL+QVEYA+EAI    T +GI   +G+ LA EKR T+ L+ E ++ EKI ++
Sbjct: 14  TFSPE-GRLFQVEYAIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLM-EPSSIEKIVEI 70

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 39/59 (66%), Gaps = 2/59 (3%)
Query: 42  SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           +F P   RL+QVEY++EAI    T +GI  ++G++L  EKR T+ LL E  + EKI ++
Sbjct: 16  TFSPE-GRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLL-ESDSIEKIVEI 72

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 39/59 (66%), Gaps = 2/59 (3%)
Query: 42  SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           +F P   RL+QVEY++EAI    T +GI  ++G++L  EKR T+ LL E  + EKI ++
Sbjct: 15  TFSPE-GRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLL-ESDSIEKIVEI 71

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 39/59 (66%), Gaps = 2/59 (3%)
Query: 42  SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           +F P   RL+QVEY++EAI    T +GI  ++G++L  EKR T+ LL E  + EKI ++
Sbjct: 14  TFSPE-GRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLL-ESDSIEKIVEI 70

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 39/59 (66%), Gaps = 2/59 (3%)
Query: 42  SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           +F P   RL+QVEY++EAI    T +GI  ++G++L  EKR T+ LL E  + EKI ++
Sbjct: 14  TFSPE-GRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLL-ESDSIEKIVEI 70

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 39/59 (66%), Gaps = 2/59 (3%)
Query: 42  SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           +F P   RL+QVEY++EAI    T +GI  ++G++L  EKR T+ LL E  + EKI ++
Sbjct: 6   TFSPE-GRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLL-ESDSIEKIVEI 62

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

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 39/59 (66%), Gaps = 2/59 (3%)
Query: 42  SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           +F P   RL+QVEY++EAI    T +GI  ++G++L  EKR T+ LL E  + EKI ++
Sbjct: 14  TFSPE-GRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLL-ESDSIEKIVEI 70

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 1/52 (1%)
Query: 42 SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTT 93
          +F P   R++QVEYAM+A+ ++ T +GI  +DG++   EK   +KL +EG+ 
Sbjct: 14 TFSPD-GRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSN 64

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

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 1/52 (1%)
Query: 42 SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTT 93
          +F P   R++QVEYAM+A+ ++ T +GI  +DG++   EK   +KL +EG+ 
Sbjct: 13 TFSPD-GRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSN 63

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

Iteration: 1
 Score = 47.4 bits (111), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 26/59 (44%), Positives = 38/59 (64%), Gaps = 2/59 (3%)
Query: 42  SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           +F P   RL+QVEY +EAI    T +GI   +G+ LA EKR T+ L+ E ++ EKI ++
Sbjct: 14  TFSPE-GRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLM-EPSSIEKIVEI 70

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 23/55 (41%), Positives = 34/55 (61%), Gaps = 1/55 (1%)
Query: 50  LYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           L+QVEYA EA+    T +G+  +D ++L  EK++  KL DE T   KI  L D++
Sbjct: 16  LFQVEYAQEAVKKGSTAVGVRGKDIVVLGVEKKSVAKLQDERTV-RKICALDDNV 69

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

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 23/55 (41%), Positives = 34/55 (61%), Gaps = 1/55 (1%)
Query: 50  LYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           L+QVEYA EA+    T +G+  +D ++L  EK++  KL DE T   KI  L D++
Sbjct: 16  LFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTV-RKICALDDNV 69

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 41/66 (62%), Gaps = 2/66 (3%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RL+QVEYA EA+    T LG+   +G+LL ++K+  ++L+++ +  EKI  + D
Sbjct: 19  FSPD-GRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDD 76
Query: 103 SLNIIT 108
            +  +T
Sbjct: 77  YVAAVT 82

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 41/66 (62%), Gaps = 2/66 (3%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RL+QVEYA EA+    T LG+   +G+LL ++K+  ++L+++ +  EKI  + D
Sbjct: 19  FSPD-GRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDD 76
Query: 103 SLNIIT 108
            +  +T
Sbjct: 77  YVAAVT 82

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 9e-06,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 41/66 (62%), Gaps = 2/66 (3%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RL+QVEYA EA+    T LG+   +G+LL ++K+  ++L+++ +  EKI  + D
Sbjct: 15  FSPD-GRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDD 72
Query: 103 SLNIIT 108
            +  +T
Sbjct: 73  YVAAVT 78

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 41/66 (62%), Gaps = 2/66 (3%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RL+QVEYA EA+    T LG+   +G+LL ++K+  ++L+++ +  EKI  + D
Sbjct: 15  FSPD-GRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDD 72
Query: 103 SLNIIT 108
            +  +T
Sbjct: 73  YVAAVT 78

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 41/66 (62%), Gaps = 2/66 (3%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RL+QVEYA EA+    T LG+   +G+LL ++K+  ++L+++ +  EKI  + D
Sbjct: 15  FSPD-GRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDD 72
Query: 103 SLNIIT 108
            +  +T
Sbjct: 73  YVAAVT 78

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

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 24/66 (36%), Positives = 41/66 (62%), Gaps = 2/66 (3%)
Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RL+QVEYA EA+    T LG+   +G+LL ++K+  ++L+++ +  EKI  + D
Sbjct: 9   FSPD-GRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDD 66
Query: 103 SLNIIT 108
            +  +T
Sbjct: 67  YVAAVT 72

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

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 23/66 (34%), Positives = 40/66 (60%), Gaps = 3/66 (4%)
Query: 43  FLPHMSRLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLH 101
           F P   RLYQVEYA +AI+  G T + +  +D  ++  +K+  +KLLD  T +  ++K+ 
Sbjct: 16  FSPE-GRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTH-LFKIT 73
Query: 102 DSLNII 107
           +S+  +
Sbjct: 74  ESIGCV 79

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 2/52 (3%)
Query: 50  LYQVEYAMEAISHAGTC-LGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           ++QVEYA+EA+   GTC +G+  ++ ++L  E+R+T KL D   T  K+ K+
Sbjct: 17  IFQVEYALEAVKR-GTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKI 67

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 2/52 (3%)
Query: 50  LYQVEYAMEAISHAGTC-LGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           ++QVEYA+EA+   GTC +G+  ++ ++L  E+R+T KL D   T  K+ K+
Sbjct: 1   IFQVEYALEAVKR-GTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKI 51

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 1/55 (1%)
Query: 50  LYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           L+QVEYA EA+    T +G+  +D ++L   K++  KL DE T   KI  L D++
Sbjct: 16  LFQVEYAQEAVKKGSTAVGVRGKDIVVLGVAKKSVAKLQDERTV-RKICALDDNV 69

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 2/52 (3%)
Query: 50  LYQVEYAMEAISHAGTC-LGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           ++QVEYA+EA+   GTC +G+  ++ ++L  E+R+T KL D   T  K+ K+
Sbjct: 15  IFQVEYALEAVKR-GTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKI 65

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

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/52 (40%), Positives = 35/52 (67%), Gaps = 2/52 (3%)
Query: 50  LYQVEYAMEAISHAGTC-LGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
           ++QVEYA+EA+   GTC +G+  ++ ++L  E+R+T KL D   T  K+ K+
Sbjct: 17  IFQVEYALEAVKR-GTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKI 67

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

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 22/66 (33%), Positives = 40/66 (60%), Gaps = 3/66 (4%)
Query: 43  FLPHMSRLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLH 101
           F P   RLYQVEYA +AI+  G T + +  +D  ++  +K+  +KLLD  T +  ++K+ 
Sbjct: 16  FSPE-GRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTH-LFKIT 73
Query: 102 DSLNII 107
           +++  +
Sbjct: 74  ENIGCV 79

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 12/97 (12%)
Query: 3   RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
           R +QVEYA++A+ +  T +GI   DG++ A EK +      +P  +   QV        H
Sbjct: 19  RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKL-LVPQKNVKIQV-----VDRH 72
Query: 63  AGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYK 99
            G     L  DG  L       N+  +E  + +K+YK
Sbjct: 73  IGCVYSGLIPDGRHL------VNRGREEAASFKKLYK 103

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 12/97 (12%)
Query: 3   RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
           R +QVEYA++A+ +  T +GI   DG++ A EK +      +P  +   QV        H
Sbjct: 20  RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKL-LVPQKNVKIQV-----VDRH 73
Query: 63  AGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYK 99
            G     L  DG  L       N+  +E  + +K+YK
Sbjct: 74  IGCVYSGLIPDGRHL------VNRGREEAASFKKLYK 104

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 12/97 (12%)
Query: 3   RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
           R +QVEYA++A+ +  T +GI   DG++ A EK +      +P  +   QV        H
Sbjct: 20  RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKL-LVPQKNVKIQV-----VDRH 73
Query: 63  AGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYK 99
            G     L  DG  L       N+  +E  + +K+YK
Sbjct: 74  IGCVYSGLIPDGRHL------VNRGREEAASFKKLYK 104

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

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 12/97 (12%)
Query: 3   RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
           R +QVEYA++A+ +  T +GI   DG++ A EK +      +P  +   QV        H
Sbjct: 16  RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKL-LVPQKNVKIQV-----VDRH 69
Query: 63  AGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYK 99
            G     L  DG  L       N+  +E  + +K+YK
Sbjct: 70  IGCVYSGLIPDGRHL------VNRGREEAASFKKLYK 100

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 29/97 (29%), Positives = 45/97 (46%), Gaps = 12/97 (12%)
Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
          R +QVEYA++A+ +  T +GI   DG++ A EK +      +P  +   QV        H
Sbjct: 14 RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKL-LVPQKNVKIQV-----VDRH 67
Query: 63 AGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYK 99
           G     L  DG  L       N+  +E  + +K+YK
Sbjct: 68 IGCVYSGLIPDGRHL------VNRGREEAASFKKLYK 98

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 31/49 (63%), Gaps = 1/49 (2%)
Query: 42 SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDE 90
          +F P   +L Q+EYA+ A++     +GI A +G++LA EK+  + L DE
Sbjct: 12 TFSPS-GKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDE 59

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

Iteration: 1
 Score = 40.4 bits (93), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 19/49 (38%), Positives = 31/49 (63%), Gaps = 1/49 (2%)
Query: 42 SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDE 90
          +F P   +L Q+EYA+ A++     +GI A +G++LA EK+  + L DE
Sbjct: 11 TFSPS-GKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDE 58

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

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 17/46 (36%), Positives = 31/46 (67%), Gaps = 1/46 (2%)
Query: 42 SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKL 87
          +F P   +L Q++YA+ A+    T LGI A +G+++A EK++++ L
Sbjct: 11 TFSPS-GKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPL 55

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	108
1iru_E	241	20S proteasome; cell cycle, immune response, prote	1e-22
1iru_E	241	20S proteasome; cell cycle, immune response, prote	6e-15
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	3e-22
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	1e-14
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	3e-22
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	1e-14
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	6e-22
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	1e-14
1iru_B	233	20S proteasome; cell cycle, immune response, prote	7e-22
1iru_B	233	20S proteasome; cell cycle, immune response, prote	1e-14
1iru_D	248	20S proteasome; cell cycle, immune response, prote	1e-21
1iru_D	248	20S proteasome; cell cycle, immune response, prote	2e-14
1iru_A	246	20S proteasome; cell cycle, immune response, prote	1e-20
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	1e-20
1iru_C	261	20S proteasome; cell cycle, immune response, prote	1e-20
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	2e-20
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	2e-20
1iru_F	263	20S proteasome; cell cycle, immune response, prote	3e-20
1iru_F	263	20S proteasome; cell cycle, immune response, prote	2e-14
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	2e-19
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	5e-12
1iru_G	254	20S proteasome; cell cycle, immune response, prote	3e-19
1iru_G	254	20S proteasome; cell cycle, immune response, prote	5e-12
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	2e-18
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	2e-12
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	3e-18
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	7e-11
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	5e-18
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	9e-11
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	5e-18
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	9e-11
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	4e-10
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	2e-07
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	3e-09
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	3e-09
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	1e-06
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	2e-08
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	6e-04
1iru_I	234	20S proteasome; cell cycle, immune response, prote	1e-06
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	3e-06
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	4e-06
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	8e-06
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	1e-05
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	3e-05
1iru_M	213	20S proteasome; cell cycle, immune response, prote	3e-05
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	5e-05
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	7e-05
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	7e-05
1iru_J	205	20S proteasome; cell cycle, immune response, prote	2e-04
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	3e-04
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	3e-04
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	5e-04
1iru_N	219	20S proteasome; cell cycle, immune response, prote	5e-04
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	5e-04
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	6e-04
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	7e-04

>1iru_E 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_D* 3une_D 3unf_D* 3unh_D Length = 241

 Score = 86.9 bits (216), Expect = 1e-22
 Identities = 23/54 (42%), Positives = 34/54 (62%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RL+QVEY +EAI    T +GI   +G+ LA EKR T+ L++   + EKI ++  
Sbjct: 20  RLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPS-SIEKIVEIDA 72

>1iru_E 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_D* 3une_D 3unf_D* 3unh_D Length = 241

 Score = 66.8 bits (164), Expect = 6e-15
 Identities = 18/34 (52%), Positives = 23/34 (67%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          RL+QVEY +EAI    T +GI   +G+ LA EKR
Sbjct: 20 RLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKR 53

>1ryp_G 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_F* 1g65_F 1vsy_G 2f16_F* 2fak_F* 2fny_F* 2gpl_F* 3d29_F* 3dy3_F* 3dy4_F* 3e47_F* 3gpj_F* 3gpt_F* 3gpw_F* 3hye_F* 3l5q_L 3mg0_F* 3mg4_F* 3okj_F* 3shj_F* ... Length = 244

 Score = 86.2 bits (214), Expect = 3e-22
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           R +QVEYA++A+ +  T +GI   DG++ A EK  T+KLL     + KI  +  
Sbjct: 16  RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQ-KNVKIQVVDR 68

>1ryp_G 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_F* 1g65_F 1vsy_G 2f16_F* 2fak_F* 2fny_F* 2gpl_F* 3d29_F* 3dy3_F* 3dy4_F* 3e47_F* 3gpj_F* 3gpt_F* 3gpw_F* 3hye_F* 3l5q_L 3mg0_F* 3mg4_F* 3okj_F* 3shj_F* ... Length = 244

 Score = 66.1 bits (162), Expect = 1e-14
 Identities = 15/34 (44%), Positives = 23/34 (67%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          R +QVEYA++A+ +  T +GI   DG++ A EK 
Sbjct: 16 RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKL 49

>1ryp_B 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_B 1g0u_A* 1jd2_A* 1g65_A 1z7q_B 2f16_A* 2fak_A* 2fny_A* 2gpl_A* 2zcy_A* 3bdm_A* 3d29_A* 3dy3_A* 3dy4_A* 3e47_A* 3gpj_A* 3gpt_A* 3gpw_A* 3hye_A* 3mg0_A* ... Length = 250

 Score = 86.1 bits (214), Expect = 3e-22
 Identities = 18/54 (33%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           +L Q++YA+ A+    T LGI A +G+++A EK++++ L     T  K+  L  
Sbjct: 17  KLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSE-TLSKVSLLTP 69

>1ryp_B 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1fnt_B 1g0u_A* 1jd2_A* 1g65_A 1z7q_B 2f16_A* 2fak_A* 2fny_A* 2gpl_A* 2zcy_A* 3bdm_A* 3d29_A* 3dy3_A* 3dy4_A* 3e47_A* 3gpj_A* 3gpt_A* 3gpw_A* 3hye_A* 3mg0_A* ... Length = 250

 Score = 66.1 bits (162), Expect = 1e-14
 Identities = 14/34 (41%), Positives = 24/34 (70%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          +L Q++YA+ A+    T LGI A +G+++A EK+
Sbjct: 17 KLGQIDYALTAVKQGVTSLGIKATNGVVIATEKK 50

>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G* 3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 3bdm_F* 1fnt_G* 2zcy_F* Length = 288

 Score = 85.9 bits (213), Expect = 6e-22
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           R +QVEYA++A+ +  T +GI   DG++ A EK  T+KLL     + KI  +  
Sbjct: 20  RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQ-KNVKIQVVDR 72

>3nzj_F Proteasome component C1; ubiquitin, protein degradation, N-terminal nucleophilic HYDR 19S regulatory particle; HET: TY5 TRO MES; 2.40A {Saccharomyces cerevisiae} PDB: 1z7q_G* 3nzw_F* 3nzx_F* 3un4_F* 3un8_F* 3bdm_F* 1fnt_G* 2zcy_F* Length = 288

 Score = 66.2 bits (162), Expect = 1e-14
 Identities = 15/34 (44%), Positives = 23/34 (67%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          R +QVEYA++A+ +  T +GI   DG++ A EK 
Sbjct: 20 RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKL 53

>1iru_B 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_A* 3une_A 3unf_A* 3unh_A Length = 233

 Score = 84.9 bits (211), Expect = 7e-22
 Identities = 18/54 (33%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           +L Q+EYA+ A++     +GI A +G++LA EK+  + L DE  +  K+  +  
Sbjct: 17  KLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDER-SVHKVEPITK 69

>1iru_B 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_A* 3une_A 3unf_A* 3unh_A Length = 233

 Score = 65.7 bits (161), Expect = 1e-14
 Identities = 14/34 (41%), Positives = 24/34 (70%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          +L Q+EYA+ A++     +GI A +G++LA EK+
Sbjct: 17 KLVQIEYALAAVAGGAPSVGIKAANGVVLATEKK 50

>1iru_D 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unf_C* 3une_C* 3unh_C 3unb_C* Length = 248

 Score = 84.6 bits (210), Expect = 1e-21
 Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
            L+QVEYA EA+    T +G+  +D ++L  EK++  KL DE  T  KI  L D
Sbjct: 15  HLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDER-TVRKICALDD 67

>1iru_D 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unf_C* 3une_C* 3unh_C 3unb_C* Length = 248

 Score = 65.3 bits (160), Expect = 2e-14
 Identities = 14/34 (41%), Positives = 22/34 (64%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
           L+QVEYA EA+    T +G+  +D ++L  EK+
Sbjct: 15 HLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKK 48

>1iru_A 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_G* 3une_G 3unf_G* 3unh_G Length = 246

 Score = 81.9 bits (203), Expect = 1e-20
 Identities = 20/55 (36%), Positives = 34/55 (61%), Gaps = 2/55 (3%)

Query: 49  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA +AI+  G T + +  +D  ++  +K+  +KLLD   T   ++K+ +
Sbjct: 21  RLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSS-TVTHLFKITE 74

>1ryp_D 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_C* 1g65_C 2f16_C* 2fak_C* 2fny_C* 2gpl_C* 3d29_C* 3dy3_C* 3dy4_C* 3e47_C* 3gpj_C* 3gpt_C* 3gpw_C* 3hye_C* 3mg0_C* 3mg4_C* 3oeu_C* 3oev_C* 3okj_C* 3shj_C* ... Length = 241

 Score = 82.0 bits (203), Expect = 1e-20
 Identities = 18/54 (33%), Positives = 32/54 (59%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
            ++QVEYA+EA+      +G+  ++ ++L  E+R+T KL D   T  K+ K+  
Sbjct: 14  HIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDS 67

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

 Score = 82.0 bits (203), Expect = 1e-20
 Identities = 43/54 (79%), Positives = 48/54 (88%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++
Sbjct: 17  RLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNE 70

>1ryp_A 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_G* 1g65_G 1vsy_A 2f16_G* 2fak_G* 2fny_G* 2gpl_G* 3d29_G* 3dy3_G* 3dy4_G* 3e47_G* 3gpj_G* 3gpt_G* 3gpw_G* 3hye_G* 3l5q_A 3mg0_G* 3mg4_G* 3oeu_G* 3oev_G* ... Length = 243

 Score = 81.5 bits (202), Expect = 2e-20
 Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)

Query: 49  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA +A +      L +  +D  ++ ++K+  +KLLD  T    I+ +  
Sbjct: 15  RLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV-SYIFCISR 68

>1ryp_C 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_B* 1g65_B 2f16_B* 2fak_B* 2fny_B* 2gpl_B* 3d29_B* 3dy3_B* 3dy4_B* 3e47_B* 3gpj_B* 3gpt_B* 3gpw_B* 3hye_B* 3mg0_B* 3mg4_B* 3okj_B* 3shj_B* 3tdd_B* 3nzj_B* ... Length = 244

 Score = 81.2 bits (201), Expect = 2e-20
 Identities = 35/54 (64%), Positives = 49/54 (90%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA+E+ISHAGT +GI+A DGI+LAAE++ T+ LL++ T++EK+YKL+D
Sbjct: 17  RLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLND 70

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E Length = 263

 Score = 81.2 bits (201), Expect = 3e-20
 Identities = 16/54 (29%), Positives = 30/54 (55%), Gaps = 3/54 (5%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           R++Q+EYAMEA+      +G+ ++   +L A KR  ++L       +KI  + +
Sbjct: 18  RIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAA---HQKKILHVDN 68

>1iru_F 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_E* 3une_E 3unf_E* 3unh_E Length = 263

 Score = 65.8 bits (161), Expect = 2e-14
 Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 4/52 (7%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQV 53
          R++Q+EYAMEA+      +G+ ++   +L A KR     S L  H  ++  V
Sbjct: 18 RIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQ---SELAAHQKKILHV 66

>1ryp_E 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_D* 1g65_D 2f16_D* 2fak_D* 2fny_D* 2gpl_D* 3d29_D* 3dy3_D* 3dy4_D* 3e47_D* 3gpj_D* 3gpt_D* 3gpw_D* 3hye_D* 3mg0_D* 3mg4_D* 3okj_D* 3shj_D* 3tdd_D* 2z5c_C ... Length = 242

 Score = 78.9 bits (195), Expect = 2e-19
 Identities = 25/60 (41%), Positives = 38/60 (63%), Gaps = 2/60 (3%)

Query: 43  FLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           F P   RL+QVEY++EAI    T +GI  ++G++L  EKR T+ LL+   + EKI ++  
Sbjct: 7   FSPE-GRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESD-SIEKIVEIDR 64

>1ryp_E 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_D* 1g65_D 2f16_D* 2fak_D* 2fny_D* 2gpl_D* 3d29_D* 3dy3_D* 3dy4_D* 3e47_D* 3gpj_D* 3gpt_D* 3gpw_D* 3hye_D* 3mg0_D* 3mg4_D* 3okj_D* 3shj_D* 3tdd_D* 2z5c_C ... Length = 242

 Score = 58.8 bits (143), Expect = 5e-12
 Identities = 17/34 (50%), Positives = 25/34 (73%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          RL+QVEY++EAI    T +GI  ++G++L  EKR
Sbjct: 12 RLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKR 45

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F Length = 254

 Score = 78.5 bits (194), Expect = 3e-19
 Identities = 19/54 (35%), Positives = 38/54 (70%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           R++QVEYAM+A+ ++ T +GI  +DG++   EK   +KL +EG ++++++ +  
Sbjct: 19  RVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEG-SNKRLFNVDR 71

>1iru_G 20S proteasome; cell cycle, immune response, proteolysis, ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4 PDB: 3unb_F* 3une_F 3unf_F* 3unh_F Length = 254

 Score = 58.9 bits (143), Expect = 5e-12
 Identities = 15/34 (44%), Positives = 25/34 (73%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          R++QVEYAM+A+ ++ T +GI  +DG++   EK 
Sbjct: 19 RVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKL 52

>1ryp_F 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_E* 1g65_E 2f16_E* 2fak_E* 2fny_E* 2gpl_E* 3d29_E* 3dy3_E* 3dy4_E* 3e47_E* 3gpj_E* 3gpt_E* 3gpw_E* 3hye_E* 3mg0_E* 3mg4_E* 3oeu_E* 3oev_E* 3okj_E* 3shj_E* ... Length = 233

 Score = 75.7 bits (187), Expect = 2e-18
 Identities = 20/54 (37%), Positives = 30/54 (55%), Gaps = 3/54 (5%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RL+QVEYA+EAI      +G+ +    +L A KRN ++L       +KI K  +
Sbjct: 17  RLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSS---YQKKIIKCDE 67

>1ryp_F 20S proteasome; multicatalytic proteinase, protein degradation, antigen processing, hydrolase, protease; 1.90A {Saccharomyces cerevisiae} SCOP: d.153.1.4 PDB: 1jd2_E* 1g65_E 2f16_E* 2fak_E* 2fny_E* 2gpl_E* 3d29_E* 3dy3_E* 3dy4_E* 3e47_E* 3gpj_E* 3gpt_E* 3gpw_E* 3hye_E* 3mg0_E* 3mg4_E* 3oeu_E* 3oev_E* 3okj_E* 3shj_E* ... Length = 233

 Score = 60.3 bits (147), Expect = 2e-12
 Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 4/52 (7%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQV 53
          RL+QVEYA+EAI      +G+ +    +L A KR       L  +  ++ + 
Sbjct: 17 RLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNA---DELSSYQKKIIKC 65

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A Length = 233

 Score = 75.4 bits (186), Expect = 3e-18
 Identities = 21/54 (38%), Positives = 36/54 (66%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RL+QVEYA EA+    T LG+   +G+LL ++K+  ++L+++  + EKI  + D
Sbjct: 20  RLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQN-SIEKIQLIDD 72

>1yar_A Proteasome alpha subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_A 1pma_A 3c91_A 3c92_A 3ipm_A 2ku1_A 2ku2_A 1yau_A 3jrm_A 3jse_A 3jtl_A Length = 233

 Score = 55.7 bits (135), Expect = 7e-11
 Identities = 16/34 (47%), Positives = 24/34 (70%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          RL+QVEYA EA+    T LG+   +G+LL ++K+
Sbjct: 20 RLFQVEYAREAVKKGSTALGMKFANGVLLISDKK 53

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

 Score = 75.4 bits (186), Expect = 5e-18
 Identities = 25/54 (46%), Positives = 38/54 (70%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA EA+    T +GI  +DG++LA ++R T+KL+    + EKI+++ D
Sbjct: 24  RLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIR-SIEKIFQIDD 76

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

 Score = 55.8 bits (135), Expect = 9e-11
 Identities = 18/34 (52%), Positives = 25/34 (73%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          RLYQVEYA EA+    T +GI  +DG++LA ++R
Sbjct: 24 RLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRR 57

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

 Score = 75.0 bits (185), Expect = 5e-18
 Identities = 26/54 (48%), Positives = 39/54 (72%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RL+QVEYA EA+    T +GI  ++G++L A+KR  +KLL++  T EKIYK+ +
Sbjct: 20  RLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKD-TIEKIYKIDE 72

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

 Score = 55.4 bits (134), Expect = 9e-11
 Identities = 17/34 (50%), Positives = 25/34 (73%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          RL+QVEYA EA+    T +GI  ++G++L A+KR
Sbjct: 20 RLFQVEYAREAVKRGATAIGIKCKEGVILIADKR 53

>3mi0_A Proteasome subunit alpha; enzyme inhibitors, lactones, proteasome endopeptidase comple mycobacterium tuberculosis, hydrolase; HET: SA6; 2.20A {Mycobacterium tuberculosis} PDB: 3h6f_A 3krd_A* 3h6i_A* 3mka_A 2fhh_A* 2fhg_A 3hfa_D 3hf9_A 3mfe_D Length = 248

 Score = 53.8 bits (129), Expect = 4e-10
 Identities = 12/55 (21%), Positives = 24/55 (43%), Gaps = 9/55 (16%)

Query: 49  RLYQ-VEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
            + +  E A + I+ A + + +    G+L  AE            + +KI +L+D
Sbjct: 12  AMRERSELARKGIARAKSVVALAYAGGVLFVAENP--------SRSLQKISELYD 58

>3mi0_A Proteasome subunit alpha; enzyme inhibitors, lactones, proteasome endopeptidase comple mycobacterium tuberculosis, hydrolase; HET: SA6; 2.20A {Mycobacterium tuberculosis} PDB: 3h6f_A 3krd_A* 3h6i_A* 3mka_A 2fhh_A* 2fhg_A 3hfa_D 3hf9_A 3mfe_D Length = 248

 Score = 46.1 bits (109), Expect = 2e-07
 Identities = 8/35 (22%), Positives = 16/35 (45%), Gaps = 1/35 (2%)

Query: 3  RLYQ-VEYAMEAISHAGTCLGILAQDGILLAAEKR 36
           + +  E A + I+ A + + +    G+L  AE  
Sbjct: 12 AMRERSELARKGIARAKSVVALAYAGGVLFVAENP 46

>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 = 51.5 bits (124), Expect = 3e-09
 Identities = 12/40 (30%), Positives = 23/40 (57%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T  G++ +DG++L A+ R TN  +    + EKI+ +   +
Sbjct: 2   TIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKI 41

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A Length = 259

 Score = 51.5 bits (123), Expect = 3e-09
 Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 8/51 (15%)

Query: 52  QVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           + E A + I+   + + +  +DG+L  AE           T   K+ +L+D
Sbjct: 16  RSELARKGIARGRSVVVLTFRDGVLFVAENP--------STALHKVSELYD 58

>1q5q_A Proteasome alpha-type subunit 1; proteasome assembly, Pro-peptide, inter-subunit contacts, RH erythropolis, hydrolase; 2.60A {Rhodococcus erythropolis} SCOP: d.153.1.4 PDB: 2h6j_A 1q5r_A Length = 259

 Score = 43.8 bits (103), Expect = 1e-06
 Identities = 8/31 (25%), Positives = 16/31 (51%)

Query: 6  QVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          + E A + I+   + + +  +DG+L  AE  
Sbjct: 16 RSELARKGIARGRSVVVLTFRDGVLFVAENP 46

>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 = 49.3 bits (118), Expect = 2e-08
 Identities = 13/67 (19%), Positives = 32/67 (47%), Gaps = 3/67 (4%)

Query: 41  FSFLPHM--SRLYQVEYAM-EAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKI 97
            SF  +   + L +  +   +A S   T +G+   +G+++AA+ R+T   +       K+
Sbjct: 4   LSFDNYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKL 63

Query: 98  YKLHDSL 104
           +++   +
Sbjct: 64  HRISPKI 70

>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 = 36.2 bits (84), Expect = 6e-04
 Identities = 8/25 (32%), Positives = 16/25 (64%)

Query: 12 EAISHAGTCLGILAQDGILLAAEKR 36
          +A S   T +G+   +G+++AA+ R
Sbjct: 24 KATSTGTTIVGVKFNNGVVIAADTR 48

>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 = 43.8 bits (104), Expect = 1e-06
 Identities = 11/40 (27%), Positives = 22/40 (55%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T  G++ +DGI+L A+ R T  ++       KI+ +  ++
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNI 41

>1yar_H Proteasome beta subunit; proteasome 20S, PA26 proteasome activator 11S, hydrolase-HYD activator complex; 1.90A {Thermoplasma acidophilum} SCOP: d.153.1.4 PDB: 1ya7_H 1yau_H 3ipm_H 1pma_B 3jrm_H 3c92_H 3c91_H 3jse_H 3jtl_H Length = 217

 Score = 43.0 bits (102), Expect = 3e-06
 Identities = 9/47 (19%), Positives = 23/47 (48%)

Query: 58  EAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           + +    T +GI  +D +++A E+R T +        +K++++    
Sbjct: 3   QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYT 49

>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 = 42.6 bits (101), Expect = 4e-06
 Identities = 8/40 (20%), Positives = 22/40 (55%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T +G+   +G+++AA+ R+T   +       K++++   +
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKI 41

>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 = 41.9 bits (98), Expect = 8e-06
 Identities = 11/53 (20%), Positives = 21/53 (39%)

Query: 52  QVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
               + +   H  T + +  + G+LLA ++R T   L      E +Y   +  
Sbjct: 54  DGMESGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTDEYS 106

>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 = 41.7 bits (98), Expect = 1e-05
 Identities = 13/47 (27%), Positives = 22/47 (46%)

Query: 58  EAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
             I+H  T L    Q GI++A + R T        T +K+ +++  L
Sbjct: 70  IKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFL 116

>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 = 3e-05
 Identities = 12/44 (27%), Positives = 20/44 (45%)

Query: 61  SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            + GT LGI  +D  +LA + RN            K++   D++
Sbjct: 7   DNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNI 50

>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 = 39.9 bits (94), Expect = 3e-05
 Identities = 13/45 (28%), Positives = 21/45 (46%)

Query: 60  ISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           + + GT L I  +D  ++A++ R +         S K YKL D  
Sbjct: 6   VFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKT 50

>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 = 39.1 bits (92), Expect = 5e-05
 Identities = 10/45 (22%), Positives = 24/45 (53%)

Query: 60  ISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           +S   + + +  +DG++L A+ R T         ++K+ ++HD +
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKI 50

>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 = 39.1 bits (91), Expect = 7e-05
 Identities = 10/47 (21%), Positives = 21/47 (44%)

Query: 58  EAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
             + H  T + +    G+++A ++R+T   +  G    K+Y   D  
Sbjct: 52  AQLPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITDDYT 98

>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 = 39.0 bits (91), Expect = 7e-05
 Identities = 11/40 (27%), Positives = 19/40 (47%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T + +  + G+LLA ++R T   L      EK+Y   +  
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYS 41

>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 = 2e-04
 Identities = 9/44 (20%), Positives = 22/44 (50%)

Query: 61  SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            + G  + +  ++ + +AA++R   +     T  +KI+ + D L
Sbjct: 6   YNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRL 49

>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 = 37.4 bits (87), Expect = 3e-04
 Identities = 7/48 (14%), Positives = 21/48 (43%)

Query: 57  MEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            + I    + + +   +G+++AA+   +   L      E++  + D+ 
Sbjct: 35  QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNT 82

>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 = 36.5 bits (85), Expect = 5e-04
 Identities = 7/48 (14%), Positives = 21/48 (43%)

Query: 57  MEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            + I    + + +   +G+++AA+   +   L      E++  + D+ 
Sbjct: 2   QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNT 49

>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 = 36.4 bits (85), Expect = 5e-04
 Identities = 8/47 (17%), Positives = 22/47 (46%)

Query: 58  EAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
             +    + LG+  + G+++AA+   +   L       +I ++++S 
Sbjct: 3   NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNST 49

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

 Score = 36.4 bits (85), Expect = 5e-04
 Identities = 13/40 (32%), Positives = 25/40 (62%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T +G++ +DG+++A EKR T         ++KIY++ D +
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRM 41

>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 = 6e-04
 Identities = 10/40 (25%), Positives = 19/40 (47%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T L    Q GI++A + R T        T +++ +++  L
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFL 41

>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 = 36.0 bits (84), Expect = 7e-04
 Identities = 11/40 (27%), Positives = 18/40 (45%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
             LGI  QD ++LA+ K  T  +     + +K  +L    
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHT 42

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	108
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	99.78
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	99.78
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	99.78
1iru_G	254	20S proteasome; cell cycle, immune response, prote	99.77
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	99.77
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	99.77
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	99.77
1iru_D	248	20S proteasome; cell cycle, immune response, prote	99.76
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	99.76
1iru_B	233	20S proteasome; cell cycle, immune response, prote	99.76
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	99.76
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	99.76
1iru_E	241	20S proteasome; cell cycle, immune response, prote	99.75
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	99.75
1iru_C	261	20S proteasome; cell cycle, immune response, prote	99.75
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	99.75
3h4p_A	264	Proteasome subunit alpha; core particle, cytoplasm	99.74
1ryp_A	243	20S proteasome; multicatalytic proteinase, protein	99.74
1iru_A	246	20S proteasome; cell cycle, immune response, prote	99.74
1iru_B	233	20S proteasome; cell cycle, immune response, prote	99.73
1iru_C	261	20S proteasome; cell cycle, immune response, prote	99.73
3nzj_F	288	Proteasome component C1; ubiquitin, protein degrad	99.73
1j2p_A	246	Alpha-ring, proteasome alpha subunit; hydrolase; 2	99.73
1ryp_D	241	20S proteasome; multicatalytic proteinase, protein	99.73
1yar_A	233	Proteasome alpha subunit; proteasome 20S, PA26 pro	99.73
1iru_E	241	20S proteasome; cell cycle, immune response, prote	99.73
1iru_F	263	20S proteasome; cell cycle, immune response, prote	99.73
1ryp_B	250	20S proteasome; multicatalytic proteinase, protein	99.73
1iru_G	254	20S proteasome; cell cycle, immune response, prote	99.73
1ryp_G	244	20S proteasome; multicatalytic proteinase, protein	99.72
1ryp_C	244	20S proteasome; multicatalytic proteinase, protein	99.72
1iru_D	248	20S proteasome; cell cycle, immune response, prote	99.72
1ryp_F	233	20S proteasome; multicatalytic proteinase, protein	99.7
1ryp_E	242	20S proteasome; multicatalytic proteinase, protein	99.7
1iru_A	246	20S proteasome; cell cycle, immune response, prote	99.69
1iru_F	263	20S proteasome; cell cycle, immune response, prote	99.68
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	99.52
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	99.42
1q5q_A	259	Proteasome alpha-type subunit 1; proteasome assemb	99.14
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	99.03
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	98.96
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	98.95
1iru_N	219	20S proteasome; cell cycle, immune response, prote	98.91
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	98.91
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	98.86
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	98.85
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	98.82
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	98.82
3mi0_A	248	Proteasome subunit alpha; enzyme inhibitors, lacto	98.8
1iru_M	213	20S proteasome; cell cycle, immune response, prote	98.76
1iru_J	205	20S proteasome; cell cycle, immune response, prote	98.72
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	98.65
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	98.63
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	98.54
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	98.53
1iru_H	205	20S proteasome; cell cycle, immune response, prote	98.53
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	98.53
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	98.5
1iru_K	201	20S proteasome; cell cycle, immune response, prote	98.49
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	98.49
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	98.48
1iru_L	204	20S proteasome; cell cycle, immune response, prote	98.47
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	98.46
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	98.45
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	98.44
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	98.38
1q5r_H	294	Proteasome beta-type subunit 1; proteasome assembl	98.38
1iru_I	234	20S proteasome; cell cycle, immune response, prote	98.35
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	98.34
2jay_A	291	Proteasome; hydrolase; 1.99A {Mycobacterium tuberc	98.32
1ryp_H	205	20S proteasome; multicatalytic proteinase, protein	98.3
1iru_N	219	20S proteasome; cell cycle, immune response, prote	98.22
3nzj_H	261	Proteasome component PUP1; ubiquitin, protein degr	98.21
3nzj_K	287	Proteasome component PRE2; ubiquitin, protein degr	98.17
1ryp_N	233	20S proteasome; multicatalytic proteinase, protein	98.15
1yar_H	217	Proteasome beta subunit; proteasome 20S, PA26 prot	98.15
1iru_M	213	20S proteasome; cell cycle, immune response, prote	98.11
1g0u_M	266	Proteasome component PRE4; ubiquitin, degradation,	98.1
1iru_J	205	20S proteasome; cell cycle, immune response, prote	98.1
1ryp_M	222	20S proteasome; multicatalytic proteinase, protein	97.99
3h4p_a	219	Proteasome subunit beta; core particle, cytoplasm,	97.9
1ryp_J	204	20S proteasome; multicatalytic proteinase, protein	97.88
2z3b_A	180	ATP-dependent protease HSLV; N-terminal nucleophIl	97.87
1iru_L	204	20S proteasome; cell cycle, immune response, prote	97.79
1iru_H	205	20S proteasome; cell cycle, immune response, prote	97.77
1ryp_L	212	20S proteasome; multicatalytic proteinase, protein	97.76
1j2q_H	202	Proteasome beta subunit; ubiquitin, CP, hydrolase;	97.75
3unf_H	234	Proteasome subunit beta type-10; antigen presentat	97.74
3unf_N	199	Proteasome subunit beta type-9; antigen presentati	97.72
1ryp_K	198	20S proteasome; multicatalytic proteinase, protein	97.71
1ryp_I	222	20S proteasome; multicatalytic proteinase, protein	97.7
1iru_K	201	20S proteasome; cell cycle, immune response, prote	97.67
1m4y_A	171	ATP-dependent protease HSLV; N-terminal catalytic	97.67
1iru_I	234	20S proteasome; cell cycle, immune response, prote	97.66
1q5q_H	235	Proteasome beta-type subunit 1; proteasome assembl	97.66
1g3k_A	174	ATP-dependent protease HSLV; hydrolase; 1.90A {Hae	97.63

>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=99.78  E-value=9.7e-20  Score=134.31  Aligned_cols=79  Identities=29%  Similarity=0.449  Sum_probs=73.7

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||||||||+|||++|+|+|||+++|||||+++++....+.+.+...||++|+      +++.++++|..+|++.|+..
T Consensus        18 ~Grl~QvEYA~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~~~~KI~~I~------d~i~~~~aG~~aD~~~l~~~   91 (288)
T 3nzj_F           18 DGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVD------RHIGCVYSGLIPDGRHLVNR   91 (288)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCTTCSCCCEEET------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcCCcEEEEEECCEEEEEEcCCcccCCccccccceEEEEc------CCEEEEecCcHHHHHHHHHH
Confidence            499999999999999999999999999999999999999988888889999999      99999999999999999987


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .|...
T Consensus        92 lr~e~   96 (288)
T 3nzj_F           92 GREEA   96 (288)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76543

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

Probab=99.78  E-value=1.1e-19  Score=132.50  Aligned_cols=78  Identities=31%  Similarity=0.569  Sum_probs=71.9

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+|+|||+++|||||+++++...++...+...||++|+      +++.++++|..+|++.|+..
T Consensus        22 ~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~li~~~~~~KI~~i~------d~i~~~~aG~~aD~~~l~~~   95 (264)
T 3h4p_A           22 EGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSIEKIFQID------DHVAAATSGLVADARVLIDR   95 (264)
T ss_dssp             SSSCHHHHHHHHHHHHSCCEEEECCSSEEEEEEECCCCSTTBCTTTCCCEEEEE------TTEEEEEEECSHHHHHHHTT
T ss_pred             CCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEecCccCCccccCccccEEEec------CcEEEEeccchHHHHHHHHH
Confidence            399999999999999999999999999999999999888877777789999999      99999999999999999877


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        96 ~r~~   99 (264)
T 3h4p_A           96 ARLE   99 (264)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>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=99.78  E-value=9.8e-20  Score=130.74  Aligned_cols=79  Identities=20%  Similarity=0.283  Sum_probs=72.6

Q ss_pred             CcchHHHHHHHHHhc-cCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           2 SRLYQVEYAMEAISH-AGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         2 Gr~~qveya~~av~~-g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      |||||||||+||+++ |+++||++++|||||+++++...++...+...||++|+      +++.++.+|..+|.+.|+..
T Consensus        14 Grl~QvEYA~~av~~~Gtt~vgi~~~dgVvlaad~r~~~~l~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~   87 (243)
T 1ryp_A           14 GRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCIS------RTIGMVVNGPIPDARNAALR   87 (243)
T ss_dssp             SCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECS------SSCEEEEESCHHHHHHHHHH
T ss_pred             CeeHHHHHHHHHHhcCCCcEEEEEeCCEEEEEEEecCCccccCCCcCCceEEEC------CCEEEEEEecHHHHHHHHHH
Confidence            999999999999999 99999999999999999999887877767789999999      99999999999999999987


Q ss_pred             hhhccc
Q psy6595          81 KRNTNK   86 (108)
Q Consensus        81 ~r~~~~   86 (108)
                      .|....
T Consensus        88 ~r~~~~   93 (243)
T 1ryp_A           88 AKAEAA   93 (243)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            775433

>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=99.77  E-value=1.8e-19  Score=130.28  Aligned_cols=78  Identities=32%  Similarity=0.488  Sum_probs=72.7

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+|+|||+++|||||+++++....+.+.+...||++|+      +++.++++|..+|.+.|+..
T Consensus        17 ~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~   90 (254)
T 1iru_G           17 DGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVD------RHVGMAVAGLLADARSLADI   90 (254)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCccHHHHhHHHHHhcCCCEEEEEECCEEEEEEecccCCCCcCcCcCCcEEEEC------CCEEEEEecChHHHHHHHHH
Confidence            399999999999999999999999999999999999998888877789999999      99999999999999999877


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        91 ~~~~   94 (254)
T 1iru_G           91 AREE   94 (254)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=99.77  E-value=2.3e-19  Score=129.09  Aligned_cols=78  Identities=29%  Similarity=0.456  Sum_probs=72.8

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||||||||+||+++|+|+|||+++|||||+++++....+.+.+...||++|+      +++.++++|..+|...|+..
T Consensus        14 ~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~   87 (244)
T 1ryp_G           14 DGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVD------RHIGCVYSGLIPDGRHLVNR   87 (244)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEET------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCchHHHHhHHHHHHCCCCEEEEEECCEEEEEEecccCCCCccccccCceEEec------CCEEEEEcccHHHHHHHHHH
Confidence            399999999999999999999999999999999999999988888789999999      99999999999999999877


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        88 ~~~~   91 (244)
T 1ryp_G           88 GREE   91 (244)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6643

>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=99.77  E-value=2.6e-19  Score=128.34  Aligned_cols=78  Identities=28%  Similarity=0.513  Sum_probs=71.8

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+++|||+++|||||+++++....+.+.+...||++|+      +++.++++|..+|...|+..
T Consensus        10 ~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~   83 (242)
T 1ryp_E           10 EGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEID------RHIGCAMSGLTADARSMIEH   83 (242)
T ss_dssp             TSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEE------TTEEEEEEESGGGHHHHHHH
T ss_pred             CCcChHHHhHHHHHHcCCCEEEEEECCEEEEEEeecCCCcCccCccCCceEEEc------CCEEEEEeecHHHHHHHHHH
Confidence            399999999999999999999999999999999999888887766779999999      99999999999999999877


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        84 ~~~~   87 (242)
T 1ryp_E           84 ARTA   87 (242)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6643

>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=99.77  E-value=2.6e-19  Score=128.36  Aligned_cols=77  Identities=23%  Similarity=0.402  Sum_probs=72.0

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      |||||||||+||+++|+|+||++++|||||+++++....+.+.+ ...||++|+      +++.++++|..+|...|...
T Consensus        13 Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~   86 (241)
T 1ryp_D           13 GHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKID------SHVVLSFSGLNADSRILIEK   86 (241)
T ss_dssp             TBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEec------CCEEEEEeecHHHHHHHHHH
Confidence            99999999999999999999999999999999999988888777 679999999      99999999999999999977


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        87 ~~~~   90 (241)
T 1ryp_D           87 ARVE   90 (241)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=99.76  E-value=2.2e-19  Score=129.40  Aligned_cols=78  Identities=22%  Similarity=0.349  Sum_probs=71.7

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+|+||++++|||||+++++....+...+...||++|+      +++.++++|..+|...|+..
T Consensus        13 ~Grl~QvEYA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~   86 (248)
T 1iru_D           13 DGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALD------DNVCMAFAGLTADARIVINR   86 (248)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESS------SSCEEEEEECHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecccccCccCCCCCcEEEEc------CCEEEEEeecHHHHHHHHHH
Confidence            399999999999999999999999999999999999888876666779999999      99999999999999999977


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        87 ~~~~   90 (248)
T 1iru_D           87 ARVE   90 (248)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>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=99.76  E-value=3.7e-19  Score=127.68  Aligned_cols=78  Identities=40%  Similarity=0.623  Sum_probs=72.0

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccc-cCccCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSF-LPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~-~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      -|||||||||+||+++|+++|||+++|||||+++++....+.+ .+...||++|+      +++.++++|..+|...|..
T Consensus        15 ~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~   88 (244)
T 1ryp_C           15 EGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLN------DKIAVAVAGLTADAEILIN   88 (244)
T ss_dssp             TSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESS------SSEEEEEEECHHHHHHHHH
T ss_pred             CCeeHHHHhHHHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCCCcEEEEC------CCEEEEEEEcHHHHHHHHH
Confidence            3999999999999999999999999999999999998888877 66779999999      9999999999999999997


Q ss_pred             hhhhc
Q psy6595          80 EKRNT   84 (108)
Q Consensus        80 ~~r~~   84 (108)
                      ..|..
T Consensus        89 ~~~~~   93 (244)
T 1ryp_C           89 TARIH   93 (244)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77654

>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=99.76  E-value=3.1e-19  Score=127.34  Aligned_cols=78  Identities=24%  Similarity=0.371  Sum_probs=71.6

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+++|||+++|||||+++++...++...+...||++|+      +++.++++|..+|...|...
T Consensus        15 ~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~   88 (233)
T 1iru_B           15 SGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPIT------KHIGLVYSGMGPDYRVLVHR   88 (233)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESS------SSEEEEEEECHHHHHHHHHH
T ss_pred             CCeEehhHhHHHHHHcCCcEEEEEeCCEEEEEEEecCCccccccccCCeEEEEC------CCEEEEEEEccHHHHHHHHH
Confidence            399999999999999999999999999999999999887777767789999999      99999999999999999977


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        89 ~~~~   92 (233)
T 1iru_B           89 ARKL   92 (233)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6653

>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=99.76  E-value=4.1e-19  Score=126.73  Aligned_cols=77  Identities=26%  Similarity=0.413  Sum_probs=71.1

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEK   81 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~   81 (108)
                      |||||||||+||+++|+++|||+++|||||+++++...++...+...||++|+      +++.++.+|..+|...|....
T Consensus        19 Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~   92 (233)
T 1yar_A           19 GRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLID------DYVAAVTSGLVADARVLVDFA   92 (233)
T ss_dssp             SCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEE------TTEEEEEEEBHHHHHHHHHHH
T ss_pred             CeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEeccCCcccccccccCeEEEec------CCEEEEEeeCHHHHHHHHHHH
Confidence            99999999999999999999999999999999999888877666779999999      999999999999999998776


Q ss_pred             hhc
Q psy6595          82 RNT   84 (108)
Q Consensus        82 r~~   84 (108)
                      |..
T Consensus        93 ~~~   95 (233)
T 1yar_A           93 RIS   95 (233)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>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=99.76  E-value=4.9e-19  Score=126.41  Aligned_cols=77  Identities=31%  Similarity=0.460  Sum_probs=70.1

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+|+||++++|||||+++++....+.  .+..||++|+      +++.++++|..+|...|+..
T Consensus        15 ~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~--~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~   86 (233)
T 1ryp_F           15 TGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCD------EHMGLSLAGLAPDARVLSNY   86 (233)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCeehHHHHHHHHHHcCCCEEEEEcCCEEEEEEEeccccccc--cccCcEEEEc------CCEEEEEEechHHHHHHHHH
Confidence            399999999999999999999999999999999998877765  4779999999      99999999999999999977


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .|...
T Consensus        87 ~~~~~   91 (233)
T 1ryp_F           87 LRQQC   91 (233)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76543

>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=99.75  E-value=6.5e-19  Score=126.32  Aligned_cols=76  Identities=32%  Similarity=0.536  Sum_probs=71.0

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEK   81 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~   81 (108)
                      |||||||||+||+++|+++|||+++||||++++++....+.+.+...||++|+      +++.++.+|..+|...|+...
T Consensus        19 Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~   92 (241)
T 1iru_E           19 GRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEID------AHIGCAMSGLIADAKTLIDKA   92 (241)
T ss_dssp             SCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEE------TTEEEEEEECHHHHHHHHHHH
T ss_pred             CccHHHHHHHHHHHcCCcEEEEEcCCEEEEEEecccCCcCcCccccceEEEEc------CCEEEEEeeChHHHHHHHHHH
Confidence            99999999999999999999999999999999999888887766779999999      999999999999999998776


Q ss_pred             hh
Q psy6595          82 RN   83 (108)
Q Consensus        82 r~   83 (108)
                      +.
T Consensus        93 ~~   94 (241)
T 1iru_E           93 RV   94 (241)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

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

Probab=99.75  E-value=5.8e-19  Score=127.00  Aligned_cols=77  Identities=30%  Similarity=0.530  Sum_probs=71.6

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEK   81 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~   81 (108)
                      |||||||||+||+++|+|+|||+++|||||+++++...++...+...||++|+      +++.++++|..+|...|+...
T Consensus        19 Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~~   92 (246)
T 1j2p_A           19 GRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKID------EHICAATSGLVADARVLIDRA   92 (246)
T ss_dssp             SCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECS------SSEEEEEEECHHHHHHHHHHH
T ss_pred             CeehHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCccccccCccCcEEEEC------CCEEEEEeEccHHHHHHHHHH
Confidence            99999999999999999999999999999999999888887767789999999      999999999999999999777


Q ss_pred             hhc
Q psy6595          82 RNT   84 (108)
Q Consensus        82 r~~   84 (108)
                      |..
T Consensus        93 ~~~   95 (246)
T 1j2p_A           93 RIE   95 (246)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            653

>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=99.75  E-value=5.6e-19  Score=128.18  Aligned_cols=77  Identities=45%  Similarity=0.675  Sum_probs=71.7

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCc-cCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPH-MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~-~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      |||||||||+||+++|+|+|||+++|||||+++++....+.+.+. ..||++|+      +++.++++|..+|...|+..
T Consensus        16 Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~   89 (261)
T 1iru_C           16 GRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLN------EDMACSVAGITSDANVLTNE   89 (261)
T ss_dssp             SCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECS------SSEEEEEEECHHHHHHHHHH
T ss_pred             CeehHHHhHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEec------CCEEEEEeEcHHHHHHHHHH
Confidence            999999999999999999999999999999999999888888776 79999999      99999999999999999877


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        90 ~~~~   93 (261)
T 1iru_C           90 LRLI   93 (261)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6643

>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=99.75  E-value=8.7e-19  Score=126.34  Aligned_cols=78  Identities=24%  Similarity=0.421  Sum_probs=71.1

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+++||++++|||||+++++...++...+...||++|+      +++.++++|..+|...|...
T Consensus        15 ~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~   88 (250)
T 1ryp_B           15 SGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLT------PDIGAVYSGMGPDYRVLVDK   88 (250)
T ss_dssp             TSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCccHHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCCccccCcccCceEEEC------CCEEEEeeeCHHHHHHHHHH
Confidence            399999999999999999999999999999999999877776667789999999      99999999999999999877


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        89 ~~~~   92 (250)
T 1ryp_B           89 SRKV   92 (250)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6643

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

Probab=99.74  E-value=6.3e-19  Score=128.41  Aligned_cols=75  Identities=35%  Similarity=0.593  Sum_probs=62.9

Q ss_pred             EeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          33 AEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        33 ~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ....||+.+++|||+|||||+|||++|++++++++|++.+||+||+..+|.++++...++. +||+.|++|++|++
T Consensus         8 ~~~~yd~~~t~fSp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~~li~~~~~-~KI~~i~d~i~~~~   82 (264)
T 3h4p_A            8 PPSAYDRAITVFSPEGRLYQVEYAREAVRRGTTAIGIACKDGVVLAVDRRITSKLVKIRSI-EKIFQIDDHVAAAT   82 (264)
T ss_dssp             --------CCCCCSSSSCHHHHHHHHHHHHSCCEEEECCSSEEEEEEECCCCSTTBCTTTC-CCEEEEETTEEEEE
T ss_pred             CccccCCCcceECCCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEecCccCCccccCcc-ccEEEecCcEEEEe
Confidence            3457999999999999999999999999999999999999999999999998888776666 99999999999863

>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=99.74  E-value=7.1e-19  Score=126.24  Aligned_cols=72  Identities=25%  Similarity=0.464  Sum_probs=67.5

Q ss_pred             cccccccccCccCCeeeehhHHHhhcc-cceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISH-AGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~-~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .||+.+++|||+|||||+|||+||+++ +++++|++.+||+||+.++|.+.++...++. +||+.|++|++|++
T Consensus         2 ~yd~~~t~fsp~Grl~QvEYA~~av~~~Gtt~vgi~~~dgVvlaad~r~~~~l~~~~~~-~Ki~~i~~~i~~~~   74 (243)
T 1ryp_A            2 GYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV-SYIFCISRTIGMVV   74 (243)
T ss_dssp             GGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGC-CSEEECSSSCEEEE
T ss_pred             CCCCCCceECCCCeeHHHHHHHHHHhcCCCcEEEEEeCCEEEEEEEecCCccccCCCcC-CceEEECCCEEEEE
Confidence            589999999999999999999999999 9999999999999999999988888887766 99999999999863

>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=99.74  E-value=1.1e-18  Score=125.40  Aligned_cols=77  Identities=22%  Similarity=0.387  Sum_probs=71.3

Q ss_pred             CcchHHHHHHHHHhc-cCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           2 SRLYQVEYAMEAISH-AGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         2 Gr~~qveya~~av~~-g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      |||||||||+||+++ |+|+||++++|||||+++++...++...+...||++|+      +++.++++|..+|...|+..
T Consensus        20 Grl~QvEya~~av~~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~   93 (246)
T 1iru_A           20 GRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKIT------ENIGCVMTGMTADSRSQVQR   93 (246)
T ss_dssp             SCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESS------SSCEEEEEECHHHHHHHHHH
T ss_pred             CeehHHHHHHHHHhcCCCCEEEEEeCCEEEEEEeecCCCcccCCCccCceEEEC------CCEEEEEeccHHHHHHHHHH
Confidence            999999999999999 99999999999999999998877777767789999999      99999999999999999977


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        94 ~~~~   97 (246)
T 1iru_A           94 ARYE   97 (246)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>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=99.73  E-value=1.1e-18  Score=124.43  Aligned_cols=74  Identities=26%  Similarity=0.490  Sum_probs=68.4

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ...||+.+++|||+||+||+|||++|++++++++|++.+||++|+.++|.++++...++. +||+.|++|+++++
T Consensus         2 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~-~Ki~~i~~~i~~~~   75 (233)
T 1iru_B            2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSV-HKVEPITKHIGLVY   75 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTC-CSSEESSSSEEEEE
T ss_pred             CCCccCCceeECCCCeEehhHhHHHHHHcCCcEEEEEeCCEEEEEEEecCCccccccccC-CeEEEECCCEEEEE
Confidence            357999999999999999999999999999999999999999999999988888777666 99999999999863

>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=99.73  E-value=1.5e-18  Score=125.95  Aligned_cols=74  Identities=59%  Similarity=0.890  Sum_probs=69.1

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +.||+.+++|||+|||||+|||++|++++++++|++.+||+||+.++|.++.+++.....+||+.|++|+++++
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~g~~~~~~~~~KI~~i~~~i~~~~   76 (261)
T 1iru_C            3 RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSV   76 (261)
T ss_dssp             TTTCCCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEEE
T ss_pred             CccCCCCccCCCCCeehHHHhHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCCCCccEEEecCCEEEEE
Confidence            47999999999999999999999999999999999999999999999999999988763499999999999863

>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=99.73  E-value=1.5e-18  Score=127.96  Aligned_cols=73  Identities=30%  Similarity=0.408  Sum_probs=69.1

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ..|++.+++|||+||+||+|||++|++++++++|++.+||+||+.++|.++++++.++. +||+.|++||+|++
T Consensus         6 ~~yd~~~t~fSP~Grl~QvEYA~kAv~~GtT~Vgik~kdGVVlAaD~r~t~gl~~~~~~-~KI~~I~d~i~~~~   78 (288)
T 3nzj_F            6 TGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKN-VKIQVVDRHIGCVY   78 (288)
T ss_dssp             CCTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEEECCTTBCTTCS-CCCEEETTTEEEEE
T ss_pred             CCccCCcccCCCCCchHHHHHHHHHHhcCCcEEEEEECCEEEEEEcCCcccCCcccccc-ceEEEEcCCEEEEe
Confidence            46999999999999999999999999999999999999999999999999999988776 99999999999863

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

Probab=99.73  E-value=1.3e-18  Score=125.10  Aligned_cols=76  Identities=36%  Similarity=0.604  Sum_probs=68.8

Q ss_pred             EEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          32 AAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        32 ~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ++...||+.+++|||+|||||+|||++|++++++++|++.+||++|+.++|.+.++.+.++. +||+.|++|+++++
T Consensus         3 ~~~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~-~KI~~i~~~i~~~~   78 (246)
T 1j2p_A            3 LPQMGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTI-EKIYKIDEHICAAT   78 (246)
T ss_dssp             -CCTTSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGC-CSEEECSSSEEEEE
T ss_pred             ccccCcCCCCceECCCCeehHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCccccccCcc-CcEEEECCCEEEEE
Confidence            34458999999999999999999999999999999999999999999999998888776655 99999999999863

>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=99.73  E-value=1.9e-18  Score=123.90  Aligned_cols=73  Identities=26%  Similarity=0.461  Sum_probs=67.4

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .||+.+++|||+||+||+|||++|++++++++|++.+||+||+.++|.+..+++.+...+||+.|++|+++++
T Consensus         1 ~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~   73 (241)
T 1ryp_D            1 GYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSF   73 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEEE
T ss_pred             CCCCCceeECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeeccCccCccccCCcCcEEEecCCEEEEE
Confidence            4899999999999999999999999999999999999999999999999999887623399999999999863

>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=99.73  E-value=1.9e-18  Score=123.29  Aligned_cols=73  Identities=29%  Similarity=0.533  Sum_probs=61.5

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ...||+.+++|||+||+||+|||++|++++++++|++.+||++|+.++|.++++...++. +||+.|++|++++
T Consensus         5 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~~~~~~~~-~Ki~~i~~~i~~~   77 (233)
T 1yar_A            5 QMAYSRAITVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAV   77 (233)
T ss_dssp             --------CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTC-CSEEEEETTEEEE
T ss_pred             cccCCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEECCEEEEEEeccCCccccccccc-CeEEEecCCEEEE
Confidence            357999999999999999999999999999999999999999999999998888776666 9999999999986

>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=99.73  E-value=2.4e-18  Score=123.39  Aligned_cols=74  Identities=31%  Similarity=0.518  Sum_probs=66.8

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ...||+.+++|||+||+||+|||++|++++++++|++.+||+||+.++|.++.+.+.++. +||+.|++|+++++
T Consensus         5 ~~~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~-~Ki~~i~~~i~~~~   78 (241)
T 1iru_E            5 RSEYDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSI-EKIVEIDAHIGCAM   78 (241)
T ss_dssp             ---CCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSC-CSEEEEETTEEEEE
T ss_pred             cCCCCCCCceECCCCccHHHHHHHHHHHcCCcEEEEEcCCEEEEEEecccCCcCcCcccc-ceEEEEcCCEEEEE
Confidence            357999999999999999999999999999999999999999999999999998885555 99999999999863

>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=99.73  E-value=2.2e-18  Score=125.34  Aligned_cols=76  Identities=29%  Similarity=0.496  Sum_probs=69.7

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||||||||+||+++|+|+|||+++|||||+++++....+.  .+..||++|+      +++.++++|..+|.+.|+..
T Consensus        16 ~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl~--~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~   87 (263)
T 1iru_F           16 QGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA--AHQKKILHVD------NHIGISIAGLTADARLLCNF   87 (263)
T ss_dssp             TSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEecccccccc--cchhcEEEEc------CCEEEEEeCCHHHHHHHHHH
Confidence            399999999999999999999999999999999999887764  4679999999      99999999999999999977


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        88 ~~~~   91 (263)
T 1iru_F           88 MRQE   91 (263)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7654

>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=99.73  E-value=1.9e-18  Score=124.55  Aligned_cols=73  Identities=26%  Similarity=0.425  Sum_probs=67.6

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +.||+.+++|||+||+||+|||++|++++++++|++.+||+||+.++|.+.++...++. +||+.|++|+++++
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~-~Ki~~i~~~i~~~~   75 (250)
T 1ryp_B            3 DRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETL-SKVSLLTPDIGAVY   75 (250)
T ss_dssp             CCCCSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGC-CSSEEEETTEEEEE
T ss_pred             CcccCCceeECCCCccHHHHhHHHHHHcCCcEEEEEECCEEEEEEeccCCCccccCccc-CceEEECCCEEEEe
Confidence            47999999999999999999999999999999999999999999999988888776665 99999999999863

>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=99.73  E-value=2.1e-18  Score=124.71  Aligned_cols=73  Identities=27%  Similarity=0.545  Sum_probs=68.5

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ..||+.+++|||+|||||+|||++|++++++++|++.+||+||+.++|.++.+++.++. +||+.|++|+++++
T Consensus         5 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~-~KI~~i~~~i~~~~   77 (254)
T 1iru_G            5 TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSN-KRLFNVDRHVGMAV   77 (254)
T ss_dssp             SSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTT-CCEEEEETTEEEEE
T ss_pred             cccCCCCccCCcCCccHHHHhHHHHHhcCCCEEEEEECCEEEEEEecccCCCCcCcCcC-CcEEEECCCEEEEE
Confidence            46999999999999999999999999999999999999999999999999999987655 99999999999863

>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=99.72  E-value=2.8e-18  Score=123.44  Aligned_cols=72  Identities=31%  Similarity=0.414  Sum_probs=68.4

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .||+.+++|||+||+||+|||++|++++++++|++.+||+||+.++|.++.+++.++. +||+.|++|+++++
T Consensus         3 ~yd~~~t~fsp~Grl~QvEya~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~-~KI~~i~~~i~~~~   74 (244)
T 1ryp_G            3 GYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKN-VKIQVVDRHIGCVY   74 (244)
T ss_dssp             CTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTS-CCCEEETTTEEEEE
T ss_pred             CccCCcccCCcCCchHHHHhHHHHHHCCCCEEEEEECCEEEEEEecccCCCCcccccc-CceEEecCCEEEEE
Confidence            6899999999999999999999999999999999999999999999999999988777 99999999999863

>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=3.4e-18  Score=122.68  Aligned_cols=71  Identities=51%  Similarity=0.852  Sum_probs=67.1

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccc-cCccccceeeeccceeEe
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLD-EGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~-~~~~~~kI~~I~~~ig~~  107 (108)
                      .||+.+++|||+||+||+|||++|++++++++|++.+||+||+.++|.++.+.+ .++. +||+.|++|++++
T Consensus         4 ~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~-~Ki~~i~~~i~~~   75 (244)
T 1ryp_C            4 RYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTST-EKLYKLNDKIAVA   75 (244)
T ss_dssp             GGCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCC-SSEEESSSSEEEE
T ss_pred             ccCCCCceECcCCeeHHHHhHHHHHhcCCcEEEEEeCCEEEEEEeeccCCcCccCCCCC-CcEEEECCCEEEE
Confidence            799999999999999999999999999999999999999999999999999888 5555 9999999999986

>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=99.72  E-value=2.5e-18  Score=123.90  Aligned_cols=71  Identities=32%  Similarity=0.516  Sum_probs=66.4

Q ss_pred             ccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          37 LNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        37 ~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ||+.+++|||+|||||+|||++|++++++++|++.+||+||+.++|.++++...++. +||+.|++|+++++
T Consensus         3 yd~~~t~fsp~Grl~QvEYA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~-~KI~~i~~~i~~~~   73 (248)
T 1iru_D            3 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTV-RKICALDDNVCMAF   73 (248)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGG-CSEEESSSSCEEEE
T ss_pred             ccCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeecccccCccCCCC-CcEEEEcCCEEEEE
Confidence            899999999999999999999999999999999999999999999998888776655 99999999999863

>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=99.70  E-value=5.4e-18  Score=121.00  Aligned_cols=71  Identities=30%  Similarity=0.454  Sum_probs=65.3

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +.||+.+++|||+||+||+|||++|++++++++|++.+||+||+.++|.+.++.+  +. +||+.|++|+++++
T Consensus         3 ~~yd~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~--~~-~Ki~~i~~~i~~~~   73 (233)
T 1ryp_F            3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSS--YQ-KKIIKCDEHMGLSL   73 (233)
T ss_dssp             HHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTBC--CC-CCEEEEETTEEEEE
T ss_pred             CcccCCCccCCCCCeehHHHHHHHHHHcCCCEEEEEcCCEEEEEEEecccccccc--cc-CcEEEEcCCEEEEE
Confidence            3689999999999999999999999999999999999999999999999888764  34 99999999999863

>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=99.70  E-value=7.2e-18  Score=120.84  Aligned_cols=70  Identities=34%  Similarity=0.592  Sum_probs=64.5

Q ss_pred             cccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          38 NQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        38 ~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      |+.+++|||+|||||+|||++|++++++++|++.+||+||+.++|.++.+.+.++. +||+.|++|+++++
T Consensus         1 d~~~t~fsp~Grl~QvEyA~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~-~Ki~~i~~~i~~~~   70 (242)
T 1ryp_E            1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSI-EKIVEIDRHIGCAM   70 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGC-CCEEEEETTEEEEE
T ss_pred             CCCCceECCCCcChHHHhHHHHHHcCCCEEEEEECCEEEEEEeecCCCcCccCccC-CceEEEcCCEEEEE
Confidence            46788999999999999999999999999999999999999999999998885555 99999999999863

>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=99.69  E-value=1.2e-17  Score=120.06  Aligned_cols=72  Identities=26%  Similarity=0.539  Sum_probs=67.4

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcc-cceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISH-AGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~-~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ..||+.+++|||+||+||+|||++|+++ +++++|++.+|+++|+.++|.+.++...++. +||+.|++|++++
T Consensus         7 ~~yd~~~t~fsp~Grl~QvEya~~av~~~Gtt~vgi~~~dgVvlaaD~r~~~~l~~~~~~-~Ki~~i~~~i~~~   79 (246)
T 1iru_A            7 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV-THLFKITENIGCV   79 (246)
T ss_dssp             CTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGC-CSEEESSSSCEEE
T ss_pred             CCcCCCCccCCCCCeehHHHHHHHHHhcCCCCEEEEEeCCEEEEEEeecCCCcccCCCcc-CceEEECCCEEEE
Confidence            5799999999999999999999999999 9999999999999999999988888777666 9999999999986

>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=99.68  E-value=1.8e-17  Score=120.54  Aligned_cols=71  Identities=25%  Similarity=0.448  Sum_probs=65.8

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +.||+.+++|||+|||||+|||++|++++++++|++.+||+||+.++|.+..+.+  +. +||+.|++|+++++
T Consensus         4 ~~yd~~~t~fsP~Grl~QvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r~~~gl~~--~~-~KI~~i~~~i~~~~   74 (263)
T 1iru_F            4 NQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAA--HQ-KKILHVDNHIGISI   74 (263)
T ss_dssp             CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTBC--CC-CCEEEEETTEEEEE
T ss_pred             CCCCCCCccCCCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEeccccccccc--ch-hcEEEEcCCEEEEE
Confidence            5799999999999999999999999999999999999999999999999888754  34 99999999999863

>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=99.52  E-value=4.5e-15  Score=107.65  Aligned_cols=69  Identities=14%  Similarity=0.103  Sum_probs=62.4

Q ss_pred             Ccc-hHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           2 SRL-YQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         2 Gr~-~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      |++ .|||||+||+++|+++|||+++|||||+++++       .+...||++|+      +++.++++|..+|...|+..
T Consensus        11 ~~~~~qvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r-------s~~~~KI~~I~------d~i~~~~aG~~aD~~~l~~~   77 (259)
T 1q5q_A           11 QIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP-------STALHKVSELY------DRLGFAAVGKYNEFENLRRA   77 (259)
T ss_dssp             HHHHHHHHHHHHHHHTSCCEEEEECSSEEEEEECCS-------CSSSCSEEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCcEEEEEeCCEEEEEEecC-------CCCcCcEEEeC------CCEEEEEccCHHHHHHHHHH
Confidence            567 49999999999999999999999999999987       25678999999      99999999999999999985


Q ss_pred             hhh
Q psy6595          81 KRN   83 (108)
Q Consensus        81 ~r~   83 (108)
                      .|.
T Consensus        78 ~~~   80 (259)
T 1q5q_A           78 GIV   80 (259)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            554

>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=99.42  E-value=1e-13  Score=100.16  Aligned_cols=66  Identities=15%  Similarity=0.140  Sum_probs=59.5

Q ss_pred             HHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595           6 QVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus         6 qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      ++|||+||+++|+|+|||+++|||||+++++       .....||++|+      ++++++++|..+|.+.|..+.+..
T Consensus        16 r~EYA~~av~~GtT~vgi~~kdgVVlaadkr-------~~~~~KI~~I~------d~i~~~~aG~~aD~~~l~~~~~~~   81 (248)
T 3mi0_A           16 RSELARKGIARAKSVVALAYAGGVLFVAENP-------SRSLQKISELY------DRVGFAAAGKFNEFDNLRRGGIQF   81 (248)
T ss_dssp             HHHHHHHHHHTSCCEEEEEETTEEEEEEECC-------CSSSCSEEEEE------TTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHhCCCcEEEEEeCCEEEEEEeCC-------CCCCCCeEEEC------CCEEEEEccCHHHHHHHHHHHHHH
Confidence            5899999999999999999999999999987       24678999999      999999999999999887666543

>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=99.14  E-value=1.1e-11  Score=89.77  Aligned_cols=58  Identities=21%  Similarity=0.318  Sum_probs=50.0

Q ss_pred             ccCccCCee-eehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          43 FLPHMSRLY-QVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        43 ~~s~~gki~-qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      -++|++++. |+|||.+|++++++++|++.+||+||+.++|       .++. +||+.|++||+|++
T Consensus         6 ~~sPe~~~~~qvEYA~~av~~Gtt~vgi~~~dgVVlaaD~r-------s~~~-~KI~~I~d~i~~~~   64 (259)
T 1q5q_A            6 YASAEQIMRDRSELARKGIARGRSVVVLTFRDGVLFVAENP-------STAL-HKVSELYDRLGFAA   64 (259)
T ss_dssp             ---CHHHHHHHHHHHHHHHHTSCCEEEEECSSEEEEEECCS-------CSSS-CSEEEEETTEEEEE
T ss_pred             ccCHHHHHHHHHHHHHHHHhcCCcEEEEEeCCEEEEEEecC-------CCCc-CcEEEeCCCEEEEE
Confidence            358999995 9999999999999999999999999999998       1334 89999999999863

>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=99.03  E-value=5.9e-11  Score=87.43  Aligned_cols=71  Identities=14%  Similarity=0.165  Sum_probs=48.7

Q ss_pred             HHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccc-cCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595           7 VEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSF-LPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus         7 veya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~-~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|||++ +++|+|+|||+++|||||+++++.....++ .....||++|+      +++.++++|..+|...|+...|..
T Consensus        48 ~~ya~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~i~------d~i~~~~aG~~aD~~~l~~~lr~~  119 (291)
T 2jay_A           48 AGGDAQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDVRKVYITD------DYTATGIAGTAAVAVEFARLYAVE  119 (291)
T ss_dssp             -----------CCEEEEEETTEEEEEECCC--------CCCCCCEEEEE------TTEEEEEESCHHHHHHHHHHHHHH
T ss_pred             cccccc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCcccEEEeC------CcEEEEEcccHHHHHHHHHHHHHH
Confidence            799999 999999999999999999999987766333 34678999999      999999999999999998766543

>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=98.96  E-value=7.7e-11  Score=86.95  Aligned_cols=69  Identities=17%  Similarity=0.197  Sum_probs=60.3

Q ss_pred             HHHHHhccCcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          10 AMEAISHAGTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        10 a~~av~~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      |+||+++|+|+|||+++|||||+++++... ++...+...||++|+      +++.++++|..+|...|+...+..
T Consensus        58 a~~Av~~GtTiVgIk~kdGVVlAaD~r~t~G~li~~~~~~KI~~I~------~~i~~~~aG~~aD~~~l~~~~r~~  127 (294)
T 1q5r_H           58 SGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDVEAVYVTD------EYSAAGIAGTAGIAIELVRLFAVE  127 (294)
T ss_dssp             --CCSCBCCCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEEEEEBHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCceEEEEEECCEEEEEEcCccccCceeecCCcceEEEEC------CcEEEEEeecHHHHHHHHHHHHHH
Confidence            899999999999999999999999998775 566667789999999      999999999999999998776653

>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=98.95  E-value=9.6e-11  Score=81.70  Aligned_cols=68  Identities=18%  Similarity=0.221  Sum_probs=60.1

Q ss_pred             HHHHhccCcEEEEeeCCeEEEEEeeccccc-ccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          11 MEAISHAGTCLGILAQDGILLAAEKRLNQD-FSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        11 ~~av~~g~~~vgi~~~~gvvl~~~k~~~~~-l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +||+++|+|+||++++||||++++++.... +...+...|+++|+      +++.++++|..+|...|....|..
T Consensus         3 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   71 (205)
T 1ryp_H            3 KGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVH------DKIWCCRSGSAADTQAIADIVQYH   71 (205)
T ss_dssp             TTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEE------TTEEEEEEEBHHHHHHHHHHHHHH
T ss_pred             CCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCcCceEEcC------CCEEEEccCCHHHHHHHHHHHHHH
Confidence            689999999999999999999999988776 44445668999999      999999999999999999777653

>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=98.91  E-value=1.3e-10  Score=81.71  Aligned_cols=69  Identities=14%  Similarity=0.116  Sum_probs=60.4

Q ss_pred             HHHHhccCcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcc
Q psy6595          11 MEAISHAGTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTN   85 (108)
Q Consensus        11 ~~av~~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~   85 (108)
                      +||+++|+|+|||+++|||||+++++... .+...+...||++|+      +++.++++|..+|...|+...|...
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~~   71 (219)
T 1iru_N            2 QNPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVN------NSTMLGASGDYADFQYLKQVLGQMV   71 (219)
T ss_dssp             CSCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEET------TTEEEEEEEEHHHHHHHHHHHHHHH
T ss_pred             CCCccCCceEEEEEeCCEEEEEECCccccCcEEecCCCCceEEeC------CCEEEEeccCHHHHHHHHHHHHHHH
Confidence            46899999999999999999999998765 555556789999999      9999999999999999998777543

>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=98.91  E-value=3.4e-10  Score=82.18  Aligned_cols=69  Identities=17%  Similarity=0.128  Sum_probs=52.9

Q ss_pred             HHHHHhccCcEEEEeeCCeEEEEEeecccccc-cccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          10 AMEAISHAGTCLGILAQDGILLAAEKRLNQDF-SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        10 a~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l-~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .+||+++|+|+||++++|||||+++++..... ...+...||++|+      +++.++.+|..+|...|....+..
T Consensus        22 ~~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~~KI~~I~------d~i~~~~aG~~aD~~~l~~~lr~~   91 (261)
T 3nzj_H           22 QPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRIS------PKIWCAGAGTAADTEAVTQLIGSN   91 (261)
T ss_dssp             --------CCEEEEEETTEEEEEEECCEEETTEEEETTCCCEEEEE------TTEEEEEEESHHHHHHHHHHHHHH
T ss_pred             CCcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCcceEEEEc------CCEEEEeccCHHHHHHHHHHHHHH
Confidence            47999999999999999999999999876643 4445679999999      999999999999999998776643

>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=98.86  E-value=3.1e-10  Score=80.68  Aligned_cols=70  Identities=11%  Similarity=0.106  Sum_probs=60.3

Q ss_pred             HHHHhccCcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhccc
Q psy6595          11 MEAISHAGTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNK   86 (108)
Q Consensus        11 ~~av~~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~   86 (108)
                      +||+++|+++|||+++|||||+++++... .+.......||++|+      +++.++++|..+|...|....|....
T Consensus         2 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~~~~~~~   72 (233)
T 1ryp_N            2 QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVG------DNTVVGISGDISDMQHIERLLKDLVT   72 (233)
T ss_dssp             CCCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEET------TTEEEEEEEEHHHHHHHHHHHHHHHH
T ss_pred             cccccCCceEEEEEECCEEEEEEcCccccCCeeecCCcCceEEeC------CCEEEEccccHHHHHHHHHHHHHHHH
Confidence            46899999999999999999999998765 455555779999999      99999999999999999987775433

>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=98.85  E-value=6.5e-10  Score=78.28  Aligned_cols=67  Identities=21%  Similarity=0.427  Sum_probs=54.7

Q ss_pred             HHHhccCcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          12 EAISHAGTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        12 ~av~~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .++++|+|+||++++||||++++++... ++...+...||++|+      +++.++++|..+|...|....|..
T Consensus         3 ~~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   70 (217)
T 1yar_H            3 QTLETGTTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQID------TYTGMTIAGLVGDAQVLVRYMKAE   70 (217)
T ss_dssp             ------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCCCCccEEEEEeCCEEEEEEcCCCCCCCEEecCccCCeEEeC------CCEEEEeCcCHHHHHHHHHHHHHH
Confidence            4788999999999999999999998776 566667789999999      999999999999999999877754

>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=98.82  E-value=3.3e-10  Score=82.19  Aligned_cols=74  Identities=11%  Similarity=0.095  Sum_probs=61.7

Q ss_pred             HHHHHHHHhccCcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcc
Q psy6595           7 VEYAMEAISHAGTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTN   85 (108)
Q Consensus         7 veya~~av~~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~   85 (108)
                      .+-+++|+++|+|+|||+++|||||+++++... .+.......||++|+      +++.++++|..+|...|+...|...
T Consensus        31 ~~~~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~~KI~~i~------d~i~~~~aG~~aD~~~l~~~lr~~~  104 (266)
T 1g0u_M           31 MVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVG------DNTVVGISGDISDMQHIERLLKDLV  104 (266)
T ss_dssp             ---CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCCCCEEECT------TSEEEEEEEEHHHHHHHHHHHHHHH
T ss_pred             hhhhccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCcCcEEEcC------CCEEEEeccCHHHHHHHHHHHHHHH
Confidence            355678999999999999999999999998765 455556789999999      9999999999999999998777643


Q ss_pred             c
Q psy6595          86 K   86 (108)
Q Consensus        86 ~   86 (108)
                      .
T Consensus       105 ~  105 (266)
T 1g0u_M          105 T  105 (266)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=98.82  E-value=8.2e-10  Score=81.21  Aligned_cols=71  Identities=15%  Similarity=0.144  Sum_probs=52.9

Q ss_pred             HHHHHHHhccCcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595           8 EYAMEAISHAGTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus         8 eya~~av~~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .++..|+++|+|+||++++|||||+++++... .+...+...||++|+      +++.++++|..+|+..+....+..
T Consensus        66 ~~~~~~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~~KI~~I~------d~i~~~~aG~~AD~~~l~~~lr~~  137 (287)
T 3nzj_K           66 PDCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTVKKVIEIN------PFLLGTMAGGAADCQFWETWLGSQ  137 (287)
T ss_dssp             ----------CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEECEECHHHHHHHHHHHHHH
T ss_pred             cchhhheccCceEEEEEECCEEEEEEccccccCceeecCCcceEEEEc------CcEEEEecCCHHHHHHHHHHHHHH
Confidence            37889999999999999999999999998765 444556779999999      999999999999999888666543

>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=98.80  E-value=2.8e-09  Score=76.86  Aligned_cols=49  Identities=24%  Similarity=0.382  Sum_probs=43.8

Q ss_pred             eehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          52 QVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        52 qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      +.|||+||++++++++|++++||+||+.++|.       ... +||+.|++||+|++
T Consensus        16 r~EYA~~av~~GtT~vgi~~kdgVVlaadkr~-------~~~-~KI~~I~d~i~~~~   64 (248)
T 3mi0_A           16 RSELARKGIARAKSVVALAYAGGVLFVAENPS-------RSL-QKISELYDRVGFAA   64 (248)
T ss_dssp             HHHHHHHHHHTSCCEEEEEETTEEEEEEECCC-------SSS-CSEEEEETTEEEEE
T ss_pred             chHHHHHHHhCCCcEEEEEeCCEEEEEEeCCC-------CCC-CCeEEECCCEEEEE
Confidence            47999999999999999999999999999982       234 89999999999863

>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=98.76  E-value=1.8e-09  Score=75.53  Aligned_cols=65  Identities=20%  Similarity=0.275  Sum_probs=57.7

Q ss_pred             HhccCcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +++|+|+|||+++||||++++++....+.+. ....||++|+      +++.++++|..+|...|+...|..
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   71 (213)
T 1iru_M            6 VFNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLT------DKTVIGCSGFHGDCLTLTKIIEAR   71 (213)
T ss_dssp             CCCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             cCCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcC------CCEEEEccccHHHHHHHHHHHHHH
Confidence            5789999999999999999999988877665 4679999999      999999999999999998776654

>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=98.72  E-value=1.9e-09  Score=75.05  Aligned_cols=65  Identities=14%  Similarity=0.242  Sum_probs=58.4

Q ss_pred             HhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +.+|+|+||++++|||||+++++....+.+.+ ...||++|+      +++.++++|..+|...|....|..
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   70 (205)
T 1iru_J            5 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMG------DRLYIGLAGLATDVQTVAQRLKFR   70 (205)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECS------TTEEEECCSCHHHHHHHHHHHHHH
T ss_pred             cCCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeC------CCEEEEccccHHHHHHHHHHHHHH
Confidence            46899999999999999999999888887766 679999999      999999999999999998777654

>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=98.65  E-value=7.4e-09  Score=71.04  Aligned_cols=67  Identities=7%  Similarity=0.036  Sum_probs=57.4

Q ss_pred             hccCcEEEEeeCCeEEEEEeecccc-cc-cccCccCCeeee-hhHHHhhcccceeeeEeeCCeeeehhhhhhcccc
Q psy6595          15 SHAGTCLGILAQDGILLAAEKRLNQ-DF-SFLPHMSRLYQV-EYAMEAISHAGTCLGILAQDGILLAAEKRNTNKL   87 (108)
Q Consensus        15 ~~g~~~vgi~~~~gvvl~~~k~~~~-~l-~~~s~~gki~qi-eya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l   87 (108)
                      .+|+|+||++++||||++++++... .+ .......||++| +      ++..++++|..+|...|....|....+
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~~KI~~i~~------~~i~~~~aG~~aD~~~l~~~~~~~~~~   72 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFN------GKVLAGFAGSVADAFTLFEKFEAKLEE   72 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETT------TTEEEEECSCHHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCCCcEEEECC------CCEEEEeCchHHHHHHHHHHHHHHHHH
Confidence            5789999999999999999998776 45 566677999999 9      999999999999999999776654433

>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=98.63  E-value=7.1e-09  Score=73.15  Aligned_cols=66  Identities=24%  Similarity=0.280  Sum_probs=57.6

Q ss_pred             HHhccCcEEEEeeCCeEEEEEeecccccccc-cCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          13 AISHAGTCLGILAQDGILLAAEKRLNQDFSF-LPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        13 av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~-~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .+++|+|+|||+++|||||+++++....+.+ .+...||++|+      ++..++++|..+|...|....+..
T Consensus         5 ~v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   71 (222)
T 1ryp_M            5 YGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCG------DNIVMSANGFAADGDALVKRFKNS   71 (222)
T ss_dssp             CCCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEE------TTEEEEEEESHHHHHHHHHHHHHH
T ss_pred             cccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeC------CCEEEEccccHHHHHHHHHHHHHH
Confidence            3678999999999999999999988777764 34679999999      999999999999999998776653

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

Probab=98.54  E-value=2.5e-08  Score=69.11  Aligned_cols=61  Identities=23%  Similarity=0.359  Sum_probs=53.9

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|+||++++||||++++++... ++...+...||++|+      +++.++++|..+|...|+...|..
T Consensus         1 tt~vgi~~~dgVvlaad~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   62 (202)
T 1j2q_H            1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIA------DRMAMTTAGSVGDAQFLARIIKIE   62 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCEEEEEECCCcCcCCEEeeccccCEEEcC------CCEEEEecccHHHHHHHHHHHHHH
Confidence            5899999999999999998776 566667789999999      999999999999999999777653

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

Probab=98.53  E-value=1.2e-08  Score=71.83  Aligned_cols=63  Identities=16%  Similarity=0.252  Sum_probs=53.8

Q ss_pred             cCcEEEEeeCCeEEEEEeeccccc-ccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcc
Q psy6595          17 AGTCLGILAQDGILLAAEKRLNQD-FSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTN   85 (108)
Q Consensus        17 g~~~vgi~~~~gvvl~~~k~~~~~-l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~   85 (108)
                      |+|+|||+++|||||+++++.... +...+...||++|+      +++.++++|..+|...|+...|...
T Consensus         1 Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~~~~~~   64 (219)
T 3h4p_a            1 MTTTVGLICDDAVILATDKRASLGNLVADKEAKKLYKID------DYIAMTIAGSVGDAQAIVRLLIAEA   64 (219)
T ss_dssp             -CCEEEEEETTEEEEECCCCEEETTEEEETTCCCEEEEE------TTEEEECCSCHHHHHHHHHHHHHHH
T ss_pred             CccEEEEEECCEEEEEEcCCcccCCEeeccccceeEEec------CCEEEEeeEcHHHHHHHHHHHHHHH
Confidence            789999999999999999987765 44456779999999      9999999999999999997776543

>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=98.53  E-value=2.4e-08  Score=69.40  Aligned_cols=62  Identities=16%  Similarity=0.164  Sum_probs=54.0

Q ss_pred             CcEEEEeeCCeEEEEEeeccccc-ccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQD-FSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTN   85 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~-l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~   85 (108)
                      +|+||++++|||||+++++.... +...+...||++|+      +++.++++|..+|...|....|...
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~~   63 (205)
T 1iru_H            1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIH------DRIFCCRSGSAADTQAVADAVTYQL   63 (205)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEecCCcCceEEcC------CCEEEEcCccHHHHHHHHHHHHHHH
Confidence            58999999999999999988777 55556679999999      9999999999999999997776543

>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=98.53  E-value=2.5e-08  Score=67.84  Aligned_cols=62  Identities=5%  Similarity=0.025  Sum_probs=53.5

Q ss_pred             CcEEEEeeCCeEEEEEeeccccc-ccccCccCCeeee-hhHHHhhcccceeeeEeeCCeeeehhhhhhcc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQD-FSFLPHMSRLYQV-EYAMEAISHAGTCLGILAQDGILLAAEKRNTN   85 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~-l~~~s~~gki~qi-eya~~av~~~~~~v~~~~~D~~vl~~~~r~~~   85 (108)
                      +|+||++++|||||+++++.... +.......||++| +      ++..++++|..+|...|....|...
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~~Ki~~i~~------~~i~~~~aG~~aD~~~l~~~~~~~~   64 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYN------GKVLAGFAGGTADAFTLFELFERKL   64 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETT------TTEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCCCcEEEECC------CCEEEEeCccHHHHHHHHHHHHHHH
Confidence            58999999999999999987765 5555677999999 9      9999999999999999997766543

>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=98.50  E-value=3.4e-08  Score=68.55  Aligned_cols=64  Identities=17%  Similarity=0.198  Sum_probs=56.3

Q ss_pred             HhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +.+|+|+||++++|||||+++++....+.+.+ ...||++|+       ++.++++|..+|...|+...|..
T Consensus         5 ~~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-------~i~~~~aG~~aD~~~l~~~~~~~   69 (204)
T 1ryp_J            5 SINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-------HVFLGITGLATDVTTLNEMFRYK   69 (204)
T ss_dssp             GSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-------TEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-------CEEEEeeEcHHHHHHHHHHHHHH
Confidence            57899999999999999999999888887766 679999995       68899999999999999776654

>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=98.49  E-value=4.3e-08  Score=67.89  Aligned_cols=61  Identities=13%  Similarity=0.120  Sum_probs=53.3

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .++|||+++||||++++++... ++...+...||++|+      +++.++++|..+|...|+...|..
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   63 (201)
T 1iru_K            2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMS------EKILLLCVGEAGDTVQFAEYIQKN   63 (201)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECS------SSEEEEEEESTTHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEccCcceEEEec------CCEEEEeCcCHHHHHHHHHHHHHH
Confidence            4899999999999999998776 566667789999999      999999999999999988776643

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

Probab=98.49  E-value=3.5e-08  Score=66.87  Aligned_cols=63  Identities=8%  Similarity=0.057  Sum_probs=53.9

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeee-hhHHHhhcccceeeeEeeCCeeeehhhhhhccc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQV-EYAMEAISHAGTCLGILAQDGILLAAEKRNTNK   86 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qi-eya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~   86 (108)
                      +|+||++++||||++++++... .+.......||++| +      ++..++++|..+|...|....|....
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~------~~i~~~~aG~~aD~~~l~~~~~~~~~   65 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGE------GKVLAGFAGSVADAMTLFDRFEAKLR   65 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETT------TTEEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEeCC------CCEEEEeCccHHHHHHHHHHHHHHHH
Confidence            5899999999999999998775 45555677999999 9      99999999999999999987765433

>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=98.48  E-value=2.4e-08  Score=68.98  Aligned_cols=63  Identities=13%  Similarity=0.124  Sum_probs=54.2

Q ss_pred             CcEEEEeeCCeEEEEEeeccccc-ccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhccc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQD-FSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNK   86 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~-l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~   86 (108)
                      +|+||++++|||||+++++.... +...+...||++|+      +++.++++|..+|...|....|....
T Consensus         1 TT~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~~~   64 (199)
T 3unf_N            1 TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVFDKLSPLH------QRIFCALSGSAADAQAIADMAAYQLE   64 (199)
T ss_dssp             CEEEEEECSSCEEEEECCCEEETTEEEESSCCCEEEEE------TTEEEEECSCHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCeEEEEECCcccCCceeEccccCceEEcC------CCEEEEecccHHHHHHHHHHHHHHHH
Confidence            58999999999999999987766 55556779999999      99999999999999999987765433

>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=98.47  E-value=3e-08  Score=68.85  Aligned_cols=60  Identities=13%  Similarity=0.129  Sum_probs=52.6

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +|+||++++|||||+++++... ++...+...||++|+      +++.++++|..+|...|....+.
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~   61 (204)
T 1iru_L            1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEIN------PYLLGTMAGGAADCSFWERLLAR   61 (204)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEECCBCHHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCCEEEcCcccceEEcC------CCEEEEccCcHHHHHHHHHHHHH
Confidence            5899999999999999998776 566666789999999      99999999999999888876654

>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=98.46  E-value=3.3e-08  Score=69.09  Aligned_cols=61  Identities=16%  Similarity=0.155  Sum_probs=53.9

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|+||++++||||++++++... ++...+...||++|+      +++.++++|..+|...|....|..
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   62 (212)
T 1ryp_L            1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEIN------PFLLGTMAGGAADCQFWETWLGSQ   62 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEECCBCHHHHHHHHHHHHHH
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCCeEecCcccceeeeC------CcEEEEccccHHHHHHHHHHHHHH
Confidence            5899999999999999998776 566667789999999      999999999999999998776654

>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=98.45  E-value=4.4e-08  Score=67.63  Aligned_cols=61  Identities=25%  Similarity=0.286  Sum_probs=53.5

Q ss_pred             CcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .|+||++++|||||+++++....+.+. ....||++|+      ++..++++|..+|...|....|..
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   63 (198)
T 1ryp_K            2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLS------PHTLMSFAGEAGDTVQFAEYIQAN   63 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEE------TTEEEEEEESHHHHHHHHHHHHHH
T ss_pred             ceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeC------CCEEEEeccCHHHHHHHHHHHHHH
Confidence            489999999999999999987776664 4679999999      999999999999999999777653

>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=98.44  E-value=5e-08  Score=69.37  Aligned_cols=61  Identities=18%  Similarity=0.212  Sum_probs=53.7

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|+|||+++|||||+++++... ++...+...||++|+      +++.++++|..+|...|+...+..
T Consensus         1 tT~vgi~~~dgVVlaaD~r~~~g~l~~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   62 (235)
T 1q5q_H            1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTD------EYSAAGIAGTAGIAIELVRLFAVE   62 (235)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCCCcCCEEecCCcCcEEEeC------CcEEEEcCCcHHHHHHHHHHHHHH
Confidence            5899999999999999998776 666667789999999      999999999999999998776653

>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=98.38  E-value=8.8e-08  Score=67.56  Aligned_cols=61  Identities=16%  Similarity=0.152  Sum_probs=53.3

Q ss_pred             CcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|+||++++|||||+++++....+.+.+ ...||++|+      +++.++++|..+|...|....|..
T Consensus         1 TT~vgi~~~dgVvlaaD~r~t~g~~~~~~~~~KI~~i~------d~i~~~~aG~~aD~~~l~~~~~~~   62 (222)
T 1ryp_I            1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRIS------PKIWCAGAGTAADTEAVTQLIGSN   62 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCeeecCCcccEEEec------CCEEEEecccHHHHHHHHHHHHHH
Confidence            5899999999999999998877765544 569999999      999999999999999999776654

>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=98.38  E-value=1.2e-07  Score=69.77  Aligned_cols=51  Identities=22%  Similarity=0.350  Sum_probs=44.5

Q ss_pred             HHHhhcccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEe
Q psy6595          56 AMEAISHAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        56 a~~av~~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      |+||++++++++|++.+||+||+.++|.+. ++...++. +||+.|++|++++
T Consensus        58 a~~Av~~GtTiVgIk~kdGVVlAaD~r~t~G~li~~~~~-~KI~~I~~~i~~~  109 (294)
T 1q5r_H           58 SGDLAPHGTTIVALTYKGGVLLAGDRRATQGNLIASRDV-EAVYVTDEYSAAG  109 (294)
T ss_dssp             --CCSCBCCCEEEEECSSCEEEEECCCEEETTEEEESCC-CCEEEEETTEEEE
T ss_pred             HHHHHhcCceEEEEEECCEEEEEEcCccccCceeecCCc-ceEEEECCcEEEE
Confidence            899999999999999999999999999886 67666666 9999999999986

>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=98.35  E-value=1.6e-07  Score=66.83  Aligned_cols=61  Identities=20%  Similarity=0.254  Sum_probs=53.4

Q ss_pred             CcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|+||++++|||||+++++....+.+. +...||++|+      +++.++.+|..+|...|....|..
T Consensus         1 TTivgi~~~dgVVlaaD~r~t~g~~~~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   62 (234)
T 1iru_I            1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFIS------PNIYCCGAGTAADTDMTTQLISSN   62 (234)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEE------TTEEEEEEESHHHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCceeccCcccceEEec------CCEEEEecCcHHHHHHHHHHHHHH
Confidence            589999999999999999988777655 3568999999      999999999999999998776643

>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=98.34  E-value=1.3e-07  Score=67.50  Aligned_cols=61  Identities=18%  Similarity=0.255  Sum_probs=53.3

Q ss_pred             CcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|+||++++|||||+++++....+.+. +...||++|+      +++.++.+|..+|...+....|..
T Consensus         1 TT~vgi~~kdgVVlaaD~r~t~g~~v~~~~~~KI~~i~------~~i~~~~aG~~aD~~~l~~~~~~~   62 (234)
T 3unf_H            1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIA------PKIYCCGAGVAADTEMTTRMAASK   62 (234)
T ss_dssp             CEEEEEECSSEEEEEECCCEEETTEEEESSCCCEEEEE------TTEEEEEEESHHHHHHHHHHHHHH
T ss_pred             CeEEEEEeCCEEEEEECCCcccCCEeccCccccEEEec------CCEEEEecccHHHHHHHHHHHHHH
Confidence            489999999999999999887777654 4568999999      999999999999999998776654

>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=98.32  E-value=3e-07  Score=67.56  Aligned_cols=53  Identities=17%  Similarity=0.309  Sum_probs=32.9

Q ss_pred             ehhHHHhhcccceeeeEeeCCeeeehhhhhhccc-ccccCccccceeeeccceeEe
Q psy6595          53 VEYAMEAISHAGTCLGILAQDGILLAAEKRNTNK-LLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        53 ieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~-l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+||++ ++++++++|++.+||+||+.++|.+.. +...+.. +||+.|++|++|+
T Consensus        48 ~~ya~~-v~~GtTiVgi~~kdGVVlAaD~r~t~g~li~~~~~-~KI~~i~d~i~~~  101 (291)
T 2jay_A           48 AGGDAQ-LPHGTTIVALKYPGGVVMAGDRRSTQGNMISGRDV-RKVYITDDYTATG  101 (291)
T ss_dssp             -----------CCEEEEEETTEEEEEECCC--------CCCC-CCEEEEETTEEEE
T ss_pred             cccccc-ccCCcEEEEEEECCEEEEEECCCccCCCeeecCCc-ccEEEeCCcEEEE
Confidence            589999 999999999999999999999998876 4444444 9999999999986

>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=98.30  E-value=2.9e-07  Score=63.93  Aligned_cols=50  Identities=22%  Similarity=0.434  Sum_probs=43.7

Q ss_pred             HHhhcccceeeeEeeCCeeeehhhhhhccc-ccccCccccceeeeccceeEe
Q psy6595          57 MEAISHAGTCLGILAQDGILLAAEKRNTNK-LLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        57 ~~av~~~~~~v~~~~~D~~vl~~~~r~~~~-l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+|++++++++|++.+|+++|+.++|.+.. +...++. +||+.|++|++++
T Consensus         3 ~~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~-~Ki~~i~~~i~~~   53 (205)
T 1ryp_H            3 KGEVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVT-DKLTRVHDKIWCC   53 (205)
T ss_dssp             TTCCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSC-CCEEEEETTEEEE
T ss_pred             CCCCcCCceEEEEEeCCEEEEEEcCCcccCcEEEcCCc-CceEEcCCCEEEE
Confidence            578899999999999999999999999887 4544544 9999999999986

>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=98.22  E-value=4.5e-07  Score=63.52  Aligned_cols=49  Identities=16%  Similarity=0.289  Sum_probs=43.0

Q ss_pred             HhhcccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEe
Q psy6595          58 EAISHAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        58 ~av~~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +|++++++++|++.+|+++|+.++|.+. .+...++. +||+.|++|++++
T Consensus         3 ~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~-~Ki~~i~~~i~~~   52 (219)
T 1iru_N            3 NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNI-SRIMRVNNSTMLG   52 (219)
T ss_dssp             SCCSEECCCEEEEETTEEEEEEECCEEETTEEEECSC-CCEEEETTTEEEE
T ss_pred             CCccCCceEEEEEeCCEEEEEECCccccCcEEecCCC-CceEEeCCCEEEE
Confidence            5789999999999999999999999876 56555555 9999999999986

>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=98.21  E-value=6.1e-07  Score=64.99  Aligned_cols=50  Identities=20%  Similarity=0.321  Sum_probs=37.2

Q ss_pred             HHhhcccceeeeEeeCCeeeehhhhhhcccccc-cCccccceeeeccceeEe
Q psy6595          57 MEAISHAGTCLGILAQDGILLAAEKRNTNKLLD-EGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        57 ~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~-~~~~~~kI~~I~~~ig~~  107 (108)
                      .+|++++++++|++.+||++|+.++|.++..+. .+.. +||+.|++|++++
T Consensus        23 ~kav~~GtTivgi~~kdGVVlAaD~r~t~g~li~~~~~-~KI~~I~d~i~~~   73 (261)
T 3nzj_H           23 PKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNC-AKLHRISPKIWCA   73 (261)
T ss_dssp             -------CCEEEEEETTEEEEEEECCEEETTEEEETTC-CCEEEEETTEEEE
T ss_pred             CcccccCceEEEEEECCEEEEEEcCCcccCCeeccCCc-ceEEEEcCCEEEE
Confidence            578899999999999999999999998875443 4444 9999999999986

>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=98.17  E-value=1.1e-06  Score=64.55  Aligned_cols=53  Identities=25%  Similarity=0.276  Sum_probs=38.4

Q ss_pred             hHHHhhcccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEeC
Q psy6595          55 YAMEAISHAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        55 ya~~av~~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ++..++.++++++|++.+||+||+.++|.+. .+...++. +||+.|++|+++++
T Consensus        67 ~~~~~v~~GtT~vgik~~dGVVlAaD~r~t~G~li~~~~~-~KI~~I~d~i~~~~  120 (287)
T 3nzj_K           67 DCKIKIAHGTTTLAFRFQGGIIVAVDSRATAGNWVASQTV-KKVIEINPFLLGTM  120 (287)
T ss_dssp             ---------CCEEEEEETTEEEEEECCCEEETTEEEESCC-CCEEEEETTEEEEC
T ss_pred             chhhheccCceEEEEEECCEEEEEEccccccCceeecCCc-ceEEEEcCcEEEEe
Confidence            6778899999999999999999999999886 55555555 99999999999874

>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=98.15  E-value=8.3e-07  Score=62.83  Aligned_cols=49  Identities=16%  Similarity=0.302  Sum_probs=42.6

Q ss_pred             HhhcccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEe
Q psy6595          58 EAISHAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        58 ~av~~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ++++++++++|++.+|+++|+.++|.+. .+...++. +||+.|++|++++
T Consensus         3 ~av~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~-~KI~~i~~~i~~~   52 (233)
T 1ryp_N            3 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGV-ERLIPVGDNTVVG   52 (233)
T ss_dssp             CCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCC-CCEEEETTTEEEE
T ss_pred             ccccCCceEEEEEECCEEEEEEcCccccCCeeecCCc-CceEEeCCCEEEE
Confidence            5789999999999999999999999876 45555555 9999999999986

>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=98.15  E-value=1.1e-06  Score=61.59  Aligned_cols=48  Identities=19%  Similarity=0.414  Sum_probs=38.4

Q ss_pred             hhcccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEe
Q psy6595          59 AISHAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        59 av~~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +++++++++|++.+||++|+.++|.+. ++...++. +||+.|++|++++
T Consensus         4 ~~~~Gtt~vgi~~~dgVvlaaD~r~~~g~l~~~~~~-~Ki~~i~~~i~~~   52 (217)
T 1yar_H            4 TLETGTTTVGITLKDAVIMATERRVTMENFIMHKNG-KKLFQIDTYTGMT   52 (217)
T ss_dssp             -----CCEEEEEETTEEEEEECCCEEETTEEEESCC-CCEEEEETTEEEE
T ss_pred             CCCCCccEEEEEeCCEEEEEEcCCCCCCCEEecCcc-CCeEEeCCCEEEE
Confidence            458899999999999999999999886 56666665 9999999999986

>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=98.11  E-value=1.5e-06  Score=60.55  Aligned_cols=47  Identities=30%  Similarity=0.310  Sum_probs=41.5

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +++++++|++.+|+++|+.++|.+..++......+||+.|++|++++
T Consensus         7 ~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~   53 (213)
T 1iru_M            7 FNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIG   53 (213)
T ss_dssp             CCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEE
T ss_pred             CCCCcEEEEEeCCEEEEEECCCcccCCEEecCCCCcEEEcCCCEEEE
Confidence            78999999999999999999999888876533349999999999986

>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=98.10  E-value=6.6e-07  Score=64.74  Aligned_cols=55  Identities=15%  Similarity=0.255  Sum_probs=44.4

Q ss_pred             eehhHHHhhcccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEe
Q psy6595          52 QVEYAMEAISHAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        52 qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ..+-++++++++++++|++.+|++||+.++|.+. .+...++. +||+.|++|++++
T Consensus        30 ~~~~~~~av~~GtT~vgi~~~dgVVlAaD~r~t~g~~i~~~~~-~KI~~i~d~i~~~   85 (266)
T 1g0u_M           30 PMVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGV-ERLIPVGDNTVVG   85 (266)
T ss_dssp             ----CCCCCEEECCEEEEEETTEEEEEEECCEEETTEEEECCC-CCEEECTTSEEEE
T ss_pred             chhhhccCcccCceEEEEEECCEEEEEEcCCcccCceeecCCc-CcEEEcCCCEEEE
Confidence            3455677889999999999999999999999876 45555555 9999999999986

>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=98.10  E-value=1.9e-06  Score=59.68  Aligned_cols=48  Identities=21%  Similarity=0.259  Sum_probs=42.7

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .++++++|++.+|+++|+.++|.+..+++.+...+||+.|++|+++++
T Consensus         6 ~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~~   53 (205)
T 1iru_J            6 YNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGL   53 (205)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEEC
T ss_pred             CCCCeEEEEEeCCEEEEEECCccccCCeEeecCCccEEEeCCCEEEEc
Confidence            789999999999999999999999998886533499999999999874

>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=97.99  E-value=2.7e-06  Score=59.77  Aligned_cols=48  Identities=25%  Similarity=0.344  Sum_probs=41.2

Q ss_pred             hcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          60 ISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        60 v~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ++++++++|++.+|+++|+.++|.+..++......+||+.|++|++++
T Consensus         6 v~~Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~~Ki~~i~~~i~~~   53 (222)
T 1ryp_M            6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMS   53 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEEEETTEEEE
T ss_pred             ccCCccEEEEEeCCEEEEEEecccccCCEecCCCcCcEEEeCCCEEEE
Confidence            378999999999999999999999888764332349999999999986

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

Probab=97.90  E-value=7.8e-06  Score=57.36  Aligned_cols=45  Identities=27%  Similarity=0.536  Sum_probs=37.5

Q ss_pred             cceeeeEeeCCeeeehhhhhhccccc-ccCccccceeeeccceeEeC
Q psy6595          63 AGTCLGILAQDGILLAAEKRNTNKLL-DEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        63 ~~~~v~~~~~D~~vl~~~~r~~~~l~-~~~~~~~kI~~I~~~ig~~~  108 (108)
                      |++++|++.+||+||+.++|.+...+ ..+.. +||+.|++|++|++
T Consensus         1 Gtt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~-~KI~~i~~~i~~~~   46 (219)
T 3h4p_a            1 MTTTVGLICDDAVILATDKRASLGNLVADKEA-KKLYKIDDYIAMTI   46 (219)
T ss_dssp             -CCEEEEEETTEEEEECCCCEEETTEEEETTC-CCEEEEETTEEEEC
T ss_pred             CccEEEEEECCEEEEEEcCCcccCCEeecccc-ceeEEecCCEEEEe
Confidence            46899999999999999999887644 44544 99999999999874

>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=97.88  E-value=7.3e-06  Score=56.65  Aligned_cols=46  Identities=17%  Similarity=0.259  Sum_probs=41.3

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .++++++|++.+|+++|+.++|.+..+++.+...+||+.|+ |++++
T Consensus         6 ~~Gtt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~-~i~~~   51 (204)
T 1ryp_J            6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLG   51 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEE
T ss_pred             CCCCeEEEEEeCCEEEEEEcCCcccCCEEeeCCcceEEEeC-CEEEE
Confidence            78999999999999999999999999988753349999999 99986

>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=97.87  E-value=9.3e-06  Score=55.42  Aligned_cols=46  Identities=17%  Similarity=0.150  Sum_probs=40.2

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcc-cc-cccCccccceeee-ccceeEe
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTN-KL-LDEGTTSEKIYKL-HDSLNII  107 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~-~l-~~~~~~~~kI~~I-~~~ig~~  107 (108)
                      .++++++|++.+|+++|+.++|.+. .+ ...++. +||++| ++|++++
T Consensus         3 ~~GtTivgi~~~dgVvlaaD~r~t~g~~~i~~~~~-~KI~~i~~~~i~~~   51 (180)
T 2z3b_A            3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTA-RKVRKLFNGKVLAG   51 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCC-CCEEEETTTTEEEE
T ss_pred             CCCeEEEEEEECCEEEEEECCCccCCCceEecCCC-CcEEEECCCCEEEE
Confidence            5788999999999999999999887 45 666665 999999 9999986

>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=97.79  E-value=1.5e-05  Score=55.00  Aligned_cols=44  Identities=23%  Similarity=0.311  Sum_probs=37.6

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .+++|++.+|+++|+.++|.+. ++...++. +||+.|++|+++++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~-~Ki~~i~~~i~~~~   45 (204)
T 1iru_L            1 TTTLAFKFRHGVIVAADSRATAGAYIASQTV-KKVIEINPYLLGTM   45 (204)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCC-CCEEEEETTEEEEC
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCCEEEcCcc-cceEEcCCCEEEEc
Confidence            3789999999999999999887 56665555 99999999999864

>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=97.77  E-value=1.4e-05  Score=55.22  Aligned_cols=43  Identities=23%  Similarity=0.420  Sum_probs=37.1

Q ss_pred             ceeeeEeeCCeeeehhhhhhccc-ccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNK-LLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~-l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ++++|++.+||++|+.++|.++. +...++. +||+.|++|++++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~-~Ki~~i~~~i~~~   44 (205)
T 1iru_H            1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVT-DKLTPIHDRIFCC   44 (205)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSC-CCEEEEETTEEEE
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCcEEecCCc-CceEEcCCCEEEE
Confidence            37899999999999999999887 5555555 9999999999986

>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=97.76  E-value=1.9e-05  Score=54.91  Aligned_cols=44  Identities=23%  Similarity=0.292  Sum_probs=38.1

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ++++|++.+||++|+.++|.++ ++...++. +||+.|++|+++++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~-~Ki~~i~~~i~~~~   45 (212)
T 1ryp_L            1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTV-KRVIEINPFLLGTM   45 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCC-CCEEEEETTEEEEC
T ss_pred             CcEEEEEeCCEEEEEEcCCcccCCeEecCcc-cceeeeCCcEEEEc
Confidence            3789999999999999999887 67666665 99999999999874

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

Probab=97.75  E-value=1.6e-05  Score=54.91  Aligned_cols=44  Identities=32%  Similarity=0.653  Sum_probs=37.6

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      ++++|++.+||++|+.++|.++ ++...++. +||+.|++|+++++
T Consensus         1 tt~vgi~~~dgVvlaad~r~~~g~~~~~~~~-~Ki~~i~~~i~~~~   45 (202)
T 1j2q_H            1 TTTVGLVCKDGVVMATEKRATMGNFIASKAA-KKIYQIADRMAMTT   45 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSC-CCEEEEETTEEEEE
T ss_pred             CcEEEEEeCCEEEEEECCCcCcCCEEeeccc-cCEEEcCCCEEEEe
Confidence            3789999999999999999887 56666655 99999999999863

>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=97.74  E-value=1.6e-05  Score=56.53  Aligned_cols=44  Identities=27%  Similarity=0.396  Sum_probs=38.3

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++.+||++|+.++|.++.+++.....+||+.|++|++|+
T Consensus         1 TT~vgi~~kdgVVlaaD~r~t~g~~v~~~~~~KI~~i~~~i~~~   44 (234)
T 3unf_H            1 TTIAGLVFRDGVILGADTRATNDSVVADKSCEKIHFIAPKIYCC   44 (234)
T ss_dssp             CEEEEEECSSEEEEEECCCEEETTEEEESSCCCEEEEETTEEEE
T ss_pred             CeEEEEEeCCEEEEEECCCcccCCEeccCccccEEEecCCEEEE
Confidence            37899999999999999999988877544459999999999986

>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=97.72  E-value=1.9e-05  Score=54.33  Aligned_cols=44  Identities=14%  Similarity=0.242  Sum_probs=37.0

Q ss_pred             ceeeeEeeCCeeeehhhhhhccc-ccccCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNK-LLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~-l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .+++|++.+||+||+.++|.+.. +...+.. +||+.|++|+++++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~~~g~~~~~~~~-~Ki~~i~~~i~~~~   45 (199)
T 3unf_N            1 TTIMAVEFDGGVVVGSDSRVSAGTAVVNRVF-DKLSPLHQRIFCAL   45 (199)
T ss_dssp             CEEEEEECSSCEEEEECCCEEETTEEEESSC-CCEEEEETTEEEEE
T ss_pred             CeEEEEEeCCeEEEEECCcccCCceeEcccc-CceEEcCCCEEEEe
Confidence            37899999999999999998877 4445555 99999999999863

>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=97.71  E-value=1.7e-05  Score=54.48  Aligned_cols=44  Identities=25%  Similarity=0.264  Sum_probs=37.7

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++.+|+++|+.++|.+..++..+...+||+.|++|++++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~   45 (198)
T 1ryp_K            2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMS   45 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEE
T ss_pred             ceEEEEEECCEEEEEECCCcccCCEEEecCCCceEEeCCCEEEE
Confidence            47899999999999999999888777432349999999999986

>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=97.70  E-value=1.9e-05  Score=55.42  Aligned_cols=44  Identities=18%  Similarity=0.336  Sum_probs=38.0

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++.+||++|+.++|.+..+++.....+||+.|++|++++
T Consensus         1 TT~vgi~~~dgVvlaaD~r~t~g~~~~~~~~~KI~~i~d~i~~~   44 (222)
T 1ryp_I            1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCA   44 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEE
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCeeecCCcccEEEecCCEEEE
Confidence            37899999999999999999888876543449999999999986

>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=97.67  E-value=2.3e-05  Score=54.02  Aligned_cols=43  Identities=16%  Similarity=0.383  Sum_probs=37.3

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++.+|+++|+.++|.+. ++...++. +||+.|++|++++
T Consensus         2 tt~vgi~~~dgVvlaaD~r~~~g~~~~~~~~-~Ki~~i~~~i~~~   45 (201)
T 1iru_K            2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDH-DKMFKMSEKILLL   45 (201)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSC-CCEEECSSSEEEE
T ss_pred             ceEEEEEeCCEEEEEEcCccccCcEEEccCc-ceEEEecCCEEEE
Confidence            4789999999999999999887 56665655 9999999999986

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

Probab=97.67  E-value=2.6e-05  Score=52.54  Aligned_cols=43  Identities=16%  Similarity=0.142  Sum_probs=36.9

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeee-ccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKL-HDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I-~~~ig~~  107 (108)
                      .+++|++.+|+++|+.++|.+. .+...+.. +||+.| ++|++++
T Consensus         1 tt~vgi~~~dgVvlaaD~r~~~g~~i~~~~~-~Ki~~i~~~~i~~~   45 (171)
T 1m4y_A            1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNA-RKVRKLGEGKVLAG   45 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCC-CCEEEETTTTEEEE
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCc-ceEEEeCCCCEEEE
Confidence            3789999999999999999886 56656655 999999 9999986

>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=97.66  E-value=2.7e-05  Score=55.20  Aligned_cols=44  Identities=25%  Similarity=0.379  Sum_probs=38.1

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++.+||++|+.++|.+..++..+...+||+.|++|++++
T Consensus         1 TTivgi~~~dgVVlaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~   44 (234)
T 1iru_I            1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCC   44 (234)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEE
T ss_pred             CeEEEEEeCCEEEEEEcCCcccCceeccCcccceEEecCCEEEE
Confidence            37899999999999999999988876543449999999999986

>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=97.66  E-value=2.4e-05  Score=55.41  Aligned_cols=43  Identities=26%  Similarity=0.403  Sum_probs=37.7

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ++++|++.+||+||+.++|.++ ++...++. +||+.|++|++++
T Consensus         1 tT~vgi~~~dgVVlaaD~r~~~g~l~~~~~~-~KI~~i~~~i~~~   44 (235)
T 1q5q_H            1 TTIVALTYKGGVLLAGDRRATQGNLIASRDV-EKVYVTDEYSAAG   44 (235)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCC-CCEEEEETTEEEE
T ss_pred             CeEEEEEECCEEEEEECCCCCcCCEEecCCc-CcEEEeCCcEEEE
Confidence            3789999999999999999886 67666666 9999999999986

>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=97.63  E-value=3e-05  Score=52.45  Aligned_cols=43  Identities=9%  Similarity=0.169  Sum_probs=36.6

Q ss_pred             ceeeeEeeCCeeeehhhhhhccc-ccccCccccceeee-ccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNK-LLDEGTTSEKIYKL-HDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~-l~~~~~~~~kI~~I-~~~ig~~  107 (108)
                      .+++|++.+|+++|+.++|.+.. +..+++. +||++| ++|++++
T Consensus         1 tT~vgi~~~dgVvlaaD~r~t~g~~i~~~~~-~Ki~~i~~~~i~~~   45 (174)
T 1g3k_A            1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNA-RKVRRLYNGKVLAG   45 (174)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCC-CCEEEETTTTEEEE
T ss_pred             CeEEEEEECCEEEEEECCCCccCCeeEeCCC-CcEEEECCCCEEEE
Confidence            37899999999999999998875 5555555 999999 9999986

---

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	108
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	5e-20
d1iruc_	250	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	3e-13
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	2e-19
d1rypc_	244	d.153.1.4 (C:) Proteasome alpha subunit (non-catal	1e-13
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	8e-19
d1rypd_	241	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	1e-12
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	5e-18
d1irud_	243	d.153.1.4 (D:) Proteasome alpha subunit (non-catal	2e-13
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-17
d1rypg_	244	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	1e-14
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	2e-17
d1irua_	244	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	4e-13
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	2e-17
d1rypf_	233	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	3e-13
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	4e-17
d1rype_	242	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	3e-14
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	4e-17
d1iruf_	238	d.153.1.4 (F:) Proteasome alpha subunit (non-catal	5e-13
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	4e-17
d1rypb_	250	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	2e-13
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	6e-17
d1yara1	221	d.153.1.4 (A:13-233) Proteasome alpha subunit (non	6e-14
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	7e-17
d1irue_	234	d.153.1.4 (E:) Proteasome alpha subunit (non-catal	2e-14
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-16
d1j2pa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	9e-14
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	3e-16
d1irub_	233	d.153.1.4 (B:) Proteasome alpha subunit (non-catal	5e-13
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	4e-16
d1irug_	245	d.153.1.4 (G:) Proteasome alpha subunit (non-catal	9e-13
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	8e-14
d1rypa_	243	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	8e-11
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	5e-12
d1q5qa_	227	d.153.1.4 (A:) Proteasome alpha subunit (non-catal	1e-09
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	6e-09
d1iru2_	217	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	6e-04
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	2e-08
d1ryp1_	222	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	4e-04
d1yarh1	203	d.153.1.4 (H:1-203) Proteasome beta subunit (catal	2e-08
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	3e-08
d1ryp2_	233	d.153.1.4 (2:) Proteasome beta subunit (catalytic)	0.001
d1j2qh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	3e-08
d1irui_	220	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	8e-08
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	1e-07
d1iru1_	213	d.153.1.4 (1:) Proteasome beta subunit (catalytic)	0.003
d1rypi_	222	d.153.1.4 (I:) Proteasome beta subunit (catalytic)	2e-07
d1irul_	201	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-07
d1rypl_	212	d.153.1.4 (L:) Proteasome beta subunit (catalytic)	2e-07
d1iruj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	3e-07
d1rypk_	198	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	3e-07
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	5e-07
d1ryph_	205	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	7e-04
d1rypj_	204	d.153.1.4 (J:) Proteasome beta subunit (catalytic)	5e-07
d1iruk_	199	d.153.1.4 (K:) Proteasome beta subunit (catalytic)	8e-07
d1iruh_	202	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	8e-07
d1q5qh_	224	d.153.1.4 (H:) Proteasome beta subunit (catalytic)	1e-06

>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 = 79.3 bits (195), Expect = 5e-20
 Identities = 43/60 (71%), Positives = 49/60 (81%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
           RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+RN +KLLDE   SEKIYKL++ +    
Sbjct: 16  RLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACSV 75

>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 = 61.2 bits (148), Expect = 3e-13
 Identities = 30/35 (85%), Positives = 32/35 (91%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRL 37
          RLYQVEYAMEAI HAGTCLGILA DG+LLAAE+R 
Sbjct: 16 RLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRN 50

>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 = 77.8 bits (191), Expect = 2e-19
 Identities = 35/54 (64%), Positives = 49/54 (90%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA+E+ISHAGT +GI+A DGI+LAAE++ T+ LL++ T++EK+YKL+D
Sbjct: 17  RLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLND 70

>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 = 62.0 bits (150), Expect = 1e-13
 Identities = 25/36 (69%), Positives = 33/36 (91%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLN 38
          RLYQVEYA+E+ISHAGT +GI+A DGI+LAAE+++ 
Sbjct: 17 RLYQVEYALESISHAGTAIGIMASDGIVLAAERKVT 52

>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 = 75.8 bits (186), Expect = 8e-19
 Identities = 18/56 (32%), Positives = 33/56 (58%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            ++QVEYA+EA+      +G+  ++ ++L  E+R+T KL D   T  K+ K+   +
Sbjct: 14  HIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHV 69

>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 = 59.3 bits (143), Expect = 1e-12
 Identities = 11/35 (31%), Positives = 22/35 (62%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRL 37
           ++QVEYA+EA+      +G+  ++ ++L  E+R 
Sbjct: 14 HIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRS 48

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 243

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

 Score = 73.9 bits (181), Expect = 5e-18
 Identities = 23/56 (41%), Positives = 34/56 (60%), Gaps = 1/56 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            L+QVEYA EA+    T +G+  +D ++L  EK++  KL DE  T  KI  L D++
Sbjct: 14  HLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDE-RTVRKICALDDNV 68

>d1irud_ d.153.1.4 (D:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 243

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

 Score = 61.6 bits (149), Expect = 2e-13
 Identities = 16/63 (25%), Positives = 32/63 (50%), Gaps = 1/63 (1%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
           L+QVEYA EA+    T +G+  +D ++L  EK+          + ++  ++  +  ++ 
Sbjct: 14 HLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALDDNV-CMAF 72

Query: 63 AGT 65
          AG 
Sbjct: 73 AGL 75

>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 = 73.1 bits (179), Expect = 1e-17
 Identities = 21/54 (38%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           R +QVEYA++A+ +  T +GI   DG++ A EK  T+KLL     + KI  +  
Sbjct: 16  RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVP-QKNVKIQVVDR 68

>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 = 64.7 bits (157), Expect = 1e-14
 Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 6/75 (8%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
          R +QVEYA++A+ +  T +GI   DG++ A EK +           ++  V        H
Sbjct: 16 RNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVV------DRH 69

Query: 63 AGTCLGILAQDGILL 77
           G     L  DG  L
Sbjct: 70 IGCVYSGLIPDGRHL 84

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 244

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

 Score = 72.7 bits (178), Expect = 2e-17
 Identities = 20/55 (36%), Positives = 35/55 (63%), Gaps = 2/55 (3%)

Query: 49  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA +AI+  G T + +  +D  ++  +K+  +KLLD  +T   ++K+ +
Sbjct: 20  RLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDS-STVTHLFKITE 73

>d1irua_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 244

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

 Score = 60.8 bits (147), Expect = 4e-13
 Identities = 15/52 (28%), Positives = 30/52 (57%), Gaps = 1/52 (1%)

Query: 3  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQV 53
          RLYQVEYA +AI+  G T + +  +D  ++  +K++         ++ L+++
Sbjct: 20 RLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKI 71

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 233

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

 Score = 72.0 bits (176), Expect = 2e-17
 Identities = 20/60 (33%), Positives = 32/60 (53%), Gaps = 3/60 (5%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
           RL+QVEYA+EAI      +G+ +    +L A KRN ++L       +KI K  + + +  
Sbjct: 17  RLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSS---YQKKIIKCDEHMGLSL 73

>d1rypf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 233

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

 Score = 60.8 bits (147), Expect = 3e-13
 Identities = 16/40 (40%), Positives = 23/40 (57%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFS 42
          RL+QVEYA+EAI      +G+ +    +L A KR   + S
Sbjct: 17 RLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS 56

>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 = 71.7 bits (175), Expect = 4e-17
 Identities = 23/60 (38%), Positives = 37/60 (61%), Gaps = 1/60 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
           RL+QVEY++EAI    T +GI  ++G++L  EKR T+ LL+  +  EKI ++   +    
Sbjct: 12  RLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSI-EKIVEIDRHIGCAM 70

>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 = 63.6 bits (154), Expect = 3e-14
 Identities = 18/63 (28%), Positives = 35/63 (55%), Gaps = 1/63 (1%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
          RL+QVEY++EAI    T +GI  ++G++L  EKR          + ++ +++  +   + 
Sbjct: 12 RLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHI-GCAM 70

Query: 63 AGT 65
          +G 
Sbjct: 71 SGL 73

>d1iruf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 238

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

 Score = 71.2 bits (174), Expect = 4e-17
 Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 3/58 (5%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNI 106
           R++Q+EYAMEA+      +G+ ++   +L A KR  ++L       +KI  + + + I
Sbjct: 15  RIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAA---HQKKILHVDNHIGI 69

>d1iruf_ d.153.1.4 (F:) Proteasome alpha subunit (non-catalytic) {Cow (Bos taurus) [TaxId: 9913]} Length = 238

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

 Score = 60.4 bits (146), Expect = 5e-13
 Identities = 13/35 (37%), Positives = 22/35 (62%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRL 37
          R++Q+EYAMEA+      +G+ ++   +L A KR 
Sbjct: 15 RIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRA 49

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 250

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

 Score = 71.3 bits (174), Expect = 4e-17
 Identities = 18/60 (30%), Positives = 34/60 (56%), Gaps = 1/60 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
           +L Q++YA+ A+    T LGI A +G+++A EK++++ L     T  K+  L   +  + 
Sbjct: 17  KLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMS-ETLSKVSLLTPDIGAVY 75

>d1rypb_ d.153.1.4 (B:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 250

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

 Score = 61.3 bits (148), Expect = 2e-13
 Identities = 15/50 (30%), Positives = 30/50 (60%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQ 52
          +L Q++YA+ A+    T LGI A +G+++A EK+ +   +    +S++  
Sbjct: 17 KLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSL 66

>d1yara1 d.153.1.4 (A:13-233) Proteasome alpha subunit (non-catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]} Length = 221

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

 Score = 70.9 bits (173), Expect = 6e-17
 Identities = 22/60 (36%), Positives = 39/60 (65%), Gaps = 1/60 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
           RL+QVEYA EA+    T LG+   +G+LL ++K+  ++L+++  + EKI  + D +  +T
Sbjct: 8   RLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQ-NSIEKIQLIDDYVAAVT 66

>d1yara1 d.153.1.4 (A:13-233) Proteasome alpha subunit (non-catalytic) {Archaeon Thermoplasma acidophilum [TaxId: 2303]} Length = 221

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

 Score = 62.8 bits (152), Expect = 6e-14
 Identities = 18/63 (28%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
          RL+QVEYA EA+    T LG+   +G+LL ++K++         + ++  ++  + A   
Sbjct: 8  RLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLIDDYV-AAVT 66

Query: 63 AGT 65
          +G 
Sbjct: 67 SGL 69

>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 = 70.8 bits (173), Expect = 7e-17
 Identities = 23/60 (38%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
           RL+QVEY +EAI    T +GI   +G+ LA EKR T+ L++   + EKI ++   +    
Sbjct: 13  RLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPS-SIEKIVEIDAHIGCAM 71

>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 = 64.3 bits (156), Expect = 2e-14
 Identities = 19/63 (30%), Positives = 34/63 (53%), Gaps = 1/63 (1%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
          RL+QVEY +EAI    T +GI   +G+ LA EKR+         + ++ +++  +   + 
Sbjct: 13 RLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEIDAHI-GCAM 71

Query: 63 AGT 65
          +G 
Sbjct: 72 SGL 74

>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 = 70.1 bits (171), Expect = 1e-16
 Identities = 26/56 (46%), Positives = 40/56 (71%), Gaps = 1/56 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           RL+QVEYA EA+    T +GI  ++G++L A+KR  +KLL++  T EKIYK+ + +
Sbjct: 17  RLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEK-DTIEKIYKIDEHI 71

>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 = 62.4 bits (151), Expect = 9e-14
 Identities = 19/63 (30%), Positives = 37/63 (58%), Gaps = 1/63 (1%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
          RL+QVEYA EA+    T +GI  ++G++L A+KR+         + ++Y+++  +   + 
Sbjct: 17 RLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKIDEHI-CAAT 75

Query: 63 AGT 65
          +G 
Sbjct: 76 SGL 78

>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 = 69.4 bits (169), Expect = 3e-16
 Identities = 18/54 (33%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           +L Q+EYA+ A++     +GI A +G++LA EK+  + L DE  +  K+  +  
Sbjct: 17  KLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDE-RSVHKVEPITK 69

>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 = 60.5 bits (146), Expect = 5e-13
 Identities = 14/53 (26%), Positives = 28/53 (52%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEY 55
          +L Q+EYA+ A++     +GI A +G++LA EK+          + ++  +  
Sbjct: 17 KLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPITK 69

>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 = 68.9 bits (168), Expect = 4e-16
 Identities = 18/56 (32%), Positives = 38/56 (67%), Gaps = 1/56 (1%)

Query: 49  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           R++QVEYAM+A+ ++ T +GI  +DG++   EK   +KL +E  ++++++ +   +
Sbjct: 19  RVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEE-GSNKRLFNVDRHV 73

>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 = 60.0 bits (145), Expect = 9e-13
 Identities = 18/51 (35%), Positives = 30/51 (58%)

Query: 3  RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQV 53
          R++QVEYAM+A+ ++ T +GI  +DG++   EK +           RL+ V
Sbjct: 19 RVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNV 69

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 243

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

 Score = 62.8 bits (152), Expect = 8e-14
 Identities = 19/55 (34%), Positives = 31/55 (56%), Gaps = 2/55 (3%)

Query: 49  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           RLYQVEYA +A +      L +  +D  ++ ++K+  +KLLD  TT   I+ +  
Sbjct: 15  RLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDP-TTVSYIFCISR 68

>d1rypa_ d.153.1.4 (A:) Proteasome alpha subunit (non-catalytic) {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 243

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

 Score = 54.3 bits (130), Expect = 8e-11
 Identities = 13/51 (25%), Positives = 26/51 (50%), Gaps = 1/51 (1%)

Query: 3  RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQ 52
          RLYQVEYA +A +      L +  +D  ++ ++K++         +S ++ 
Sbjct: 15 RLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFC 65

>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 = 57.7 bits (139), Expect = 5e-12
 Identities = 13/53 (24%), Positives = 25/53 (47%), Gaps = 8/53 (15%)

Query: 52  QVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           + E A + I+   + + +  +DG+L  AE  +        T   K+ +L+D L
Sbjct: 8   RSELARKGIARGRSVVVLTFRDGVLFVAENPS--------TALHKVSELYDRL 52

>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 = 51.2 bits (122), Expect = 1e-09
 Identities = 8/31 (25%), Positives = 16/31 (51%)

Query: 6  QVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
          + E A + I+   + + +  +DG+L  AE  
Sbjct: 8  RSELARKGIARGRSVVVLTFRDGVLFVAENP 38

>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 = 49.0 bits (116), Expect = 6e-09
 Identities = 8/51 (15%), Positives = 23/51 (45%)

Query: 58  EAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
             +    + LG+  + G+++AA+   +   L       +I ++++S  +  
Sbjct: 3   NPMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVNNSTMLGA 53

>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 = 35.1 bits (80), Expect = 6e-04
 Identities = 5/26 (19%), Positives = 13/26 (50%)

Query: 12 EAISHAGTCLGILAQDGILLAAEKRL 37
            +    + LG+  + G+++AA+   
Sbjct: 3  NPMVTGTSVLGVKFEGGVVIAADMLG 28

>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 = 47.9 bits (113), Expect = 2e-08
 Identities = 12/44 (27%), Positives = 20/44 (45%)

Query: 61  SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            + GT LGI  +D  +LA + RN            K++   D++
Sbjct: 7   DNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNI 50

>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 = 35.5 bits (81), Expect = 4e-04
 Identities = 16/70 (22%), Positives = 26/70 (37%), Gaps = 7/70 (10%)

Query: 15 SHAGTCLGILAQDGILLAAEKRLNQDFSFLPH-MSRLYQVEYAMEAISHAGTCLGILAQD 73
           + GT LGI  +D  +LA + R   D+S       +++          +        A D
Sbjct: 7  DNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCG------DNIVMSANGFAAD 60

Query: 74 GILLAAEKRN 83
          G  L    +N
Sbjct: 61 GDALVKRFKN 70

>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 = 47.5 bits (112), Expect = 2e-08
 Identities = 9/44 (20%), Positives = 22/44 (50%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
           T +GI  +D +++A E+R T +        +K++++     +  
Sbjct: 2   TTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQIDTYTGMTI 45

>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 = 47.4 bits (112), Expect = 3e-08
 Identities = 7/48 (14%), Positives = 21/48 (43%)

Query: 57  MEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
            + I    + + +   +G+++AA+   +   L      E++  + D+ 
Sbjct: 2   QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGDNT 49

>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 = 34.3 bits (78), Expect = 0.001
 Identities = 7/44 (15%), Positives = 19/44 (43%), Gaps = 1/44 (2%)

Query: 11 MEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPH-MSRLYQV 53
           + I    + + +   +G+++AA+   +       + + RL  V
Sbjct: 2  QQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPV 45

>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 = 47.1 bits (111), Expect = 3e-08
 Identities = 13/43 (30%), Positives = 26/43 (60%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII 107
           T +G++ +DG+++A EKR T         ++KIY++ D + + 
Sbjct: 2   TTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIADRMAMT 44

>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 = 45.9 bits (108), Expect = 8e-08
 Identities = 11/40 (27%), Positives = 22/40 (55%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T  G++ +DGI+L A+ R T  ++       KI+ +  ++
Sbjct: 2   TIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNI 41

>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 = 45.7 bits (107), Expect = 1e-07
 Identities = 13/43 (30%), Positives = 20/43 (46%)

Query: 62  HAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           + GT L I  +D  ++A++ R +         S K YKL D  
Sbjct: 8   NGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKT 50

>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 = 32.9 bits (74), Expect = 0.003
 Identities = 11/34 (32%), Positives = 19/34 (55%)

Query: 16 HAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSR 49
          + GT L I  +D  ++A++ RL++ FS     S 
Sbjct: 8  NGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSP 41

>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 = 45.2 bits (106), Expect = 2e-07
 Identities = 8/40 (20%), Positives = 22/40 (55%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T +G+   +G+++AA+ R+T   +       K++++   +
Sbjct: 2   TIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKI 41

>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 = 44.7 bits (105), Expect = 2e-07
 Identities = 10/40 (25%), Positives = 20/40 (50%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T L    + G+++AA+ R T        T +K+ +++  L
Sbjct: 2   TTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYL 41

>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 = 44.8 bits (105), Expect = 2e-07
 Identities = 10/40 (25%), Positives = 19/40 (47%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T L    Q GI++A + R T        T +++ +++  L
Sbjct: 2   TTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEINPFL 41

>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 = 44.4 bits (104), Expect = 3e-07
 Identities = 8/41 (19%), Positives = 21/41 (51%)

Query: 62  HAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
           + G  + +  ++ + +AA++R   +     T  +KI+ + D
Sbjct: 6   NGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGD 46

>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 = 44.0 bits (103), Expect = 3e-07
 Identities = 11/40 (27%), Positives = 18/40 (45%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
             LGI  QD ++LA+ K  T  +     + +K  +L    
Sbjct: 3   IILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHT 42

>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 = 44.0 bits (103), Expect = 5e-07
 Identities = 10/45 (22%), Positives = 24/45 (53%)

Query: 60  ISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           +S   + + +  +DG++L A+ R T         ++K+ ++HD +
Sbjct: 6   VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKI 50

>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 = 35.1 bits (80), Expect = 7e-04
 Identities = 6/36 (16%), Positives = 16/36 (44%)

Query: 14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSR 49
          +S   + + +  +DG++L A+ R          ++ 
Sbjct: 6  VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTD 41

>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 = 43.6 bits (102), Expect = 5e-07
 Identities = 8/43 (18%), Positives = 18/43 (41%)

Query: 62  HAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           + G  + +  +D + +A + R  ++ L      EKI+      
Sbjct: 7   NGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVF 49

>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 = 43.3 bits (101), Expect = 8e-07
 Identities = 7/40 (17%), Positives = 22/40 (55%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
             +GI   D +L+A+++   + ++      +K++K+ + +
Sbjct: 3   YLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKI 42

>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 = 43.2 bits (101), Expect = 8e-07
 Identities = 9/40 (22%), Positives = 19/40 (47%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T + +    G++L A+ R T         ++K+  +HD +
Sbjct: 2   TIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRI 41

>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 = 42.5 bits (99), Expect = 1e-06
 Identities = 11/40 (27%), Positives = 19/40 (47%)

Query: 65  TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
           T + +  + G+LLA ++R T   L      EK+Y   +  
Sbjct: 2   TIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTDEYS 41

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	108
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.81
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.8
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	99.8
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	99.79
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.79
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	99.78
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.78
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.78
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.78
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.78
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.78
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	99.77
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	99.77
d1iruc_	250	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.77
d1rypb_	250	Proteasome alpha subunit (non-catalytic) {Baker's	99.77
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	99.76
d1irug_	245	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.76
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	99.76
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.74
d1rypg_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.74
d1irue_	234	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.74
d1irub_	233	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.74
d1rypc_	244	Proteasome alpha subunit (non-catalytic) {Baker's	99.74
d1irud_	243	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.74
d1iruf_	238	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.73
d1j2pa_	243	Proteasome alpha subunit (non-catalytic) {Archaeon	99.73
d1rypd_	241	Proteasome alpha subunit (non-catalytic) {Baker's	99.73
d1irua_	244	Proteasome alpha subunit (non-catalytic) {Cow (Bos	99.73
d1rypa_	243	Proteasome alpha subunit (non-catalytic) {Baker's	99.72
d1rypf_	233	Proteasome alpha subunit (non-catalytic) {Baker's	99.71
d1rype_	242	Proteasome alpha subunit (non-catalytic) {Baker's	99.71
d1yara1	221	Proteasome alpha subunit (non-catalytic) {Archaeon	99.69
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	99.5
d1q5qa_	227	Proteasome alpha subunit (non-catalytic) {Rhodococ	98.83
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	98.69
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	98.69
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	98.67
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	98.59
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	98.49
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	98.43
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	98.38
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	98.36
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	98.34
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	98.34
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	98.33
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	98.31
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	98.31
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	98.27
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	98.24
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	98.23
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	98.21
d1iru1_	213	Proteasome beta subunit (catalytic) {Cow (Bos taur	98.02
d1ryph_	205	Proteasome beta subunit (catalytic) {Baker's yeast	98.0
d1ryp1_	222	Proteasome beta subunit (catalytic) {Baker's yeast	97.96
d1iruj_	204	Proteasome beta subunit (catalytic) {Cow (Bos taur	97.91
d1ryp2_	233	Proteasome beta subunit (catalytic) {Baker's yeast	97.85
d1irul_	201	Proteasome beta subunit (catalytic) {Cow (Bos taur	97.75
d1iru2_	217	Proteasome beta subunit (catalytic) {Cow (Bos taur	97.67
d1rypl_	212	Proteasome beta subunit (catalytic) {Baker's yeast	97.67
d1yarh1	203	Proteasome beta subunit (catalytic) {Archaeon Ther	97.62
d1rypk_	198	Proteasome beta subunit (catalytic) {Baker's yeast	97.61
d1j2qh_	202	Proteasome beta subunit (catalytic) {Archaeon Arch	97.58
d1rypi_	222	Proteasome beta subunit (catalytic) {Baker's yeast	97.55
d1irui_	220	Proteasome beta subunit (catalytic) {Cow (Bos taur	97.55
d1iruk_	199	Proteasome beta subunit (catalytic) {Cow (Bos taur	97.52
d1rypj_	204	Proteasome beta subunit (catalytic) {Baker's yeast	97.51
d1iruh_	202	Proteasome beta subunit (catalytic) {Cow (Bos taur	97.49
d1q5qh_	224	Proteasome beta subunit (catalytic) {Rhodococcus e	97.47
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	97.13
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	97.02
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	96.6
d1g3ka_	173	HslV (ClpQ) protease {Haemophilus influenzae [TaxI	96.35
d1m4ya_	171	HslV (ClpQ) protease {Thermotoga maritima [TaxId:	96.34
d2z3ba1	180	HslV (ClpQ) protease {Bacillus subtilis [TaxId: 14	95.91

>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=99.81  E-value=6.5e-21  Score=135.73  Aligned_cols=81  Identities=31%  Similarity=0.457  Sum_probs=73.7

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||+|||||+||+++|+|+|||+++|||||+++++....++..+...|+++|+      ++++++++|..+|++.++..
T Consensus        17 ~Grl~QvEYa~~av~~G~t~VGik~~dgVvlaad~~~~~~~~~~~~~~Ki~~I~------~~i~~~~sG~~~D~~~l~~~   90 (245)
T d1irug_          17 DGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSNKRLFNVD------RHVGMAVAGLLADARSLADI   90 (245)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTTCCEEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEeccccccccccCccceEEEcC------CCEEEEeccCchhHHHHHHH
Confidence            399999999999999999999999999999999998877877777788999999      99999999999999999988


Q ss_pred             hhhcccc
Q psy6595          81 KRNTNKL   87 (108)
Q Consensus        81 ~r~~~~l   87 (108)
                      .|....+
T Consensus        91 ~~~~~~~   97 (245)
T d1irug_          91 AREEASN   97 (245)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7765444

>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=99.80  E-value=1.4e-20  Score=133.81  Aligned_cols=78  Identities=29%  Similarity=0.456  Sum_probs=71.9

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||+|||||+||+++|+|+||++++||||++++++....+...+...|+++|+      ++..++++|..+|...++..
T Consensus        14 ~Grl~QvEya~kav~~G~t~igik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   87 (244)
T d1rypg_          14 DGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVD------RHIGCVYSGLIPDGRHLVNR   87 (244)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTSCCCEEET------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCCCccccccceEEEcc------CceEEEEccchhhHHHHHHH
Confidence            399999999999999999999999999999999999888887777778999999      99999999999999999876


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .+..
T Consensus        88 ~~~~   91 (244)
T d1rypg_          88 GREE   91 (244)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=99.80  E-value=1.6e-20  Score=131.38  Aligned_cols=79  Identities=25%  Similarity=0.389  Sum_probs=71.8

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||||||||+||+++|+|+|||+++|||||+++++...++...+...|+++|+      +++.++++|..+|...++..
T Consensus         6 ~G~l~QvEYa~~av~~G~t~vgi~~~dgVvlaad~r~~~~~~~~~~~~Ki~~I~------~~i~~~~sG~~~D~~~l~~~   79 (221)
T d1yara1           6 DGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSIEKIQLID------DYVAAVTSGLVADARVLVDF   79 (221)
T ss_dssp             TSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTCCSEEEEE------TTEEEEEEEBHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCccceEEEec------CCceEEeeeccchHHHHHHH
Confidence            499999999999999999999999999999999998777777667778999999      99999999999999999877


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .|...
T Consensus        80 ~~~~~   84 (221)
T d1yara1          80 ARISA   84 (221)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66543

>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=99.79  E-value=4.3e-20  Score=131.36  Aligned_cols=77  Identities=25%  Similarity=0.427  Sum_probs=70.4

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+|+||++++||||++++++....+...+...|+++|+      ++..++++|..+|...++..
T Consensus        15 ~G~l~QvEyA~kav~~G~tvvgi~~~dgVvlaad~r~~~~~~~~~~~~ki~~I~------~~i~~~~sG~~~D~~~l~~~   88 (250)
T d1rypb_          15 SGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLT------PDIGAVYSGMGPDYRVLVDK   88 (250)
T ss_dssp             TSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGCCSSEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCccccccccceeEecc------CCEEEEeeecccHHHHHHHH
Confidence            399999999999999999999999999999999998877777777789999999      99999999999999988866


Q ss_pred             hhh
Q psy6595          81 KRN   83 (108)
Q Consensus        81 ~r~   83 (108)
                      .+.
T Consensus        89 ~~~   91 (250)
T d1rypb_          89 SRK   91 (250)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=99.79  E-value=3e-20  Score=132.25  Aligned_cols=78  Identities=45%  Similarity=0.658  Sum_probs=70.1

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      .|||||||||+||+++|+|+|||+++|||||+++++....+.+.+ ...||++|+      +++.++++|..+|+..++.
T Consensus        14 ~Grl~QvEyA~kav~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~   87 (250)
T d1iruc_          14 EGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLN------EDMACSVAGITSDANVLTN   87 (250)
T ss_dssp             TSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECS------SSEEEEEEECHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECC------CcEEEEeecccchHHHHHH
Confidence            399999999999999999999999999999999998777776654 458999999      9999999999999999987


Q ss_pred             hhhhc
Q psy6595          80 EKRNT   84 (108)
Q Consensus        80 ~~r~~   84 (108)
                      ..|..
T Consensus        88 ~~r~~   92 (250)
T d1iruc_          88 ELRLI   92 (250)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77654

>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=99.78  E-value=4.4e-20  Score=130.33  Aligned_cols=76  Identities=32%  Similarity=0.469  Sum_probs=69.9

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEK   81 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~   81 (108)
                      |||||||||+||+++|+|+|||+++||||++++++..+.+.  .+..|+++|+      ++++++++|..+|+..++...
T Consensus        16 Grl~QvEyA~kav~~g~t~igi~~~dgvvlaad~~~~~~l~--~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~~   87 (233)
T d1rypf_          16 GRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELS--SYQKKIIKCD------EHMGLSLAGLAPDARVLSNYL   87 (233)
T ss_dssp             SCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEE------TTEEEEEEECHHHHHHHHHHH
T ss_pred             CcChHHHHHHHHHHcCCCEEEEEECCeEEEEEeccccccCC--cchheEEEcC------CCEEEEEeeccccHHHHHHHH
Confidence            99999999999999999999999999999999998877764  5678999999      999999999999999999887


Q ss_pred             hhcc
Q psy6595          82 RNTN   85 (108)
Q Consensus        82 r~~~   85 (108)
                      |...
T Consensus        88 r~~~   91 (233)
T d1rypf_          88 RQQC   91 (233)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7643

>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=99.78  E-value=3e-20  Score=131.81  Aligned_cols=79  Identities=22%  Similarity=0.337  Sum_probs=72.2

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+|+|||+++||||++++++...++.......||++|+      ++++++++|..+|+..++..
T Consensus        12 ~Grl~QvEya~kav~~G~Tvvgik~~dgVvla~d~r~~~~~~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~   85 (243)
T d1irud_          12 DGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTVRKICALD------DNVCMAFAGLTADARIVINR   85 (243)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGGCSEEESS------SSCEEEEEECHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccccCcccCCCccccEEECC------CCEEEEEEEchhhHHHHHHH
Confidence            399999999999999999999999999999999998777777777788999999      99999999999999999987


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .|...
T Consensus        86 ~~~~~   90 (243)
T d1irud_          86 ARVEC   90 (243)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77543

>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=99.78  E-value=7e-20  Score=129.17  Aligned_cols=78  Identities=31%  Similarity=0.514  Sum_probs=71.3

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||+|||||+||+++|+|+||++++|||||+++++...++...+...||++|+      ++..++++|..+|+..++..
T Consensus        11 ~G~l~QvEYa~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   84 (234)
T d1irue_          11 EGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSIEKIVEID------AHIGCAMSGLIADAKTLIDK   84 (234)
T ss_dssp             TSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSCCSEEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCccCCCcccCcccCEEEcc------CcEEEEEeeccchHHHHHHH
Confidence            399999999999999999999999999999999998878877767778999999      99999999999999999876


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .|..
T Consensus        85 ~~~~   88 (234)
T d1irue_          85 ARVE   88 (234)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6643

>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=99.78  E-value=5.6e-20  Score=130.55  Aligned_cols=78  Identities=23%  Similarity=0.420  Sum_probs=71.4

Q ss_pred             CCcchHHHHHHHHHhccC-cEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           1 MSRLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~-~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      -|||+|||||+||+++|+ |+|||+++|||||+++++..+.+...+...||++|+      +++.++++|..+|.+.|+.
T Consensus        18 ~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~   91 (244)
T d1irua_          18 EGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTVTHLFKIT------ENIGCVMTGMTADSRSQVQ   91 (244)
T ss_dssp             TSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGCCSEEESS------SSCEEEEEECHHHHHHHHH
T ss_pred             CCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCccceEEEec------CCcEEEEecchHHHHHHHH
Confidence            399999999999999987 799999999999999998888888777789999999      9999999999999999987


Q ss_pred             hhhhc
Q psy6595          80 EKRNT   84 (108)
Q Consensus        80 ~~r~~   84 (108)
                      ..|..
T Consensus        92 ~~r~~   96 (244)
T d1irua_          92 RARYE   96 (244)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77654

>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=99.78  E-value=6.3e-20  Score=129.86  Aligned_cols=77  Identities=29%  Similarity=0.482  Sum_probs=70.0

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||||||||+||+++|+|+|||+++||||++++++..+.+.  .++.||++|+      ++++++++|..+|...++..
T Consensus        13 ~Grl~QvEYA~kav~~G~t~vgik~~dgVvlaad~~~~~~~~--~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   84 (238)
T d1iruf_          13 QGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELA--AHQKKILHVD------NHIGISIAGLTADARLLCNF   84 (238)
T ss_dssp             TSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTB--CCCCCEEEEE------TTEEEEEEECHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccccCCC--CccceEEEeC------CceEEEEeccchHHHHHHHH
Confidence            399999999999999999999999999999999998877765  4678999999      99999999999999999987


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .|...
T Consensus        85 ~~~~~   89 (238)
T d1iruf_          85 MRQEC   89 (238)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            77543

>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=99.78  E-value=6.3e-20  Score=128.83  Aligned_cols=78  Identities=24%  Similarity=0.371  Sum_probs=71.5

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      .|||||||||+||+++|+|+||++++||||++++++....+.......|+|+|+      ++..++++|..+|...++..
T Consensus        15 ~Gr~~Qveya~kav~~G~tvigik~~dgVvlaaD~r~~~~~~~~~~~~ki~~i~------~~i~~~~sG~~~D~~~l~~~   88 (233)
T d1irub_          15 SGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSVHKVEPIT------KHIGLVYSGMGPDYRVLVHR   88 (233)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTCCSSEESS------SSEEEEEEECHHHHHHHHHH
T ss_pred             CCcChHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCcccCCccccccceEEEec------CceEEEEeccchHHHHHHHH
Confidence            399999999999999999999999999999999998877777777889999999      99999999999999999877


Q ss_pred             hhhc
Q psy6595          81 KRNT   84 (108)
Q Consensus        81 ~r~~   84 (108)
                      .+..
T Consensus        89 ~~~~   92 (233)
T d1irub_          89 ARKL   92 (233)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>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=99.77  E-value=6.9e-20  Score=130.00  Aligned_cols=79  Identities=29%  Similarity=0.503  Sum_probs=71.7

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAE   80 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~   80 (108)
                      -|||+|||||+||+++|+|+|||+++||||++++++....+.......||++|+      +++.++++|..+|...++..
T Consensus        15 ~Grl~QvEya~kav~~G~t~Igik~~dgVvlaad~r~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~   88 (243)
T d1j2pa_          15 DGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTIEKIYKID------EHICAATSGLVADARVLIDR   88 (243)
T ss_dssp             TSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGCCSEEECS------SSEEEEEEECHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHHcCCCEEEEEECCEEEEEEecCccccCccccccccEeecC------CcEEEEeeecccHHHHHHHH
Confidence            399999999999999999999999999999999998888877666678999999      99999999999999999877


Q ss_pred             hhhcc
Q psy6595          81 KRNTN   85 (108)
Q Consensus        81 ~r~~~   85 (108)
                      .+...
T Consensus        89 ~~~~~   93 (243)
T d1j2pa_          89 ARIEA   93 (243)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76543

>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=99.77  E-value=1.4e-19  Score=128.12  Aligned_cols=76  Identities=29%  Similarity=0.533  Sum_probs=70.3

Q ss_pred             CcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhh
Q psy6595           2 SRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEK   81 (108)
Q Consensus         2 Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~   81 (108)
                      |||+|||||+||+++|+|+||++++|||+++++++...++...+...|++.|+      +++.++++|..+|+..+....
T Consensus        11 G~l~Qveya~~a~~~G~t~Vgi~~~dgVvla~d~r~~~~~~~~~~~~Ki~~i~------~~i~~~~sG~~~D~~~l~~~~   84 (242)
T d1rype_          11 GRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEID------RHIGCAMSGLTADARSMIEHA   84 (242)
T ss_dssp             SCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGCCCEEEEE------TTEEEEEEESGGGHHHHHHHH
T ss_pred             CcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCccCcCcccCccceEEEcC------CCEEEEEeecchhHHHHHHHH
Confidence            99999999999999999999999999999999998877777666779999999      999999999999999998766


Q ss_pred             hh
Q psy6595          82 RN   83 (108)
Q Consensus        82 r~   83 (108)
                      +.
T Consensus        85 ~~   86 (242)
T d1rype_          85 RT   86 (242)
T ss_dssp             HH
T ss_pred             HH
Confidence            64

>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=99.77  E-value=9.1e-20  Score=129.74  Aligned_cols=73  Identities=60%  Similarity=0.902  Sum_probs=68.0

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+||+.+++|||+|||+|||||+||++++++++|++++||++|+.++|.+..++......+||+.|++|++++
T Consensus         2 ~~yd~~~t~fsp~Grl~QvEyA~kav~~G~tvvgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~   74 (250)
T d1iruc_           2 RRYDSRTTIFSPEGRLYQVEYAMEAIGHAGTCLGILANDGVLLAAERRNIHKLLDEVFFSEKIYKLNEDMACS   74 (250)
T ss_dssp             TTTCCCTTCCCTTSCCHHHHHHHHHHTTSCCEEEEBCSSEEEEEECCCCCCTTBCCCSSCSSEEECSSSEEEE
T ss_pred             CccCCCCeeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEeCccccCCcccCcccceEEECCCcEEEE
Confidence            4799999999999999999999999999999999999999999999998888887655558999999999986

>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=99.77  E-value=1.1e-19  Score=129.25  Aligned_cols=73  Identities=26%  Similarity=0.433  Sum_probs=68.0

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .++||+.+++|||+|||+|||||+||+++|++++|++.+||++|++++|.+.+++..+.. +||+.|++|++|+
T Consensus         2 ~~~yd~~~t~fsp~G~l~QvEyA~kav~~G~tvvgi~~~dgVvlaad~r~~~~~~~~~~~-~ki~~I~~~i~~~   74 (250)
T d1rypb_           2 TDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETL-SKVSLLTPDIGAV   74 (250)
T ss_dssp             CCCCCSBSSCBCTTSCBHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCSSBCGGGC-CSSEEEETTEEEE
T ss_pred             CccccCCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCcccccccc-ceeEeccCCEEEE
Confidence            467999999999999999999999999999999999999999999999988888777666 8999999999986

>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=99.76  E-value=1.6e-19  Score=127.89  Aligned_cols=79  Identities=23%  Similarity=0.378  Sum_probs=71.6

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      -|||||||||+||+++|+|+|||+++|||||+++++....+.+.+ +..||++|+      ++..++++|..+|+..|+.
T Consensus        12 ~Grl~QvEya~kav~~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~   85 (241)
T d1rypd_          12 DGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKID------SHVVLSFSGLNADSRILIE   85 (241)
T ss_dssp             TTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEE------TTEEEEEEECHHHHHHHHH
T ss_pred             CCcEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeC------CCEEEEeeeccchHHHHHH
Confidence            399999999999999999999999999999999999888887665 457999999      9999999999999999998


Q ss_pred             hhhhcc
Q psy6595          80 EKRNTN   85 (108)
Q Consensus        80 ~~r~~~   85 (108)
                      ..|...
T Consensus        86 ~~~~~~   91 (241)
T d1rypd_          86 KARVEA   91 (241)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776543

>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=99.76  E-value=1.5e-19  Score=128.53  Aligned_cols=72  Identities=28%  Similarity=0.553  Sum_probs=67.8

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ..||+.+++|+|+|||+|||||+||++++++++|++++||++|+.++|.+..++.++.. +||+.|++|++|+
T Consensus         5 ~~yd~~~t~Fsp~Grl~QvEYa~~av~~G~t~VGik~~dgVvlaad~~~~~~~~~~~~~-~Ki~~I~~~i~~~   76 (245)
T d1irug_           5 TGYDLSASTFSPDGRVFQVEYAMKAVENSSTAIGIRCKDGVVFGVEKLVLSKLYEEGSN-KRLFNVDRHVGMA   76 (245)
T ss_dssp             SSTTSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSBEEEEEEEECSCTTBCTTTT-CCEEEEETTEEEE
T ss_pred             cccCCCCceECCCCeehHHHHHHHHHHcCCcEEEEEeCCEEEEEEeccccccccccCcc-ceEEEcCCCEEEE
Confidence            47999999999999999999999999999999999999999999999988888877766 9999999999986

>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=99.76  E-value=1.4e-19  Score=128.25  Aligned_cols=79  Identities=20%  Similarity=0.301  Sum_probs=71.6

Q ss_pred             CCcchHHHHHHHHHhccC-cEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           1 MSRLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~-~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      .|||+|||||+||+++++ |+|||+++||||++++++...++.......|+++|+      ++++++++|..+|.+.++.
T Consensus        13 ~Grl~QvEYA~~av~~~g~T~igik~~dgVvlaad~r~~~~l~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~   86 (243)
T d1rypa_          13 EGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCIS------RTIGMVVNGPIPDARNAAL   86 (243)
T ss_dssp             TSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGCCSEEECS------SSCEEEEESCHHHHHHHHH
T ss_pred             CCeehHHHHHHHHHHccCceEEEEEcCCEEEEEEeccccccccccCcccceEecC------CCEEEEEecCcHHHHHHHH
Confidence            399999999999999866 899999999999999998888887777888999999      9999999999999999987


Q ss_pred             hhhhcc
Q psy6595          80 EKRNTN   85 (108)
Q Consensus        80 ~~r~~~   85 (108)
                      ..|...
T Consensus        87 ~~~~~~   92 (243)
T d1rypa_          87 RAKAEA   92 (243)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            776543

>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=99.74  E-value=5.1e-19  Score=125.35  Aligned_cols=78  Identities=40%  Similarity=0.630  Sum_probs=70.4

Q ss_pred             CCcchHHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehh
Q psy6595           1 MSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAA   79 (108)
Q Consensus         1 ~Gr~~qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~   79 (108)
                      -|||||||||+||+++|+|+|||+++|||||+++++....+.+.+ ...|+++|+      +++.++++|..+|...++.
T Consensus        15 ~G~~~Qveya~~ai~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~   88 (244)
T d1rypc_          15 EGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLN------DKIAVAVAGLTADAEILIN   88 (244)
T ss_dssp             TSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESS------SSEEEEEEECHHHHHHHHH
T ss_pred             CCcChHHHHHHHHHhcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcC------CCeEEEEecccCcHHHHHH
Confidence            399999999999999999999999999999999998877776655 468999999      9999999999999998887


Q ss_pred             hhhhc
Q psy6595          80 EKRNT   84 (108)
Q Consensus        80 ~~r~~   84 (108)
                      ..|..
T Consensus        89 ~~~~~   93 (244)
T d1rypc_          89 TARIH   93 (244)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            76643

>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=99.74  E-value=4.5e-19  Score=125.88  Aligned_cols=71  Identities=31%  Similarity=0.428  Sum_probs=67.4

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .||+.+++|||+|||+|||||+||++++++++|++.+||++|+.++|.+..++..+.. +||+.|++|++++
T Consensus         3 gyd~~~t~fsp~Grl~QvEya~kav~~G~t~igik~~dgVvlaad~~~~~~~~~~~~~-~KI~~I~~~i~~~   73 (244)
T d1rypg_           3 GYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKN-VKIQVVDRHIGCV   73 (244)
T ss_dssp             CTTSSTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEEEECCCTTBCTTTS-CCCEEETTTEEEE
T ss_pred             CcCCCCceECCCCeehHHHHHHHHHHcCCCEEEEEeCCEEEEEEecccCCCCcccccc-ceEEEccCceEEE
Confidence            6899999999999999999999999999999999999999999999998888887776 8999999999986

>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=99.74  E-value=7e-19  Score=123.97  Aligned_cols=70  Identities=33%  Similarity=0.546  Sum_probs=65.5

Q ss_pred             ccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          37 LNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        37 ~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ||+.+++|||+||++|||||+||+++|++++|++++||++|+.+++.+.++...+.. +||+.|++|++++
T Consensus         1 yd~~~t~fsp~G~l~QvEYa~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~~~~~-~KI~~I~~~i~~~   70 (234)
T d1irue_           1 YDRGVNTFSPEGRLFQVEYDIEAIKLGSTAIGIQTSEGVCLAVEKRITSPLMEPSSI-EKIVEIDAHIGCA   70 (234)
T ss_dssp             CCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECCCCCTTBCTTSC-CSEEEEETTEEEE
T ss_pred             CCCCCceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEecCccCCCcccCcc-cCEEEccCcEEEE
Confidence            688999999999999999999999999999999999999999999988888876655 8999999999986

>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=99.74  E-value=4.7e-19  Score=124.30  Aligned_cols=73  Identities=26%  Similarity=0.505  Sum_probs=68.0

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ++.||+.+++|||+||++|||||+||+++|++++|++++|+++|+.++|.+..++..+.. +|||.|++|++|+
T Consensus         2 ~~gyd~~~t~fsp~Gr~~Qveya~kav~~G~tvigik~~dgVvlaaD~r~~~~~~~~~~~-~ki~~i~~~i~~~   74 (233)
T d1irub_           2 ERGYSFSLTTFSPSGKLVQIEYALAAVAGGAPSVGIKAANGVVLATEKKQKSILYDERSV-HKVEPITKHIGLV   74 (233)
T ss_dssp             CCCCCSBSCCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSCEEEEEECCCCCSSBCSTTC-CSSEESSSSEEEE
T ss_pred             CCCcCCCCCeECCCCcChHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCcccCCcccccc-ceEEEecCceEEE
Confidence            568999999999999999999999999999999999999999999999988887776666 8999999999986

>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=99.74  E-value=8.3e-19  Score=124.26  Aligned_cols=74  Identities=49%  Similarity=0.838  Sum_probs=68.5

Q ss_pred             eecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          34 EKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        34 ~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .++||+.+++|||+||++|||||+||++++++++|++.+||++|+.++|.+..+.......+||+.|++|++++
T Consensus         2 ~~~yd~~~t~fsp~G~~~Qveya~~ai~~G~T~vgi~~~dgVvlaad~r~s~~~~~~~~~~~KI~~i~~~i~~~   75 (244)
T d1rypc_           2 SRRYDSRTTIFSPEGRLYQVEYALESISHAGTAIGIMASDGIVLAAERKVTSTLLEQDTSTEKLYKLNDKIAVA   75 (244)
T ss_dssp             CGGGCCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEEETTEEEEEEECSSCCSSBCSTTCCSSEEESSSSEEEE
T ss_pred             CCccCCCceeECCCCcChHHHHHHHHHhcCCCEEEEEeCCEEEEEEeCCccCCCcccCCccceEEEcCCCeEEE
Confidence            35799999999999999999999999999999999999999999999999888877665559999999999986

>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=99.74  E-value=4.6e-19  Score=125.61  Aligned_cols=70  Identities=33%  Similarity=0.534  Sum_probs=66.0

Q ss_pred             ccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          37 LNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        37 ~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ||+.+++|||+|||+|||||++|+++|++++|++++||++|+.++|...++...+.. +||+.|++|++|+
T Consensus         2 yd~~~t~Fsp~Grl~QvEya~kav~~G~Tvvgik~~dgVvla~d~r~~~~~~~~~~~-~KI~~i~~~i~~~   71 (243)
T d1irud_           2 YDRAITVFSPDGHLFQVEYAQEAVKKGSTAVGVRGRDIVVLGVEKKSVAKLQDERTV-RKICALDDNVCMA   71 (243)
T ss_dssp             CCCCCSCCCTTSCCHHHHHHHHHHHTSCCEEEECCSSEEEEEECCCCCCSSSCGGGG-CSEEESSSSCEEE
T ss_pred             CCCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEeccccCcccCCCcc-ccEEECCCCEEEE
Confidence            789999999999999999999999999999999999999999999988888877666 8999999999986

>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=99.73  E-value=8e-19  Score=124.10  Aligned_cols=70  Identities=26%  Similarity=0.460  Sum_probs=65.2

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ++||+.+++|||+||++|||||++|+++|++++|++++|+++|++++|.++.+.++  . +||+.|++|++++
T Consensus         1 ~~yd~~~tiFsp~Grl~QvEYA~kav~~G~t~vgik~~dgVvlaad~~~~~~~~~~--~-~KI~~I~~~i~~~   70 (238)
T d1iruf_           1 NQYDNDVTVWSPQGRIHQIEYAMEAVKQGSATVGLKSKTHAVLVALKRAQSELAAH--Q-KKILHVDNHIGIS   70 (238)
T ss_dssp             CTTTSCTTCCCTTSCCHHHHHHHHHHHHSCCEEEEECSSEEEEEEECCCSSTTBCC--C-CCEEEEETTEEEE
T ss_pred             CCCCCCCeeECCCCcchHHHHHHHHHhcCCCEEEEEeCCEEEEEEecccccCCCCc--c-ceEEEeCCceEEE
Confidence            46999999999999999999999999999999999999999999999998888763  3 8999999999986

>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=99.73  E-value=7.1e-19  Score=124.68  Aligned_cols=72  Identities=36%  Similarity=0.623  Sum_probs=67.4

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      -.||+.+++|||+||++|||||+||++++++++|++++||++|+.++|.+..++..+.. +||+.|++|++|+
T Consensus         3 ~gyd~~~t~fsp~Grl~QvEya~kav~~G~t~Igik~~dgVvlaad~r~~~~~~~~~~~-~KI~~I~~~i~~~   74 (243)
T d1j2pa_           3 MGYDRAITVFSPDGRLFQVEYAREAVKRGATAIGIKCKEGVILIADKRVGSKLLEKDTI-EKIYKIDEHICAA   74 (243)
T ss_dssp             TTSSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEEETTEEEEEEECCCSCTTBCGGGC-CSEEECSSSEEEE
T ss_pred             CCcCCCCccCCCCCcchHHHHHHHHHHcCCCEEEEEECCEEEEEEecCccccCcccccc-ccEeecCCcEEEE
Confidence            36899999999999999999999999999999999999999999999998888877655 9999999999986

>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=99.73  E-value=1e-18  Score=123.71  Aligned_cols=72  Identities=26%  Similarity=0.478  Sum_probs=67.0

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .||+.+++|||+||++|||||+||+++|++++|++++|+++|++++|.+..+++.+...+||+.|++|++|+
T Consensus         1 gyd~~~t~fsp~Grl~QvEya~kav~~G~tvIgik~~dgVvlaad~~~~~~~~~~~~~~~KI~~I~~~i~~~   72 (241)
T d1rypd_           1 GYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLS   72 (241)
T ss_dssp             CCCCCCSCCBTTTBCHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSCCBCTTTSCCSEEEEETTEEEE
T ss_pred             CCCCCCceECCCCcEeHHHHHHHHHHcCCCEEEEEeCCEEEEEEEccccccCcccccccccEEEeCCCEEEE
Confidence            488999999999999999999999999999999999999999999999999887654458999999999986

>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=99.73  E-value=8.6e-19  Score=124.33  Aligned_cols=72  Identities=28%  Similarity=0.590  Sum_probs=66.7

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccc-eeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~-~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ..||+.+++|||+||++|||||+||+++++ +++|++++|++||+.++|.+..++..+.. +||+.|++|++|+
T Consensus         6 ~gyd~~~t~Fsp~Grl~QvEYA~kav~~gg~t~igIk~~dgVVlaad~r~~~~~~~~~~~-~KI~~I~~~i~~~   78 (244)
T d1irua_           6 AGFDRHITIFSPEGRLYQVEYAFKAINQGGLTSVAVRGKDCAVIVTQKKVPDKLLDSSTV-THLFKITENIGCV   78 (244)
T ss_dssp             CTTTTTSSCCCTTSCCHHHHHHHHHHHTTCCEEEEEECSSEEEEEEECCCCCSSBCGGGC-CSEEESSSSCEEE
T ss_pred             CCcCCCCceECCCCeEhHHHHHHHHHHhCCccEEEEEcCCEEEEEEecccccccccCCcc-ceEEEecCCcEEE
Confidence            469999999999999999999999999986 78999999999999999998888887665 8999999999986

>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=99.72  E-value=1.5e-18  Score=122.80  Aligned_cols=71  Identities=25%  Similarity=0.498  Sum_probs=65.4

Q ss_pred             cccccccccCccCCeeeehhHHHhhcccc-eeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          36 RLNQDFSFLPHMSRLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        36 ~~~~~l~~~s~~gki~qieya~~av~~~~-~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .||+.+++|||+|||+|||||+||+++++ +++|++++|++||+.++|.+.++...+.. +||+.|++|++|+
T Consensus         2 gyd~~~t~fsp~Grl~QvEYA~~av~~~g~T~igik~~dgVvlaad~r~~~~l~~~~~~-~KI~~i~~~i~~~   73 (243)
T d1rypa_           2 GYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTV-SYIFCISRTIGMV   73 (243)
T ss_dssp             GGGGTSSSCCTTSCCHHHHHHHHHTTTTCCCEEEEECSSEEEEEEECCCCCTTBCGGGC-CSEEECSSSCEEE
T ss_pred             CCCCCCCeECCCCeehHHHHHHHHHHccCceEEEEEcCCEEEEEEeccccccccccCcc-cceEecCCCEEEE
Confidence            58999999999999999999999999866 79999999999999999988888777666 8999999999986

>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=99.71  E-value=2.5e-18  Score=121.17  Aligned_cols=70  Identities=30%  Similarity=0.466  Sum_probs=64.6

Q ss_pred             ecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          35 KRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        35 k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +.||+.+++|||+||++|||||+||++++++++|++++|+++|+.++|.++.+.+  +. +||+.|++|++|+
T Consensus         3 ~~yd~~~t~FspdGrl~QvEyA~kav~~g~t~igi~~~dgvvlaad~~~~~~l~~--~~-~KI~~I~~~i~~~   72 (233)
T d1rypf_           3 NNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSS--YQ-KKIIKCDEHMGLS   72 (233)
T ss_dssp             HHHSSCTTCCCTTSCCHHHHHHHHHHHTSCCEEEEECSSEEEEEEECCCSSTTBC--CC-CCEEEEETTEEEE
T ss_pred             ccccCCCceECCCCcChHHHHHHHHHHcCCCEEEEEECCeEEEEEeccccccCCc--ch-heEEEcCCCEEEE
Confidence            3689999999999999999999999999999999999999999999998888754  34 8999999999986

>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=99.71  E-value=2.8e-18  Score=121.25  Aligned_cols=69  Identities=35%  Similarity=0.603  Sum_probs=64.0

Q ss_pred             cccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          38 NQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        38 ~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      |+.+++|||+||++|||||+||+++|++++|++++||++|+.++|.+.++...+.. +|||.|+++++|+
T Consensus         1 d~~~t~fsp~G~l~Qveya~~a~~~G~t~Vgi~~~dgVvla~d~r~~~~~~~~~~~-~Ki~~i~~~i~~~   69 (242)
T d1rype_           1 DRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSI-EKIVEIDRHIGCA   69 (242)
T ss_dssp             CCCTTCBCTTSCBHHHHHHHHHHTTSCCEEEEECSSCEEEEEECCCSSTTBCGGGC-CCEEEEETTEEEE
T ss_pred             CCCcceECCCCcchHHHHHHHHHHcCCCEEEEEeCCEEEEEEeCCccCcCcccCcc-ceEEEcCCCEEEE
Confidence            56789999999999999999999999999999999999999999988887766655 9999999999986

>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=99.69  E-value=5.2e-18  Score=118.43  Aligned_cols=65  Identities=32%  Similarity=0.584  Sum_probs=60.4

Q ss_pred             cccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          42 SFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        42 ~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      ++|||+||++|||||+||++++++++|++++||++|+.++|.+.++...+.. +||+.|++|++++
T Consensus         1 t~fsp~G~l~QvEYa~~av~~G~t~vgi~~~dgVvlaad~r~~~~~~~~~~~-~Ki~~I~~~i~~~   65 (221)
T d1yara1           1 TVFSPDGRLFQVEYAREAVKKGSTALGMKFANGVLLISDKKVRSRLIEQNSI-EKIQLIDDYVAAV   65 (221)
T ss_dssp             CCCCTTSCCHHHHHHHHHHTTSCCEEEEEETTEEEEEECCCCCCTTBCSTTC-CSEEEEETTEEEE
T ss_pred             CeECCCCcchHHHHHHHHHhcCCcEEEEEeCCEEEEEEecccCCcccccCcc-ceEEEecCCceEE
Confidence            5799999999999999999999999999999999999999988888776665 8999999999986

>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=99.50  E-value=5.5e-15  Score=103.63  Aligned_cols=66  Identities=15%  Similarity=0.117  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhccCcEEEEeeCCeEEEEEeecccccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595           6 QVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus         6 qveya~~av~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      |+|||+||+++|+|+|||+++|||||+++++.       +...||++|+      ++++++++|..+|+..|+...|..
T Consensus         8 q~eyA~~av~~GtT~vgi~~~~GVvlaad~r~-------~s~~KI~~i~------~~i~~~~sG~~aD~~~l~~~~r~~   73 (227)
T d1q5qa_           8 RSELARKGIARGRSVVVLTFRDGVLFVAENPS-------TALHKVSELY------DRLGFAAVGKYNEFENLRRAGIVH   73 (227)
T ss_dssp             HHHHHHHHHHTSCCEEEEECSSEEEEEECCSC-------SSSCSEEEEE------TTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCEEEEEECCEEEEEEccCC-------CCcceEEEec------CceEEEecCchHHHHHHHHHHHHH
Confidence            99999999999999999999999999999864       2457999999      999999999999999998776653

>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=98.83  E-value=1e-09  Score=76.22  Aligned_cols=48  Identities=27%  Similarity=0.407  Sum_probs=43.9

Q ss_pred             eehhHHHhhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          52 QVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        52 qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      |+|||++|+++|.+++|++++||+||++++|.+       +. +||+.|++||+|+
T Consensus         8 q~eyA~~av~~GtT~vgi~~~~GVvlaad~r~~-------s~-~KI~~i~~~i~~~   55 (227)
T d1q5qa_           8 RSELARKGIARGRSVVVLTFRDGVLFVAENPST-------AL-HKVSELYDRLGFA   55 (227)
T ss_dssp             HHHHHHHHHHTSCCEEEEECSSEEEEEECCSCS-------SS-CSEEEEETTEEEE
T ss_pred             HHHHHHHHHhcCCCEEEEEECCEEEEEEccCCC-------Cc-ceEEEecCceEEE
Confidence            899999999999999999999999999998752       23 8999999999986

>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=98.69  E-value=1.8e-09  Score=73.64  Aligned_cols=66  Identities=18%  Similarity=0.212  Sum_probs=55.7

Q ss_pred             HhccCcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcc
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTN   85 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~   85 (108)
                      ++.|+|+|||+++|||||+++++.....++.+ ...|+++|+      ++..++++|..+|...|+...+...
T Consensus         6 v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~------~~i~~~~sG~~aD~~~l~~~~~~~~   72 (205)
T d1ryph_           6 VSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVH------DKIWCCRSGSAADTQAIADIVQYHL   72 (205)
T ss_dssp             CBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEE------TTEEEEEEEBHHHHHHHHHHHHHHH
T ss_pred             ccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEcc------CceEEeeccchhHHHHHHHHHHHHH
Confidence            78999999999999999999987655444444 558999999      9999999999999998887666543

>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=98.69  E-value=1.2e-09  Score=75.64  Aligned_cols=66  Identities=12%  Similarity=0.137  Sum_probs=56.2

Q ss_pred             HHHhccCcEEEEeeCCeEEEEEeeccc-ccccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          12 EAISHAGTCLGILAQDGILLAAEKRLN-QDFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        12 ~av~~g~~~vgi~~~~gvvl~~~k~~~-~~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +++..|+|+||++++|||||+++++.. ..+..+....||++|+      +++.++++|..+|+..+....+.
T Consensus         3 ~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~l~~   69 (233)
T d1ryp2_           3 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVG------DNTVVGISGDISDMQHIERLLKD   69 (233)
T ss_dssp             CCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEET------TTEEEEEEEEHHHHHHHHHHHHH
T ss_pred             CCccccceEEEEEECCEEEEEECCCcccCCeeecCCcceEEEeC------CCEEEEeccCchHHHHHHHHHHH
Confidence            456789999999999999999998754 4555556678999999      99999999999999988876554

>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=98.67  E-value=2.4e-09  Score=72.38  Aligned_cols=64  Identities=20%  Similarity=0.264  Sum_probs=54.7

Q ss_pred             hccCcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          15 SHAGTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        15 ~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .+|+|+|||+++||||++++++.....+.. ....||++|+      ++..++++|..+|++.+....|..
T Consensus         7 ~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~------~~i~~~~aG~~~D~~~l~~~~~~~   71 (213)
T d1iru1_           7 FNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLT------DKTVIGCSGFHGDCLTLTKIIEAR   71 (213)
T ss_dssp             CCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcC------CCEEEEecCccchHHHHHHHHHHH
Confidence            589999999999999999998866554443 4568999999      999999999999999888776654

>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=98.59  E-value=5.2e-09  Score=71.69  Aligned_cols=66  Identities=24%  Similarity=0.276  Sum_probs=56.2

Q ss_pred             HhccCcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhcc
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTN   85 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~~   85 (108)
                      +.+|+|+||++++||||++++++......+. +...||++|+      ++..++++|..+|+..|....|...
T Consensus         6 ~~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~------~~i~~~~sG~~~D~~~l~~~~~~~~   72 (222)
T d1ryp1_           6 GDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCG------DNIVMSANGFAADGDALVKRFKNSV   72 (222)
T ss_dssp             CCCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECS------TTCEEEEEESHHHHHHHHHHHHHHH
T ss_pred             cCCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEec------CCEEEEeccChHHHHHHHHHHHHHh
Confidence            3689999999999999999999876665543 4568999999      9999999999999999987766543

>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=98.49  E-value=1.1e-08  Score=69.42  Aligned_cols=65  Identities=14%  Similarity=0.242  Sum_probs=54.9

Q ss_pred             HhccCcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        14 v~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .-+|+|+||++.+||||++++++......+. ....|+++|+      ++..++++|..+|...+....+..
T Consensus         4 ~~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~------~~i~~~~sG~~aD~~~l~~~~~~~   69 (204)
T d1iruj_           4 SYNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMG------DRLYIGLAGLATDVQTVAQRLKFR   69 (204)
T ss_dssp             TSSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECS------TTEEEECCSCHHHHHHHHHHHHHH
T ss_pred             eeCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeC------CCeEEEeccCchHHHHHHHHHHHh
Confidence            3579999999999999999999876555443 4558999999      999999999999999888766543

>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=98.43  E-value=3e-08  Score=66.69  Aligned_cols=60  Identities=23%  Similarity=0.365  Sum_probs=50.0

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +|+|||+++|||||+++++... .+.......||++|+      +++.++++|..+|+..|....+.
T Consensus         1 TT~vgi~~~dgVvlaaD~r~s~~~~~~~~~~~Ki~~i~------~~i~~~~sG~~~D~~~l~~~~~~   61 (202)
T d1j2qh_           1 TTTVGLVCKDGVVMATEKRATMGNFIASKAAKKIYQIA------DRMAMTTAGSVGDAQFLARIIKI   61 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCeeccCccceEEEec------CcEEEEecCcchhHHHHHHHHHH
Confidence            5899999999999999987543 333334568999999      99999999999999999876654

>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=98.38  E-value=5.5e-08  Score=66.39  Aligned_cols=64  Identities=16%  Similarity=0.136  Sum_probs=52.8

Q ss_pred             HHhccCcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhh
Q psy6595          13 AISHAGTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR   82 (108)
Q Consensus        13 av~~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r   82 (108)
                      .+..|+|+|||+++||||++++++... .+.......||++|+      ++..++++|..+|...|....+
T Consensus         4 ~~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~------~~i~~~~sG~~aD~~~l~~~~~   68 (217)
T d1iru2_           4 PMVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNISRIMRVN------NSTMLGASGDYADFQYLKQVLG   68 (217)
T ss_dssp             CCSEECCCEEEEETTEEEEEEECCEEETTEEEECSCCCEEEET------TTEEEEEEEEHHHHHHHHHHHH
T ss_pred             CcCcccEEEEEEECCEEEEEEcCCcccCCeeecCCcceEEEeC------CCeEEEeccccHHHHHHHHHHH
Confidence            356899999999999999999987643 343334568999999      9999999999999988776543

>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=98.36  E-value=3.5e-08  Score=66.69  Aligned_cols=60  Identities=13%  Similarity=0.113  Sum_probs=49.9

Q ss_pred             CcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +|+||++++|||||+++++.....++. ....|+|+|+      +++.++++|..+|...+....+.
T Consensus         1 TT~igi~~~dgVvlaaD~~~t~g~~~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~~~~   61 (201)
T d1irul_           1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEIN------PYLLGTMAGGAADCSFWERLLAR   61 (201)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEECCBCHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCCEeecCCcccEEEeC------CcEEEEEcCccchHHHHHHHHHH
Confidence            589999999999999998765444433 3568999999      99999999999999988866554

>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=98.34  E-value=7.1e-08  Score=65.14  Aligned_cols=60  Identities=23%  Similarity=0.447  Sum_probs=50.8

Q ss_pred             CcEEEEeeCCeEEEEEeecccc-cccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQ-DFSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~-~l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +|+||++++||||++++++... .+.......|+++|+      +++.++++|..+|...++...|.
T Consensus         1 TT~igi~~kdgVvia~D~r~s~~~~~~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~~~~   61 (203)
T d1yarh1           1 TTTVGITLKDAVIMATERRVTMENFIMHKNGKKLFQID------TYTGMTIAGLVGDAQVLVRYMKA   61 (203)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCEEEEEECCCcccCCEeecCCcccEEEec------CCeeeecCCCcchHHHHHHHHHH
Confidence            5899999999999999987543 344456779999999      99999999999999998876654

>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=98.34  E-value=4.3e-08  Score=66.79  Aligned_cols=61  Identities=16%  Similarity=0.144  Sum_probs=51.2

Q ss_pred             CcEEEEeeCCeEEEEEeeccccc-ccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQD-FSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~-l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|+||++++|||||+++++.... +.......||++|+      +++.++++|..+|.+.|+...|..
T Consensus         1 TT~iai~~kdgVvlaaD~r~t~g~~i~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~~~~~   62 (212)
T d1rypl_           1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTVKRVIEIN------PFLLGTMAGGAADCQFWETWLGSQ   62 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEECCBCHHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCccccCceeecCCcceEEEEC------CcEEEEeccchHHHHHHHHHHHHH
Confidence            58999999999999999876544 43445669999999      999999999999999998766643

>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=98.33  E-value=7.4e-08  Score=65.92  Aligned_cols=61  Identities=20%  Similarity=0.254  Sum_probs=51.6

Q ss_pred             CcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +|+|||+++|||||+++++.....++.+ ...||++|+      ++..++++|..+|...+....+..
T Consensus         1 TTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~KI~~i~------~~i~~~~aG~~~D~~~l~~~~~~~   62 (220)
T d1irui_           1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFIS------PNIYCCGAGTAADTDMTTQLISSN   62 (220)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEE------TTEEEEEEESHHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCEeecCCcccEEEec------CcEEEEEccccHHHHHHHHHHHHH
Confidence            5899999999999999988766665544 457999999      999999999999999988765543

>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=98.31  E-value=9.6e-08  Score=63.13  Aligned_cols=61  Identities=13%  Similarity=0.155  Sum_probs=51.6

Q ss_pred             CcEEEEeeCCeEEEEEeecccccccccC-ccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~s-~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      +++|||+++||||++++++........+ ...||++|+      ++..++++|..+|...+....|..
T Consensus         2 t~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~------~~i~~~~~G~~aD~~~l~~~~~~~   63 (199)
T d1iruk_           2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMS------EKILLLCVGEAGDTVQFAEYIQKN   63 (199)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECS------SSEEEEEEESTTHHHHHHHHHHHH
T ss_pred             eEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEec------CcEEEEecccchHHHHHHHHHHHH
Confidence            4799999999999999988665555543 558999999      999999999999999998777653

>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=98.31  E-value=7.3e-08  Score=64.90  Aligned_cols=61  Identities=25%  Similarity=0.286  Sum_probs=51.9

Q ss_pred             CcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhhc
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNT   84 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~~   84 (108)
                      .|+|||+++|||+++++++.....++. ....||++|+      ++..++++|..+|...++...|..
T Consensus         2 ~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~------~~i~~~~sG~~aD~~~l~~~~~~~   63 (198)
T d1rypk_           2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLS------PHTLMSFAGEAGDTVQFAEYIQAN   63 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEE------TTEEEEEEESHHHHHHHHHHHHHH
T ss_pred             eEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEec------CCEEEEecCCcccHHHHHHHHHHH
Confidence            489999999999999998766555544 4668999999      999999999999999998776653

>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=98.27  E-value=1.1e-07  Score=65.38  Aligned_cols=60  Identities=17%  Similarity=0.137  Sum_probs=50.0

Q ss_pred             CcEEEEeeCCeEEEEEeecccccccc-cCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSF-LPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~-~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +|+|||+++||||++++++.....++ .....||++|+      +++.++++|..+|...|....+.
T Consensus         1 TTiVgik~~dGVviaaD~r~s~g~~~~~~~~~KI~~I~------~~i~~~~sG~~aD~~~l~~~l~~   61 (222)
T d1rypi_           1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRIS------PKIWCAGAGTAADTEAVTQLIGS   61 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCceeecCCcccEEEEc------CCEEEEecccchHHHHHHHHHHH
Confidence            58999999999999999876544333 34568999999      99999999999999998866654

>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=98.24  E-value=1.4e-07  Score=64.29  Aligned_cols=60  Identities=18%  Similarity=0.205  Sum_probs=50.3

Q ss_pred             CcEEEEeeCCeEEEEEeeccccc-ccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQD-FSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~-l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +|+|||+++|||||+++++.... +.......||++|+      ++..++++|..+|.+.+....+.
T Consensus         1 TTivgi~~kdgVvlaaD~r~s~g~~i~~~~~~KI~~i~------~~i~~~~sG~~~D~~~l~~~~~~   61 (224)
T d1q5qh_           1 TTIVALTYKGGVLLAGDRRATQGNLIASRDVEKVYVTD------EYSAAGIAGTAGIAIELVRLFAV   61 (224)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeecCCcceEEEeC------CcEEEEecccchHHHHHHHHHHH
Confidence            58999999999999999876543 43445668999999      99999999999999988866554

>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=98.23  E-value=1.4e-07  Score=63.61  Aligned_cols=60  Identities=17%  Similarity=0.170  Sum_probs=50.3

Q ss_pred             CcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      +|+||++++|||||+++++.....++. +...||++|+      ++..++++|..+|...+....|.
T Consensus         1 TTivai~~~dgVvlaaD~r~t~g~~i~~~~~~KI~~i~------~~i~~~~sG~~aD~~~l~~~~~~   61 (202)
T d1iruh_           1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIH------DRIFCCRSGSAADTQAVADAVTY   61 (202)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEE------TTEEEEEEECHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCccccCCeeecCCcceEEEcC------CcEEEEeccchHHHHHHHHHHHH
Confidence            589999999999999998766544443 3558999999      99999999999999988876554

>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=98.21  E-value=2e-07  Score=62.66  Aligned_cols=62  Identities=18%  Similarity=0.206  Sum_probs=50.2

Q ss_pred             hccCcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCCeeeehhhhhh
Q psy6595          15 SHAGTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRN   83 (108)
Q Consensus        15 ~~g~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~~~~r~   83 (108)
                      .+|+|+|||+++||||++++++.....+.. +...|+++++       +..++++|..+|...|....|.
T Consensus         6 ~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i~-------~i~~~~~G~~~D~~~l~~~~~~   68 (204)
T d1rypj_           6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-------HVFLGITGLATDVTTLNEMFRY   68 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-------TEEEEEEECHHHHHHHHHHHHH
T ss_pred             cCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEcC-------CEEEEecCcchHHHHHHHHHHH
Confidence            479999999999999999998766555444 4468999985       5679999999999888765554

>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=98.02  E-value=1.3e-06  Score=58.38  Aligned_cols=47  Identities=30%  Similarity=0.310  Sum_probs=40.1

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .||++++|++++|+++|++++|.+..........+||+.|++|++++
T Consensus         7 ~nG~Tivai~~~dgVviaaD~r~t~g~~~~~~~~~KI~~i~~~i~~~   53 (213)
T d1iru1_           7 FNGGTILAIAGEDFAIVASDTRLSEGFSIHTRDSPKCYKLTDKTVIG   53 (213)
T ss_dssp             CCCCEEEEEEETTEEEEEEECCEEETTEEEESCCCCEEEEETTEEEE
T ss_pred             CCCcEEEEEEECCEEEEEECCccccCceeeccccCEEEEcCCCEEEE
Confidence            68999999999999999999998776555443448999999999986

>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=98.00  E-value=1.6e-06  Score=58.61  Aligned_cols=49  Identities=20%  Similarity=0.402  Sum_probs=40.6

Q ss_pred             hhcccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          59 AISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        59 av~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++++|++++||++|+.++|.+...+...+..+||+.|++|++|+
T Consensus         5 ~v~~GtTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~ki~~i~~~i~~~   53 (205)
T d1ryph_           5 EVSLGASIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCC   53 (205)
T ss_dssp             CCBCCCCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEE
T ss_pred             cccCcceEEEEEECCEEEEEECCccccCceeeccccceEEEccCceEEe
Confidence            3688999999999999999999987665554433349999999999986

>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=97.96  E-value=1.4e-06  Score=59.13  Aligned_cols=47  Identities=26%  Similarity=0.383  Sum_probs=40.7

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +||++++|++++|+++|++++|.+...+......+||++|++|++++
T Consensus         7 ~nG~Tivgi~~~dgVviaaD~r~s~~~~i~~~~~~KI~~I~~~i~~~   53 (222)
T d1ryp1_           7 DNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMS   53 (222)
T ss_dssp             CCCCEEEEEECSSCEEEEEECCEEETTEEEESCCCCCEECSTTCEEE
T ss_pred             CCCcEEEEEEECCEEEEEECCCcccCCEeccCCcceEEEecCCEEEE
Confidence            78999999999999999999998777765443448999999999986

>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=97.91  E-value=3.2e-06  Score=56.83  Aligned_cols=48  Identities=21%  Similarity=0.259  Sum_probs=41.1

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      -||++++|++..|+++|++++|.+...+......+||+.|++|++++.
T Consensus         5 ~nG~Tvigi~~~dgVvlaaD~r~s~g~~~~~~~~~Ki~~I~~~i~~~~   52 (204)
T d1iruj_           5 YNGGAVMAMKGKNCVAIAADRRFGIQAQLVTTDFQKIFPMGDRLYIGL   52 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEECSTTEEEEC
T ss_pred             eCCceEEEEEECCEEEEEECCCcccCCeeEcCcccEEEEeCCCeEEEe
Confidence            578999999999999999999988776664444589999999999874

>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=97.85  E-value=2.4e-06  Score=58.59  Aligned_cols=49  Identities=16%  Similarity=0.314  Sum_probs=40.8

Q ss_pred             HhhcccceeeeEeeCCeeeehhhhhhc-ccccccCccccceeeeccceeEe
Q psy6595          58 EAISHAGTCLGILAQDGILLAAEKRNT-NKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        58 ~av~~~~~~v~~~~~D~~vl~~~~r~~-~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +++..|++++|++++||++|++++|.+ ..+...+.. +||+.|++|++++
T Consensus         3 ~~i~tGtTivgi~~~dgVvlaaD~r~s~g~~~~~~~~-~KI~~i~~~i~~~   52 (233)
T d1ryp2_           3 QPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGV-ERLIPVGDNTVVG   52 (233)
T ss_dssp             CCCEEECCEEEEEETTEEEEEEECCEEETTEEEESCC-CCEEEETTTEEEE
T ss_pred             CCccccceEEEEEECCEEEEEECCCcccCCeeecCCc-ceEEEeCCCEEEE
Confidence            345788999999999999999999875 455555555 8999999999986

>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=97.75  E-value=9.2e-06  Score=54.35  Aligned_cols=45  Identities=22%  Similarity=0.245  Sum_probs=36.3

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~~  108 (108)
                      .+++|++.+||++|++++|.+...+......+|||.|+++++|++
T Consensus         1 TT~igi~~~dgVvlaaD~~~t~g~~~~~~~~~KI~~i~~~i~~~~   45 (201)
T d1irul_           1 TTTLAFKFRHGVIVAADSRATAGAYIASQTVKKVIEINPYLLGTM   45 (201)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEEETTEEEEC
T ss_pred             CeEEEEEECCEEEEEEcCccccCCEeecCCcccEEEeCCcEEEEE
Confidence            378999999999999999877655544333489999999999874

>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=97.67  E-value=9.1e-06  Score=54.97  Aligned_cols=47  Identities=17%  Similarity=0.293  Sum_probs=38.8

Q ss_pred             hcccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEe
Q psy6595          60 ISHAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        60 v~~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      +.+|++++|++++|+++|+.++|.+. .+...+.. +||+.|++|+++.
T Consensus         5 ~~~GtTivgi~~~dgVviaaD~r~t~g~~~~~~~~-~KI~~i~~~i~~~   52 (217)
T d1iru2_           5 MVTGTSVLGVKFEGGVVIAADMLGSYGSLARFRNI-SRIMRVNNSTMLG   52 (217)
T ss_dssp             CSEECCCEEEEETTEEEEEEECCEEETTEEEECSC-CCEEEETTTEEEE
T ss_pred             cCcccEEEEEEECCEEEEEEcCCcccCCeeecCCc-ceEEEeCCCeEEE
Confidence            47899999999999999999998764 34434444 8999999999886

>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=97.67  E-value=1.4e-05  Score=53.86  Aligned_cols=44  Identities=23%  Similarity=0.222  Sum_probs=36.2

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccc-cCccccceeeeccceeEeC
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLD-EGTTSEKIYKLHDSLNIIT  108 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~-~~~~~~kI~~I~~~ig~~~  108 (108)
                      .+++|++.+||++|++++|.+...+. .+.. +||+.|++|++|+.
T Consensus         1 TT~iai~~kdgVvlaaD~r~t~g~~i~~~~~-~KI~~i~~~i~~~~   45 (212)
T d1rypl_           1 TTTLAFRFQGGIIVAVDSRATAGNWVASQTV-KRVIEINPFLLGTM   45 (212)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCC-CCEEEEETTEEEEC
T ss_pred             CeEEEEEECCEEEEEEcCccccCceeecCCc-ceEEEECCcEEEEe
Confidence            37899999999999999998665444 4444 99999999999864

>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=97.62  E-value=1.7e-05  Score=52.95  Aligned_cols=43  Identities=21%  Similarity=0.391  Sum_probs=35.2

Q ss_pred             ceeeeEeeCCeeeehhhhhhccccc-ccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLL-DEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~-~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++++||++|++++|.+...+ ..+.. +||+.|++|++++
T Consensus         1 TT~igi~~kdgVvia~D~r~s~~~~~~~~~~-~KI~~i~~~i~~~   44 (203)
T d1yarh1           1 TTTVGITLKDAVIMATERRVTMENFIMHKNG-KKLFQIDTYTGMT   44 (203)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCC-CCEEEEETTEEEE
T ss_pred             CcEEEEEECCEEEEEECCCcccCCEeecCCc-ccEEEecCCeeee
Confidence            3789999999999999999765444 44444 9999999999986

>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=97.61  E-value=1.6e-05  Score=52.97  Aligned_cols=44  Identities=25%  Similarity=0.264  Sum_probs=37.0

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++++||++|++++|.+...+..+...+||+.|++|++++
T Consensus         2 ~tiigi~~~dgVvlaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~   45 (198)
T d1rypk_           2 DIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMS   45 (198)
T ss_dssp             CCEEEEECSSCEEEEEECCEEETTEEEESCCCCEEEEETTEEEE
T ss_pred             eEEEEEEECCEEEEEEcCCcccCCEeecCccceEEEecCCEEEE
Confidence            47899999999999999998877666433348999999999986

>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=97.58  E-value=1.8e-05  Score=52.62  Aligned_cols=43  Identities=30%  Similarity=0.648  Sum_probs=35.0

Q ss_pred             ceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++++||++|++++|.+. .+...+.. +||+.|++|++|+
T Consensus         1 TT~vgi~~~dgVvlaaD~r~s~~~~~~~~~~-~Ki~~i~~~i~~~   44 (202)
T d1j2qh_           1 TTTVGLVCKDGVVMATEKRATMGNFIASKAA-KKIYQIADRMAMT   44 (202)
T ss_dssp             CCEEEEEETTEEEEEEECCEEETTEEEESSC-CCEEEEETTEEEE
T ss_pred             CcEEEEEECCEEEEEECCCcccCCeeccCcc-ceEEEecCcEEEE
Confidence            3789999999999999998764 44444444 8999999999986

>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=97.55  E-value=2e-05  Score=53.60  Aligned_cols=44  Identities=18%  Similarity=0.336  Sum_probs=35.6

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++.+||++|+.++|.+...+......+||+.|++|++|+
T Consensus         1 TTiVgik~~dGVviaaD~r~s~g~~~~~~~~~KI~~I~~~i~~~   44 (222)
T d1rypi_           1 TTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCA   44 (222)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEE
T ss_pred             CeEEEEEECCEEEEEECCCcccCceeecCCcccEEEEcCCEEEE
Confidence            37899999999999999988765544333348999999999886

>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=97.55  E-value=2.7e-05  Score=52.72  Aligned_cols=44  Identities=25%  Similarity=0.379  Sum_probs=37.0

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++++||++|++.+|.+...+......+||+.|++|++++
T Consensus         1 TTivgi~~~dgVvlaaD~r~s~g~~i~~~~~~KI~~i~~~i~~~   44 (220)
T d1irui_           1 TTIAGVVYKDGIVLGADTRATEGMVVADKNCSKIHFISPNIYCC   44 (220)
T ss_dssp             CCEEEEEETTEEEEEECCCEESSSBEEESSCCCEEEEETTEEEE
T ss_pred             CeEEEEEECCEEEEEEcCCcccCCEeecCCcccEEEecCcEEEE
Confidence            37899999999999999998877666543348999999999986

>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=97.52  E-value=2.2e-05  Score=51.30  Aligned_cols=44  Identities=16%  Similarity=0.426  Sum_probs=36.5

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++++|+++|++..|.+...+......+||+.|+++++++
T Consensus         2 t~ivgi~~kdgVviaaD~r~~~g~~~~~~~~~Ki~~i~~~i~~~   45 (199)
T d1iruk_           2 EYLIGIQGPDYVLVASDRVAASNIVQMKDDHDKMFKMSEKILLL   45 (199)
T ss_dssp             CCEEEEECSSEEEEEEECCEEETTEEEESSCCCEEECSSSEEEE
T ss_pred             eEEEEEEECCEEEEEECCCccCCCeeecCCcceEEEecCcEEEE
Confidence            47899999999999999998766665433348999999999986

>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=97.51  E-value=2.7e-05  Score=51.81  Aligned_cols=46  Identities=17%  Similarity=0.259  Sum_probs=39.0

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .||++++|++++|+++|+.++|.+...+...+..+||+.++ |++++
T Consensus         6 ~nG~Tivgi~~~d~VvlaaD~r~~~~~~~~~~~~~Ki~~i~-~i~~~   51 (204)
T d1rypj_           6 INGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYG-HVFLG   51 (204)
T ss_dssp             SSCCEEEEEECSSEEEEEEECCEEETTEEEESCCCCEEEET-TEEEE
T ss_pred             cCCeEEEEEEECCEEEEEEcCCcccCCEeecCcccEEEEcC-CEEEE
Confidence            56999999999999999999998877766555558999995 88875

>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=97.49  E-value=2.8e-05  Score=51.92  Aligned_cols=44  Identities=20%  Similarity=0.342  Sum_probs=35.8

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++.+||++|+..+|.+...+......+||+.|++|++++
T Consensus         1 TTivai~~~dgVvlaaD~r~t~g~~i~~~~~~KI~~i~~~i~~~   44 (202)
T d1iruh_           1 TTIMAVQFDGGVVLGADSRTTTGSYIANRVTDKLTPIHDRIFCC   44 (202)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESSCCCEEEEETTEEEE
T ss_pred             CeEEEEEECCEEEEEECCccccCCeeecCCcceEEEcCCcEEEE
Confidence            37899999999999999998765554433348999999999986

>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=97.47  E-value=3.4e-05  Score=51.99  Aligned_cols=43  Identities=26%  Similarity=0.316  Sum_probs=35.4

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccc-cCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLD-EGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~-~~~~~~kI~~I~~~ig~~  107 (108)
                      .+++|++++|+++|+.++|.+...+. .+.. +||+.|++|++++
T Consensus         1 TTivgi~~kdgVvlaaD~r~s~g~~i~~~~~-~KI~~i~~~i~~~   44 (224)
T d1q5qh_           1 TTIVALTYKGGVLLAGDRRATQGNLIASRDV-EKVYVTDEYSAAG   44 (224)
T ss_dssp             CCEEEEECSSCEEEEECCCEEETTEEEESCC-CCEEEEETTEEEE
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeecCCc-ceEEEeCCcEEEE
Confidence            37899999999999999997765444 3444 9999999999886

>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=97.13  E-value=9.2e-05  Score=48.21  Aligned_cols=57  Identities=9%  Similarity=0.082  Sum_probs=38.8

Q ss_pred             ccCcEEEEeeCCeEEEEEeecccc-cccccC-ccCCeeeehhHHHhhcc-cceeeeEeeCCeeeeh
Q psy6595          16 HAGTCLGILAQDGILLAAEKRLNQ-DFSFLP-HMSRLYQVEYAMEAISH-AGTCLGILAQDGILLA   78 (108)
Q Consensus        16 ~g~~~vgi~~~~gvvl~~~k~~~~-~l~~~s-~~gki~qieya~~av~~-~~~~v~~~~~D~~vl~   78 (108)
                      +|+|+|||+++|||||+++++... ++..+. ...++++++      ++ ..++.++...|...+.
T Consensus         4 ~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~------~~~~~~~~~g~~~~~~~~~   63 (180)
T d2z3ba1           4 HATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLF------NGKVLAGFAGSVADAFTLF   63 (180)
T ss_dssp             CCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEET------TTTEEEEECSCHHHHHHHH
T ss_pred             CCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEec------ccceecccchHHHHHHHHH
Confidence            689999999999999999987543 233333 467888887      54 3344455555554443

>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=97.02  E-value=0.00027  Score=45.27  Aligned_cols=55  Identities=4%  Similarity=-0.070  Sum_probs=43.6

Q ss_pred             CcEEEEeeCCeEEEEEeeccccc-ccccCccCCeeeehhHHHhhcccceeeeEeeCCeeeeh
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQD-FSFLPHMSRLYQVEYAMEAISHAGTCLGILAQDGILLA   78 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~-l~~~s~~gki~qieya~~av~~~~~~v~~~~~D~~vl~   78 (108)
                      +|+||++.+||||++++++.... +.......|+++|+      ++..++.++...|...+.
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~------~~~~~~~~g~~ad~~~~~   56 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLG------EGKVLAGFAGSVADAMTL   56 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEET------TTTEEEEEESCHHHHHHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEec------CCcEEEEEeechhhHHHH
Confidence            58999999999999999886543 33334668999999      888888888887765444

>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=96.60  E-value=0.00089  Score=42.88  Aligned_cols=50  Identities=2%  Similarity=-0.009  Sum_probs=35.6

Q ss_pred             CcEEEEeeCCeEEEEEeeccccccccc-CccCCeeeehhHHHhhcccceeeeEeeCC
Q psy6595          18 GTCLGILAQDGILLAAEKRLNQDFSFL-PHMSRLYQVEYAMEAISHAGTCLGILAQD   73 (108)
Q Consensus        18 ~~~vgi~~~~gvvl~~~k~~~~~l~~~-s~~gki~qieya~~av~~~~~~v~~~~~D   73 (108)
                      +|.|||+.+||||++++++....-.+. ....|+++|.      ++...+.++-..+
T Consensus         1 TTivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~------~~~~~~~~~~~~~   51 (173)
T d1g3ka_           1 TTIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLY------NGKVLAGFAGGTA   51 (173)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEET------TTTEEEEEESCHH
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEec------CCcEEEEeeehhH
Confidence            488999999999999998765444443 4568999997      6655443333333

>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=96.35  E-value=0.00088  Score=42.90  Aligned_cols=42  Identities=7%  Similarity=0.085  Sum_probs=35.1

Q ss_pred             eeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeE
Q psy6595          65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNI  106 (108)
Q Consensus        65 ~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~  106 (108)
                      +.+|++.+||+||+...|.+...+..+...+||++|+++..+
T Consensus         2 Tivai~~~dGVVlAaDtRaS~G~~i~~r~~~Ki~~i~~~~~~   43 (173)
T d1g3ka_           2 TIVSVRRNGQVVVGGDGQVSLGNTVMKGNARKVRRLYNGKVL   43 (173)
T ss_dssp             CEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEE
T ss_pred             eEEEEEECCEEEEEECCCcccCCEeEcCCcceEEEecCCcEE
Confidence            678999999999999999887666655556999999988554

>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=96.34  E-value=0.00089  Score=42.73  Aligned_cols=44  Identities=14%  Similarity=0.056  Sum_probs=36.0

Q ss_pred             ceeeeEeeCCeeeehhhhhhcccccccCccccceeeeccceeEe
Q psy6595          64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII  107 (108)
Q Consensus        64 ~~~v~~~~~D~~vl~~~~r~~~~l~~~~~~~~kI~~I~~~ig~~  107 (108)
                      .+.+|++.+|+++|+...|.+...+......+||++|++++.+.
T Consensus         1 TTivav~~~~gVviAaDtR~S~G~~i~~r~~~Ki~~i~~~~~~~   44 (171)
T d1m4ya_           1 TTILVVRRNGQTVMGGDGQVTFGSTVLKGNARKVRKLGEGKVLA   44 (171)
T ss_dssp             CCEEEEEETTEEEEEECCCEEETTEEEESCCCCEEEETTTTEEE
T ss_pred             CeEEEEEECCEEEEEECCCcccCCEEEeCCcceEEEecCCcEEE
Confidence            36899999999999999998765555444559999999998765

>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=95.91  E-value=0.0024  Score=41.13  Aligned_cols=46  Identities=17%  Similarity=0.175  Sum_probs=34.4

Q ss_pred             cccceeeeEeeCCeeeehhhhhhcc-cccccCccccceeeeccceeE
Q psy6595          61 SHAGTCLGILAQDGILLAAEKRNTN-KLLDEGTTSEKIYKLHDSLNI  106 (108)
Q Consensus        61 ~~~~~~v~~~~~D~~vl~~~~r~~~-~l~~~~~~~~kI~~I~~~ig~  106 (108)
                      -||++++|++.+||++|+...|.+. .+...+...+|++.++++..+
T Consensus         3 ~~GTTivai~~~dGVvlAaDtR~S~G~~i~~~~~~~ki~~~~~~~~~   49 (180)
T d2z3ba1           3 FHATTIFAVQHKGRSAMSGDGQVTFGQAVVMKHTARKVRKLFNGKVL   49 (180)
T ss_dssp             BCCCCEEEEEETTEEEEEECCCEEETTTEEEESCCCCEEEETTTTEE
T ss_pred             CCCeEEEEEEECCEEEEEECCcccCCceeEecccceEEEEeccccee
Confidence            3688999999999999999999874 233323234899999886443