RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15384
(260 letters)
>gnl|CDD|239732 cd03763, proteasome_beta_type_7, proteasome beta type-7 subunit.
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
Score = 221 bits (566), Expect = 2e-73
Identities = 83/196 (42%), Positives = 126/196 (64%), Gaps = 7/196 (3%)
Query: 4 TTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKRL 63
TTI G++++DGV+LGADTRAT I+ D NC KI+ ++ IYCCGAG+AAD + +
Sbjct: 1 TTIVGVVFKDGVVLGADTRAT-----EGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAV 55
Query: 64 SGLVEANLECQFPKAHTDIPVICPVTMIKQTLYKYHGYLMCAFIIGGIDSAGGNQLFSIF 123
+ ++ +NLE V+ +TM+KQ L++Y G++ A ++GG+D G L+SI+
Sbjct: 56 TNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQGHIGAALVLGGVDYTG-PHLYSIY 114
Query: 124 QHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGSGSKVD 183
HGS+ F MG+G AM +LE +K +++E+E L+ +AI+AGI DLGSGS VD
Sbjct: 115 PHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDLGSGSNVD 174
Query: 184 VTIIRKNGQVSSYKPY 199
+ +I K+G V + Y
Sbjct: 175 LCVITKDG-VEYLRNY 189
>gnl|CDD|238893 cd01912, proteasome_beta, proteasome beta subunit. 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
Score = 164 bits (418), Expect = 7e-51
Identities = 68/189 (35%), Positives = 105/189 (55%), Gaps = 6/189 (3%)
Query: 4 TTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKRL 63
TTI G+ +DGV+L ADTRA+ S++ N KI ++S+ I AGSAAD + L
Sbjct: 1 TTIVGIKGKDGVVLAADTRASA-----GSLVASRNFDKIFKISDNILLGTAGSAADTQAL 55
Query: 64 SGLVEANLECQFPKAHTDIPVICPVTMIKQTLYKYHGY-LMCAFIIGGIDSAGGNQLFSI 122
+ L++ NL + ++ V ++ LY Y G+ + I+GG+D GG L+ +
Sbjct: 56 TRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYV 115
Query: 123 FQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGSGSKV 182
GS F A G+G + A GIL+ G+K +++ +E + L+ AI + I DL SG V
Sbjct: 116 DPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGV 175
Query: 183 DVTIIRKNG 191
DV +I K+G
Sbjct: 176 DVAVITKDG 184
>gnl|CDD|215805 pfam00227, Proteasome, Proteasome subunit. 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
Score = 149 bits (378), Expect = 6e-45
Identities = 63/190 (33%), Positives = 90/190 (47%), Gaps = 8/190 (4%)
Query: 2 TGTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMK 61
TGTTI G+ +DGV+L AD RAT GS +L KI ++ + I AG AAD +
Sbjct: 3 TGTTIVGIKGKDGVVLAADKRATR----GSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQ 58
Query: 62 RLSGLVEANLECQFPKAHTDIPVICPV----TMIKQTLYKYHGYLMCAFIIGGIDSAGGN 117
L A + + I V + T Y + +I G D GG
Sbjct: 59 TLVDYARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGP 118
Query: 118 QLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLG 177
L+SI GS +K A+G+G Q A G LE +K +++ +E + L V A+K I D
Sbjct: 119 HLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERDAL 178
Query: 178 SGSKVDVTII 187
SG ++V +I
Sbjct: 179 SGGNIEVAVI 188
>gnl|CDD|238887 cd01906, proteasome_protease_HslV, proteasome_protease_HslV. 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
Score = 146 bits (371), Expect = 6e-44
Identities = 59/187 (31%), Positives = 97/187 (51%), Gaps = 8/187 (4%)
Query: 4 TTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKRL 63
TTI G+ +DGV+L AD R T ++ KI ++ + I C AG AAD + L
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSG-----LLVASSTVEKIFKIDDHIGCAFAGLAADAQTL 55
Query: 64 SGLVEANLECQFPKAHTDIPVICPVTMIKQTLYKYHGY---LMCAFIIGGIDSAGGNQLF 120
+ + + IPV ++ LY+Y L + ++ G+D GG QL+
Sbjct: 56 VERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLY 115
Query: 121 SIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGSGS 180
S+ GS +K A+G+G Q A+GILE +K +++ +E + L + A+K+ + DL SG
Sbjct: 116 SVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGG 175
Query: 181 KVDVTII 187
++V +I
Sbjct: 176 NIEVAVI 182
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 128 bits (323), Expect = 3e-36
Identities = 62/206 (30%), Positives = 98/206 (47%), Gaps = 13/206 (6%)
Query: 1 MTGTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADM 60
GTT G+ +DGV+L AD RAT ++ N KI ++ + I AG AAD
Sbjct: 28 RGGTTTVGIKGKDGVVLAADKRATSG-----LLIASSNVEKIFKIDDHIGMAIAGLAADA 82
Query: 61 KRLSGLVEANLECQFPKAHT--DIPVICPVTMIKQTLYKYHGY---LMCAFIIGGIDSAG 115
+ L A E Q + I V ++ L +Y + ++ G+D G
Sbjct: 83 QVLVRYARA--EAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDD-G 139
Query: 116 GNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYD 175
G +L+S GS + +K A+G+G Q A G LE ++E+LS +E + L V A++A I D
Sbjct: 140 GPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERD 199
Query: 176 LGSGSKVDVTIIRKNGQVSSYKPYKV 201
SG ++V +I K+ ++
Sbjct: 200 AASGGGIEVAVITKDEGFRKLDGEEI 225
>gnl|CDD|234287 TIGR03634, arc_protsome_B, proteasome endopeptidase complex,
archaeal, beta subunit. 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
Score = 111 bits (280), Expect = 2e-30
Identities = 57/190 (30%), Positives = 97/190 (51%), Gaps = 7/190 (3%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKR 62
GTT G+ +DGV+L AD RA+M G+ + N K+ ++ + I AGS D +
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASM----GNFVA-SKNAKKVFQIDDYIAMTIAGSVGDAQS 55
Query: 63 LSGLVEANLECQFPKAHTDIPVICPVTMIKQTLYKYHGY-LMCAFIIGGIDSAGGNQLFS 121
L +++A + + + V T++ L + + ++GG+D G L+S
Sbjct: 56 LVRILKAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVDEEGP-HLYS 114
Query: 122 IFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGSGSK 181
+ G + A G+G A G+LE ++E++S +E L V AIK+ I D+ SG+
Sbjct: 115 LDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASGNG 174
Query: 182 VDVTIIRKNG 191
+DV +I K+G
Sbjct: 175 IDVAVITKDG 184
>gnl|CDD|239733 cd03764, proteasome_beta_archeal, Archeal proteasome, beta subunit.
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
Score = 111 bits (279), Expect = 3e-30
Identities = 63/190 (33%), Positives = 100/190 (52%), Gaps = 9/190 (4%)
Query: 4 TTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKRL 63
TT G++ +DGV+L AD RA+M G+ I N KI ++ +KI AGS D + L
Sbjct: 1 TTTVGIVCKDGVVLAADKRASM----GNFIA-SKNVKKIFQIDDKIAMTIAGSVGDAQSL 55
Query: 64 SGLVEANLECQFPKAHTDIPVICPVTMIKQTL--YKYHGYLMCAFIIGGIDSAGGNQLFS 121
+++A + + + T++ L KY Y++ +IGG+D G L+S
Sbjct: 56 VRILKAEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIV-QLLIGGVDEEGP-HLYS 113
Query: 122 IFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGSGSK 181
+ GS K+ A G+G A G+LE +KE+++ +E L + AIK+ I D SG
Sbjct: 114 LDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDG 173
Query: 182 VDVTIIRKNG 191
+DV +I K+G
Sbjct: 174 IDVVVITKDG 183
>gnl|CDD|239731 cd03762, proteasome_beta_type_6, proteasome beta type-6 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 188
Score = 104 bits (262), Expect = 1e-27
Identities = 54/190 (28%), Positives = 89/190 (46%), Gaps = 9/190 (4%)
Query: 4 TTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKRL 63
TTI + Y+ GV+LGAD+R + S + + K+ +L ++IYCC +GSAAD + +
Sbjct: 1 TTIIAVEYDGGVVLGADSRTST-----GSYVANRVTDKLTQLHDRIYCCRSGSAADTQAI 55
Query: 64 SGLVEANLECQFPKAHTDIP--VICPVTMIKQTLYKYHGYLMCAFIIGGIDSAGGNQLFS 121
+ V L P V ++ K Y Y L I+ G D G Q++S
Sbjct: 56 ADYVRYYL--DMHSIELGEPPLVKTAASLFKNLCYNYKEMLSAGIIVAGWDEQNGGQVYS 113
Query: 122 IFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGSGSK 181
I G F G+G G ++A +K ++ +E + + +A+ + D SG
Sbjct: 114 IPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSGGV 173
Query: 182 VDVTIIRKNG 191
+ + II K+G
Sbjct: 174 IRLVIITKDG 183
>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. 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
Score = 104 bits (260), Expect = 1e-27
Identities = 40/170 (23%), Positives = 70/170 (41%), Gaps = 9/170 (5%)
Query: 4 TTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKRL 63
+T + + GV+L AD R + + KI + + I AG AAD + L
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSG-----LPVAGSPVIKIGKNEDGIAWGLAGLAADAQTL 55
Query: 64 SGLVEANLECQFPKAHTDIPVICPVTMIKQTLYKY--HGYLMCAFIIGGIDSAGGNQLFS 121
+ L+ + I V+ + + L Y I+ G+D GG L+
Sbjct: 56 VRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDEGGG-NLYY 114
Query: 122 IFQHGSSHGH-KFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKA 170
I G + A G+ Q A +LE +K +++ +E + L + A+K+
Sbjct: 115 IDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALKS 164
>gnl|CDD|238892 cd01911, proteasome_alpha, proteasome alpha subunit. 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
Score = 76.7 bits (190), Expect = 5e-17
Identities = 54/194 (27%), Positives = 92/194 (47%), Gaps = 20/194 (10%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKR 62
G+T G+ +DGV+L + + T K SS+ KI ++ + I C AG AD +
Sbjct: 27 GSTAVGIKGKDGVVLAVEKKVTSKLLDPSSV------EKIFKIDDHIGCAVAGLTADARV 80
Query: 63 LSGLVE-ANLECQ--FPKAHTDIPV--IC-PVTMIKQTLYKYHGYLM---CAFIIGGIDS 113
L V A +E Q IPV + + + Q +Y +G + + +I G D
Sbjct: 81 L---VNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQ-VYTQYGGVRPFGVSLLIAGYDE 136
Query: 114 AGGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGIL 173
GG QL+ G+ G+K A+G G Q A LE +K++L+ +E + L + A+K +
Sbjct: 137 EGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKALKEVLE 196
Query: 174 YDLGSGSKVDVTII 187
D +++ ++
Sbjct: 197 EDK-KAKNIEIAVV 209
>gnl|CDD|239725 cd03756, proteasome_alpha_archeal, proteasome_alpha_archeal. 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
Score = 70.1 bits (172), Expect = 2e-14
Identities = 52/194 (26%), Positives = 92/194 (47%), Gaps = 21/194 (10%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKR 62
GTT G+ ++GV+L D R T K SI KI ++ + + +G AD +
Sbjct: 28 GTTALGIKCKEGVVLAVDKRITSKLVEPESI------EKIYKIDDHVGAATSGLVADARV 81
Query: 63 LSGLVE-ANLECQFPKAHTDIPV-----ICPVTMIKQTLYKYHGYLM---CAFIIGGIDS 113
L ++ A +E Q + P+ + + +KQ Y HG + A +I G+D
Sbjct: 82 L---IDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQ-YTQHGGVRPFGVALLIAGVDD 137
Query: 114 AGGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGIL 173
GG +LF G+ + +K A+G+G Q LE +KE++S +E + L + A+ A +
Sbjct: 138 -GGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKALYAAL- 195
Query: 174 YDLGSGSKVDVTII 187
+ + V++ +
Sbjct: 196 EENETPENVEIAYV 209
>gnl|CDD|239727 cd03758, proteasome_beta_type_2, proteasome beta type-2 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis.Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 193
Score = 66.1 bits (162), Expect = 3e-13
Identities = 41/193 (21%), Positives = 83/193 (43%), Gaps = 14/193 (7%)
Query: 5 TICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKRLS 64
T+ G+ +D VIL ADT A + S +++ + KI +LS+ +G A D + +
Sbjct: 3 TLIGIKGKDFVILAADTSA-----ARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFA 57
Query: 65 GLVEANLECQFPKAHTDIPVICPVTMIKQTLYKY---HGYLMCAFIIGGIDSAGGNQLFS 121
++ N++ + ++ ++ L + ++ G D G L+
Sbjct: 58 EYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYY 117
Query: 122 IFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLM---VDAIKAGILYDLGS 178
I G+ + A G G + IL+ +K +++ +E L LM + +K + +L
Sbjct: 118 IDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMKKCIKELKKRFIINL-- 175
Query: 179 GSKVDVTIIRKNG 191
V ++ K+G
Sbjct: 176 -PNFTVKVVDKDG 187
>gnl|CDD|163366 TIGR03633, arc_protsome_A, proteasome endopeptidase complex,
archaeal, alpha subunit. 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
Score = 66.1 bits (162), Expect = 5e-13
Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 25/196 (12%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKR 62
GTT G+ +DGV+L D R T K SSI KI ++ + I +G AD +
Sbjct: 29 GTTAVGIKTKDGVVLAVDKRITSKLVEPSSI------EKIFKIDDHIGAATSGLVADARV 82
Query: 63 LSGLVE-ANLECQFPKAHTDIPVICPVTM-------IKQTLYKYHGYLM---CAFIIGGI 111
L ++ A +E Q + P+ V +KQ Y HG + A +I G+
Sbjct: 83 L---IDRARIEAQINRLTYGEPI--DVETLAKKICDLKQQ-YTQHGGVRPFGVALLIAGV 136
Query: 112 DSAGGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAG 171
D GG +LF G+ +K A+G G Q LE ++E+LS E + L + A+ +
Sbjct: 137 DD-GGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKALYSA 195
Query: 172 ILYDLGSGSKVDVTII 187
+ D + V+V I
Sbjct: 196 -VEDKLTPENVEVAYI 210
>gnl|CDD|239730 cd03761, proteasome_beta_type_5, proteasome beta type-5 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 188
Score = 64.2 bits (157), Expect = 1e-12
Identities = 53/197 (26%), Positives = 86/197 (43%), Gaps = 23/197 (11%)
Query: 4 TTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKRL 63
TT +++ GVI+ D+RAT S + K+ ++ + AG AAD +
Sbjct: 1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTV-----KKVIEINPYLLGTMAGGAADCQ-- 53
Query: 64 SGLVEANL--ECQFPKAH-----TDIPVICPVTMIKQTLYKYHGY-LMCAFIIGGIDSAG 115
E L EC + + I V ++ LY+Y G L +I G D G
Sbjct: 54 --YWERVLGREC---RLYELRNKERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDKTG 108
Query: 116 GNQLFSIFQHGS-SHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILY 174
L+ + G+ G F G+G A G+L++G++ +LS +E L AI
Sbjct: 109 PG-LYYVDSDGTRLKGDLFSV-GSGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATHR 166
Query: 175 DLGSGSKVDVTIIRKNG 191
D SG V++ +R++G
Sbjct: 167 DAYSGGNVNLYHVREDG 183
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 64.1 bits (156), Expect = 4e-12
Identities = 60/208 (28%), Positives = 95/208 (45%), Gaps = 21/208 (10%)
Query: 8 GLLYEDGVILGADTRATMKDASGSSILID--HNCSKINRLSEKIYCCGAGSAADMKRLSG 65
G+L ++GVILGAD SS L+D KI ++ I+C AG AD L
Sbjct: 36 GILCKEGVILGADKPI-------SSKLLDPGKINEKIYKIDSHIFCAVAGLTADANIL-- 86
Query: 66 LVEANLECQ-FPKAHTDI-PVICPVTMI---KQTLYKYHGY--LMCAFIIGGIDSAGGNQ 118
+ + L Q + + + PV V I KQ+ ++ G +F+ G D G Q
Sbjct: 87 INQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQ 146
Query: 119 LFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGS 178
L+ G+ G K A+G Q A IL+ WKE+L+ ++GL L + +
Sbjct: 147 LYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPK 206
Query: 179 GSKVDVTIIRKNGQVSSYKPY-KVLSDR 205
K++V I+ + +P K+LS++
Sbjct: 207 ADKIEVGILSHGE--TDGEPIQKMLSEK 232
>gnl|CDD|239729 cd03760, proteasome_beta_type_4, proteasome beta type-4 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis.Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 197
Score = 60.3 bits (147), Expect = 3e-11
Identities = 50/211 (23%), Positives = 86/211 (40%), Gaps = 41/211 (19%)
Query: 2 TGTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMK 61
TGT++ + Y+DGVI+ ADT S S+ N +I ++ + +G AD
Sbjct: 1 TGTSVIAIKYKDGVIIAADTLG-----SYGSLARFKNVERIFKVGDNTLLGASGDYADF- 54
Query: 62 RLSGLVEANLECQFPKAHTDIPVICPVTMIKQTLYK---YHGYL--------------MC 104
Q+ K D VI + H YL
Sbjct: 55 ------------QYLKRLLDQLVIDDECLDDGHSLSPKEIHSYLTRVLYNRRSKMNPLWN 102
Query: 105 AFIIGGIDSAGGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKE--NLSEKEGLT 162
++GG+D+ G L + G+++ A G G A+ +L W++ +L+E+E
Sbjct: 103 TLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARA 162
Query: 163 LMVDAIKAGILY--DLGSGSKVDVTIIRKNG 191
L+ + +K +LY D S +K + ++ K G
Sbjct: 163 LIEECMK--VLYYRDARSINKYQIAVVTKEG 191
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 59.8 bits (146), Expect = 1e-10
Identities = 55/179 (30%), Positives = 80/179 (44%), Gaps = 24/179 (13%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKR 62
GTT G+ +DGV+L D R T SSI KI ++ + I AG AD +
Sbjct: 36 GTTAVGVKTKDGVVLAVDKRITSPLIEPSSI------EKIFKIDDHIGAASAGLVADARV 89
Query: 63 LSGLVE-ANLECQFPKAHTDIPVICPVTM-------IKQTLYKYHGYLM---CAFIIGGI 111
L ++ A +E Q + P+ V KQ Y HG + A +I G+
Sbjct: 90 L---IDRARVEAQINRLTYGEPI--GVETLTKKICDHKQQ-YTQHGGVRPFGVALLIAGV 143
Query: 112 DSAGGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKA 170
D GG +LF G+ +K A+G G M LE +KE+LS +E + L + A+
Sbjct: 144 DD-GGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAK 201
>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4. 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
Score = 58.5 bits (142), Expect = 2e-10
Identities = 53/178 (29%), Positives = 83/178 (46%), Gaps = 24/178 (13%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCS--KINRLSEKIYCCGAGSAADM 60
GT + G+L +DG++L A+ + T K L+D + S KI ++ + I C AG +D
Sbjct: 30 GTCL-GILAKDGIVLAAEKKVTSK-------LLDQSFSSEKIYKIDDHIACAVAGITSDA 81
Query: 61 KRLSGLVEANLECQ--FPKAHTDIPVICPVTMI---KQTLYKYHGYLM---CAFIIGGID 112
L + A L Q IPV V + KQ Y +G L +F+ G D
Sbjct: 82 NIL--INYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQ-GYTQYGGLRPFGVSFLYAGWD 138
Query: 113 SAGGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKA 170
G QL+ G+ G K A+G Q A +L+ +K++++ +E L L A+K
Sbjct: 139 KHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDMTLEEALAL---AVKV 193
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 56.5 bits (136), Expect = 1e-09
Identities = 50/195 (25%), Positives = 87/195 (44%), Gaps = 13/195 (6%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKR 62
GTT Y G+I+ D++AT + + K+ ++ + AG AAD
Sbjct: 39 GTTTLAFKYGGGIIIAVDSKAT-----AGPYIASQSVKKVIEINPTLLGTMAGGAADCSF 93
Query: 63 LSGLVEANLECQFPKAHTD--IPVICPVTMIKQTLYKYHGY-LMCAFIIGGIDSAGGNQL 119
E ++C+ + I V ++ ++ Y G L +I G D G L
Sbjct: 94 WER--ELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKKG-PGL 150
Query: 120 FSIFQHGSS-HGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGS 178
F + G+ HG+ F + G+G A G+L+AG+K +L+++E L AI D S
Sbjct: 151 FYVDNDGTRLHGNMF-SCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYS 209
Query: 179 GSKVDVTIIRKNGQV 193
G +++ ++K+G
Sbjct: 210 GGAINLYHMQKDGWK 224
>gnl|CDD|239726 cd03757, proteasome_beta_type_1, proteasome beta type-1 subunit.
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
Score = 55.0 bits (133), Expect = 4e-09
Identities = 48/206 (23%), Positives = 88/206 (42%), Gaps = 29/206 (14%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKR 62
G T+ + D ++ DTR + G SIL + KI +L++K +G AD+
Sbjct: 8 GGTVLAIAGNDFAVIAGDTRLSE----GYSIL-SRDSPKIFKLTDKCVLGSSGFQADILA 62
Query: 63 LSGLVEANLECQFPKAHT---DIPVICPVTMIKQTLYK-----YHGYLMCAFIIGGIDSA 114
L+ ++A ++ + +H I ++ LY Y Y+ I+ GID
Sbjct: 63 LTKRLKARIK-MYKYSHNKEMSTEAI--AQLLSTILYSRRFFPY--YVFN--ILAGIDEE 115
Query: 115 GGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILE---------AGWKENLSEKEGLTLMV 165
G ++S GS + A G+ +L+ + LS +E ++L+
Sbjct: 116 GKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVK 175
Query: 166 DAIKAGILYDLGSGSKVDVTIIRKNG 191
DA + D+ +G +++ II K+G
Sbjct: 176 DAFTSAAERDIYTGDSLEIVIITKDG 201
>gnl|CDD|239728 cd03759, proteasome_beta_type_3, proteasome beta type-3 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 195
Score = 52.2 bits (126), Expect = 3e-08
Identities = 39/196 (19%), Positives = 79/196 (40%), Gaps = 7/196 (3%)
Query: 2 TGTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMK 61
G + + +D V + +D R + + + K+ R+ +++Y AG A D++
Sbjct: 2 NGGAVVAMAGKDCVAIASDLRLGV-----QQQTVSTDFQKVFRIGDRLYIGLAGLATDVQ 56
Query: 62 RLSGLVEANLECQFPKAHTDIPVICPVTMIKQTLY-KYHGYLMCAFIIGGIDSAGGNQLF 120
L+ + + + +I ++I LY K G ++ G+D G +
Sbjct: 57 TLAQKLRFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFIC 116
Query: 121 SIFQHGS-SHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGSG 179
++ G S F GT + G+ E+ W+ ++ E + A+ + + D SG
Sbjct: 117 TMDLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQALLSAVDRDALSG 176
Query: 180 SKVDVTIIRKNGQVSS 195
V II K+ +
Sbjct: 177 WGAVVYIITKDKVTTR 192
>gnl|CDD|239724 cd03755, proteasome_alpha_type_7, proteasome_alpha_type_7. 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
Score = 48.1 bits (115), Expect = 7e-07
Identities = 51/198 (25%), Positives = 85/198 (42%), Gaps = 30/198 (15%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKR 62
GTT G+ +D V+LG + ++ K ++ KI L + + AG AD +
Sbjct: 27 GTTAVGVRGKDCVVLGVEKKSVAKLQDPRTV------RKICMLDDHVCLAFAGLTADARV 80
Query: 63 LSGLVEANLECQFPKAHTDIPVICPVTMIK----QTLYKY--------HGYLMCAFIIGG 110
L + A LECQ + + PV V I +Y G + +I G
Sbjct: 81 L--INRARLECQSHRLTVEDPV--TVEYITRYIAGLQQRYTQSGGVRPFG---ISTLIVG 133
Query: 111 IDSAGGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKA 170
D G +L+ G+ K A+G + LE +KE ++ + + L AIKA
Sbjct: 134 FDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKL---AIKA 190
Query: 171 GILYDLGSGSK-VDVTII 187
+L + SGSK +++ ++
Sbjct: 191 -LLEVVQSGSKNIELAVM 207
>gnl|CDD|239722 cd03753, proteasome_alpha_type_5, proteasome_alpha_type_5. 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
Score = 45.0 bits (107), Expect = 8e-06
Identities = 40/182 (21%), Positives = 78/182 (42%), Gaps = 27/182 (14%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIYCCGAGSAADMKR 62
G+T G+ ++GV+L + R T S ++ + KI + + I C +G AD +
Sbjct: 27 GSTAIGIKTKEGVVLAVEKRIT------SPLMEPSSVEKIMEIDDHIGCAMSGLIADART 80
Query: 63 LSGLVEANLECQFPKAHTDIPV--------ICPV-------TMIKQTLYKYHGYLMCAFI 107
L + A +E Q + + P+ + + K+ + + G A +
Sbjct: 81 L--IDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFG---VALL 135
Query: 108 IGGIDSAGGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDA 167
I G+D G QLF G+ A+G+G + A L+ + ++++ +E L +
Sbjct: 136 IAGVDE-NGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEKLALSI 194
Query: 168 IK 169
+K
Sbjct: 195 LK 196
>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2. 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
Score = 44.6 bits (106), Expect = 1e-05
Identities = 45/198 (22%), Positives = 78/198 (39%), Gaps = 19/198 (9%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILID-HNCSKINRLSEKIYCCGAGSAADMK 61
G G+ +GV+L AT K S LID + K+ +++ I +G D +
Sbjct: 27 GAPSVGIKAANGVVL-----ATEKKVP--SPLIDESSVHKVEQITPHIGMVYSGMGPDFR 79
Query: 62 RLSGLVEANLECQ--FPKAHTDIPVICPVTMIKQTLYKYH---GY--LMCAFIIGGIDSA 114
L + +A Q + IPV V I + +Y G + +I G D
Sbjct: 80 VL--VKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDE- 136
Query: 115 GGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILY 174
GG L+ + GS K A+G A LE + E+L ++ + + +K G
Sbjct: 137 GGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELEDAIHTAILTLKEGFEG 196
Query: 175 DLGSGSKVDVTIIRKNGQ 192
+ + +++ I +
Sbjct: 197 QM-TEKNIEIGICGETKG 213
>gnl|CDD|239720 cd03751, proteasome_alpha_type_3, proteasome_alpha_type_3. 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
Score = 43.0 bits (102), Expect = 4e-05
Identities = 50/170 (29%), Positives = 76/170 (44%), Gaps = 25/170 (14%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSK-INRLSEKIYCCGAGSAADMK 61
GT I G+ +DGV+L + T S L + +K I + I AG AD +
Sbjct: 31 GTAI-GIRCKDGVVLAVEKLVT-------SKLYEPGSNKRIFNVDRHIGIAVAGLLADGR 82
Query: 62 RLSGLVE-ANLECQFPKAHTDIPVICPVTMIKQTLYKY-HGYLM--------CAFIIGGI 111
L V A E + + + P+ PV ++ + Y H Y + C+ ++GG
Sbjct: 83 HL---VSRAREEAENYRDNYGTPI--PVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGY 137
Query: 112 DSAGGNQLFSIFQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGL 161
DS G QL+ I G S+G+ CA+G G Q A LE L+ +E +
Sbjct: 138 DSDGP-QLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSELTCREAV 186
>gnl|CDD|163402 TIGR03690, 20S_bact_beta, proteasome, beta subunit, bacterial type.
Members of this family are the beta subunit of the 20S
proteasome as found in Actinobacteria such as
Mycobacterium, Rhodococcus, and Streptomyces. In
Streptomyces, maturation during proteasome assembly was
shown to remove a 53-amino acid propeptide. Most of the
length of the propeptide is not included in this model
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 219
Score = 40.8 bits (96), Expect = 2e-04
Identities = 54/195 (27%), Positives = 78/195 (40%), Gaps = 48/195 (24%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSEKIY------CCG--- 53
GTTI L Y GV++ D RAT G+ I +R EK+Y G
Sbjct: 2 GTTIVALTYPGGVLMAGDRRATQ----GNMI--------ASRDVEKVYPTDEYSAVGIAG 49
Query: 54 -AGSAADMKRLSGLVEANLECQFPKAHTDIPVICPVT----------MIKQTL-YKYHGY 101
AG A ++ RL VE LE + K P+T M++ L G
Sbjct: 50 TAGLAIELVRLFQ-VE--LE-HYEKIEG-----VPLTLDGKANRLAAMVRGNLPAAMQGL 100
Query: 102 LMCAFIIGGIDSAGGNQLFSI-FQHGSSHGHKFCAMGTGLQPAMGILEAGWKENLSEKEG 160
+ + G AG ++FS G + A+G+G A G L+ + +L E +
Sbjct: 101 AVVPLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDA 160
Query: 161 LTLMVDAIKAGILYD 175
L + V+A LYD
Sbjct: 161 LRVAVEA-----LYD 170
>gnl|CDD|238894 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. 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.
Length = 171
Score = 39.9 bits (94), Expect = 4e-04
Identities = 24/74 (32%), Positives = 36/74 (48%), Gaps = 7/74 (9%)
Query: 4 TTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSE-KIYCCGAGSAADMKR 62
TTI + V++ D + T+ G++++ N K+ RL K+ AGS AD
Sbjct: 1 TTILAVRKNGKVVIAGDGQVTL----GNTVM-KGNARKVRRLYNGKVIAGFAGSTADAFT 55
Query: 63 LSGLVEANLECQFP 76
L EA LE Q+P
Sbjct: 56 LFERFEAKLE-QYP 68
>gnl|CDD|239723 cd03754, proteasome_alpha_type_6, proteasome_alpha_type_6. 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
Score = 39.1 bits (92), Expect = 0.001
Identities = 40/147 (27%), Positives = 59/147 (40%), Gaps = 13/147 (8%)
Query: 34 LID-HNCSKINRLSEKIYCCGAGSAADMKRLSGLVEANLECQ--FPKAHTDIPV---ICP 87
LID + + R++++I C G AD + + A E K ++PV
Sbjct: 53 LIDPSTVTHLFRITDEIGCVMTGMIADSRSQ--VQRARYEAAEFKYKYGYEMPVDVLAKR 110
Query: 88 VTMIKQTLYKYHGYLM---CAFIIGGIDSAGGNQLFSIFQHGSSHGHKFCAMGTGLQPAM 144
+ I Q +Y H Y+ + I+ GID G QL+ G G+K A G Q A
Sbjct: 111 IADINQ-VYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEAT 169
Query: 145 GILEAGWKENLSEKEGLTLMVD-AIKA 170
LE K+ E V+ AI
Sbjct: 170 NFLEKKLKKKPDLIESYEETVELAISC 196
>gnl|CDD|211862 TIGR03692, ATP_dep_HslV, ATP-dependent protease HslVU, peptidase
subunit. The ATP-dependent protease HslVU, a complex
of hexameric HslU active as a protein-unfolding ATPase
and dodecameric HslV, the catalytic threonine protease
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 171
Score = 36.4 bits (85), Expect = 0.006
Identities = 22/70 (31%), Positives = 33/70 (47%), Gaps = 6/70 (8%)
Query: 4 TTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSE-KIYCCGAGSAADMKR 62
TTI + V++ D + T+ G+++ + N K+ RL K+ AGS AD
Sbjct: 1 TTILAVRRNGKVVIAGDGQVTL----GNTV-MKGNARKVRRLYNGKVLAGFAGSTADAFT 55
Query: 63 LSGLVEANLE 72
L EA LE
Sbjct: 56 LFERFEAKLE 65
>gnl|CDD|235477 PRK05456, PRK05456, ATP-dependent protease subunit HslV;
Provisional.
Length = 172
Score = 35.4 bits (83), Expect = 0.013
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 6/71 (8%)
Query: 3 GTTICGLLYEDGVILGADTRATMKDASGSSILIDHNCSKINRLSE-KIYCCGAGSAADMK 61
GTTI + V + D + T+ G+++ + N K+ RL K+ AGS AD
Sbjct: 1 GTTILAVRRNGKVAIAGDGQVTL----GNTV-MKGNARKVRRLYNGKVLAGFAGSTADAF 55
Query: 62 RLSGLVEANLE 72
L EA LE
Sbjct: 56 TLFERFEAKLE 66
>gnl|CDD|215153 PLN02271, PLN02271, serine hydroxymethyltransferase.
Length = 586
Score = 30.2 bits (68), Expect = 1.4
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 30 GSSILIDHNCSKINRLSEKIYCCGAGSAADMKRLSGLVEANLECQFPKAHTDI 82
GSS + + ++ ++++K CGA DM +SGLV A EC P + DI
Sbjct: 306 GSSYPREWDYARFRQIADK---CGAVLMCDMAHISGLVAAK-ECVNPFDYCDI 354
>gnl|CDD|163403 TIGR03691, 20S_bact_alpha, proteasome, alpha subunit, bacterial
type. Members of this family are the alpha subunit of
the 20S proteasome as found in Actinobacteria such as
Mycobacterium, Rhodococcus, and Streptomyces. In most
Actinobacteria (an exception is Propionibacterium
acnes), the proteasome is accompanied by a system of
tagging proteins for degradation with Pup [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 228
Score = 29.3 bits (66), Expect = 1.9
Identities = 18/61 (29%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 112 DSAGGNQLFSIFQHGS-SHGHKFCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKA 170
++ +QL+ I GS F MG +P L+ +++ LS + L L V A++A
Sbjct: 129 ETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESYRDGLSLADALGLAVQALRA 188
Query: 171 G 171
G
Sbjct: 189 G 189
>gnl|CDD|219884 pfam08529, NusA_N, NusA N-terminal domain. This domain represents
the RNA polymerase binding domain of NusA.
Length = 122
Score = 27.9 bits (63), Expect = 2.7
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 4/46 (8%)
Query: 163 LMVDAIKAGIL--Y--DLGSGSKVDVTIIRKNGQVSSYKPYKVLSD 204
++++AI+ +L Y G V V I R+ G++ Y+ +V+ +
Sbjct: 19 VLIEAIEEALLSAYKKKYGEDENVRVEIDRETGEIEVYRRKEVVEE 64
>gnl|CDD|234011 TIGR02782, TrbB_P, P-type conjugative transfer ATPase TrbB. The
TrbB protein is found in the trb locus of Agrobacterium
Ti plasmids where it is involved in the type IV
secretion system for plasmid conjugative transfer. TrbB
is a homolog of the vir system VirB11 ATPase , and the
Flp pilus sytem ATPase TadA [Cellular processes,
Conjugation].
Length = 299
Score = 28.2 bits (63), Expect = 4.7
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 42 INRLSEKIYCCGAGSAADMKRLSGLV 67
+ RL + G S AD +R+ GLV
Sbjct: 32 VERLGSGMSPLGEMSPADAQRIIGLV 57
>gnl|CDD|238743 cd01466, vWA_C3HC4_type, VWA C3HC4-type: Von Willebrand factor type
A (vWA) domain was originally found in the blood
coagulation protein von Willebrand factor (vWF).
Typically, the vWA domain is made up of approximately
200 amino acid residues folded into a classic a/b
para-rossmann type of fold. The vWA domain, since its
discovery, has drawn great interest because of its
widespread occurrence and its involvement in a wide
variety of important cellular functions. These include
basal membrane formation, cell migration, cell
differentiation, adhesion, haemostasis, signaling,
chromosomal stability, malignant transformation and in
immune defenses In integrins these domains form
heterodimers while in vWF it forms multimers. There are
different interaction surfaces of this domain as seen by
the various molecules it complexes with. Ligand binding
in most cases is mediated by the presence of a metal ion
dependent adhesion site termed as the MIDAS motif that
is a characteristic feature of most, if not all A
domains. Membes of this subgroup belong to Zinc-finger
family as they are found fused to RING finger domains.
The MIDAS motif is not conserved in all the members of
this family. The function of vWA domains however is not
known.
Length = 155
Score = 27.4 bits (61), Expect = 5.6
Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 13/78 (16%)
Query: 133 FCAMGTGLQPAMGILEAGWKENLSEKEGLTLMVDAIKAGILYDLGSGSKVDVTII---RK 189
F L P + G + +VD ++AG ++ G K + ++ R+
Sbjct: 43 FSTSAKRLSPLRRMTAKGKRSAKR-------VVDGLQAGGGTNVVGGLKKALKVLGDRRQ 95
Query: 190 NGQVSSYKPYKVLSDRMP 207
V+S +LSD
Sbjct: 96 KNPVAS---IMLLSDGQD 110
>gnl|CDD|216001 pfam00577, Usher, Type VII secretion system (T7SS), usher protein.
The chaperone-usher (CU) pathway or Type VII secretion
system (T7SS) in Gram-negative (diderm) bacteria is
responsible for the secretion and assembly of prepilins
for fimbriae biogenesis, the prototypical Type 1 pili.
Following the prepilins export to the periplasm by the
Sec translocon, the biogenesis of fimbriae requires a
two-component assembly and transport system which is
composed of a periplasmic chaperone and an outer
membrane protein, which has been termed a molecular
'usher'. The usher protein is rather large (from 86 to
100 Kd) and seems to be mainly composed of
membrane-spanning beta-sheets, a structure reminiscent
of porins. Although the degree of sequence similarity of
these proteins is not very high they share a number of
characteristics. One of these is the presence of two
pairs of cysteines, the first one located in the
N-terminal part and the second at the C-terminal
extremity that are probably involved in disulphide
bonds. The best conserved region is located in the
central part of these proteins.
Length = 552
Score = 28.0 bits (63), Expect = 6.2
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 173 LYDLGSGSKVDVTIIRKNGQVSSYK-PYKVL 202
LY GSG +DVT+ +G V ++ PY +
Sbjct: 125 LYPSGSGGDLDVTVTESDGSVQTFTVPYSSV 155
>gnl|CDD|185150 PRK15235, PRK15235, outer membrane fimbrial usher protein SefC;
Provisional.
Length = 814
Score = 27.8 bits (61), Expect = 7.1
Identities = 17/35 (48%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 175 DLGSGSKV-DVTIIRKNGQVSSYK-PYKVLSDRMP 207
DLG G V DV+I KNGQV +Y PY +P
Sbjct: 299 DLGVGVGVLDVSIYEKNGQVQNYTVPYSTPVLSLP 333
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.319 0.136 0.406
Gapped
Lambda K H
0.267 0.0691 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,770,511
Number of extensions: 1171007
Number of successful extensions: 953
Number of sequences better than 10.0: 1
Number of HSP's gapped: 908
Number of HSP's successfully gapped: 47
Length of query: 260
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 165
Effective length of database: 6,723,972
Effective search space: 1109455380
Effective search space used: 1109455380
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.2 bits)