RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1779
(204 letters)
>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 = 180 bits (460), Expect = 5e-58
Identities = 79/196 (40%), Positives = 118/196 (60%), Gaps = 4/196 (2%)
Query: 5 DGGAIVAMAGKNCFAIGVDHLL-VQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAE 63
+GGA+VAMAGK+C AI D L VQ +++ KV ++ LY+ GL D A+
Sbjct: 2 NGGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQ-KVFRIGDRLYIGLAGLATDVQTLAQ 60
Query: 64 KMTLRTANYVASEQSPISPDTFAAIASWELYARKLTSPLFINPIIAGFYPDSGEVFLSTL 123
K+ R Y E+ I P TF+++ S LY ++ P F+ P++AG PD G+ F+ T+
Sbjct: 61 KLRFRVNLYRLREEREIKPKTFSSLISSLLYEKRFG-PYFVEPVVAGLDPD-GKPFICTM 118
Query: 124 DMAGCETRKTDFVAGGSAQNMIMGIGESFWQPGLSPEQLFEVCSQVVIQACERDTKSGWG 183
D+ GC + +DFV G+A + G+ ES W+P + P++LFE SQ ++ A +RD SGWG
Sbjct: 119 DLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQALLSAVDRDALSGWG 178
Query: 184 ATVYVVEPDKVTIRKI 199
A VY++ DKVT R +
Sbjct: 179 AVVYIITKDKVTTRTL 194
>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 = 131 bits (331), Expect = 1e-38
Identities = 47/192 (24%), Positives = 79/192 (41%), Gaps = 3/192 (1%)
Query: 7 GAIVAMAGKNCFAIGVDHLLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKMT 66
IV + GK+ + D G + +K+ ++S ++ L G AD +
Sbjct: 1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLK 60
Query: 67 LRTANYVASEQSPISPDTFAAIASWELYARKLTSPLFINPIIAGFYPDSGEVFLSTLDMA 126
Y +S A + S LY+ + P +++ I+ G G FL +D
Sbjct: 61 RNLRLYELRNGRELSVKAAANLLSNILYSYRGF-PYYVSLIVGGVDKG-GGPFLYYVDPL 118
Query: 127 GCETRKTDFVAGGSAQNMIMGIGESFWQPGLSPEQLFEVCSQVVIQACERDTKSGWGATV 186
G + FVA GS GI + ++P ++ E+ E+ + + A ERD SG G V
Sbjct: 119 GSLI-EAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVDV 177
Query: 187 YVVEPDKVTIRK 198
V+ D V +
Sbjct: 178 AVITKDGVEELR 189
>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 = 108 bits (271), Expect = 1e-29
Identities = 44/187 (23%), Positives = 76/187 (40%), Gaps = 5/187 (2%)
Query: 6 GGAIVAMAGKNCFAIGVDHLLVQGDFTIAEYE-NKVHQMSPHLYLINPGLCADGMQFAEK 64
G IV + GK+ + D +G +++ K+ ++ H+ + GL AD +
Sbjct: 4 GTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTLVDY 63
Query: 65 MTLRTANYVASEQSPISPDTFAAIASW--ELYARKLTSPLFINPIIAGFYPDSGEVFLST 122
Y PIS + IA P ++ +IAG Y + G L +
Sbjct: 64 ARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRPYGVSLLIAG-YDEDGGPHLYS 122
Query: 123 LDMAGCETRKTDFVAGGSAQNMIMGIGESFWQPGLSPEQLFEVCSQVVIQACERDTKSGW 182
+D +G + A GS G E ++P ++ E+ E+ + + +A ERD SG
Sbjct: 123 IDPSGS-VIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERDALSGG 181
Query: 183 GATVYVV 189
V V+
Sbjct: 182 NIEVAVI 188
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 108 bits (272), Expect = 2e-29
Identities = 43/193 (22%), Positives = 72/193 (37%), Gaps = 4/193 (2%)
Query: 6 GGAIVAMAGKNCFAIGVDHLLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKM 65
G V + GK+ + D G + K+ ++ H+ + GL AD
Sbjct: 30 GTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYA 89
Query: 66 TLRTANYVASEQSPISPDTFAAIASWELYARKLTS-PLFINPIIAGFYPDSGEVFLSTLD 124
Y PIS + A + S L + P ++ ++AG ++ + D
Sbjct: 90 RAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDDGGPRLY--STD 147
Query: 125 MAGCETRKTDFVAGGSAQNMIMGIGESFWQPGLSPEQLFEVCSQVVIQACERDTKSGWGA 184
+G A GS G E ++ LS E+ E+ + + A ERD SG G
Sbjct: 148 PSGSYNEY-KATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGGGI 206
Query: 185 TVYVVEPDKVTIR 197
V V+ D+ +
Sbjct: 207 EVAVITKDEGFRK 219
>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 = 105 bits (264), Expect = 1e-28
Identities = 44/184 (23%), Positives = 78/184 (42%), Gaps = 3/184 (1%)
Query: 7 GAIVAMAGKNCFAIGVDHLLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKMT 66
IV + GK+ + D + G + K+ ++ H+ GL AD E++
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60
Query: 67 LRTANYVASEQSPISPDTFAAIASWELYARKLTS-PLFINPIIAGFYPDSGEVFLSTLDM 125
Y PI + A + + LY + PL ++ ++AG + G L ++D
Sbjct: 61 KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGP-QLYSVDP 119
Query: 126 AGCETRKTDFVAGGSAQNMIMGIGESFWQPGLSPEQLFEVCSQVVIQACERDTKSGWGAT 185
+G + A GS +GI E ++P ++ E+ E+ + + A ERD SG
Sbjct: 120 SGSYI-EYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGNIE 178
Query: 186 VYVV 189
V V+
Sbjct: 179 VAVI 182
>gnl|CDD|238884 cd01901, Ntn_hydrolase, The Ntn hydrolases (N-terminal nucleophile)
are a diverse superfamily of of enzymes that are
activated autocatalytically via an N-terminally lcated
nucleophilic amino acid. 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 = 73.6 bits (181), Expect = 1e-16
Identities = 34/162 (20%), Positives = 57/162 (35%), Gaps = 2/162 (1%)
Query: 9 IVAMAGKNCFAIGVDHLLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKMTLR 68
VA+ GK + D L G K+ + + GL AD ++
Sbjct: 3 SVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREA 62
Query: 69 TANYVASEQSPISPDTFAAIASWELYARKLTSPLFINPIIAGFYPDSGEVFLSTLDMAGC 128
Y PIS A + L P +N I+AG G ++ +D +G
Sbjct: 63 LQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDEGGGNLY--YIDPSGP 120
Query: 129 ETRKTDFVAGGSAQNMIMGIGESFWQPGLSPEQLFEVCSQVV 170
VA GS + E ++P ++ E+ E+ + +
Sbjct: 121 VIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKAL 162
>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 = 62.7 bits (153), Expect = 3e-12
Identities = 51/213 (23%), Positives = 93/213 (43%), Gaps = 18/213 (8%)
Query: 4 NDGGAIVAMAGKNCFAIGVDHLLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAE 63
++GG ++A+AG + I D L +G ++ K+ +++ L + G AD + +
Sbjct: 6 DNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTK 65
Query: 64 KMTLRTANYVASEQSPISPDTFAAIASWELYARKLTSPLFINPIIAGFYPDS---GEVFL 120
++ R Y S +S + A + S LY+R+ P ++ I+AG D G V+
Sbjct: 66 RLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFF-PYYVFNILAGI--DEEGKGVVY- 121
Query: 121 STLDMAGCETRKTDFVAGGSAQNMIMGIGESF-----WQPG----LSPEQLFEVCSQVVI 171
+ D G R+T + AGGSA ++I + ++ LS E+ +
Sbjct: 122 -SYDPVGSYERET-YSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFT 179
Query: 172 QACERDTKSGWGATVYVVEPDKVTIRKIATRMD 204
A ERD +G + ++ D + R D
Sbjct: 180 SAAERDIYTGDSLEIVIITKDGIEEETFPLRKD 212
>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 = 61.8 bits (151), Expect = 4e-12
Identities = 38/166 (22%), Positives = 70/166 (42%), Gaps = 4/166 (2%)
Query: 29 GDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKMTLRTANYVASEQSPISPDTFAAI 88
G+F ++ KV Q+ ++ + G D + Y P+S A +
Sbjct: 24 GNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATL 83
Query: 89 ASWELYARKLTSPLFINPIIAGFYPDSGEVFLSTLDMAGCETRKTDFVAGGSAQNMIMGI 148
S L + + P + ++ G + ++ +LD AG + D+ A GS + G+
Sbjct: 84 LSNILNSNRFF-PFIVQLLVGGVDEEGPHLY--SLDPAGGII-EDDYTATGSGSPVAYGV 139
Query: 149 GESFWQPGLSPEQLFEVCSQVVIQACERDTKSGWGATVYVVEPDKV 194
E ++ +S E+ ++ + + A ERD SG G V V+ D V
Sbjct: 140 LEDEYREDMSVEEAKKLAVRAIKSAIERDVASGNGIDVAVITKDGV 185
>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 = 60.7 bits (148), Expect = 1e-11
Identities = 35/164 (21%), Positives = 66/164 (40%), Gaps = 4/164 (2%)
Query: 29 GDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKMTLRTANYVASEQSPISPDTFAAI 88
G+F ++ K+ Q+ + + G D + Y P+S A +
Sbjct: 23 GNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATL 82
Query: 89 ASWELYARKLTSPLFINPIIAGFYPDSGEVFLSTLDMAGCETRKTDFVAGGSAQNMIMGI 148
S L + K P + +I G + ++ +LD G + + A GS G+
Sbjct: 83 LSNILNSSKYF-PYIVQLLIGGVDEEGPHLY--SLDPLGSII-EDKYTATGSGSPYAYGV 138
Query: 149 GESFWQPGLSPEQLFEVCSQVVIQACERDTKSGWGATVYVVEPD 192
E ++ ++ E+ ++ + + A ERD+ SG G V V+ D
Sbjct: 139 LEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDGIDVVVITKD 182
>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 = 43.7 bits (104), Expect = 1e-05
Identities = 48/206 (23%), Positives = 90/206 (43%), Gaps = 28/206 (13%)
Query: 6 GGAIVAMAGKNCFAIGVDHLLVQGDFTIAEYEN--KVHQMSPHLYLINPGLCADGMQFA- 62
G +++A+ K+ I D L G ++A ++N ++ ++ + L G AD Q+
Sbjct: 2 GTSVIAIKYKDGVIIAADTLGSYG--SLARFKNVERIFKVGDNTLLGASGDYAD-FQYLK 58
Query: 63 ---EKMTLRTANYVASEQSPISPDTFAAIASW---ELYARKLT-SPLFINPIIAGFYPDS 115
+++ + + +SP I S+ LY R+ +PL+ ++ G +
Sbjct: 59 RLLDQLVIDDECL--DDGHSLSPK---EIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNE- 112
Query: 116 GEVFLSTLDMAGCETRKTDFVAGGSAQNMIMGIGESFW--QPGLSPEQ---LFEVCSQVV 170
GE FL +D+ G + VA G + + + W +P L+ E+ L E C +V+
Sbjct: 113 GEPFLGYVDLLGT-AYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEECMKVL 171
Query: 171 IQACERDTKSGWGATVYVVEPDKVTI 196
RD +S + VV + V I
Sbjct: 172 ---YYRDARSINKYQIAVVTKEGVEI 194
>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 = 37.6 bits (88), Expect = 0.002
Identities = 40/174 (22%), Positives = 68/174 (39%), Gaps = 6/174 (3%)
Query: 9 IVAMAGKNCFAIGVDHLLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKMTLR 68
I+A+ +G D G + +K+ Q+ +Y G AD A+ +
Sbjct: 3 IIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYY 62
Query: 69 TANYVASEQSPISPDTFAAIASWELYARKLTSPLFINPIIAGFYPDSG-EVFLSTLDMAG 127
+ P T A++ Y K L I+AG+ +G +V+ L G
Sbjct: 63 LDMHSIELGEPPLVKTAASLFKNLCYNYK--EMLSAGIIVAGWDEQNGGQVYSIPL--GG 118
Query: 128 CETRKTDFVAGGSAQNMIMGIGESFWQPGLSPEQLFEVCSQVVIQACERDTKSG 181
R+ F GGS I G ++ ++PG++ E+ + + A RD SG
Sbjct: 119 MLIRQ-PFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSG 171
>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 = 37.2 bits (87), Expect = 0.002
Identities = 34/130 (26%), Positives = 59/130 (45%), Gaps = 11/130 (8%)
Query: 37 ENKVHQMSPHLYLINPGLCADGMQFAEKMTLRTANYVASEQSPISPDTFAAIASW---EL 93
E+K++++S H + G D +QFAE + Y +SP A A++ EL
Sbjct: 32 EDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSP---KAAANFTRREL 88
Query: 94 YARKLTS--PLFINPIIAGFYPDSGEVFLSTLDMAGCETRKTDFVAGGSAQNMIMGIGES 151
A L S P +N ++AG+ G L +D G K + A G + I +
Sbjct: 89 -AESLRSRTPYQVNLLLAGYDKVEGP-SLYYIDYLGTLV-KVPYAAHGYGAYFCLSILDR 145
Query: 152 FWQPGLSPEQ 161
+++P ++ E+
Sbjct: 146 YYKPDMTVEE 155
>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 = 34.1 bits (79), Expect = 0.028
Identities = 39/197 (19%), Positives = 69/197 (35%), Gaps = 25/197 (12%)
Query: 9 IVAMAGKNCFAIGVDHLLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKMT-- 66
IV + K+ +G D +G + K+H ++P++Y G AD + M
Sbjct: 3 IVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAAD-TEAVTNMISS 61
Query: 67 -LRTANYVASEQSPISPDTFAAIASWELYARKLTSPLF-------INPIIAGFYPDSGEV 118
L + + A+ L LF ++ G D
Sbjct: 62 NLELHRLNTGRKPRVV----TAL-------TMLKQHLFRYQGHIGAALVLGGV--DYTGP 108
Query: 119 FLSTLDMAGCETRKTDFVAGGSAQNMIMGIGESFWQPGLSPEQLFEVCSQVVIQACERDT 178
L ++ G T K FV GS M + E ++P ++ E+ ++ + + D
Sbjct: 109 HLYSIYPHGS-TDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDL 167
Query: 179 KSGWGATVYVVEPDKVT 195
SG + V+ D V
Sbjct: 168 GSGSNVDLCVITKDGVE 184
>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 = 33.5 bits (77), Expect = 0.049
Identities = 29/118 (24%), Positives = 49/118 (41%), Gaps = 16/118 (13%)
Query: 6 GGAIVAMAGKNCFAIGVDHLLV---QGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFA 62
G V + GK+C +GV+ V Q T+ K+ + H+ L GL AD
Sbjct: 27 GTTAVGVRGKDCVVLGVEKKSVAKLQDPRTV----RKICMLDDHVCLAFAGLTADARVLI 82
Query: 63 EKMTLRTANYVASEQSPISPDTFA-AIASWELYARKLTS-----PLFINPIIAGFYPD 114
+ L ++ + + P++ + IA ++ T P I+ +I GF PD
Sbjct: 83 NRARLECQSHRLTVEDPVTVEYITRYIAG---LQQRYTQSGGVRPFGISTLIVGFDPD 137
>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 = 30.3 bits (69), Expect = 0.51
Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 1/76 (1%)
Query: 6 GGAIVAMAGKNCFAIGVDHLLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKM 65
G + + K+ + V+ L V ++ + H+ + GL ADG +
Sbjct: 30 SGTAIGIRCKDGVVLAVEKL-VTSKLYEPGSNKRIFNVDRHIGIAVAGLLADGRHLVSRA 88
Query: 66 TLRTANYVASEQSPIS 81
NY + +PI
Sbjct: 89 REEAENYRDNYGTPIP 104
>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 = 29.7 bits (67), Expect = 0.79
Identities = 17/76 (22%), Positives = 34/76 (44%)
Query: 106 PIIAGFYPDSGEVFLSTLDMAGCETRKTDFVAGGSAQNMIMGIGESFWQPGLSPEQLFEV 165
P++AG+ D+G + + D+ G + + A GS G + + P L + V
Sbjct: 104 PLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALRV 163
Query: 166 CSQVVIQACERDTKSG 181
+ + A + D+ +G
Sbjct: 164 AVEALYDAADDDSATG 179
>gnl|CDD|185741 cd09000, GH43_XYL_1, Glycosyl hydrolase family 43,
beta-D-xylosidase. This glycosyl hydrolase family 43
(GH43) includes mostly enzymes that have been
characterized to have beta-1,4-xylosidase
(beta-D-xylosidase;xylan 1,4-beta-xylosidase; EC
3.2.1.37) activity. They are part of an array of
hemicellulases that are involved in the final breakdown
of plant cell-wall whereby they degrade xylan. They
hydrolyze beta-1,4 glycosidic bonds between two xylose
units in short xylooligosaccharides. These are inverting
enzymes (i.e. they invert the stereochemistry of the
anomeric carbon atom of the substrate) that have an
aspartate as the catalytic general base, a glutamate as
the catalytic general acid and another aspartate that is
responsible for pKa modulation and orienting the
catalytic acid. A common structural feature of GH43
enzymes is a 5-bladed beta-propeller domain that
contains the catalytic acid and catalytic base. A long
V-shaped groove, partially enclosed at one end, forms a
single extended substrate-binding surface across the
face of the propeller.
Length = 288
Score = 29.8 bits (68), Expect = 0.83
Identities = 8/10 (80%), Positives = 9/10 (90%)
Query: 105 NPIIAGFYPD 114
NPI+ GFYPD
Sbjct: 1 NPILPGFYPD 10
>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 = 29.3 bits (67), Expect = 0.91
Identities = 19/91 (20%), Positives = 31/91 (34%), Gaps = 12/91 (13%)
Query: 6 GGAIVAMAGKNCFAIGVDH-----LLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQ 60
G V + GK+ + V+ LL K+ ++ H+ GL AD
Sbjct: 27 GSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVE------KIFKIDDHIGCAVAGLTADARV 80
Query: 61 FAEKMTLRTANYVASEQSPISPDTFA-AIAS 90
+ + NY + PI + IA
Sbjct: 81 LVNRARVEAQNYRYTYGEPIPVEVLVKRIAD 111
>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 = 28.7 bits (65), Expect = 1.4
Identities = 15/54 (27%), Positives = 26/54 (48%)
Query: 139 GSAQNMIMGIGESFWQPGLSPEQLFEVCSQVVIQACERDTKSGWGATVYVVEPD 192
GS G+ +S ++ LS E+ +++ + + A RD SG +Y V D
Sbjct: 129 GSGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATHRDAYSGGNVNLYHVRED 182
>gnl|CDD|218178 pfam04616, Glyco_hydro_43, Glycosyl hydrolases family 43. The
glycosyl hydrolase family 43 contains members that are
arabinanase. Rabinanases hydrolyses the alpha-1,5-linked
L-arabinofuranoside backbone of plant cell wall
arabinans. The structure of arabinanase Arb43A from
Cellvibrio japonicus reveals a five-bladed
beta-propeller fold. A long V-shaped groove, partially
enclosed at one end, forms a single extended
substrate-binding surface across the face of the
propeller.
Length = 284
Score = 28.1 bits (63), Expect = 2.8
Identities = 7/12 (58%), Positives = 11/12 (91%)
Query: 103 FINPIIAGFYPD 114
+ NP+++GFYPD
Sbjct: 1 YTNPVLSGFYPD 12
>gnl|CDD|213266 cd03299, ABC_ModC_like, ATP-binding cassette domain similar to the
molybdate transporter. Archaeal protein closely related
to ModC. ModC is an ABC-type transporter and the ATPase
component of a molybdate transport system that also
includes the periplasmic binding protein ModA and the
membrane protein ModB. ABC transporters are a large
family of proteins involved in the transport of a wide
variety of different compounds, like sugars, ions,
peptides, and more complex organic molecules. The
nucleotide binding domain shows the highest similarity
between all members of the family. ABC transporters are
a subset of nucleotide hydrolases that contain a
signature motif, Q-loop, and H-loop/switch region, in
addition to, the Walker A motif/P-loop and Walker B
motif commonly found in a number of ATP- and GTP-binding
and hydrolyzing proteins.
Length = 235
Score = 27.3 bits (61), Expect = 4.7
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 107 IIAGFY-PDSGEVFLSTLDMAGCETRKTDF 135
IAGF PDSG++ L+ D+ K D
Sbjct: 44 TIAGFIKPDSGKILLNGKDITNLPPEKRDI 73
>gnl|CDD|182306 PRK10207, PRK10207, dipeptide/tripeptide permease B; Provisional.
Length = 489
Score = 27.1 bits (60), Expect = 7.4
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 84 TFAAIASWELYARKLTSPLFINPIIAGFYPDSGEVFLSTLDMA 126
T AA W A+ LTSP FI ++ + GE+F+S L +A
Sbjct: 362 TAAAAGMWFADAQGLTSPWFI--VLVYLFQSLGELFISALGLA 402
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 26.9 bits (59), Expect = 7.5
Identities = 35/173 (20%), Positives = 70/173 (40%), Gaps = 4/173 (2%)
Query: 20 IGVDHLLVQGDFTIAEYENKVHQMSPHLYLINPGLCADGMQFAEKMTLRTANYVASEQSP 79
I VD G + ++ KV +++P L G AD + ++ ++ Y
Sbjct: 53 IAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGEL 112
Query: 80 ISPDTFAAIASWELYARKLTSPLFINPIIAGFYPDSGEVFLSTLDMAGCETRKTDFVAGG 139
IS + I + ++ K L + +I G+ +F +D G F + G
Sbjct: 113 ISVAAASKILANIVWNYK-GMGLSMGTMICGWDKKGPGLFY--VDNDGTRLHGNMF-SCG 168
Query: 140 SAQNMIMGIGESFWQPGLSPEQLFEVCSQVVIQACERDTKSGWGATVYVVEPD 192
S G+ ++ ++ L+ E+ ++ + + A RD SG +Y ++ D
Sbjct: 169 SGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKD 221
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
0.320 0.135 0.409
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,456,624
Number of extensions: 956989
Number of successful extensions: 785
Number of sequences better than 10.0: 1
Number of HSP's gapped: 766
Number of HSP's successfully gapped: 32
Length of query: 204
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 112
Effective length of database: 6,857,034
Effective search space: 767987808
Effective search space used: 767987808
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 (21.8 bits)
S2: 57 (25.7 bits)