RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8684
(226 letters)
>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 = 241 bits (617), Expect = 1e-81
Identities = 99/204 (48%), Positives = 139/204 (68%), Gaps = 17/204 (8%)
Query: 18 TTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLVS 77
TT IA EY+ GV++GAD+RT+ G+YV NR +KLT++ D IYCCRSG+AADTQAI+D V
Sbjct: 1 TTIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVR 60
Query: 78 YHIDLDVAYGYR-EMNEPPLVYRAANLFQKIFRSNEGSFKAAIIIAGWDTVKGGQVYALP 136
Y++D+ + E+ EPPLV AA+LF+ + + + A II+AGWD GGQVY++P
Sbjct: 61 YYLDM-----HSIELGEPPLVKTAASLFKNLCYNYKEMLSAGIIVAGWDEQNGGQVYSIP 115
Query: 137 ASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASGGLIN 196
G+L RQ A+GGSGS+YI GYVD ++ M +ECI F+K LSLAM+RD +SGG+I
Sbjct: 116 LGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSGGVIR 175
Query: 197 IGVLENGKPMEKLVFTQEEVQHFF 220
+ ++ T++ V+ F
Sbjct: 176 LVII-----------TKDGVERKF 188
>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 = 171 bits (436), Expect = 3e-54
Identities = 59/185 (31%), Positives = 100/185 (54%), Gaps = 5/185 (2%)
Query: 18 TTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLVS 77
TT + + ++GV++ ADTR + G+ V +R +K+ KISDNI +G+AADTQA++ L+
Sbjct: 1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLK 60
Query: 78 YHIDLDVAYGYREMNEPPLVYRAANLFQKI-FRSNEGSFKAAIIIAGWDTVKGGQVYALP 136
++ L Y R V AANL I + + ++I+ G D G +Y +
Sbjct: 61 RNLRL---YELRN-GRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVD 116
Query: 137 ASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASGGLIN 196
G L GSGS Y G +D+ ++ +M +E ++ +K + A+ RD +SGG ++
Sbjct: 117 PLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVD 176
Query: 197 IGVLE 201
+ V+
Sbjct: 177 VAVIT 181
>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 = 153 bits (389), Expect = 4e-47
Identities = 58/186 (31%), Positives = 91/186 (48%), Gaps = 7/186 (3%)
Query: 18 TTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLVS 77
TT + + ++GV++ AD R T G V + EK+ KI D+I C +G AAD Q + + +
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60
Query: 78 YHIDLDVAYGYREMNEPPLVYRAANLFQKI---FRSNEGSFKAAIIIAGWDTVKGGQVYA 134
L Y R EP V A L + + + ++++AG D G Q+Y+
Sbjct: 61 KEAQL---YRLRY-GEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYS 116
Query: 135 LPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASGGL 194
+ SG GSGS Y LG ++K ++ +M +E I+ L A+ RD SGG
Sbjct: 117 VDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGN 176
Query: 195 INIGVL 200
I + V+
Sbjct: 177 IEVAVI 182
>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 = 152 bits (386), Expect = 1e-46
Identities = 57/191 (29%), Positives = 93/191 (48%), Gaps = 7/191 (3%)
Query: 14 VTCGTTTIACEYENGVMMGADTRTTLGTYVCNR-EAEKLTKISDNIYCCRSGTAADTQAI 72
V GTT + + ++GV++ AD R T G+ + ++ EK+ KI D+I +G AAD Q +
Sbjct: 1 VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60
Query: 73 SDLVSYHIDLDVAYGYREMNEPP--LVYRAANLFQK-IFRSNEGSFKAAIIIAGWDTVKG 129
D L Y R L R A+ Q S + +++IAG+D G
Sbjct: 61 VDYARAEAQL---YRLRYGRPISVELAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGG 117
Query: 130 GQVYALPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDY 189
+Y++ SG + GSGS Y G+++K ++ +M +E ++ L A+ RD
Sbjct: 118 PHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERDA 177
Query: 190 ASGGLINIGVL 200
SGG I + V+
Sbjct: 178 LSGGNIEVAVI 188
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 141 bits (357), Expect = 1e-41
Identities = 60/208 (28%), Positives = 97/208 (46%), Gaps = 10/208 (4%)
Query: 17 GTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLV 76
GTTT+ + ++GV++ AD R T G + + EK+ KI D+I +G AAD Q +
Sbjct: 30 GTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYA 89
Query: 77 SYHIDLDVAYGYREMNEPPLVYRAANLFQKIFRSNEGS---FKAAIIIAGWDTVKGGQVY 133
EP V A L I + S + ++++AG D G ++Y
Sbjct: 90 RAEA----QLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVDD-GGPRLY 144
Query: 134 ALPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASGG 193
+ SG GSGS + G+++KE+R ++ +E I+ L A+ RD ASGG
Sbjct: 145 STDPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERDAASGG 204
Query: 194 LINIGVLENGKPMEKLVFTQEEVQHFFN 221
I + V+ + KL EE++ +
Sbjct: 205 GIEVAVITKDEGFRKL--DGEEIKKLLD 230
>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 = 111 bits (281), Expect = 7e-31
Identities = 54/190 (28%), Positives = 100/190 (52%), Gaps = 11/190 (5%)
Query: 18 TTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLVS 77
TT + +++GV++GADTR T G V ++ EK+ I+ NIYCC +GTAADT+A+++++S
Sbjct: 1 TTIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMIS 60
Query: 78 YHIDLDVAYGYREMN---EPPLVYRAANLFQKIFRSNEGSFKAAIIIAGWDTVKGGQVYA 134
+++L +N +P +V L Q +FR G AA+++ G D G +Y+
Sbjct: 61 SNLEL------HRLNTGRKPRVVTALTMLKQHLFRYQ-GHIGAALVLGGVD-YTGPHLYS 112
Query: 135 LPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASGGL 194
+ G + GSGS + ++ ++ +M ++E + + + D SG
Sbjct: 113 IYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDLGSGSN 172
Query: 195 INIGVLENGK 204
+++ V+
Sbjct: 173 VDLCVITKDG 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 = 99.8 bits (249), Expect = 2e-26
Identities = 43/164 (26%), Positives = 71/164 (43%), Gaps = 8/164 (4%)
Query: 18 TTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLVS 77
+T++A + + GV++ AD R + G V K+ K D I +G AAD Q + +
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60
Query: 78 YHIDLDVAYGYREMNEPPLVYRAANLFQKIFRSN--EGSFKAAIIIAGWDTVKGGQVYAL 135
+ L Y R EP V A K+ + F +I+AG D GG +Y +
Sbjct: 61 EALQL---YRLRY-GEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDE-GGGNLYYI 115
Query: 136 PASG-VLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIK 178
SG V+ GS S ++K ++ +M +E ++
Sbjct: 116 DPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELAL 159
>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 = 99.6 bits (249), Expect = 3e-26
Identities = 52/186 (27%), Positives = 91/186 (48%), Gaps = 8/186 (4%)
Query: 17 GTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLV 76
GTTT+ + ++GV++ AD R ++G +V ++ A+K+ +I D I +G+ D Q++ ++
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60
Query: 77 SYHIDLDVAYGYR-EMNEPPLVYRAANLFQKIFRSNEG-SFKAAIIIAGWDTVKGGQVYA 134
L Y P V A L I SN F +++ G D +G +Y+
Sbjct: 61 KAEAKL-----YELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVDE-EGPHLYS 114
Query: 135 LPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASGGL 194
L +G + + GSGS G ++ E+R +M +E + A+ RD ASG
Sbjct: 115 LDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASGNG 174
Query: 195 INIGVL 200
I++ V+
Sbjct: 175 IDVAVI 180
>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 = 99.6 bits (249), Expect = 4e-26
Identities = 46/192 (23%), Positives = 90/192 (46%), Gaps = 7/192 (3%)
Query: 18 TTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLVS 77
TTT+ ++GV++ AD R ++G ++ ++ +K+ +I D I +G+ D Q++ ++
Sbjct: 1 TTTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILK 60
Query: 78 YHIDLDVAYGYREMNEPPLVYRAANLFQKIFRSNEG-SFKAAIIIAGWDTVKGGQVYALP 136
+ P + A L I S++ + ++I G D +G +Y+L
Sbjct: 61 ----AEARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQLLIGGVDE-EGPHLYSLD 115
Query: 137 ASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASGGLIN 196
G + GSGS Y G ++ E++ +M +E + A+ RD ASG I+
Sbjct: 116 PLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDGID 175
Query: 197 IGVL-ENGKPME 207
+ V+ ++G
Sbjct: 176 VVVITKDGYKEL 187
>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 = 79.2 bits (196), Expect = 2e-18
Identities = 50/181 (27%), Positives = 87/181 (48%), Gaps = 6/181 (3%)
Query: 18 TTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLVS 77
TTT+A ++ GV++ D+R T G+Y+ ++ +K+ +I+ + +G AAD Q ++
Sbjct: 1 TTTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLG 60
Query: 78 YHIDLDVAYGYREMNEPPLVYRAANLFQKIFRSNEG-SFKAAIIIAGWDTVKGGQVYALP 136
L Y R E V A+ L + +G +I GWD G +Y +
Sbjct: 61 RECRL---YELRN-KERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDK-TGPGLYYVD 115
Query: 137 ASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASGGLIN 196
+ G + + GSGS+Y G +D +R ++ +E D + + A RD SGG +N
Sbjct: 116 SDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYDLARRAIYHATHRDAYSGGNVN 175
Query: 197 I 197
+
Sbjct: 176 L 176
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 71.9 bits (176), Expect = 3e-15
Identities = 52/193 (26%), Positives = 89/193 (46%), Gaps = 6/193 (3%)
Query: 6 PDISAGTEVTCGTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGT 65
D + E GTTT+A +Y G+++ D++ T G Y+ ++ +K+ +I+ + +G
Sbjct: 28 GDANKAIEFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGG 87
Query: 66 AADTQAISDLVSYHIDLDVAYGYREMNEPPLVYRAANLFQKIFRSNEG-SFKAAIIIAGW 124
AAD ++ L Y R E V A+ + I + +G +I GW
Sbjct: 88 AADCSFWERELAMQCRL---YELRN-GELISVAAASKILANIVWNYKGMGLSMGTMICGW 143
Query: 125 DTVKGGQVYALPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLA 184
D KG ++ + G N GSGS+Y G +D ++ ++ +E D + + A
Sbjct: 144 DK-KGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEAQDLGRRAIYHA 202
Query: 185 MARDYASGGLINI 197
RD SGG IN+
Sbjct: 203 TFRDAYSGGAINL 215
>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 = 65.7 bits (161), Expect = 2e-13
Identities = 38/157 (24%), Positives = 74/157 (47%), Gaps = 9/157 (5%)
Query: 26 ENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLVSYHIDLDVA 85
++ V++ ADT V + +K+ K+SD+ SG A D ++ + +I L
Sbjct: 10 KDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQL--- 66
Query: 86 YGYREMNEPPLVYRAANLFQKI----FRSNEGSFKAAIIIAGWDTVKGGQVYALPASGVL 141
Y R AAN ++ RS ++ +++AG+D V+G +Y + G L
Sbjct: 67 YKMRN-GYELSPKAAANFTRRELAESLRSRTP-YQVNLLLAGYDKVEGPSLYYIDYLGTL 124
Query: 142 TRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIK 178
+ A G G+ + L +D+ ++ +M +E ++ +K
Sbjct: 125 VKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMK 161
>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 = 56.9 bits (138), Expect = 5e-10
Identities = 46/185 (24%), Positives = 79/185 (42%), Gaps = 20/185 (10%)
Query: 17 GTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLV 76
G T +A + ++ DTR + G + +R++ K+ K++D SG AD A++ +
Sbjct: 8 GGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRL 67
Query: 77 SYHIDLDVAYGY---REMNEPPLVYRAAN-LFQKIFRSNEGSFKAAIIIAGWDTVKGGQV 132
I + Y Y +EM+ + + L+ + F + I+AG D G V
Sbjct: 68 KARIKM---YKYSHNKEMSTEAIAQLLSTILYSRRFF----PYYVFNILAGIDEEGKGVV 120
Query: 133 YALPASGVLTRQNCAVGGSGSSYILGYVD-----KEW----RANMKKQECIDFIKMGLSL 183
Y+ G R+ + GGS SS I +D K R + +E + +K +
Sbjct: 121 YSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFTS 180
Query: 184 AMARD 188
A RD
Sbjct: 181 AAERD 185
>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 = 55.4 bits (134), Expect = 1e-09
Identities = 45/172 (26%), Positives = 75/172 (43%), Gaps = 13/172 (7%)
Query: 10 AGTEVTCGTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADT 69
A V GTT + + + GV++ D R T V EK+ KI D++ SG AD
Sbjct: 21 AREAVKRGTTALGIKCKEGVVLAVDKRIT-SKLVEPESIEKIYKIDDHVGAATSGLVADA 79
Query: 70 QAISDLVSYHIDLDVAYGYREMNEPP----LVYRAANLFQKIFRSNEGS--FKAAIIIAG 123
+ L+ + EP LV + +L Q+ + + G F A++IAG
Sbjct: 80 RV---LIDRARVEAQIHRLT-YGEPIDVEVLVKKICDLKQQ-YTQHGGVRPFGVALLIAG 134
Query: 124 WDTVKGGQVYALPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECID 175
D G +++ SG GSG + +++KE++ +M +E I+
Sbjct: 135 VDD-GGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIE 185
>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 = 53.0 bits (128), Expect = 1e-08
Identities = 42/191 (21%), Positives = 75/191 (39%), Gaps = 14/191 (7%)
Query: 17 GTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLV 76
GT+ IA +Y++GV++ ADT + G+ + E++ K+ DN SG AD Q + L+
Sbjct: 2 GTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLL 61
Query: 77 SYHIDLDVAYGYREMNEPPLVYRAANLFQKIF---RSNEGSFKAAIIIAGWDTVKG---G 130
+ D P ++ + ++ RS +++ G D G
Sbjct: 62 DQLVIDDECLDDGHSLSPKEIH---SYLTRVLYNRRSKMNPLWNTLVVGGVDNEGEPFLG 118
Query: 131 QVYALPASGVLTRQNCAVGGSGSSYILGYVDKEWRA--NMKKQECIDFIKMGLSLAMARD 188
V L G G G+ L + + W ++ ++E I+ + + RD
Sbjct: 119 YVDLL---GTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEECMKVLYYRD 175
Query: 189 YASGGLINIGV 199
S I V
Sbjct: 176 ARSINKYQIAV 186
>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 = 50.0 bits (120), Expect = 2e-07
Identities = 54/218 (24%), Positives = 92/218 (42%), Gaps = 27/218 (12%)
Query: 10 AGTEVTCGTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADT 69
A V GTT + + ++GV++ D R T V EK+ KI D+I SG AD
Sbjct: 22 AREAVKRGTTAVGIKTKDGVVLAVDKRIT-SKLVEPSSIEKIFKIDDHIGAATSGLVADA 80
Query: 70 QAISDL---------VSYHIDLDVAYGYREMNEPPLVYRAANLFQKIFRSNEGS--FKAA 118
+ + D ++Y +DV L + +L Q+ + + G F A
Sbjct: 81 RVLIDRARIEAQINRLTYGEPIDVET---------LAKKICDLKQQ-YTQHGGVRPFGVA 130
Query: 119 IIIAGWDTVKGGQVYALPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIK 178
++IAG D G +++ SG L G+G + +++KE+R ++ E I+
Sbjct: 131 LLIAGVDD-GGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELAL 189
Query: 179 MGLSLAMARDYASGGLINIGVLE-NGKPMEKLVFTQEE 215
L A+ D + + + + K KL + EE
Sbjct: 190 KALYSAV-EDKLTPENVEVAYITVEDKKFRKL--SVEE 224
>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 = 49.0 bits (118), Expect = 3e-07
Identities = 43/170 (25%), Positives = 78/170 (45%), Gaps = 18/170 (10%)
Query: 14 VTCGTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAIS 73
V G+T + + ++GV++ + + T + EK+ KI D+I C +G AD + +
Sbjct: 24 VKNGSTAVGIKGKDGVVLAVEKKVT-SKLLDPSSVEKIFKIDDHIGCAVAGLTADARVLV 82
Query: 74 DL-----VSYHIDLDVAYGYREMNEPPLVYRAANLFQKIFRSNEGS---FKAAIIIAGWD 125
+ +Y YG + LV R A+L Q + G F +++IAG+D
Sbjct: 83 NRARVEAQNYRYT----YGE-PIPVEVLVKRIADLAQV--YTQYGGVRPFGVSLLIAGYD 135
Query: 126 TVKGGQVYALPASGVLTR-QNCAVGGSGSSYILGYVDKEWRANMKKQECI 174
G Q+Y SG + A+ G GS +++K ++ ++ +E I
Sbjct: 136 EEGGPQLYQTDPSGTYFGYKATAI-GKGSQEAKTFLEKRYKKDLTLEEAI 184
>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 = 48.6 bits (116), Expect = 4e-07
Identities = 45/184 (24%), Positives = 79/184 (42%), Gaps = 12/184 (6%)
Query: 17 GTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLV 76
GTT +A Y GV+M D R T G + +R+ EK+ + +GTA + L
Sbjct: 2 GTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRL- 60
Query: 77 SYHIDLDVAYGYREMNEPPLVYRA-ANLFQKIFRSNEGS----FKAAIIIAGWDTVKG-G 130
+ ++L+ Y ++ PL AN + R N + ++AG+D G G
Sbjct: 61 -FQVELE---HYEKIEGVPLTLDGKANRLAAMVRGNLPAAMQGLAVVPLLAGYDLDAGAG 116
Query: 131 QVYAL-PASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDY 189
++++ G + GSGS + G + K + ++ + + + L A D
Sbjct: 117 RIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDALRVAVEALYDAADDDS 176
Query: 190 ASGG 193
A+GG
Sbjct: 177 ATGG 180
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 46.4 bits (111), Expect = 3e-06
Identities = 45/217 (20%), Positives = 90/217 (41%), Gaps = 27/217 (12%)
Query: 17 GTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAAD-------- 68
GTT + + ++GV++ D R T + EK+ KI D+I +G AD
Sbjct: 36 GTTAVGVKTKDGVVLAVDKRIT-SPLIEPSSIEKIFKIDDHIGAASAGLVADARVLIDRA 94
Query: 69 -TQAISDLVSYHIDLDVAYGYREMNEPPLVYRAANLFQKIFRSNEGS--FKAAIIIAGWD 125
+A + ++Y + V L + + Q+ + + G F A++IAG D
Sbjct: 95 RVEAQINRLTYGEPIGVET---------LTKKICDHKQQ-YTQHGGVRPFGVALLIAGVD 144
Query: 126 TVKGGQVYALPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAM 185
G +++ SG G+G ++ +++K ++ ++ +E I+ L+ A
Sbjct: 145 D-GGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNYKEDLSLEEAIELALKALAKAN 203
Query: 186 ARDYASGGLINIGVLE-NGKPMEKLVFTQEEVQHFFN 221
+ I ++ K KL + EE++ +
Sbjct: 204 EGKLDPEN-VEIAYIDVETKKFRKL--SVEEIEKYLE 237
>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 = 45.7 bits (109), Expect = 3e-06
Identities = 39/178 (21%), Positives = 76/178 (42%), Gaps = 6/178 (3%)
Query: 17 GTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLV 76
G +A ++ V + +D R + + + +K+ +I D +Y +G A D Q ++ +
Sbjct: 3 GGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKL 62
Query: 77 SYHIDLDVAYGYREMNEPPLVYRAAN-LFQKIFRSNEGSFKAAIIIAGWDTVKGGQVYAL 135
+ ++L RE+ ++ L++K F G + ++AG D + +
Sbjct: 63 RFRVNLYRLREEREIKPKTFSSLISSLLYEKRF----GPYFVEPVVAGLDPDGKPFICTM 118
Query: 136 PASGVL-TRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASG 192
G + V G+ S + G + WR +M+ E + I L A+ RD SG
Sbjct: 119 DLIGCPSIPSDFVVSGTASEQLYGMCESLWRPDMEPDELFETISQALLSAVDRDALSG 176
>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 = 44.6 bits (106), Expect = 9e-06
Identities = 40/150 (26%), Positives = 67/150 (44%), Gaps = 16/150 (10%)
Query: 14 VTCGTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAIS 73
+ G+T I + + GV++ + R T + EK+ +I D+I C SG AD + +
Sbjct: 24 IKLGSTAIGIKTKEGVVLAVEKRIT-SPLMEPSSVEKIMEIDDHIGCAMSGLIADARTLI 82
Query: 74 DLVSYHIDLDV---AYGYRE-MNEPPLVYRAANLFQKIFRSNEGS------FKAAIIIAG 123
D H ++ + Y E M + ++L + ++G F A++IAG
Sbjct: 83 D----HARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAG 138
Query: 124 WDTVKGGQVYALPASGVLTRQNCAVGGSGS 153
D G Q++ SG TR + GSGS
Sbjct: 139 VDE-NGPQLFHTDPSGTFTRCDAKAIGSGS 167
>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 = 42.7 bits (101), Expect = 4e-05
Identities = 33/183 (18%), Positives = 70/183 (38%), Gaps = 20/183 (10%)
Query: 10 AGTEVTCGTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADT 69
A V GTT + ++ V++G + ++ R K+ + D++ +G AD
Sbjct: 20 AQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQD-PRTVRKICMLDDHVCLAFAGLTADA 78
Query: 70 QAISDLV-----SYHIDLDVAYGYREMNEPPLVYRA---ANLFQKIFRSNEGS--FKAAI 119
+ + + S+ + ++ + Y A L Q+ +S G F +
Sbjct: 79 RVLINRARLECQSHRLTVEDP--------VTVEYITRYIAGLQQRYTQSG-GVRPFGIST 129
Query: 120 IIAGWDTVKGGQVYALPASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKM 179
+I G+D ++Y SG + G S + +++K ++ M + + I
Sbjct: 130 LIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIK 189
Query: 180 GLS 182
L
Sbjct: 190 ALL 192
>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 = 38.5 bits (90), Expect = 0.001
Identities = 33/130 (25%), Positives = 56/130 (43%), Gaps = 17/130 (13%)
Query: 19 TTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQAISDLVSY 78
T + ++G+++ A+ + T + +EK+ KI D+I C +G +D L++Y
Sbjct: 31 TCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDANI---LINY 87
Query: 79 HIDLDVAYGYREM-NEPPLVYRAANLFQKIFRSNEG--------SFKAAIIIAGWDTVKG 129
+A Y EP V L Q++ +G F + + AGWD G
Sbjct: 88 A--RLIAQRYLYSYQEPIPV---EQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYG 142
Query: 130 GQVYALPASG 139
Q+Y SG
Sbjct: 143 FQLYQSDPSG 152
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 38.7 bits (90), Expect = 0.001
Identities = 46/209 (22%), Positives = 89/209 (42%), Gaps = 10/209 (4%)
Query: 20 TIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADTQA-ISDLVSY 78
T+ + GV++GAD + + EK+ KI +I+C +G AD I+ Y
Sbjct: 34 TVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADANILINQCRLY 93
Query: 79 HIDLDVAYGYREMNEPPLVYRAANLFQKIFRSNEG--SFKAAIIIAGWDTVKGGQVYALP 136
YG + E LV + +L Q + G F + + AG+D G Q+Y
Sbjct: 94 AQRYRYTYGEPQPVEQ-LVVQICDLKQS-YTQFGGLRPFGVSFLFAGYDENLGYQLYHTD 151
Query: 137 ASGVLTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDFIKMGLSLAMARDYASGGLIN 196
SG + G + + +EW+ ++ ++ + L+ +M I
Sbjct: 152 PSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIE 211
Query: 197 IGVLEN----GKPMEKLVFTQEEVQHFFN 221
+G+L + G+P++K++ +++E+
Sbjct: 212 VGILSHGETDGEPIQKML-SEKEIAELLK 239
>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 = 37.3 bits (87), Expect = 0.003
Identities = 48/224 (21%), Positives = 88/224 (39%), Gaps = 38/224 (16%)
Query: 10 AGTEVTCGTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCCRSGTAADT 69
A V+ G ++ + NGV++ + + + K+ +I+ +I SG D
Sbjct: 20 ALAAVSSGAPSVGIKAANGVVLATEKKVP-SPLIDESSVHKVEQITPHIGMVYSGMGPD- 77
Query: 70 QAISDLVSYHIDLDVA------YGYREMNEPP----LVYRAANLFQKIFRSNEG--SFKA 117
+ + + A Y Y EP LV A++ Q+ + + G F
Sbjct: 78 --------FRVLVKKARKIAQQY-YLVYGEPIPVSQLVREIASVMQE-YTQSGGVRPFGV 127
Query: 118 AIIIAGWDTVKGGQVYALPASGV-LTRQNCAVGGSGSSYILGYVDKEWRANMKKQECIDF 176
+++IAGWD G +Y + SG T + A+ G S +++K + ++ E D
Sbjct: 128 SLLIAGWD-EGGPYLYQVDPSGSYFTWKATAI-GKNYSNAKTFLEKRYNEDL---ELEDA 182
Query: 177 IKMGLSLAMARDYASGGL----INIGVLENGKPMEKLVFTQEEV 216
I + ++ G + I IG+ K L T E+
Sbjct: 183 IHTAIL--TLKEGFEGQMTEKNIEIGICGETKGFRLL--TPAEI 222
>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 = 34.5 bits (80), Expect = 0.025
Identities = 28/103 (27%), Positives = 45/103 (43%), Gaps = 6/103 (5%)
Query: 51 LTKISDNIYCCRSGTAADTQAISDLVSYH-IDLDVAYGYREMNEPPLVYRAANLFQKIFR 109
L +I+D I C +G AD+++ Y + YGY EM L R A++ Q ++
Sbjct: 62 LFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGY-EMPVDVLAKRIADINQ-VYT 119
Query: 110 SNEG--SFKAAIIIAGWDTVKGGQVYAL-PASGVLTRQNCAVG 149
+ ++I+ G D G Q+Y PA + A G
Sbjct: 120 QHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAAG 162
>gnl|CDD|227692 COG5405, HslV, ATP-dependent protease HslVU (ClpYQ), peptidase
subunit [Posttranslational modification, protein
turnover, chaperones].
Length = 178
Score = 30.7 bits (70), Expect = 0.34
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 17 GTTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDN-IYCCRSGTAAD 68
TT +A V++ D + TLG V A K+ ++ + + +G+ AD
Sbjct: 4 MTTIVAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVLAGFAGSTAD 56
>gnl|CDD|214712 smart00539, NIDO, Extracellular domain of unknown function in
nidogen (entactin) and hypothetical proteins.
Length = 152
Score = 30.5 bits (69), Expect = 0.40
Identities = 12/42 (28%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 88 YREMNEPPLVYRAANLFQKIFRSNEGSFKA-AIIIAGWDTVK 128
YRE + ++ RA ++ F G F+A +++I W+ V
Sbjct: 16 YRETTDHAILDRATESVREGFTDM-GGFRAKSVVIVTWENVA 56
>gnl|CDD|204699 pfam11646, DUF3258, Protein of unknown function DUF3258. This
viral family are possible phage integrase proteins
however this cannot be confirmed.
Length = 111
Score = 29.1 bits (65), Expect = 0.84
Identities = 13/45 (28%), Positives = 25/45 (55%)
Query: 176 FIKMGLSLAMARDYASGGLINIGVLENGKPMEKLVFTQEEVQHFF 220
+IK GL + +DYA ++ + + +GK E+ V++ E + F
Sbjct: 17 YIKFGLYVLKQKDYARFEIVWVAIDPDGKIEERTVYSIETYWYIF 61
>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 = 28.7 bits (65), Expect = 1.5
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 18 TTTIACEYENGVMMGADTRTTLGTYVCNREAEKLTKIS-DNIYCCRSGTAAD 68
TT +A V++ D + TLG V A K+ ++ + +G+ AD
Sbjct: 1 TTILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTAD 52
>gnl|CDD|239251 cd02953, DsbDgamma, DsbD gamma family; DsbD gamma is the C-terminal
periplasmic domain of the bacterial protein DsbD. It
contains a CXXC motif in a TRX fold and shuttles the
reducing potential from the membrane domain (DsbD beta)
to the N-terminal periplasmic domain (DsbD alpha). DsbD
beta, a transmembrane domain comprising of eight
helices, acquires its reducing potential from the
cytoplasmic thioredoxin. DsbD alpha transfers the
acquired reducing potential from DsbD gamma to target
proteins such as the periplasmic protein disulphide
isomerases, DsbC and DsbG. This flow of reducing
potential from the cytoplasm through DsbD allows DsbC
and DsbG to act as isomerases in the oxidizing
environment of the bacterial periplasm. DsbD also
transfers reducing potential from the cytoplasm to
specific reductases in the periplasm which are involved
in the maturation of cytochromes.
Length = 104
Score = 27.6 bits (62), Expect = 2.5
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 204 KPMEKLVFTQEEVQHFFNH 222
K EK+VF+ EVQ
Sbjct: 27 KVNEKVVFSDPEVQAALKK 45
>gnl|CDD|226015 COG3484, COG3484, Predicted proteasome-type protease
[Posttranslational modification, protein turnover,
chaperones].
Length = 255
Score = 28.3 bits (63), Expect = 2.7
Identities = 21/95 (22%), Positives = 37/95 (38%), Gaps = 18/95 (18%)
Query: 18 TTTIACEYENGVMMGADTRTTLGT---------YVCNREAEKLTKISDNIYCCRSGTAAD 68
T + + G++ G+D+RT G +V +++ + C +G A
Sbjct: 2 TYCVGLILDFGLVFGSDSRTNAGVDYISTFKKLFVFELPGDRV------LVLCTAGNLAI 55
Query: 69 TQAISDLVSYHIDLDVAYGYREMNEPPLVYRAANL 103
TQA+ L+ I D + P +Y A L
Sbjct: 56 TQAVLHLLDERIQRDDG---DSLLNIPSMYEATTL 87
>gnl|CDD|236835 PRK11069, recC, exonuclease V subunit gamma; Provisional.
Length = 1122
Score = 28.7 bits (65), Expect = 3.3
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 146 CAVGGSGSSYILGYVDKEWR 165
CA GG+G S + G + EWR
Sbjct: 988 CASGGNGESRLFGRKEGEWR 1007
>gnl|CDD|235049 PRK02534, PRK02534, 4-diphosphocytidyl-2-C-methyl-D-erythritol
kinase; Provisional.
Length = 312
Score = 27.9 bits (63), Expect = 3.8
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 96 LVYRAANLFQKIFRSNEG 113
L+YRAA L +K F EG
Sbjct: 68 LIYRAAQLLRKRFPFAEG 85
>gnl|CDD|240483 cd12903, SPRY_PRY_SPRYD4, PRY/SPRY domain containing protein 4
(SPRYD4). This domain, consisting of the distinct
N-terminal PRY subdomain followed by the SPRY subdomain
and is encoded by the SPRYD4 gene. SPRYD4 (SPRY
containing domain 4) is ubiquitously expressed in many
human tissues, most strongly in kidney, bladder, brain,
thymus and stomach. Subcellular localization
demonstrates that SPRYD4 protein is localized in the
nucleus when overexpressed in COS-7 green monkey cell.
It has remained uncharacterized thus far.
Length = 169
Score = 27.5 bits (61), Expect = 3.9
Identities = 19/77 (24%), Positives = 35/77 (45%), Gaps = 10/77 (12%)
Query: 124 WD-TVKGGQVYALPASGVLTRQNCAVGGSGSSYILGYVDKEWRA-NMKKQECIDFI---- 177
W+ TVK Q + + + V ++ +G S++ Y ++W A + + I
Sbjct: 59 WEVTVKRSQEFRIGVADVDMSRDECIGVDSRSWVFAYAQRKWYAMIASETVPVPNIGKPE 118
Query: 178 KMGLSLAMARDYASGGL 194
++GL L DY +G L
Sbjct: 119 RVGLLL----DYEAGKL 131
>gnl|CDD|189030 cd09860, PIN_T4-like, PIN domain of bacteriophage T3, T4 RNase H,
T5-5'nuclease, and homologs. PIN (PilT N terminus)
domain of bacteriophage T5-5'nuclease (5'-3' exonuclease
or T5FEN), bacteriophage T4 RNase H (T4FEN),
bacteriophage T3 (T3 phage exodeoxyribonuclease) and
other similar 5' nucleases are included in this family.
T5-5'nuclease is a 5'-3'exodeoxyribonuclease that also
exhibits endonucleolytic activity on flap structures
(branched duplex DNA containing a free single-stranded
5'end). T4 RNase H, which removes the RNA primers that
initiate lagging strand fragments, has 5'- 3'exonuclease
activity on DNA/DNA and RNA/DNA duplexes and has
endonuclease activity on flap or forked DNA structures.
Bacteriophage T3 is believed to function in the removal
of DNA-linked RNA primers and is essential for phage DNA
replication and also necessary for host DNA degradation
and phage genetic recombination. These nucleases are
members of the structure-specific, 5' nuclease family
that catalyzes hydrolysis of DNA duplex-containing
nucleic acid structures during DNA replication, repair,
and recombination. They have a PIN domain with a helical
arch/clamp region (I domain) of variable length
(approximately 20 to 30 residues in PIN T5-like domains)
and a H3TH (helix-3-turn-helix) domain, an atypical
helix-hairpin-helix-2-like region. Both the H3TH domain
(not included here) and the helical arch/clamp region
are involved in DNA/RNA binding. The active site
includes a set of conserved acidic residues that are
essential for binding divalent metal ions required for
nuclease activity. In the T5-5'nuclease,
structure-specific endonuclease activity requires
binding of a single metal ion in the high-affinity,
metal binding site 1, whereas exonuclease activity
requires both, the high-affinity, metal binding site 1
and the low-affinity, metal binding site 2 to be
occupied by a divalent cofactor. The T5-5'nuclease is
reported to be able to bind several metal ions
including, Mg2+, Mn2+, Zn2+ and Co2+, as co-factors.
Length = 170
Score = 27.7 bits (62), Expect = 3.9
Identities = 11/48 (22%), Positives = 16/48 (33%), Gaps = 6/48 (12%)
Query: 87 GYREM------NEPPLVYRAANLFQKIFRSNEGSFKAAIIIAGWDTVK 128
G+ M + A + + N +K AI I WD K
Sbjct: 11 GFAAMYSNFKDESGIMEVMARHGLLDSIKRNAKRYKYAIPIVLWDGRK 58
>gnl|CDD|238635 cd01310, TatD_DNAse, TatD like proteins; E.coli TatD is a
cytoplasmic protein, shown to have magnesium dependent
DNase activity.
Length = 251
Score = 27.2 bits (61), Expect = 6.6
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 3/41 (7%)
Query: 21 IACEYENGVMMGADTRTTLGTYVCNREAEKLTKISDNIYCC 61
+A E GV+ T L + ++ A +L K DN+Y
Sbjct: 21 LARAREAGVIKIIVVGTDLKS---SKRALELAKKYDNVYAA 58
>gnl|CDD|236212 PRK08270, PRK08270, anaerobic ribonucleoside triphosphate
reductase; Provisional.
Length = 656
Score = 27.1 bits (61), Expect = 9.8
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 207 EKLVFTQEEVQHFFNHEAT 225
E+LV QEE + +N EAT
Sbjct: 507 ERLVEFQEETGNLYNLEAT 525
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
0.318 0.134 0.400
Gapped
Lambda K H
0.267 0.0673 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,343,213
Number of extensions: 1039160
Number of successful extensions: 844
Number of sequences better than 10.0: 1
Number of HSP's gapped: 817
Number of HSP's successfully gapped: 46
Length of query: 226
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 133
Effective length of database: 6,812,680
Effective search space: 906086440
Effective search space used: 906086440
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.9 bits)