RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13966
(174 letters)
>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 = 257 bits (659), Expect = 1e-88
Identities = 107/137 (78%), Positives = 121/137 (88%), Gaps = 2/137 (1%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
GLTADAR+LINRA++ECQSH+LTVEDPVT+EYITRYIAGL+Q+YTQS G RPFGIS LI
Sbjct: 73 GLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIV 132
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
GFD DG PRLYQT+PSG Y WKANA GR++KTVREFLEK YK EEMT + TIKLAI+A
Sbjct: 133 GFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYK-EEMTRDD-TIKLAIKA 190
Query: 122 LLEVVQSGQKNLEIAVM 138
LLEVVQSG KN+E+AVM
Sbjct: 191 LLEVVQSGSKNIELAVM 207
>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 = 190 bits (485), Expect = 4e-62
Identities = 70/140 (50%), Positives = 104/140 (74%), Gaps = 4/140 (2%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
GLTADAR+L+NRA++E Q+++ T +P+ +E + + IA L Q YTQ G RPFG+S LI
Sbjct: 72 AGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLI 131
Query: 61 GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
G+D +G P+LYQT+PSG Y+ +KA A G+ ++ + FLEK YK +++T E+A IKLA++
Sbjct: 132 AGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYK-KDLTLEEA-IKLALK 189
Query: 121 ALLEVVQSGQK--NLEIAVM 138
AL EV++ +K N+EIAV+
Sbjct: 190 ALKEVLEEDKKAKNIEIAVV 209
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 166 bits (422), Expect = 3e-52
Identities = 76/163 (46%), Positives = 111/163 (68%), Gaps = 6/163 (3%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
GL ADAR+LI+RA++E Q ++LT +P+ +E +T+ I KQ+YTQ G RPFG++ LI
Sbjct: 82 GLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIA 141
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
G D DG PRL++T+PSG Y E+KA A G TV EFLEK YK E+++ E+A I+LA++A
Sbjct: 142 GVD-DGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNYK-EDLSLEEA-IELALKA 198
Query: 122 LLEVVQSG--QKNLEIA-VMRHGKPVEMLSVAQIEEYVNEIEK 161
L + + +N+EIA + K LSV +IE+Y+ ++ K
Sbjct: 199 LAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKLLK 241
>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 = 146 bits (371), Expect = 4e-45
Identities = 60/141 (42%), Positives = 90/141 (63%), Gaps = 6/141 (4%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
GL ADA+ L++ A+ E Q ++L P+++E + + IA Q YTQ +GRRP+G+S LI
Sbjct: 51 AGLAADAQTLVDYARAEAQLYRLRYGRPISVE-LAKRIADKLQAYTQYSGRRPYGVSLLI 109
Query: 61 GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
G+D DG P LY +PSG E+KA A G ++ FLEK YK +MT E+A ++LA++
Sbjct: 110 AGYDEDGGPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYK-PDMTLEEA-VELAVK 167
Query: 121 ALLEVVQ---SGQKNLEIAVM 138
AL E ++ N+E+AV+
Sbjct: 168 ALKEAIERDALSGGNIEVAVI 188
>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 = 146 bits (371), Expect = 9e-45
Identities = 65/138 (47%), Positives = 96/138 (69%), Gaps = 5/138 (3%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
GL ADAR+LI+RA+IE Q ++LT +P+ +E + + I LKQ+YTQ G RPFG++ LI
Sbjct: 75 GLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIA 134
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
G D DG PRL++T+PSG E+KA A G + V EFLEK Y+ E+++ ++A I+LA++A
Sbjct: 135 GVD-DGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYR-EDLSLDEA-IELALKA 191
Query: 122 LLEVVQSG--QKNLEIAV 137
L V+ +N+E+A
Sbjct: 192 LYSAVEDKLTPENVEVAY 209
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 145 bits (367), Expect = 6e-44
Identities = 58/166 (34%), Positives = 105/166 (63%), Gaps = 8/166 (4%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
GL ADA++L+ A+ E Q ++L +P+++E + + ++ + Q+YTQS RP+G+S L+
Sbjct: 76 AGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLLV 133
Query: 61 GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
G D DG PRLY T+PSG Y E+KA A G ++ FLEK Y+ E+++ E+A I+LA++
Sbjct: 134 AGVD-DGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYR-EDLSLEEA-IELAVK 190
Query: 121 ALLEVVQSG---QKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEK 163
AL ++ +E+AV+ + L +I++ ++++ +++
Sbjct: 191 ALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLSEKE 236
>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 = 139 bits (351), Expect = 6e-42
Identities = 69/138 (50%), Positives = 98/138 (71%), Gaps = 5/138 (3%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
GL ADAR+LI+RA++E Q H+LT +P+ +E + + I LKQ+YTQ G RPFG++ LI
Sbjct: 74 GLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIA 133
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
G D DG PRL++T+PSG Y E+KA A G + V EFLEK YK E+M+ E+A I+LA++A
Sbjct: 134 GVD-DGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYK-EDMSLEEA-IELALKA 190
Query: 122 LLEVVQSGQ--KNLEIAV 137
L ++ + +N+EIA
Sbjct: 191 LYAALEENETPENVEIAY 208
>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 = 137 bits (348), Expect = 1e-41
Identities = 56/141 (39%), Positives = 86/141 (60%), Gaps = 7/141 (4%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
GL ADA+ L+ R + E Q ++L +P+ +E + + +A L +YTQS RP G+S L+
Sbjct: 46 AGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLV 103
Query: 61 GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
G D +G P+LY +PSG Y E+KA A G ++ LEK YK +MT E+A I+LA++
Sbjct: 104 AGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYK-PDMTLEEA-IELALK 161
Query: 121 ALLEVVQSG---QKNLEIAVM 138
AL ++ N+E+AV+
Sbjct: 162 ALKSALERDLYSGGNIEVAVI 182
>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 = 126 bits (319), Expect = 7e-37
Identities = 63/156 (40%), Positives = 93/156 (59%), Gaps = 5/156 (3%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
G+ D R+L+ +A+ Q + L +P+ + + R IA + Q+YTQS G RPFG+S LI
Sbjct: 73 GMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIA 132
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
G+D G P LYQ +PSG Y+ WKA A G++ + FLEK Y +E++ E A I AI
Sbjct: 133 GWDEGG-PYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRY-NEDLELEDA-IHTAILT 189
Query: 122 LLEVV--QSGQKNLEIAVMRHGKPVEMLSVAQIEEY 155
L E Q +KN+EI + K +L+ A+I++Y
Sbjct: 190 LKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDY 225
>gnl|CDD|239718 cd03749, proteasome_alpha_type_1, proteasome_alpha_type_1. 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 = 113 bits (286), Expect = 4e-32
Identities = 53/140 (37%), Positives = 83/140 (59%), Gaps = 5/140 (3%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
GLTADAR+L + EC +++ + P+ + + +A Q TQ GRRP+G+ LI
Sbjct: 71 GLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIA 130
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
G+D G P L+QT PSG Y+E+KA + G +++ R +LE+ ++ E + + IK A+RA
Sbjct: 131 GYDESG-PHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRA 189
Query: 122 LLEVVQSGQ----KNLEIAV 137
L E + Q KN+ IA+
Sbjct: 190 LRETLPGEQELTIKNVSIAI 209
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 109 bits (274), Expect = 5e-30
Identities = 62/177 (35%), Positives = 100/177 (56%), Gaps = 10/177 (5%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
GLTADA ILIN+ ++ Q ++ T +P +E + I LKQ YTQ G RPFG+S L
Sbjct: 78 GLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFA 137
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
G+D + +LY T+PSG Y WKA A G++ +T + L++ +K E++T E+ + LA +
Sbjct: 138 GYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWK-EDLTLEQG-LLLAAKV 195
Query: 122 LLEVVQS---GQKNLEIAVMRHGKP-----VEMLSVAQIEEYVNEIEKEKEDEAEKK 170
L + + S +E+ ++ HG+ +MLS +I E + ++ +E E
Sbjct: 196 LTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAELLKKVTQEYAKENTNN 252
>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 = 106 bits (266), Expect = 4e-29
Identities = 51/140 (36%), Positives = 86/140 (61%), Gaps = 5/140 (3%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
G+T+DA ILIN A++ Q + + ++P+ +E + + + +KQ YTQ G RPFG+S L
Sbjct: 76 GITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYA 135
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
G+D +LYQ++PSG Y WKA A G + + + L++ YK ++MT E+A + LA++
Sbjct: 136 GWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYK-DDMTLEEA-LALAVKV 193
Query: 122 L---LEVVQSGQKNLEIAVM 138
L ++ + + LE A +
Sbjct: 194 LSKTMDSTKLTSEKLEFATL 213
>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 = 104 bits (261), Expect = 2e-28
Identities = 51/146 (34%), Positives = 88/146 (60%), Gaps = 12/146 (8%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGR-----RPFG 55
+GL ADAR LI+ A++E Q+H+ T +P+T+E +T+ ++ L ++ + + RPFG
Sbjct: 72 SGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFG 131
Query: 56 ISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVR-EFLEKFYKSEEMTTEKAT 114
++ LI G D +G P+L+ T+PSG + A A G ++ + EK++K MT E+A
Sbjct: 132 VALLIAGVDENG-PQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKD--MTLEEA- 187
Query: 115 IKLAIRALLEVVQS--GQKNLEIAVM 138
KLA+ L +V++ N+E+A +
Sbjct: 188 EKLALSILKQVMEEKLNSTNVELATV 213
>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 = 98.2 bits (245), Expect = 2e-26
Identities = 46/125 (36%), Positives = 72/125 (57%), Gaps = 7/125 (5%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
GL ADA+ L+ R + Q ++L +P+++ + + +A L Q YTQ RPFG++ ++
Sbjct: 46 AGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIV 102
Query: 61 GGFDYDGKPRLYQTEPSGIYYEW-KANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAI 119
G D G LY +PSG E A ATG ++ + LEK YK +MT E+A ++LA+
Sbjct: 103 AGVDEGG-GNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYK-PDMTLEEA-VELAL 159
Query: 120 RALLE 124
+AL
Sbjct: 160 KALKS 164
>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 = 90.0 bits (224), Expect = 7e-23
Identities = 42/118 (35%), Positives = 66/118 (55%), Gaps = 2/118 (1%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
GL AD R L++RA+ E ++++ P+ ++ + +A YT + RPFG S L+
Sbjct: 75 AGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLL 134
Query: 61 GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLA 118
GG+D DG P+LY EPSG+ Y + A G+ + + LEK K E+T +A + A
Sbjct: 135 GGYDSDG-PQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKL-KFSELTCREAVKEAA 190
>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 = 85.0 bits (211), Expect = 7e-21
Identities = 44/141 (31%), Positives = 75/141 (53%), Gaps = 4/141 (2%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
TG+ AD+R + RA+ E K + ++ + + IA + Q YTQ RP G+S ++
Sbjct: 74 TGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMIL 133
Query: 61 GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEE--MTTEKATIKLA 118
G D + P+LY+ +P+G + +KA A G + FLEK K + + + + T++LA
Sbjct: 134 IGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELA 193
Query: 119 IRALLEVVQSGQK--NLEIAV 137
I L V+ + K +E+ V
Sbjct: 194 ISCLQTVLSTDFKATEIEVGV 214
>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 = 58.6 bits (143), Expect = 3e-11
Identities = 36/150 (24%), Positives = 68/150 (45%), Gaps = 11/150 (7%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLI 60
G AD + L + + ++L ++++ ++ + Y P+ +S ++
Sbjct: 46 AGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSY----RGFPYYVSLIV 101
Query: 61 GGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIR 120
GG D G P LY +P G E ATG +K L++ YK +MT E+A ++L +
Sbjct: 102 GGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGYK-PDMTLEEA-VELVKK 159
Query: 121 ALLEV----VQSGQKNLEIAVMRHGKPVEM 146
A+ + SG +++AV+ E+
Sbjct: 160 AIDSAIERDLSSG-GGVDVAVITKDGVEEL 188
>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 = 55.0 bits (133), Expect = 7e-10
Identities = 40/121 (33%), Positives = 63/121 (52%), Gaps = 7/121 (5%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
G DA+ L+ + E + ++L P++++ + ++ + S+ P+ + LIG
Sbjct: 47 GSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNI----LNSSKYFPYIVQLLIG 102
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
G D +G P LY +P G E K ATG + LE YK E+MT E+A KLAIRA
Sbjct: 103 GVDEEG-PHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEYK-EDMTVEEA-KKLAIRA 159
Query: 122 L 122
+
Sbjct: 160 I 160
>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 = 53.0 bits (128), Expect = 3e-09
Identities = 39/121 (32%), Positives = 61/121 (50%), Gaps = 7/121 (5%)
Query: 2 GLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSNGRRPFGISCLIG 61
G DA+ L+ + E + ++L P++ + +A L SN PF + L+G
Sbjct: 48 GSVGDAQSLVRILKAEAKLYELRRGRPMS----VKALATLLSNILNSNRFFPFIVQLLVG 103
Query: 62 GFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRA 121
G D +G P LY +P+G E ATG + LE Y+ E+M+ E+A KLA+RA
Sbjct: 104 GVDEEG-PHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYR-EDMSVEEA-KKLAVRA 160
Query: 122 L 122
+
Sbjct: 161 I 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 = 36.1 bits (84), Expect = 0.004
Identities = 24/119 (20%), Positives = 48/119 (40%), Gaps = 14/119 (11%)
Query: 1 TGLTADARILINRAQIECQSHKLTVEDPVTLEYITRYIAGLKQKYTQSN---GRR--PFG 55
+G AD L R + + +K + ++ E I + + S RR P+
Sbjct: 54 SGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLL---------STILYSRRFFPYY 104
Query: 56 ISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLEKFYKSEEMTTEKAT 114
+ ++ G D +GK +Y +P G Y +A G ++ ++ L+ + + T
Sbjct: 105 VFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERT 163
>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 = 35.6 bits (83), Expect = 0.006
Identities = 21/82 (25%), Positives = 38/82 (46%), Gaps = 16/82 (19%)
Query: 51 RRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKAN-------ATGRSAKTVREFLEKFY 103
R P+ ++ L+ G+D P LY Y ++ A G A L+++Y
Sbjct: 95 RTPYQVNLLLAGYDKVEGPSLY-------YIDYLGTLVKVPYAAHGYGAYFCLSILDRYY 147
Query: 104 KSEEMTTEKATIKLAIRALLEV 125
K +MT E+A ++L + + E+
Sbjct: 148 K-PDMTVEEA-LELMKKCIKEL 167
>gnl|CDD|178572 PLN02992, PLN02992, coniferyl-alcohol glucosyltransferase.
Length = 481
Score = 31.9 bits (72), Expect = 0.13
Identities = 17/42 (40%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 133 LEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKKQKK 174
L IAV R P E++S ++IE V ++ E+E E ++K KK
Sbjct: 399 LGIAV-RSDDPKEVISRSKIEALVRKVMVEEEGEEMRRKVKK 439
>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 = 31.0 bits (71), Expect = 0.20
Identities = 25/95 (26%), Positives = 43/95 (45%), Gaps = 9/95 (9%)
Query: 32 EYITRYIAGLKQKYTQSNGRRPFGISCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRS 91
Y+TR + Y + + P + ++GG D +G+P L + G YE ATG
Sbjct: 84 SYLTRVL------YNRRSKMNPLWNTLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFG 137
Query: 92 AKTVREFLEKFY-KSEEMTTE--KATIKLAIRALL 123
A L + + K ++T E +A I+ ++ L
Sbjct: 138 AYLALPLLREAWEKKPDLTEEEARALIEECMKVLY 172
>gnl|CDD|222267 pfam13618, Gluconate_2-dh3, Gluconate 2-dehydrogenase subunit 3.
This family corresponds to subunit 3 of the Gluconate
2-dehydrogenase enzyme that catalyzes the conversion of
gluconate to 2-dehydro-D-gluconate EC:1.1.99.3.
Length = 130
Score = 29.9 bits (68), Expect = 0.33
Identities = 17/81 (20%), Positives = 30/81 (37%), Gaps = 10/81 (12%)
Query: 89 GRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLS 148
G V EF+++ + ++ + + AL ++ R GKP LS
Sbjct: 23 GAKEAGVPEFIDRQLAGDYDPEDQELFRAGLAALDAAARA----------RFGKPFADLS 72
Query: 149 VAQIEEYVNEIEKEKEDEAEK 169
Q + + IEK + D
Sbjct: 73 AEQQDALLRAIEKGEADWDGI 93
>gnl|CDD|233554 TIGR01739, tegu_FGAM_synt, herpesvirus tegument
protein/v-FGAM-synthase. This model describes a family
of large proteins of herpesvirues. The protein is
described variably as tegument protein or
phosphoribosylformylglycinamidine synthase
(FGAM-synthase). Most of the length of the protein shows
homology to eukaryotic FGAM-synthase. Functional
characterizations were not verified during construction
of this model.
Length = 1202
Score = 29.7 bits (67), Expect = 0.93
Identities = 10/48 (20%), Positives = 20/48 (41%), Gaps = 1/48 (2%)
Query: 119 IRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDE 166
+ + E+ SG K + I + P+E L ++ V E++
Sbjct: 782 VACVAEMALSGGKGVRITLPHGTDPLEFL-CSETPGVVIEVDPSSMYA 828
>gnl|CDD|238205 cd00336, Ribosomal_L22, Ribosomal protein L22/L17e. L22 (L17 in
eukaryotes) is a core protein of the large ribosomal
subunit. It is the only ribosomal protein that
interacts with all six domains of 23S rRNA, and is one
of the proteins important for directing the proper
folding and stabilizing the conformation of 23S rRNA.
L22 is the largest protein contributor to the surface of
the polypeptide exit channel, the tunnel through which
the polypeptide product passes. L22 is also one of six
proteins located at the putative translocon binding site
on the exterior surface of the ribosome.
Length = 105
Score = 27.5 bits (62), Expect = 1.8
Identities = 12/57 (21%), Positives = 25/57 (43%), Gaps = 11/57 (19%)
Query: 108 MTTEKA------TIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNE 158
M+ ++A K A + +L++++S + N A + L + I VN+
Sbjct: 25 MSVDEALAQLEFVPKKAAKIILKLLKSAEAN---AENNGLDDPDKLYIKHI--QVNK 76
>gnl|CDD|240227 PTZ00009, PTZ00009, heat shock 70 kDa protein; Provisional.
Length = 653
Score = 28.6 bits (64), Expect = 1.8
Identities = 13/26 (50%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 147 LSVAQIEEYVNEIEK-EKEDEAEKKK 171
LS A I+ VNE EK + EDEA +++
Sbjct: 512 LSKADIDRMVNEAEKYKAEDEANRER 537
>gnl|CDD|217149 pfam02621, VitK2_biosynth, Menaquinone biosynthesis. This family
includes two enzymes which are involved in menaquinone
biosynthesis. One which catalyzes the conversion of
cyclic de-hypoxanthine futalosine to
1,4-dihydroxy-6-naphthoate, and one which may be
involved in the conversion of chorismate to futalosine.
These enzymes comprise two domains with alpha/beta
structures, a large domain and a small domain. A pocket
between the two domains may form the active site, a
conserved histidine located within this pocket could be
the catalytic base.
Length = 248
Score = 27.5 bits (62), Expect = 3.3
Identities = 13/61 (21%), Positives = 20/61 (32%), Gaps = 12/61 (19%)
Query: 112 KATIKLAIRALLEVVQSGQKNLEIAV---MRHGKPVEMLSVAQIEEYVNEI-----EKEK 163
K AL + + K+ E L IE YVNE+ E+ +
Sbjct: 181 LELAKELEEALRKSKEYALKHPEEIAEYAAERAG----LDEKFIELYVNELSYDLGEEGR 236
Query: 164 E 164
+
Sbjct: 237 K 237
>gnl|CDD|240092 cd04741, DHOD_1A_like, Dihydroorotate dehydrogenase (DHOD) class 1A
FMN-binding domain. DHOD catalyzes the oxidation of
(S)-dihydroorotate to orotate. This is the fourth step
and the only redox reaction in the de novo biosynthesis
of UMP, the precursor of all pyrimidine nucleotides.
DHOD requires FMN as co-factor. DHOD divides into class
1 and class 2 based on their amino acid sequences and
cellular location. Members of class 1 are cytosolic
enzymes and multimers while class 2 enzymes are membrane
associated and monomeric. The class 1 enzymes can be
further divided into subtypes 1A and 1B which are
homodimers and heterotetrameric proteins, respectively.
Length = 294
Score = 27.7 bits (62), Expect = 3.4
Identities = 10/44 (22%), Positives = 16/44 (36%), Gaps = 6/44 (13%)
Query: 57 SCLIGGFDYDGKPRLYQTEPSGIYYEWKANATGRSAKTVREFLE 100
S + G + +PR Y I N+ G + +LE
Sbjct: 41 SSTLAGRPGNPEPRYYAFPLGSI------NSLGLPNLGLDYYLE 78
>gnl|CDD|177400 PHA02571, a-gt.4, hypothetical protein; Provisional.
Length = 109
Score = 26.6 bits (59), Expect = 4.0
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 144 VEMLSVAQIEEYVNEIEKEKEDEAEKKKQK 173
VE L+ ++EE ++E++ E EAEKK K
Sbjct: 8 VEELTDEEVEELLSELQARNEAEAEKKAAK 37
>gnl|CDD|168961 PRK07473, PRK07473, carboxypeptidase; Provisional.
Length = 376
Score = 27.4 bits (61), Expect = 4.0
Identities = 15/44 (34%), Positives = 20/44 (45%), Gaps = 8/44 (18%)
Query: 87 ATGRSAKTVREFLEKFYKSEEMTTEKATIKLAIRALLEVVQSGQ 130
+ GRSA +RE + + MTTE T + I V GQ
Sbjct: 205 SEGRSA--IREMARQILAIDAMTTEDCTFSVGI------VHGGQ 240
>gnl|CDD|221234 pfam11805, DUF3326, Protein of unknown function (DUF3326). This
protein is functionally uncharacterized. It is about
300-500 amino acids in length. This family is found in
plants and bacteria.
Length = 339
Score = 26.8 bits (60), Expect = 6.2
Identities = 9/18 (50%), Positives = 10/18 (55%)
Query: 53 PFGISCLIGGFDYDGKPR 70
P GI C IGG+ D P
Sbjct: 8 PTGIGCAIGGYAGDALPA 25
>gnl|CDD|223142 COG0064, GatB, Asp-tRNAAsn/Glu-tRNAGln amidotransferase B subunit
(PET112 homolog) [Translation, ribosomal structure and
biogenesis].
Length = 483
Score = 26.8 bits (60), Expect = 6.5
Identities = 15/61 (24%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 114 TIKLAIRALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAEKKKQK 173
+ K+A + E++ +G K+ E + G V++ ++E+ V+E+ E E K
Sbjct: 389 SGKIAKELVFEILANGGKDPEEIIEEKG-LVQISDEGELEKIVDEVLAENPKAVEDYKSG 447
Query: 174 K 174
K
Sbjct: 448 K 448
>gnl|CDD|221532 pfam12328, Rpp20, Rpp20 subunit of nuclear RNase MRP and P. The
nuclear RNase P of Saccharomyces cerevisiae is made up
of at least nine protein subunits; Pop1, Pop3, Pop4,
Pop5, Pop6, Pop7, Pop8, Rpr2 and Rpp1. Many of these
subunits seem to be present also in the RNase MRP, with
the exception of Rpr2 (Rpp21) which is unique to RNase
P. Human nuclear RNase P and MRP appear to contain at
least 10 protein subunits, Rpp14, Rpp20, Rpp21, Rpp25,
Rpp29, Rpp30, Rpp38, Rpp40, hPop1 and hPop5, although
there is recent evidence that not all of these subunits
are shared between P and MRP. Archaeal RNase P has at
least four protein subunits homologous to eukaryotic
RNase P/MRP proteins. In the yeast RNase P, Pop6 and
Pop7 (the Rpp20 homologue) interact with each other and
they are both interaction partners of Pop4; in the human
MRP Rpp25 and Rpp20 interact with each other and Rpp25
binds to Rpp29 (Pop4).
Length = 108
Score = 26.0 bits (58), Expect = 6.7
Identities = 18/86 (20%), Positives = 33/86 (38%), Gaps = 12/86 (13%)
Query: 93 KTVREFLEKFYKSEEMTTEKA----TIK---LAIRALLEVVQSGQKNLEIAVMRHGKPVE 145
K V++ L+K K +K AI L + Q+ V V
Sbjct: 19 KRVQKLLDKAEKRASKGEGLKLEEVVVKGMGKAIEKALSLALHFQREKNYKVD-----VR 73
Query: 146 MLSVAQIEEYVNEIEKEKEDEAEKKK 171
+V ++E V + + + ++E E +K
Sbjct: 74 TGTVEVVDEIVEDEDDDDDEEPETRK 99
>gnl|CDD|129233 TIGR00127, nadp_idh_euk, isocitrate dehydrogenase, NADP-dependent,
eukaryotic type. This model describes a eukaryotic,
NADP-dependent form of isocitrate dehydrogenase. These
eukaryotic enzymes differ considerably from a fairly
tight cluster that includes all other related isocitrate
dehydrogenases, 3-isopropylmalate dehydrogenases, and
tartrate dehydrogenases. Several NAD- or NADP-dependent
dehydrogenases, including 3-isopropylmalate
dehydrogenase, tartrate dehydrogenase, and the
multimeric forms of isocitrate dehydrogenase, share a
nucleotide binding domain unrelated to that of lactate
dehydrogenase and its homologs. These enzymes
dehydrogenate their substates at a H-C-OH site adjacent
to a H-C-COOH site; the latter carbon, now adjacent to a
carbonyl group, readily decarboxylates. This model does
not discriminate cytosolic, mitochondrial, and
chloroplast proteins. However, the model starts very
near the amino end of the cytosolic form; the finding of
additional amino-terminal sequence may indicate a
transit peptide [Energy metabolism, TCA cycle].
Length = 409
Score = 26.8 bits (59), Expect = 8.0
Identities = 11/48 (22%), Positives = 26/48 (54%)
Query: 121 ALLEVVQSGQKNLEIAVMRHGKPVEMLSVAQIEEYVNEIEKEKEDEAE 168
A + V++G ++A++ G PVE + EE+++ +E+ + +
Sbjct: 361 ACINTVEAGIMTKDLALILGGSPVERSAYLNTEEFIDAVEERLKKKIA 408
>gnl|CDD|235600 PRK05771, PRK05771, V-type ATP synthase subunit I; Validated.
Length = 646
Score = 26.4 bits (59), Expect = 9.5
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 134 EIAVMRHGKPVEMLSVAQIEEYVNEIEKEKED---EAEKKKQK 173
+ + G P E++ +I+E + EIEKE+E E ++ +K
Sbjct: 204 RLELEEEGTPSELIR--EIKEELEEIEKERESLLEELKELAKK 244
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
0.313 0.131 0.361
Gapped
Lambda K H
0.267 0.0677 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,807,615
Number of extensions: 807868
Number of successful extensions: 1285
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1247
Number of HSP's successfully gapped: 81
Length of query: 174
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 84
Effective length of database: 6,945,742
Effective search space: 583442328
Effective search space used: 583442328
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (25.5 bits)