RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5094
(251 letters)
>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 = 397 bits (1022), Expect = e-142
Identities = 164/213 (76%), Positives = 182/213 (85%), Gaps = 1/213 (0%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI T EGVVLA EKRITS LMEPSS++KI
Sbjct: 1 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKI 60
Query: 68 VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
+EID HIGCA SGLIAD+R L D ARVE NH FTY+E M +ESV QAVS+LA+QFG+ D
Sbjct: 61 MEIDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGD 120
Query: 128 E-ESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
+ + AMSRPFGVA+L AG+D GPQLFH DPSGT+T+ DAKAIGSGSEGAQ SLQE YH+
Sbjct: 121 DGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHK 180
Query: 187 SMTLKEAINHVLTILKQVMEEKLNSTNVELCTV 219
MTL+EA L+ILKQVMEEKLNSTNVEL TV
Sbjct: 181 DMTLEEAEKLALSILKQVMEEKLNSTNVELATV 213
>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 = 317 bits (816), Expect = e-111
Identities = 108/213 (50%), Positives = 152/213 (71%), Gaps = 5/213 (2%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
YDR + TFSPEGRLFQVEYA+EA+K GSTA+GI +GVVLA EK++TS L++PSS++KI
Sbjct: 1 YDRSITTFSPEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKI 60
Query: 68 VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
+ID HIGCA +GL AD+R+L +RARVE N+ +TY E + +E + + +++LA +
Sbjct: 61 FKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYT--- 117
Query: 128 EESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
+ RPFGV++L AG D + GPQL+ DPSGTY + A AIG GS+ A+ L++ Y +
Sbjct: 118 -QYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKK 176
Query: 187 SMTLKEAINHVLTILKQVMEEKLNSTNVELCTV 219
+TL+EAI L LK+V+EE + N+E+ V
Sbjct: 177 DLTLEEAIKLALKALKEVLEEDKKAKNIEIAVV 209
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 282 bits (723), Expect = 1e-96
Identities = 110/239 (46%), Positives = 157/239 (65%), Gaps = 11/239 (4%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
YDR + FSP+GRL+QVEYA EA+K G+TA+G+ T +GVVLA +KRITS L+EPSSI+KI
Sbjct: 10 YDRAITIFSPDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKI 69
Query: 68 VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQFG 124
+ID HIG A++GL+AD+R+L DRARVE + TY E + +E++ + + + Q G
Sbjct: 70 FKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHG 129
Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
RPFGVA+L AG+D GP+LF DPSG Y ++ A AIG+G + + L++ Y
Sbjct: 130 G-------VRPFGVALLIAGVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNY 182
Query: 185 HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTAD-KMYHLYSKEELEEELSKVSS 242
E ++L+EAI L L + E KL+ NVE+ + + K + S EE+E+ L K+
Sbjct: 183 KEDLSLEEAIELALKALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKLLK 241
>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 = 256 bits (657), Expect = 7e-87
Identities = 112/229 (48%), Positives = 152/229 (66%), Gaps = 11/229 (4%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
YDR + FSP+GRL+QVEYA EA+K G+TA+GI T +GVVLA +KRITS L+EPSSI+KI
Sbjct: 3 YDRAITVFSPDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKI 62
Query: 68 VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQFG 124
+ID HIG A SGL+AD+R+L DRAR+E + TY E +D+E++A+ + +L Q G
Sbjct: 63 FKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHG 122
Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
RPFGVA+L AG+D GP+LF DPSG ++ A AIG+G + + L++ Y
Sbjct: 123 G-------VRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEY 175
Query: 185 HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTA-DKMYHLYSKEE 232
E ++L EAI L L +E+KL NVE+ +T DK + S EE
Sbjct: 176 REDLSLDEAIELALKALYSAVEDKLTPENVEVAYITVEDKKFRKLSVEE 224
>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 = 242 bits (620), Expect = 3e-81
Identities = 109/217 (50%), Positives = 142/217 (65%), Gaps = 10/217 (4%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
YDR + FSP+GRL+QVEYA EA+K G+TA+GI EGVVLA +KRITS L+EP SI+KI
Sbjct: 2 YDRAITVFSPDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKI 61
Query: 68 VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQFG 124
+ID H+G A SGL+AD+R+L DRARVE H TY E +D+E + + + +L Q G
Sbjct: 62 YKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHG 121
Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
RPFGVA+L AG+D GP+LF DPSG Y ++ A AIGSG + + L++ Y
Sbjct: 122 G-------VRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEY 174
Query: 185 HESMTLKEAINHVLTILKQVMEEKLNSTNVELCTVTA 221
E M+L+EAI L L +EE NVE+ VT
Sbjct: 175 KEDMSLEEAIELALKALYAALEENETPENVEIAYVTV 211
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 234 bits (600), Expect = 6e-78
Identities = 100/239 (41%), Positives = 152/239 (63%), Gaps = 9/239 (3%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKL-GSTAIGISTSEGVVLAAEKRITSVLMEPSS-IK 65
YDR + FSPEGRLFQVEYA+EA+K G+T +GI +GVVLAA+KR TS L+ SS ++
Sbjct: 3 YDRAITIFSPEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVE 62
Query: 66 KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
KI +ID HIG A +GL AD+++L AR E + Y E + +E++A+ +SN+ ++
Sbjct: 63 KIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQ 122
Query: 126 SDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
S RP+GV++L AG+D GP+L+ DPSG+Y ++ A AIGSGS+ A L++ Y
Sbjct: 123 S------GRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYR 176
Query: 186 ESMTLKEAINHVLTILKQVMEEKLNST-NVELCTVTADKMYHLYSKEELEEELSKVSSI 243
E ++L+EAI + L+ +E S +E+ +T D+ + EE+++ L +S
Sbjct: 177 EDLSLEEAIELAVKALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDLSEK 235
>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 = 199 bits (507), Expect = 5e-64
Identities = 78/231 (33%), Positives = 136/231 (58%), Gaps = 4/231 (1%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
Y + TFSP G+L Q+EYA+ A+ G+ ++GI + GVVLA EK++ S L++ SS+ K+
Sbjct: 1 YSFSLTTFSPSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKV 60
Query: 68 VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
+I HIG SG+ D R+L +AR ++ Y E + + + + ++++ ++
Sbjct: 61 EQITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEY---- 116
Query: 128 EESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES 187
+S RPFGV++L AG D GP L+ +DPSG+Y + A AIG A+ L++ Y+E
Sbjct: 117 TQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNED 176
Query: 188 MTLKEAINHVLTILKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELS 238
+ L++AI+ + LK+ E ++ N+E+ K + L + E+++ L+
Sbjct: 177 LELEDAIHTAILTLKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYLA 227
>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 = 198 bits (505), Expect = 7e-64
Identities = 89/220 (40%), Positives = 135/220 (61%), Gaps = 13/220 (5%)
Query: 6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS-SI 64
YD FSPEGRL+QVEYA+EAI T +GI +G+VLAAEK++TS L++ S S
Sbjct: 1 RRYDSRTTIFSPEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSS 60
Query: 65 KKIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---I 121
+KI +ID HI CA +G+ +D+ IL + AR+ + ++Y E + +E + Q + ++
Sbjct: 61 EKIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYT 120
Query: 122 QFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSL 180
Q+G RPFGV+ L+AG D G QL+ DPSG Y+ + A AIG+ ++ AQ L
Sbjct: 121 QYGG-------LRPFGVSFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLL 173
Query: 181 QEVYHESMTLKEAINHVLTILKQVME-EKLNSTNVELCTV 219
++ Y + MTL+EA+ + +L + M+ KL S +E T+
Sbjct: 174 KQDYKDDMTLEEALALAVKVLSKTMDSTKLTSEKLEFATL 213
>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 = 192 bits (490), Expect = 9e-62
Identities = 81/210 (38%), Positives = 131/210 (62%), Gaps = 7/210 (3%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
YDR + FSP+G LFQVEYA EA++ G+TA+G+ + VVL EK+ + L +P +++KI
Sbjct: 1 YDRAITVFSPDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKI 60
Query: 68 VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSD 127
+D H+ A +GL AD+R+L +RAR+EC +H T ++ + +E + + ++ L ++
Sbjct: 61 CMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRY---- 116
Query: 128 EESAMSRPFGVAMLFAGLDSKG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHE 186
+S RPFG++ L G D G P+L+ DPSGTY+ + A AIG S+ ++ L++ Y E
Sbjct: 117 TQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKE 176
Query: 187 SMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
MT + I + L +V++ S N+EL
Sbjct: 177 EMTRDDTIKLAIKALLEVVQ--SGSKNIEL 204
>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 = 184 bits (470), Expect = 5e-59
Identities = 80/188 (42%), Positives = 122/188 (64%), Gaps = 9/188 (4%)
Query: 35 STAIGISTSEGVVLAAEKRITSVLME-PSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
+T +GI +GVVLAA+KR+TS L+ S+++KI +ID HIGCA +GL AD++ L +R R
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60
Query: 94 VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQL 152
E + Y E + +E++A+ ++NL ++ S RP GV++L AG+D + GPQL
Sbjct: 61 KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQS------LRPLGVSLLVAGVDEEGGPQL 114
Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS- 211
+ +DPSG+Y ++ A AIGSGS+ A L+++Y MTL+EAI L LK +E L S
Sbjct: 115 YSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSG 174
Query: 212 TNVELCTV 219
N+E+ +
Sbjct: 175 GNIEVAVI 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 = 183 bits (466), Expect = 3e-58
Identities = 72/193 (37%), Positives = 113/193 (58%), Gaps = 9/193 (4%)
Query: 31 IKLGSTAIGISTSEGVVLAAEKRIT--SVLMEPSSIKKIVEIDKHIGCAASGLIADSRIL 88
+K G+T +GI +GVVLAA+KR T S L+ +++KI +ID HIG A +GL AD++ L
Sbjct: 1 VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60
Query: 89 TDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK 148
D AR E + Y + +E + L + + RP+GV++L AG D
Sbjct: 61 VDYARAEAQLYRLRYGRPISVELAKRIADKLQAYT-----QYSGRRPYGVSLLIAGYDED 115
Query: 149 G-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVME- 206
G P L+ +DPSG+ ++ A AIGSGS+ A L+++Y MTL+EA+ + LK+ +E
Sbjct: 116 GGPHLYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIER 175
Query: 207 EKLNSTNVELCTV 219
+ L+ N+E+ +
Sbjct: 176 DALSGGNIEVAVI 188
>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 = 179 bits (455), Expect = 2e-56
Identities = 83/211 (39%), Positives = 121/211 (57%), Gaps = 5/211 (2%)
Query: 6 SEYDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIK 65
+ YD +TFSP+GR+FQVEYA +A++ TAIGI +GVVLA EK +TS L EP S K
Sbjct: 2 TGYDLSASTFSPDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNK 61
Query: 66 KIVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGD 125
+I +D+HIG A +GL+AD R L RAR E N+ Y + ++ +A V+ +
Sbjct: 62 RIFNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTL 121
Query: 126 SDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYH 185
RPFG ++L G DS GPQL+ ++PSG + AIG G + A+ L+++
Sbjct: 122 YSS----VRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKF 177
Query: 186 ESMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
+T +EA+ I+ V +E + EL
Sbjct: 178 SELTCREAVKEAAKIIYIVHDE-IKDKAFEL 207
>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 = 177 bits (451), Expect = 9e-56
Identities = 88/219 (40%), Positives = 124/219 (56%), Gaps = 16/219 (7%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSIKKI 67
YD V T+SP+GRLFQVEYA+EA+K GS +G+ + VL A KR TS L S KKI
Sbjct: 1 YDTDVTTWSPQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSEL--SSYQKKI 58
Query: 68 VEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQFG 124
++D HIG A +GL AD+R+L+ R EC N+ F YD + + + V+ A Q
Sbjct: 59 FKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRY 118
Query: 125 DSDEESAMSRPFGVAMLFAGLDSKGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY 184
RP+GV +L AG D GP LF PSG Y ++ A +IG+ S+ A+ L+ +
Sbjct: 119 G-------RRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHF 171
Query: 185 HESM--TLKEAINHVLTILKQVM--EEKLNSTNVELCTV 219
E +L+E I H L L++ + E++L NV + V
Sbjct: 172 EEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIV 210
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 172 bits (438), Expect = 2e-53
Identities = 93/245 (37%), Positives = 142/245 (57%), Gaps = 18/245 (7%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPSSI-KK 66
YD TFSPEGRL+QVEYA+EAI S +GI EGV+L A+K I+S L++P I +K
Sbjct: 5 YDSRTTTFSPEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEK 64
Query: 67 IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLA---IQF 123
I +ID HI CA +GL AD+ IL ++ R+ + +TY E +E + + +L QF
Sbjct: 65 IYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQF 124
Query: 124 GDSDEESAMSRPFGVAMLFAGLDSK-GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQE 182
G RPFGV+ LFAG D G QL+H DPSG Y+ + A AIG ++ AQ L++
Sbjct: 125 GG-------LRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQ 177
Query: 183 VYHESMTLKEAINHVLTILKQVMEEKLNSTN-VELCTVTADK-----MYHLYSKEELEEE 236
+ E +TL++ + +L + M+ + +E+ ++ + + + S++E+ E
Sbjct: 178 EWKEDLTLEQGLLLAAKVLTKSMDSTSPKADKIEVGILSHGETDGEPIQKMLSEKEIAEL 237
Query: 237 LSKVS 241
L KV+
Sbjct: 238 LKKVT 242
>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 = 155 bits (393), Expect = 6e-47
Identities = 65/215 (30%), Positives = 117/215 (54%), Gaps = 10/215 (4%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGS-TAIGISTSEGVVLAAEKRITSVLMEPSSIKK 66
+DR + FSPEGRL+QVEYA +A+K T++ + + V+ +K++ L++PS++
Sbjct: 2 FDRHITIFSPEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTH 61
Query: 67 IVEIDKHIGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDS 126
+ I IGC +G+IADSR RAR E A + Y +M ++ +A+ ++++ +
Sbjct: 62 LFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVY--- 118
Query: 127 DEESAMSRPFGVAMLFAGLDS-KGPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVY- 184
+ A RP GV+M+ G+D GPQL+ DP+G + + A A G + A L++
Sbjct: 119 -TQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLK 177
Query: 185 ---HESMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
+ +E + ++ L+ V+ +T +E+
Sbjct: 178 KKPDLIESYEETVELAISCLQTVLSTDFKATEIEV 212
>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 = 138 bits (350), Expect = 3e-41
Identities = 58/170 (34%), Positives = 92/170 (54%), Gaps = 9/170 (5%)
Query: 35 STAIGISTSEGVVLAAEKRITSVLMEP-SSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
ST++ I GVVLAA+KR++S L S + KI + + I +GL AD++ L R R
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60
Query: 94 VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
+ Y E + + ++A+ ++ L + RPFGV ++ AG+D G L+
Sbjct: 61 EALQLYRLRYGEPISVVALAKELAKLLQVYTQ-------GRPFGVNLIVAGVDEGGGNLY 113
Query: 154 HLDPSGTYTQF-DAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILK 202
++DPSG + A A GS S+ A+ L+++Y MTL+EA+ L LK
Sbjct: 114 YIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALK 163
>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 = 117 bits (296), Expect = 8e-33
Identities = 58/193 (30%), Positives = 100/193 (51%), Gaps = 10/193 (5%)
Query: 34 GSTAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
G+T +GI +GVVLAA+KR + + + KK+ +ID +I +G + D++ L
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60
Query: 93 RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQL 152
+ E + M ++++A +SN+ S PF V +L G+D +GP L
Sbjct: 61 KAEAKLYELRRGRPMSVKALATLLSNIL--------NSNRFFPFIVQLLVGGVDEEGPHL 112
Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNST 212
+ LDP+G + D A GSGS A L++ Y E M+++EA + +K +E + S
Sbjct: 113 YSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASG 172
Query: 213 N-VELCTVTADKM 224
N +++ +T D +
Sbjct: 173 NGIDVAVITKDGV 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 = 111 bits (280), Expect = 2e-30
Identities = 58/194 (29%), Positives = 96/194 (49%), Gaps = 10/194 (5%)
Query: 36 TAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
T +GI +GVVLAA+KR + + ++KKI +ID I +G + D++ L +
Sbjct: 2 TTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKA 61
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLFH 154
E + M I+++A +SN+ S+ P+ V +L G+D +GP L+
Sbjct: 62 EARLYELRRGRPMSIKALATLLSNIL--------NSSKYFPYIVQLLIGGVDEEGPHLYS 113
Query: 155 LDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-TN 213
LDP G+ + A GSGS A L++ Y E MT++EA + +K +E S
Sbjct: 114 LDPLGSIIEDKYTATGSGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSASGDG 173
Query: 214 VELCTVTADKMYHL 227
+++ +T D L
Sbjct: 174 IDVVVITKDGYKEL 187
>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 = 105 bits (265), Expect = 3e-28
Identities = 54/192 (28%), Positives = 94/192 (48%), Gaps = 11/192 (5%)
Query: 36 TAIGISTSEGVVLAAEKRITSVLMEPSS-IKKIVEIDKHIGCAASGLIADSRILTDRARV 94
T +GI +GVVLAA+ R ++ + S KI +I +I +G AD++ LT +
Sbjct: 2 TIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKR 61
Query: 95 ECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSK-GPQLF 153
+ ++ +++ A +SN+ S P+ V+++ G+D GP L+
Sbjct: 62 NLRLYELRNGRELSVKAAANLLSNIL--------YSYRGFPYYVSLIVGGVDKGGGPFLY 113
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNS-T 212
++DP G+ + A GSGS+ A L Y MTL+EA+ V + +E L+S
Sbjct: 114 YVDPLGSLIEAPFVATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGG 173
Query: 213 NVELCTVTADKM 224
V++ +T D +
Sbjct: 174 GVDVAVITKDGV 185
>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 = 72.6 bits (179), Expect = 9e-16
Identities = 49/195 (25%), Positives = 87/195 (44%), Gaps = 13/195 (6%)
Query: 36 TAIGISTSEGVVLAAEKRITS--VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRAR 93
T +G+ +GVVL A+ R T ++ + + +KI I +I C +G AD+ +T+
Sbjct: 2 TIVGVVFKDGVVLGADTRATEGPIVAD-KNCEKIHYIAPNIYCCGAGTAADTEAVTNMIS 60
Query: 94 VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGPQLF 153
H K + + + ++ G A++ G+D GP L+
Sbjct: 61 SNLELHRLNTGRKPRVVTALTMLKQHLFRYQGH---------IGAALVLGGVDYTGPHLY 111
Query: 154 HLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHV-LTILKQVMEEKLNST 212
+ P G+ + +GSGS A L++ Y MT +EA V I + + + +
Sbjct: 112 SIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIEAGIFNDLGSGS 171
Query: 213 NVELCTVTADKMYHL 227
NV+LC +T D + +L
Sbjct: 172 NVDLCVITKDGVEYL 186
>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 = 63.4 bits (155), Expect = 2e-12
Identities = 40/165 (24%), Positives = 79/165 (47%), Gaps = 17/165 (10%)
Query: 36 TAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIAD----SRILTD 90
T + GV++A + R T+ + ++KK++EI+ ++ +G AD R+L
Sbjct: 2 TTLAFIFQGGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLG- 60
Query: 91 RARVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDSKGP 150
EC + E++ + + ++ +SN+ Q+ +S + + G D GP
Sbjct: 61 ---RECRLYELRNKERISVAAASKLLSNMLYQYKGMG----LS----MGTMICGWDKTGP 109
Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAIN 195
L+++D GT + D ++GSGS A L Y ++++EA +
Sbjct: 110 GLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGYRYDLSVEEAYD 154
>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 = 61.9 bits (151), Expect = 1e-11
Identities = 46/204 (22%), Positives = 90/204 (44%), Gaps = 26/204 (12%)
Query: 34 GSTAIGISTSEGVVLAAEKRITSVLMEPSS-IKKIVEIDKHIGCAASGLIADSRILTDRA 92
G T + I+ ++ V+A + R++ S KI ++ +SG AD LT R
Sbjct: 8 GGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRL 67
Query: 93 RVECANHWFTYDEKMDIESVAQAVSNLAIQ---FGDSDEESAMSRPFGVAMLFAGLDSKG 149
+ + ++++++M E++AQ +S + F P+ V + AG+D +G
Sbjct: 68 KARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFF-----------PYYVFNILAGIDEEG 116
Query: 150 -PQLFHLDPSGTYTQFDAKAIGSGSEGAQ---------QSLQEVYHESMTLKEAINHVLT 199
++ DP G+Y + A GS S Q ++ V ++L+EA++ V
Sbjct: 117 KGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKD 176
Query: 200 ILKQVMEEKLNS-TNVELCTVTAD 222
E + + ++E+ +T D
Sbjct: 177 AFTSAAERDIYTGDSLEIVIITKD 200
>gnl|CDD|204518 pfam10584, Proteasome_A_N, Proteasome subunit A N-terminal
signature. This domain is conserved in the A subunits
of the proteasome complex proteins.
Length = 23
Score = 55.5 bits (135), Expect = 5e-11
Identities = 17/23 (73%), Positives = 21/23 (91%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEA 30
YDR + TFSP+GRLFQVEYA++A
Sbjct: 1 YDRSLTTFSPDGRLFQVEYAMKA 23
>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 = 59.5 bits (145), Expect = 6e-11
Identities = 50/193 (25%), Positives = 76/193 (39%), Gaps = 14/193 (7%)
Query: 36 TAIGISTSEGVVLAAEKRITSVLMEPSS--IKKIVEIDKHIGCAASGLIADSRILTDRAR 93
T I + GVVL A+ R TS ++ K+ ++ I C SG AD++ + D R
Sbjct: 2 TIIAVEYDGGVVLGADSR-TSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVR 60
Query: 94 VECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLD-SKGPQL 152
H E +++ A NL + + SA ++ AG D G Q+
Sbjct: 61 YYLDMHSIELGEPPLVKTAASLFKNLCYNY--KEMLSA-------GIIVAGWDEQNGGQV 111
Query: 153 FHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNST 212
+ + G + GSGS + Y MTL+E I V L M +S
Sbjct: 112 YSIPLGGMLIRQPFAIGGSGSTYIYGYVDANYKPGMTLEECIKFVKNALSLAMSRDGSSG 171
Query: 213 NV-ELCTVTADKM 224
V L +T D +
Sbjct: 172 GVIRLVIITKDGV 184
>gnl|CDD|198016 smart00948, Proteasome_A_N, Proteasome subunit A N-terminal
signature Add an annotation. This domain is conserved
in the A subunits of the proteasome complex proteins.
Length = 23
Score = 55.2 bits (134), Expect = 8e-11
Identities = 18/23 (78%), Positives = 21/23 (91%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEA 30
YDR + TFSP+GRLFQVEYA+EA
Sbjct: 1 YDRSLTTFSPDGRLFQVEYAMEA 23
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 53.1 bits (127), Expect = 2e-08
Identities = 36/163 (22%), Positives = 74/163 (45%), Gaps = 13/163 (7%)
Query: 34 GSTAIGISTSEGVVLAAEKRITS-VLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRA 92
G+T + G+++A + + T+ + S+KK++EI+ + +G AD
Sbjct: 39 GTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWEREL 98
Query: 93 RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAM--LFAGLDSKGP 150
++C + E + + + ++ ++N+ + + G++M + G D KGP
Sbjct: 99 AMQCRLYELRNGELISVAAASKILANIVWNY----------KGMGLSMGTMICGWDKKGP 148
Query: 151 QLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEA 193
LF++D GT + + GSGS A L + + +EA
Sbjct: 149 GLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEA 191
>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 = 44.1 bits (105), Expect = 2e-05
Identities = 46/166 (27%), Positives = 70/166 (42%), Gaps = 18/166 (10%)
Query: 36 TAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIADSRILTDRARV 94
T IGI + V+LAA+ S+L+ KI ++ H A SG D + +
Sbjct: 3 TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEY--I 60
Query: 95 ECANHWFTYDEKMDIESVAQAVS----NLAIQFGDSDEESAMSR-PFGVAMLFAGLDSK- 148
+ + ++ S A + LA ES SR P+ V +L AG D
Sbjct: 61 QKNIQLYKMRNGYEL-SPKAAANFTRRELA--------ESLRSRTPYQVNLLLAGYDKVE 111
Query: 149 GPQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAI 194
GP L+++D GT + A G G+ L Y MT++EA+
Sbjct: 112 GPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEAL 157
>gnl|CDD|163403 TIGR03691, 20S_bact_alpha, proteasome, alpha subunit, bacterial
type. Members of this family are the alpha subunit of
the 20S proteasome as found in Actinobacteria such as
Mycobacterium, Rhodococcus, and Streptomyces. In most
Actinobacteria (an exception is Propionibacterium
acnes), the proteasome is accompanied by a system of
tagging proteins for degradation with Pup [Protein fate,
Degradation of proteins, peptides, and glycopeptides].
Length = 228
Score = 39.7 bits (93), Expect = 5e-04
Identities = 44/204 (21%), Positives = 88/204 (43%), Gaps = 31/204 (15%)
Query: 25 EYAIEAIKLGSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIA 83
E A + I G + + ++ ++G++ AE PS S+ KI E+ IG AA G
Sbjct: 18 ELARKGIARGRSVVVLTYADGILFVAEN--------PSRSLHKISELYDRIGFAAVGKYN 69
Query: 84 DSRILTDRARVECAN-HWFTYDEKMDIESVAQAVSNLAIQ-----FGDSDEESAMSRPFG 137
+ L RA + A+ ++YD + + + ++N Q F + +P+
Sbjct: 70 EFENLR-RAGIRYADMRGYSYDRR---DVTGRGLANAYAQTLGTIF------TEQQKPYE 119
Query: 138 VAMLFA--GLDSKGPQLFHLDPSGTYT-QFDAKAIGSGSEGAQQSLQEVYHESMTLKEAI 194
V + A G QL+ + G+ + +G +E +L+E Y + ++L +A+
Sbjct: 120 VEICVAEVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESYRDGLSLADAL 179
Query: 195 N---HVLTILKQVMEEKLNSTNVE 215
L + +L++ ++E
Sbjct: 180 GLAVQALRAGGNGEKRELDAASLE 203
>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 = 35.8 bits (83), Expect = 0.010
Identities = 44/174 (25%), Positives = 79/174 (45%), Gaps = 27/174 (15%)
Query: 34 GSTAIGISTSEGVVLAAEKRITSVLMEPS-SIKKIVEIDKHIGCAASGLIADSRILTDRA 92
G+T + ++ GV++A ++R T M S ++K+ D++ +G + L
Sbjct: 2 GTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLF 61
Query: 93 RVECANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRP-FGVAM-------LFAG 144
+VE ++ EK IE V + G ++ +AM R AM L AG
Sbjct: 62 QVELEHY-----EK--IEGVPLTLD------GKANRLAAMVRGNLPAAMQGLAVVPLLAG 108
Query: 145 LD---SKGPQLFHLDPSG-TYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKEAI 194
D G ++F D +G Y + A+GSGS A+ +L+++Y + +A+
Sbjct: 109 YDLDAGAG-RIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDEDDAL 161
>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 = 35.6 bits (83), Expect = 0.011
Identities = 44/199 (22%), Positives = 86/199 (43%), Gaps = 20/199 (10%)
Query: 34 GSTAIGISTSEGVVLAAEKRIT-SVLMEPSSIKKIVEIDKHIGCAASGLIAD----SRIL 88
G++ I I +GV++AA+ + L ++++I ++ + ASG AD R+L
Sbjct: 2 GTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLL 61
Query: 89 TDRARVE-CANHWFTYDEKMDIESVAQAVSNLAIQFGDSDEESAMSRPFGVAMLFAGLDS 147
+ C + + K + + + N S M+ P ++ G+D+
Sbjct: 62 DQLVIDDECLDDGHSLSPKEIHSYLTRVLYN---------RRSKMN-PLWNTLVVGGVDN 111
Query: 148 KG-PQLFHLDPSGTYTQFDAKAIGSGSEGAQQSLQEVYHES--MTLKEAINHVLTILKQV 204
+G P L ++D GT + A G G+ A L+E + + +T +EA + +K +
Sbjct: 112 EGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEECMKVL 171
Query: 205 MEEKLNSTN-VELCTVTAD 222
S N ++ VT +
Sbjct: 172 YYRDARSINKYQIAVVTKE 190
>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 = 30.7 bits (70), Expect = 0.55
Identities = 32/165 (19%), Positives = 66/165 (40%), Gaps = 17/165 (10%)
Query: 34 GSTAIGISTSEGVVLAAEKRITSVLMEPSS-IKKIVEIDKHIGCAASGLIADSRILTDRA 92
G + ++ + V +A++ R+ S+ +K+ I + +GL D + L +
Sbjct: 3 GGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKL 62
Query: 93 RVECANHWFTYDEKMDIESVAQAVSNLAIQ--FGDSDEESAMSRPFGVAMLFAGLDSKG- 149
R + + ++ ++ + +S+L + FG P+ V + AGLD G
Sbjct: 63 RFRVNLYRLREEREIKPKTFSSLISSLLYEKRFG----------PYFVEPVVAGLDPDGK 112
Query: 150 PQLFHLDPSG--TYTQFDAKAIGSGSEGAQQSLQEVYHESMTLKE 192
P + +D G + D G+ SE + ++ M E
Sbjct: 113 PFICTMDLIGCPSIPS-DFVVSGTASEQLYGMCESLWRPDMEPDE 156
>gnl|CDD|219423 pfam07477, Glyco_hydro_67C, Glycosyl hydrolase family 67
C-terminus. Alpha-glucuronidases, components of an
ensemble of enzymes central to the recycling of
photosynthetic biomass, remove the alpha-1,2 linked
4-O-methyl glucuronic acid from xylans. This family
represents the C terminal region of alpha-glucuronidase
which is mainly alpha-helical. It wraps around the
catalytic domain (pfam07488), making additional
interactions both with the N-terminal domain (pfam03648)
of its parent monomer and also forming the majority of
the dimer-surface with the equivalent C-terminal domain
of the other monomer of the dimer.
Length = 225
Score = 29.9 bits (68), Expect = 1.1
Identities = 16/57 (28%), Positives = 22/57 (38%), Gaps = 7/57 (12%)
Query: 135 PFGVAMLFAGLDSKGPQLFHLDPS--GTYTQFDAKAIG-----SGSEGAQQSLQEVY 184
P G+ L GP + + S GTY + D IG +G+ Q EV
Sbjct: 63 PLGLGHLVNPGHHYGPNPWGYEYSGWGTYHRADKDGIGFDRTATGTGATGQYPPEVA 119
>gnl|CDD|220458 pfam09890, DUF2117, Uncharacterized protein conserved in archaea
(DUF2117). This domain, found in various hypothetical
archaeal proteins, has no known function.
Length = 209
Score = 28.8 bits (65), Expect = 2.1
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 29 EAIKLGSTAIGISTSEGVVLAAEK-RITSVLMEPSSIKK 66
E I + IG +TS V L +E I + IK+
Sbjct: 98 ENIMVNGIVIGKATSSEVELVSENGFIVD--IIGGEIKE 134
>gnl|CDD|234328 TIGR03721, exospore_TM, BclB C-terminal domain. This domain occurs
as the C-terminal region in a number of proteins that
have extensive collagen-like triple helix repeat
regions. Member domains are predicted by TmHMM to have
four or five transmembrane helices. Members are found
mostly in the Firmicutes, but also in Acanthamoeba
polyphaga mimivirus. Members include spore surface
glycoprotein BclB from Bacillus anthracis, a protein of
the exosporium. The exosporium is an additional
outermost spore layer, lacking in B. subtilis and most
other spore formers, consisting of a basal layer and,
above it, a nap of fine filaments.
Length = 165
Score = 28.7 bits (64), Expect = 2.2
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 13 NTFSP-EGRLFQVEYAIE-AIKLGSTAIGISTSEGVVLAAEKRI 54
N F+P G + I I +GSTA GI T + + A R+
Sbjct: 94 NVFTPVPGAPVTLTPPITGPIAVGSTASGIITGLNIPVTAGDRL 137
>gnl|CDD|236044 PRK07531, PRK07531, bifunctional 3-hydroxyacyl-CoA
dehydrogenase/thioesterase; Validated.
Length = 495
Score = 29.3 bits (66), Expect = 2.3
Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 2/37 (5%)
Query: 39 GISTSEGVVLAAEKRITSVLMEPSSIKKIVEIDKHIG 75
G TS + A++ + + M+P I K EID +G
Sbjct: 154 GGKTSPETIRRAKEILREIGMKPVHIAK--EIDAFVG 188
>gnl|CDD|220730 pfam10395, Utp8, Utp8 family. Utp8 is an essential component of
the nuclear tRNA export machinery in Saccharomyces
cerevisiae. It is a tRNA binding protein that acts at a
step between tRNA maturation /aminoacylation, and
translocation of the tRNA across the nuclear pore
complex.
Length = 669
Score = 29.3 bits (66), Expect = 2.5
Identities = 13/55 (23%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 190 LKEAINHVLTI-LKQVMEEKLNSTNVELCTVTADKMYHLYSKEELEEELSKVSSI 243
K+AI + L ++++E + +N EL + ++ ++K+E+ +E K+S +
Sbjct: 511 FKQAIVTCPNLPLDELLQELFSISNDELFLDLSLRILQEFTKDEITQEFKKLSKV 565
>gnl|CDD|241330 cd13176, RanBD1_RanBD3_RanBP2_mammal-like, Ran-binding protein 2,
Ran binding domain repeats 1 and 3. RanBP2 (also called
E3 SUMO-protein ligase RanBP2, 358 kDa nucleoporin, and
nuclear pore complex (NPC) protein Nup358) is a giant
nucleoporin that localizes to the cytosolic face of the
NPC. RanBP2 contains a leucine-rich region, 8
zinc-finger motifs, a cyclophilin A homologous domain,
and 4 RanBDs. Ran is a Ras-like nuclear small GTPase,
which regulates receptor-mediated transport between the
nucleus and the cytoplasm. RanGTP hydrolysis is
stimulated by RanGAP together with the Ran-binding
domain containing acessory proteins RanBP1 and RanBP2.
These accessory proteins stabilize the active GTP-bound
form of Ran. All eukaryotic cells contain RanBP1, but in
vertebrates however, the main RanBP seems to be RanBP2.
There is no RanBP2 ortholog in yeast. Transport complex
disassembly is accomplished by a small ubiquitin-related
modifier-1 (SUMO-1)-modified version of RanGAP that is
bound to RanBP2. RanBP1 acts as a second line of defense
against exported RanGTP-importin complexes which have
escaped from dissociation by RanBP2. RanBP2 also
interacts with the importin subunit beta-1. RabBD shares
structural similarity to the PH domain, but lacks
detectable sequence similarity. The members here include
human, chicken, frog, tunicates, sea urchins, ticks, sea
anemones, and sponges. RanBD repeats 1 and 3 are present
in this hierarchy.
Length = 116
Score = 27.3 bits (61), Expect = 4.4
Identities = 12/24 (50%), Positives = 15/24 (62%), Gaps = 2/24 (8%)
Query: 86 RILTDRARVE--CANHWFTYDEKM 107
RIL R +V CANH+ T D K+
Sbjct: 46 RILMRRDQVLKLCANHYITPDMKL 69
>gnl|CDD|131739 TIGR02692, tRNA_CCA_actino, tRNA adenylyltransferase. The enzyme
tRNA adenylyltransferase, also called
tRNA-nucleotidyltransferase and CCA-adding enzyme, can
add or repair the required CCA triplet at the 3'-end of
tRNA molecules. Genes encoding tRNA include the CCA tail
in some but not all bacteria, and this enzyme may be
required for viability. Members of this family represent
a distinct clade within the larger family pfam01743
(tRNA nucleotidyltransferase/poly(A) polymerase family
protein). The example from Streptomyces coelicolor was
shown to act as a CCA-adding enzyme and not as a poly(A)
polymerase [Protein synthesis, tRNA and rRNA base
modification].
Length = 466
Score = 27.8 bits (62), Expect = 5.6
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 121 IQFGDSDEESAMSRPFGV-AMLFAGLDSKGPQLFHLDPSG 159
+ FGD+ E + R F V AM + + G FH DP G
Sbjct: 109 VTFGDTLEGDLIRRDFTVNAMAVR-IPADGSLEFH-DPVG 146
>gnl|CDD|216703 pfam01791, DeoC, DeoC/LacD family aldolase. This family includes
diverse aldolase enzymes. This family includes the
enzyme deoxyribose-phosphate aldolase EC:4.1.2.4, which
is involved in nucleotide metabolism. The family also
includes a group of related bacterial proteins of
unknown function. The family also includes tagatose
1,6-diphosphate aldolase (EC:4.1.2.40) is part of the
tagatose-6-phosphate pathway of galactose-6-phosphate
degradation.
Length = 231
Score = 27.3 bits (61), Expect = 6.5
Identities = 10/33 (30%), Positives = 15/33 (45%)
Query: 8 YDRGVNTFSPEGRLFQVEYAIEAIKLGSTAIGI 40
+ G +GR V A EAI LG+ + +
Sbjct: 61 FPAGTYLTPVKGRDVLVAEAEEAIALGADEVDM 93
>gnl|CDD|236468 PRK09330, PRK09330, cell division protein FtsZ; Validated.
Length = 384
Score = 27.4 bits (62), Expect = 6.8
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 38 IGISTSEG-VVLAAEKRITSVLMEPSSIK 65
IG ++ E AAEK I+S L+E I
Sbjct: 230 IGEASGEDRAREAAEKAISSPLLEDVDIS 258
>gnl|CDD|216366 pfam01208, URO-D, Uroporphyrinogen decarboxylase (URO-D).
Length = 338
Score = 27.5 bits (62), Expect = 7.1
Identities = 22/109 (20%), Positives = 40/109 (36%), Gaps = 22/109 (20%)
Query: 24 VEYAIEAIKLGSTAIGI--STSEGV--------VLAAEKRITSVLMEPSSIKKIVEIDKH 73
+EY I+ G+ AI I S + + VL KRI + I+ H
Sbjct: 183 IEYLKAQIEAGADAIQIFDSWAGLLSPEDFREFVLPYLKRIVDEVKARGPGPVIL----H 238
Query: 74 IGCAASGLIADSRILTDRARVECANHWFTYDEKMDIESVAQAVSNLAIQ 122
I + ++ D + + D +D+ + V ++A+Q
Sbjct: 239 ICGNGTPILEDMA----ETGADV----ISLDWTVDLAEAKRIVGDVALQ 279
>gnl|CDD|235850 PRK06669, fliH, flagellar assembly protein H; Validated.
Length = 281
Score = 27.3 bits (61), Expect = 7.4
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 165 DAKAIGSGSEGAQQSLQEVYHESMTLKEAINHVLTILKQVMEEKLNSTNVEL 216
+AKA G EG ++ +E E L E +N ++ L + EE L S+ E+
Sbjct: 118 EAKAEGY-EEGYEKGREEGLEEVRELIEQLNKIIEKLIKKREEILESSEEEI 168
>gnl|CDD|203026 pfam04485, NblA, Phycobilisome degradation protein nblA. In the
cyanobacterium Synechococcus PCC 7942, nblA triggers
degradation of light-harvesting phycobiliproteins in
response to deprivation nutrients including nitrogen,
phosphorus and sulphur. The mechanism of nblA function
is not known, but it has been hypothesised that nblA may
act by disrupting phycobilisome structure, activating a
protease or tagging phycobiliproteins for proteolysis.
Members of this family have also been identified in the
chloroplasts of some red algae.
Length = 53
Score = 24.9 bits (55), Expect = 8.5
Identities = 5/29 (17%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 177 QQSLQEVYHESMTLKEAINHVLTILKQVM 205
+ ++ ++++ ++A ++ +LKQ+M
Sbjct: 12 LRLYKQQV-DTLSREQARELLVELLKQMM 39
>gnl|CDD|233008 TIGR00524, eIF-2B_rel, eIF-2B alpha/beta/delta-related
uncharacterized proteins. This model, eIF-2B_rel,
describes half of a superfamily, where the other half
consists of eukaryotic translation initiation factor 2B
(eIF-2B) subunits alpha, beta, and delta. It is unclear
whether the eIF-2B_rel set is monophyletic, or whether
they are all more closely related to each other than to
any eIF-2B subunit because the eIF-2B clade is highly
derived. Members of this branch of the family are all
uncharacterized with respect to function and are found
in the Archaea, Bacteria, and Eukarya, although a
number are described as putative translation intiation
factor components. Proteins found by eIF-2B_rel include
at least three clades, including a set of
uncharacterized eukaryotic proteins, a set found in
some but not all Archaea, and a set universal so far
among the Archaea and closely related to several
uncharacterized bacterial proteins [Unknown function,
General].
Length = 303
Score = 27.0 bits (60), Expect = 9.5
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 4/41 (9%)
Query: 24 VEYAIEAIK----LGSTAIGISTSEGVVLAAEKRITSVLME 60
E +AIK G+ AIG++ + G+ LAA K T + E
Sbjct: 4 YEDVADAIKSMVVRGAPAIGVAAAYGLALAARKIETDNVEE 44
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
0.314 0.130 0.357
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,431,218
Number of extensions: 1161904
Number of successful extensions: 1044
Number of sequences better than 10.0: 1
Number of HSP's gapped: 992
Number of HSP's successfully gapped: 57
Length of query: 251
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 156
Effective length of database: 6,723,972
Effective search space: 1048939632
Effective search space used: 1048939632
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: 42 (22.0 bits)
S2: 58 (25.9 bits)