RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16847
(208 letters)
>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 = 310 bits (796), Expect = e-109
Identities = 119/183 (65%), Positives = 155/183 (84%)
Query: 1 MEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQKKIIVIDDHMGLSFAGLTADARILA 60
MEAVKQGSATVGLK+KTHAV++ALKRA SEL+++QKKI +DDH+G++ AGLTADAR+L+
Sbjct: 21 MEAVKQGSATVGLKSKTHAVLVALKRATSELSSYQKKIFKVDDHIGIAIAGLTADARVLS 80
Query: 61 RFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIY 120
R+MR ECLNY++ + +PV RL+S V K Q+ TQRY +RPYGVGLL+AGYD++GPH++
Sbjct: 81 RYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLF 140
Query: 121 QTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDSEL 180
QTCPS NY++ KA +IG+RSQSARTYLE+ +F + SLEE++KH LRALR+TLP + EL
Sbjct: 141 QTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQEL 200
Query: 181 TTK 183
T K
Sbjct: 201 TIK 203
>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 = 220 bits (564), Expect = 2e-73
Identities = 82/180 (45%), Positives = 112/180 (62%), Gaps = 5/180 (2%)
Query: 1 MEAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQKKIIVIDDHMGLSFAGLTADARI 58
+EAVK GS VG+K K V+ K+ S+L + +KI IDDH+G + AGLTADAR+
Sbjct: 21 LEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGCAVAGLTADARV 80
Query: 59 LARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYD-DAGP 117
L R+E NY+Y + + +PV L+ + + QV TQ RP+GV LL+AGYD + GP
Sbjct: 81 LVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGP 140
Query: 118 HIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPND 177
+YQT PS Y+ KA AIG SQ A+T+LEKR +LEE +K L+AL++ L D
Sbjct: 141 QLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDL--TLEEAIKLALKALKEVLEED 198
>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 = 171 bits (435), Expect = 3e-54
Identities = 74/180 (41%), Positives = 107/180 (59%), Gaps = 8/180 (4%)
Query: 4 VKQGSATVGLKNKTHAVIIALKRA---ASELAAHQ-KKIIVIDDHMGLSFAGLTADARIL 59
VK G+ VG+K K V+ A KRA + L+ +KI IDDH+G++FAGL ADA+ L
Sbjct: 1 VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60
Query: 60 ARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAG-PH 118
+ R E Y+ + + V L + +K+Q TQ +RPYGV LL+AGYD+ G PH
Sbjct: 61 VDYARAEAQLYRLRYGRPISV-ELAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPH 119
Query: 119 IYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 178
+Y PS + + KA AIGS SQ A +LEK P+ +LEE V+ ++AL++ + D+
Sbjct: 120 LYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLY--KPDMTLEEAVELAVKALKEAIERDA 177
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 164 bits (418), Expect = 4e-51
Identities = 80/185 (43%), Positives = 110/185 (59%), Gaps = 8/185 (4%)
Query: 1 MEAVKQGSAT-VGLKNKTHAVIIALKRAASELAA---HQKKIIVIDDHMGLSFAGLTADA 56
+EAVK+G T VG+K K V+ A KRA S L + +KI IDDH+G++ AGL ADA
Sbjct: 23 LEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLAADA 82
Query: 57 RILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAG 116
++L R+ R E Y+ + + + V L ++ N +Q TQ RPYGV LLVAG DD G
Sbjct: 83 QVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSG--RPYGVSLLVAGVDDGG 140
Query: 117 PHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPN 176
P +Y T PS +Y + KA AIGS SQ A +LEK + SLEE ++ ++ALR +
Sbjct: 141 PRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYR--EDLSLEEAIELAVKALRAAIER 198
Query: 177 DSELT 181
D+
Sbjct: 199 DAASG 203
>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 = 147 bits (374), Expect = 4e-45
Identities = 71/174 (40%), Positives = 96/174 (55%), Gaps = 8/174 (4%)
Query: 8 SATVGLKNKTHAVIIALKRAASELAAH---QKKIIVIDDHMGLSFAGLTADARILARFMR 64
+ VG+K K V+ A KR S L +KI IDDH+G +FAGL ADA+ L +R
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60
Query: 65 MECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDA-GPHIYQTC 123
E Y+ + + +PV L ++ N + TQ RP GV LLVAG D+ GP +Y
Sbjct: 61 KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSL--RPLGVSLLVAGVDEEGGPQLYSVD 118
Query: 124 PSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPND 177
PS +Y + KA AIGS SQ A LEK P+ +LEE ++ L+AL+ L D
Sbjct: 119 PSGSYIEYKATAIGSGSQYALGILEKLY--KPDMTLEEAIELALKALKSALERD 170
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 141 bits (357), Expect = 8e-42
Identities = 67/172 (38%), Positives = 97/172 (56%), Gaps = 4/172 (2%)
Query: 1 MEAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQKKIIVIDDHMGLSFAGLTADARI 58
EAVK+G+ VG+K K V+ KR S L + +KI IDDH+G + AGL ADAR+
Sbjct: 30 REAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGAASAGLVADARV 89
Query: 59 LARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPH 118
L R+E + + + + V L + + Q TQ RP+GV LL+AG DD GP
Sbjct: 90 LIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPR 149
Query: 119 IYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRAL 170
+++T PS Y + KA AIG+ + +LEK + + SLEE ++ L+AL
Sbjct: 150 LFETDPSGAYLEYKATAIGAGRDTVMEFLEKNYKE--DLSLEEAIELALKAL 199
>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 = 138 bits (349), Expect = 6e-41
Identities = 67/182 (36%), Positives = 102/182 (56%), Gaps = 6/182 (3%)
Query: 2 EAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQKKIIVIDDHMGLSFAGLTADARIL 59
EAVK+G+ VG+K K V+ KR S+L + +KI IDDH+G + +GL ADAR+L
Sbjct: 24 EAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGAATSGLVADARVL 83
Query: 60 ARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHI 119
R+E + + + + V L + + Q TQ RP+GV LL+AG DD GP +
Sbjct: 84 IDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRL 143
Query: 120 YQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDSE 179
++T PS + KA AIG+ Q+ +LEK + + SL+E ++ L+AL + +
Sbjct: 144 FETDPSGALLEYKATAIGAGRQAVTEFLEKEYRE--DLSLDEAIELALKALYSA--VEDK 199
Query: 180 LT 181
LT
Sbjct: 200 LT 201
>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 = 135 bits (343), Expect = 3e-40
Identities = 68/175 (38%), Positives = 101/175 (57%), Gaps = 4/175 (2%)
Query: 2 EAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQKKIIVIDDHMGLSFAGLTADARIL 59
EAVK+G+ +G+K K V+ KR S+L +KI IDDH+G + +GL ADAR+L
Sbjct: 23 EAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGAATSGLVADARVL 82
Query: 60 ARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHI 119
R+E ++ + + + V L+ + + Q TQ RP+GV LL+AG DD GP +
Sbjct: 83 IDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRL 142
Query: 120 YQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTL 174
++T PS Y + KA AIGS Q+ +LEK + + SLEE ++ L+AL L
Sbjct: 143 FETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKE--DMSLEEAIELALKALYAAL 195
>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 = 132 bits (333), Expect = 1e-38
Identities = 59/183 (32%), Positives = 101/183 (55%), Gaps = 6/183 (3%)
Query: 3 AVKQGSATVGLKNKTHAVIIALKRAASELA--AHQKKIIVIDDHMGLSFAGLTADARILA 60
AV G+ +VG+K V+ K+ S L + K+ I H+G+ ++G+ D R+L
Sbjct: 23 AVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGMVYSGMGPDFRVLV 82
Query: 61 RFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIY 120
+ R Y + + +PV +L+ + + MQ TQ RP+GV LL+AG+D+ GP++Y
Sbjct: 83 KKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLY 142
Query: 121 QTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDSEL 180
Q PS +Y+ KA AIG +A+T+LEKR + + LE+ + + L++ + ++
Sbjct: 143 QVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNE--DLELEDAIHTAILTLKEGF--EGQM 198
Query: 181 TTK 183
T K
Sbjct: 199 TEK 201
>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 = 130 bits (328), Expect = 5e-38
Identities = 62/173 (35%), Positives = 101/173 (58%), Gaps = 5/173 (2%)
Query: 1 MEAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQKKIIVIDDHMGLSFAGLTADARI 58
EAV++G+ VG++ K V+ K++ ++L +KI ++DDH+ L+FAGLTADAR+
Sbjct: 21 QEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCLAFAGLTADARV 80
Query: 59 LARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYD-DAGP 117
L R+EC +++ +D + V + + Q TQ RP+G+ L+ G+D D P
Sbjct: 81 LINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTP 140
Query: 118 HIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRAL 170
+YQT PS Y KA AIG S++ R +LEK + E + ++ +K ++AL
Sbjct: 141 RLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKE--EMTRDDTIKLAIKAL 191
>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 = 118 bits (298), Expect = 5e-34
Identities = 61/169 (36%), Positives = 89/169 (52%), Gaps = 9/169 (5%)
Query: 8 SATVGLKNKTHAVIIALKRAASELAAH---QKKIIVIDDHMGLSFAGLTADARILARFMR 64
S +V +K K V+ A KR +S L KI +D + AGL ADA+ L R +R
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60
Query: 65 MECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCP 124
Y+ + + + V L + +QV TQ RP+GV L+VAG D+ G ++Y P
Sbjct: 61 EALQLYRLRYGEPISVVALAKELAKLLQVYTQG---RPFGVNLIVAGVDEGGGNLYYIDP 117
Query: 125 SSNYY-DVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRD 172
S + A+A GSRSQ A++ LEK P+ +LEE V+ L+AL+
Sbjct: 118 SGPVIENPGAVATGSRSQRAKSLLEKLYK--PDMTLEEAVELALKALKS 164
>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 = 111 bits (279), Expect = 1e-30
Identities = 62/193 (32%), Positives = 106/193 (54%), Gaps = 6/193 (3%)
Query: 1 MEAVKQGSATVGLKNKTHAVIIALKRAASELAAHQK---KIIVIDDHMGLSFAGLTADAR 57
MEA+ +G+ K V+ A K+ S+L KI IDDH+ + AG+T+DA
Sbjct: 23 MEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIACAVAGITSDAN 82
Query: 58 ILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDA-G 116
IL + R+ Y Y++++ +PV +L+ + + Q TQ RP+GV L AG+D G
Sbjct: 83 ILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAGWDKHYG 142
Query: 117 PHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPN 176
+YQ+ PS NY KA AIG+ +Q+A++ L++ D + +LEE + ++ L T+ +
Sbjct: 143 FQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKD--DMTLEEALALAVKVLSKTMDS 200
Query: 177 DSELTTKVRYSYV 189
+ K+ ++ +
Sbjct: 201 TKLTSEKLEFATL 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 = 110 bits (276), Expect = 3e-30
Identities = 61/190 (32%), Positives = 98/190 (51%), Gaps = 31/190 (16%)
Query: 1 MEAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQKKIIVIDDHMGLSFAGLTADARI 58
+EA+K GS +G+K K V+ KR S L + +KI+ IDDH+G + +GL ADAR
Sbjct: 21 IEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGCAMSGLIADART 80
Query: 59 LARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQ-------RYDK---------RP 102
L R+E N+++ + + + V + TQ ++ + RP
Sbjct: 81 LIDHARVEAQNHRFTYNEPMTV-----------ESVTQAVSDLALQFGEGDDGKKAMSRP 129
Query: 103 YGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEI 162
+GV LL+AG D+ GP ++ T PS + A AIGS S+ A++ L+++ + +LEE
Sbjct: 130 FGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHK--DMTLEEA 187
Query: 163 VKHGLRALRD 172
K L L+
Sbjct: 188 EKLALSILKQ 197
>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 = 109 bits (275), Expect = 6e-30
Identities = 57/166 (34%), Positives = 79/166 (47%), Gaps = 4/166 (2%)
Query: 1 MEAVKQGSATVGLKNKTHAVIIALKRAASEL--AAHQKKIIVIDDHMGLSFAGLTADARI 58
+AV+ +G++ K V+ K S+L K+I +D H+G++ AGL AD R
Sbjct: 24 NKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVDRHIGIAVAGLLADGRH 83
Query: 59 LARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPH 118
L R E NY+ + +PV L V M T RP+G +L+ GYD GP
Sbjct: 84 LVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQ 143
Query: 119 IYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVK 164
+Y PS Y AIG Q+A+T LEK F E + E VK
Sbjct: 144 LYMIEPSGVSYGYFGCAIGKGKQAAKTELEK--LKFSELTCREAVK 187
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 100 bits (251), Expect = 4e-26
Identities = 63/193 (32%), Positives = 101/193 (52%), Gaps = 6/193 (3%)
Query: 1 MEAVKQGSATVGLKNKTHAVIIALKRAASEL---AAHQKKIIVIDDHMGLSFAGLTADAR 57
+EA+ S TVG+ K ++ A K +S+L +KI ID H+ + AGLTADA
Sbjct: 25 LEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIFCAVAGLTADAN 84
Query: 58 ILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYD-DAG 116
IL R+ Y+Y + + PV +L+ + + Q TQ RP+GV L AGYD + G
Sbjct: 85 ILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLG 144
Query: 117 PHIYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPN 176
+Y T PS NY KA AIG +Q+A++ L++ + + +LE+ + + L ++ +
Sbjct: 145 YQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKE--DLTLEQGLLLAAKVLTKSMDS 202
Query: 177 DSELTTKVRYSYV 189
S K+ +
Sbjct: 203 TSPKADKIEVGIL 215
>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 = 91.9 bits (229), Expect = 3e-23
Identities = 56/181 (30%), Positives = 88/181 (48%), Gaps = 6/181 (3%)
Query: 3 AVKQGSAT-VGLKNKTHAVIIALKRAASEL--AAHQKKIIVIDDHMGLSFAGLTADARIL 59
AVK T V ++ K AV++ K+ +L + + I D +G G+ AD+R
Sbjct: 24 AVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIGCVMTGMIADSRSQ 83
Query: 60 ARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDA-GPH 118
+ R E +KY + +PV L + + QV TQ RP GV +++ G D+ GP
Sbjct: 84 VQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQ 143
Query: 119 IYQTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEA--SLEEIVKHGLRALRDTLPN 176
+Y+ P+ + KA A G + Q A +LEK+L P+ S EE V+ + L+ L
Sbjct: 144 LYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLST 203
Query: 177 D 177
D
Sbjct: 204 D 204
>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 = 87.3 bits (217), Expect = 1e-21
Identities = 53/172 (30%), Positives = 81/172 (47%), Gaps = 9/172 (5%)
Query: 10 TVGLKNKTHAVIIALKRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRME 66
TVG+ K V+ A KRA A + KKI IDD + ++ AG DA+ L R ++ E
Sbjct: 3 TVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAE 62
Query: 67 CLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSS 126
Y+ + + L +++ N + PY V LL+ G D+ GPH+Y P
Sbjct: 63 ARLYELRRGRPMSIKALATLLSNIL----NSSKYFPYIVQLLIGGVDEEGPHLYSLDPLG 118
Query: 127 NYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 178
+ + K A GS S A LE + ++EE K +RA++ + DS
Sbjct: 119 SIIEDKYTATGSGSPYAYGVLEDEYK--EDMTVEEAKKLAIRAIKSAIERDS 168
>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 = 79.2 bits (196), Expect = 1e-18
Identities = 55/175 (31%), Positives = 87/175 (49%), Gaps = 9/175 (5%)
Query: 7 GSATVGLKNKTHAVIIALKRAASE-LAAHQ--KKIIVIDDHMGLSFAGLTADARILARFM 63
G+ TVG+K K V+ A KRA+ A + KK+ IDD++ ++ AG DA+ L R +
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60
Query: 64 RMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTC 123
+ E Y+ + V L +++ N + + R+ P+ V LLV G D+ GPH+Y
Sbjct: 61 KAEAKLYELRRGRPMSVKALATLLSNILN--SNRF--FPFIVQLLVGGVDEEGPHLYSLD 116
Query: 124 PSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDS 178
P+ + A GS S A LE + S+EE K +RA++ + D
Sbjct: 117 PAGGIIEDDYTATGSGSPVAYGVLEDEYR--EDMSVEEAKKLAVRAIKSAIERDV 169
>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 = 68.2 bits (168), Expect = 2e-14
Identities = 51/168 (30%), Positives = 78/168 (46%), Gaps = 14/168 (8%)
Query: 10 TVGLKNKTHAVIIALKRA-ASELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRME 66
VG+K K V+ A RA A L A + KI I D++ L AG AD + L R ++
Sbjct: 3 IVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRN 62
Query: 67 CLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKR--PYGVGLLVAGYD-DAGPHIYQTC 123
Y+ + L V +++ N + Y R PY V L+V G D GP +Y
Sbjct: 63 LRLYELRNGRELSVKAAANLLSNIL------YSYRGFPYYVSLIVGGVDKGGGPFLYYVD 116
Query: 124 PSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALR 171
P + + +A GS S+ A L++ P+ +LEE V+ +A+
Sbjct: 117 PLGSLIEAPFVATGSGSKYAYGILDRGYK--PDMTLEEAVELVKKAID 162
>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 = 45.7 bits (109), Expect = 2e-06
Identities = 30/117 (25%), Positives = 52/117 (44%), Gaps = 13/117 (11%)
Query: 10 TVGLKNKTHAVIIALKRAAS--ELAAHQ--KKIIVIDDHMGLSFAGLTADARILARFMRM 65
T+ + VI+A+ A+ A Q KK+I I+ ++ + AG AD + R +
Sbjct: 3 TLAFIFQ-GGVIVAVDSRATAGSYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGR 61
Query: 66 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYG--VGLLVAGYDDAGPHIY 120
EC Y+ +K IS+ + Y + G +G ++ G+D GP +Y
Sbjct: 62 ECRLYELRNK------ERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDKTGPGLY 112
>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 = 38.7 bits (91), Expect = 7e-04
Identities = 41/163 (25%), Positives = 66/163 (40%), Gaps = 22/163 (13%)
Query: 11 VGLKNKTHAVIIALKRA-ASELAA--HQKKIIVIDDHMGLSFAGLTADARILARFMR--M 65
VG+ K V+ A RA + A + +KI I ++ AG AD + + +
Sbjct: 4 VGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNL 63
Query: 66 ECLNYKYAHKDTLPVFRLISIVGNKMQVCTQ---RYDKRPY-GVGLLVAGYDDAGPHIYQ 121
E K V + + Q RY + + G L++ G D GPH+Y
Sbjct: 64 ELHRLNTGRK---------PRVVTALTMLKQHLFRY--QGHIGAALVLGGVDYTGPHLYS 112
Query: 122 TCPSSNYYDVKAMAIGSRSQSARTYLEKRLADFPEASLEEIVK 164
P + + + +GS S +A + LE R P+ + EE K
Sbjct: 113 IYPHGSTDKLPFVTMGSGSLAAMSVLEDRY--KPDMTEEEAKK 153
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 39.2 bits (91), Expect = 7e-04
Identities = 31/123 (25%), Positives = 56/123 (45%), Gaps = 13/123 (10%)
Query: 4 VKQGSATVGLKNKTHAVIIAL--KRAASELAAHQ--KKIIVIDDHMGLSFAGLTADARIL 59
G+ T+ K +IIA+ K A A Q KK+I I+ + + AG AD
Sbjct: 36 FAHGTTTLAFKYGG-GIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFW 94
Query: 60 ARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGV--GLLVAGYDDAGP 117
R + M+C Y+ + + + V I+ N + ++ + G+ G ++ G+D GP
Sbjct: 95 ERELAMQCRLYELRNGELISVAAASKILANIV------WNYKGMGLSMGTMICGWDKKGP 148
Query: 118 HIY 120
++
Sbjct: 149 GLF 151
>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 = 36.8 bits (86), Expect = 0.003
Identities = 31/119 (26%), Positives = 51/119 (42%), Gaps = 12/119 (10%)
Query: 7 GSATVGLKNKTHAVIIALKRAASEL---AAHQKKIIVIDDHMGLSFAGLTADARILARFM 63
G A V + K I + R + + +K+ I D + + AGL D + LA+ +
Sbjct: 3 GGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKL 62
Query: 64 RMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKR--PYGVGLLVAGYDDAG-PHI 119
R Y+ + + S++ + + Y+KR PY V +VAG D G P I
Sbjct: 63 RFRVNLYRLREEREIKPKTFSSLISSLL------YEKRFGPYFVEPVVAGLDPDGKPFI 115
>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 = 34.9 bits (81), Expect = 0.013
Identities = 36/154 (23%), Positives = 59/154 (38%), Gaps = 12/154 (7%)
Query: 7 GSATVGLKNKTHAVIIALKRAASELAAH---QKKIIVIDDHMGLSFAGLTADARILARFM 63
G + + AVI R + + KI + D L +G AD L + +
Sbjct: 8 GGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRL 67
Query: 64 RMECLNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKR--PYGVGLLVAGYDDAG-PHIY 120
+ YKY+H + +S + T Y +R PY V ++AG D+ G +Y
Sbjct: 68 KARIKMYKYSHN------KEMSTEAIAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVY 121
Query: 121 QTCPSSNYYDVKAMAIGSRSQSARTYLEKRLADF 154
P +Y A GS S + L+ ++
Sbjct: 122 SYDPVGSYERETYSAGGSASSLIQPLLDNQVGRK 155
>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 = 31.0 bits (71), Expect = 0.31
Identities = 28/114 (24%), Positives = 49/114 (42%), Gaps = 6/114 (5%)
Query: 11 VGLKNKTHAVIIALKRAASELAAH---QKKIIVIDDHMGLSFAGLTADARILARFMRMEC 67
+G+K K ++ A AA + + KI + DH ++ +G D A +++
Sbjct: 5 IGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNI 64
Query: 68 LNYKYAHKDTLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDD-AGPHIY 120
YK + L + ++ + + PY V LL+AGYD GP +Y
Sbjct: 65 QLYKMRNGYELSPKAAANFTRRELAESLRS--RTPYQVNLLLAGYDKVEGPSLY 116
>gnl|CDD|197238 cd09140, PLDc_vPLD1_2_like_bac_1, Catalytic domain, repeat 1, of
uncharacterized bacterial proteins with similarity to
vertebrate phospholipases, PLD1 and PLD2. Catalytic
domain, repeat 1, of uncharacterized bacterial
counterparts of vertebrate, yeast and plant
phospholipase D (PLD, EC 3.1.4.4). PLDs hydrolyze the
terminal phosphodiester bond of phospholipids with the
formation of phosphatidic acid and alcohols. They also
catalyze the transphosphatidylation of phospholipids to
acceptor alcohols, by which various phospholipids can be
synthesized. Instead of the regulatory C2
(calcium-activated lipid binding) domain in plants and
the adjacent Phox (PX) and the Pleckstrin homology (PH)
N-terminal domains in most mammalian and yeast PLDs,
many members in this subfamily contain a SNARE
associated C-terminal domain, whose functional role is
unclear. Like other PLD enzymes, members in this
subfamily contain two copies of the conserved HKD motif
(H-x-K-x(4)-D, where x represents any amino acid
residue), that may play an important role in the
catalysis.
Length = 146
Score = 29.4 bits (67), Expect = 0.71
Identities = 14/27 (51%), Positives = 18/27 (66%), Gaps = 5/27 (18%)
Query: 32 AAHQKKIIVIDDHMGLSFAG---LTAD 55
A+H +KI+VIDD L+F G LT D
Sbjct: 110 ASHHQKIVVIDDA--LAFCGGIDLTVD 134
>gnl|CDD|173172 PRK14709, PRK14709, hypothetical protein; Provisional.
Length = 469
Score = 30.1 bits (68), Expect = 0.78
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 8/38 (21%)
Query: 52 LTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGN 89
+T I ARFMR + +++ +P F+L IVGN
Sbjct: 281 MTGGDTITARFMRQD--FFEF-----VPQFKLT-IVGN 310
>gnl|CDD|237763 PRK14603, ruvA, Holliday junction DNA helicase RuvA; Provisional.
Length = 197
Score = 29.7 bits (67), Expect = 0.82
Identities = 13/38 (34%), Positives = 23/38 (60%)
Query: 134 MAIGSRSQSARTYLEKRLADFPEASLEEIVKHGLRALR 171
+A+G R R+ + + LA PEAS + +++ L+ LR
Sbjct: 160 LALGFREAQVRSVVAELLAQNPEASAQTLIRKALKRLR 197
>gnl|CDD|99959 cd01635, Glycosyltransferase_GTB_type, Glycosyltransferases
catalyze the transfer of sugar moieties from activated
donor molecules to specific acceptor molecules, forming
glycosidic bonds. The acceptor molecule can be a lipid,
a protein, a heterocyclic compound, or another
carbohydrate residue. The structures of the formed
glycoconjugates are extremely diverse, reflecting a wide
range of biological functions. The members of this
family share a common GTB topology, one of the two
protein topologies observed for
nucleotide-sugar-dependent glycosyltransferases. GTB
proteins have distinct N- and C- terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two domains
includes the catalytic center and permits a high degree
of flexibility.
Length = 229
Score = 29.1 bits (65), Expect = 1.3
Identities = 16/107 (14%), Positives = 31/107 (28%), Gaps = 2/107 (1%)
Query: 18 HAVIIALKRAASELAAHQKKIIVIDDHMGLSFA-GLTADARILARFMRMECLNYKYAHKD 76
++AL K V+ H L AR+L + + + +
Sbjct: 32 EVEVVALLLLLLLRILRGFKPDVVHAHGYYPAPLALLLAARLLGIPLVLTVHGVNRSLLE 91
Query: 77 TLPVFRLISIVGNKMQVCTQRYDKRPYGVGLLVAGYDDAGPHIYQTC 123
+P+ L +G +V R G+ L+ +
Sbjct: 92 GVPLSLLALSIGLADKVFVGRLAPEK-GLDDLIEAFALLKERGPDLK 137
>gnl|CDD|234295 TIGR03652, FeS_repair_RIC, iron-sulfur cluster repair di-iron
protein. Members of this protein family, designated
variously as YftE, NorA, DrnN, and NipC, are di-iron
proteins involved in the repair of iron-sulfur clusters.
Previously assigned names reflect pleiotropic effects of
damage from NO or other oxidative stress when this
protein is mutated. The suggested name now is RIC, for
Repair of Iron Centers [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 216
Score = 29.1 bits (66), Expect = 1.3
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 4/36 (11%)
Query: 153 DFPEASLEEIVKHGLRA----LRDTLPNDSELTTKV 184
D+ EA L E++ H + LR+ LP L TKV
Sbjct: 62 DWREAPLSELIDHIVDRHHEYLREELPELIPLATKV 97
>gnl|CDD|181676 PRK09165, PRK09165, replicative DNA helicase; Provisional.
Length = 497
Score = 29.5 bits (67), Expect = 1.4
Identities = 17/38 (44%), Positives = 20/38 (52%), Gaps = 3/38 (7%)
Query: 24 LKRAASELAAHQKKIIVIDDHMGLSFAGLTADARILAR 61
L A+ EL QK + IDD LS + L A AR L R
Sbjct: 304 LVDASQEL---QKLPLYIDDTPALSISQLRARARRLKR 338
>gnl|CDD|234808 PRK00652, lpxK, tetraacyldisaccharide 4'-kinase; Reviewed.
Length = 325
Score = 29.0 bits (66), Expect = 1.5
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 11/60 (18%)
Query: 9 ATVG-----LKNKTHA-VIIALKRAASE---LAAHQKKIIVIDDHMGLSFAGLTADARIL 59
A VG + +T A V ++ R A+ LAAH II++DD GL L D I+
Sbjct: 107 AEVGDEPLLIARRTGAPVAVSPDRVAAARALLAAHGADIIILDD--GLQHYRLARDIEIV 164
>gnl|CDD|239407 cd03154, TM4SF3_like_LEL, Tetraspanin, extracellular domain or
large extracellular loop (LEL), TM4SF3_like subfamily.
Tetraspanins are trans-membrane proteins with 4
trans-membrane segments. Both the N- and C-termini lie
on the intracellular side of the membrane. This
alignment model spans the extracellular domain between
the 3rd and 4th trans-membrane segment. Tetraspanins are
involved in diverse processes and their various
functions may relate to their ability to act as
molecular facilitators. Tetraspanins associate laterally
with one another and cluster dynamically with numerous
parnter domains in membrane microdomains, forming a
network of multimolecular complexes, the "tetraspanin
web". This subfamily contaions transmembrane 4
superfamily 3 (TM4SF3) or D6.1a and related proteins.
D6.1a associates with alpha6beta4 integrin and supports
cell motility, it has been ascribed a role in tumor
progression and metastasis.
Length = 100
Score = 27.4 bits (61), Expect = 2.4
Identities = 11/36 (30%), Positives = 12/36 (33%), Gaps = 14/36 (38%)
Query: 108 LVAGYDDAGPHIYQTC--------------PSSNYY 129
LV G DD G I +C SN Y
Sbjct: 49 LVNGADDWGNDIPASCNCTTTQSDCVVAYYGGSNVY 84
>gnl|CDD|234456 TIGR04074, bacter_Hen1, 3' terminal RNA ribose
2'-O-methyltransferase Hen1. Members of this protein
family are bacterial Hen1, a 3' terminal RNA ribose
2'-O-methyltransferase that acts in bacterial RNA
repair. All members of the seed alignment belong to a
cassette with the RNA repair enzyme polynucleotide
kinase-phosphatase (Pnkp). Chemically similar Hen1 in
eukaryotes acts instead on small regulatory RNAs
[Transcription, RNA processing, Protein synthesis, tRNA
and rRNA base modification].
Length = 462
Score = 28.4 bits (64), Expect = 3.1
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 141 QSARTYLEKRLADFPEASLEEIVKH 165
Q + TY +KRL F A L E+++H
Sbjct: 343 QGSLTYRDKRLKGFDAAVLVEVIEH 367
>gnl|CDD|151689 pfam11247, DUF2675, Protein of unknown function (DUF2675). Members
in this family of proteins are annotated as Gene protein
5.5. Currently no function is known.
Length = 98
Score = 27.1 bits (60), Expect = 3.2
Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 144 RTYLEKRLADFPEASLEEIVKHGLR-ALRDTLPNDSE 179
R L + L PE + +VK G+R A+++ L S+
Sbjct: 47 REMLVQGLTHGPEGAAAFVVKQGIREAIKEMLSEYSD 83
>gnl|CDD|236829 PRK11045, pagP, phospholipid:lipid A palmitoyltransferase;
Provisional.
Length = 184
Score = 27.7 bits (62), Expect = 3.4
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 10/41 (24%)
Query: 95 TQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMA 135
Y++RP+G G + YD+ G N++ + AMA
Sbjct: 66 IDSYNERPWGGGFGKSRYDEKG----------NWHGLYAMA 96
>gnl|CDD|217890 pfam04097, Nic96, Nup93/Nic96. Nup93/Nic96 is a component of the
nuclear pore complex. It is required for the correct
assembly of the nuclear pore complex. In Saccharomyces
cerevisiae, Nic96 has been shown to be involved in the
distribution and cellular concentration of the GTPase
Gsp1. The structure of Nic96 has revealed a mostly alpha
helical structure.
Length = 607
Score = 27.6 bits (62), Expect = 5.0
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 8/68 (11%)
Query: 141 QSARTYLEKRLADFPEASLEEIVKHGLRALRDTLPNDSELTTKVRYSYV-LTVSIHSTST 199
+ +R YLE++ F E E I K+ A +P KVR +++ + ++
Sbjct: 45 EGSRKYLERQ---FLEYVDELIAKNPNEAQLGGVPT---NLNKVR-AFIRIRLARKGQWD 97
Query: 200 YPNVTYVN 207
+ VN
Sbjct: 98 DSGLQIVN 105
>gnl|CDD|235927 PRK07078, PRK07078, hypothetical protein; Validated.
Length = 759
Score = 27.8 bits (62), Expect = 5.4
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 8/38 (21%)
Query: 52 LTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGN 89
LT +I ARFMR + + P F+L+ I GN
Sbjct: 567 LTGGDKISARFMRQDFFEF-------FPQFKLL-IAGN 596
>gnl|CDD|221246 pfam11824, DUF3344, Protein of unknown function (DUF3344). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria and archaea. Proteins
in this family are typically between 367 to 1857 amino
acids in length.
Length = 267
Score = 27.3 bits (61), Expect = 6.3
Identities = 16/42 (38%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 80 VFRLISIVGNKMQVCTQR-YDKRPYGVGLLVAGYDDAGPHIY 120
V LIS N + V + +D R YG+ L+V D +GP I
Sbjct: 113 VTDLISGGTNTVVVTSDSGFDGRIYGITLVVVYEDGSGPEIE 154
>gnl|CDD|203567 pfam07017, PagP, Antimicrobial peptide resistance and lipid A
acylation protein PagP. This family consists of several
bacterial antimicrobial peptide resistance and lipid A
acylation (PagP) proteins. The bacterial outer membrane
enzyme PagP transfers a palmitate chain from a
phospholipid to lipid A. In a number of pathogenic
Gram-negative bacteria, PagP confers resistance to
certain cationic antimicrobial peptides produced during
the host innate immune response.
Length = 147
Score = 26.6 bits (59), Expect = 7.0
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 10/41 (24%)
Query: 95 TQRYDKRPYGVGLLVAGYDDAGPHIYQTCPSSNYYDVKAMA 135
Y++RP+G G + YD+ G N++ + AMA
Sbjct: 32 IDSYNERPWGGGYGKSRYDEKG----------NWHGLYAMA 62
>gnl|CDD|198144 smart01076, CG-1, CG-1 domains are highly conserved domains of
about 130 amino-acid residues. The domains contain a
predicted bipartite NLS and are named after a partial
cDNA clone isolated from parsley encoding a
sequence-specific DNA-binding protein. CG-1 domains are
associated with CAMTA proteins (for CAlModulin -binding
Transcription Activator) that are transcription factors
containing a calmodulin -binding domain and ankyrins
(ANK) motifs.
Length = 118
Score = 26.2 bits (58), Expect = 7.6
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 13/41 (31%)
Query: 42 DDHMGLSFAGLTADARILARFMRMECLNYKYAHKDTLPVFR 82
+DH L G +ECL+ YAH + P F
Sbjct: 70 EDHEKLKVGG-------------IECLHCYYAHSEINPTFH 97
>gnl|CDD|217737 pfam03800, Nuf2, Nuf2 family. Members of this family are
components of the mitotic spindle. It has been shown
that Nuf2 from yeast is part of a complex called the
Ndc80p complex. This complex is thought to bind to the
microtubules of the spindle. An arabidopsis protein has
been included in this family that has previously not
been identified as a member of this family, Arabidopsis
thaliana T7P1.14. The match is not strong, but in
common with other members of this family contains
coiled-coil to the C terminus of this region.
Length = 144
Score = 26.4 bits (59), Expect = 7.7
Identities = 13/47 (27%), Positives = 23/47 (48%)
Query: 48 SFAGLTADARILARFMRMECLNYKYAHKDTLPVFRLISIVGNKMQVC 94
F G+T + A E + Y +++TLP+ RL + ++VC
Sbjct: 49 LFMGITRETLDGAMRAAAEGIEYPELYEETLPLLRLYRYMQRFLEVC 95
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.133 0.379
Gapped
Lambda K H
0.267 0.0684 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,485,058
Number of extensions: 987981
Number of successful extensions: 1113
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1070
Number of HSP's successfully gapped: 51
Length of query: 208
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 115
Effective length of database: 6,812,680
Effective search space: 783458200
Effective search space used: 783458200
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.8 bits)