RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2869
(352 letters)
>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 = 399 bits (1028), Expect = e-141
Identities = 160/218 (73%), Positives = 186/218 (85%), Gaps = 2/218 (0%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDC-IHKVEPITDYIGM 59
PSGKLVQIEYALAAV +GAPSVGIKA+NG+VLATEKK + L ++ +HKVE IT +IGM
Sbjct: 10 PSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGM 69
Query: 60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
VYSGMGPD+R+LVKKARKIAQQY LVY E IP QLV+ +A++MQEYTQSGGVRPFGVSL
Sbjct: 70 VYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGVSL 129
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
LI GWD PYLYQ DPSG+YF WKATA+G+NY N KTFLEKRY+EDLEL+DA+HTAILT
Sbjct: 130 LIAGWDEGGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYNEDLELEDAIHTAILT 189
Query: 180 LKEGFEGQMTAENIEIGIA-DENGFRRLDVATVRDHLS 216
LKEGFEGQMT +NIEIGI + GFR L A ++D+L+
Sbjct: 190 LKEGFEGQMTEKNIEIGICGETKGFRLLTPAEIKDYLA 227
Score = 160 bits (406), Expect = 1e-47
Identities = 56/75 (74%), Positives = 63/75 (84%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
E IP QLV+ +A++MQEYTQSGGVRPFGVSLLI GWD PYLYQ DPSG+YF WKATA
Sbjct: 98 EPIPVSQLVREIASVMQEYTQSGGVRPFGVSLLIAGWDEGGPYLYQVDPSGSYFTWKATA 157
Query: 320 MGRNYVNGKTFLEKR 334
+G+NY N KTFLEKR
Sbjct: 158 IGKNYSNAKTFLEKR 172
>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 = 301 bits (773), Expect = e-103
Identities = 101/199 (50%), Positives = 134/199 (67%), Gaps = 2/199 (1%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
P G+L Q+EYAL AV+ G+ +VGIK +G+VLA EKK + L + + K+ I D+IG
Sbjct: 10 PEGRLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKIDDHIGC 69
Query: 60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
+G+ D R+LV +AR AQ Y+ Y E IP + LV+R+A + Q YTQ GGVRPFGVSL
Sbjct: 70 AVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVSL 129
Query: 120 LICGWDNKR-PYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
LI G+D + P LYQ DPSG YF +KATA+G+ KTFLEKRY +DL L++A+ A+
Sbjct: 130 LIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALK 189
Query: 179 TLKEGFEGQMTAENIEIGI 197
LKE E A+NIEI +
Sbjct: 190 ALKEVLEEDKKAKNIEIAV 208
Score = 133 bits (338), Expect = 1e-37
Identities = 47/76 (61%), Positives = 56/76 (73%), Gaps = 1/76 (1%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
E IP + LV+R+A + Q YTQ GGVRPFGVSLLI G+D + P LYQ DPSG YF +KAT
Sbjct: 98 EPIPVEVLVKRIADLAQVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQTDPSGTYFGYKAT 157
Query: 319 AMGRNYVNGKTFLEKR 334
A+G+ KTFLEKR
Sbjct: 158 AIGKGSQEAKTFLEKR 173
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 228 bits (585), Expect = 4e-74
Identities = 95/225 (42%), Positives = 138/225 (61%), Gaps = 7/225 (3%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
P G+L Q+EYA AV+ G +VG+K +G+VLA +K+ + L E I K+ I D+IG
Sbjct: 19 PDGRLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEPSSIEKIFKIDDHIGA 78
Query: 60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
+G+ D R+L+ +AR AQ +L Y E I + L +++ Q+YTQ GGVRPFGV+L
Sbjct: 79 ASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVAL 138
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAI 177
LI G D+ P L++ DPSGAY +KATA+G R+ V FLEK Y EDL L++A+ A+
Sbjct: 139 LIAGVDDGGPRLFETDPSGAYLEYKATAIGAGRDTVM--EFLEKNYKEDLSLEEAIELAL 196
Query: 178 LTLKEGFEGQMTAENIEIGIAD--ENGFRRLDVATVRDHLSNIPQ 220
L + EG++ EN+EI D FR+L V + +L + +
Sbjct: 197 KALAKANEGKLDPENVEIAYIDVETKKFRKLSVEEIEKYLEKLLK 241
Score = 98.4 bits (246), Expect = 5e-24
Identities = 39/76 (51%), Positives = 51/76 (67%), Gaps = 4/76 (5%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
E I + L +++ Q+YTQ GGVRPFGV+LLI G D+ P L++ DPSGAY +KATA
Sbjct: 107 EPIGVETLTKKICDHKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYLEYKATA 166
Query: 320 MG--RNYVNGKTFLEK 333
+G R+ V FLEK
Sbjct: 167 IGAGRDTVM--EFLEK 180
>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 = 219 bits (560), Expect = 1e-70
Identities = 92/211 (43%), Positives = 128/211 (60%), Gaps = 3/211 (1%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
P G+L Q+EYA AV+ G +VGIK +G+VLA +K+ + L E I K+ I D+IG
Sbjct: 12 PDGRLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLVEPSSIEKIFKIDDHIGA 71
Query: 60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
SG+ D R+L+ +AR AQ +L Y E I + L +++ + Q+YTQ GGVRPFGV+L
Sbjct: 72 ATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVAL 131
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
LI G D+ P L++ DPSGA +KATA+G FLEK Y EDL LD+A+ A+
Sbjct: 132 LIAGVDDGGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEAIELALKA 191
Query: 180 LKEGFEGQMTAENIEIGIADENG--FRRLDV 208
L E ++T EN+E+ FR+L V
Sbjct: 192 LYSAVEDKLTPENVEVAYITVEDKKFRKLSV 222
Score = 95.0 bits (237), Expect = 6e-23
Identities = 36/74 (48%), Positives = 48/74 (64%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
E I + L +++ + Q+YTQ GGVRPFGV+LLI G D+ P L++ DPSGA +KATA
Sbjct: 100 EPIDVETLAKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGALLEYKATA 159
Query: 320 MGRNYVNGKTFLEK 333
+G FLEK
Sbjct: 160 IGAGRQAVTEFLEK 173
>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 = 216 bits (553), Expect = 1e-69
Identities = 87/201 (43%), Positives = 124/201 (61%), Gaps = 1/201 (0%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
P G+L Q+EYA AV+ G ++GIK G+VLA +K+ + L E + I K+ I D++G
Sbjct: 11 PDGRLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLVEPESIEKIYKIDDHVGA 70
Query: 60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
SG+ D R+L+ +AR AQ ++L Y E I + LV+++ + Q+YTQ GGVRPFGV+L
Sbjct: 71 ATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVAL 130
Query: 120 LICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
LI G D+ P L++ DPSGAY +KATA+G FLEK Y ED+ L++A+ A+
Sbjct: 131 LIAGVDDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEAIELALKA 190
Query: 180 LKEGFEGQMTAENIEIGIADE 200
L E T EN+EI
Sbjct: 191 LYAALEENETPENVEIAYVTV 211
Score = 97.4 bits (243), Expect = 6e-24
Identities = 38/74 (51%), Positives = 50/74 (67%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
E I + LV+++ + Q+YTQ GGVRPFGV+LLI G D+ P L++ DPSGAY +KATA
Sbjct: 99 EPIDVEVLVKKICDLKQQYTQHGGVRPFGVALLIAGVDDGGPRLFETDPSGAYNEYKATA 158
Query: 320 MGRNYVNGKTFLEK 333
+G FLEK
Sbjct: 159 IGSGRQAVTEFLEK 172
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 204 bits (520), Expect = 2e-64
Identities = 90/223 (40%), Positives = 134/223 (60%), Gaps = 7/223 (3%)
Query: 1 PSGKLVQIEYALAAVE-AGAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYI 57
P G+L Q+EYAL AV+ G +VGIK +G+VLA +K+ ++ + K+ I D+I
Sbjct: 12 PEGRLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHI 71
Query: 58 GMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGV 117
GM +G+ D ++LV+ AR AQ Y+L Y E I + L + ++ I+QEYTQS RP+GV
Sbjct: 72 GMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGV 129
Query: 118 SLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
SLL+ G D+ P LY DPSG+Y +KATA+G FLEK Y EDL L++A+ A+
Sbjct: 130 SLLVAGVDDGGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAV 189
Query: 178 LTLKEGFE-GQMTAENIEIGIAD-ENGFRRLDVATVRDHLSNI 218
L+ E + IE+ + + GFR+LD ++ L ++
Sbjct: 190 KALRAAIERDAASGGGIEVAVITKDEGFRKLDGEEIKKLLDDL 232
Score = 86.2 bits (214), Expect = 1e-19
Identities = 36/77 (46%), Positives = 48/77 (62%), Gaps = 2/77 (2%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
E I + L + ++ I+QEYTQS RP+GVSLL+ G D+ P LY DPSG+Y +KATA
Sbjct: 102 EPISVEALAKLLSNILQEYTQS--GRPYGVSLLVAGVDDGGPRLYSTDPSGSYNEYKATA 159
Query: 320 MGRNYVNGKTFLEKREK 336
+G FLEK +
Sbjct: 160 IGSGSQFAYGFLEKEYR 176
>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 = 193 bits (492), Expect = 8e-61
Identities = 78/188 (41%), Positives = 111/188 (59%), Gaps = 6/188 (3%)
Query: 15 VEAGAPSVGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLL 71
V+ G VGIK +G+VLA +K+ +L +D + K+ I D+IGM ++G+ D + L
Sbjct: 1 VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60
Query: 72 VKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPY 130
V AR AQ Y+L Y I + L +R+A +Q YTQ G RP+GVSLLI G+D P+
Sbjct: 61 VDYARAEAQLYRLRYGRPISVE-LAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPH 119
Query: 131 LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQ-MT 189
LY DPSG+ +KATA+G FLEK Y D+ L++AV A+ LKE E ++
Sbjct: 120 LYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERDALS 179
Query: 190 AENIEIGI 197
NIE+ +
Sbjct: 180 GGNIEVAV 187
Score = 91.1 bits (227), Expect = 8e-22
Identities = 35/76 (46%), Positives = 45/76 (59%), Gaps = 2/76 (2%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKAT 318
I + L +R+A +Q YTQ G RP+GVSLLI G+D P+LY DPSG+ +KAT
Sbjct: 77 RPISVE-LAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHLYSIDPSGSVIEYKAT 135
Query: 319 AMGRNYVNGKTFLEKR 334
A+G FLEK
Sbjct: 136 AIGSGSQYAYGFLEKL 151
>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 = 184 bits (470), Expect = 2e-57
Identities = 79/199 (39%), Positives = 120/199 (60%), Gaps = 4/199 (2%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
P G L Q+EYA AV G +VG++ + +VL EKK L + + K+ + D++ +
Sbjct: 10 PDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCL 69
Query: 60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL 119
++G+ D R+L+ +AR Q ++L ++ + + + + +A + Q YTQSGGVRPFG+S
Sbjct: 70 AFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGIST 129
Query: 120 LICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAIL 178
LI G+D + P LYQ DPSG Y AWKA A+GRN + FLEK Y E++ DD + AI
Sbjct: 130 LIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNYKEEMTRDDTIKLAIK 189
Query: 179 TLKEGFEGQMTAENIEIGI 197
L E Q ++NIE+ +
Sbjct: 190 ALLEVV--QSGSKNIELAV 206
Score = 96.3 bits (240), Expect = 1e-23
Identities = 45/82 (54%), Positives = 55/82 (67%), Gaps = 4/82 (4%)
Query: 254 RLDVATENIPTQQLVQR-VAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGA 311
RL V E+ T + + R +A + Q YTQSGGVRPFG+S LI G+D + P LYQ DPSG
Sbjct: 93 RLTV--EDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDPDGTPRLYQTDPSGT 150
Query: 312 YFAWKATAMGRNYVNGKTFLEK 333
Y AWKA A+GRN + FLEK
Sbjct: 151 YSAWKANAIGRNSKTVREFLEK 172
>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 = 184 bits (468), Expect = 5e-57
Identities = 85/201 (42%), Positives = 121/201 (60%), Gaps = 4/201 (1%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCI--HKVEPITDYIG 58
P G+L Q+EYA+ A+ +GI A +GIVLA EKK + L + K+ I D+I
Sbjct: 12 PEGRLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHIA 71
Query: 59 MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
+G+ D +L+ AR IAQ+Y YQE IP +QLVQR+ I Q YTQ GG+RPFGVS
Sbjct: 72 CAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVS 131
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
L GWD + LYQ DPSG Y WKATA+G N ++ L++ Y +D+ L++A+ A+
Sbjct: 132 FLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDMTLEEALALAV 191
Query: 178 LTLKEGFEG-QMTAENIEIGI 197
L + + ++T+E +E
Sbjct: 192 KVLSKTMDSTKLTSEKLEFAT 212
Score = 101 bits (253), Expect = 2e-25
Identities = 47/90 (52%), Positives = 55/90 (61%), Gaps = 2/90 (2%)
Query: 237 MTAE-NIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICG 295
+T++ NI I A R L E IP +QLVQR+ I Q YTQ GG+RPFGVS L G
Sbjct: 77 ITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGVSFLYAG 136
Query: 296 WDNKRPY-LYQCDPSGAYFAWKATAMGRNY 324
WD + LYQ DPSG Y WKATA+G N
Sbjct: 137 WDKHYGFQLYQSDPSGNYSGWKATAIGNNN 166
>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 = 179 bits (457), Expect = 1e-55
Identities = 71/181 (39%), Positives = 107/181 (59%), Gaps = 6/181 (3%)
Query: 21 SVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
VGIK +G+VLA +K+ ++ + K+ I D+IG ++G+ D + LV++ RK
Sbjct: 3 IVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKE 62
Query: 79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS 137
AQ Y+L Y E IP + L + +A ++ EYTQS +RP GVSLL+ G D + P LY DPS
Sbjct: 63 AQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPS 120
Query: 138 GAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQM-TAENIEIG 196
G+Y +KATA+G LEK Y D+ L++A+ A+ LK E + + NIE+
Sbjct: 121 GSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYSGGNIEVA 180
Query: 197 I 197
+
Sbjct: 181 V 181
Score = 89.5 bits (223), Expect = 3e-21
Identities = 35/76 (46%), Positives = 46/76 (60%), Gaps = 3/76 (3%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPSGAYFAWKAT 318
E IP + L + +A ++ EYTQS +RP GVSLL+ G D + P LY DPSG+Y +KAT
Sbjct: 72 EPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKAT 129
Query: 319 AMGRNYVNGKTFLEKR 334
A+G LEK
Sbjct: 130 AIGSGSQYALGILEKL 145
>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 = 157 bits (399), Expect = 9e-47
Identities = 74/203 (36%), Positives = 119/203 (58%), Gaps = 9/203 (4%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTIL--FEDCIHKVEPITDYIG 58
P G+L Q+EYA+ AV+ G+ +VG+K+ VL K+ + L ++ K+ + D+IG
Sbjct: 10 PQGRLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSELSSYQK---KIFKVDDHIG 66
Query: 59 MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
+ +G+ D R+L + R+ Y+ VY IP +LV +VA Q TQ G RP+GV
Sbjct: 67 IAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVG 126
Query: 119 LLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYS--EDLELDDAVHTA 176
LLI G+D P+L+Q PSG YF +KAT++G + +T+LE+ + ED L++ + A
Sbjct: 127 LLIAGYDESGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHA 186
Query: 177 ILTLKEGF--EGQMTAENIEIGI 197
+ L+E E ++T +N+ I I
Sbjct: 187 LRALRETLPGEQELTIKNVSIAI 209
Score = 81.2 bits (201), Expect = 5e-18
Identities = 35/78 (44%), Positives = 48/78 (61%)
Query: 257 VATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWK 316
V IP +LV +VA Q TQ G RP+GV LLI G+D P+L+Q PSG YF +K
Sbjct: 93 VYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGYDESGPHLFQTCPSGNYFEYK 152
Query: 317 ATAMGRNYVNGKTFLEKR 334
AT++G + +T+LE+
Sbjct: 153 ATSIGARSQSARTYLERH 170
>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 = 156 bits (396), Expect = 3e-46
Identities = 67/177 (37%), Positives = 98/177 (55%), Gaps = 7/177 (3%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED----CIHKVEPITDY 56
P G++ Q+EYA AVE ++GI+ +G+VLA EK + L+E I V+ +
Sbjct: 13 PDGRVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGSNKRIFNVD---RH 69
Query: 57 IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFG 116
IG+ +G+ D R LV +AR+ A+ Y+ Y IP + L RVA M YT VRPFG
Sbjct: 70 IGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFG 129
Query: 117 VSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAV 173
S+L+ G+D+ P LY +PSG + + A+G+ KT LEK +L +AV
Sbjct: 130 CSVLLGGYDSDGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLKFSELTCREAV 186
Score = 80.4 bits (199), Expect = 8e-18
Identities = 31/74 (41%), Positives = 41/74 (55%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
IP + L RVA M YT VRPFG S+L+ G+D+ P LY +PSG + + A
Sbjct: 101 TPIPVKVLADRVAMYMHAYTLYSSVRPFGCSVLLGGYDSDGPQLYMIEPSGVSYGYFGCA 160
Query: 320 MGRNYVNGKTFLEK 333
+G+ KT LEK
Sbjct: 161 IGKGKQAAKTELEK 174
>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 = 153 bits (388), Expect = 5e-45
Identities = 73/205 (35%), Positives = 108/205 (52%), Gaps = 7/205 (3%)
Query: 1 PSGKLVQIEYALAAVE-AGAPSVGIKASNGIVLATEKK-QKTILFEDCIHKVEPITDYIG 58
P G+L Q+EYA AV+ AG SV ++ + V+ T+KK ++ + + ITD IG
Sbjct: 11 PEGRLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTHLFRITDEIG 70
Query: 59 MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
V +GM D R V++AR A ++K Y +P L +R+A I Q YTQ +RP GVS
Sbjct: 71 CVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGVS 130
Query: 119 LLICGWD-NKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSED----LELDDAV 173
+++ G D P LY+CDP+G + +KATA G FLEK+ + ++ V
Sbjct: 131 MILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETV 190
Query: 174 HTAILTLKEGFEGQMTAENIEIGIA 198
AI L+ A IE+G+
Sbjct: 191 ELAISCLQTVLSTDFKATEIEVGVV 215
Score = 76.5 bits (189), Expect = 2e-16
Identities = 33/77 (42%), Positives = 45/77 (58%), Gaps = 1/77 (1%)
Query: 261 NIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWD-NKRPYLYQCDPSGAYFAWKATA 319
+P L +R+A I Q YTQ +RP GVS+++ G D P LY+CDP+G + +KATA
Sbjct: 101 EMPVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKCDPAGYFAGYKATA 160
Query: 320 MGRNYVNGKTFLEKREK 336
G FLEK+ K
Sbjct: 161 AGVKEQEATNFLEKKLK 177
>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 = 152 bits (385), Expect = 1e-44
Identities = 68/201 (33%), Positives = 114/201 (56%), Gaps = 6/201 (2%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE-DCIHKVEPITDYIGM 59
P G+L Q+EYA+ A++ G+ ++GIK G+VLA EK+ + L E + K+ I D+IG
Sbjct: 10 PEGRLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLMEPSSVEKIMEIDDHIGC 69
Query: 60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGV-----RP 114
SG+ D R L+ AR AQ ++ Y E + + + Q V+ + ++ + RP
Sbjct: 70 AMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRP 129
Query: 115 FGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVH 174
FGV+LLI G D P L+ DPSG + A A+G ++ L+++Y +D+ L++A
Sbjct: 130 FGVALLIAGVDENGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYHKDMTLEEAEK 189
Query: 175 TAILTLKEGFEGQMTAENIEI 195
A+ LK+ E ++ + N+E+
Sbjct: 190 LALSILKQVMEEKLNSTNVEL 210
Score = 54.7 bits (132), Expect = 8e-09
Identities = 22/67 (32%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGV-----RPFGVSLLICGWDNKRPYLYQCDPSGAYFA 314
E + + + Q V+ + ++ + RPFGV+LLI G D P L+ DPSG +
Sbjct: 98 EPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGPQLFHTDPSGTFTR 157
Query: 315 WKATAMG 321
A A+G
Sbjct: 158 CDAKAIG 164
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 152 bits (386), Expect = 2e-44
Identities = 74/201 (36%), Positives = 112/201 (55%), Gaps = 4/201 (1%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFE--DCIHKVEPITDYIG 58
P G+L Q+EYAL A+ + +VGI G++L +K + L + K+ I +I
Sbjct: 14 PEGRLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKIDSHIF 73
Query: 59 MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVS 118
+G+ D +L+ + R AQ+Y+ Y E P +QLV ++ + Q YTQ GG+RPFGVS
Sbjct: 74 CAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGVS 133
Query: 119 LLICGWDNKRPY-LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAI 177
L G+D Y LY DPSG Y WKATA+G+N ++ L++ + EDL L+ + A
Sbjct: 134 FLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQGLLLAA 193
Query: 178 LTLKEGFEGQM-TAENIEIGI 197
L + + A+ IE+GI
Sbjct: 194 KVLTKSMDSTSPKADKIEVGI 214
Score = 83.7 bits (207), Expect = 1e-18
Identities = 36/75 (48%), Positives = 48/75 (64%), Gaps = 1/75 (1%)
Query: 263 PTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPY-LYQCDPSGAYFAWKATAMG 321
P +QLV ++ + Q YTQ GG+RPFGVS L G+D Y LY DPSG Y WKATA+G
Sbjct: 106 PVEQLVVQICDLKQSYTQFGGLRPFGVSFLFAGYDENLGYQLYHTDPSGNYSGWKATAIG 165
Query: 322 RNYVNGKTFLEKREK 336
+N ++ L++ K
Sbjct: 166 QNNQTAQSILKQEWK 180
>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 = 128 bits (324), Expect = 3e-36
Identities = 58/165 (35%), Positives = 83/165 (50%), Gaps = 6/165 (3%)
Query: 21 SVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
SV IK G+VLA +K+ + + K+ D I +G+ D + LV++ R+
Sbjct: 3 SVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREA 62
Query: 79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSG 138
Q Y+L Y E I L + +A ++Q YTQ RPFGV+L++ G D LY DPSG
Sbjct: 63 LQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDEGGGNLYYIDPSG 119
Query: 139 AYFAW-KATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILTLKE 182
A A G K+ LEK Y D+ L++AV A+ LK
Sbjct: 120 PVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALKS 164
Score = 68.2 bits (167), Expect = 7e-14
Identities = 30/78 (38%), Positives = 38/78 (48%), Gaps = 4/78 (5%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAW-KAT 318
E I L + +A ++Q YTQ RPFGV+L++ G D LY DPSG A
Sbjct: 72 EPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAGVDEGGGNLYYIDPSGPVIENPGAV 128
Query: 319 AMGRNYVNGKTFLEKREK 336
A G K+ LEK K
Sbjct: 129 ATGSRSQRAKSLLEKLYK 146
>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 = 91.9 bits (229), Expect = 3e-22
Identities = 55/199 (27%), Positives = 93/199 (46%), Gaps = 27/199 (13%)
Query: 22 VGIKASNGIVLATEKK--------QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVK 73
VGI +G+VLA +K+ K + K+ I D I M +G D + LV+
Sbjct: 4 VGIVCKDGVVLAADKRASMGNFIASKNV------KKIFQIDDKIAMTIAGSVGDAQSLVR 57
Query: 74 KARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQ 133
+ A+ Y+L + + L ++ I+ S P+ V LLI G D + P+LY
Sbjct: 58 ILKAEARLYELRRGRPMSIKALATLLSNIL----NSSKYFPYIVQLLIGGVDEEGPHLYS 113
Query: 134 CDPSGAYFAWKATAMGRNYVNGKTF----LEKRYSEDLELDDAVHTAILTLKEGFEGQM- 188
DP G+ K TA G +G + LE Y ED+ +++A AI +K E
Sbjct: 114 LDPLGSIIEDKYTATG----SGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIERDSA 169
Query: 189 TAENIEIGIADENGFRRLD 207
+ + I++ + ++G++ L+
Sbjct: 170 SGDGIDVVVITKDGYKELE 188
Score = 34.9 bits (81), Expect = 0.029
Identities = 20/62 (32%), Positives = 29/62 (46%), Gaps = 4/62 (6%)
Query: 260 ENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATA 319
+ + L ++ I+ S P+ V LLI G D + P+LY DP G+ K TA
Sbjct: 72 RPMSIKALATLLSNILN----SSKYFPYIVQLLIGGVDEEGPHLYSLDPLGSIIEDKYTA 127
Query: 320 MG 321
G
Sbjct: 128 TG 129
>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 = 86.3 bits (215), Expect = 4e-20
Identities = 43/192 (22%), Positives = 85/192 (44%), Gaps = 14/192 (7%)
Query: 22 VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
VGIK +G+VLA + + + + K+ I+D I + +G D + L + ++
Sbjct: 4 VGIKGKDGVVLAADTRASAGSLVASRNF-DKIFKISDNILLGTAGSAADTQALTRLLKRN 62
Query: 79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKR-PYLYQCDPS 137
+ Y+L + + ++ I+ Y + P+ VSL++ G D P+LY DP
Sbjct: 63 LRLYELRNGRELSVKAAANLLSNILYSY-RGF---PYYVSLIVGGVDKGGGPFLYYVDPL 118
Query: 138 GAYFAWKATAMG--RNYVNGKTFLEKRYSEDLELDDAVHTAILTLKEGFEGQMTA-ENIE 194
G+ A G Y L++ Y D+ L++AV + E +++ ++
Sbjct: 119 GSLIEAPFVATGSGSKY--AYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLSSGGGVD 176
Query: 195 IGIADENGFRRL 206
+ + ++G L
Sbjct: 177 VAVITKDGVEEL 188
Score = 40.9 bits (97), Expect = 3e-04
Identities = 19/79 (24%), Positives = 28/79 (35%), Gaps = 21/79 (26%)
Query: 264 TQQLVQRVAAIMQEYTQSGGVR--------------------PFGVSLLICGWDNKR-PY 302
TQ L + + ++ Y G P+ VSL++ G D P+
Sbjct: 52 TQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPF 111
Query: 303 LYQCDPSGAYFAWKATAMG 321
LY DP G+ A G
Sbjct: 112 LYYVDPLGSLIEAPFVATG 130
>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 = 85.3 bits (212), Expect = 9e-20
Identities = 55/193 (28%), Positives = 89/193 (46%), Gaps = 15/193 (7%)
Query: 18 GAPSVGIKASNGIVLATEKKQK--TILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
G +VGIK +G+VLA +K+ + KV I DYI M +G D + LV+
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60
Query: 76 RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNKRPYLYQCD 135
+ A+ Y+L + + L ++ I+ S PF V LL+ G D + P+LY D
Sbjct: 61 KAEAKLYELRRGRPMSVKALATLLSNILN----SNRFFPFIVQLLVGGVDEEGPHLYSLD 116
Query: 136 PSGAYFAWKATAMGRNYVNGKTF----LEKRYSEDLELDDAVHTAILTLKEGFE-GQMTA 190
P+G TA G +G LE Y ED+ +++A A+ +K E +
Sbjct: 117 PAGGIIEDDYTATG----SGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIERDVASG 172
Query: 191 ENIEIGIADENGF 203
I++ + ++G
Sbjct: 173 NGIDVAVITKDGV 185
Score = 31.8 bits (73), Expect = 0.29
Identities = 17/41 (41%), Positives = 21/41 (51%)
Query: 281 SGGVRPFGVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMG 321
S PF V LL+ G D + P+LY DP+G TA G
Sbjct: 90 SNRFFPFIVQLLVGGVDEEGPHLYSLDPAGGIIEDDYTATG 130
>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 = 47.6 bits (114), Expect = 2e-06
Identities = 17/58 (29%), Positives = 27/58 (46%)
Query: 116 GVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAV 173
G +L++ G D P+LY P G+ MG + + LE RY D+ ++A
Sbjct: 95 GAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYKPDMTEEEAK 152
Score = 32.6 bits (75), Expect = 0.18
Identities = 15/49 (30%), Positives = 22/49 (44%)
Query: 288 GVSLLICGWDNKRPYLYQCDPSGAYFAWKATAMGRNYVNGKTFLEKREK 336
G +L++ G D P+LY P G+ MG + + LE R K
Sbjct: 95 GAALVLGGVDYTGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRYK 143
>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 = 41.4 bits (98), Expect = 2e-04
Identities = 47/205 (22%), Positives = 86/205 (41%), Gaps = 32/205 (15%)
Query: 21 SVGIKASNGIVLATEKKQKT--ILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
+GIK + ++LA + ++ +D K+ ++D+ M SG D + +K
Sbjct: 4 LIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKN 63
Query: 79 AQQYKLVYQENIPTQQLVQRVAA-----IMQEYTQSGGVRPFGVSLLICGWDNK-RPYLY 132
Q YK + L + AA + E +S P+ V+LL+ G+D P LY
Sbjct: 64 IQLYK--MRNGYE---LSPKAAANFTRRELAESLRSRT--PYQVNLLLAGYDKVEGPSLY 116
Query: 133 QCDPSGAYFA------WKATAMGRNYVNGKTFLEKRYSEDLELDDAVHT---AILTLKEG 183
D Y + A G + L++ Y D+ +++A+ I LK+
Sbjct: 117 YID----YLGTLVKVPYAAHGYGAYFCLS--ILDRYYKPDMTVEEALELMKKCIKELKKR 170
Query: 184 FEGQMTAENIEIGIADENGFRRLDV 208
F + N + + D++G R L++
Sbjct: 171 F--IINLPNFTVKVVDKDGIRDLEL 193
>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 = 39.9 bits (94), Expect = 7e-04
Identities = 40/173 (23%), Positives = 72/173 (41%), Gaps = 25/173 (14%)
Query: 49 KVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
K+ +TD + SG D L K+ + + YK + + + T+ + Q ++ I+ Y++
Sbjct: 41 KIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTIL--YSR 98
Query: 109 SGGVR--PFGVSLLICGWDNK-RPYLYQCDPSGAYFAWKATAMGR----------NYVNG 155
R P+ V ++ G D + + +Y DP G+Y +A G N V
Sbjct: 99 ----RFFPYYVFNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGR 154
Query: 156 KTFLEKRYSEDLELDDA---VHTAILTLKEGFEGQMTAENIEIGIADENGFRR 205
K L L++A V A + E T +++EI I ++G
Sbjct: 155 KNQNNVE-RTPLSLEEAVSLVKDAFTSAAE--RDIYTGDSLEIVIITKDGIEE 204
>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 = 39.9 bits (94), Expect = 7e-04
Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 16/98 (16%)
Query: 47 IHKVEPITDYIGMVYSGMGPD----YRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAI 102
+ KV I Y+ +G D R+L ++ R Y+L +E I + ++ +
Sbjct: 31 VKKVIEINPYLLGTMAGGAADCQYWERVLGRECR----LYELRNKERISVAAASKLLSNM 86
Query: 103 MQEYTQSGGVRPFGVSL--LICGWDNKRPYLYQCDPSG 138
+ +Y + G+S+ +ICGWD P LY D G
Sbjct: 87 LYQY------KGMGLSMGTMICGWDKTGPGLYYVDSDG 118
Score = 28.0 bits (63), Expect = 6.5
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 289 VSLLICGWDNKRPYLYQCDPSG 310
+ +ICGWD P LY D G
Sbjct: 97 MGTMICGWDKTGPGLYYVDSDG 118
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 39.2 bits (91), Expect = 0.002
Identities = 35/159 (22%), Positives = 61/159 (38%), Gaps = 10/159 (6%)
Query: 18 GAPSVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
G ++ K GI++A + K + + KV I + +G D ++
Sbjct: 39 GTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEINPTLLGTMAGGAADCSFWEREL 98
Query: 76 RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSL--LICGWDNKRPYLYQ 133
+ Y+L E I + +A I+ Y + G+S+ +ICGWD K P L+
Sbjct: 99 AMQCRLYELRNGELISVAAASKILANIVWNY------KGMGLSMGTMICGWDKKGPGLFY 152
Query: 134 CDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDA 172
D G + G L+ + DL ++A
Sbjct: 153 VDNDGTRLHGNMFSCGSGSTYAYGVLDAGFKWDLNDEEA 191
Score = 29.6 bits (66), Expect = 2.0
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 285 RPFGVSL--LICGWDNKRPYLYQCDPSG 310
+ G+S+ +ICGWD K P L+ D G
Sbjct: 130 KGMGLSMGTMICGWDKKGPGLFYVDNDG 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 = 37.0 bits (86), Expect = 0.007
Identities = 45/214 (21%), Positives = 84/214 (39%), Gaps = 28/214 (13%)
Query: 9 EYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDY 68
E A + G V + ++GI+ E +++ HK+ + D IG G ++
Sbjct: 18 ELARKGIARGRSVVVLTYADGILFVAENPSRSL------HKISELYDRIGFAAVGKYNEF 71
Query: 69 RLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGG------VRPFGVSLLIC 122
L + + A Y T + + Y Q+ G +P+ V + +
Sbjct: 72 ENLRRAGIRYADMRGYSYDRRDVTGRGLANA------YAQTLGTIFTEQQKPYEVEICVA 125
Query: 123 --GWDNKRPYLYQCDPSGAYFAWKA-TAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT 179
G + LY+ G+ + MG T L++ Y + L L DA+ A+
Sbjct: 126 EVGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESYRDGLSLADALGLAVQA 185
Query: 180 LKEGFEG---QMTAENIEIGIADEN----GFRRL 206
L+ G G ++ A ++E+ + D + FRR+
Sbjct: 186 LRAGGNGEKRELDAASLEVAVLDRSRPRRAFRRI 219
>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 = 36.0 bits (84), Expect = 0.012
Identities = 26/158 (16%), Positives = 57/158 (36%), Gaps = 14/158 (8%)
Query: 22 VGIKASNGIVLATEKKQKT--ILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
+ ++ G+VL + + T + K+ + D I SG D + + R
Sbjct: 4 IAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYL 63
Query: 80 QQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLIC-GWDNKR-PYLYQCDPS 137
+ + E P V+ A++ + + + +I GWD + +Y
Sbjct: 64 DMHSIELGE-PPL---VKTAASLFKNL--CYNYKEMLSAGIIVAGWDEQNGGQVYSIPLG 117
Query: 138 GAYF--AWKATAMGRNYVNGKTFLEKRYSEDLELDDAV 173
G + G Y+ G +++ Y + L++ +
Sbjct: 118 GMLIRQPFAIGGSGSTYIYG--YVDANYKPGMTLEECI 153
>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 = 33.4 bits (77), Expect = 0.090
Identities = 23/115 (20%), Positives = 54/115 (46%), Gaps = 11/115 (9%)
Query: 22 VGIKASNGIVLATEK----KQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARK 77
V + + + +A++ +Q+T+ + KV I D + + +G+ D + L +K R
Sbjct: 7 VAMAGKDCVAIASDLRLGVQQQTVSTD--FQKVFRIGDRLYIGLAGLATDVQTLAQKLRF 64
Query: 78 IAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGWDNK-RPYL 131
Y+L + I + +++++ Y + G P+ V ++ G D +P++
Sbjct: 65 RVNLYRLREEREIKPKTFSSLISSLL--YEKRFG--PYFVEPVVAGLDPDGKPFI 115
>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 = 30.1 bits (69), Expect = 0.11
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 1 PSGKLVQIEYALAA 14
P G+L Q+EYA+ A
Sbjct: 10 PDGRLFQVEYAMKA 23
>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 = 29.0 bits (66), Expect = 0.24
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 1 PSGKLVQIEYALAA 14
P G+L Q+EYA+ A
Sbjct: 10 PDGRLFQVEYAMEA 23
>gnl|CDD|114907 pfam06215, ISAV_HA, Infectious salmon anaemia virus haemagglutinin.
This family consists of several infectious salmon
anaemia virus haemagglutinin proteins. Infectious salmon
anaemia virus (ISAV), an orthomyxovirus-like virus, is
an important fish pathogen in marine aquaculture.
Length = 391
Score = 30.0 bits (67), Expect = 1.9
Identities = 14/49 (28%), Positives = 24/49 (48%)
Query: 76 RKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLLICGW 124
R++A +++ + + RV AI S GV FG++L + GW
Sbjct: 318 REVALHKEMIGKLQRNITDVKNRVDAIPPNIFISMGVAGFGIALFLAGW 366
Score = 28.4 bits (63), Expect = 5.5
Identities = 18/58 (31%), Positives = 25/58 (43%), Gaps = 5/58 (8%)
Query: 244 IGIADENGFRRLDVATENIPTQQ-----LVQRVAAIMQEYTQSGGVRPFGVSLLICGW 296
+G D R + + E I Q + RV AI S GV FG++L + GW
Sbjct: 309 LGNTDTLIMREVALHKEMIGKLQRNITDVKNRVDAIPPNIFISMGVAGFGIALFLAGW 366
>gnl|CDD|216146 pfam00843, Arena_nucleocap, Arenavirus nucleocapsid protein.
Length = 533
Score = 30.0 bits (68), Expect = 2.1
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 85 VYQENIPTQQLVQRVAAIMQEY-TQSGGVRPFGVSLLICGWDNKRPYL 131
VY N+ TQQL QR + I++ Q GV + WD K P L
Sbjct: 121 VYMGNLTTQQLDQR-SEILRLVGMQQPQGGRDGVVRV---WDVKDPSL 164
>gnl|CDD|100042 cd03351, LbH_UDP-GlcNAc_AT, UDP-N-acetylglucosamine
O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins
in this family catalyze the transfer of
(R)-3-hydroxymyristic acid from its acyl carrier protein
thioester to UDP-GlcNAc. It is the first enzyme in the
lipid A biosynthetic pathway and is also referred to as
LpxA. Lipid A is essential for the growth of Escherichia
coli and related bacteria. It is also essential for
maintaining the integrity of the outer membrane.
UDP-GlcNAc acyltransferase is a homotrimer of
left-handed parallel beta helix (LbH) subunits. Each
subunit contains an N-terminal LbH region with 9 turns,
each containing three imperfect tandem repeats of a
hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X),
and a C-terminal alpha-helical region.
Length = 254
Score = 29.3 bits (67), Expect = 2.8
Identities = 9/59 (15%), Positives = 24/59 (40%), Gaps = 9/59 (15%)
Query: 57 IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGGVRPF 115
+G+ G + +K+A Y+++Y+ + + + + + +E S V
Sbjct: 194 VGLKRRGFSREEIRALKRA------YRILYRSGLTLE---EALEELEEEAPDSPEVEEL 243
>gnl|CDD|168237 PRK05772, PRK05772, translation initiation factor IF-2B subunit
alpha; Provisional.
Length = 363
Score = 29.3 bits (66), Expect = 3.4
Identities = 13/25 (52%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 18 GAPSVGIKASNGIVLA-TEKKQKTI 41
GAP++GI A G+VLA E KT+
Sbjct: 60 GAPAIGITAGYGMVLALIENNVKTL 84
>gnl|CDD|235868 PRK06826, dnaE, DNA polymerase III DnaE; Reviewed.
Length = 1151
Score = 29.1 bits (66), Expect = 4.2
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 4/45 (8%)
Query: 7 QIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDCIHKVE 51
+I + LAAV+ +VG A + IV EKK K D +V+
Sbjct: 821 KIRFGLAAVK----NVGENAIDSIVEEREKKGKFKSLVDFCERVD 861
>gnl|CDD|191735 pfam07381, DUF1495, Winged helix DNA-binding domain (DUF1495).
This family consists of several hypothetical archaeal
proteins of around 110 residues in length. The structure
of this domain possesses a winged helix DNA-binding
domain suggesting these proteins are bacterial
transcription factors.
Length = 90
Score = 27.3 bits (61), Expect = 4.4
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 10/73 (13%)
Query: 130 YLYQCDPSGAYFAWKATAMGRNYVNGKTFLE---KRYSEDLELDDAVHTAILTLKEGFEG 186
YLY P Y + + + + N LE KRY+ + L + ++T++EG G
Sbjct: 17 YLYSIYPEPTYLSEISRRVRSDPSNVLGALEGMGKRYNGESSL---IELGLVTVREGNPG 73
Query: 187 ----QMTAENIEI 195
++T E I
Sbjct: 74 TKVYKLTEEGKNI 86
>gnl|CDD|177741 PLN00130, PLN00130, succinate dehydrogenase (SDH3); Provisional.
Length = 213
Score = 28.2 bits (62), Expect = 6.2
Identities = 22/97 (22%), Positives = 42/97 (43%), Gaps = 7/97 (7%)
Query: 131 LYQCDPSGAYFAWKATAMGRNYVNGKTFLEKRYSEDLELDDAVHTAILT---LKEGFEGQ 187
+Y+ A +W ++ +G+NY + + + ++D + T + T ++E E
Sbjct: 22 VYKSLAGNAQPSWGSSYIGQNYAS----FSRAFGSKPVVNDILGTGLGTNNAIREEREKS 77
Query: 188 MTAENIEIGIADENGFRRLDVATVRDHLSNIPQSVHT 224
+ E +G FR LDV T + S I + T
Sbjct: 78 KSTEAAIVGAQLTRSFRALDVGTSKRLFSTISGDIKT 114
>gnl|CDD|238368 cd00717, URO-D, Uroporphyrinogen decarboxylase (URO-D) is a dimeric
cytosolic enzyme that decarboxylates the four acetate
side chains of uroporphyrinogen III (uro-III) to create
coproporphyrinogen III, without requiring any prosthetic
groups or cofactors. This reaction is located at the
branching point of the tetrapyrrole biosynthetic
pathway, leading to the biosynthesis of heme,
chlorophyll or bacteriochlorophyll. URO-D deficiency is
responsible for the human genetic diseases familial
porphyria cutanea tarda (fPCT) and hepatoerythropoietic
porphyria (HEP).
Length = 335
Score = 28.3 bits (64), Expect = 6.7
Identities = 14/66 (21%), Positives = 30/66 (45%), Gaps = 8/66 (12%)
Query: 53 ITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENI-------PTQQLVQRVAAIMQE 105
+ D + +G D+R+ + +ARK K+ Q N+ P + + + V I++
Sbjct: 244 LEDLAQLGADVVGLDWRVDLDEARKR-LGPKVALQGNLDPALLYAPKEAIEKEVKRILKA 302
Query: 106 YTQSGG 111
+ + G
Sbjct: 303 FGGAPG 308
>gnl|CDD|240524 cd13119, BF2867_like, Tandemly repeated domain found in Bacteroides
fragilis Nctc 9343 BF2867 and related proteins. Two
structurally similar domains with low sequence
similarity form a protein that may have a role in cell
adhesion. This family also includes BF1858 and overlaps
with DUF3988.
Length = 115
Score = 27.1 bits (60), Expect = 7.5
Identities = 15/82 (18%), Positives = 20/82 (24%), Gaps = 6/82 (7%)
Query: 233 FEGQMTAENIEIGIADENGFRRLDVATENIPTQQLVQRVAAIMQEYTQSGGVRPFGVSLL 292
E + E A E VAT Q G+ F +S+L
Sbjct: 34 PEFTVNGEAGATKNALETYSYAYTVATGGSGGVSSTASTPLYPQ------GLGEFYLSIL 87
Query: 293 ICGWDNKRPYLYQCDPSGAYFA 314
Y D +G
Sbjct: 88 YPYKAGNNEDTYAADXTGGNLT 109
>gnl|CDD|136048 PRK06781, PRK06781, amidophosphoribosyltransferase; Provisional.
Length = 471
Score = 28.1 bits (62), Expect = 7.9
Identities = 14/47 (29%), Positives = 21/47 (44%)
Query: 212 RDHLSNIPQSVHTAILTLKEGFEGQMTAENIEIGIADENGFRRLDVA 258
R ++ +SV A+ +K F + N I D NGFR L +
Sbjct: 147 RSTKDSLIESVKEALNKVKGAFAYLLLTGNEMIVALDPNGFRPLSIG 193
>gnl|CDD|131199 TIGR02144, LysX_arch, Lysine biosynthesis enzyme LysX. The
family of proteins found in this equivalog include the
characterized LysX from Thermus thermophilus which is
part of a well-organized lysine biosynthesis gene
cluster. LysX is believed to carry out an ATP-dependent
acylation of the amino group of alpha-aminoadipate in
the prokaryotic version of the fungal AAA lysine
biosynthesis pathway. No species having a sequence in
this equivalog contains the elements of the more common
diaminopimelate lysine biosythesis pathway, and none
has been shown to be a lysine auxotroph. These
sequences have mainly recieved the name of the related
enzyme, "ribosomal protein S6 modification protein
RimK". RimK has been characterized in E. coli, and acts
by ATP-dependent condensation of S6 with glutamate
residues.
Length = 280
Score = 27.8 bits (62), Expect = 9.3
Identities = 9/37 (24%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 57 IGMVYSGMGPDYRLLVKKARKIAQQYKLVY--QENIP 91
I ++Y + PD ++L+++ K+ Y+ +Y +P
Sbjct: 1 IAILYDIIRPDEKMLIEELEKLGLPYRKIYVPALPLP 37
>gnl|CDD|132358 TIGR03315, Se_ygfK, putative selenate reductase, YgfK subunit.
Members of this protein family are YgfK, predicted to be
one subunit of a three-subunit, molybdopterin-containing
selenate reductase. This enzyme is found, typically, in
genomic regions associated with xanthine dehydrogenase
homologs predicted to belong to the selenium-dependent
molybdenum hydroxylases (SDMH). Therefore, the selenate
reductase is suggested to play a role in furnishing
selenide for SelD, the selenophosphate synthase.
Length = 1012
Score = 27.8 bits (62), Expect = 9.6
Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 14/98 (14%)
Query: 168 ELDDAVHTAI----LTLKEGF-EGQMTAENIEIGIADENGFRRLDVATVRDHLSNIPQSV 222
EL++A+ + L E F +G +T E +++G D +G RR V T ++P
Sbjct: 711 ELEEALEDGVDFKELLSPESFEDGTLTCEVMKLGEPDASG-RRRPVGT--GETVDLP--A 765
Query: 223 HTAILTLKEGFE-GQMTAENIEIGIADENGFRRLDVAT 259
T I + E + + I + DE G+ ++ AT
Sbjct: 766 DTVIAAVGEQVDTDLLQKNGIPL---DEYGWPVVNQAT 800
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
0.319 0.136 0.404
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: 18,225,069
Number of extensions: 1770083
Number of successful extensions: 1781
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1721
Number of HSP's successfully gapped: 80
Length of query: 352
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 254
Effective length of database: 6,590,910
Effective search space: 1674091140
Effective search space used: 1674091140
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: 59 (26.3 bits)