RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6667
(111 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 = 190 bits (484), Expect = 6e-63
Identities = 82/111 (73%), Positives = 96/111 (86%), Gaps = 1/111 (0%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFEDC-IHKVEPITDYIGM 59
PSGKLVQIEYALAAV +GAPSVGIKA+NG+VLATEKK + L ++ +HKVE IT +IGM
Sbjct: 10 PSGKLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVHKVEQITPHIGM 69
Query: 60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
VYSGMGPD+R+LVKKARKIAQQY LVY E IP QLV+ +A++MQEYTQSG
Sbjct: 70 VYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSG 120
>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 = 156 bits (398), Expect = 7e-50
Identities = 51/112 (45%), Positives = 72/112 (64%), Gaps = 1/112 (0%)
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 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
+G+ D R+LV +AR AQ Y+ Y E IP + LV+R+A + Q YTQ G
Sbjct: 70 AVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGG 121
>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 = 109 bits (274), Expect = 3e-31
Identities = 45/111 (40%), Positives = 70/111 (63%), Gaps = 1/111 (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 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
SG+ D R+L+ +AR AQ ++L Y E I + LV+++ + Q+YTQ G
Sbjct: 71 ATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHG 121
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 109 bits (276), Expect = 3e-31
Identities = 44/111 (39%), Positives = 67/111 (60%), Gaps = 1/111 (0%)
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 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
+G+ D R+L+ +AR AQ +L Y E I + L +++ Q+YTQ G
Sbjct: 79 ASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHG 129
>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 = 109 bits (274), Expect = 4e-31
Identities = 46/111 (41%), Positives = 68/111 (61%), Gaps = 1/111 (0%)
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 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
SG+ D R+L+ +AR AQ +L Y E I + L +++ + Q+YTQ G
Sbjct: 72 ATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHG 122
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 105 bits (263), Expect = 2e-29
Identities = 47/112 (41%), Positives = 71/112 (63%), Gaps = 3/112 (2%)
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 GMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQS 109
GM +G+ D ++LV+ AR AQ Y+L Y E I + L + ++ I+QEYTQS
Sbjct: 72 GMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS 123
>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 = 98.1 bits (245), Expect = 6e-27
Identities = 43/115 (37%), Positives = 63/115 (54%), Gaps = 7/115 (6%)
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 IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
IG+ +G+ D R LV +AR+ A+ Y+ Y IP + L RVA M YT S
Sbjct: 70 IGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSS 124
>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 = 95.5 bits (238), Expect = 8e-26
Identities = 49/112 (43%), Positives = 66/112 (58%), Gaps = 2/112 (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 MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
+G+ D +L+ AR IAQ+Y YQE IP +QLVQR+ I Q YTQ G
Sbjct: 72 CAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYG 123
>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 = 90.7 bits (226), Expect = 3e-24
Identities = 38/99 (38%), Positives = 57/99 (57%), Gaps = 4/99 (4%)
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 VKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
V AR AQ Y+L Y I +L +R+A +Q YTQ
Sbjct: 61 VDYARAEAQLYRLRYGRPISV-ELAKRIADKLQAYTQYS 98
>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 = 89.0 bits (221), Expect = 2e-23
Identities = 35/111 (31%), Positives = 64/111 (57%), Gaps = 1/111 (0%)
Query: 1 PSGKLVQIEYALAAVEAGAPSVGIKASNGIVLATEKKQKTILFED-CIHKVEPITDYIGM 59
P G L Q+EYA AV G +VG++ + +VL EKK L + + K+ + D++ +
Sbjct: 10 PDGHLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVRKICMLDDHVCL 69
Query: 60 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
++G+ D R+L+ +AR Q ++L ++ + + + + +A + Q YTQSG
Sbjct: 70 AFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSG 120
>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 = 86.0 bits (214), Expect = 2e-22
Identities = 35/92 (38%), Positives = 56/92 (60%), Gaps = 2/92 (2%)
Query: 21 SVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
VGIK +G+VLA +K+ ++ + K+ I D+IG ++G+ D + LV++ RK
Sbjct: 3 IVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKE 62
Query: 79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
AQ Y+L Y E IP + L + +A ++ EYTQS
Sbjct: 63 AQLYRLRYGEPIPVEALAKLLANLLYEYTQSL 94
>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 = 85.9 bits (213), Expect = 3e-22
Identities = 38/101 (37%), Positives = 60/101 (59%), Gaps = 1/101 (0%)
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 VYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVA 100
SG+ D R L+ AR AQ ++ Y E + + + Q V+
Sbjct: 70 AMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVS 110
>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 = 84.6 bits (210), Expect = 1e-21
Identities = 42/110 (38%), Positives = 62/110 (56%), Gaps = 2/110 (1%)
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 MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
V +GM D R V++AR A ++K Y +P L +R+A I Q YTQ
Sbjct: 71 CVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQ 120
>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 = 82.3 bits (204), Expect = 9e-21
Identities = 38/110 (34%), Positives = 62/110 (56%), Gaps = 5/110 (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 MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQ 108
+ +G+ D R+L + R+ Y+ VY IP +LV +VA Q TQ
Sbjct: 67 IAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQ 116
>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 = 68.2 bits (167), Expect = 8e-16
Identities = 29/92 (31%), Positives = 46/92 (50%), Gaps = 2/92 (2%)
Query: 21 SVGIKASNGIVLATEKK--QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
SV IK G+VLA +K+ + + K+ D I +G+ D + LV++ R+
Sbjct: 3 SVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREA 62
Query: 79 AQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
Q Y+L Y E I L + +A ++Q YTQ
Sbjct: 63 LQLYRLRYGEPISVVALAKELAKLLQVYTQGR 94
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 68.3 bits (167), Expect = 3e-15
Identities = 37/112 (33%), Positives = 60/112 (53%), Gaps = 2/112 (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 MVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSG 110
+G+ D +L+ + R AQ+Y+ Y E P +QLV ++ + Q YTQ G
Sbjct: 74 CAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFG 125
>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 = 46.9 bits (112), Expect = 1e-07
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 2/87 (2%)
Query: 22 VGIKASNGIVLATEKKQKT--ILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
VGI +G+VLA +K+ + + K+ I D I M +G D + LV+ + A
Sbjct: 4 VGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEA 63
Query: 80 QQYKLVYQENIPTQQLVQRVAAIMQEY 106
+ Y+L + + L ++ I+
Sbjct: 64 RLYELRRGRPMSIKALATLLSNILNSS 90
>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 = 43.7 bits (104), Expect = 2e-06
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 2/91 (2%)
Query: 18 GAPSVGIKASNGIVLATEKKQK--TILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA 75
G +VGIK +G+VLA +K+ + KV I DYI M +G D + LV+
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60
Query: 76 RKIAQQYKLVYQENIPTQQLVQRVAAIMQEY 106
+ A+ Y+L + + L ++ I+
Sbjct: 61 KAEAKLYELRRGRPMSVKALATLLSNILNSN 91
>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 = 40.5 bits (96), Expect = 3e-05
Identities = 19/88 (21%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 22 VGIKASNGIVLATEKK---QKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKI 78
VGIK +G+VLA + + + + K+ I+D I + +G D + L + ++
Sbjct: 4 VGIKGKDGVVLAADTRASAGSLVASRNF-DKIFKISDNILLGTAGSAADTQALTRLLKRN 62
Query: 79 AQQYKLVYQENIPTQQLVQRVAAIMQEY 106
+ Y+L + + ++ I+ Y
Sbjct: 63 LRLYELRNGRELSVKAAANLLSNILYSY 90
>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 = 29.7 bits (68), Expect = 0.037
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 = 28.2 bits (64), Expect = 0.100
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 1 PSGKLVQIEYALAA 14
P G+L Q+EYA+ A
Sbjct: 10 PDGRLFQVEYAMEA 23
>gnl|CDD|239731 cd03762, proteasome_beta_type_6, proteasome beta type-6 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 188
Score = 30.3 bits (69), Expect = 0.15
Identities = 15/87 (17%), Positives = 32/87 (36%), Gaps = 6/87 (6%)
Query: 22 VGIKASNGIVLATEKKQKT--ILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARKIA 79
+ ++ G+VL + + T + K+ + D I SG D + + R
Sbjct: 4 IAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYL 63
Query: 80 QQYKLVYQENIPTQQLVQRVAAIMQEY 106
+ + E LV+ A++ +
Sbjct: 64 DMHSIELGEPP----LVKTAASLFKNL 86
>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 = 29.5 bits (67), Expect = 0.27
Identities = 13/55 (23%), Positives = 27/55 (49%)
Query: 49 KVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIM 103
K+ +TD + SG D L K+ + + YK + + + T+ + Q ++ I+
Sbjct: 41 KIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTIL 95
>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 = 28.9 bits (66), Expect = 0.46
Identities = 6/45 (13%), Positives = 21/45 (46%), Gaps = 6/45 (13%)
Query: 57 IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAA 101
+G+ G + +K+A Y+++Y+ + ++ ++ +
Sbjct: 194 VGLKRRGFSREEIRALKRA------YRILYRSGLTLEEALEELEE 232
>gnl|CDD|235868 PRK06826, dnaE, DNA polymerase III DnaE; Reviewed.
Length = 1151
Score = 28.7 bits (65), Expect = 0.65
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|168237 PRK05772, PRK05772, translation initiation factor IF-2B subunit
alpha; Provisional.
Length = 363
Score = 28.2 bits (63), Expect = 0.79
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|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 = 27.6 bits (62), Expect = 1.2
Identities = 17/88 (19%), Positives = 41/88 (46%), Gaps = 6/88 (6%)
Query: 22 VGIKASNGIVLATEK----KQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKARK 77
V + + + +A++ +Q+T+ + KV I D + + +G+ D + L +K R
Sbjct: 7 VAMAGKDCVAIASDLRLGVQQQTVSTD--FQKVFRIGDRLYIGLAGLATDVQTLAQKLRF 64
Query: 78 IAQQYKLVYQENIPTQQLVQRVAAIMQE 105
Y+L + I + +++++ E
Sbjct: 65 RVNLYRLREEREIKPKTFSSLISSLLYE 92
>gnl|CDD|212108 cd10796, GH57N_APU, N-terminal catalytic domain of thermoactive
amylopullulanases; glycoside hydrolase family 57 (GH57).
Pullulanases (EC 3.2.1.41) are capable of hydrolyzing
the alpha-1,6 glucosidic bonds of pullulan, producing
maltotriose. Amylopullulanases (APU, E.C 3.2.1.1/41)
are type II pullulanases which can also degrade both the
alpha-1,6 and alpha-1,4 glucosidic bonds of starch,
producing oligosaccharides. This subfamily includes GH57
archaeal thermoactive APUs, which show both
pullulanolytic and amylolytic activities. They have an
acid pH optimum and the presence of Ca2+ might increase
their activity, thermostability, and substrate affinity.
Besides GH57 thermoactive APUs, all mesophilic and some
thermoactive APUs belong to glycoside hydrolase family
13 with catalytic features distinct from GH57. This
subfamily also includes many uncharacterized proteins
found in bacteria and archaea.
Length = 313
Score = 27.6 bits (62), Expect = 1.3
Identities = 11/50 (22%), Positives = 19/50 (38%), Gaps = 7/50 (14%)
Query: 34 TEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDY--RLLVKKARKIAQQ 81
K + F D ++D IG YS + R + + + I +Q
Sbjct: 191 GGGKSIYVFFRD-----HELSDLIGFTYSFWPAEDAARDFIHRLKSIREQ 235
>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 = 27.4 bits (61), Expect = 1.6
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|171535 PRK12485, PRK12485, bifunctional 3,4-dihydroxy-2-butanone
4-phosphate synthase/GTP cyclohydrolase II-like protein;
Provisional.
Length = 369
Score = 27.2 bits (60), Expect = 1.8
Identities = 18/71 (25%), Positives = 37/71 (52%), Gaps = 8/71 (11%)
Query: 47 IHKVEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYK---LVYQENIPTQQLVQRVAAIM 103
+H ++P+ D +G Y+ GP L +K+A++ +V + +Q L++R+ +
Sbjct: 253 VHVIDPLRDLVGAEYA--GPANWTLWAALQKVAEEGHGVVVVLANHESSQALLERIPQLT 310
Query: 104 Q---EYTQSGS 111
Q +Y +S S
Sbjct: 311 QPPRQYQRSQS 321
>gnl|CDD|216146 pfam00843, Arena_nucleocap, Arenavirus nucleocapsid protein.
Length = 533
Score = 27.3 bits (61), Expect = 2.1
Identities = 10/20 (50%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 85 VYQENIPTQQLVQRVAAIMQ 104
VY N+ TQQL QR + I++
Sbjct: 121 VYMGNLTTQQLDQR-SEILR 139
>gnl|CDD|224441 COG1524, COG1524, Uncharacterized proteins of the AP superfamily
[General function prediction only].
Length = 450
Score = 27.1 bits (60), Expect = 2.4
Identities = 11/46 (23%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 52 PITDYIGMVYSGMGPDYRLLVKKARK-IAQQYKLVYQENIPTQQLV 96
P D IG Y P+Y V++ + + +L+ + + + LV
Sbjct: 226 PNIDAIGHKYGPDSPEYAEAVREVDSLLGELLELLKKRGLYEEYLV 271
>gnl|CDD|183539 PRK12461, PRK12461, UDP-N-acetylglucosamine acyltransferase;
Provisional.
Length = 255
Score = 26.9 bits (60), Expect = 2.5
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 6/46 (13%)
Query: 57 IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAI 102
+G+ G +K+A YK++Y+ + QQ V +
Sbjct: 193 VGLRRRGFSSRAIRALKRA------YKIIYRSGLSVQQAVAELELQ 232
>gnl|CDD|238409 cd00794, NOS_oxygenase_prok, Nitric oxide synthase (NOS)
prokaryotic oxygenase domain. NOS produces nitric oxide
(NO) by catalyzing a five-electron heme-based oxidation
of a guanidine nitrogen of L-arginine to L-citrulline
via two successive monooxygenation reactions producing
N(omega)-hydroxy-L-arginine (NHA) as an intermediate.
Nitric oxide synthases are homodimers. Most prokaryotes
produce NO as a byproduct of denitrification, using a
completely different set of enzymes than NOS. However, a
few prokaryotes also have a NOS, consisting solely of
the NOS oxygenase domain. Prokaryotic NOS binds to the
substrate L-Arg, zinc, and to the cofactors heme and
tetrahydrofolate.
Length = 353
Score = 26.6 bits (59), Expect = 2.6
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 71 LVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEYTQSGS 111
L K+AR Y+E T +L +R+AA+ E ++G+
Sbjct: 2 LFKEARAFLTNM---YEELGETGELNKRLAAVESEIDETGT 39
>gnl|CDD|235965 PRK07205, PRK07205, hypothetical protein; Provisional.
Length = 444
Score = 27.0 bits (60), Expect = 2.6
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 8/49 (16%)
Query: 67 DYRLLVKKARKIAQQYKLVYQE-------NIPTQ-QLVQRVAAIMQEYT 107
D LV++ + AQ+Y L Y+E +P +LV + ++ QE T
Sbjct: 332 DKEKLVQQLSQKAQEYGLTYEEFDYLAPLYVPLDSELVSTLMSVYQEKT 380
>gnl|CDD|217666 pfam03665, UPF0172, Uncharacterized protein family (UPF0172). In
Chlamydomonas reinhardtii the protein TLA1 (truncated
light-harvesting chlorophyll antenna size) apparently
regulates genes that define the chlorophyll-a antenna
size in the photosynthetic apparatus. This family was
formerly known as UPF0172.
Length = 195
Score = 26.5 bits (59), Expect = 2.8
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 28 NGIVLATEKKQKTILFEDCI 47
NG++L K ++L D +
Sbjct: 27 NGLLLGKSTKSSSVLITDAV 46
>gnl|CDD|163691 cd08060, MPN_UPF0172, Mov34/MPN/PAD-1 family: UPF0172 family of
unknown function includes neighbor of COX4 (Noc4p).
This family includes Noc4p (neighbor of COX4; neighbor
of Cytochrome c Oxidase 4; nucleolar complex associated
4 homolog) which belongs to the family of unknown
function, UPF0172, with MPN/JAMM-like domains. Proteins
in this family are homologs of the NOC4 gene which is
conserved in eukaryotic members including human, dog,
mouse, rat, chicken, zebrafish, fruit fly, mosquito,
S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa,
A.thaliana, and rice. NOC4 highly expressed in the
pancreas and moderately in liver, heart, lung, kidney,
brain, skeletal muscle, and placenta. This nucleolar
protein forms a complex with Nop14p that mediates
maturation and nuclear export of 40S ribosomal
subunits. This family of eukaryotic MPN-like domains
lacks the key residues that coordinate a metal ion and
therefore does not show catalytic isopeptidase
activity.
Length = 182
Score = 26.1 bits (58), Expect = 4.2
Identities = 4/20 (20%), Positives = 10/20 (50%)
Query: 28 NGIVLATEKKQKTILFEDCI 47
NG++L + ++ D +
Sbjct: 22 NGLLLGKKSSGGSVEITDAV 41
>gnl|CDD|224660 COG1746, CCA1, tRNA nucleotidyltransferase (CCA-adding enzyme)
[Translation, ribosomal structure and biogenesis].
Length = 443
Score = 26.1 bits (58), Expect = 4.6
Identities = 4/29 (13%), Positives = 15/29 (51%)
Query: 77 KIAQQYKLVYQENIPTQQLVQRVAAIMQE 105
+ + + V + PT++ +++ + +E
Sbjct: 2 TLEEVLEEVLKRIKPTEEERKKLKEVAEE 30
>gnl|CDD|225729 COG3188, FimD, P pilus assembly protein, porin PapC [Cell motility
and secretion / Intracellular trafficking and
secretion].
Length = 835
Score = 25.7 bits (57), Expect = 5.9
Identities = 18/80 (22%), Positives = 29/80 (36%), Gaps = 15/80 (18%)
Query: 24 IKASNGIVL-----ATEKKQKTILFEDCIHKVEPITDYIGMVY-SGMGPDYRLLVKKARK 77
++ ++G L T++ + I G VY G+ P RLLV+
Sbjct: 759 LRRADGSPLPFGAEVTDEGGGQNVG---------IVGDDGQVYLRGLPPKGRLLVRWGDG 809
Query: 78 IAQQYKLVYQENIPTQQLVQ 97
QQ ++ Y P L
Sbjct: 810 AGQQCRIHYPLQDPDTLLEV 829
>gnl|CDD|188173 TIGR01852, lipid_A_lpxA,
acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine
O-acyltransferase. This model describes LpxA, an enzyme
for the biosynthesis of lipid A, a component
oflipopolysaccharide (LPS) in the outer membrane outer
leaflet of most Gram-negative bacteria. Some differences
are found between lipid A of different species, but this
protein represents the first step (from
UDP-N-acetyl-D-glucosamine) and appears to be conserved
in function. Proteins from this family contain many
copies of the bacterial transferase hexapeptide repeat
(pfam00132) [Cell envelope, Biosynthesis and degradation
of surface polysaccharides and lipopolysaccharides].
Length = 254
Score = 25.7 bits (57), Expect = 6.0
Identities = 9/50 (18%), Positives = 24/50 (48%), Gaps = 6/50 (12%)
Query: 57 IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQEY 106
+G+ G + +K+A Y+ +++ +P ++ Q+VA ++
Sbjct: 193 VGLRRRGFSREEITAIKRA------YRTLFRSGLPLREAAQQVAEEYEDN 236
>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 = 25.6 bits (57), Expect = 6.0
Identities = 13/65 (20%), Positives = 29/65 (44%), Gaps = 8/65 (12%)
Query: 53 ITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENI-------PTQQLVQRVAAIMQE 105
+ D + +G D+R+ + +ARK K+ Q N+ P + + + V I++
Sbjct: 244 LEDLAQLGADVVGLDWRVDLDEARKR-LGPKVALQGNLDPALLYAPKEAIEKEVKRILKA 302
Query: 106 YTQSG 110
+ +
Sbjct: 303 FGGAP 307
>gnl|CDD|205895 pfam13720, Acetyltransf_11, Udp N-acetylglucosamine
O-acyltransferase; Domain 2. This is domain 2, or the
C-terminal domain, of Udp N-acetylglucosamine
O-acyltransferase. This enzyme is a zinc-dependent
enzyme that catalyzes the deacetylation of
UDP-3-O-((R)-3-hydroxymyristoyl)-N-acetylglucosamine to
form UDP-3-O-(R-hydroxymyristoyl)glucosamine and
acetate.
Length = 82
Score = 24.7 bits (55), Expect = 6.5
Identities = 7/49 (14%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 57 IGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIMQE 105
+G+ G + +K+A Y+L+Y+ + ++ ++ + +
Sbjct: 21 VGLKRRGFSKEEIRALKRA------YRLLYRSGLTLEEALEELEEEAPD 63
>gnl|CDD|236530 PRK09466, metL, bifunctional aspartate kinase II/homoserine
dehydrogenase II; Provisional.
Length = 810
Score = 25.7 bits (57), Expect = 6.8
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 97 QRVAAIMQEYTQSG 110
+RVA I+ EY+Q
Sbjct: 29 RRVAGILAEYSQPD 42
>gnl|CDD|224614 COG1700, COG1700, Uncharacterized conserved protein [Function
unknown].
Length = 503
Score = 25.7 bits (56), Expect = 7.1
Identities = 13/77 (16%), Positives = 24/77 (31%), Gaps = 8/77 (10%)
Query: 27 SNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRLLVKKA-RKIAQQYKLV 85
++ TE + +D KVEP D + ++ A + YK +
Sbjct: 23 EIMLIEETELFETEGSLKDV--KVEPHGDELFRRIR-----FKFRDGVAGILNFRSYKGI 75
Query: 86 YQENIPTQQLVQRVAAI 102
T +R+
Sbjct: 76 SFLGEETPGGHERIPIE 92
>gnl|CDD|223260 COG0182, COG0182, Predicted translation initiation factor 2B
subunit, eIF-2B alpha/beta/delta family [Translation,
ribosomal structure and biogenesis].
Length = 346
Score = 25.3 bits (56), Expect = 7.2
Identities = 11/40 (27%), Positives = 22/40 (55%)
Query: 18 GAPSVGIKASNGIVLATEKKQKTILFEDCIHKVEPITDYI 57
GAP++G+ A+ G+ LA + + E+ I +E + +
Sbjct: 48 GAPAIGVAAAYGLALAARESKNDSKGEEFIEALEKAAETL 87
>gnl|CDD|220028 pfam08811, DUF1800, Protein of unknown function (DUF1800). This is
a family of large bacterial proteins of unknown
function.
Length = 463
Score = 25.3 bits (56), Expect = 7.6
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 4/27 (14%)
Query: 75 ARKIAQQYKLVYQENIPTQQLVQRVAA 101
+RK+A++ V P LV RVAA
Sbjct: 267 SRKLARR--FVADN--PPPALVDRVAA 289
>gnl|CDD|227072 COG4728, COG4728, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 124
Score = 24.9 bits (54), Expect = 7.9
Identities = 7/29 (24%), Positives = 16/29 (55%)
Query: 53 ITDYIGMVYSGMGPDYRLLVKKARKIAQQ 81
I D +G+ + D + V+KA ++ ++
Sbjct: 13 IKDKLGLTFVSKSADMSIQVEKAERLIKK 41
>gnl|CDD|129721 TIGR00635, ruvB, Holliday junction DNA helicase, RuvB subunit. All
proteins in this family for which functions are known
are 5'-3' DNA helicases that, as part of a complex with
RuvA homologs serve as a 5'-3' Holliday junction
helicase. RuvA specifically binds Holliday junctions as
a sandwich of two tetramers and maintains the
configuration of the junction. It forms a complex with
two hexameric rings of RuvB, the subunit that contains
helicase activity. The complex drives ATP-dependent
branch migration of the Holliday junction recombination
intermediate. The endonuclease RuvC resolves junctions
[DNA metabolism, DNA replication, recombination, and
repair].
Length = 305
Score = 25.3 bits (56), Expect = 8.1
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 25 KASNGIVLATEKKQKTILFEDCIHKVEPITDYIGMVYSGMGPDYRL 70
K + + T ++ +LF D IH++ P + ++Y M D+RL
Sbjct: 68 KPGDLAAILTNLEEGDVLFIDEIHRLSPAVEE--LLYPAM-EDFRL 110
>gnl|CDD|163674 cd03174, DRE_TIM_metallolyase, DRE-TIM metallolyase superfamily.
The DRE-TIM metallolyase superfamily includes
2-isopropylmalate synthase (IPMS), alpha-isopropylmalate
synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase,
homocitrate synthase, citramalate synthase,
4-hydroxy-2-oxovalerate aldolase, re-citrate synthase,
transcarboxylase 5S, pyruvate carboxylase, AksA, and
FrbC. These members all share a conserved
triose-phosphate isomerase (TIM) barrel domain
consisting of a core beta(8)-alpha(8) motif with the
eight parallel beta strands forming an enclosed barrel
surrounded by eight alpha helices. The domain has a
catalytic center containing a divalent cation-binding
site formed by a cluster of invariant residues that cap
the core of the barrel. In addition, the catalytic site
includes three invariant residues - an aspartate (D), an
arginine (R), and a glutamate (E) - which is the basis
for the domain name "DRE-TIM".
Length = 265
Score = 25.1 bits (56), Expect = 8.9
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 8 IEYALAAVEAGAPSVGIKASNGI 30
+E A A EAGA + +K + G+
Sbjct: 149 LEVAKALEEAGADEISLKDTVGL 171
>gnl|CDD|215333 PLN02618, PLN02618, tryptophan synthase, beta chain.
Length = 410
Score = 25.1 bits (55), Expect = 9.6
Identities = 15/54 (27%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 50 VEPITDYIGMVYSGMGPDYRLLVKKARKIAQQYKLVYQENIPTQQLVQRVAAIM 103
+EP + G+ Y G+GP++ L R A+ Y + +E + Q + R+ I+
Sbjct: 311 IEPHSISAGLDYPGVGPEHSFLKDTGR--AEYYSVTDEEALEAFQRLSRLEGII 362
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
0.316 0.132 0.362
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: 5,522,730
Number of extensions: 475566
Number of successful extensions: 652
Number of sequences better than 10.0: 1
Number of HSP's gapped: 629
Number of HSP's successfully gapped: 65
Length of query: 111
Length of database: 10,937,602
Length adjustment: 75
Effective length of query: 36
Effective length of database: 7,611,052
Effective search space: 273997872
Effective search space used: 273997872
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (24.0 bits)