RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6595
(108 letters)
>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 = 104 bits (262), Expect = 1e-29
Identities = 43/56 (76%), Positives = 51/56 (91%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
RLYQVEYAMEAISHAGTCLGILA+DGI+LAAEK+ T+KLLD+ +SEKIYK+ D +
Sbjct: 15 RLYQVEYAMEAISHAGTCLGILAKDGIVLAAEKKVTSKLLDQSFSSEKIYKIDDHI 70
>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 = 85.2 bits (212), Expect = 6e-22
Identities = 28/54 (51%), Positives = 41/54 (75%), Gaps = 1/54 (1%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
RL+QVEYA+EA+ + T +GI +DG++LA EK+ T+KLLD + EKI+K+ D
Sbjct: 13 RLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPS-SVEKIFKIDD 65
Score = 65.9 bits (162), Expect = 1e-14
Identities = 18/51 (35%), Positives = 34/51 (66%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQV 53
RL+QVEYA+EA+ + T +GI +DG++LA EK++ + +++++
Sbjct: 13 RLFQVEYALEAVKNGSTAVGIKGKDGVVLAVEKKVTSKLLDPSSVEKIFKI 63
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 68.7 bits (168), Expect = 2e-15
Identities = 29/52 (55%), Positives = 42/52 (80%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKL 100
RLYQVEYA+EAI++A +GIL ++G++L A+K ++KLLD G +EKIYK+
Sbjct: 17 RLYQVEYALEAINNASLTVGILCKEGVILGADKPISSKLLDPGKINEKIYKI 68
Score = 49.1 bits (117), Expect = 3e-08
Identities = 19/33 (57%), Positives = 28/33 (84%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEK 35
RLYQVEYA+EAI++A +GIL ++G++L A+K
Sbjct: 17 RLYQVEYALEAINNASLTVGILCKEGVILGADK 49
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 65.6 bits (161), Expect = 2e-14
Identities = 25/54 (46%), Positives = 39/54 (72%), Gaps = 1/54 (1%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
RLYQVEYA EA+ T +G+ +DG++LA +KR T+ L++ ++ EKI+K+ D
Sbjct: 22 RLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKRITSPLIEP-SSIEKIFKIDD 74
Score = 52.1 bits (126), Expect = 2e-09
Identities = 18/34 (52%), Positives = 25/34 (73%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
RLYQVEYA EA+ T +G+ +DG++LA +KR
Sbjct: 22 RLYQVEYAREAVKRGTTAVGVKTKDGVVLAVDKR 55
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 65.0 bits (159), Expect = 5e-14
Identities = 28/55 (50%), Positives = 40/55 (72%), Gaps = 1/55 (1%)
Query: 49 RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
RL+QVEYA+EA+ G T +GI +DG++LAA+KR T+ LL + EKI+K+ D
Sbjct: 15 RLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDD 69
Score = 48.8 bits (117), Expect = 3e-08
Identities = 20/35 (57%), Positives = 28/35 (80%), Gaps = 1/35 (2%)
Query: 3 RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKR 36
RL+QVEYA+EA+ G T +GI +DG++LAA+KR
Sbjct: 15 RLFQVEYALEAVKRGGTTTVGIKGKDGVVLAADKR 49
>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 = 64.2 bits (157), Expect = 6e-14
Identities = 28/54 (51%), Positives = 40/54 (74%), Gaps = 1/54 (1%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
RLYQVEYA EA+ T +GI +DG++LA +KR T+KL+ E ++ EKI+K+ D
Sbjct: 15 RLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKRITSKLV-EPSSIEKIFKIDD 67
Score = 50.7 bits (122), Expect = 7e-09
Identities = 19/34 (55%), Positives = 25/34 (73%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
RLYQVEYA EA+ T +GI +DG++LA +KR
Sbjct: 15 RLYQVEYAREAVKRGTTAVGIKTKDGVVLAVDKR 48
>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 = 63.1 bits (154), Expect = 2e-13
Identities = 29/54 (53%), Positives = 39/54 (72%), Gaps = 1/54 (1%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
RLYQVEYA EA+ T LGI ++G++LA +KR T+KL+ E + EKIYK+ D
Sbjct: 14 RLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKRITSKLV-EPESIEKIYKIDD 66
Score = 49.6 bits (119), Expect = 2e-08
Identities = 19/34 (55%), Positives = 25/34 (73%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
RLYQVEYA EA+ T LGI ++G++LA +KR
Sbjct: 14 RLYQVEYAREAVKRGTTALGIKCKEGVVLAVDKR 47
>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 = 57.7 bits (140), Expect = 2e-11
Identities = 26/54 (48%), Positives = 39/54 (72%), Gaps = 1/54 (1%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
RL+QVEYA+EAI T +GI ++G++LA EKR T+ L+ E ++ EKI ++ D
Sbjct: 13 RLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRITSPLM-EPSSVEKIMEIDD 65
Score = 55.4 bits (134), Expect = 1e-10
Identities = 31/75 (41%), Positives = 40/75 (53%), Gaps = 6/75 (8%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
RL+QVEYA+EAI T +GI ++G++LA EKR+ S L S VE ME H
Sbjct: 13 RLFQVEYAIEAIKLGSTAIGIKTKEGVVLAVEKRIT---SPLMEPSS---VEKIMEIDDH 66
Query: 63 AGTCLGILAQDGILL 77
G + L D L
Sbjct: 67 IGCAMSGLIADARTL 81
>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 = 57.7 bits (140), Expect = 2e-11
Identities = 23/58 (39%), Positives = 42/58 (72%), Gaps = 1/58 (1%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNI 106
R++QVEYA +A+ ++GT +GI +DG++LA EK T+KL + G ++++I+ + + I
Sbjct: 16 RVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPG-SNKRIFNVDRHIGI 72
Score = 50.0 bits (120), Expect = 1e-08
Identities = 30/100 (30%), Positives = 48/100 (48%), Gaps = 20/100 (20%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEK----RLNQDFSFLPHMSRLYQVEYAME 58
R++QVEYA +A+ ++GT +GI +DG++LA EK +L + S R++ V+
Sbjct: 16 RVFQVEYANKAVENSGTAIGIRCKDGVVLAVEKLVTSKLYEPGS----NKRIFNVD---- 67
Query: 59 AISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIY 98
H G + L DG L + R +E Y
Sbjct: 68 --RHIGIAVAGLLADGRHLVSRAR------EEAENYRDNY 99
>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 = 54.6 bits (132), Expect = 2e-10
Identities = 22/58 (37%), Positives = 36/58 (62%), Gaps = 3/58 (5%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNI 106
RL+QVEYAMEA+ +G+ ++ +L A KR T++L + +KI+K+ D + I
Sbjct: 13 RLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSEL---SSYQKKIFKVDDHIGI 67
Score = 49.2 bits (118), Expect = 2e-08
Identities = 23/81 (28%), Positives = 40/81 (49%), Gaps = 8/81 (9%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISH 62
RL+QVEYAMEA+ +G+ ++ +L A KR + S + ++++V+ H
Sbjct: 13 RLFQVEYAMEAVKQGSATVGLKSKTHAVLVALKRATSELSS--YQKKIFKVD------DH 64
Query: 63 AGTCLGILAQDGILLAAEKRN 83
G + L D +L+ R
Sbjct: 65 IGIAIAGLTADARVLSRYMRQ 85
>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 = 54.3 bits (131), Expect = 3e-10
Identities = 22/54 (40%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHD 102
L+QVEYA EA+ T +G+ +D ++L EK++ KL D T KI L D
Sbjct: 13 HLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKKSVAKLQDP-RTVRKICMLDD 65
Score = 40.4 bits (95), Expect = 4e-05
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKR 36
L+QVEYA EA+ T +G+ +D ++L EK+
Sbjct: 13 HLFQVEYAQEAVRKGTTAVGVRGKDCVVLGVEKK 46
>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 = 51.9 bits (125), Expect = 3e-09
Identities = 19/59 (32%), Positives = 37/59 (62%), Gaps = 1/59 (1%)
Query: 49 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNII 107
+L Q+EYA+ A+S +GI A +G++LA EK+ + L+DE + K+ ++ + ++
Sbjct: 13 KLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKVPSPLIDESSVH-KVEQITPHIGMV 70
Score = 42.3 bits (100), Expect = 7e-06
Identities = 15/35 (42%), Positives = 25/35 (71%)
Query: 3 RLYQVEYAMEAISHAGTCLGILAQDGILLAAEKRL 37
+L Q+EYA+ A+S +GI A +G++LA EK++
Sbjct: 13 KLVQIEYALAAVSSGAPSVGIKAANGVVLATEKKV 47
>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 = 48.6 bits (117), Expect = 3e-08
Identities = 19/41 (46%), Positives = 29/41 (70%)
Query: 64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
T +GI +DG++LAA+KR T+ LL +T EKI+K+ D +
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHI 41
Score = 31.7 bits (73), Expect = 0.034
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 18 GTCLGILAQDGILLAAEKRLN 38
T +GI +DG++LAA+KR+
Sbjct: 1 TTIVGIKGKDGVVLAADKRVT 21
>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 = 46.8 bits (112), Expect = 1e-07
Identities = 20/47 (42%), Positives = 31/47 (65%), Gaps = 3/47 (6%)
Query: 60 ISHAGTCLGILAQDGILLAAEKRNT--NKLLDEGTTSEKIYKLHDSL 104
+ T +GI +DG++LAA+KR T +KLL + T EKI+K+ D +
Sbjct: 1 VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTV-EKIFKIDDHI 46
Score = 33.3 bits (77), Expect = 0.011
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 14 ISHAGTCLGILAQDGILLAAEKR 36
+ T +GI +DG++LAA+KR
Sbjct: 1 VKTGTTIVGIKGKDGVVLAADKR 23
>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 = 46.5 bits (111), Expect = 2e-07
Identities = 19/56 (33%), Positives = 36/56 (64%), Gaps = 2/56 (3%)
Query: 49 RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDS 103
RLYQVEYA +A+ +AG T + + +D ++ +K+ +KL+D T + ++++ D
Sbjct: 14 RLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKVPDKLIDPSTVTH-LFRITDE 68
Score = 39.1 bits (92), Expect = 8e-05
Identities = 14/36 (38%), Positives = 25/36 (69%), Gaps = 1/36 (2%)
Query: 3 RLYQVEYAMEAISHAG-TCLGILAQDGILLAAEKRL 37
RLYQVEYA +A+ +AG T + + +D ++ +K++
Sbjct: 14 RLYQVEYAFKAVKNAGLTSVAVRGKDCAVVVTQKKV 49
>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 = 39.7 bits (93), Expect = 6e-05
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
T + I + G++LAA+KR ++ L G+ KI K D +
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGI 41
Score = 27.0 bits (60), Expect = 1.8
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 18 GTCLGILAQDGILLAAEKRLNQDF 41
T + I + G++LAA+KRL+
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGL 24
>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 = 37.0 bits (87), Expect = 5e-04
Identities = 14/41 (34%), Positives = 25/41 (60%)
Query: 64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
T +GI +DG++LAA+ R + L +KI+K+ D++
Sbjct: 1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNI 41
Score = 29.3 bits (67), Expect = 0.22
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 18 GTCLGILAQDGILLAAEKRLN 38
T +GI +DG++LAA+ R +
Sbjct: 1 TTIVGIKGKDGVVLAADTRAS 21
>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 = 36.8 bits (86), Expect = 5e-04
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
T +GI+ +DG++LAA+KR + +KI+++ D + +
Sbjct: 2 TTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTI 45
Score = 29.9 bits (68), Expect = 0.16
Identities = 10/18 (55%), Positives = 16/18 (88%)
Query: 19 TCLGILAQDGILLAAEKR 36
T +GI+ +DG++LAA+KR
Sbjct: 2 TTVGIVCKDGVVLAADKR 19
>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 = 36.0 bits (84), Expect = 0.001
Identities = 12/44 (27%), Positives = 26/44 (59%)
Query: 65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNIIT 108
T +GI +DG++LAA+KR + ++K++++ D + +
Sbjct: 3 TTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTI 46
Score = 30.6 bits (70), Expect = 0.10
Identities = 10/19 (52%), Positives = 15/19 (78%)
Query: 19 TCLGILAQDGILLAAEKRL 37
T +GI +DG++LAA+KR
Sbjct: 3 TTVGIKCKDGVVLAADKRA 21
>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 = 31.6 bits (73), Expect = 0.005
Identities = 9/11 (81%), Positives = 11/11 (100%)
Query: 3 RLYQVEYAMEA 13
RL+QVEYAM+A
Sbjct: 13 RLFQVEYAMKA 23
Score = 31.6 bits (73), Expect = 0.005
Identities = 9/11 (81%), Positives = 11/11 (100%)
Query: 49 RLYQVEYAMEA 59
RL+QVEYAM+A
Sbjct: 13 RLFQVEYAMKA 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 = 31.3 bits (72), Expect = 0.007
Identities = 10/11 (90%), Positives = 11/11 (100%)
Query: 3 RLYQVEYAMEA 13
RL+QVEYAMEA
Sbjct: 13 RLFQVEYAMEA 23
Score = 31.3 bits (72), Expect = 0.007
Identities = 10/11 (90%), Positives = 11/11 (100%)
Query: 49 RLYQVEYAMEA 59
RL+QVEYAMEA
Sbjct: 13 RLFQVEYAMEA 23
>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 = 29.1 bits (66), Expect = 0.34
Identities = 10/41 (24%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 14 ISHAGTCLGILAQDGILLAAEKRLNQDFSFLP-HMSRLYQV 53
+ GT L I D ++A + RL++ +S L +++++
Sbjct: 5 TDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKL 45
>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 = 28.7 bits (65), Expect = 0.45
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
T +GI +D ++LAA+ +L +KIYKL D
Sbjct: 3 TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHK 42
>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 = 28.4 bits (64), Expect = 0.54
Identities = 8/41 (19%), Positives = 21/41 (51%)
Query: 64 GTCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSL 104
G + + +D + +A++ R + T +K++++ D L
Sbjct: 4 GAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRL 44
>gnl|CDD|153339 cd07655, F-BAR_PACSIN, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Protein kinase C and
Casein kinase Substrate in Neurons (PACSIN) proteins.
F-BAR domains are dimerization modules that bind and
bend membranes and are found in proteins involved in
membrane dynamics and actin reorganization. Protein
kinase C and Casein kinase Substrate in Neurons (PACSIN)
proteins, also called Synaptic dynamin-associated
proteins (Syndapins), act as regulators of cytoskeletal
and membrane dynamics. They bind both dynamin and
Wiskott-Aldrich syndrome protein (WASP), and may provide
direct links between the actin cytoskeletal machinery
through WASP and dynamin-dependent endocytosis.
Vetebrates harbor three isoforms with distinct
expression patterns and specific functions. PACSINs
contain an N-terminal F-BAR domain and a C-terminal SH3
domain. F-BAR domains form banana-shaped dimers with a
positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules.
Length = 258
Score = 26.9 bits (60), Expect = 1.9
Identities = 7/27 (25%), Positives = 15/27 (55%)
Query: 78 AAEKRNTNKLLDEGTTSEKIYKLHDSL 104
+A+K+ N D + +++ KL D +
Sbjct: 151 SAQKQENNAKSDTSLSPDQVKKLQDKV 177
>gnl|CDD|221009 pfam11162, DUF2946, Protein of unknown function (DUF2946). This
family of proteins has no known function.
Length = 119
Score = 26.6 bits (59), Expect = 2.0
Identities = 8/47 (17%), Positives = 14/47 (29%), Gaps = 12/47 (25%)
Query: 20 CLGILAQDGILLAAEKRLNQDFSFLPHMSRLYQVEYAMEAISHAGTC 66
L + A ILL P +S+ + + + C
Sbjct: 3 WLALFA---ILLNV---------LAPLISQALAAGASADGLLAGEIC 37
>gnl|CDD|218425 pfam05091, eIF-3_zeta, Eukaryotic translation initiation factor 3
subunit 7 (eIF-3). This family is made up of eukaryotic
translation initiation factor 3 subunit 7 (eIF-3
zeta/eIF3 p66/eIF3d). Eukaryotic initiation factor 3 is
a multi-subunit complex that is required for binding of
mRNA to 40 S ribosomal subunits, stabilisation of
ternary complex binding to 40 S subunits, and
dissociation of 40 and 60 S subunits. These functions
and the complex nature of eIF3 suggest multiple
interactions with many components of the translational
machinery. The gene coding for the protein has been
implicated in cancer in mammals.
Length = 517
Score = 26.9 bits (60), Expect = 2.1
Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 69 ILAQDGILLAAE-KRNTNKL 87
+ +Q G +LA E K N+ KL
Sbjct: 408 LESQRGAVLATELKNNSCKL 427
>gnl|CDD|202594 pfam03328, HpcH_HpaI, HpcH/HpaI aldolase/citrate lyase family.
This family includes 2,4-dihydroxyhept-2-ene-1,7-dioic
acid aldolase and 4-hydroxy-2-oxovalerate aldolase.
Length = 221
Score = 25.8 bits (57), Expect = 5.2
Identities = 11/41 (26%), Positives = 14/41 (34%), Gaps = 2/41 (4%)
Query: 53 VEYAMEAISHAGTCLGILAQDGILLAAEKRNTNKLLDEGTT 93
V +A I A GI A D + + L EG
Sbjct: 169 VLFARTRILAAARAAGIAAFDTVASDI--DDAEGFLAEGAL 207
>gnl|CDD|219597 pfam07823, CPDase, Cyclic phosphodiesterase-like protein. Cyclic
phosphodiesterase (CPDase) is involved in the tRNA
splicing pathway. This protein exhibits a bilobal
arrangement of two alpha-beta modules. Two antiparallel
helices are found on the outer side of each lobe and
frame an antiparallel beta-sheet that is wrapped around
an accessible cleft. Moreover, the beta-strands of each
lobe interact with the other lobe. The central
water-filled cavity houses the enzyme's active site.
Length = 192
Score = 25.4 bits (56), Expect = 5.6
Identities = 15/78 (19%), Positives = 25/78 (32%), Gaps = 10/78 (12%)
Query: 3 RLY-QVEYAMEAISHAGTCLGILAQDGILLAAEKRLNQDFSFLPHMSRLY----QVEYAM 57
++Y +VE E +S A + + A E + PH+S LY + A
Sbjct: 88 KVYLEVEPTPELLSLADIIRELFVEIPPQRADEWTSE---EYHPHLSLLYGDLSPSDKAE 144
Query: 58 EA--ISHAGTCLGILAQD 73
L +
Sbjct: 145 AREIAQRIDDALDVHLNI 162
>gnl|CDD|213261 cd03294, ABC_Pro_Gly_Betaine, ATP-binding cassette domain of the
osmoprotectant proline/glycine betaine uptake system.
This family comprises the glycine betaine/L-proline ATP
binding subunit in bacteria and its equivalents in
archaea. This transport system belong to the larger
ATP-Binding Cassette (ABC) transporter superfamily. The
characteristic feature of these transporters is the
obligatory coupling of ATP hydrolysis to substrate
translocation. ABC transporters are a subset of
nucleotide hydrolases that contain a signature motif,
Q-loop, and H-loop/switch region, in addition to, the
Walker A motif/P-loop and Walker B motif commonly found
in a number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 269
Score = 25.7 bits (57), Expect = 6.0
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 39 QDFSFLPHMSRLYQVEYAME 58
Q F+ LPH + L V + +E
Sbjct: 109 QSFALLPHRTVLENVAFGLE 128
>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 = 25.2 bits (56), Expect = 6.3
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 65 TCLGILAQDGILLAAEKRNTNKLLDEGTTSEKIYKLHDSLNI 106
T +G++ +DG++L A+ R T + EKI+ + NI
Sbjct: 2 TIVGVVFKDGVVLGADTRATEGPIVADKNCEKIHYIAP--NI 41
>gnl|CDD|180297 PRK05868, PRK05868, hypothetical protein; Validated.
Length = 372
Score = 25.3 bits (55), Expect = 7.5
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 58 EAISHAGTCLGILAQDGILLAAEKRNT 84
+AI G L +L + G+L AA++ T
Sbjct: 41 QAIDVRGPALDVLERMGLLAAAQEHKT 67
>gnl|CDD|182844 PRK10926, PRK10926, ferredoxin-NADP reductase; Provisional.
Length = 248
Score = 25.0 bits (55), Expect = 9.3
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 29 ILLAAEKRLNQDFSFLPHMSRLYQ 52
++L R D S+LP M L Q
Sbjct: 137 LVLVHAARYAADLSYLPLMQELEQ 160
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.134 0.373
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: 5,399,655
Number of extensions: 462551
Number of successful extensions: 440
Number of sequences better than 10.0: 1
Number of HSP's gapped: 433
Number of HSP's successfully gapped: 67
Length of query: 108
Length of database: 10,937,602
Length adjustment: 73
Effective length of query: 35
Effective length of database: 7,699,760
Effective search space: 269491600
Effective search space used: 269491600
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: 53 (24.0 bits)