RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7294
(123 letters)
>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 = 81.5 bits (202), Expect = 1e-20
Identities = 33/83 (39%), Positives = 56/83 (67%)
Query: 30 NTFGVTLYKGDPYGFMLEVPYAYIGINGFLTASLVDKYYKPDLTVQEAYSVLKQCVHHMK 89
G +LY D G +++VPYA G + S++D+YYKPD+TV+EA ++K+C+ +K
Sbjct: 109 KVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYKPDMTVEEALELMKKCIKELK 168
Query: 90 RRTVLSYPKFTVKVLDRTGTVNV 112
+R +++ P FTVKV+D+ G ++
Sbjct: 169 KRFIINLPNFTVKVVDKDGIRDL 191
>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 = 55.5 bits (135), Expect = 1e-10
Identities = 23/75 (30%), Positives = 40/75 (53%), Gaps = 2/75 (2%)
Query: 36 LYKGDPYGFMLEVPYAYIGINGFLTA-SLVDKYYKPDLTVQEAYSVLKQCVHHMKRRTVL 94
LY DP G ++E P+ +G A ++D+ YKPD+T++EA ++K+ + R +
Sbjct: 112 LYYVDPLGSLIEAPF-VATGSGSKYAYGILDRGYKPDMTLEEAVELVKKAIDSAIERDLS 170
Query: 95 SYPKFTVKVLDRTGT 109
S V V+ + G
Sbjct: 171 SGGGVDVAVITKDGV 185
>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 = 53.0 bits (128), Expect = 1e-09
Identities = 21/69 (30%), Positives = 32/69 (46%)
Query: 36 LYKGDPYGFMLEVPYAYIGINGFLTASLVDKYYKPDLTVQEAYSVLKQCVHHMKRRTVLS 95
LY DP G ++E IG ++K YKPD+T++EA + + + R LS
Sbjct: 120 LYSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAIERDALS 179
Query: 96 YPKFTVKVL 104
V V+
Sbjct: 180 GGNIEVAVI 188
>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 = 49.4 bits (119), Expect = 2e-08
Identities = 20/69 (28%), Positives = 32/69 (46%)
Query: 36 LYKGDPYGFMLEVPYAYIGINGFLTASLVDKYYKPDLTVQEAYSVLKQCVHHMKRRTVLS 95
LY DP G +E IG +++K YKPD+T++EA + + + R + S
Sbjct: 114 LYSVDPSGSYIEYKATAIGSGSQYALGILEKLYKPDMTLEEAIELALKALKSALERDLYS 173
Query: 96 YPKFTVKVL 104
V V+
Sbjct: 174 GGNIEVAVI 182
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 43.1 bits (102), Expect = 7e-06
Identities = 20/83 (24%), Positives = 31/83 (37%)
Query: 33 GVTLYKGDPYGFMLEVPYAYIGINGFLTASLVDKYYKPDLTVQEAYSVLKQCVHHMKRRT 92
G LY DP G E IG ++K Y+ DL+++EA + + + R
Sbjct: 140 GPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEYREDLSLEEAIELAVKALRAAIERD 199
Query: 93 VLSYPKFTVKVLDRTGTVNVLQD 115
S V V+ + L
Sbjct: 200 AASGGGIEVAVITKDEGFRKLDG 222
>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 = 35.8 bits (83), Expect = 0.002
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 1/53 (1%)
Query: 36 LYKGDPYGFMLEVPYAYIGINGFLTA-SLVDKYYKPDLTVQEAYSVLKQCVHH 87
LY DP G ++E P A + A SL++K YKPD+T++EA + + +
Sbjct: 112 LYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYKPDMTLEEAVELALKALKS 164
>gnl|CDD|133172 cd05040, PTKc_Ack_like, Catalytic domain of the Protein Tyrosine
Kinase, Activated Cdc42-associated kinase. Protein
Tyrosine Kinase (PTK) family; Activated Cdc42-associated
kinase (Ack) subfamily; catalytic (c) domain. Ack
subfamily members include Ack1, thirty-eight-negative
kinase 1 (Tnk1), and similar proteins. The PTKc family
is part of a larger superfamily that includes the
catalytic domains of other kinases such as protein
serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. Ack
subfamily members are cytoplasmic (or nonreceptor) tyr
kinases containing an N-terminal catalytic domain, an
SH3 domain, a Cdc42-binding CRIB domain, and a
proline-rich region. They are mainly expressed in brain
and skeletal tissues and are involved in the regulation
of cell adhesion and growth, receptor degradation, and
axonal guidance. Ack1 is also associated with
androgen-independent prostate cancer progression. Tnk1
regulates TNFalpha signaling and may play an important
role in cell death.
Length = 257
Score = 33.9 bits (78), Expect = 0.011
Identities = 20/75 (26%), Positives = 36/75 (48%), Gaps = 12/75 (16%)
Query: 20 ALNSKKWT---DCNTFGVTLYKGDPYGFMLEVPYAYIGINGFLTASLVDKYY----KPDL 72
+L ++ ++ D FGVTL++ YG + G++G +DK +P+
Sbjct: 171 SLRTRTFSHASDVWMFGVTLWEMFTYGEE-----PWAGLSGSQILKKIDKEGERLERPEA 225
Query: 73 TVQEAYSVLKQCVHH 87
Q+ Y+V+ QC H
Sbjct: 226 CPQDIYNVMLQCWAH 240
>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 = 33.0 bits (76), Expect = 0.021
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 2/81 (2%)
Query: 33 GVTLYKGDPYGFMLEVPYAYIGINGFLTA-SLVDKYYKPDLTVQEAYSVLKQCVHHMKRR 91
G LY DP G ++E Y G +G A +++ YK D+TV+EA + + + R
Sbjct: 108 GPHLYSLDPLGSIIEDKYTATG-SGSPYAYGVLEDEYKEDMTVEEAKKLAIRAIKSAIER 166
Query: 92 TVLSYPKFTVKVLDRTGTVNV 112
S V V+ + G +
Sbjct: 167 DSASGDGIDVVVITKDGYKEL 187
>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 = 31.8 bits (73), Expect = 0.053
Identities = 19/60 (31%), Positives = 34/60 (56%), Gaps = 4/60 (6%)
Query: 28 DCNTFGVTLYKGDPYGFMLEVPYAYIGINGFLTA-SLVDKYYKPDLTVQEAYSVLKQCVH 86
D G LY P+G ++P+ +G +G L A S+++ YKPD+T +EA ++ + +
Sbjct: 104 DYT--GPHLYSIYPHGSTDKLPFVTMG-SGSLAAMSVLEDRYKPDMTEEEAKKLVCEAIE 160
>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 = 30.7 bits (70), Expect = 0.12
Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 9/47 (19%)
Query: 49 PYAYIGINGFLTASLVDKYYKPDLTVQEAYSVLKQCVHHMKRRTVLS 95
YAY ++D Y+ DL+V+EAY + ++ ++H R S
Sbjct: 133 TYAY---------GVLDSGYRYDLSVEEAYDLARRAIYHATHRDAYS 170
>gnl|CDD|199885 cd02855, E_set_GBE_prok_N, N-terminal Early set domain associated
with the catalytic domain of prokaryotic glycogen
branching enzyme. This subfamily is composed of
predominantly prokaryotic 1,4 alpha glucan branching
enzymes, also called glycogen branching enzymes. E or
"early" set domains are associated with the catalytic
domain of glycogen branching enzymes at the N-terminal
end. Glycogen branching enzyme catalyzes the formation
of alpha-1,6 branch points in either glycogen or starch
by cleavage of the alpha-1,4 glucosidic linkage,
yielding a non-reducing end oligosaccharide chain, as
well as the subsequent attachment of short glucosyl
chains to the alpha-1,6 position. By increasing the
number of non-reducing ends, glycogen is more reactive
to synthesis and digestion as well as being more
soluble. The N-terminal domain of the 1,4 alpha glucan
branching enzyme may be related to the immunoglobulin
and/or fibronectin type III superfamilies. These
domains are associated with different types of
catalytic domains at either the N-terminal or
C-terminal end and may be involved in
homodimeric/tetrameric/dodecameric interactions.
Members of this family include members of the alpha
amylase family, sialidase, galactose oxidase,
cellulase, cellulose, hyaluronate lyase, chitobiase,
and chitinase, among others.
Length = 105
Score = 29.0 bits (66), Expect = 0.25
Identities = 8/17 (47%), Positives = 9/17 (52%)
Query: 33 GVTLYKGDPYGFMLEVP 49
G L K DPY F E+
Sbjct: 80 GEVLLKADPYAFYAELR 96
>gnl|CDD|128407 smart00096, UTG, Uteroglobin.
Length = 69
Score = 28.3 bits (63), Expect = 0.33
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 9/61 (14%)
Query: 44 FMLEVPYAYIGINGFLTASLVDKYYKPDLTVQEAYSVLKQCVHHMKRRTVLSYPKFTVKV 103
+L P +Y ASL K +KPD + EA LK+ V + + T + K T K+
Sbjct: 13 LLLGTPSSYE-------ASL--KQFKPDPDMLEAGRQLKKLVDTLPQETRENILKLTEKI 63
Query: 104 L 104
Sbjct: 64 Y 64
>gnl|CDD|181884 PRK09469, glnA, glutamine synthetase; Provisional.
Length = 469
Score = 29.0 bits (65), Expect = 0.71
Identities = 20/61 (32%), Positives = 23/61 (37%), Gaps = 17/61 (27%)
Query: 33 GVTLYKGDPYGFMLEVPYAYIG--------INGFLTAS------LVDKYYKPDLTVQEAY 78
GV L+ GD Y + E YIG IN + LV Y P V AY
Sbjct: 279 GVNLFAGDKYAGLSEQALYYIGGIIKHAKAINALANPTTNSYKRLVPGYEAP---VMLAY 335
Query: 79 S 79
S
Sbjct: 336 S 336
>gnl|CDD|201596 pfam01099, Uteroglobin, Uteroglobin family. Uteroglobin is a
homodimer of two identical 70 amino acid polypeptides
linked by two disulphide bridges. The precise role of
uteroglobin has still to be elucidated.
Length = 67
Score = 26.9 bits (60), Expect = 1.1
Identities = 13/40 (32%), Positives = 17/40 (42%)
Query: 66 KYYKPDLTVQEAYSVLKQCVHHMKRRTVLSYPKFTVKVLD 105
K Y D EA LK+CV + T + K K+ D
Sbjct: 24 KKYNADPEAVEAKMELKKCVDTLSNETRENITKLLEKIYD 63
>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 = 27.7 bits (62), Expect = 1.4
Identities = 17/46 (36%), Positives = 24/46 (52%)
Query: 32 FGVTLYKGDPYGFMLEVPYAYIGINGFLTASLVDKYYKPDLTVQEA 77
+G LY+ DP G IG N SL+ + YK D+T++EA
Sbjct: 141 YGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDYKDDMTLEEA 186
>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 = 27.2 bits (61), Expect = 1.7
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 2/77 (2%)
Query: 33 GVTLYKGDPYGFMLEVPYAYIGINGFLTA-SLVDKYYKPDLTVQEAYSVLKQCVHHMKRR 91
G LY DP G ++E Y G +G A +++ Y+ D++V+EA + + + R
Sbjct: 109 GPHLYSLDPAGGIIEDDYTATG-SGSPVAYGVLEDEYREDMSVEEAKKLAVRAIKSAIER 167
Query: 92 TVLSYPKFTVKVLDRTG 108
V S V V+ + G
Sbjct: 168 DVASGNGIDVAVITKDG 184
>gnl|CDD|133191 cd05060, PTKc_Syk_like, Catalytic domain of Spleen Tyrosine
Kinase-like Protein Tyrosine Kinases. Protein Tyrosine
Kinase (PTK) family; Spleen Tyrosine Kinase (Syk)
subfamily; catalytic (c) domain. The Syk subfamily is
composed of Syk, ZAP-70, Shark, and similar proteins.
The PTKc family is part of a larger superfamily that
includes the catalytic domains of other kinases such as
protein serine/threonine kinases, RIO kinases, and
phosphoinositide 3-kinase (PI3K). PTKs catalyze the
transfer of the gamma-phosphoryl group from ATP to
tyrosine (tyr) residues in protein substrates. Syk
subfamily kinases are cytoplasmic (or nonreceptor) tyr
kinases containing two Src homology 2 (SH2) domains
N-terminal to the catalytic tyr kinase domain. They are
involved in the signaling downstream of activated
receptors (including B-cell, T-cell, and Fc receptors)
that contain ITAMs (immunoreceptor tyr activation
motifs), leading to processes such as cell
proliferation, differentiation, survival, adhesion,
migration, and phagocytosis. Syk is important in B-cell
receptor (BCR) signaling, while Zap-70 is primarily
expressed in T-cells and NK cells, and is a crucial
component in T-cell receptor (TCR) signaling. Syk also
plays a central role in Fc receptor-mediated
phagocytosis in the adaptive immune system. Shark is
exclusively expressed in ectodermally derived epithelia,
and is localized preferentially to the apical surface of
the epithelial cells, it may play a role in a signaling
pathway for epithelial cell polarity.
Length = 257
Score = 27.3 bits (61), Expect = 2.0
Identities = 16/61 (26%), Positives = 30/61 (49%), Gaps = 8/61 (13%)
Query: 27 TDCNTFGVTLYKGDPYGFMLEVPYAYIGINGFLTASLVDKYY---KPDLTVQEAYSVLKQ 83
+D ++GVTL++ YG PY + G ++++ +P+ QE YS++
Sbjct: 179 SDVWSYGVTLWEAFSYG---AKPYG--EMKGAEVIAMLESGERLPRPEECPQEIYSIMLS 233
Query: 84 C 84
C
Sbjct: 234 C 234
>gnl|CDD|235445 PRK05402, PRK05402, glycogen branching enzyme; Provisional.
Length = 726
Score = 27.4 bits (62), Expect = 2.2
Identities = 14/32 (43%), Positives = 15/32 (46%), Gaps = 8/32 (25%)
Query: 33 GVTLYKGDPYGFMLEVPYAYIGINGFLTASLV 64
G L K DPY F EV A TAS+V
Sbjct: 192 GELLLKADPYAFAAEVRPA--------TASIV 215
>gnl|CDD|238346 cd00633, Secretoglobin, Secretoglobins are relatively small,
secreted, disulphide-bridged dimeric proteins with
encoding genes sharing substantial sequence similarity.
Their family subunits may be grouped into five
subfamilies, A-E. Uteroglobin (subfamily A), which is
identical to Clara cell protein (CC10), forms a globular
shaped homodimer with a large hydrophobic pocket located
between the two dimers. The uteroglobin monomer
structure is composed of four alpha helices that do not
form a canonical four helix-bundle motif but rather a
boomerang-shaped structure in which helices H1, H3, and
H4 are able to bind a homodimeric partner. The
hydrophobic pocket binds steroids, particularly
progesterone, with high specificity. However, the true
biological function of uteroglobin is poorly understood.
In mammals, uteroglobin has immunosuppressive and
anti-inflammatory properties through the inhibition of
phospholipase A2. The other four main subfamilies of
secretoglobins are found in heterodimeric combinations,
with B and C subfamilies disulphide-bridged to the E and
D subfamilies, respectively. [See review by Laukaitis
C.M. & Karn R.C. (2005). Biological Journal of the
Linnean Society 84, 493]. These include rat prostatic
steroid-binding protein (PBP or prostatein), human
mammaglobin (or heteroglobin), lipophilins, major cat
allergen Fel dI, the hamster Harderian gland proteins
and mouse salivary androgen-binding protein (ABP).
Example of such a heterodimer: ABPalpha-like sequences
are closely related to cat Fel dI chain 1, whereas
ABPbeta-gamma-like sequences are closely related to Fel
dI chain 2. Thus, the heterodimeric structure of
ABPalpha-beta and ABPalpha-gamma is recapitulated by the
sequence-similar Fel dI chains 1 and 2. This
conservation of primary and quaternary structure
indicates that the genome of the eutherian common
ancestor of cats, rodents, and primates contained a
similar gene pair.
Length = 67
Score = 25.7 bits (57), Expect = 2.5
Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 5/56 (8%)
Query: 55 INGFLTASLVD-----KYYKPDLTVQEAYSVLKQCVHHMKRRTVLSYPKFTVKVLD 105
I GFL S + + + EA LKQCV T + K K+L
Sbjct: 8 IEGFLLGSEEEYKAELEKFNATPEAVEAKEKLKQCVDEQSLETKENIAKLLEKILA 63
>gnl|CDD|237683 PRK14344, PRK14344, lipoate-protein ligase B; Provisional.
Length = 223
Score = 27.0 bits (60), Expect = 2.6
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 54 GINGFLTASLVDKYYKPDLTVQEAYSVLKQCVHH 87
G+ G L D + P L ++E +LK+ +
Sbjct: 188 GLEGCQVGRLSD--WIPGLNIKEVKPLLKKSLQE 219
>gnl|CDD|239729 cd03760, proteasome_beta_type_4, proteasome beta type-4 subunit.
The 20S proteasome, multisubunit proteolytic complex, is
the central enzyme of nonlysosomal protein degradation
in both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis.Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 197
Score = 26.8 bits (60), Expect = 3.0
Identities = 23/79 (29%), Positives = 38/79 (48%), Gaps = 14/79 (17%)
Query: 40 DPYGFMLEVPYAYIGINGFLTASLVDKYY--KPDLTVQEAYSVLKQCVHHMKRRTVL--- 94
D G E P+ G +L L+ + + KPDLT +EA +++++C MK VL
Sbjct: 121 DLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEEC---MK---VLYYR 174
Query: 95 ---SYPKFTVKVLDRTGTV 110
S K+ + V+ + G
Sbjct: 175 DARSINKYQIAVVTKEGVE 193
>gnl|CDD|236126 PRK07899, rpsA, 30S ribosomal protein S1; Reviewed.
Length = 486
Score = 26.9 bits (60), Expect = 3.4
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 53 IGINGFLTASLVD 65
IG+ GFL ASLV+
Sbjct: 142 IGLRGFLPASLVE 154
>gnl|CDD|178577 PLN02999, PLN02999, photosystem II oxygen-evolving enhancer 3
protein (PsbQ).
Length = 190
Score = 26.3 bits (57), Expect = 4.1
Identities = 18/69 (26%), Positives = 34/69 (49%), Gaps = 12/69 (17%)
Query: 65 DKYYKPDLTVQEAYSVLKQC----------VHHMKRRTVLSYPKFTVKVL--DRTGTVNV 112
+KY+ P L+ ++A + +KQ + HM R V+ Y + L D T +N+
Sbjct: 77 EKYFMPGLSPEDAAARIKQTAEGLRDMREMLDHMSWRYVIFYIRLKQAYLSQDLTNAMNI 136
Query: 113 LQDLKYSDF 121
L + + +D+
Sbjct: 137 LPESRRNDY 145
>gnl|CDD|182105 PRK09840, PRK09840, catecholate siderophore receptor Fiu;
Provisional.
Length = 761
Score = 26.7 bits (59), Expect = 4.1
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 94 LSYPKFTVKVLDRTGTVNVL 113
+ PKF+ + D T T+ V+
Sbjct: 59 SADPKFSQPLADTTQTITVI 78
>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 = 26.1 bits (58), Expect = 4.6
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 36 LYKGDPYGFMLEVPYAYIGINGFLTASLVDKYYKPDLTVQEA 77
L++ DP G +LE IG ++K Y+ DL++ EA
Sbjct: 143 LFETDPSGALLEYKATAIGAGRQAVTEFLEKEYREDLSLDEA 184
>gnl|CDD|165189 PHA02851, PHA02851, EEV glycoprotein; Provisional.
Length = 223
Score = 26.2 bits (57), Expect = 4.9
Identities = 12/20 (60%), Positives = 14/20 (70%)
Query: 9 LTPILFMNKTLALNSKKWTD 28
L I+ NKTL LNS+ WTD
Sbjct: 42 LKKIINTNKTLTLNSEDWTD 61
>gnl|CDD|189762 pfam00901, Orbi_VP5, Orbivirus outer capsid protein VP5.
cryoelectron microscopy indicates that VP5 is a trimer
implying that there are 360 copies of VP5 per virion.
Length = 507
Score = 26.2 bits (58), Expect = 5.2
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 87 HMKRRTVLSYPKFTVKVL 104
H +RR +L+ K VK+L
Sbjct: 490 HFQRRAILNALKHGVKLL 507
>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 = 26.0 bits (58), Expect = 5.4
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 6/66 (9%)
Query: 28 DCNTFGVTLYKGDPYGFMLEVPYAYIGING--FLTASLVDKYYKPDLTVQEAYSVLKQCV 85
D G +Y G ++ P+A IG +G ++ VD YKP +T++E +K +
Sbjct: 104 DEQN-GGQVYSIPLGGMLIRQPFA-IGGSGSTYIY-GYVDANYKPGMTLEECIKFVKNAL 160
Query: 86 HH-MKR 90
M R
Sbjct: 161 SLAMSR 166
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 26.0 bits (57), Expect = 5.8
Identities = 14/45 (31%), Positives = 21/45 (46%)
Query: 33 GVTLYKGDPYGFMLEVPYAYIGINGFLTASLVDKYYKPDLTVQEA 77
G LY DP G IG N S++ + +K DLT+++
Sbjct: 144 GYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEWKEDLTLEQG 188
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 26.1 bits (57), Expect = 5.8
Identities = 11/53 (20%), Positives = 24/53 (45%)
Query: 63 LVDKYYKPDLTVQEAYSVLKQCVHHMKRRTVLSYPKFTVKVLDRTGTVNVLQD 115
++D +K DL +EA + ++ ++H R S + + + G + D
Sbjct: 177 VLDAGFKWDLNDEEAQDLGRRAIYHATFRDAYSGGAINLYHMQKDGWKKISAD 229
>gnl|CDD|239911 cd04465, S1_RPS1_repeat_ec2_hs2, S1_RPS1_repeat_ec2_hs2:
Ribosomal protein S1 (RPS1) domain. RPS1 is a component
of the small ribosomal subunit thought to be involved
in the recognition and binding of mRNA's during
translation initiation. The bacterial RPS1 domain
architecture consists of 4-6 tandem S1 domains. In some
bacteria, the tandem S1 array is located C-terminal to
a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase
(HMBPP reductase) domain.While RPS1 is found primarily
in bacteria, proteins with tandem RPS1-like domains
have been identified in plants and humans, however
these lack the N-terminal HMBPP reductase domain. This
CD includes S1 repeat 2 of the Escherichia coli and
Homo sapiens RPS1 (ec2 and hs2, respectively).
Autoantibodies to double-stranded DNA from patients
with systemic lupus erythematosus cross-react with the
human RPS1 homolog.
Length = 67
Score = 24.7 bits (55), Expect = 6.7
Identities = 9/19 (47%), Positives = 10/19 (52%)
Query: 54 GINGFLTASLVDKYYKPDL 72
G+ FL AS VD DL
Sbjct: 22 GVRAFLPASQVDLRPVEDL 40
>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 = 25.8 bits (57), Expect = 6.7
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 30 NTFGVTLYKGDPYGFMLEVPYAYIGINGFLTASLVDKYYKPDLTVQEA 77
+ G L++ DP G E IG ++K YK D++++EA
Sbjct: 136 DDGGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEYKEDMSLEEA 183
>gnl|CDD|227115 COG4774, Fiu, Outer membrane receptor for monomeric catechols
[Inorganic ion transport and metabolism].
Length = 750
Score = 26.0 bits (57), Expect = 7.2
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 95 SYPKFTVKVLDRTGTVNVL 113
+ PK+T +LD TV V+
Sbjct: 71 ADPKYTAPLLDTPQTVTVI 89
>gnl|CDD|240109 cd04792, LanM-like, LanM-like proteins. LanM is a bifunctional
enzyme, involved in the synthesis of class II
lantibiotics. It is responsible for both the dehydration
and the cyclization of the precursor-peptide during
lantibiotic synthesis. The C-terminal domain shows
similarity to LanC, the cyclase component of the lan
operon, but the N terminus seems to be unrelated to the
dehydratase, LanB.
Length = 825
Score = 25.8 bits (57), Expect = 7.3
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 5/43 (11%)
Query: 67 YYKP-DLTVQEAYSVLKQCVHHMKRRTVLSYPKFTVKVLDRTG 108
YKP L+V + ++ + + P T KVLDR
Sbjct: 117 VYKPRSLSVDALF---QELLEWLNSFLGAL-PLRTPKVLDRGD 155
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
0.322 0.137 0.410
Gapped
Lambda K H
0.267 0.0629 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,075,099
Number of extensions: 509809
Number of successful extensions: 342
Number of sequences better than 10.0: 1
Number of HSP's gapped: 341
Number of HSP's successfully gapped: 41
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
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 (21.9 bits)
S2: 53 (24.4 bits)