RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5099
(50 letters)
>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 = 48.8 bits (117), Expect = 4e-09
Identities = 19/22 (86%), Positives = 22/22 (100%)
Query: 29 TTIIAVEFDGGVVIGADSRSST 50
TTIIAVE+DGGVV+GADSR+ST
Sbjct: 1 TTIIAVEYDGGVVLGADSRTST 22
>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 = 39.0 bits (92), Expect = 2e-05
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 29 TTIIAVEFDGGVVIGADSRSS 49
TTI+ ++ GVV+ AD+R+S
Sbjct: 1 TTIVGIKGKDGVVLAADTRAS 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 = 38.3 bits (90), Expect = 2e-05
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 26 SCGTTIIAVEFDGGVVIGADSRSST 50
GTTI+ ++ GVV+ AD R++
Sbjct: 2 KTGTTIVGIKGKDGVVLAADKRATR 26
>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 = 37.1 bits (87), Expect = 7e-05
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 29 TTIIAVEFDGGVVIGADSRSS 49
TTI+ ++ GVV+ AD R +
Sbjct: 1 TTIVGIKGKDGVVLAADKRVT 21
>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 = 36.4 bits (85), Expect = 1e-04
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 29 TTIIAVEFDGGVVIGADSRS 48
TTI+ V F GVV+GAD+R+
Sbjct: 1 TTIVGVVFKDGVVLGADTRA 20
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 33.8 bits (78), Expect = 0.001
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 28 GTTIIAVEFDGGVVIGADSRSS 49
GTT + ++ GVV+ AD R++
Sbjct: 30 GTTTVGIKGKDGVVLAADKRAT 51
>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 = 33.7 bits (78), Expect = 0.001
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 28 GTTIIAVEFDGGVVIGADSRSS 49
GT++IA+++ GV+I AD+ S
Sbjct: 2 GTSVIAIKYKDGVIIAADTLGS 23
>gnl|CDD|163402 TIGR03690, 20S_bact_beta, proteasome, beta subunit, bacterial
type. Members of this family are the beta subunit of
the 20S proteasome as found in Actinobacteria such as
Mycobacterium, Rhodococcus, and Streptomyces. In
Streptomyces, maturation during proteasome assembly was
shown to remove a 53-amino acid propeptide. Most of the
length of the propeptide is not included in this model
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 219
Score = 32.8 bits (75), Expect = 0.003
Identities = 10/22 (45%), Positives = 17/22 (77%)
Query: 28 GTTIIAVEFDGGVVIGADSRSS 49
GTTI+A+ + GGV++ D R++
Sbjct: 2 GTTIVALTYPGGVLMAGDRRAT 23
>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 = 32.0 bits (73), Expect = 0.005
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 29 TTIIAVEFDGGVVIGADSRSS 49
+T +A++ GGVV+ AD R S
Sbjct: 1 STSVAIKGKGGVVLAADKRLS 21
>gnl|CDD|235477 PRK05456, PRK05456, ATP-dependent protease subunit HslV;
Provisional.
Length = 172
Score = 31.6 bits (73), Expect = 0.007
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 28 GTTIIAVEFDGGVVIGAD 45
GTTI+AV +G V I D
Sbjct: 1 GTTILAVRRNGKVAIAGD 18
>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 = 29.9 bits (68), Expect = 0.029
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 29 TTIIAVEFDGGVVIGADSRSS 49
TT +A F GGV++ DSR++
Sbjct: 1 TTTLAFIFQGGVIVAVDSRAT 21
>gnl|CDD|211862 TIGR03692, ATP_dep_HslV, ATP-dependent protease HslVU, peptidase
subunit. The ATP-dependent protease HslVU, a complex
of hexameric HslU active as a protein-unfolding ATPase
and dodecameric HslV, the catalytic threonine protease
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 171
Score = 29.4 bits (67), Expect = 0.042
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 29 TTIIAVEFDGGVVIGAD 45
TTI+AV +G VVI D
Sbjct: 1 TTILAVRRNGKVVIAGD 17
>gnl|CDD|227692 COG5405, HslV, ATP-dependent protease HslVU (ClpYQ), peptidase
subunit [Posttranslational modification, protein
turnover, chaperones].
Length = 178
Score = 29.2 bits (66), Expect = 0.055
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 28 GTTIIAVEFDGGVVIGADSRSS 49
TTI+AV +G VVI D + +
Sbjct: 4 MTTIVAVRKNGKVVIAGDGQVT 25
>gnl|CDD|238894 cd01913, protease_HslV, Protease HslV and the ATPase/chaperone
HslU are part of an ATP-dependent proteolytic system
that is the prokaryotic homolog of the proteasome. HslV
is a dimer of hexamers (a dodecamer) that forms a
central proteolytic chamber with active sites on the
interior walls of the cavity. HslV shares significant
sequence and structural similarity with the proteasomal
beta-subunit and both are members of the Ntn-family of
hydrolases. HslV has a nucleophilic threonine residue
at its N-terminus that is exposed after processing of
the propeptide and is directly involved in active site
catalysis.
Length = 171
Score = 27.5 bits (62), Expect = 0.16
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 29 TTIIAVEFDGGVVIGAD 45
TTI+AV +G VVI D
Sbjct: 1 TTILAVRKNGKVVIAGD 17
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 26.9 bits (59), Expect = 0.33
Identities = 9/22 (40%), Positives = 17/22 (77%)
Query: 28 GTTIIAVEFDGGVVIGADSRSS 49
GTT +A ++ GG++I DS+++
Sbjct: 39 GTTTLAFKYGGGIIIAVDSKAT 60
>gnl|CDD|181292 PRK08208, PRK08208, coproporphyrinogen III oxidase; Validated.
Length = 430
Score = 26.9 bits (60), Expect = 0.35
Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 7/36 (19%)
Query: 15 VEAPDWLTAKHSCGTTIIAVEFDGGVVIGADSRSST 50
+APD +SC T DG + +G +RS T
Sbjct: 276 NDAPDKGAPAYSCQT-------DGMLGLGCGARSYT 304
>gnl|CDD|223716 COG0643, CheA, Chemotaxis protein histidine kinase and related
kinases [Cell motility and secretion / Signal
transduction mechanisms].
Length = 716
Score = 26.5 bits (59), Expect = 0.47
Identities = 13/45 (28%), Positives = 17/45 (37%), Gaps = 15/45 (33%)
Query: 9 NA-YHGGVEAPD-------------WLTAKHSCGTTIIAVEFDGG 39
NA HG +E P+ L+A H +I V DG
Sbjct: 443 NAVDHG-IETPEERRAAGKPEEGTITLSAYHEGNNIVIEVSDDGA 486
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 26.3 bits (59), Expect = 0.60
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 28 GTTIIAVEFDGGVVIGADSRSST 50
GTT + V+ GVV+ D R ++
Sbjct: 36 GTTAVGVKTKDGVVLAVDKRITS 58
>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 = 26.0 bits (58), Expect = 0.60
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 28 GTTIIAVEFDGGVVIGADSRSS 49
GTT + ++ GVV+ AD R+S
Sbjct: 1 GTTTVGIKCKDGVVLAADKRAS 22
>gnl|CDD|237609 PRK14096, pgi, glucose-6-phosphate isomerase; Provisional.
Length = 528
Score = 26.0 bits (58), Expect = 0.79
Identities = 9/12 (75%), Positives = 10/12 (83%), Gaps = 1/12 (8%)
Query: 7 NVNAYHG-GVEA 17
N+NAYH GVEA
Sbjct: 442 NINAYHQPGVEA 453
>gnl|CDD|237673 PRK14325, PRK14325, (dimethylallyl)adenosine tRNA
methylthiotransferase; Provisional.
Length = 444
Score = 25.5 bits (57), Expect = 0.99
Identities = 6/7 (85%), Positives = 6/7 (85%)
Query: 7 NVNAYHG 13
NVNAY G
Sbjct: 202 NVNAYRG 208
>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 = 24.2 bits (53), Expect = 3.3
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 28 GTTIIAVEFDGGVVIGADSR 47
GTT + ++ GVV+ D R
Sbjct: 28 GTTALGIKCKEGVVLAVDKR 47
>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 = 24.1 bits (53), Expect = 3.4
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 28 GTTIIAVEFDGGVVIGADSR 47
GTT + ++ GVV+ D R
Sbjct: 29 GTTAVGIKTKDGVVLAVDKR 48
>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 = 23.8 bits (52), Expect = 4.0
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 28 GTTIIAVEFDGGVVIGADSRSS 49
G T++A+ + VI D+R S
Sbjct: 8 GGTVLAIAGNDFAVIAGDTRLS 29
>gnl|CDD|202437 pfam02866, Ldh_1_C, lactate/malate dehydrogenase, alpha/beta
C-terminal domain. L-lactate dehydrogenases are
metabolic enzymes which catalyze the conversion of
L-lactate to pyruvate, the last step in anaerobic
glycolysis. L-2-hydroxyisocaproate dehydrogenases are
also members of the family. Malate dehydrogenases
catalyze the interconversion of malate to oxaloacetate.
The enzyme participates in the citric acid cycle.
L-lactate dehydrogenase is also found as a lens
crystallin in bird and crocodile eyes.
Length = 173
Score = 23.8 bits (52), Expect = 4.1
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 4/22 (18%)
Query: 7 NVNAY----HGGVEAPDWLTAK 24
+VN Y H G + PDW AK
Sbjct: 22 SVNVYVIGEHSGTQFPDWSHAK 43
>gnl|CDD|107148 PHA02145, PHA02145, hypothetical protein.
Length = 230
Score = 23.4 bits (50), Expect = 6.3
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 2 WNKDYNVNAYHGGVEAPDWLT 22
W+ +N Y G + AP+W T
Sbjct: 9 WSIGFNAVGYTGSLPAPNWGT 29
>gnl|CDD|234748 PRK00402, PRK00402, 3-isopropylmalate dehydratase large subunit;
Reviewed.
Length = 418
Score = 23.2 bits (51), Expect = 6.6
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 38 GGVVIGADSRSST 50
G VV+GADS + T
Sbjct: 114 GDVVVGADSHTCT 126
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
0.315 0.132 0.426
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 2,471,164
Number of extensions: 147248
Number of successful extensions: 194
Number of sequences better than 10.0: 1
Number of HSP's gapped: 194
Number of HSP's successfully gapped: 27
Length of query: 50
Length of database: 10,937,602
Length adjustment: 23
Effective length of query: 27
Effective length of database: 9,917,460
Effective search space: 267771420
Effective search space used: 267771420
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 (24.2 bits)