RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5101
(111 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 = 186 bits (475), Expect = 6e-62
Identities = 75/111 (67%), Positives = 91/111 (81%)
Query: 1 AYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLF 60
+YVANRV DKLT++ D IYCCRSGSAADTQAI+D+V Y LD+ +ELGE PLV + A LF
Sbjct: 24 SYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLF 83
Query: 61 QELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTY 111
+ L Y+Y++ L+AGII AGWD + GGQVY IPLGGML+RQ A+GGSGSTY
Sbjct: 84 KNLCYNYKEMLSAGIIVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTY 134
>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 = 108 bits (273), Expect = 3e-31
Identities = 40/111 (36%), Positives = 58/111 (52%), Gaps = 1/111 (0%)
Query: 2 YVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQ 61
VA+R DK+ +++DNI +GSAADTQA++ + NL L + G E V + A L
Sbjct: 25 LVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLS 84
Query: 62 ELVYSYR-DSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTY 111
++YSYR +I G D+ G +Y + G L+ GSGS Y
Sbjct: 85 NILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKY 135
>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 = 93.7 bits (234), Expect = 2e-25
Identities = 37/113 (32%), Positives = 56/113 (49%), Gaps = 3/113 (2%)
Query: 2 YVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQ 61
VA+ +K+ ++ D+I C +G AAD Q + + + L R+ GE V + AKL
Sbjct: 25 LVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLA 84
Query: 62 ELVYSYRDSLT---AGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTY 111
L+Y Y SL ++ AG D + G Q+Y + G + K GSGS Y
Sbjct: 85 NLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPSGSYIEYKATAIGSGSQY 137
>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 = 86.5 bits (215), Expect = 1e-22
Identities = 31/113 (27%), Positives = 48/113 (42%), Gaps = 4/113 (3%)
Query: 3 VANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLV----YSGAK 58
++ +K+ ++ D+I +G AAD Q + D+ L R+ G V K
Sbjct: 31 LSKDTVEKIFKIDDHIGMAFAGLAADAQTLVDYARAEAQLYRLRYGRPISVELAKRIADK 90
Query: 59 LFQELVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTY 111
L YS R ++ AG+D G +Y I G ++ K GSGS Y
Sbjct: 91 LQAYTQYSGRRPYGVSLLIAGYDEDGGPHLYSIDPSGSVIEYKATAIGSGSQY 143
>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 = 74.2 bits (183), Expect = 6e-18
Identities = 34/107 (31%), Positives = 61/107 (57%), Gaps = 1/107 (0%)
Query: 3 VANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQE 62
VA++ +K+ + NIYCC +G+AADT+A+++ +S NL+L R+ G +P V + + ++
Sbjct: 26 VADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQ 85
Query: 63 LVYSYRDSLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGS 109
++ Y+ + A ++ G D G +Y I G + GSGS
Sbjct: 86 HLFRYQGHIGAALVLGGVD-YTGPHLYSIYPHGSTDKLPFVTMGSGS 131
>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 = 68.6 bits (168), Expect = 7e-16
Identities = 32/113 (28%), Positives = 46/113 (40%), Gaps = 4/113 (3%)
Query: 2 YVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQ 61
VA K+ + D I +G AAD Q + + L L R+ GE V + AK
Sbjct: 25 PVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELA 84
Query: 62 ELVYSYRDS--LTAGIICAGWDRKKGGQVYCIPLGGMLMRQ-KMAMGGSGSTY 111
+L+ Y +I AG D + GG +Y I G ++ GS S
Sbjct: 85 KLLQVYTQGRPFGVNLIVAGVD-EGGGNLYYIDPSGPVIENPGAVATGSRSQR 136
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 68.1 bits (167), Expect = 3e-15
Identities = 30/113 (26%), Positives = 49/113 (43%), Gaps = 4/113 (3%)
Query: 2 YVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQ 61
+A+ +K+ ++ D+I +G AAD Q + + L R+ GE V + AKL
Sbjct: 55 LIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLS 114
Query: 62 ELVYSYRDS---LTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTY 111
++ Y S ++ AG D G ++Y G K GSGS +
Sbjct: 115 NILQEYTQSGRPYGVSLLVAGVD-DGGPRLYSTDPSGSYNEYKATAIGSGSQF 166
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 52.3 bits (125), Expect = 3e-09
Identities = 30/112 (26%), Positives = 53/112 (47%), Gaps = 2/112 (1%)
Query: 1 AYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLF 60
Y+A++ K+ + + +G AAD ++ L + GE V + +K+
Sbjct: 63 PYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELISVAAASKIL 122
Query: 61 QELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTY 111
+V++Y+ L+ G + GWD KKG ++ + G + M GSGSTY
Sbjct: 123 ANIVWNYKGMGLSMGTMICGWD-KKGPGLFYVDNDGTRLHGNMFSCGSGSTY 173
>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 = 49.2 bits (118), Expect = 2e-08
Identities = 26/112 (23%), Positives = 51/112 (45%), Gaps = 4/112 (3%)
Query: 2 YVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQ 61
++A++ K+ ++ D I +GS D Q++ + L + G + + A L
Sbjct: 25 FIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLS 84
Query: 62 ELVYSYRD-SLTAGIICAGWDRKKGGQVYCI-PLGGMLMRQKMAMGGSGSTY 111
++ S + ++ G D ++G +Y + PLG + + K GSGS Y
Sbjct: 85 NILNSSKYFPYIVQLLIGGVD-EEGPHLYSLDPLGSI-IEDKYTATGSGSPY 134
>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 = 48.7 bits (117), Expect = 3e-08
Identities = 28/112 (25%), Positives = 50/112 (44%), Gaps = 4/112 (3%)
Query: 2 YVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQ 61
+VA++ A K+ ++ D I +GS D Q++ + L + G V + A L
Sbjct: 26 FVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLS 85
Query: 62 ELVYSYR-DSLTAGIICAGWDRKKGGQVYCI-PLGGMLMRQKMAMGGSGSTY 111
++ S R ++ G D ++G +Y + P GG+ + GSGS
Sbjct: 86 NILNSNRFFPFIVQLLVGGVD-EEGPHLYSLDPAGGI-IEDDYTATGSGSPV 135
>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 = 44.2 bits (105), Expect = 2e-06
Identities = 30/112 (26%), Positives = 52/112 (46%), Gaps = 2/112 (1%)
Query: 1 AYVANRVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLF 60
+Y+A++ K+ + + +G AAD Q + L + E V + +KL
Sbjct: 24 SYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAASKLL 83
Query: 61 QELVYSYRD-SLTAGIICAGWDRKKGGQVYCIPLGGMLMRQKMAMGGSGSTY 111
++Y Y+ L+ G + GWD K G +Y + G ++ + GSGSTY
Sbjct: 84 SNMLYQYKGMGLSMGTMICGWD-KTGPGLYYVDSDGTRLKGDLFSVGSGSTY 134
>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 = 33.2 bits (77), Expect = 0.011
Identities = 21/92 (22%), Positives = 36/92 (39%), Gaps = 15/92 (16%)
Query: 10 KLTRVTDNIYCCRSGSAADTQAISDF-----VSYNLDLQRMELGEEPLVYSGAKLFQELV 64
K+ ++ D+I C +G AD + + + +Y R GE V K +L
Sbjct: 59 KIFKIDDHIGCAVAGLTADARVLVNRARVEAQNY-----RYTYGEPIPVEVLVKRIADLA 113
Query: 65 -----YSYRDSLTAGIICAGWDRKKGGQVYCI 91
Y ++ AG+D + G Q+Y
Sbjct: 114 QVYTQYGGVRPFGVSLLIAGYDEEGGPQLYQT 145
>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 = 31.0 bits (71), Expect = 0.066
Identities = 23/86 (26%), Positives = 42/86 (48%), Gaps = 3/86 (3%)
Query: 9 DKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQ-ELVYSY 67
DK+ +++D+ SG A D ++++ N+ L +M G E + A + EL S
Sbjct: 33 DKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESL 92
Query: 68 R--DSLTAGIICAGWDRKKGGQVYCI 91
R ++ AG+D+ +G +Y I
Sbjct: 93 RSRTPYQVNLLLAGYDKVEGPSLYYI 118
>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 = 28.0 bits (63), Expect = 0.99
Identities = 27/100 (27%), Positives = 41/100 (41%), Gaps = 14/100 (14%)
Query: 6 RVADKLT---------RVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSG 56
+V DKL R+TD I C +G AD+++ Y + + G E V
Sbjct: 48 KVPDKLIDPSTVTHLFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVL 107
Query: 57 AKLFQEL--VYSYRDS---LTAGIICAGWDRKKGGQVYCI 91
AK ++ VY+ L +I G D + G Q+Y
Sbjct: 108 AKRIADINQVYTQHAYMRPLGVSMILIGIDEELGPQLYKC 147
>gnl|CDD|203210 pfam05218, DUF713, Protein of unknown function (DUF713). This
family contains several proteins of unknown function
from C.elegans. The GO annotation suggests that this
protein is involved in nematode development and has a
positive regulation on growth rate.
Length = 182
Score = 27.0 bits (60), Expect = 1.8
Identities = 10/42 (23%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 30 QAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSL 71
DFV+ + ++ E E + +F E V+S + +L
Sbjct: 50 TKFDDFVN-EIAFKKSEEEESTEIQEEISIFAEKVFSAQYTL 90
>gnl|CDD|130607 TIGR01544, HAD-SF-IE, haloacid dehalogenase superfamily,
subfamily IE hydrolase, TIGR01544. This model
represents a small group of metazoan sequences. The
sequences from mouse are annotated as Pyrimidine
5'-nucleotidases, aparrently in reference to HSPC233,
the human homolog. However, no such annotation can
currently be found for this gene. This group of
sequences was found during searches for members of the
haloacid dehalogenase (HAD) superfamily. All of the
conserved catalytic motifs are found. The placement of
the variable domain between motifs 1 and 2 indicates
membership in subfamily I of the superfamily, but these
sequences are sufficiently different from any of the
branches (IA, TIGR01493, TIGR01509, TIGR01549; IB,
TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545)
of that subfamily as to constitute a separate branch to
now be called IE. Considering that the closest
identifiable hit outside of the noise range is to a
phosphoserine phosphatase, this group may be considered
to be most closely allied to subfamily IB.
Length = 277
Score = 27.1 bits (60), Expect = 2.0
Identities = 19/44 (43%), Positives = 22/44 (50%), Gaps = 2/44 (4%)
Query: 6 RVADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGE 49
R+AD TRV + I G AA Q ISDF Y L E G+
Sbjct: 1 RMADP-TRVEEIICGLVKGGAAKLQIISDF-DYTLSRFSYEDGK 42
>gnl|CDD|179673 PRK03910, PRK03910, D-cysteine desulfhydrase; Validated.
Length = 331
Score = 25.9 bits (58), Expect = 4.4
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 82 RKKGGQVYCIPLGG 95
R +G + Y IP+GG
Sbjct: 144 RAQGRRPYVIPVGG 157
>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 = 26.1 bits (58), Expect = 4.6
Identities = 15/60 (25%), Positives = 29/60 (48%)
Query: 9 DKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYR 68
K+ R+ D +Y +G A D Q ++ + + ++L R+ E + + L L+Y R
Sbjct: 35 QKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLLYEKR 94
>gnl|CDD|227671 COG5380, LimK, Lipase chaperone [Posttranslational modification,
protein turnover, chaperones].
Length = 283
Score = 26.1 bits (57), Expect = 5.0
Identities = 16/60 (26%), Positives = 22/60 (36%), Gaps = 5/60 (8%)
Query: 23 SGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYSYRDSLTAGIICAGWDR 82
+GS AD QA D Y L GE P + Q+ V Y I + + +
Sbjct: 34 TGSLADIQAPRDLFDYFLSAL----GETPASLDEPVI-QQQVQRYEQENALLIASSLFAQ 88
>gnl|CDD|222778 PHA00148, PHA00148, lower collar protein.
Length = 242
Score = 25.7 bits (56), Expect = 5.3
Identities = 12/65 (18%), Positives = 26/65 (40%), Gaps = 6/65 (9%)
Query: 7 VADKLTRVTDNIYCCRSGSAADTQAISDFVSYNLDLQRMELGEEPLVYSGAKLFQELVYS 66
V + T + + + ++DT+ + S + E SG++ + L+
Sbjct: 165 VLEYATSIVEAN----TNGSSDTKTKNTSSSTSNSTG--NQTSESWGKSGSQSYARLIME 218
Query: 67 YRDSL 71
YR +L
Sbjct: 219 YRAAL 223
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
0.321 0.136 0.408
Gapped
Lambda K H
0.267 0.0665 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,474,894
Number of extensions: 452868
Number of successful extensions: 352
Number of sequences better than 10.0: 1
Number of HSP's gapped: 340
Number of HSP's successfully gapped: 25
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 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (24.3 bits)