RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2800
(184 letters)
>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 = 162 bits (412), Expect = 7e-51
Identities = 65/149 (43%), Positives = 91/149 (61%)
Query: 9 YVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEV 68
Y +GGTV+AIAG DFA+IA DTR S +I+S + KIF+L ++ +G SG AD L +
Sbjct: 4 YTDNGGTVLAIAGNDFAVIAGDTRLSEGYSILSRDSPKIFKLTDKCVLGSSGFQADILAL 63
Query: 69 VSRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSY 128
RL+A I + + +S A++LS +LY RR FPYYV +L GID GKG VYSY
Sbjct: 64 TKRLKARIKMYKYSHNKEMSTEAIAQLLSTILYSRRFFPYYVFNILAGIDEEGKGVVYSY 123
Query: 129 DPVGHCEKVAYRLHGTSAKFMLASMSYLL 157
DPVG E+ Y G+++ + + +
Sbjct: 124 DPVGSYERETYSAGGSASSLIQPLLDNQV 152
>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 = 121 bits (305), Expect = 5e-35
Identities = 42/138 (30%), Positives = 75/138 (54%)
Query: 14 GTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQ 73
T++ I G D ++A+DTR+S+ + S N KIF++ + +G +G+ AD+ + L+
Sbjct: 1 TTIVGIKGKDGVVLAADTRASAGSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLK 60
Query: 74 AEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVGH 133
+ G+ LS+ A +LS +LY R FPYYV +++ G+D G +Y DP+G
Sbjct: 61 RNLRLYELRNGRELSVKAAANLLSNILYSYRGFPYYVSLIVGGVDKGGGPFLYYVDPLGS 120
Query: 134 CEKVAYRLHGTSAKFMLA 151
+ + G+ +K+
Sbjct: 121 LIEAPFVATGSGSKYAYG 138
>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 = 105 bits (264), Expect = 7e-29
Identities = 44/164 (26%), Positives = 81/164 (49%), Gaps = 5/164 (3%)
Query: 14 GTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQ 73
T++ I G D ++A+D R +S + S+ KIF++ + +G AD+ +V RL+
Sbjct: 1 TTIVGIKGKDGVVLAADKRVTSGLLVASSTVEKIFKIDDHIGCAFAGLAADAQTLVERLR 60
Query: 74 AEINRSAEAKGQPLSLPGTAEMLSLLLYERR--IFPYYVQVLLVGIDGTGKGGVYSYDPV 131
E G+P+ + A++L+ LLYE + P V +L+ G+D G +YS DP
Sbjct: 61 KEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLRPLGVSLLVAGVDEEGGPQLYSVDPS 120
Query: 132 GHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALE 175
G + G+ +++ + L Y+ + + I +AL+
Sbjct: 121 GSYIEYKATAIGSGSQYA---LGILEKLYKPDMTLEEAIELALK 161
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 100 bits (250), Expect = 2e-26
Identities = 51/175 (29%), Positives = 87/175 (49%), Gaps = 6/175 (3%)
Query: 3 EAMLEHYVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNM 62
E LE + G T + I G D ++A+D R++S I S+N KIF++ + + I+G
Sbjct: 20 EYALEAVKRGGTTTVGIKGKDGVVLAADKRATSGLLIASSNVEKIFKIDDHIGMAIAGLA 79
Query: 63 ADSLEVVSRLQAEINRSAEAKGQPLSLPGTAEMLSLLLYERR--IFPYYVQVLLVGIDGT 120
AD+ +V +AE G+P+S+ A++LS +L E PY V +L+ G+D
Sbjct: 80 ADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQSGRPYGVSLLVAGVD-D 138
Query: 121 GKGGVYSYDPVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALE 175
G +YS DP G + G+ ++F +L Y + + I +A++
Sbjct: 139 GGPRLYSTDPSGSYNEYKATAIGSGSQFA---YGFLEKEYREDLSLEEAIELAVK 190
>gnl|CDD|215805 pfam00227, Proteasome, Proteasome subunit. The proteasome is a
multisubunit structure that degrades proteins. Protein
degradation is an essential component of regulation
because proteins can become misfolded, damaged, or
unnecessary. Proteasomes and their homologues vary
greatly in complexity: from HslV (heat shock locus v),
which is encoded by 1 gene in bacteria, to the
eukaryotic 20S proteasome, which is encoded by more than
14 genes. Recently evidence of two novel groups of
bacterial proteasomes was proposed. The first is Anbu,
which is sparsely distributed among cyanobacteria and
proteobacteria. The second is call beta-proteobacteria
proteasome homologue (BPH).
Length = 188
Score = 90.3 bits (225), Expect = 4e-23
Identities = 42/173 (24%), Positives = 80/173 (46%), Gaps = 4/173 (2%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQL-KIFRLPNQTAVGISGNMADSLEV 68
V+ G T++ I G D ++A+D R++ ++S + + KIF++ + + +G AD+ +
Sbjct: 1 VKTGTTIVGIKGKDGVVLAADKRATRGSKLLSKDTVEKIFKIDDHIGMAFAGLAADAQTL 60
Query: 69 VSRLQAEINRSAEAKGQPLSLPGT---AEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGV 125
V +AE G+P+S+ A+ L PY V +L+ G D G +
Sbjct: 61 VDYARAEAQLYRLRYGRPISVELAKRIADKLQAYTQYSGRRPYGVSLLIAGYDEDGGPHL 120
Query: 126 YSYDPVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEELT 178
YS DP G + G+ +++ + L P + + ++ AL+E
Sbjct: 121 YSIDPSGSVIEYKATAIGSGSQYAYGFLEKLYKPDMTLEEAVELAVKALKEAI 173
>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 = 82.1 bits (203), Expect = 4e-20
Identities = 42/164 (25%), Positives = 79/164 (48%), Gaps = 6/164 (3%)
Query: 14 GTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQ 73
T +AI G ++A+D R SS + + +KI + + A G++G AD+ +V RL+
Sbjct: 1 STSVAIKGKGGVVLAADKRLSSGLPVAGSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLR 60
Query: 74 AEINRSAEAKGQPLSLPGTAEMLSLLLYERR-IFPYYVQVLLVGIDGTGKGGVYSYDPVG 132
+ G+P+S+ A+ L+ LL P+ V +++ G+D G G +Y DP G
Sbjct: 61 EALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNLIVAGVDEGG-GNLYYIDPSG 119
Query: 133 HCEKVAYRL-HGTSAKFMLASMSYLLSPYESEFDYTDVITMALE 175
+ + G+ ++ S L Y+ + + + +AL+
Sbjct: 120 PVIENPGAVATGSRSQRA---KSLLEKLYKPDMTLEEAVELALK 160
>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 = 79.2 bits (196), Expect = 8e-19
Identities = 40/140 (28%), Positives = 76/140 (54%), Gaps = 3/140 (2%)
Query: 13 GGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRL 72
GG V+A+AG D IASD R VS + K+FR+ ++ +G++G D + +L
Sbjct: 3 GGAVVAMAGKDCVAIASDLRLGVQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKL 62
Query: 73 QAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVG 132
+ +N + + + + ++S LLYE+R PY+V+ ++ G+D GK + + D +G
Sbjct: 63 RFRVNLYRLREEREIKPKTFSSLISSLLYEKRFGPYFVEPVVAGLDPDGKPFICTMDLIG 122
Query: 133 HCEKVA--YRLHGTSAKFML 150
C + + + GT+++ +
Sbjct: 123 -CPSIPSDFVVSGTASEQLY 141
>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 = 75.4 bits (186), Expect = 2e-17
Identities = 42/118 (35%), Positives = 70/118 (59%), Gaps = 1/118 (0%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T + I D ++A+D R+S I S N KIF++ ++ A+ I+G++ D+ +V L+A
Sbjct: 2 TTVGIVCKDGVVLAADKRASMGNFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKA 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVG 132
E +G+P+S+ A +LS +L + FPY VQ+L+ G+D G +YS DP+G
Sbjct: 62 EARLYELRRGRPMSIKALATLLSNILNSSKYFPYIVQLLIGGVDEEG-PHLYSLDPLG 118
>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 = 72.2 bits (178), Expect = 3e-16
Identities = 41/120 (34%), Positives = 69/120 (57%), Gaps = 1/120 (0%)
Query: 13 GGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRL 72
G T + I D ++A+D R+S + S N K+F++ + A+ I+G++ D+ +V L
Sbjct: 1 GTTTVGIKCKDGVVLAADKRASMGNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRIL 60
Query: 73 QAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVG 132
+AE +G+P+S+ A +LS +L R FP+ VQ+L+ G+D G +YS DP G
Sbjct: 61 KAEAKLYELRRGRPMSVKALATLLSNILNSNRFFPFIVQLLVGGVDEEG-PHLYSLDPAG 119
>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 = 70.9 bits (174), Expect = 2e-15
Identities = 53/173 (30%), Positives = 85/173 (49%), Gaps = 12/173 (6%)
Query: 12 HGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSR 71
HG T++A+ P L+A D R++ I S + K++ +AVGI+G ++E+V
Sbjct: 1 HGTTIVALTYPGGVLMAGDRRATQGNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRL 60
Query: 72 LQAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQ-----VLLVGID-GTGKGGV 125
Q E+ + +G PL+L G A L+ ++ R P +Q LL G D G G +
Sbjct: 61 FQVELEHYEKIEGVPLTLDGKANRLAAMV--RGNLPAAMQGLAVVPLLAGYDLDAGAGRI 118
Query: 126 YSYDPVGHC-EKVAYRLHGTSAKFMLASMSYLLSPYESEFDYTDVITMALEEL 177
+SYD G E+ Y G+ + F ++ L SP E D + +A+E L
Sbjct: 119 FSYDVTGGRYEERGYHAVGSGSVFAKGALKKLYSPDLDE---DDALRVAVEAL 168
>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 = 64.9 bits (159), Expect = 2e-13
Identities = 41/141 (29%), Positives = 65/141 (46%), Gaps = 2/141 (1%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T++ I G DF ++A+DT ++ + ++ +++ KI++L + + SG D L+ +Q
Sbjct: 3 TLIGIKGKDFVILAADTSAARSILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQK 62
Query: 75 EINRSAEAKGQPLSLPGTAEML--SLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVG 132
I G LS A L R PY V +LL G D +Y D +G
Sbjct: 63 NIQLYKMRNGYELSPKAAANFTRRELAESLRSRTPYQVNLLLAGYDKVEGPSLYYIDYLG 122
Query: 133 HCEKVAYRLHGTSAKFMLASM 153
KV Y HG A F L+ +
Sbjct: 123 TLVKVPYAAHGYGAYFCLSIL 143
>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 = 55.3 bits (134), Expect = 8e-10
Identities = 34/113 (30%), Positives = 55/113 (48%), Gaps = 3/113 (2%)
Query: 13 GGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRL 72
G +V+AI D +IA+DT S N +IF++ + T +G SG+ AD + L
Sbjct: 2 GTSVIAIKYKDGVIIAADTLGSYGSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLL 61
Query: 73 -QAEINRSAEAKGQPLSLPGTAEMLSLLLYERR--IFPYYVQVLLVGIDGTGK 122
Q I+ G LS L+ +LY RR + P + +++ G+D G+
Sbjct: 62 DQLVIDDECLDDGHSLSPKEIHSYLTRVLYNRRSKMNPLWNTLVVGGVDNEGE 114
>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 = 45.9 bits (110), Expect = 2e-06
Identities = 40/175 (22%), Positives = 80/175 (45%), Gaps = 14/175 (8%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V++G T + I G D ++A + + +S + ++ KIF++ + ++G AD+ +V
Sbjct: 24 VKNGSTAVGIKGKDGVVLAVEKKVTS-KLLDPSSVEKIFKIDDHIGCAVAGLTADARVLV 82
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTGKG 123
+R + E G+P+ + + ++ L R P+ V +L+ G D G
Sbjct: 83 NRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVR--PFGVSLLIAGYDEEGGP 140
Query: 124 GVYSYDPVGHCEKVAYRLHGTSA-KFMLASMSYLLSPYESEFDYTDVITMALEEL 177
+Y DP G Y+ T+ K + ++L Y+ + + I +AL+ L
Sbjct: 141 QLYQTDPSGTY--FGYK--ATAIGKGSQEAKTFLEKRYKKDLTLEEAIKLALKAL 191
>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 = 37.7 bits (88), Expect = 0.001
Identities = 26/118 (22%), Positives = 52/118 (44%), Gaps = 11/118 (9%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V+ G + + A++ + R++S +S+ Q KIF++ + + I+G AD+ +
Sbjct: 24 VKQGSATVGLKSKTHAVLVALKRATSE---LSSYQKKIFKVDDHIGIAIAGLTADARVLS 80
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSLLL------YERRIFPYYVQVLLVGIDGTG 121
++ E P+ + ++ Y RR PY V +L+ G D +G
Sbjct: 81 RYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRR--PYGVGLLIAGYDESG 136
>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 = 33.7 bits (78), Expect = 0.029
Identities = 38/185 (20%), Positives = 76/185 (41%), Gaps = 26/185 (14%)
Query: 11 QHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVS 70
G T +A+ G D A++ + + + I + +FR+ ++ ++G +ADS V
Sbjct: 27 NAGLTSVAVRGKDCAVVVTQ-KKVPDKLIDPSTVTHLFRITDEIGCVMTGMIADSRSQVQ 85
Query: 71 RLQAEINRSAEAK---GQPLSLPGTAEMLS--------LLLYERRIFPYYVQVLLVGIDG 119
R + E +AE K G + ++L+ + + P V ++L+GID
Sbjct: 86 RARYE---AAEFKYKYGYEM----PVDVLAKRIADINQVYTQHAYMRPLGVSMILIGIDE 138
Query: 120 TGKGGVYSYDPVGHCEKVAYRLHGTSAKFMLASMSYLLSPYESE----FDYTDVITMALE 175
+Y DP G+ Y+ K + ++L + + Y + + +A+
Sbjct: 139 ELGPQLYKCDPAGYF--AGYKATAAGVK-EQEATNFLEKKLKKKPDLIESYEETVELAIS 195
Query: 176 ELTPV 180
L V
Sbjct: 196 CLQTV 200
>gnl|CDD|234057 TIGR02915, PEP_resp_reg, PEP-CTERM-box response regulator
transcription factor. Members of this protein family
share full-length homology with (but do not include) the
acetoacetate metabolism regulatory protein AtoC (see
SP|Q06065). These proteins have a Fis family DNA binding
sequence (pfam02954), a response regulator receiver
domain (pfam00072), and sigma-54 interaction domain
(pfam00158) [Regulatory functions, DNA interactions].
Length = 445
Score = 33.6 bits (77), Expect = 0.050
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 5/58 (8%)
Query: 69 VSRLQAEINRSAEAKGQPLSLPG----TAEMLSLLLYERRIFPYYVQVLLVGIDGTGK 122
+ L+ E NR ++ +L G + M + +I P + VLL+G GTGK
Sbjct: 119 LYTLETE-NRRLQSALGGTALRGLITSSPGMQKICRTIEKIAPSDITVLLLGESGTGK 175
>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 = 32.6 bits (75), Expect = 0.069
Identities = 22/113 (19%), Positives = 52/113 (46%), Gaps = 1/113 (0%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQA 74
T++A+ ++ +D+R+S+ + + K+ +L ++ SG+ AD+ + ++
Sbjct: 2 TIIAVEYDGGVVLGADSRTSTGSYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRY 61
Query: 75 EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYS 127
++ + G+P + A + L Y + +++ G D G VYS
Sbjct: 62 YLDMHSIELGEPPLVKTAASLFKNLCYNYKEM-LSAGIIVAGWDEQNGGQVYS 113
>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 = 32.6 bits (75), Expect = 0.071
Identities = 42/152 (27%), Positives = 75/152 (49%), Gaps = 17/152 (11%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSN-NQLKIFRL-PNQTAVGISGNMADSLEVVSRL 72
T++ + D ++ +DTR++ G IV++ N KI + PN G +G AD+ V + +
Sbjct: 2 TIVGVVFKDGVVLGADTRATE-GPIVADKNCEKIHYIAPNIYCCG-AGTAADTEAVTNMI 59
Query: 73 QAEINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPY--YVQVLLV--GIDGTGKGGVYSY 128
+ + G+ P L++L ++ +F Y ++ LV G+D TG +YS
Sbjct: 60 SSNLELHRLNTGR---KPRVVTALTML--KQHLFRYQGHIGAALVLGGVDYTGP-HLYSI 113
Query: 129 DPVGHCEKVAYRLHGTSAKFMLASMSYLLSPY 160
P G +K+ + G+ + LA+MS L Y
Sbjct: 114 YPHGSTDKLPFVTMGSGS---LAAMSVLEDRY 142
>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 = 32.3 bits (74), Expect = 0.083
Identities = 25/129 (19%), Positives = 57/129 (44%), Gaps = 11/129 (8%)
Query: 13 GGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRL 72
G T + I + ++A + R +S + ++ KI + + +SG +AD+ ++
Sbjct: 27 GSTAIGIKTKEGVVLAVEKRITSP-LMEPSSVEKIMEIDDHIGCAMSGLIADARTLIDHA 85
Query: 73 QAEINRSAEAKGQPLSLPGTAEMLSLLLYE-------RRIF--PYYVQVLLVGIDGTGKG 123
+ E +P+++ + +S L + ++ P+ V +L+ G+D G
Sbjct: 86 RVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSRPFGVALLIAGVDENGP- 144
Query: 124 GVYSYDPVG 132
++ DP G
Sbjct: 145 QLFHTDPSG 153
>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 = 29.6 bits (67), Expect = 0.81
Identities = 31/131 (23%), Positives = 57/131 (43%), Gaps = 10/131 (7%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V++ GT + I D ++A + +S + +IF + + ++G +AD +V
Sbjct: 27 VENSGTAIGIRCKDGVVLAVEKLVTSK-LYEPGSNKRIFNVDRHIGIAVAGLLADGRHLV 85
Query: 70 SRLQAEINRSAEAKGQPLSLPGTAEMLSL------LLYERRIFPYYVQVLLVGIDGTGKG 123
SR + E + G P+ + A+ +++ L R P+ VLL G D G
Sbjct: 86 SRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVR--PFGCSVLLGGYDSDG-P 142
Query: 124 GVYSYDPVGHC 134
+Y +P G
Sbjct: 143 QLYMIEPSGVS 153
>gnl|CDD|217950 pfam04187, DUF399, Protein of unknown function, DUF399. No
function is known for any member of this family.
Length = 213
Score = 29.1 bits (66), Expect = 1.1
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 1 MTEAMLEHYVQHGGTVMAIAG 21
M E+++ +HGG V+ IAG
Sbjct: 177 MAESIVRALAEHGGPVVLIAG 197
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type
ATPase, and DNA-binding domains [Transcription / Signal
transduction mechanisms].
Length = 560
Score = 28.8 bits (65), Expect = 1.7
Identities = 24/99 (24%), Positives = 37/99 (37%), Gaps = 9/99 (9%)
Query: 30 DTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVVSRLQAEINRSAEAKGQPLSL 89
D + NG + N ++ + +G+ G D E+ RL E+ S
Sbjct: 186 DVVQTYNGNKIIVNVAPVYA--DGQLIGVVGISKDVSEL-ERLTRELEESEGLLRLKAKY 242
Query: 90 PGT------AEMLSLLLYERRIFPYYVQVLLVGIDGTGK 122
ML +L +RI VL++G GTGK
Sbjct: 243 TFDDIIGESPAMLRVLELAKRIAKTDSTVLILGESGTGK 281
>gnl|CDD|143653 cd07912, Tweety_N, N-terminal domain of the protein encoded by the
Drosophila tweety gene and related proteins, a family of
chloride ion channels. The protein product of the
Drosophila tweety (tty) gene is thought to form a
trans-membrane protein with five membrane-spanning
regions and a cytoplasmic C-terminus. This N-terminal
domain contains the putative transmembrane spanning
regions. Tweety has been suggested as a candidate for a
large conductance chloride channel, both in vertebrate
and insect cells. Three human homologs have been
identified and designated TTYH1-3. TTYH2 has been
associated with the progression of cancer, and
Drosophila melanogaster tweety has been assumed to play
a role in development. TTYH2, and TTYH3 bind to and are
ubiquinated by Nedd4-2, a HECT type E3 ubiquitin ligase,
which most likely plays a role in controlling the
cellular levels of tweety family proteins.
Length = 418
Score = 28.8 bits (65), Expect = 1.9
Identities = 14/62 (22%), Positives = 25/62 (40%), Gaps = 9/62 (14%)
Query: 61 NMADSLEVVSRLQA-------EINRSAEAKGQPLSLPGTAEMLSLLLYERRIFPYYVQVL 113
N D L++V LQ ++ +SL A+ +SL R + Y+ +L
Sbjct: 159 NKTDYLQIVQGLQQMATNAAQQLTGIPFWSLVGVSLTKLADQVSLYESYR--WLAYLGLL 216
Query: 114 LV 115
+
Sbjct: 217 SL 218
>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 = 28.4 bits (64), Expect = 2.0
Identities = 25/106 (23%), Positives = 49/106 (46%), Gaps = 4/106 (3%)
Query: 26 LIASDTRSSSNGTIVSNNQLKIFRLPNQTAVG-ISGNMADSLEVVSRLQAEINRSAE-AK 83
++A D+R+++ I S K+ + N +G ++G AD R+ R E
Sbjct: 13 IVAVDSRATAGSYIASQTVKKVIEI-NPYLLGTMAGGAADCQ-YWERVLGRECRLYELRN 70
Query: 84 GQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVYSYD 129
+ +S+ +++LS +LY+ + + ++ G D TG G Y
Sbjct: 71 KERISVAAASKLLSNMLYQYKGMGLSMGTMICGWDKTGPGLYYVDS 116
>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 = 28.1 bits (63), Expect = 2.1
Identities = 41/184 (22%), Positives = 81/184 (44%), Gaps = 24/184 (13%)
Query: 10 VQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEVV 69
V+ G T + + G D ++ + +S + + KI L + + +G AD+ ++
Sbjct: 24 VRKGTTAVGVRGKDCVVLGVEKKSVAKLQDPRTVR-KICMLDDHVCLAFAGLTADARVLI 82
Query: 70 SRLQAEINRSAEAKGQPLSL--PGTAEMLSLLL------YERR--IFPYYVQVLLVGIDG 119
+R + E + L++ P T E ++ + Y + + P+ + L+VG D
Sbjct: 83 NRARLE------CQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGISTLIVGFDP 136
Query: 120 TGKGGVYSYDPVGHCEKVAYRLH--GTSAKFMLASMSYLLSPYESEFDYTDVITMALEEL 177
G +Y DP G A++ + G ++K + +L Y+ E D I +A++ L
Sbjct: 137 DGTPRLYQTDPSG--TYSAWKANAIGRNSKTVR---EFLEKNYKEEMTRDDTIKLAIKAL 191
Query: 178 TPVV 181
VV
Sbjct: 192 LEVV 195
>gnl|CDD|176652 cd06140, DNA_polA_I_Bacillus_like_exo, inactive DEDDy 3'-5'
exonuclease domain of Bacillus stearothermophilus DNA
polymerase I and similar family-A DNA polymerases.
Bacillus stearothermophilus-like Polymerase I (Pol I), a
subgroup of the family-A DNA polymerases, contains an
inactive DnaQ-like 3'-5' exonuclease domain in the same
polypeptide chain as the polymerase region. The
exonuclease-like domain of these proteins possess the
same fold as the Klenow fragment (KF) of Escherichia
coli Pol I, but does not contain the four critical
metal-binding residues necessary for activity. The
function of this domain is unknown. It might act as a
spacer between the polymerase and the 5'-3' exonuclease
domains. Some members of this subgroup, such as those
from Bacillus sphaericus and Thermus aquaticus, are
thermostable DNA polymerases.
Length = 178
Score = 27.6 bits (62), Expect = 2.9
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 141 LHGTSAKFMLASMSYLLSPYESEFDYTDVI 170
L G + MLA+ YLL P S +D D+
Sbjct: 78 LAGVAFDTMLAA--YLLDPTRSSYDLADLA 105
>gnl|CDD|215137 PLN02246, PLN02246, 4-coumarate--CoA ligase.
Length = 537
Score = 27.6 bits (62), Expect = 3.9
Identities = 18/47 (38%), Positives = 23/47 (48%), Gaps = 10/47 (21%)
Query: 1 MTEAMLEHYVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKI 47
MTEA G V+A+ FA +S S GT+V N +LKI
Sbjct: 333 MTEA---------GPVLAMC-LAFAKEPFPVKSGSCGTVVRNAELKI 369
>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 = 27.2 bits (61), Expect = 3.9
Identities = 16/65 (24%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 15 TVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRL-PNQTAVGISGNMADSLEVVSRLQ 73
T++A+ +IA D + + T++ N K+ RL + G +G+ AD+ + R +
Sbjct: 2 TILAVRKNGKVVIAGDGQVTLGNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFE 61
Query: 74 AEINR 78
A++ +
Sbjct: 62 AKLEQ 66
>gnl|CDD|188352 TIGR03605, antibiot_sagB, SagB-type dehydrogenase domain. SagB of
Sterptococcus pyogenes participates in the maturation of
streptolysin S from a ribosomally produced precursor
polypeptide. Chemically similar systems operate on
highly diverse sets of bacteriocin precursors in
numerous other bacteria. This model describes a domain
within SgaB and homologous regions from other proteins,
many of which appear to be involved in biosynthesis of
secondary metabolites. While some substrates may be
intermediates in non-ribosomal peptide syntheses, others
are involved in heterocycle-containing bacteriocin
biosynthesis, and can be found near SgaC-like (see
TIGR03603, cyclodehydratase) and SgaD-like (see
TIGR03604, "docking") proteins. Members of this domain
family are heterogeneous in length, as many have a
partial second copy of the domain represented here. The
incomplete second domain scores below the cutoffs to
this model in most cases.
Length = 173
Score = 26.9 bits (60), Expect = 5.1
Identities = 13/35 (37%), Positives = 16/35 (45%), Gaps = 6/35 (17%)
Query: 100 LYERRIFPYYVQVLLVGIDGTGKGGVYSYDPVGHC 134
LY I+ Y + I+G GVY YDP H
Sbjct: 38 LYPLEIYLY-----VKNIEGL-PDGVYHYDPEEHR 66
>gnl|CDD|235888 PRK06928, PRK06928, pyrroline-5-carboxylate reductase; Reviewed.
Length = 277
Score = 27.0 bits (60), Expect = 6.5
Identities = 14/36 (38%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 6 LEHYVQHGGTVMAIAGPDFALIASDTRSSSNGTIVS 41
LE + H VM I + IAS+ SSS G I +
Sbjct: 147 LEETLSHFSHVMTIREENMD-IASNLTSSSPGFIAA 181
>gnl|CDD|215050 PLN00077, PLN00077, photosystem II reaction centre W protein;
Provisional.
Length = 128
Score = 26.2 bits (57), Expect = 7.4
Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 6/36 (16%)
Query: 14 GTVMAIAGPDFALIASDTRSSSNGT----IVSNNQL 45
MA A P FAL+ D R S+ GT +SNN L
Sbjct: 62 AATMAYAHPAFALV--DERMSTEGTGLSLGLSNNLL 95
>gnl|CDD|221899 pfam13023, HD_3, HD domain. HD domains are metal dependent
phosphohydrolases.
Length = 163
Score = 26.4 bits (59), Expect = 7.7
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 1/28 (3%)
Query: 148 FMLASMSYLLSPY-ESEFDYTDVITMAL 174
+ +A M+ LL+ Y D VI M L
Sbjct: 27 WHVALMALLLAEYAGEGVDIARVIKMLL 54
>gnl|CDD|233212 TIGR00963, secA, preprotein translocase, SecA subunit. The
proteins SecA-F and SecY, not all of which are
necessary, comprise the standard prokaryotic protein
translocation apparatus. Other, specialized
translocation systems also exist but are not as broadly
distributed. This model describes SecA, an essential
member of the apparatus. This model excludes SecA2 of
the accessory secretory system [Protein fate, Protein
and peptide secretion and trafficking].
Length = 745
Score = 26.5 bits (59), Expect = 9.6
Identities = 16/29 (55%), Positives = 18/29 (62%), Gaps = 6/29 (20%)
Query: 82 AKGQPLSLPGTA-----EMLSLLLYERRI 105
AKGQP+ L GT E+LS LL ER I
Sbjct: 403 AKGQPV-LVGTTSVEKSELLSNLLKERGI 430
>gnl|CDD|185666 PTZ00488, PTZ00488, Proteasome subunit beta type-5; Provisional.
Length = 247
Score = 26.5 bits (58), Expect = 9.7
Identities = 26/119 (21%), Positives = 52/119 (43%), Gaps = 2/119 (1%)
Query: 9 YVQHGGTVMAIAGPDFALIASDTRSSSNGTIVSNNQLKIFRLPNQTAVGISGNMADSLEV 68
HG T +A +IA D+++++ I S + K+ + N T +G A
Sbjct: 35 EFAHGTTTLAFKYGGGIIIAVDSKATAGPYIASQSVKKVIEI-NPTLLGTMAGGAADCSF 93
Query: 69 VSRLQAEINRSAEAK-GQPLSLPGTAEMLSLLLYERRIFPYYVQVLLVGIDGTGKGGVY 126
R A R E + G+ +S+ +++L+ +++ + + ++ G D G G Y
Sbjct: 94 WERELAMQCRLYELRNGELISVAAASKILANIVWNYKGMGLSMGTMICGWDKKGPGLFY 152
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
0.317 0.133 0.374
Gapped
Lambda K H
0.267 0.0804 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,319,775
Number of extensions: 848622
Number of successful extensions: 849
Number of sequences better than 10.0: 1
Number of HSP's gapped: 833
Number of HSP's successfully gapped: 45
Length of query: 184
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 93
Effective length of database: 6,901,388
Effective search space: 641829084
Effective search space used: 641829084
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 (21.7 bits)
S2: 56 (25.2 bits)