RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3468
(68 letters)
>gnl|CDD|239721 cd03752, proteasome_alpha_type_4, proteasome_alpha_type_4. The 20S
proteasome, multisubunit proteolytic complex, is the
central enzyme of nonlysosomal protein degradation in
both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 213
Score = 107 bits (269), Expect = 2e-31
Identities = 40/55 (72%), Positives = 44/55 (80%)
Query: 1 MVCSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
+ C+VAGITSDAN+L + R IAQRYL Y EPIP EQLV LCDIKQGYTQYGG
Sbjct: 70 IACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGG 124
>gnl|CDD|173491 PTZ00246, PTZ00246, proteasome subunit alpha; Provisional.
Length = 253
Score = 80.7 bits (199), Expect = 1e-20
Identities = 31/55 (56%), Positives = 41/55 (74%)
Query: 1 MVCSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
+ C+VAG+T+DAN+L ++ R AQRY Y EP P EQLV +CD+KQ YTQ+GG
Sbjct: 72 IFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGG 126
>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 = 77.5 bits (192), Expect = 1e-19
Identities = 29/53 (54%), Positives = 35/53 (66%)
Query: 3 CSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
C+VAG+T+DA VL + R AQ Y Y EPIP E LV + D+ Q YTQYGG
Sbjct: 69 CAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGG 121
>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 = 65.0 bits (159), Expect = 6e-15
Identities = 24/53 (45%), Positives = 33/53 (62%)
Query: 3 CSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
+ +G+ +DA VL R AQ + + Y EPI E LV +CD+KQ YTQ+GG
Sbjct: 70 AATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGG 122
>gnl|CDD|163366 TIGR03633, arc_protsome_A, proteasome endopeptidase complex,
archaeal, alpha subunit. This protein family describes
the archaeal proteasome alpha subunit, homologous to
both the beta subunit and to the alpha and beta subunits
of eukaryotic proteasome subunits. This family is
universal in the first 29 complete archaeal genomes but
occasionally is duplicated [Protein fate, Degradation of
proteins, peptides, and glycopeptides].
Length = 224
Score = 64.6 bits (158), Expect = 1e-14
Identities = 23/53 (43%), Positives = 31/53 (58%)
Query: 3 CSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
+ +G+ +DA VL R AQ + Y EPI E L +CD+KQ YTQ+GG
Sbjct: 71 AATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGG 123
>gnl|CDD|235192 PRK03996, PRK03996, proteasome subunit alpha; Provisional.
Length = 241
Score = 62.5 bits (153), Expect = 9e-14
Identities = 24/53 (45%), Positives = 30/53 (56%)
Query: 3 CSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
+ AG+ +DA VL R AQ + Y EPI E L +CD KQ YTQ+GG
Sbjct: 78 AASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGG 130
>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 = 56.7 bits (138), Expect = 6e-12
Identities = 22/55 (40%), Positives = 30/55 (54%)
Query: 1 MVCSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
+ C+ AG+ +DA L LR AQ Y ++Y EPIP E L L ++ YTQ
Sbjct: 41 IGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQSLR 95
>gnl|CDD|223711 COG0638, PRE1, 20S proteasome, alpha and beta subunits
[Posttranslational modification, protein turnover,
chaperones].
Length = 236
Score = 57.7 bits (140), Expect = 6e-12
Identities = 23/53 (43%), Positives = 31/53 (58%)
Query: 1 MVCSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQY 53
+ ++AG+ +DA VL RA AQ Y ++Y EPI E L L +I Q YTQ
Sbjct: 71 IGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS 123
>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 = 56.8 bits (138), Expect = 7e-12
Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 1 MVCSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGGQ 56
+ + AG+ +DA L RA AQ Y ++Y PI E L + D Q YTQY G+
Sbjct: 46 IGMAFAGLAADAQTLVDYARAEAQLYRLRYGRPISVE-LAKRIADKLQAYTQYSGR 100
>gnl|CDD|239719 cd03750, proteasome_alpha_type_2, proteasome_alpha_type_2. The 20S
proteasome, multisubunit proteolytic complex, is the
central enzyme of nonlysosomal protein degradation in
both the cytosol and nucleus. It is composed of 28
subunits arranged as four homoheptameric rings that
stack on top of one another forming an elongated
alpha-beta-beta-alpha cylinder with a central cavity.
The proteasome alpha and beta subunits are members of
the N-terminal nucleophile (Ntn)-hydrolase superfamily.
Their N-terminal threonine residues are exposed as a
nucleophile in peptide bond hydrolysis. Mammals have 7
alpha and 7 beta proteasome subunits while archaea have
one of each.
Length = 227
Score = 53.5 bits (129), Expect = 2e-10
Identities = 23/53 (43%), Positives = 30/53 (56%)
Query: 3 CSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
+G+ D VL + R IAQ+Y + Y EPIP QLV + + Q YTQ GG
Sbjct: 69 MVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGG 121
>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 = 44.3 bits (105), Expect = 2e-07
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 1 MVCSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYG--GQSI 58
+ +AG+ +DA L LR Q Y ++Y EPI L L + Q YTQ G ++
Sbjct: 41 IAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQGRPFGVNL 100
Query: 59 I 59
I
Sbjct: 101 I 101
>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 = 43.0 bits (102), Expect = 9e-07
Identities = 19/52 (36%), Positives = 30/52 (57%)
Query: 4 SVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
++AG+T+DA VL+ +R Y Y+ PIP +LV+ + + Q TQ G
Sbjct: 68 AIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYG 119
>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 = 42.4 bits (100), Expect = 2e-06
Identities = 17/50 (34%), Positives = 28/50 (56%)
Query: 6 AGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
AG+T+DA VL + R Q + + +P+ E + + ++Q YTQ GG
Sbjct: 72 AGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGG 121
>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 = 38.8 bits (91), Expect = 4e-05
Identities = 14/50 (28%), Positives = 23/50 (46%)
Query: 3 CSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQ 52
C + G+ +D+ R A + +Y +P + L + DI Q YTQ
Sbjct: 71 CVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQ 120
>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 = 38.5 bits (90), Expect = 4e-05
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 3 CSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDI 46
C+++G+ +DA L R AQ + YNEP+ E + + D+
Sbjct: 69 CAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDL 112
>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 = 35.3 bits (82), Expect = 6e-04
Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 2/60 (3%)
Query: 2 VCSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGGQSIIPF 61
+VAG+ +D L S R A+ Y Y PIP + L + YT Y S+ PF
Sbjct: 71 GIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYS--SVRPF 128
>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 = 32.2 bits (74), Expect = 0.007
Identities = 13/47 (27%), Positives = 22/47 (46%)
Query: 4 SVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGY 50
++AG DA L L+A A+ Y ++ P+ + L L +I
Sbjct: 44 TIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSS 90
>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 = 27.9 bits (63), Expect = 0.30
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 4 SVAGITSDANVLTSELRAIAQRYLIQYNEPIP 35
++AG DA L L+A A+ Y ++ P+
Sbjct: 45 TIAGSVGDAQSLVRILKAEAKLYELRRGRPMS 76
>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 = 26.8 bits (60), Expect = 0.59
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 2 VCSVAGITSDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDI 46
V +G +D LT L+A + Y +N+ + E + L I
Sbjct: 50 VLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTI 94
>gnl|CDD|130324 TIGR01257, rim_protein, retinal-specific rim ABC transporter. This
model describes the photoreceptor protein (rim protein)
in eukaryotes. It is the member of ABC transporter
superfamily. Rim protein is a membrane glycoprotein
which is localized in the photoreceptor outer segment
discs. Mutation/s in its genetic loci is implicated in
the recessive Stargardt's disease [Transport and binding
proteins, Other].
Length = 2272
Score = 25.4 bits (55), Expect = 2.4
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 25 RYLIQYNEPIPCEQLVACLCDIKQGYTQYGGQSIIPF 61
R L+Q P QL+ L D+ GY + GG + F
Sbjct: 301 RPLLQNGGPETFTQLMGILSDLLCGYPEGGGSRVFSF 337
>gnl|CDD|212595 cd11721, FANCD2, Fanconi anemia D2 protein. The Fanconi anemia ID
complex consists of two subunits, Fanconi anemia I and
Fanconi anemia D2 (FANCI-FANCD2) and plays a central
role in the repair of DNA interstrand cross-links
(ICLs). The complex is activated via DNA damage-induced
phosphorylation by ATR (ataxia telangiectasia and
Rad3-related) and monoubiquitination by the FA core
complex ubiquitin ligase, and it binds to DNA at the ICL
site, recognizing branched DNA structures. Defects in
the complex cause Fanconi anemia, a cancer
predisposition syndrome. The phosphorylation of FANCD2
is required for DNA damage-induced intra-S phase
checkpoint and for cellular resistance to DNA
crosslinking agents.
Length = 1161
Score = 24.2 bits (53), Expect = 6.2
Identities = 15/41 (36%), Positives = 23/41 (56%), Gaps = 2/41 (4%)
Query: 7 GITSDAN--VLTSELRAIAQRYLIQYNEPIPCEQLVACLCD 45
G +S +N +L S LRAIA R + +P ++LV+ L
Sbjct: 832 GFSSQSNRVLLKSALRAIASRLKESTGKDLPLKELVSSLFK 872
>gnl|CDD|241378 cd13224, PH_Net1, Neuroepithelial cell transforming 1 Pleckstrin
homology (PH) domain. Net1 (also called ArhGEF8) is
part of the family of Rho guanine nucleotide exchange
factors. Members of this family activate Rho proteins
by catalyzing the exchange of GDP for GTP. The protein
encoded by this gene interacts with RhoA within the
cell nucleus and may play a role in repairing DNA
damage after ionizing radiation. Net1 binds to caspase
activation and recruitment domain (CARD)- and
membrane-associated guanylate kinase-like
domain-containing (CARMA) proteins and regulates
nuclear factor kB activation. Net1 contains a RhoGEF
domain N-terminal to a single PH domain. PH domains
have diverse functions, but in generally are involved
in targeting proteins to the appropriate cellular
location or in the interaction with a binding partner.
They share little sequence conservation, but all have a
common fold, which is electrostatically polarized. Less
than 10% of PH domains bind phosphoinositide phosphates
(PIPs) with high affinity and specificity. PH domains
are distinguished from other PIP-binding domains by
their specific high-affinity binding to PIPs with two
vicinal phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2
or PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 119
Score = 24.0 bits (52), Expect = 6.3
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 10 SDANVLTSELRAIAQRYLIQYNEPIPCEQLVACLCDIKQGYTQYGG 55
D VLT + ++ Y +PIP ++L+ L D++ G + GG
Sbjct: 24 QDVLVLTRPVTRNERQCYQVYRQPIPVQELL--LEDLQDGDVRMGG 67
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
0.323 0.136 0.413
Gapped
Lambda K H
0.267 0.0793 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 3,259,380
Number of extensions: 225550
Number of successful extensions: 211
Number of sequences better than 10.0: 1
Number of HSP's gapped: 210
Number of HSP's successfully gapped: 22
Length of query: 68
Length of database: 10,937,602
Length adjustment: 39
Effective length of query: 29
Effective length of database: 9,207,796
Effective search space: 267026084
Effective search space used: 267026084
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.1 bits)