RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15093
(179 letters)
>gnl|CDD|198307 cd03198, GST_C_CLIC, C-terminal, alpha helical domain of Chloride
Intracellular Channels. Glutathione S-transferase (GST)
C-terminal domain family, Chloride Intracellular Channel
(CLIC) subfamily; composed of CLICs (CLIC1-6 in
vertebrates), p64, parchorin, and similar proteins. They
are auto-inserting, self-assembling intracellular anion
channels involved in a wide variety of functions
including regulated secretion, cell division, and
apoptosis. They can exist in both water-soluble and
membrane-bound states and are found in various vesicles
and membranes, and they may play roles in the
maintenance of these intracellular membranes.
Biochemical studies of the Caenorhabditis elegans
homolog, EXC-4, show that the membrane localization
domain is present in the N-terminal part of the protein.
CLICs display structural plasticity, with CLIC1 adopting
two soluble conformations. The structure of soluble
human CLIC1 reveals that it is monomeric and adopts a
fold similar to GSTs, containing an N-terminal domain
with a thioredoxin fold and a C-terminal alpha helical
domain. Upon oxidation, the N-terminal domain of CLIC1
undergoes a structural change to form a non-covalent
dimer stabilized by the formation of an intramolecular
disulfide bond between two cysteines that are far apart
in the reduced form. The CLIC1 dimer bears no similarity
to GST dimers. The redox-controlled structural
rearrangement exposes a large hydrophobic surface, which
is masked by dimerization in vitro. In vivo, this
surface may represent the docking interface of CLIC1 in
its membrane-bound state. The two cysteines in CLIC1
that form the disulfide bond in oxidizing conditions are
essential for dimerization and chloride channel
activity, however, in other subfamily members, the
second cysteine is not conserved.
Length = 119
Score = 166 bits (423), Expect = 8e-54
Identities = 49/119 (41%), Positives = 71/119 (59%), Gaps = 4/119 (3%)
Query: 52 DKEVATLIENLYSKLKLMLLKKDDVSI----NALMSHLRKINDHLGRKETRFLTGDTMCC 107
+ E T E+L++K + KD + AL+ L K++ +L +FL GDT+
Sbjct: 1 NPEANTAGEDLFAKFSAYIKNKDPAADEALRKALLKELSKLDAYLSSSSRKFLDGDTLTL 60
Query: 108 FDCELMPRLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPADQDIINHYK 166
DC L+P+L HIRVAG + F+IP LW Y+K+ YE + FT++CPADQ+II HYK
Sbjct: 61 ADCNLLPKLHHIRVAGKAYKDFDIPDDFTGLWRYLKNAYETDEFTKTCPADQEIILHYK 119
>gnl|CDD|198331 cd10298, GST_C_CLIC2, C-terminal, alpha helical domain of Chloride
Intracellular Channel 2. Glutathione S-transferase
(GST) C-terminal domain family, Chloride Intracellular
Channel (CLIC) 2 subfamily; CLICs are auto-inserting,
self-assembling intracellular anion channels involved in
a wide variety of functions including regulated
secretion, cell division, and apoptosis. They can exist
in both water-soluble and membrane-bound states and are
found in various vesicles and membranes, and they may
play roles in the maintenance of these intracellular
membranes. The membrane localization domain is present
in the N-terminal part of the protein. Structures of
soluble CLICs reveal that they adopt a fold similar to
GSTs, containing an N-terminal domain with a thioredoxin
fold and a C-terminal alpha helical domain. CLIC2
contains an intramolecular disulfide bond and exists as
a monomer regardless of redox conditions, in contrast to
CLIC1 which forms a dimer under oxidizing conditions. It
is expressed in most tissues except the brain, and is
highly expressed in the lung, spleen, and in cardiac and
skeletal muscles. CLIC2 interacts with ryanodine
receptors (cardiac RyR2 and skeletal RyR1) and modulates
their activity, suggesting that CLIC2 may function in
the regulation of calcium release and signaling in
cardiac and skeletal muscles.
Length = 138
Score = 73.8 bits (181), Expect = 3e-17
Identities = 28/68 (41%), Positives = 41/68 (60%)
Query: 98 RFLTGDTMCCFDCELMPRLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPA 157
+FL GD + DC L+P+L I+VA + F+IP +W Y+ + YE E F+Q+CPA
Sbjct: 66 KFLDGDRLTLADCNLLPKLHVIKVAAKKYCDFDIPADFTGVWRYLNNAYEREEFSQTCPA 125
Query: 158 DQDIINHY 165
D +I Y
Sbjct: 126 DIEIEKAY 133
>gnl|CDD|198332 cd10299, GST_C_CLIC3, C-terminal, alpha helical domain of Chloride
Intracellular Channel 3. Glutathione S-transferase
(GST) C-terminal domain family, Chloride Intracellular
Channel (CLIC) 3 subfamily; CLICs are auto-inserting,
self-assembling intracellular anion channels involved in
a wide variety of functions including regulated
secretion, cell division, and apoptosis. They can exist
in both water-soluble and membrane-bound states and are
found in various vesicles and membranes, and they may
play roles in the maintenance of these intracellular
membranes. The membrane localization domain is present
in the N-terminal part of the protein. Structures of
soluble CLICs reveal that they adopt a fold similar to
GSTs, containing an N-terminal domain with a thioredoxin
fold and a C-terminal alpha helical domain. CLIC3 is
highly expressed in placental tissues, and may play a
role in fetal development.
Length = 133
Score = 67.9 bits (166), Expect = 4e-15
Identities = 35/112 (31%), Positives = 55/112 (49%), Gaps = 1/112 (0%)
Query: 55 VATLIENLYSKLKLMLLKKDDVSINALMSHLRKINDHLGRKETRFLTGDTMCCFDCELMP 114
V + L KL L L K D + + H N HL + RFL GD + DC L+P
Sbjct: 23 VPAQDDALQKKL-LRALLKLDSYLLTPLPHELAQNPHLSESQRRFLDGDALTLADCNLLP 81
Query: 115 RLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPADQDIINHYK 166
+L ++V ++ QFEIP +K + Y+ + + F +CP +I+ Y+
Sbjct: 82 KLHIVKVVCKHYRQFEIPAELKGVTRYLDSASQEKEFKYTCPNSAEILLAYR 133
>gnl|CDD|198334 cd10301, GST_C_CLIC6, C-terminal, alpha helical domain of Chloride
Intracellular Channel 6. Glutathione S-transferase
(GST) C-terminal domain family, Chloride Intracellular
Channel (CLIC) 6 subfamily; CLICs are auto-inserting,
self-assembling intracellular anion channels involved in
a wide variety of functions including regulated
secretion, cell division, and apoptosis. They can exist
in both water-soluble and membrane-bound states and are
found in various vesicles and membranes, and they may
play roles in the maintenance of these intracellular
membranes. The membrane localization domain is present
in the N-terminal part of the protein. Structures of
soluble CLICs reveal that they adopt a fold similar to
GSTs, containing an N-terminal domain with a thioredoxin
fold and a C-terminal alpha helical domain. CLIC6 is
expressed predominantly in the stomach, pituitary, and
brain. It interacts with D2-like dopamine receptors
directly and through scaffolding proteins. CLIC6 may be
involved in the regulation of secretion, possibly
through chloride ion transport regulation.
Length = 140
Score = 67.4 bits (164), Expect = 9e-15
Identities = 27/68 (39%), Positives = 40/68 (58%)
Query: 98 RFLTGDTMCCFDCELMPRLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPA 157
+FL G+ + DC L+P+L I+V + FE PT M +W Y+ + Y + FT +CPA
Sbjct: 67 KFLDGNELTLADCNLLPKLHIIKVVAKKYRNFEFPTEMTGIWRYLNNAYARDEFTNTCPA 126
Query: 158 DQDIINHY 165
DQ+I Y
Sbjct: 127 DQEIEYAY 134
>gnl|CDD|129941 TIGR00862, O-ClC, intracellular chloride channel protein. The
Organellar Chloride Channel (O-ClC) Family (TC 1.A.12)
Proteins of the O-ClC family are voltage-sensitive
chloride channels found in intracellular membranes but
not the plasma membranes of animal cells. They are found
in human nuclear membranes, and the bovine protein
targets to the microsomes, but not the plasma membrane,
when expressed in Xenopus laevis oocytes. These proteins
are thought to function in the regulation of the
membrane potential and in transepithelial ion absorption
and secretion in the kidney [Transport and binding
proteins, Anions].
Length = 236
Score = 65.7 bits (160), Expect = 2e-13
Identities = 44/173 (25%), Positives = 74/173 (42%), Gaps = 24/173 (13%)
Query: 16 TPPPILIDNGLAVLENEKIERHIMKNV--PGGHNLFVQDKEVATLIENLYSKLKLMLLKK 73
T PP L N + KIE + + + P L + E T ++++K +K
Sbjct: 57 THPPFLTYNTEVKTDVNKIEEFLEETLCPPRYPKLSPKHPESNTAGLDIFAKFS-AYIKN 115
Query: 74 DDVSINA-----LMSHLRKINDHL----------------GRKETRFLTGDTMCCFDCEL 112
+ N L+ L+K++D+L +FL GD + DC L
Sbjct: 116 SNPEANDNLEKGLLKALKKLDDYLNSPLPEEIDEDSAEDEKVSRRKFLDGDELTLADCNL 175
Query: 113 MPRLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPADQDIINHY 165
+P+L ++V + F+IP +W Y+ + Y E FT +CP D++I Y
Sbjct: 176 LPKLHIVKVVAKKYRNFDIPAEFTGVWRYLSNAYAREEFTNTCPDDKEIELAY 228
>gnl|CDD|198310 cd03201, GST_C_DHAR, C-terminal, alpha helical domain of
Dehydroascorbate Reductase. Glutathione S-transferase
(GST) C-terminal domain family, Dehydroascorbate
Reductase (DHAR) subfamily; composed of plant-specific
DHARs, which are monomeric enzymes catalyzing the
reduction of DHA into ascorbic acid (AsA) using
glutathione as the reductant. DHAR allows plants to
recycle oxidized AsA before it is lost. AsA serves as a
cofactor of violaxanthin de-epoxidase in the xanthophyll
cycle and as an antioxidant in the detoxification of
reactive oxygen species. Because AsA is the major
reductant in plants, DHAR serves to regulate their redox
state. It has been suggested that a significant portion
of DHAR activity is plastidic, acting to reduce the
large amounts of ascorbate oxidized during hydrogen
peroxide scavenging by ascorbate peroxidase. DHAR
contains a conserved cysteine in its active site and in
addition to its reductase activity, shows thiol
transferase activity similar to glutaredoxins.
Length = 121
Score = 62.0 bits (151), Expect = 5e-13
Identities = 31/112 (27%), Positives = 58/112 (51%), Gaps = 3/112 (2%)
Query: 53 KEVATLIENLYSKLKLMLLKKD--DVSINALMSHLRKINDHLGRKETRFLTGDTMCCFDC 110
E A++ ++S L KD D S AL+ L +++HL + F+ G+ + D
Sbjct: 5 PEFASVGSKIFSTFVTFLKSKDANDGSEQALLDELTALDEHL-KTNGPFIAGEKITAVDL 63
Query: 111 ELMPRLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPADQDII 162
L P+L H+RVA ++ + +P + + YM+ ++ E+F ++ D+ II
Sbjct: 64 SLAPKLYHLRVALGHYKGWSVPESLTAVHKYMELLFSRESFKKTKAPDEMII 115
>gnl|CDD|198329 cd10296, GST_C_CLIC4, C-terminal, alpha helical domain of Chloride
Intracellular Channel 4. Glutathione S-transferase
(GST) C-terminal domain family, Chloride Intracellular
Channel (CLIC) 4 subfamily; CLICs are auto-inserting,
self-assembling intracellular anion channels involved in
a wide variety of functions including regulated
secretion, cell division, and apoptosis. They can exist
in both water-soluble and membrane-bound states and are
found in various vesicles and membranes, and they may
play roles in the maintenance of these intracellular
membranes. The membrane localization domain is present
in the N-terminal part of the protein. Structures of
soluble CLICs reveal that they adopt a fold similar to
GSTs, containing an N-terminal domain with a thioredoxin
fold and a C-terminal alpha helical domain. CLIC4, also
known as p64H1, is expressed ubiquitously and its
localization varies depending on the nature of the cells
and tissues, from the plasma membrane to subcellular
compartments including the nucleus, mitochondria, ER,
and the trans-Golgi network, among others. In response
to cellular stress such as DNA damage and senescence,
cytoplasmic CLIC4 translocates to the nucleus, where it
acts on the TGF-beta pathway. Studies on knockout mice
suggest that CLIC4 also plays an important role in
angiogenesis, specifically in network formation,
capillary sprouting, and lumen formation. CLIC4 has been
found to induce apoptosis in several cell types and to
retard the growth of grafted tumors in vivo.
Length = 141
Score = 62.3 bits (151), Expect = 7e-13
Identities = 24/64 (37%), Positives = 39/64 (60%)
Query: 98 RFLTGDTMCCFDCELMPRLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPA 157
+FL G+ M DC L+P+L ++V + FEIP M +W Y+ + Y + FT +CP+
Sbjct: 67 KFLDGNEMTLADCNLLPKLHIVKVVAKKYRNFEIPKEMTGIWRYLSNAYSRDEFTNTCPS 126
Query: 158 DQDI 161
D++I
Sbjct: 127 DKEI 130
>gnl|CDD|198330 cd10297, GST_C_CLIC5, C-terminal, alpha helical domain of Chloride
Intracellular Channel 5. Glutathione S-transferase
(GST) C-terminal domain family, Chloride Intracellular
Channel (CLIC) 5 subfamily; CLICs are auto-inserting,
self-assembling intracellular anion channels involved in
a wide variety of functions including regulated
secretion, cell division, and apoptosis. They can exist
in both water-soluble and membrane-bound states and are
found in various vesicles and membranes, and they may
play roles in the maintenance of these intracellular
membranes. The membrane localization domain is present
in the N-terminal part of the protein. Structures of
soluble CLICs reveal that they adopt a fold similar to
GSTs, containing an N-terminal domain with a thioredoxin
fold and a C-terminal alpha helical domain. CLIC5 exists
in two alternatively-spliced isoforms, CLIC5A or CLIC5B
(also called p64). It is expressed at high levels in
hair cell stereocilia and is associated with the actin
cytoskeleton and ezrin. A recessive mutation in the
CLIC5 gene in mice led to the lack of coordination and
deafness, due to a defect in the basal region of the
hair bundle causing stereocilia to degrade. CLIC5 is
therefore essential for normal inner ear function. CLIC5
is also highly expressed in podocytes where it is
colocalized with the ezrin/radixin/moesin (ERM) complex.
It is essential for foot process integrity, and for
podocyte morphology and function.
Length = 141
Score = 62.3 bits (151), Expect = 7e-13
Identities = 25/68 (36%), Positives = 41/68 (60%)
Query: 98 RFLTGDTMCCFDCELMPRLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPA 157
+FL GD + DC L+P+L +++ + FEIP+ M +W Y+K+ Y + FT +C A
Sbjct: 67 KFLDGDELTLADCNLLPKLHVVKIVAKKYRNFEIPSDMTGVWRYLKNAYARDEFTNTCAA 126
Query: 158 DQDIINHY 165
D++I Y
Sbjct: 127 DKEIELAY 134
>gnl|CDD|166019 PLN02378, PLN02378, glutathione S-transferase DHAR1.
Length = 213
Score = 60.9 bits (147), Expect = 9e-12
Identities = 31/114 (27%), Positives = 62/114 (54%), Gaps = 2/114 (1%)
Query: 54 EVATLIENLYSKLKLMLLKKD--DVSINALMSHLRKINDHLGRKETRFLTGDTMCCFDCE 111
E A++ N++ L KD D S +AL+ L + +HL + F+ G+ + D
Sbjct: 94 EFASVGSNIFGTFGTFLKSKDSNDGSEHALLVELEALENHLKSHDGPFIAGERVSAVDLS 153
Query: 112 LMPRLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPADQDIINHY 165
L P+L H++VA +F + +P H+ +YMK ++ L++F ++ ++ +I+ +
Sbjct: 154 LAPKLYHLQVALGHFKSWSVPESFPHVHNYMKTLFSLDSFEKTKTEEKYVISGW 207
>gnl|CDD|198333 cd10300, GST_C_CLIC1, C-terminal, alpha helical domain of Chloride
Intracellular Channel 1. Glutathione S-transferase
(GST) C-terminal domain family, Chloride Intracellular
Channel (CLIC) 1 subfamily; CLICs are auto-inserting,
self-assembling intracellular anion channels involved in
a wide variety of functions including regulated
secretion, cell division, and apoptosis. They can exist
in both water-soluble and membrane-bound states and are
found in various vesicles and membranes, and they may
play roles in the maintenance of these intracellular
membranes. The membrane localization domain is present
in the N-terminal part of the protein. Soluble CLIC1 is
monomeric and adopts a fold similar to GSTs, containing
an N-terminal domain with a thioredoxin fold and a
C-terminal alpha helical domain. Upon oxidation, the
N-terminal domain of CLIC1 undergoes a structural change
to form a non-covalent dimer stabilized by the formation
of an intramolecular disulfide bond between two
cysteines that are far apart in the reduced form. The
CLIC1 dimer bears no similarity to GST dimers. The
redox-controlled structural rearrangement exposes a
large hydrophobic surface, which is masked by
dimerization in vitro. In vivo, this surface may
represent the docking interface of CLIC1 in its
membrane-bound state. The two cysteines in CLIC1 that
form the disulfide bond in oxidizing conditions are
essential for dimerization and chloride channel
activity. CLIC1 is widely expressed in many tissues and
its subcellular localization is dependent on cell type
and cell cycle phase. It acts as a sensor of cell
oxidation and appears to have a role in diseases that
involve oxidative stress including tumorigenic and
neurodegenerative diseases.
Length = 139
Score = 57.6 bits (139), Expect = 3e-11
Identities = 30/103 (29%), Positives = 51/103 (49%), Gaps = 5/103 (4%)
Query: 70 LLKKDDVSINALMSHL-RKINDHLGRKET----RFLTGDTMCCFDCELMPRLQHIRVAGS 124
LLK V N L S L +++++ E +FL G+ + DC L+P+L ++V
Sbjct: 34 LLKALKVLDNYLTSPLPEEVDENSAEDEGVSQRKFLDGNELTLADCNLLPKLHIVQVVCK 93
Query: 125 YFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPADQDIINHYKL 167
+ F IP + + Y+ + Y E F +CP D++I Y+
Sbjct: 94 KYRGFTIPEAFRGVHRYLSNAYAREEFASTCPDDEEIELAYEQ 136
>gnl|CDD|166458 PLN02817, PLN02817, glutathione dehydrogenase (ascorbate).
Length = 265
Score = 53.1 bits (127), Expect = 7e-09
Identities = 27/111 (24%), Positives = 59/111 (53%), Gaps = 3/111 (2%)
Query: 54 EVATLIENLYSKLKLMLLKKD--DVSINALMSHLRKINDHLGRKETRFLTGDTMCCFDCE 111
E A++ ++S L KD D + AL+ L +D++ ++ F+ G+ + D
Sbjct: 147 EKASVGSKIFSTFIGFLKSKDPGDGTEQALLDELTSFDDYI-KENGPFINGEKISAADLS 205
Query: 112 LMPRLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAFTQSCPADQDII 162
L P+L H+ +A ++ + +P + + YMK+++ +E+F ++ +D+I
Sbjct: 206 LGPKLYHLEIALGHYKNWSVPDSLPFVKSYMKNIFSMESFVKTRALPEDVI 256
>gnl|CDD|239359 cd03061, GST_N_CLIC, GST_N family, Chloride Intracellular Channel
(CLIC) subfamily; composed of CLIC1-5, p64, parchorin
and similar proteins. They are auto-inserting,
self-assembling intracellular anion channels involved
in a wide variety of functions including regulated
secretion, cell division and apoptosis. They can exist
in both water-soluble and membrane-bound states, and
are found in various vesicles and membranes.
Biochemical studies of the C. elegans homolog, EXC-4,
show that the membrane localization domain is present
in the N-terminal part of the protein. The structure of
soluble human CLIC1 reveals that it is monomeric and it
adopts a fold similar to GSTs, containing an N-terminal
domain with a TRX fold and a C-terminal alpha helical
domain. Upon oxidation, the N-terminal domain of CLIC1
undergoes a structural change to form a non-covalent
dimer stabilized by the formation of an intramolecular
disulfide bond between two cysteines that are far apart
in the reduced form. The CLIC1 dimer bears no
similarity to GST dimers. The redox-controlled
structural rearrangement exposes a large hydrophobic
surface, which is masked by dimerization in vitro. In
vivo, this surface may represent the docking interface
of CLIC1 in its membrane-bound state. The two cysteines
in CLIC1 that form the disulfide bond in oxidizing
conditions are essential for dimerization and chloride
channel activity, however, in other subfamily members,
the second cysteine is not conserved.
Length = 91
Score = 44.7 bits (106), Expect = 1e-06
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 10 RTNFEATPPPILIDNGLAVLENEKIERHIMKNV 42
+ T PP L+ NG +N KIE + + +
Sbjct: 54 KDLAPGTQPPFLLYNGEVKTDNNKIEEFLEETL 86
>gnl|CDD|223512 COG0435, ECM4, Predicted glutathione S-transferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 324
Score = 33.8 bits (78), Expect = 0.030
Identities = 28/96 (29%), Positives = 43/96 (44%), Gaps = 11/96 (11%)
Query: 75 DVSINALMSHLRKINDHLGRKETRFLTGDTMCCFDCELMPRLQHIRVAGSYFMQFE---- 130
+ ++ L L K+ L E R+LTGD + D L L +R Y F+
Sbjct: 204 EEAVKKLFEALDKLEQIL--SERRYLTGDQLTEADIRLFTTL--VRFDPVYVGHFKCNLR 259
Query: 131 -IPTYMKHLWHYMKHMYELEAFTQSCPADQDIINHY 165
I Y +LW Y++ +Y+L F ++ D I HY
Sbjct: 260 RIRDY-PNLWGYLRDLYQLPGFAETVDFDH-IKLHY 293
>gnl|CDD|198299 cd03190, GST_C_Omega_like, C-terminal, alpha helical domain of
Class Omega-like Glutathione S-transferases.
Glutathione S-transferase (GST) C-terminal domain
family, Saccharomyces cerevisiae Omega-like subfamily;
composed of three Saccharomyces cerevisiae GST
omega-like (Gto) proteins, Gto1p, Gto2p (also known as
Extracellular mutant protein 4 or ECM4p), and Gto3p, as
well as similar uncharacterized proteins from fungi and
bacteria. The three Saccharomyces cerevisiae Gto
proteins are omega-class GSTs with low or no GST
activity against standard substrates, but have
glutaredoxin/thiol oxidoreductase and dehydroascorbate
reductase activity through a single cysteine residue in
the active site. Gto1p is located in the peroxisomes
while Gto2p and Gto3p are cytosolic. The gene encoding
Gto2p, called ECM4, is involved in cell surface
biosynthesis and architecture. S. cerevisiae ECM4
mutants show increased amounts of the cell wall hexose,
N-acetylglucosamine. More recently, global gene
expression analysis shows that ECM4 is upregulated
during genotoxic conditions and together with the
expression profiles of 18 other genes could potentially
differentiate between genotoxic and cytotoxic insults in
yeast.
Length = 142
Score = 32.5 bits (75), Expect = 0.048
Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 11/96 (11%)
Query: 75 DVSINALMSHLRKINDHLGRKETRFLTGDTMCCFDCELMPRLQHIRVAGSYFMQF----- 129
D ++ L L K+ L + +L GD + D L L IR Y F
Sbjct: 36 DKAVKELFEALDKLEKRL--SKQPYLLGDRLTEADIRLFTTL--IRFDPVYHQHFKCNLK 91
Query: 130 EIPTYMKHLWHYMKHMYELEAFTQSCPADQDIINHY 165
I Y +LW Y++ +Y+ ++ D I HY
Sbjct: 92 TIRDY-PNLWRYLRRLYQNPGVFETTNFDH-IKQHY 125
>gnl|CDD|222111 pfam13410, GST_C_2, Glutathione S-transferase, C-terminal domain.
This domain is closely related to pfam00043.
Length = 69
Score = 30.8 bits (70), Expect = 0.059
Identities = 12/67 (17%), Positives = 23/67 (34%), Gaps = 5/67 (7%)
Query: 78 INALMSHLRKINDHLGRKETRFLTGDTMCCFDCELMPRLQHIRVAGSYFMQFEIPTYMKH 137
+ L L + + L +L GD D L P L + G ++ +
Sbjct: 8 LAQLERALDALEERLADG--PYLLGDRPSLADIALAPALARLDFRGPG---LDLRAGYPN 62
Query: 138 LWHYMKH 144
L +++
Sbjct: 63 LRAWLER 69
>gnl|CDD|237076 PRK12362, PRK12362, germination protease; Provisional.
Length = 318
Score = 29.8 bits (68), Expect = 0.77
Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 31 NEKIERHIMKNV--PGGHNLFVQDKEVATLIENL 62
N++ ++ ++K V P NL V KE+ LIENL
Sbjct: 267 NQEEKQQLIKEVLSPYVGNLIVTPKEIDELIENL 300
>gnl|CDD|180519 PRK06298, PRK06298, type III secretion system protein; Validated.
Length = 356
Score = 29.0 bits (65), Expect = 1.2
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 2/62 (3%)
Query: 28 VLENEKIERHIMKNVPGGHNLFVQDKEVATLIENLYSKLKLMLLKKDDVSINALMSHLRK 87
+ E EK IM+NVP H L + KE+ + E+ Y + +LL S+NA + +
Sbjct: 296 IAEAEKYGVPIMRNVPLAHQLLDEGKELKFIPESTYEAIGEILLYIT--SLNAQNPNNKN 353
Query: 88 IN 89
IN
Sbjct: 354 IN 355
>gnl|CDD|148050 pfam06212, GRIM-19, GRIM-19 protein. This family consists of
several eukaryotic gene associated with
retinoic-interferon-induced mortality 19 (GRIM-19)
proteins. GRIM-19, was reported to encode a small
protein primarily distributed in the nucleus and was
able to promote cell death induced by IFN-# and RA. A
bovine homologue of GRIM-19 was co-purified with
mitochondrial NADH:ubiquinone oxidoreductase (complex I)
in bovine heart. Therefore, its exact cellular
localisation and function are unclear. It has now been
discovered that GRIM-19 is a specific interacting
protein which negatively regulates Stat3 activity.
Length = 130
Score = 28.1 bits (63), Expect = 1.4
Identities = 12/37 (32%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 30 ENEKIERHIMKNVPG---GHNLFVQDKEVATLIENLY 63
N + E +MK+VPG G +F D+ V + Y
Sbjct: 88 RNREEEAELMKDVPGWKVGEPVFKTDRWVTPSFQEFY 124
>gnl|CDD|219467 pfam07562, NCD3G, Nine Cysteines Domain of family 3 GPCR. This
conserved sequence contains several highly-conserved Cys
residues that are predicted to form disulphide bridges.
It is predicted to lie outside the cell membrane,
tethered to the pfam00003 in several receptor proteins.
Length = 54
Score = 26.5 bits (59), Expect = 1.6
Identities = 7/18 (38%), Positives = 11/18 (61%), Gaps = 2/18 (11%)
Query: 94 RKETRFLTGDTMCCFDCE 111
RK+ + G +CC+DC
Sbjct: 14 RKKVQ--KGQPVCCWDCI 29
>gnl|CDD|198295 cd03186, GST_C_SspA, C-terminal, alpha helical domain of Stringent
starvation protein A. Glutathione S-transferase (GST)
C-terminal domain family, Stringent starvation protein A
(SspA) subfamily; SspA is a RNA polymerase
(RNAP)-associated protein required for the lytic
development of phage P1 and for stationary phase-induced
acid tolerance of E. coli. It is implicated in survival
during nutrient starvation. SspA adopts the GST fold
with an N-terminal thioredoxin-fold domain and a
C-terminal alpha helical domain, but it does not bind
glutathione (GSH) and lacks GST activity. SspA is highly
conserved among gram-negative bacteria. Related proteins
found in Neisseria (called RegF), Francisella and Vibrio
regulate the expression of virulence factors necessary
for pathogenesis.
Length = 108
Score = 27.6 bits (62), Expect = 1.8
Identities = 13/63 (20%), Positives = 24/63 (38%), Gaps = 11/63 (17%)
Query: 95 KETRFLTGDTMCCFDCELMP---RLQHIRVAGSYFMQFEIPTYMKHLWHYMKHMYELEAF 151
+ + + DC L P RL + E+P K + YM+ ++ ++F
Sbjct: 53 AASPYFLSEEFSLVDCYLAPLLWRLPA--------LGIELPKQAKAIKDYMERVFARDSF 104
Query: 152 TQS 154
S
Sbjct: 105 QAS 107
>gnl|CDD|235078 PRK02858, PRK02858, germination protease; Provisional.
Length = 369
Score = 27.7 bits (62), Expect = 3.2
Identities = 16/33 (48%), Positives = 18/33 (54%), Gaps = 4/33 (12%)
Query: 30 ENEKIERHIMKNV--PGGHNLFVQDKEVATLIE 60
E EK R ++ V P GHNL V KEV IE
Sbjct: 311 EEEK--RQLIYEVLAPLGHNLMVTPKEVDAFIE 341
>gnl|CDD|233413 TIGR01441, GPR, GPR endopeptidase. This model describes a
tetrameric protease that makes the rate-limiting first
cut in the small, acid-soluble spore proteins (SASP) of
Bacillus subtilis and related species. The enzyme lacks
clear homology to other known proteases. It processes
its own amino end before becoming active to cleave SASPs
[Protein fate, Degradation of proteins, peptides, and
glycopeptides, Cellular processes, Sporulation and
germination].
Length = 358
Score = 27.6 bits (61), Expect = 4.4
Identities = 16/38 (42%), Positives = 21/38 (55%), Gaps = 4/38 (10%)
Query: 27 AVLENEKIERHIMKNV--PGGHNLFVQDKEVATLIENL 62
+ E EK R ++ V P GHNL V KEV IE++
Sbjct: 297 TLDEEEK--RQLIYEVLNPLGHNLMVTPKEVDMFIEDM 332
>gnl|CDD|182683 PRK10733, hflB, ATP-dependent metalloprotease; Reviewed.
Length = 644
Score = 27.3 bits (60), Expect = 5.5
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 7/54 (12%)
Query: 52 DKEVATLIENLYSKLKLMLLKKDDV---SINALMSH----LRKINDHLGRKETR 98
D+EV LIE Y++ + +L D+ +ALM + +I+D + R++ R
Sbjct: 546 DQEVKALIERNYNRARQLLTDNMDILHAMKDALMKYETIDAPQIDDLMARRDVR 599
>gnl|CDD|215262 PLN02471, PLN02471, superoxide dismutase [Mn].
Length = 231
Score = 26.8 bits (59), Expect = 6.1
Identities = 10/35 (28%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 124 SYFMQFE--IPTYMKHLWHYMKHMYELEAFTQSCP 156
+Y++Q++ P Y+K++W M Y E + + C
Sbjct: 197 AYYLQYKNVRPDYLKNIWKVMNWKYASEVYEKECN 231
>gnl|CDD|237077 PRK12364, PRK12364, ribonucleotide-diphosphate reductase subunit
alpha; Provisional.
Length = 842
Score = 27.0 bits (60), Expect = 6.2
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 32 EKIERHIMKNVPGGHNLFV---QDKEVATLIE-NLYSKLKLMLLKKDD 75
++ER I + P GHN+ V QD TL+E Y+++K +L +
Sbjct: 43 AEVERFIKEKYPNGHNVSVEEIQDLVEKTLMEHGHYAEVKSYILYRAQ 90
>gnl|CDD|202625 pfam03418, Peptidase_A25, Germination protease.
Length = 354
Score = 27.0 bits (59), Expect = 6.6
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 4/39 (10%)
Query: 30 ENEKIERHIMKNV--PGGHNLFVQDKEVATLIENLYSKL 66
+ EK R ++ V P GHNL V KEV IE++ + +
Sbjct: 296 DEEK--RRLIHEVLAPLGHNLMVTPKEVDMFIEDMANVV 332
>gnl|CDD|222959 PHA02999, PHA02999, Hypothetical protein; Provisional.
Length = 382
Score = 26.6 bits (59), Expect = 8.0
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 59 IENLYSKLKLMLLKKDDVSINALMSHLRKINDHL 92
I+ Y K K M+ K SI + + KI HL
Sbjct: 132 IKKGYIKFKKMIRKDIATSIPNICQKILKIYSHL 165
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
0.324 0.137 0.421
Gapped
Lambda K H
0.267 0.0703 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,151,451
Number of extensions: 829622
Number of successful extensions: 942
Number of sequences better than 10.0: 1
Number of HSP's gapped: 940
Number of HSP's successfully gapped: 37
Length of query: 179
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 88
Effective length of database: 6,901,388
Effective search space: 607322144
Effective search space used: 607322144
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 56 (25.4 bits)