RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6388
(480 letters)
>gnl|CDD|198290 cd03181, GST_C_EF1Bgamma_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of the Gamma
subunit of Elongation Factor 1B and similar proteins.
Glutathione S-transferase (GST) C-terminal domain
family, Gamma subunit of Elongation Factor 1B
(EF1Bgamma) subfamily; EF1Bgamma is part of the
eukaryotic translation elongation factor-1 (EF1) complex
which plays a central role in the elongation cycle
during protein biosynthesis. EF1 consists of two
functionally distinct units, EF1A and EF1B. EF1A
catalyzes the GTP-dependent binding of aminoacyl-tRNA to
the ribosomal A site concomitant with the hydrolysis of
GTP. The resulting inactive EF1A:GDP complex is recycled
to the active GTP form by the guanine-nucleotide
exchange factor EF1B, a complex composed of at least two
subunits, alpha and gamma. Metazoan EFB1 contain a third
subunit, beta. The EF1B gamma subunit contains a GST
fold consisting of an N-terminal thioredoxin-fold domain
and a C-terminal alpha helical domain. The GST-like
domain of EF1Bgamma is believed to mediate the
dimerization of the EF1 complex, which in yeast is a
dimer of the heterotrimer EF1A:EF1Balpha:EF1Bgamma. In
addition to its role in protein biosynthesis, EF1Bgamma
may also display other functions. The recombinant rice
protein has been shown to possess GSH conjugating
activity. The yeast EF1Bgamma binds to membranes in a
calcium dependent manner and is also part of a complex
that binds to the msrA (methionine sulfoxide reductase)
promoter suggesting a function in the regulation of its
gene expression. Also included in this subfamily is the
GST_C-like domain at the N-terminus of human valyl-tRNA
synthetase (ValRS) and its homologs. Metazoan ValRS
forms a stable complex with Elongation Factor-1H
(EF-1H), and together, they catalyze consecutive steps
in protein biosynthesis, tRNA aminoacylation and its
transfer to EF.
Length = 123
Score = 188 bits (481), Expect = 1e-58
Identities = 70/123 (56%), Positives = 88/123 (71%)
Query: 89 EKSKIFDYVCFAQDELLPNACRWVFPILEIYPYNKQTVDSAKDGLKRNLAKLDKHLLTRT 148
E +++ ++ FA ELLP A WV P+L I PYNK+ VD AK+ LKR L L++HLLTRT
Sbjct: 1 EAAQVLQWISFANSELLPAAATWVLPLLGIAPYNKKAVDKAKEDLKRALGVLEEHLLTRT 60
Query: 149 YLVGDYITLADICNACTLLQVYQHAMDLTFRKPYVNVNRWFTTIVNQPEFKKIVGEVKLC 208
YLVG+ ITLADI A LL+ ++ +D FRK Y NV RWF T+VNQP+FK + GEVKLC
Sbjct: 61 YLVGERITLADIFVASALLRGFETVLDPEFRKKYPNVTRWFNTVVNQPKFKAVFGEVKLC 120
Query: 209 EKQ 211
EK
Sbjct: 121 EKP 123
>gnl|CDD|201369 pfam00647, EF1G, Elongation factor 1 gamma, conserved domain.
Length = 105
Score = 183 bits (468), Expect = 5e-57
Identities = 65/105 (61%), Positives = 81/105 (77%), Gaps = 1/105 (0%)
Query: 265 KDPFDLLPKGTFNMEDFKRFYSNNDE-AKSIPYFWEKFDKENYSIWFGEYKYPEELQKVF 323
K+P D LPK TFN++++KR YSN D ++PYFWE FD E YSIW+ EYKY +EL+ VF
Sbjct: 1 KNPLDALPKSTFNLDEWKRQYSNEDTRTVALPYFWEHFDPEGYSIWYVEYKYNDELKLVF 60
Query: 324 MSCNLITGMFQRLDKMRKQTFASVCLFGTDNDSTISGVWVWRGQE 368
M+CNLI G FQRL+K RK F SV ++G DN+S ISGVWV+RGQE
Sbjct: 61 MTCNLIGGFFQRLEKSRKYAFGSVSVYGEDNNSDISGVWVFRGQE 105
Score = 98.1 bits (245), Expect = 7e-25
Identities = 36/53 (67%), Positives = 43/53 (81%)
Query: 373 PDELQKVFMSCNLITGMFQRLDKMRKQAFASVCLFGTDNDSTISGVWVWRGQE 425
DEL+ VFM+CNLI G FQRL+K RK AF SV ++G DN+S ISGVWV+RGQE
Sbjct: 53 NDELKLVFMTCNLIGGFFQRLEKSRKYAFGSVSVYGEDNNSDISGVWVFRGQE 105
>gnl|CDD|198327 cd10294, GST_C_ValRS_N, Glutathione S-transferase C-terminal-like,
alpha helical domain of vertebrate Valyl-tRNA
synthetase. Glutathione S-transferase (GST) C-terminal
domain family, Valyl-tRNA synthetase (ValRS) subfamily;
This model characterizes the GST_C-like domain found in
the N-terminal region of human ValRS and its homologs
from other vertebrates such as frog and zebrafish.
Aminoacyl-tRNA synthetases (aaRSs) comprise a family of
enzymes that catalyze the coupling of amino acids with
their matching tRNAs. This involves the formation of an
aminoacyl adenylate using ATP, followed by the transfer
of the activated amino acid to the 3'-adenosine moiety
of the tRNA. AaRSs may also be involved in translational
and transcriptional regulation, as well as in tRNA
processing. They typically form large stable complexes
with other proteins. ValRS forms a stable complex with
Elongation Factor-1H (EF-1H), and together, they
catalyze consecutive steps in protein biosynthesis, tRNA
aminoacylation and its transfer to EF. The GST_C-like
domain of ValRS from higher eukaryotes is likely
involved in protein-protein interactions, to mediate the
formation of the multi-aaRS complex that acts as a
molecular hub to coordinate protein synthesis. ValRSs
from prokaryotes and lower eukaryotes, such as fungi and
plants, do not appear to contain this GST_C-like domain.
Length = 123
Score = 129 bits (326), Expect = 5e-36
Identities = 56/120 (46%), Positives = 76/120 (63%)
Query: 91 SKIFDYVCFAQDELLPNACRWVFPILEIYPYNKQTVDSAKDGLKRNLAKLDKHLLTRTYL 150
+ ++ +V FA +EL P AC FP+L + +KQ + L+R L LD +L RTYL
Sbjct: 3 ALVWQWVSFADNELTPAACAAAFPLLGLSGSDKQNQQRSLAELQRVLKVLDCYLKLRTYL 62
Query: 151 VGDYITLADICNACTLLQVYQHAMDLTFRKPYVNVNRWFTTIVNQPEFKKIVGEVKLCEK 210
VG+ ITLADI AC LL +++ +D R+ +NV RWF T VNQPEF ++GEV LCEK
Sbjct: 63 VGEAITLADIAVACALLLPFKYVLDPARRESLLNVTRWFLTCVNQPEFLAVLGEVSLCEK 122
>gnl|CDD|239342 cd03044, GST_N_EF1Bgamma, GST_N family, Gamma subunit of
Elongation Factor 1B (EFB1gamma) subfamily; EF1Bgamma
is part of the eukaryotic translation elongation
factor-1 (EF1) complex which plays a central role in
the elongation cycle during protein biosynthesis. EF1
consists of two functionally distinct units, EF1A and
EF1B. EF1A catalyzes the GTP-dependent binding of
aminoacyl-tRNA to the ribosomal A site concomitant with
the hydrolysis of GTP. The resulting inactive EF1A:GDP
complex is recycled to the active GTP form by the
guanine-nucleotide exchange factor EF1B, a complex
composed of at least two subunits, alpha and gamma.
Metazoan EFB1 contain a third subunit, beta. The EF1B
gamma subunit contains a GST fold consisting of an
N-terminal TRX-fold domain and a C-terminal alpha
helical domain. The GST-like domain of EF1Bgamma is
believed to mediate the dimerization of the EF1
complex, which in yeast is a dimer of the heterotrimer
EF1A:EF1Balpha:EF1Bgamma. In addition to its role in
protein biosynthesis, EF1Bgamma may also display other
functions. The recombinant rice protein has been shown
to possess GSH conjugating activity. The yeast
EF1Bgamma binds membranes in a calcium dependent manner
and is also part of a complex that binds to the msrA
(methionine sulfoxide reductase) promoter suggesting a
function in the regulation of its gene expression.
Length = 75
Score = 85.4 bits (212), Expect = 1e-20
Identities = 39/76 (51%), Positives = 50/76 (65%), Gaps = 1/76 (1%)
Query: 5 GTLYSWPDNFRTYQILIAAEYSSFKVNIPKDFVFGKSNKNADFVSKFSSPKVPAFESSDG 64
GTLY++P N R+ +IL AA+Y+ V I DF GK NK +F+ KF KVPAFE +DG
Sbjct: 1 GTLYTYPGNPRSLKILAAAKYNGLDVEIV-DFQPGKENKTPEFLKKFPLGKVPAFEGADG 59
Query: 65 TILTSSSAITYFVANE 80
L S+AI Y+VAN
Sbjct: 60 FCLFESNAIAYYVANL 75
>gnl|CDD|215674 pfam00043, GST_C, Glutathione S-transferase, C-terminal domain.
GST conjugates reduced glutathione to a variety of
targets including S-crystallin from squid, the
eukaryotic elongation factor 1-gamma, the HSP26 family
of stress-related proteins and auxin-regulated proteins
in plants. Stringent starvation proteins in E. coli are
also included in the alignment but are not known to have
GST activity. The glutathione molecule binds in a cleft
between N and C-terminal domains. The catalytically
important residues are proposed to reside in the
N-terminal domain. In plants, GSTs are encoded by a
large gene family (48 GST genes in Arabidopsis) and can
be divided into the phi, tau, theta, zeta, and lambda
classes.
Length = 92
Score = 69.3 bits (170), Expect = 9e-15
Identities = 23/94 (24%), Positives = 40/94 (42%), Gaps = 3/94 (3%)
Query: 104 LLPNACRWVFPILEIYPYNKQT-VDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICN 162
+ + V+ A + L + L L++ L +TYLVGD +TLADI
Sbjct: 1 FYDLRMDYALLPYGPPEEKDEPEVEEALEKLLKVLEALEEVLKGKTYLVGDKLTLADIAL 60
Query: 163 ACTLLQVYQHAMDLTFRKPYVNVNRWFTTIVNQP 196
A L +Y ++ + + N+ W + +P
Sbjct: 61 APALDWLYM--LEPDPLEKFPNLKAWRKRVAARP 92
>gnl|CDD|223698 COG0625, Gst, Glutathione S-transferase [Posttranslational
modification, protein turnover, chaperones].
Length = 211
Score = 71.4 bits (175), Expect = 3e-14
Identities = 48/206 (23%), Positives = 85/206 (41%), Gaps = 18/206 (8%)
Query: 6 TLYSWPDNFRTYQILIAAEYSSFKVNIPKDFV---FGKSNKNADFVSKFSSPKVPAFESS 62
LY P + + ++ +A E +P + V K DF++ KVPA
Sbjct: 2 KLYGSPTSPYSRKVRLALEE----KGLPYEIVLVDLDAEQKPPDFLALNPLGKVPALVDD 57
Query: 63 DGTILTSSSAITYFVA----NEQLK---GKTEAEKSKIFDYVCFAQDELLP-NACRWVFP 114
DG +LT S AI ++A L ++ + ++ FA +L P R
Sbjct: 58 DGEVLTESGAILEYLAERYPGPPLLPADPLARRARALLLWWLFFAASDLHPVIGQRRRAL 117
Query: 115 ILEIYPYNKQTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAM 174
+ + +++A+ ++ LA L+ L YL GD T+ADI A L ++
Sbjct: 118 LGSEPELLEAALEAARAEIRALLALLEALLADGPYLAGDRFTIADIALAPLLWRLALLGE 177
Query: 175 DLTFRKPYVNVNRWFTTIVNQPEFKK 200
+L Y + W+ ++ +P F+
Sbjct: 178 ELA---DYPALKAWYERVLARPAFRA 200
>gnl|CDD|198342 cd10309, GST_C_GluProRS_N, Glutathione S-transferase
C-terminal-like, alpha helical domain of bifunctional
Glutamyl-Prolyl-tRNA synthetase. Glutathione
S-transferase (GST) C-terminal domain family,
bifunctional GluRS-Prolyl-tRNA synthetase (GluProRS)
subfamily; This model characterizes the GST_C-like
domain found in the N-terminal region of GluProRS from
higher eukaryotes. Aminoacyl-tRNA synthetases (aaRSs)
comprise a family of enzymes that catalyze the coupling
of amino acids with their matching tRNAs. This involves
the formation of an aminoacyl adenylate using ATP,
followed by the transfer of the activated amino acid to
the 3'-adenosine moiety of the tRNA. AaRSs may also be
involved in translational and transcriptional
regulation, as well as in tRNA processing. The
GST_C-like domain of GluProRS may be involved in
protein-protein interactions, mediating the formation of
the multi-aaRS complex in higher eukaryotes. The
multi-aaRS complex acts as a molecular hub for protein
synthesis. AaRSs from prokaryotes, which are active as
dimers, do not contain this GST_C-like domain.
Length = 81
Score = 60.4 bits (147), Expect = 1e-11
Identities = 27/68 (39%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 128 SAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKPYVNVNR 187
S L+ LDK L RTYLVG+ +TLAD L + L ++ YVNV R
Sbjct: 17 SCDQDFSSALSYLDKALSLRTYLVGNSLTLADFAVWAAL---RGNGEWLASKEKYVNVTR 73
Query: 188 WFTTIVNQ 195
WF I +Q
Sbjct: 74 WFKFISSQ 81
>gnl|CDD|198322 cd10289, GST_C_AaRS_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of various
Aminoacyl-tRNA synthetases and similar domains.
Glutathione S-transferase (GST) C-terminal domain
family, Aminoacyl-tRNA synthetase (AaRS)-like subfamily;
This model characterizes the GST_C-like domain found in
the N-terminal region of some eukaryotic AaRSs, as well
as similar domains found in proteins involved in protein
synthesis including Aminoacyl tRNA synthetase
complex-Interacting Multifunctional Protein 2 (AIMP2),
AIMP3, and eukaryotic translation Elongation Factor 1
beta (eEF1b). AaRSs comprise a family of enzymes that
catalyze the coupling of amino acids with their matching
tRNAs. This involves the formation of an aminoacyl
adenylate using ATP, followed by the transfer of the
activated amino acid to the 3'-adenosine moiety of the
tRNA. AaRSs may also be involved in translational and
transcriptional regulation, as well as in tRNA
processing. AaRSs in this subfamily include GluRS from
lower eukaryotes, as well as GluProRS, MetRS, and CysRS
from higher eukaryotes. AIMPs are non-enzymatic
cofactors that play critical roles in the assembly and
formation of a macromolecular multi-tRNA synthetase
protein complex found in higher eukaryotes. The
GST_C-like domain is involved in protein-protein
interactions, mediating the formation of aaRS complexes
such as the MetRS-Arc1p-GluRS ternary complex in lower
eukaryotes and the multi-aaRS complex in higher
eukaryotes, that act as molecular hubs for protein
synthesis. AaRSs from prokaryotes, which are active as
dimers, do not contain this GST_C-like domain.
Length = 82
Score = 59.6 bits (145), Expect = 2e-11
Identities = 21/68 (30%), Positives = 33/68 (48%), Gaps = 1/68 (1%)
Query: 128 SAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKPYVNVNR 187
L+ L L+ +L +RT+LVG +TLAD+ + L + +K + +V R
Sbjct: 16 LKGKELEALLKSLNSYLASRTFLVGYSLTLADVA-VFSALYPSGQKLSDKEKKKFPHVTR 74
Query: 188 WFTTIVNQ 195
WF I N
Sbjct: 75 WFNHIQNL 82
>gnl|CDD|198338 cd10305, GST_C_AIMP3, Glutathione S-transferase C-terminal-like,
alpha helical domain of Aminoacyl tRNA synthetase
complex-Interacting Multifunctional Protein 3.
Glutathione S-transferase (GST) C-terminal domain
family, Aminoacyl tRNA synthetase complex-Interacting
Multifunctional Protein (AIMP) 3 subfamily; AIMPs are
non-enzymatic cofactors that play critical roles in the
assembly and formation of a macromolecular multi-tRNA
synthetase protein complex that functions as a molecular
hub to coordinate protein synthesis. There are three
AIMPs, named AIMP1-3, which play diverse regulatory
roles. AIMP3, also called p18 or eukaryotic translation
elongation factor 1 epsilon-1 (EEF1E1), contains a
C-terminal domain with similarity to the C-terminal
alpha helical domain of GSTs. It specifically interacts
with methionyl-tRNA synthetase (MetRS) and is
translocated to the nucleus during DNA synthesis or in
response to DNA damage and oncogenic stress. In the
nucleus, it interacts with ATM and ATR, which are
upstream kinase regulators of p53. It appears to work
against DNA damage in cooperation with AIMP2, and
similar to AIMP2, AIMP3 is also a haploinsufficient
tumor suppressor. AIMP3 transgenic mice have shorter
lifespans than wild-type mice and they show
characteristics of progeria, suggesting that AIMP3 may
also be involved in cellular and organismal aging.
Length = 101
Score = 53.4 bits (129), Expect = 4e-09
Identities = 25/71 (35%), Positives = 40/71 (56%), Gaps = 9/71 (12%)
Query: 133 LKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAM--DLTF--RKPYVNVNRW 188
K L +L+ +L RTYLVG +TLAD+ +L H + DL+ ++ Y+NV+RW
Sbjct: 27 AKSLLKELNSYLQDRTYLVGHKLTLADV-----VLYYGLHPIMKDLSPQEKEQYLNVSRW 81
Query: 189 FTTIVNQPEFK 199
F + + P +
Sbjct: 82 FDHVQHLPGIR 92
>gnl|CDD|198286 cd00299, GST_C_family, C-terminal, alpha helical domain of the
Glutathione S-transferase family. Glutathione
S-transferase (GST) family, C-terminal alpha helical
domain; a large, diverse group of cytosolic dimeric
proteins involved in cellular detoxification by
catalyzing the conjugation of glutathione (GSH) with a
wide range of endogenous and xenobiotic alkylating
agents, including carcinogens, therapeutic drugs,
environmental toxins and products of oxidative stress.
In addition, GSTs also show GSH peroxidase activity and
are involved in the synthesis of prostaglandins and
leukotrienes. This family, also referred to as soluble
GSTs, is the largest family of GSH transferases and is
only distantly related to the mitochondrial GSTs (GSTK).
Soluble GSTs bear no structural similarity to microsomal
GSTs (MAPEG family) and display additional activities
unique to their group, such as catalyzing thiolysis,
reduction and isomerization of certain compounds. The
GST fold contains an N-terminal thioredoxin-fold domain
and a C-terminal alpha helical domain, with an active
site located in a cleft between the two domains. GSH
binds to the N-terminal domain while the hydrophobic
substrate occupies a pocket in the C-terminal domain.
Based on sequence similarity, different classes of GSTs
have been identified, which display varying tissue
distribution, substrate specificities and additional
specific activities. In humans, GSTs display
polymorphisms which may influence individual
susceptibility to diseases such as cancer, arthritis,
allergy and sclerosis. Some GST family members with
non-GST functions include glutaredoxin 2, the CLIC
subfamily of anion channels, prion protein Ure2p,
crystallins, metaxins, stringent starvation protein A,
and aminoacyl-tRNA synthetases.
Length = 100
Score = 53.3 bits (128), Expect = 6e-09
Identities = 23/88 (26%), Positives = 39/88 (44%)
Query: 102 DELLPNACRWVFPILEIYPYNKQTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADIC 161
L P R ++ P ++ V++A++ L LA L++ L R YL GD +LAD+
Sbjct: 10 ATLAPPLVRLLYLEKVPLPKDEAAVEAAREELPALLAALEQLLAGRPYLAGDQFSLADVA 69
Query: 162 NACTLLQVYQHAMDLTFRKPYVNVNRWF 189
A L ++ Y + W+
Sbjct: 70 LAPVLARLEALGPYYDLLDEYPRLKAWY 97
>gnl|CDD|198316 cd03207, GST_C_8, C-terminal, alpha helical domain of an unknown
subfamily 8 of Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, unknown
subfamily 8; composed of Agrobacterium tumefaciens GST
and other uncharacterized bacterial proteins with
similarity to GSTs. GSTs are cytosolic dimeric proteins
involved in cellular detoxification by catalyzing the
conjugation of glutathione (GSH) with a wide range of
endogenous and xenobiotic alkylating agents, including
carcinogens, therapeutic drugs, environmental toxins,
and products of oxidative stress. GSTs also show GSH
peroxidase activity and are involved in the synthesis of
prostaglandins and leukotrienes. The GST fold contains
an N-terminal thioredoxin-fold domain and a C-terminal
alpha helical domain, with an active site located in a
cleft between the two domains. GSH binds to the
N-terminal domain while the hydrophobic substrate
occupies a pocket in the C-terminal domain. The
three-dimensional structure of Agrobacterium tumefaciens
GST has been determined but there is no information on
its functional characterization.
Length = 101
Score = 49.2 bits (118), Expect = 1e-07
Identities = 20/91 (21%), Positives = 32/91 (35%), Gaps = 4/91 (4%)
Query: 99 FAQDELLPNACRWVFPILEIYPYNKQTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLA 158
FA + P P+ + + +A L LA L+ L R YLVG+ + A
Sbjct: 7 FAAGTVEPPLLNKALGRFFEPPWGEPAIAAAYGDLDERLAALEAALAGRPYLVGERFSAA 66
Query: 159 DICNACTLLQVYQHAMDLTFRKPYVNVNRWF 189
D+ A L + Y + +
Sbjct: 67 DLLLASVLRWARAFGL----LPEYPALRAYV 93
>gnl|CDD|198339 cd10306, GST_C_GluRS_N, Glutathione S-transferase C-terminal-like,
alpha helical domain of Glutamyl-tRNA synthetase.
Glutathione S-transferase (GST) C-terminal domain
family, Glutamyl-tRNA synthetase (GluRS) subfamily; This
model characterizes the GST_C-like domain found in the
N-terminal region of GluRS from lower eukaryotes.
Aminoacyl-tRNA synthetases (aaRSs) comprise a family of
enzymes that catalyze the coupling of amino acids with
their matching tRNAs. This involves the formation of an
aminoacyl adenylate using ATP, followed by the transfer
of the activated amino acid to the 3'-adenosine moiety
of the tRNA. AaRSs may also be involved in translational
and transcriptional regulation, as well as in tRNA
processing. The GST_C-like domain of GluRS is involved
in protein-protein interactions. This domain mediates
the formation of the MetRS-Arc1p-GluRS ternary complex
found in lower eukaryotes, which is considered an
evolutionary intermediate between prokaryotic aaRS and
the multi-aaRS complex found in higher eukaryotes. AaRSs
from prokaryotes, which are active as dimers, do not
contain this GST_C-like domain.
Length = 87
Score = 47.7 bits (114), Expect = 3e-07
Identities = 25/61 (40%), Positives = 36/61 (59%), Gaps = 3/61 (4%)
Query: 133 LKRNLAKLDKHLLTRTYLVGDYITLADICNAC-TLLQVYQHAMDLTFRKPYVNVNRWFTT 191
L + L +LD HL RT++VG ++LADI A L+ A L K YVN++RWF+
Sbjct: 26 LSQALEELDSHLTLRTFIVGYSLSLADI--AVWGALRGNGVAGSLIKNKVYVNLSRWFSF 83
Query: 192 I 192
+
Sbjct: 84 L 84
>gnl|CDD|222111 pfam13410, GST_C_2, Glutathione S-transferase, C-terminal domain.
This domain is closely related to pfam00043.
Length = 69
Score = 47.4 bits (113), Expect = 3e-07
Identities = 21/64 (32%), Positives = 31/64 (48%)
Query: 126 VDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKPYVNV 185
++ A L+R L L++ L YL+GD +LADI A L ++ L R Y N+
Sbjct: 4 LERALAQLERALDALEERLADGPYLLGDRPSLADIALAPALARLDFRGPGLDLRAGYPNL 63
Query: 186 NRWF 189
W
Sbjct: 64 RAWL 67
>gnl|CDD|198315 cd03206, GST_C_7, C-terminal, alpha helical domain of an unknown
subfamily 7 of Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, unknown
subfamily 7; composed of uncharacterized proteins with
similarity to GSTs. GSTs are cytosolic dimeric proteins
involved in cellular detoxification by catalyzing the
conjugation of glutathione (GSH) with a wide range of
endogenous and xenobiotic alkylating agents, including
carcinogens, therapeutic drugs, environmental toxins,
and products of oxidative stress. GSTs also show GSH
peroxidase activity and are involved in the synthesis of
prostaglandins and leukotrienes. The GST fold contains
an N-terminal thioredoxin-fold domain and a C-terminal
alpha helical domain, with an active site located in a
cleft between the two domains. GSH binds to the
N-terminal domain while the hydrophobic substrate
occupies a pocket in the C-terminal domain.
Length = 100
Score = 46.4 bits (111), Expect = 1e-06
Identities = 29/102 (28%), Positives = 40/102 (39%), Gaps = 26/102 (25%)
Query: 106 PNACRW--VFPILEIYPYNKQTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNA 163
P A R +F P + + A+ R L LD+HL R +L GD T+AD+ A
Sbjct: 16 PAAARLIHLFG----APLD---PERARAISHRLLRLLDQHLAGRDWLAGDRPTIADV--A 66
Query: 164 CTLLQVY---QHA----MDLTFRKPYVNVNRWFTTIVNQPEF 198
C Y A + L PY + W + P F
Sbjct: 67 C-----YPYIALAPEGGVSLE---PYPAIRAWLARVEALPGF 100
>gnl|CDD|198289 cd03180, GST_C_2, C-terminal, alpha helical domain of an unknown
subfamily 2 of Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, unknown
subfamily 2; composed of uncharacterized bacterial
proteins, with similarity to GSTs. GSTs are cytosolic
dimeric proteins involved in cellular detoxification by
catalyzing the conjugation of glutathione (GSH) with a
wide range of endogenous and xenobiotic alkylating
agents, including carcinogens, therapeutic drugs,
environmental toxins and products of oxidative stress.
GSTs also show GSH peroxidase activity and are involved
in the synthesis of prostaglandins and leukotrienes. The
GST fold contains an N-terminal thioredoxin-fold domain
and a C-terminal alpha helical domain, with an active
site located in a cleft between the two domains. GSH
binds to the N-terminal domain while the hydrophobic
substrate occupies a pocket in the C-terminal domain.
Length = 110
Score = 43.8 bits (104), Expect = 1e-05
Identities = 19/75 (25%), Positives = 36/75 (48%), Gaps = 3/75 (4%)
Query: 124 QTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKPYV 183
+ ++ + +A LD L + YL GD TLADI C++ + + ++ R
Sbjct: 39 AAIAASLAACNKLMAILDAQLARQAYLAGDRFTLADIALGCSVYRWLELPIE---RPALP 95
Query: 184 NVNRWFTTIVNQPEF 198
++ RW+ + +P F
Sbjct: 96 HLERWYARLSQRPAF 110
>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 = 44.1 bits (105), Expect = 2e-05
Identities = 24/81 (29%), Positives = 35/81 (43%), Gaps = 5/81 (6%)
Query: 127 DSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQ---VYQHAMDLTFRK--P 181
D A L L KL+K L + YL+GD +T ADI TL++ VY +
Sbjct: 36 DKAVKELFEALDKLEKRLSKQPYLLGDRLTEADIRLFTTLIRFDPVYHQHFKCNLKTIRD 95
Query: 182 YVNVNRWFTTIVNQPEFKKIV 202
Y N+ R+ + P +
Sbjct: 96 YPNLWRYLRRLYQNPGVFETT 116
>gnl|CDD|215492 PLN02907, PLN02907, glutamate-tRNA ligase.
Length = 722
Score = 47.0 bits (112), Expect = 2e-05
Identities = 46/214 (21%), Positives = 76/214 (35%), Gaps = 41/214 (19%)
Query: 48 VSKFSSPK---VPAFESSDGTILTSSSAITYFVANEQ----LKGKTEAEKSKIFDYVCFA 100
++ S K P S G LT ++ + ++A G+ E S++ +++ +A
Sbjct: 27 LTIDPSLKSGSAPTLLFSSGEKLTGTNVLLRYIARSASLPGFYGQDAFESSQVDEWLDYA 86
Query: 101 QDELLPNACRWVFPILEIYPYNKQTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADI 160
P S+ + +D +L +RT+LVG +T+ADI
Sbjct: 87 -------------PTF-----------SSGSEFENACEYVDGYLASRTFLVGYSLTIADI 122
Query: 161 CNACTLLQVYQHAMDLTFRKPYVNVNRWFTTIVNQPEFKKIVGEVKLCEKQVNEAALASQ 220
L Q L K Y N+ RWF +I + +V A + +
Sbjct: 123 AIWSGLAGSGQRWESLRKSKKYQNLVRWFNSISAEYSDILN---------EVTAAYVGKR 173
Query: 221 SGNVPAAKEEKPKKEKKEAPKKEKEP-EPEADDP 253
PAA + K K K+ E D P
Sbjct: 174 GAGKPAAAKSKEKVADAGKADGAKDKGSFEVDLP 207
>gnl|CDD|198287 cd03177, GST_C_Delta_Epsilon, C-terminal, alpha helical domain of
Class Delta and Epsilon Glutathione S-transferases.
Glutathione S-transferase (GST) C-terminal domain
family, Class Delta and Epsilon subfamily; GSTs are
cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins and products of
oxidative stress. GSTs also show GSH peroxidase activity
and are involved in the synthesis of prostaglandins and
leukotrienes. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. The class Delta and Epsilon subfamily
is made up primarily of insect GSTs, which play major
roles in insecticide resistance by facilitating
reductive dehydrochlorination of insecticides or
conjugating them with GSH to produce water-soluble
metabolites that are easily excreted. They are also
implicated in protection against cellular damage by
oxidative stress.
Length = 117
Score = 42.5 bits (101), Expect = 5e-05
Identities = 28/104 (26%), Positives = 44/104 (42%), Gaps = 12/104 (11%)
Query: 104 LLPNACRWVFPILEIYPYNKQTVDSAK-DGLKRNLAKLDKHLLTRTYLVGDYITLADICN 162
L + +PIL + K D L+ L L+ L Y+ GD +T+AD+
Sbjct: 17 LYQRLRDYYYPIL----FGGAEPPEEKLDKLEEALEFLETFLEGSDYVAGDQLTIADLSL 72
Query: 163 ACTL--LQVYQHAMDLTFRKPYVNVNRWFTTIVNQPEFKKIVGE 204
T+ L+V DL+ Y NV W+ + P ++ GE
Sbjct: 73 VATVSTLEVVGF--DLS---KYPNVAAWYERLKALPPGEEENGE 111
>gnl|CDD|198292 cd03183, GST_C_Theta, C-terminal, alpha helical domain of Class
Theta Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, Class
Theta subfamily; composed of eukaryotic class Theta GSTs
and bacterial dichloromethane (DCM) dehalogenase. GSTs
are cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins and products of
oxidative stress. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. Mammalian class Theta GSTs show poor
GSH conjugating activity towards the standard
substrates, CDNB and ethacrynic acid, differentiating
them from other mammalian GSTs. GSTT1-1 shows similar
cataytic activity as bacterial DCM dehalogenase,
catalyzing the GSH-dependent hydrolytic dehalogenation
of dihalomethanes. This is an essential process in
methylotrophic bacteria to enable them to use
chloromethane and DCM as sole carbon and energy sources.
The presence of polymorphisms in human GSTT1-1 and its
relationship to the onset of diseases including cancer
is the subject of many studies. Human GSTT2-2 exhibits a
highly specific sulfatase activity, catalyzing the
cleavage of sulfate ions from aralkyl sufate esters, but
not from the aryl or alkyl sulfate esters.
Length = 126
Score = 42.6 bits (101), Expect = 5e-05
Identities = 18/82 (21%), Positives = 38/82 (46%), Gaps = 3/82 (3%)
Query: 109 CRWVFPILEIYPYNKQTVDSAKDGLKRNLAKLDKHLL-TRTYLVGDYITLADICNACTLL 167
+ + P+ P + + V A++ L+ +L L+ L + +L GD I++AD+ C ++
Sbjct: 26 QKVLLPLFGGTPVSPEKVKKAEENLEESLDLLENKFLKDKPFLAGDEISIADLSAICEIM 85
Query: 168 QVYQHAMDLTFRKPYVNVNRWF 189
Q D+ + + W
Sbjct: 86 QPEAAGYDVF--EGRPKLAAWR 105
>gnl|CDD|198288 cd03178, GST_C_Ure2p_like, C-terminal, alpha helical domain of
Ure2p and related Glutathione S-transferase-like
proteins. Glutathione S-transferase (GST) C-terminal
domain family, Ure2p-like subfamily; composed of the
Saccharomyces cerevisiae Ure2p, YfcG and YghU from
Escherichia coli, and related GST-like proteins. Ure2p
is a regulator for nitrogen catabolism in yeast. It
represses the expression of several gene products
involved in the use of poor nitrogen sources when rich
sources are available. A transmissible conformational
change of Ure2p results in a prion called [Ure3], an
inactive, self-propagating and infectious amyloid. Ure2p
displays a GST fold containing an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain. The N-terminal thioredoxin-fold domain is
sufficient to induce the [Ure3] phenotype and is also
called the prion domain of Ure2p. In addition to its
role in nitrogen regulation, Ure2p confers protection to
cells against heavy metal ion and oxidant toxicity, and
shows glutathione (GSH) peroxidase activity. YfcG and
YghU are two of the nine GST homologs in the genome of
Escherichia coli. They display very low or no GSH
transferase, but show very good disulfide bond
oxidoreductase activity. YghU also shows modest organic
hydroperoxide reductase activity. GSTs are cytosolic
dimeric proteins involved in cellular detoxification by
catalyzing the conjugation of GSH with a wide range of
endogenous and xenobiotic alkylating agents, including
carcinogens, therapeutic drugs, environmental toxins and
products of oxidative stress. GSTs also show GSH
peroxidase activity and are involved in the synthesis of
prostaglandins and leukotrienes. The GST active site is
located in a cleft between the N- and C-terminal
domains. GSH binds to the N-terminal domain while the
hydrophobic substrate occupies a pocket in the
C-terminal domain.
Length = 110
Score = 42.2 bits (100), Expect = 5e-05
Identities = 23/80 (28%), Positives = 32/80 (40%), Gaps = 4/80 (5%)
Query: 122 NKQTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNAC-TLLQVYQHAMDLTFRK 180
++ D +KR LDK L R YL G+ ++ADI A +
Sbjct: 34 IPYAIERYTDEVKRLYGVLDKRLSDRPYLAGEEYSIADI--ALYPWTHYADLGGFADLSE 91
Query: 181 PYVNVNRWFTTIVNQPEFKK 200
Y NV RW I +P +K
Sbjct: 92 -YPNVKRWLERIAARPAVQK 110
>gnl|CDD|183298 PRK11752, PRK11752, putative S-transferase; Provisional.
Length = 264
Score = 41.1 bits (97), Expect = 7e-04
Identities = 27/96 (28%), Positives = 37/96 (38%), Gaps = 29/96 (30%)
Query: 119 YPYNKQTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADIC--------------NAC 164
Y N+ T+++ KR L LDK L Y+ GD T+ADI +A
Sbjct: 174 YAINRFTMEA-----KRQLDVLDKQLAEHEYIAGDEYTIADIAIWPWYGNLVLGNLYDAA 228
Query: 165 TLLQVYQHAMDLTFRKPYVNVNRWFTTIVNQPEFKK 200
L V Y +V RW I +P K+
Sbjct: 229 EFLDV----------GSYKHVQRWAKEIAERPAVKR 254
>gnl|CDD|198298 cd03189, GST_C_GTT1_like, C-terminal, alpha helical domain of
GTT1-like Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family,
Saccharomyces cerevisiae GTT1-like subfamily; composed
of predominantly uncharacterized proteins with
similarity to the S. cerevisiae GST protein, GTT1, and
the Schizosaccharomyces pombe GST-III. GSTs are
cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins, and products of
oxidative stress. GSTs also show GSH peroxidase activity
and are involved in the synthesis of prostaglandins and
leukotrienes. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. GTT1, a homodimer, exhibits GST
activity with standard substrates and associates with
the endoplasmic reticulum. Its expression is induced
after diauxic shift and remains high throughout the
stationary phase. S. pombe GST-III is implicated in the
detoxification of various metals.
Length = 123
Score = 38.8 bits (91), Expect = 8e-04
Identities = 20/64 (31%), Positives = 27/64 (42%), Gaps = 3/64 (4%)
Query: 133 LKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKPYVNVNRWFTTI 192
LKR+L L+ HL Y GD +T ADI + L L Y N+ + I
Sbjct: 63 LKRHLDFLEDHLAKHPYFAGDELTAADIMMSFPLEAALARGPLLE---QYPNIAAYLERI 119
Query: 193 VNQP 196
+P
Sbjct: 120 EARP 123
>gnl|CDD|238319 cd00570, GST_N_family, Glutathione S-transferase (GST) family,
N-terminal domain; a large, diverse group of cytosolic
dimeric proteins involved in cellular detoxification by
catalyzing the conjugation of glutathione (GSH) with a
wide range of endogenous and xenobiotic alkylating
agents, including carcinogens, therapeutic drugs,
environmental toxins and products of oxidative stress.
In addition, GSTs also show GSH peroxidase activity and
are involved in the synthesis of prostaglandins and
leukotrienes. This family, also referred to as soluble
GSTs, is the largest family of GSH transferases and is
only distantly related to the mitochondrial GSTs (GSTK
subfamily, a member of the DsbA family). Soluble GSTs
bear no structural similarity to microsomal GSTs (MAPEG
family) and display additional activities unique to
their group, such as catalyzing thiolysis, reduction
and isomerization of certain compounds. The GST fold
contains an N-terminal TRX-fold domain and a C-terminal
alpha helical domain, with an active site located in a
cleft between the two domains. Based on sequence
similarity, different classes of GSTs have been
identified, which display varying tissue distribution,
substrate specificities and additional specific
activities. In humans, GSTs display polymorphisms which
may influence individual susceptibility to diseases
such as cancer, arthritis, allergy and sclerosis. Some
GST family members with non-GST functions include
glutaredoxin 2, the CLIC subfamily of anion channels,
prion protein Ure2p, crystallins, metaxin 2 and
stringent starvation protein A.
Length = 71
Score = 37.6 bits (88), Expect = 9e-04
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 3/73 (4%)
Query: 6 TLYSWPDNFRTYQILIAAEYSSFKVNIPKDFVFGKSNKNADFVSKFSSPKVPAFESSDGT 65
LY +P + R+ ++ +A E + V + +F++ KVP E G
Sbjct: 2 KLYYFPGSPRSLRVRLALEEKGLPYEL--VPVDLGEGEQEEFLALNPLGKVPVLE-DGGL 58
Query: 66 ILTSSSAITYFVA 78
+LT S AI ++A
Sbjct: 59 VLTESLAILEYLA 71
>gnl|CDD|198305 cd03196, GST_C_5, C-terminal, alpha helical domain of an unknown
subfamily 5 of Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, unknown
subfamily 5; composed of uncharacterized bacterial
proteins with similarity to GSTs. GSTs are cytosolic
dimeric proteins involved in cellular detoxification by
catalyzing the conjugation of glutathione (GSH) with a
wide range of endogenous and xenobiotic alkylating
agents, including carcinogens, therapeutic drugs,
environmental toxins, and products of oxidative stress.
GSTs also show GSH peroxidase activity and are involved
in the synthesis of prostaglandins and leukotrienes. The
GST fold contains an N-terminal thioredoxin-fold domain
and a C-terminal alpha helical domain, with an active
site located in a cleft between the two domains. GSH
binds to the N-terminal domain while the hydrophobic
substrate occupies a pocket in the C-terminal domain.
Length = 115
Score = 38.3 bits (90), Expect = 0.001
Identities = 25/69 (36%), Positives = 31/69 (44%), Gaps = 8/69 (11%)
Query: 137 LAKLDKHLLTRTYLVGDYITLADICNACTLLQ-VYQHAM-DLT-FRK-PYVNVNRWFTTI 192
LA+L+ L YL GD +LAD + V Q A D F PY N+ RW
Sbjct: 50 LAELEARLSQHAYLFGDRPSLADYA----IFPFVRQFAHVDRDWFDASPYPNLRRWLNRF 105
Query: 193 VNQPEFKKI 201
+ P F KI
Sbjct: 106 LQSPLFSKI 114
>gnl|CDD|198324 cd10291, GST_C_YfcG_like, C-terminal, alpha helical domain of
Escherichia coli YfcG Glutathione S-transferases and
related uncharacterized proteins. Glutathione
S-transferase (GST) C-terminal domain family, YfcG-like
subfamily; composed of the Escherichia coli YfcG and
related proteins. GSTs are cytosolic dimeric proteins
involved in cellular detoxification by catalyzing the
conjugation of glutathione (GSH) with a wide range of
endogenous and xenobiotic alkylating agents, including
carcinogens, therapeutic drugs, environmental toxins and
products of oxidative stress. GSTs also show GSH
peroxidase activity and are involved in the synthesis of
prostaglandins and leukotrienes. The GST active site is
located in a cleft between the N- and C-terminal
domains. GSH binds to the N-terminal domain while the
hydrophobic substrate occupies a pocket in the
C-terminal domain. YfcG is one of nine GST homologs in
Escherichia coli. It is expressed predominantly during
the late stationary phase where the predominant form of
GSH is glutathionylspermidine (GspSH), suggesting that
YfcG might interact with GspSH. It has very low or no
GSH transferase or peroxidase activity, but displays a
unique disulfide bond reductase activity that is
comparable to thioredoxins (TRXs) and glutaredoxins
(GRXs). However, unlike TRXs and GRXs, YfcG does not
contain a redox active cysteine residue and may use a
bound thiol disulfide couple such as 2GSH/GSSG for
activity. The crystal structure of YcfG reveals a bound
GSSG molecule in its active site. The actual
physiological substrates for YfcG are yet to be
identified.
Length = 110
Score = 37.2 bits (87), Expect = 0.003
Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 7/69 (10%)
Query: 134 KRNLAKLDKHLLTRTYLVGDYITLADICNAC-TLLQVYQ-HAMDLTFRKPYVNVNRWFTT 191
KR LD+ L YL GD ++ADI A + ++ +DL + N+ RWF
Sbjct: 46 KRLYGVLDRRLAKSKYLAGDEYSIADI--AIWPWVARHEWQGIDL---ADFPNLKRWFER 100
Query: 192 IVNQPEFKK 200
+ +P +K
Sbjct: 101 LAARPAVQK 109
>gnl|CDD|198325 cd10292, GST_C_YghU_like, C-terminal, alpha helical domain of
Escherichia coli Yghu Glutathione S-transferases and
related uncharacterized proteins. Glutathione
S-transferase (GST) C-terminal domain family, YghU-like
subfamily; composed of the Escherichia coli YghU and
related proteins. GSTs are cytosolic dimeric proteins
involved in cellular detoxification by catalyzing the
conjugation of glutathione (GSH) with a wide range of
endogenous and xenobiotic alkylating agents, including
carcinogens, therapeutic drugs, environmental toxins and
products of oxidative stress. GSTs also show GSH
peroxidase activity and are involved in the synthesis of
prostaglandins and leukotrienes. The GST active site is
located in a cleft between the N- and C-terminal
domains. GSH binds to the N-terminal domain while the
hydrophobic substrate occupies a pocket in the
C-terminal domain. YghU is one of nine GST homologs in
the genome of Escherichia coli. It is similar to
Escherichia coli YfcG in that it has poor GSH
transferase activity towards typical substrates. It
shows modest reductase activity towards some organic
hydroperoxides. Like YfcG, YghU also shows good
disulfide bond oxidoreductase activity comparable to the
activities of glutaredoxins and thioredoxins. YghU does
not contain a redox active cysteine residue, and may use
a bound thiol disulfide couple such as 2GSH/GSSG for
activity. The crystal structure of YghU reveals two GSH
molecules bound in its active site.
Length = 118
Score = 36.7 bits (85), Expect = 0.005
Identities = 25/72 (34%), Positives = 32/72 (44%), Gaps = 6/72 (8%)
Query: 134 KRNLAKLDKHLLTRTYLVGDYITLADIC-----NACTLLQVYQHAMDLTFRKPYVNVNRW 188
KR L LD+ L T YL GD T+AD+ L +Y A L Y +V RW
Sbjct: 46 KRQLDVLDRQLATHKYLAGDEYTIADMAIWPWYGGLALGSLYDAAEFLDV-DEYKHVQRW 104
Query: 189 FTTIVNQPEFKK 200
I +P K+
Sbjct: 105 AKDIAARPAVKR 116
>gnl|CDD|223512 COG0435, ECM4, Predicted glutathione S-transferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 324
Score = 37.7 bits (88), Expect = 0.010
Identities = 15/34 (44%), Positives = 19/34 (55%)
Query: 127 DSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADI 160
+ A L L KL++ L R YL GD +T ADI
Sbjct: 204 EEAVKKLFEALDKLEQILSERRYLTGDQLTEADI 237
>gnl|CDD|100109 cd05831, Ribosomal_P1, Ribosomal protein P1. This subfamily
represents the eukaryotic large ribosomal protein P1.
Eukaryotic P1 and P2 are functionally equivalent to the
bacterial protein L7/L12, but are not homologous to
L7/L12. P1 is located in the L12 stalk, with proteins
P2, P0, L11, and 28S rRNA. P1 and P2 are the only
proteins in the ribosome to occur as multimers, always
appearing as sets of heterodimers. Recent data indicate
that eukaryotes have four copies (two heterodimers),
while most archaeal species contain six copies of L12p
(three homodimers) and bacteria may have four or six
copies (two or three homodimers), depending on the
species. Experiments using S. cerevisiae P1 and P2
indicate that P1 proteins are positioned more internally
with limited reactivity in the C-terminal domains, while
P2 proteins seem to be more externally located and are
more likely to interact with other cellular components.
In lower eukaryotes, P1 and P2 are further subdivided
into P1A, P1B, P2A, and P2B, which form P1A/P2B and
P1B/P2A heterodimers. Some plant species have a third
P-protein, called P3, which is not homologous to P1 and
P2. In humans, P1 and P2 are strongly autoimmunogenic.
They play a significant role in the etiology and
pathogenesis of systemic lupus erythema (SLE). In
addition, the ribosome-inactivating protein
trichosanthin (TCS) interacts with human P0, P1, and P2,
with its primary binding site located in the C-terminal
region of P2. TCS inactivates the ribosome by
depurinating a specific adenine in the sarcin-ricin loop
of 28S rRNA.
Length = 103
Score = 35.0 bits (81), Expect = 0.015
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 6/44 (13%)
Query: 215 AALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDIL 258
AA A+ + AA E K+EKKE E E E+DD M L
Sbjct: 65 AAPAAAAAAAAAAAAEAKKEEKKE------EEEEESDDDMGFGL 102
>gnl|CDD|198341 cd10308, GST_C_eEF1b_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of eukaryotic
translation Elongation Factor 1 beta. Glutathione
S-transferase (GST) C-terminal domain family, eukaryotic
translation Elongation Factor 1 beta (eEF1b) subfamily;
eEF1b is a component of the eukaryotic translation
elongation factor-1 (EF1) complex which plays a central
role in the elongation cycle during protein
biosynthesis. EF1 consists of two functionally distinct
units, EF1A and EF1B. EF1A catalyzes the GTP-dependent
binding of aminoacyl-tRNA to the ribosomal A site
concomitant with the hydrolysis of GTP. The resulting
inactive EF1A:GDP complex is recycled to the active GTP
form by the guanine-nucleotide exchange factor EF1B, a
complex composed of at least two subunits, alpha and
gamma. Metazoan EFB1 contain a third subunit, beta.
eEF1b contains a GST_C-like alpha helical domain at the
N-terminal region and a C-terminal guanine nucleotide
exchange domain. The GST_C-like domain likely functions
as a protein-protein interaction domain, similar to the
function of the GST_C-like domains of EF1Bgamma and
various aminoacyl-tRNA synthetases (aaRSs) from higher
eukaryotes.
Length = 82
Score = 34.3 bits (79), Expect = 0.018
Identities = 14/80 (17%), Positives = 31/80 (38%), Gaps = 15/80 (18%)
Query: 115 ILEIYPYNKQTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQ--H 172
+L + GL+ L+++L R+Y+ G + AD ++V+
Sbjct: 13 LLGVSLDGSFADLKTDKGLE----ALNEYLADRSYISGYSPSQAD-------VEVFDKLK 61
Query: 173 AMDLTFRKPYVNVNRWFTTI 192
+ + ++ RW+ I
Sbjct: 62 KAPDATK--FPHLARWYRHI 79
>gnl|CDD|215914 pfam00428, Ribosomal_60s, 60s Acidic ribosomal protein. This
family includes archaebacterial L12, eukaryotic P0, P1
and P2.
Length = 88
Score = 34.1 bits (79), Expect = 0.019
Identities = 20/74 (27%), Positives = 28/74 (37%), Gaps = 6/74 (8%)
Query: 182 YVNVN-RWFTTIVNQPEFKKIVGEVKLCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAP 240
V +V E K I + +++ AA A+ + AA E
Sbjct: 15 GKEVEAERLELLVKFLEGKNIKELIANGSAKLSAAAAAAAAAAAAAAAAAA-----AEEE 69
Query: 241 KKEKEPEPEADDPM 254
KKE+E E E DD M
Sbjct: 70 KKEEEEEEEEDDDM 83
>gnl|CDD|198297 cd03188, GST_C_Beta, C-terminal, alpha helical domain of Class Beta
Glutathione S-transferases. Glutathione S-transferase
(GST) C-terminal domain family, Class Beta subfamily;
GSTs are cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins, and products of
oxidative stress. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. Unlike mammalian GSTs which detoxify
a broad range of compounds, the bacterial class Beta
GSTs exhibit GSH conjugating activity with a narrow
range of substrates. In addition to GSH conjugation,
they are involved in the protection against oxidative
stress and are able to bind antibiotics and reduce the
antimicrobial activity of beta-lactam drugs,
contributing to antibiotic resistance. The structure of
the Proteus mirabilis enzyme reveals that the cysteine
in the active site forms a covalent bond with GSH. One
member of this subfamily is a GST from Burkholderia
xenovorans LB400 that is encoded by the bphK gene and is
part of the biphenyl catabolic pathway.
Length = 113
Score = 33.8 bits (78), Expect = 0.045
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 129 AKDGLKRNLAKLDKHLLTRTYLVGDYITLADI 160
A++ L+R LA LD L YL+GD ++AD
Sbjct: 43 ARERLERRLAYLDAQLAGGPYLLGDQFSVADA 74
>gnl|CDD|166036 PLN02395, PLN02395, glutathione S-transferase.
Length = 215
Score = 34.8 bits (80), Expect = 0.053
Identities = 35/180 (19%), Positives = 77/180 (42%), Gaps = 10/180 (5%)
Query: 32 IPKDFVFGKSNKNADFVSKFSSPKVPAFESSDGTILTSSSAITYFVANEQ-----LKGKT 86
+P D + G+ +K ++++ VP D I S + + Y+ + L GKT
Sbjct: 30 VPVDLMKGE-HKQPEYLALQPFGVVPVIVDGDYKIFESRAIMRYYAEKYRSQGPDLLGKT 88
Query: 87 EAEKSKIFDYVCFAQDELLPNACRWVFPILEI----YPYNKQTVDSAKDGLKRNLAKLDK 142
E+ ++ ++ P IL +P +++ + +++ L + L +
Sbjct: 89 IEERGQVEQWLDVEATSYHPPLLNLTLHILFASKMGFPADEKVIKESEEKLAKVLDVYEA 148
Query: 143 HLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKPYVNVNRWFTTIVNQPEFKKIV 202
L YL GD+++LAD+ + + K +V+ W+ I ++P +K+++
Sbjct: 149 RLSKSKYLAGDFVSLADLAHLPFTEYLVGPIGKAYLIKDRKHVSAWWDDISSRPAWKEVL 208
>gnl|CDD|178450 PLN02859, PLN02859, glutamine-tRNA ligase.
Length = 788
Score = 35.5 bits (82), Expect = 0.059
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 9/66 (13%)
Query: 210 KQVNEAALASQSGNVPAAKEEKPKKEKKEAPKK--EKEPEPEADDPMDDILAAEPKSKDP 267
K++ + L G AA EKP K+KKE P K EK+ A P ++ L +P
Sbjct: 168 KKLIDKKLYELLGEKTAADNEKPVKKKKEKPAKVEEKKVAVAAAPPSEEEL-------NP 220
Query: 268 FDLLPK 273
+ + P+
Sbjct: 221 YSIFPQ 226
>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase;
Reviewed.
Length = 460
Score = 35.3 bits (81), Expect = 0.065
Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 2/54 (3%)
Query: 209 EKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAEP 262
QV+ A ++ A E + + E P+K P P+ P D++ A P
Sbjct: 386 AHQVDAEAASAAPEEPAALASEAHDETEPEVPEKA-APIPDPAKP-DELAVAGP 437
>gnl|CDD|100110 cd05832, Ribosomal_L12p, Ribosomal protein L12p. This subfamily
includes archaeal L12p, the protein that is functionally
equivalent to L7/L12 in bacteria and the P1 and P2
proteins in eukaryotes. L12p is homologous to P1 and P2
but is not homologous to bacterial L7/L12. It is located
in the L12 stalk, with proteins L10, L11, and 23S rRNA.
L12p is the only protein in the ribosome to occur as
multimers, always appearing as sets of dimers. Recent
data indicate that most archaeal species contain six
copies of L12p (three homodimers), while eukaryotes have
four copies (two heterodimers), and bacteria may have
four or six copies (two or three homodimers), depending
on the species. The organization of proteins within the
stalk has been characterized primarily in bacteria,
where L7/L12 forms either two or three homodimers and
each homodimer binds to the extended C-terminal helix of
L10. L7/L12 is attached to the ribosome through L10 and
is the only ribosomal protein that does not directly
interact with rRNA. Archaeal L12p is believed to
function in a similar fashion. However, hybrid ribosomes
containing the large subunit from E. coli with an
archaeal stalk are able to bind archaeal and eukaryotic
elongation factors but not bacterial elongation factors.
In several mesophilic and thermophilic archaeal species,
the binding of 23S rRNA to protein L11 and to the
L10/L12p pentameric complex was found to be
temperature-dependent and cooperative.
Length = 106
Score = 33.2 bits (76), Expect = 0.068
Identities = 17/66 (25%), Positives = 34/66 (51%), Gaps = 6/66 (9%)
Query: 193 VNQPEFKKIVGEVK------LCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEP 246
V++ K +V ++ +K AA A+ + AA EEK +++++E K+E++
Sbjct: 33 VDEARVKALVAALEEVNIDEAIKKAAVAAAAAAPAAAAAAAAEEKAEEKEEEKKKEEEKE 92
Query: 247 EPEADD 252
E E +
Sbjct: 93 EEEEEA 98
>gnl|CDD|218597 pfam05466, BASP1, Brain acid soluble protein 1 (BASP1 protein).
This family consists of several brain acid soluble
protein 1 (BASP1) or neuronal axonal membrane protein
NAP-22. The BASP1 is a neuron enriched Ca(2+)-dependent
calmodulin-binding protein of unknown function.
Length = 233
Score = 34.8 bits (79), Expect = 0.069
Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 210 KQVNEAALASQSGNVPAAKEEKPKKEKKEAPKK--EKEPEPEADDPMDDILAAEPKSKDP 267
K+ EA A+++ V AKEEKP K+ ++ K EKE E EA ++ AEP+ +
Sbjct: 37 KENEEAQAAAETTEVKEAKEEKPDKDAQDTANKTEEKEGEKEAAAAKEEAPKAEPEKTEG 96
>gnl|CDD|240285 PTZ00135, PTZ00135, 60S acidic ribosomal protein P0; Provisional.
Length = 310
Score = 35.0 bits (81), Expect = 0.075
Identities = 9/42 (21%), Positives = 16/42 (38%)
Query: 210 KQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEAD 251
+++ EA + AA AP +E+E E +
Sbjct: 263 EKIKEALANPSAAAAAAAAAAAAAAAAAAAPAEEEEEEEDDM 304
>gnl|CDD|198309 cd03200, GST_C_AIMP2, Glutathione S-transferase C-terminal-like,
alpha helical domain of Aminoacyl tRNA synthetase
complex-Interacting Multifunctional Protein 2.
Glutathione S-transferase (GST) C-terminal domain
family, Aminoacyl tRNA synthetase complex-Interacting
Multifunctional Protein (AIMP) 2 subfamily; AIMPs are
non-enzymatic cofactors that play critical roles in the
assembly and formation of a macromolecular multi-tRNA
synthetase protein complex that functions as a molecular
hub to coordinate protein synthesis. There are three
AIMPs, named AIMP1-3, which play diverse regulatory
roles. AIMP2, also called p38 or JTV-1, contains a
C-terminal domain with similarity to the C-terminal
alpha helical domain of GSTs. It plays an important role
in the control of cell fate via antiproliferative (by
enhancing the TGF-beta signal) and proapoptotic
(activation of p53 and TNF-alpha) activities. Its roles
in the control of cell proliferation and death suggest
that it is a potent tumor suppressor. AIMP2 heterozygous
mice with lower than normal expression of AIMP2 show
high susceptibility to tumorigenesis. AIMP2 is also a
substrate of Parkin, an E3 ubiquitin ligase that is
involved in the ubiquitylation and proteasomal
degradation of its substrates. Mutations in the Parkin
gene is found in 50% of patients with
autosomal-recessive early-onset parkinsonism. The
accumulation of AIMP2, due to impaired Parkin function,
may play a role in the pathogenesis of Parkinson's
disease.
Length = 96
Score = 32.9 bits (75), Expect = 0.078
Identities = 26/101 (25%), Positives = 37/101 (36%), Gaps = 21/101 (20%)
Query: 110 RWVFPILEIYPYNKQT-------VDSAKDGLKRNLAK--------LDKHLLTRTYLVGDY 154
R++F +L + VD+A L +K L+ L +LVG
Sbjct: 2 RFLFRLLGDESDDPVNATLIDSWVDTAIFQLLEGSSKEKAAVLRALNSALGRSPWLVGSE 61
Query: 155 ITLADICNACTLLQVYQHAMDLTFRKPYVNVNRWFTTIVNQ 195
T+ADI +LQ L P NV RW + N
Sbjct: 62 PTVADIALWSAVLQT-----GLASGAP-ANVQRWMKSCENL 96
>gnl|CDD|184724 PRK14520, rpsP, 30S ribosomal protein S16; Provisional.
Length = 155
Score = 33.1 bits (76), Expect = 0.13
Identities = 10/39 (25%), Positives = 11/39 (28%)
Query: 212 VNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEA 250
N A + G A K KK EA E
Sbjct: 106 FNAALAEADGGPTAEATTPKKKKAAAEAAAAEAAAPAAE 144
Score = 33.1 bits (76), Expect = 0.14
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 1/60 (1%)
Query: 202 VGEVKLCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAE 261
V E K + ++ AALA ++ P A+ PKK+K A E A + A E
Sbjct: 95 VAEPKPSKLELFNAALA-EADGGPTAEATTPKKKKAAAEAAAAEAAAPAAEAAAAAAAEE 153
>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 = 32.6 bits (75), Expect = 0.14
Identities = 25/93 (26%), Positives = 38/93 (40%), Gaps = 17/93 (18%)
Query: 121 YNKQTVDSAKDGLKRN----LAKLDKHLLTRT--YLVGDYITLADICNACTLLQVYQHA- 173
Y K +A + L++ L+KLD +L + + +L GD +TLAD C LL H
Sbjct: 18 YIKNKDPAADEALRKALLKELSKLDAYLSSSSRKFLDGDTLTLAD----CNLLPKLHHIR 73
Query: 174 ------MDLTFRKPYVNVNRWFTTIVNQPEFKK 200
D + + R+ EF K
Sbjct: 74 VAGKAYKDFDIPDDFTGLWRYLKNAYETDEFTK 106
>gnl|CDD|198326 cd10293, GST_C_Ure2p, C-terminal, alpha helical domain of fungal
Ure2p Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, Ure2p
subfamily; composed of the Saccharomyces cerevisiae
Ure2p and related fungal proteins. Ure2p is a regulator
for nitrogen catabolism in yeast. It represses the
expression of several gene products involved in the use
of poor nitrogen sources when rich sources are
available. A transmissible conformational change of
Ure2p results in a prion called [Ure3], an inactive,
self-propagating and infectious amyloid. Ure2p displays
a GST fold containing an N-terminal thioredoxin-fold
domain and a C-terminal alpha helical domain. The
N-terminal thioredoxin-fold domain is sufficient to
induce the [Ure3] phenotype and is also called the prion
domain of Ure2p. In addition to its role in nitrogen
regulation, Ure2p confers protection to cells against
heavy metal ion and oxidant toxicity, and shows
glutathione (GSH) peroxidase activity. GSTs are
cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of GSH with
a wide range of endogenous and xenobiotic alkylating
agents, including carcinogens, therapeutic drugs,
environmental toxins and products of oxidative stress.
GSTs also show GSH peroxidase activity and are involved
in the synthesis of prostaglandins and leukotrienes. The
GST active site is located in a cleft between the N- and
C-terminal domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain.
Length = 117
Score = 32.4 bits (74), Expect = 0.15
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 12/90 (13%)
Query: 121 YNKQTVDSAK----DGLKRNLAKLDKHL--LTRTYLVGDYITLADICNACTLLQVYQHAM 174
++ + V SA + ++R L L+ L R +LVGD T+AD+ A +
Sbjct: 29 FHAEKVPSAIERYTNEIRRVLGVLETALAERYRVWLVGDKFTIADL--AFVPWNNVVDMI 86
Query: 175 ----DLTFRKPYVNVNRWFTTIVNQPEFKK 200
+L +K + +V +W ++ +P KK
Sbjct: 87 FIDPELDIKKEFPHVYKWLKRMLARPAVKK 116
>gnl|CDD|224969 COG2058, RPP1A, Ribosomal protein L12E/L44/L45/RPP1/RPP2
[Translation, ribosomal structure and biogenesis].
Length = 109
Score = 32.0 bits (73), Expect = 0.16
Identities = 11/44 (25%), Positives = 17/44 (38%)
Query: 209 EKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADD 252
E AA + + A+ E +E K+E+ E DD
Sbjct: 59 EAPAAAAAAGAAAAAAAGAEAAAEADEAEEEEKEEEAEEESDDD 102
Score = 31.6 bits (72), Expect = 0.24
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 215 AALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPM 254
AA A + A E + ++ E +KE+E E E+DD M
Sbjct: 64 AAAAGAAAAAAAGAEAAAEADEAEEEEKEEEAEEESDDDM 103
Score = 30.8 bits (70), Expect = 0.39
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 215 AALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAA 260
AA A+ AA + E EA ++EKE E ++ DD+L
Sbjct: 62 AAAAAAGAAAAAAAGAEAAAEADEAEEEEKE-EEAEEESDDDMLFG 106
>gnl|CDD|239355 cd03057, GST_N_Beta, GST_N family, Class Beta subfamily; GSTs are
cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins and products of
oxidative stress. The GST fold contains an N-terminal
TRX-fold domain and a C-terminal alpha helical domain,
with an active site located in a cleft between the two
domains. Unlike mammalian GSTs which detoxify a broad
range of compounds, the bacterial class Beta GSTs
exhibit limited GSH conjugating activity with a narrow
range of substrates. In addition to GSH conjugation,
they also bind antibiotics and reduce the antimicrobial
activity of beta-lactam drugs. The structure of the
Proteus mirabilis enzyme reveals that the cysteine in
the active site forms a covalent bond with GSH.
Length = 77
Score = 31.0 bits (71), Expect = 0.19
Identities = 18/59 (30%), Positives = 32/59 (54%), Gaps = 9/59 (15%)
Query: 23 AEYSSFKVNIPKDFVFGKSNKNADFVSKFSSPK--VPAFESSDGTILTSSSAITYFVAN 79
+ +V++ K+ K AD+++ +PK VPA DG +LT S+AI ++A+
Sbjct: 23 LPFELVRVDLRT-----KTQKGADYLAI--NPKGQVPALVLDDGEVLTESAAILQYLAD 74
>gnl|CDD|198300 cd03191, GST_C_Zeta, C-terminal, alpha helical domain of Class Zeta
Glutathione S-transferases. Glutathione S-transferase
(GST) C-terminal domain family, Class Zeta subfamily;
GSTs are cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins, and products of
oxidative stress. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. Class Zeta GSTs, also known as
maleylacetoacetate (MAA) isomerases, catalyze the
isomerization of MAA to fumarylacetoacetate, the
penultimate step in tyrosine/phenylalanine catabolism,
using GSH as a cofactor. They show little
GSH-conjugating activity towards traditional GST
substrates, but display modest GSH peroxidase activity.
They are also implicated in the detoxification of the
carcinogen dichloroacetic acid by catalyzing its
dechlorination to glyoxylic acid.
Length = 121
Score = 31.8 bits (73), Expect = 0.22
Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 18/62 (29%)
Query: 133 LKRNLAKLDKHL--LTRTYLVGDYITLADIC------NAC----------TLLQVYQHAM 174
++R L+K L Y VGD TLADIC NA T++++ + +
Sbjct: 49 IERGFQALEKLLASTAGKYCVGDEPTLADICLVPQVYNARRFGVDLSPYPTIVRINEACL 108
Query: 175 DL 176
+L
Sbjct: 109 EL 110
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 33.8 bits (78), Expect = 0.24
Identities = 17/62 (27%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 206 KLCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAEPKSK 265
KL +KQ A + AA ++K + K+A + E + DP+ + LA +++
Sbjct: 413 KLRKKQRKAEKKAEKEEAEKAAAKKKAEAAAKKAKGPDGETKKVDPDPLGEKLA---RTE 469
Query: 266 DP 267
DP
Sbjct: 470 DP 471
>gnl|CDD|235795 PRK06402, rpl12p, 50S ribosomal protein L12P; Reviewed.
Length = 106
Score = 31.5 bits (72), Expect = 0.26
Identities = 14/37 (37%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 215 AALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEAD 251
AA A+ + AA EEK ++E++E +EKE E
Sbjct: 64 AAAAAAAAAAAAAAEEKKEEEEEE---EEKEESEEEA 97
Score = 30.3 bits (69), Expect = 0.71
Identities = 12/36 (33%), Positives = 21/36 (58%)
Query: 215 AALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEA 250
A A+ + AA + KKE++E ++++E E EA
Sbjct: 62 VAAAAAAAAAAAAAAAEEKKEEEEEEEEKEESEEEA 97
Score = 29.9 bits (68), Expect = 0.82
Identities = 9/40 (22%), Positives = 19/40 (47%)
Query: 213 NEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADD 252
AA + AA E+K+ ++E+E + E+++
Sbjct: 56 KAAAAPVAAAAAAAAAAAAAAAEEKKEEEEEEEEKEESEE 95
Score = 29.2 bits (66), Expect = 1.4
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 225 PAAKEEKPKKEKKEAPKKEKEPEPEADDPM 254
AA +EKKE ++E+E E ++
Sbjct: 69 AAAAAAAAAEEKKEEEEEEEEKEESEEEAA 98
Score = 27.2 bits (61), Expect = 7.0
Identities = 10/44 (22%), Positives = 21/44 (47%)
Query: 209 EKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADD 252
E+ + +AA A + AA +++ ++E+E E E +
Sbjct: 51 EEAIKKAAAAPVAAAAAAAAAAAAAAAEEKKEEEEEEEEKEESE 94
Score = 27.2 bits (61), Expect = 7.1
Identities = 7/29 (24%), Positives = 16/29 (55%)
Query: 224 VPAAKEEKPKKEKKEAPKKEKEPEPEADD 252
AA +++K+E ++E++ E E +
Sbjct: 69 AAAAAAAAAEEKKEEEEEEEEKEESEEEA 97
>gnl|CDD|100111 cd05833, Ribosomal_P2, Ribosomal protein P2. This subfamily
represents the eukaryotic large ribosomal protein P2.
Eukaryotic P1 and P2 are functionally equivalent to the
bacterial protein L7/L12, but are not homologous to
L7/L12. P2 is located in the L12 stalk, with proteins
P1, P0, L11, and 28S rRNA. P1 and P2 are the only
proteins in the ribosome to occur as multimers, always
appearing as sets of heterodimers. Recent data indicate
that eukaryotes have four copies (two heterodimers),
while most archaeal species contain six copies of L12p
(three homodimers). Bacteria may have four or six copies
of L7/L12 (two or three homodimers) depending on the
species. Experiments using S. cerevisiae P1 and P2
indicate that P1 proteins are positioned more internally
with limited reactivity in the C-terminal domains, while
P2 proteins seem to be more externally located and are
more likely to interact with other cellular components.
In lower eukaryotes, P1 and P2 are further subdivided
into P1A, P1B, P2A, and P2B, which form P1A/P2B and
P1B/P2A heterodimers. Some plants have a third
P-protein, called P3, which is not homologous to P1 and
P2. In humans, P1 and P2 are strongly autoimmunogenic.
They play a significant role in the etiology and
pathogenesis of systemic lupus erythema (SLE). In
addition, the ribosome-inactivating protein
trichosanthin (TCS) interacts with human P0, P1, and P2,
with its primary binding site in the C-terminal region
of P2. TCS inactivates the ribosome by depurinating a
specific adenine in the sarcin-ricin loop of 28S rRNA.
Length = 109
Score = 31.1 bits (71), Expect = 0.31
Identities = 17/52 (32%), Positives = 21/52 (40%), Gaps = 6/52 (11%)
Query: 203 GEVKLCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPM 254
G+ KL A + AA K+EKKE E E E+DD M
Sbjct: 58 GKEKLASVPAGAGGAAPAAAAAAAAAAAAKKEEKKE------ESEEESDDDM 103
>gnl|CDD|234311 TIGR03685, L12P_arch, 50S ribosomal protein L12P. This model
represents the L12P protein of the large (50S) subunit
of the archaeal ribosome.
Length = 105
Score = 31.2 bits (71), Expect = 0.32
Identities = 9/37 (24%), Positives = 20/37 (54%)
Query: 215 AALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEAD 251
A +A+ + AA + ++E++E ++E+E E
Sbjct: 60 APVAAAAAAAAAAAAAEEEEEEEEEEEEEEEESEEEA 96
Score = 30.4 bits (69), Expect = 0.52
Identities = 12/45 (26%), Positives = 25/45 (55%)
Query: 209 EKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDP 253
E+ + +AA A + AA +E++E ++E+E E E+++
Sbjct: 51 EEAIKKAAAAPVAAAAAAAAAAAAAEEEEEEEEEEEEEEEESEEE 95
Score = 29.6 bits (67), Expect = 1.2
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 209 EKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEA 250
+K A+ + AA E+ ++E++E ++E+E E EA
Sbjct: 55 KKAAAAPVAAAAAAAAAAAAAEEEEEEEEEEEEEEEESEEEA 96
Score = 28.9 bits (65), Expect = 1.9
Identities = 10/38 (26%), Positives = 20/38 (52%)
Query: 215 AALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADD 252
AA + + AA ++E++E ++E+E E E +
Sbjct: 59 AAPVAAAAAAAAAAAAAEEEEEEEEEEEEEEEESEEEA 96
>gnl|CDD|152901 pfam12467, CMV_1a, Cucumber mosaic virus 1a protein. This domain
family is found in viruses, and is typically between 156
and 171 amino acids in length. The family is found in
association with pfam01443, pfam01660. 1a protein is the
major virulence factor of the cucumber mosaic virus
(CMV). The Ns strain of CMV causes necrotic lesions to
Nicotiana spp. while other strains cause systemic
mosaic. The determinant of the pathogenesis of these
different strains is the specific amino acid residue at
the 461 residue of the 1a protein.
Length = 175
Score = 32.1 bits (73), Expect = 0.36
Identities = 13/53 (24%), Positives = 22/53 (41%)
Query: 215 AALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAEPKSKDP 267
AA A + G A+++K +E + P +E E +D D + P
Sbjct: 68 AAWAVEDGKTLRAEKKKKLEEALQQPVQEDSVSEEFEDAPDAPSESVRDDVKP 120
>gnl|CDD|198314 cd03205, GST_C_6, C-terminal, alpha helical domain of an unknown
subfamily 6 of Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, unknown
subfamily 6; composed of uncharacterized bacterial
proteins with similarity to GSTs, including Pseudomonas
fluorescens GST with a known three-dimensional
structure. GSTs are cytosolic dimeric proteins involved
in cellular detoxification by catalyzing the conjugation
of glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins, and products of
oxidative stress. GSTs also show GSH peroxidase activity
and are involved in the synthesis of prostaglandins and
leukotrienes. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. Though the three-dimensional
structure of Pseudomonas fluorescens GST has been
determined, there is no information on its functional
characterization.
Length = 109
Score = 31.0 bits (71), Expect = 0.42
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 7/71 (9%)
Query: 131 DGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTL--LQVYQHAMDLTFRKPYVNVNRW 188
++R L L+ L G +TL DI AC L L + +L +R + + W
Sbjct: 40 GKIERALDALEAELGDLP---GGRLTLGDIAVACALGYLDF-RFP-ELDWRAGHPALAAW 94
Query: 189 FTTIVNQPEFK 199
F +P F+
Sbjct: 95 FARFEARPSFQ 105
>gnl|CDD|223880 COG0810, TonB, Periplasmic protein TonB, links inner and outer
membranes [Cell envelope biogenesis, outer membrane].
Length = 244
Score = 32.1 bits (73), Expect = 0.45
Identities = 12/42 (28%), Positives = 15/42 (35%), Gaps = 2/42 (4%)
Query: 209 EKQVNEAALASQ--SGNVPAAKEEKPKKEKKEAPKKEKEPEP 248
E Q Q P E + KE PK EK+P+
Sbjct: 55 EPQPEPEPPEEQPKPPTEPETPPEPTPPKPKEKPKPEKKPKK 96
>gnl|CDD|198296 cd03187, GST_C_Phi, C-terminal, alpha helical domain of Class Phi
Glutathione S-transferases. Glutathione S-transferase
(GST) C-terminal domain family, Class Phi subfamily;
composed of plant-specific class Phi GSTs and related
fungal and bacterial proteins. GSTs are cytosolic
dimeric proteins involved in cellular detoxification by
catalyzing the conjugation of glutathione (GSH) with a
wide range of endogenous and xenobiotic alkylating
agents, including carcinogens, therapeutic drugs,
environmental toxins, and products of oxidative stress.
The GST fold contains an N-terminal thioredoxin-fold
domain and a C-terminal alpha helical domain, with an
active site located in a cleft between the two domains.
GSH binds to the N-terminal domain while the hydrophobic
substrate occupies a pocket in the C-terminal domain.
The class Phi GST subfamily has experience extensive
gene duplication. The Arabidopsis and Oryza genomes
contain 13 and 16 Tau GSTs, respectively. They are
primarily responsible for herbicide detoxification
together with class Tau GSTs, showing class specificity
in substrate preference. Phi enzymes are highly reactive
toward chloroacetanilide and thiocarbamate herbicides.
Some Phi GSTs have other functions including transport
of flavonoid pigments to the vacuole, shoot regeneration
and GSH peroxidase activity.
Length = 118
Score = 30.7 bits (70), Expect = 0.50
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 14/79 (17%)
Query: 134 KRNLAKLDKHL------LTRT-YLVGDYITLADIC---NACTLLQVYQHAMDLTFRKPYV 183
+ N AKL K L L+++ YL GD TLAD+ N L+ R
Sbjct: 44 EENEAKLKKVLDVYEARLSKSKYLAGDSFTLADLSHLPNLHYLMAT-PSKKLFDSRP--- 99
Query: 184 NVNRWFTTIVNQPEFKKIV 202
+V W+ I +P +KK++
Sbjct: 100 HVKAWWEDISARPAWKKVL 118
>gnl|CDD|235621 PRK05842, flgD, flagellar basal body rod modification protein;
Reviewed.
Length = 295
Score = 32.3 bits (73), Expect = 0.54
Identities = 30/113 (26%), Positives = 41/113 (36%), Gaps = 25/113 (22%)
Query: 384 NLITGMFQRLDK----MRKQAFASVCLFGTDNDSTISGVWVWRGQELAFNLSPDWKVDYE 439
NL GM L A SV + G ++ +SG +L+F+L D K+D
Sbjct: 105 NLNKGMDDSLKANNALREVSALNSVSMIGKIAETDVSGANFDGNNKLSFSLFFDEKIDAS 164
Query: 440 SYDWKKLDPEAK---ETKNLVAQ-------------YFSWDGTDSKGRKFNQG 476
K P + E LV F WDG + KG K +G
Sbjct: 165 -----KGVPAIQILNENNELVKTIPLKDYNGQKGYINFEWDGLNEKGEKVPKG 212
>gnl|CDD|226266 COG3743, COG3743, Uncharacterized conserved protein [Function
unknown].
Length = 133
Score = 30.6 bits (69), Expect = 0.70
Identities = 17/71 (23%), Positives = 22/71 (30%), Gaps = 7/71 (9%)
Query: 200 KIVGEVKLCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILA 259
K E K +A A++ A E K A K PEA D
Sbjct: 6 KAAPEKAATAKAGADAPAAAE----AATTVEAAPDAKAAAAVKAPVSAPEAA---ADPAG 58
Query: 260 AEPKSKDPFDL 270
A+ + DL
Sbjct: 59 ADAPAAPKDDL 69
>gnl|CDD|239850 cd04385, RhoGAP_ARAP, RhoGAP_ARAP: RhoGAP (GTPase-activator protein
[GAP] for Rho-like small GTPases) domain present in
ARAPs. ARAPs (also known as centaurin deltas) contain,
besides the RhoGAP domain, an Arf GAP, ankyrin repeat
ras-associating, and PH domains. Since their ArfGAP
activity is PIP3-dependent, ARAPs are considered
integration points for phosphoinositide, Arf and Rho
signaling. Small GTPases cluster into distinct families,
and all act as molecular switches, active in their
GTP-bound form but inactive when GDP-bound. The Rho
family of GTPases activates effectors involved in a wide
variety of developmental processes, including regulation
of cytoskeleton formation, cell proliferation and the
JNK signaling pathway. GTPases generally have a low
intrinsic GTPase hydrolytic activity but there are
family-specific groups of GAPs that enhance the rate of
GTP hydrolysis by several orders of magnitude.
Length = 184
Score = 31.1 bits (71), Expect = 0.78
Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 4/63 (6%)
Query: 122 NKQTVDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKP 181
+ TV D LKR L L LLT L ++I A++ N + Y+ + R P
Sbjct: 65 GEYTVHDVADVLKRFLRDLPDPLLTSE-LHAEWIEAAELENKDERIARYKELIR---RLP 120
Query: 182 YVN 184
+N
Sbjct: 121 PIN 123
>gnl|CDD|237034 PRK12278, PRK12278, 50S ribosomal protein L21/unknown domain fusion
protein; Provisional.
Length = 221
Score = 31.4 bits (71), Expect = 0.79
Identities = 14/63 (22%), Positives = 16/63 (25%), Gaps = 2/63 (3%)
Query: 190 TTIVNQPEFKKIVGEVKLCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPE 249
T I+ V K A A AA + P AP
Sbjct: 99 TEILASGADASGVKAATGAGKVEVAAEAAPAKAKKEAAPKAAPAPAAAAAPP--AAAAAG 156
Query: 250 ADD 252
ADD
Sbjct: 157 ADD 159
>gnl|CDD|198328 cd10295, GST_C_Sigma, C-terminal, alpha helical domain of Class
Sigma Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family, Class
Sigma; GSTs are cytosolic dimeric proteins involved in
cellular detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins, and products of
oxidative stress. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. Vertebrate class Sigma GSTs are
characterized as GSH-dependent hematopoietic
prostaglandin (PG) D synthases and are responsible for
the production of PGD2 by catalyzing the isomerization
of PGH2. The functions of PGD2 include the maintenance
of body temperature, inhibition of platelet aggregation,
bronchoconstriction, vasodilation, and mediation of
allergy and inflammation.
Length = 100
Score = 29.8 bits (67), Expect = 0.80
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 137 LAKLDKHLLTRTYLVGDYITLADI 160
L LD +L R +LVG +T AD
Sbjct: 47 LKDLDTYLGGREWLVGKSVTWADF 70
>gnl|CDD|226818 COG4383, COG4383, Mu-like prophage protein gp29 [Function unknown].
Length = 517
Score = 31.8 bits (72), Expect = 0.88
Identities = 20/93 (21%), Positives = 30/93 (32%), Gaps = 9/93 (9%)
Query: 209 EKQVNEAALASQ-SGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAE-PKSKD 266
+ Q EA L Q N A ++ EP+ D +DD +A + D
Sbjct: 403 DAQEGEAVLVRQVPDNPVARTALAALSAHTVPSSRQGEPQDILDGALDDAVAPDLQSQID 462
Query: 267 PF-----DLLPKGT--FNMEDFKRFYSNNDEAK 292
P L G+ Y D+A+
Sbjct: 463 PLLRPVVAALNAGSYEEAQAALNALYPELDDAE 495
>gnl|CDD|166114 PLN02473, PLN02473, glutathione S-transferase.
Length = 214
Score = 31.1 bits (70), Expect = 0.95
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 8/81 (9%)
Query: 126 VDSAKDGLKRNLAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKPYV-- 183
V+ K + L + L T YL GD TLAD+ T + ++ M+ T V
Sbjct: 133 VEELKVKFDKVLDVYENRLATNRYLGGDEFTLADL----THMPGMRYIMNETSLSGLVTS 188
Query: 184 --NVNRWFTTIVNQPEFKKIV 202
N+NRW+ I +P +KK++
Sbjct: 189 RENLNRWWNEISARPAWKKLM 209
>gnl|CDD|198301 cd03192, GST_C_Sigma_like, C-terminal, alpha helical domain of
Class Sigma-like Glutathione S-transferases.
Glutathione S-transferase (GST) C-terminal domain
family, Class Sigma_like; composed of GSTs belonging to
class Sigma and similar proteins, including GSTs from
class Mu, Pi, and Alpha. GSTs are cytosolic dimeric
proteins involved in cellular detoxification by
catalyzing the conjugation of glutathione (GSH) with a
wide range of endogenous and xenobiotic alkylating
agents, including carcinogens, therapeutic drugs,
environmental toxins, and products of oxidative stress.
The GST fold contains an N-terminal thioredoxin-fold
domain and a C-terminal alpha helical domain, with an
active site located in a cleft between the two domains.
GSH binds to the N-terminal domain while the hydrophobic
substrate occupies a pocket in the C-terminal domain.
Vertebrate class Sigma GSTs are characterized as
GSH-dependent hematopoietic prostaglandin (PG) D
synthases and are responsible for the production of PGD2
by catalyzing the isomerization of PGH2. The functions
of PGD2 include the maintenance of body temperature,
inhibition of platelet aggregation, bronchoconstriction,
vasodilation, and mediation of allergy and inflammation.
Other class Sigma-like members include the class II
insect GSTs, S-crystallins from cephalopods,
nematode-specific GSTs, and 28-kDa GSTs from parasitic
flatworms. Drosophila GST2 is associated with indirect
flight muscle and exhibits preference for catalyzing GSH
conjugation to lipid peroxidation products, indicating
an anti-oxidant role. S-crystallin constitutes the major
lens protein in cephalopod eyes and is responsible for
lens transparency and proper refractive index. The
28-kDa GST from Schistosoma is a multifunctional enzyme,
exhibiting GSH transferase, GSH peroxidase, and PGD2
synthase activities, and may play an important role in
host-parasite interactions. Members also include novel
GSTs from the fungus Cunninghamella elegans, designated
as class Gamma, and from the protozoan Blepharisma
japonicum, described as a light-inducible GST.
Length = 104
Score = 29.9 bits (68), Expect = 0.95
Identities = 12/32 (37%), Positives = 15/32 (46%), Gaps = 2/32 (6%)
Query: 137 LAKLDKHL--LTRTYLVGDYITLADICNACTL 166
L K +K L Y VGD +T AD+ L
Sbjct: 48 LGKFEKILKKSGGGYFVGDKLTWADLALFDVL 79
>gnl|CDD|235322 PRK04950, PRK04950, ProP expression regulator; Provisional.
Length = 213
Score = 30.7 bits (70), Expect = 1.2
Identities = 8/45 (17%), Positives = 22/45 (48%)
Query: 209 EKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDP 253
++ + A ++ + +K K +AP+K+++P + +P
Sbjct: 112 AQRAEQQAKKREAAGEKEKAPRRERKPKPKAPRKKRKPRAQKPEP 156
>gnl|CDD|237631 PRK14162, PRK14162, heat shock protein GrpE; Provisional.
Length = 194
Score = 30.6 bits (69), Expect = 1.2
Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 229 EEKPKKEKKEAPKKEKEPEP-EADDPMDDILAAEPKSKD 266
+E PKKE KEAPK+E + + +D +I + K+KD
Sbjct: 19 DEAPKKEAKEAPKEEDQEKQNPVEDLEKEIADLKAKNKD 57
>gnl|CDD|115057 pfam06375, BLVR, Bovine leukaemia virus receptor (BLVR). This
family consists of several bovine specific leukaemia
virus receptors which are thought to function as
transmembrane proteins, although their exact function is
unknown.
Length = 561
Score = 31.2 bits (70), Expect = 1.3
Identities = 13/36 (36%), Positives = 24/36 (66%)
Query: 214 EAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPE 249
E + + + G+VPA +++ K +KKE +KEKE + +
Sbjct: 182 ETSKSPEKGDVPAVEKKSKKPKKKEKKEKEKERDKD 217
Score = 31.2 bits (70), Expect = 1.5
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 201 IVGEVKLCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEP 246
+ G E + A A ++ P K++K +KEK+E KK+K
Sbjct: 254 VSGTAPDSEPDEPKDAEAEETKKSPKHKKKKQRKEKEEKKKKKKHH 299
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 31.0 bits (71), Expect = 1.3
Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 4/69 (5%)
Query: 199 KKIVGEVKLCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDIL 258
KKI V+ EK+ E + A K K+E++E K++KE E E ++ +
Sbjct: 410 KKIKKIVEKAEKKREEEKKEKKKK----AFAGKKKEEEEEEEKEKKEEEKEEEEEEAEEE 465
Query: 259 AAEPKSKDP 267
E + K
Sbjct: 466 KEEEEEKKK 474
Score = 30.3 bits (69), Expect = 2.6
Identities = 12/74 (16%), Positives = 33/74 (44%)
Query: 192 IVNQPEFKKIVGEVKLCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEAD 251
+ + K + ++ ++ E + A K+++ ++E+++ K+E++ E E +
Sbjct: 402 LTGSKKATKKIKKIVEKAEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEE 461
Query: 252 DPMDDILAAEPKSK 265
+ E K K
Sbjct: 462 AEEEKEEEEEKKKK 475
>gnl|CDD|235665 PRK05996, motB, flagellar motor protein MotB; Validated.
Length = 423
Score = 30.8 bits (70), Expect = 1.6
Identities = 12/67 (17%), Positives = 22/67 (32%), Gaps = 9/67 (13%)
Query: 209 EKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEA---------DDPMDDILA 259
+ A Q+ +P A+ +K E++ +K E +PM D
Sbjct: 212 KSATAAPATVPQAAPLPQAQPKKAATEEELIADAKKAATGEPAANAAKAAKPEPMPDDQQ 271
Query: 260 AEPKSKD 266
E +
Sbjct: 272 KEAEQLQ 278
>gnl|CDD|222110 pfam13409, GST_N_2, Glutathione S-transferase, N-terminal domain.
This family is closely related to pfam02798.
Length = 68
Score = 28.3 bits (64), Expect = 1.6
Identities = 10/38 (26%), Positives = 18/38 (47%)
Query: 42 NKNADFVSKFSSPKVPAFESSDGTILTSSSAITYFVAN 79
+K + ++ KVP DG ++T S AI ++
Sbjct: 30 DKPPELLALNPLGKVPVLVLDDGEVITDSLAILEYLEE 67
>gnl|CDD|226609 COG4124, ManB, Beta-mannanase [Carbohydrate transport and
metabolism].
Length = 355
Score = 30.5 bits (69), Expect = 1.8
Identities = 18/82 (21%), Positives = 27/82 (32%), Gaps = 5/82 (6%)
Query: 1 MAKSGTLYSWPDNFRTYQILIAAEYSSFKVNIPKDFVFGKSNKNADFVSKFSSPKVPAFE 60
AK+G W +N I+ YS V I V + + D KF S
Sbjct: 35 TAKAGAFLGWAENLDLPDIMNDPWYSG-AVGIVSFDVPSLTENDRDDSHKFGSYDP---- 89
Query: 61 SSDGTILTSSSAITYFVANEQL 82
D + + F+ E +
Sbjct: 90 IGDFPAPHNVNNEELFLPVEDV 111
>gnl|CDD|240289 PTZ00144, PTZ00144, dihydrolipoamide succinyltransferase;
Provisional.
Length = 418
Score = 30.4 bits (69), Expect = 2.0
Identities = 18/69 (26%), Positives = 21/69 (30%), Gaps = 1/69 (1%)
Query: 207 LCEKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAEPKSKD 266
L E A A+ AAK EK EK +A P A P A P+
Sbjct: 115 LSEIDTGGAPPAAAPAAAAAAKAEKTTPEKPKAA-APTPEPPAASKPTPPAAAKPPEPAP 173
Query: 267 PFDLLPKGT 275
P
Sbjct: 174 AAKPPPTPV 182
>gnl|CDD|220271 pfam09507, CDC27, DNA polymerase subunit Cdc27. This protein forms
the C subunit of DNA polymerase delta. It carries the
essential residues for binding to the Pol1 subunit of
polymerase alpha, from residues 293-332, which are
characterized by the motif D--G--VT, referred to as the
DPIM motif. The first 160 residues of the protein form
the minimal domain for binding to the B subunit, Cdc1,
of polymerase delta, the final 10 C-terminal residues,
362-372, being the DNA sliding clamp, PCNA, binding
motif.
Length = 427
Score = 30.6 bits (69), Expect = 2.1
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 226 AAKEEKPKKEKKEAPKKEKEPEPEADDPM--DDILAAEPKSKDPFD 269
KE+K KKE E+ KE+ E + +D A + D
Sbjct: 225 KTKEKKEKKEASESTVKEESEEESGKRDVILEDESAEPTGLDEDED 270
>gnl|CDD|198291 cd03182, GST_C_GTT2_like, C-terminal, alpha helical domain of
GTT2-like Glutathione S-transferases. Glutathione
S-transferase (GST) C-terminal domain family,
Saccharomyces cerevisiae GTT2-like subfamily; composed
of predominantly uncharacterized proteins with
similarity to the Saccharomyces cerevisiae GST protein,
GTT2. GSTs are cytosolic dimeric proteins involved in
cellular detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins, and products of
oxidative stress. GSTs also show GSH peroxidase activity
and are involved in the synthesis of prostaglandins and
leukotrienes. The GST fold contains an N-terminal
thioredoxin-fold domain and a C-terminal alpha helical
domain, with an active site located in a cleft between
the two domains. GSH binds to the N-terminal domain
while the hydrophobic substrate occupies a pocket in the
C-terminal domain. GTT2, a homodimer, exhibits GST
activity with standard substrates. Strains with deleted
GTT2 genes are viable but exhibit increased sensitivity
to heat shock.
Length = 116
Score = 28.8 bits (65), Expect = 2.1
Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 6/59 (10%)
Query: 140 LDKHLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKP--YVNVNRWFTTIVNQP 196
LDK L Y+ GD ++ADI T A +L P + RW+ + +P
Sbjct: 60 LDKRLAESPYVAGDRFSIADI----TAFVALDFAKNLKLPVPEELTALRRWYERMAARP 114
>gnl|CDD|237378 PRK13406, bchD, magnesium chelatase subunit D; Provisional.
Length = 584
Score = 30.4 bits (69), Expect = 2.4
Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 12/81 (14%)
Query: 203 GEVKLCEKQVNEAA---LASQSGNVPAAKE---EKPKKEKKEAPKKEKEPEPEADD---- 252
G + E+ + AA LA ++ +PA + E+P + PE E +
Sbjct: 234 GRTAVEEEDLALAARLVLAPRATRLPAPPQPPEEEPPPPPPPPEDDDDPPEDEEEQDDAE 293
Query: 253 --PMDDILAAEPKSKDPFDLL 271
+++I+ ++ P DLL
Sbjct: 294 DRALEEIVLEAVRAALPPDLL 314
>gnl|CDD|179712 PRK04019, rplP0, acidic ribosomal protein P0; Validated.
Length = 330
Score = 30.2 bits (69), Expect = 2.6
Identities = 8/34 (23%), Positives = 16/34 (47%)
Query: 217 LASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEA 250
L A + ++E++E ++E+ E EA
Sbjct: 288 LKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEEA 321
Score = 28.3 bits (64), Expect = 9.6
Identities = 15/59 (25%), Positives = 25/59 (42%), Gaps = 8/59 (13%)
Query: 210 KQVNEA-ALASQSGNVPAAKEEKPKKE-------KKEAPKKEKEPEPEADDPMDDILAA 260
K V +A ALA+ + A EE + E ++E+E E E + ++ A
Sbjct: 266 KAVAQALALAAALADKDALDEELKEVLSAQAQAAAAEEEEEEEEEEEEEEPSEEEAAAG 324
>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3. This
protein, which interacts with both microtubules and
TRAF3 (tumour necrosis factor receptor-associated factor
3), is conserved from worms to humans. The N-terminal
region is the microtubule binding domain and is
well-conserved; the C-terminal 100 residues, also
well-conserved, constitute the coiled-coil region which
binds to TRAF3. The central region of the protein is
rich in lysine and glutamic acid and carries KKE motifs
which may also be necessary for tubulin-binding, but
this region is the least well-conserved.
Length = 506
Score = 30.2 bits (68), Expect = 2.8
Identities = 16/65 (24%), Positives = 27/65 (41%), Gaps = 2/65 (3%)
Query: 205 VKLCEKQVNEAALASQSGNVPAAKEEKPKKE--KKEAPKKEKEPEPEADDPMDDILAAEP 262
K K ++ + KEE+ +KE K+E KK+++P+ E D A E
Sbjct: 81 EKGGSKGPAAKTKPAKEPKNESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEK 140
Query: 263 KSKDP 267
+
Sbjct: 141 RPPKE 145
>gnl|CDD|198340 cd10307, GST_C_MetRS_N, Glutathione S-transferase C-terminal-like,
alpha helical domain of Methionyl-tRNA synthetase from
higher eukaryotes. Glutathione S-transferase (GST)
C-terminal domain family, Methionyl-tRNA synthetase
(MetRS) subfamily; This model characterizes the
GST_C-like domain found in the N-terminal region of
MetRS from higher eukaryotes. Aminoacyl-tRNA synthetases
(aaRSs) comprise a family of enzymes that catalyze the
coupling of amino acids with their matching tRNAs. This
involves the formation of an aminoacyl adenylate using
ATP, followed by the transfer of the activated amino
acid to the 3'-adenosine moiety of the tRNA. AaRSs may
also be involved in translational and transcriptional
regulation, as well as in tRNA processing. MetRS is a
class I aaRS, containing a Rossman fold catalytic core.
It recognizes the initiator tRNA as well as the Met-tRNA
for protein chain elongation. The GST_C-like domain of
MetRS from higher eukaryotes is likely involved in
protein-protein interactions, to mediate the formation
of the multi-aaRS complex that acts as a molecular hub
to coordinate protein synthesis. AaRSs from prokaryotes,
which are active as dimers, do not contain this
GST_C-like domain.
Length = 102
Score = 28.2 bits (63), Expect = 3.0
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 3/61 (4%)
Query: 133 LKRNLAKLDKHLLTR-TYLVGDYITLADICNACTLLQVYQHAMDLTFRKPYVNVNRWFTT 191
+ L LD+ LL + T L+GD ++ AD+ L + L N+ RWF
Sbjct: 41 VLNALVHLDQSLLKKSTPLLGDKLSSADVVVWSALYPLGTDKSALPEN--LDNLRRWFQN 98
Query: 192 I 192
+
Sbjct: 99 V 99
>gnl|CDD|226291 COG3768, COG3768, Predicted membrane protein [Function unknown].
Length = 350
Score = 29.7 bits (67), Expect = 3.3
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 218 ASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAEP 262
A+ V AA + + +E E + E + +DP D+ A P
Sbjct: 8 AAFPLEVEAAPKFRAPREFDEDAENFTPAELDVEDPEDEGAAEAP 52
>gnl|CDD|172450 PRK13940, PRK13940, glutamyl-tRNA reductase; Provisional.
Length = 414
Score = 29.6 bits (66), Expect = 3.5
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 137 LAKLDKHLLTRTYLVGDYITLADICNACTLLQVYQHAMDLTFRKPYVNVNRWFTTIVNQP 196
L+ LD +L R+ L D + A I + C +VY DL + ++ W+ V P
Sbjct: 23 LSGLDVSMLYRSILAIDNVVHAVILSTCNRTEVYLEISDL---RVVDDILVWWQGYVRNP 79
Query: 197 EFK 199
+K
Sbjct: 80 NYK 82
>gnl|CDD|222581 pfam14181, YqfQ, YqfQ-like protein. The YqfQ-like protein family
includes the B. subtilis YqfQ protein, also known as
VrrA, which is functionally uncharacterized. This family
of proteins is found in bacteria. Proteins in this
family are typically between 146 and 237 amino acids in
length. There are two conserved sequence motifs: QYGP
and PKLY.
Length = 155
Score = 29.0 bits (65), Expect = 3.8
Identities = 7/49 (14%), Positives = 19/49 (38%)
Query: 218 ASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAEPKSKD 266
+S +E + E+++ P+ + E + + + + K K
Sbjct: 93 SSDDEEEETEEESTDETEQEDPPETKTESKEKKKREVPKPKTEKEKPKT 141
>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 = 28.6 bits (64), Expect = 3.9
Identities = 27/90 (30%), Positives = 34/90 (37%), Gaps = 27/90 (30%)
Query: 133 LKRNLAKLDKHLLT----------------RTYLVGDYITLADICNACTLLQ-------V 169
L R L KLD +LLT R +L GD +TLAD C LL V
Sbjct: 34 LLRALLKLDSYLLTPLPHELAQNPHLSESQRRFLDGDALTLAD----CNLLPKLHIVKVV 89
Query: 170 YQHAMDLTFRKPYVNVNRWFTTIVNQPEFK 199
+H V R+ + + EFK
Sbjct: 90 CKHYRQFEIPAELKGVTRYLDSASQEKEFK 119
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 28.9 bits (65), Expect = 4.4
Identities = 13/45 (28%), Positives = 25/45 (55%)
Query: 227 AKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAEPKSKDPFDLL 271
++K KK+ K+ K EK+ E EA+D ++D+ + ++ L
Sbjct: 95 KDKDKDKKDDKKDDKSEKKDEKEAEDKLEDLTKSYSETLSTLSEL 139
>gnl|CDD|162338 TIGR01398, FlhA, flagellar biosynthesis protein FlhA. This model
describes flagellar biosynthesis protein FlhA, one of a
large number of genes associated with the biosynthesis
of functional bacterial flagella. Homologs of many such
proteins, including FlhA, function in type III protein
secretion systems. A separate model describes InvA
(Salmonella enterica), LcrD (Yersinia enterocolitica),
HrcV (Xanthomonas), etc., all of which score below the
noise cutoff for this model [Cellular processes,
Chemotaxis and motility].
Length = 678
Score = 29.5 bits (67), Expect = 4.8
Identities = 11/36 (30%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 228 KEEKPKKE-KKEAPKKEKEPEPEADDPMDDILAAEP 262
+ K ++E EA K ++E E ++ ++DILA +
Sbjct: 311 RRSKQEEEAAAEAAKAQEEAAEEEEESINDILALDD 346
>gnl|CDD|215397 PLN02744, PLN02744, dihydrolipoyllysine-residue acetyltransferase
component of pyruvate dehydrogenase complex.
Length = 539
Score = 29.4 bits (66), Expect = 4.9
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 218 ASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDP 253
+S + P AK P +++E K PEP+A P
Sbjct: 204 SSAAPAAPKAKPSPPPPKEEEVEKPASSPEPKASKP 239
>gnl|CDD|198337 cd10304, GST_C_Arc1p_N_like, Glutathione S-transferase
C-terminal-like, alpha helical domain of the Aminoacyl
tRNA synthetase cofactor 1 and similar proteins.
Glutathione S-transferase (GST) C-terminal domain
family, Aminoacyl tRNA synthetase cofactor 1
(Arc1p)-like subfamily; Arc1p, also called GU4 nucleic
binding protein 1 (G4p1) or p42, is a
tRNA-aminoacylation and nuclear-export cofactor. It
contains a domain in the N-terminal region with
similarity to the C-terminal alpha helical domain of
GSTs. This domain mediates the association of the
aminoacyl tRNA synthetases (aaRSs), MetRS and GluRS, in
yeast to form a stable stoichiometric ternany complex.
The GST_C-like domain of Arc1p is a protein-protein
interaction domain containing two binding sites which
enable it to bind the two aaRSs simultaneously and
independently. The MetRS-Arc1p-GluRS complex selectively
recruits and aminoacylates its cognate tRNAs without
additional cofactors. Arc1p also plays a role in the
transport of tRNA from the nucleus to the cytoplasm. It
may also control the subcellular distribution of GluRS
in the cytoplasm, nucleoplasm, and the mitochondrial
matrix.
Length = 100
Score = 27.7 bits (62), Expect = 5.1
Identities = 11/26 (42%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 136 NLAKLDKHLLTRTYLVGDY-ITLADI 160
L +L+ HL TRT+L+G ++AD+
Sbjct: 26 TLGQLNLHLRTRTFLLGTGKPSVADV 51
>gnl|CDD|235571 PRK05704, PRK05704, dihydrolipoamide succinyltransferase;
Validated.
Length = 407
Score = 29.0 bits (66), Expect = 5.5
Identities = 12/51 (23%), Positives = 18/51 (35%)
Query: 211 QVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAE 261
+++E A A + AA + E +A P LAAE
Sbjct: 75 RIDEGAAAGAAAAAAAAAAAAAAAPAQAQAAAAAEQSNDALSPAARKLAAE 125
>gnl|CDD|237868 PRK14960, PRK14960, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 702
Score = 29.2 bits (65), Expect = 5.6
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 229 EEKPKKEKKEAPKKEKEPEPEADDPMDDILAAEPKSKD 266
E +P+ E + P+ E EPEPE P D++ +P +
Sbjct: 421 EPEPEPEPEPEPEPEPEPEPE-PQPNQDLMVFDPNHHE 457
>gnl|CDD|201244 pfam00463, ICL, Isocitrate lyase family.
Length = 526
Score = 29.1 bits (65), Expect = 5.9
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 8/35 (22%)
Query: 420 VWRGQELAFNLSPDWKVDYESYDWKK-LDPEAKET 453
W Q LA+NLSP S++WKK + + +ET
Sbjct: 404 KWPEQWLAYNLSP-------SFNWKKAMPRDEQET 431
>gnl|CDD|236768 PRK10819, PRK10819, transport protein TonB; Provisional.
Length = 246
Score = 28.5 bits (64), Expect = 6.6
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 228 KEEKPKKEKKEAPKKE-KEPEPEADDPMDDILAAEPKSKDP 267
+ KP K+ +E PK+E K EP P ++ A P S
Sbjct: 105 PKPKPVKKVEEQPKREVKPVEPRPASPFENTAPARPTSSTA 145
>gnl|CDD|184918 PRK14954, PRK14954, DNA polymerase III subunits gamma and tau;
Provisional.
Length = 620
Score = 28.8 bits (64), Expect = 7.7
Identities = 13/45 (28%), Positives = 16/45 (35%)
Query: 209 EKQVNEAALASQSGNVPAAKEEKPKKEKKEAPKKEKEPEPEADDP 253
+K+ E L + AK E P E P P PE P
Sbjct: 391 KKKAPEPDLPQPDRHPGPAKPEAPGARPAELPSPASAPTPEQQPP 435
>gnl|CDD|234938 PRK01297, PRK01297, ATP-dependent RNA helicase RhlB; Provisional.
Length = 475
Score = 28.7 bits (64), Expect = 8.4
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 10/58 (17%)
Query: 225 PAAKEEKPKKEKKEAPKKEKEPEPEADDPMDDILAAEPKSKDPFDLLPKGTFNMEDFK 282
PAA + +K KK+ P++E++P+P + ++D EP+ +G DF
Sbjct: 46 PAAAAPRAEKPKKDKPRRERKPKPASLWKLED-FVVEPQ---------EGKTRFHDFN 93
>gnl|CDD|225651 COG3109, ProQ, Activator of osmoprotectant transporter ProP [Signal
transduction mechanisms].
Length = 208
Score = 27.9 bits (62), Expect = 8.6
Identities = 10/38 (26%), Positives = 14/38 (36%), Gaps = 4/38 (10%)
Query: 215 AALASQSGNVPAAKE----EKPKKEKKEAPKKEKEPEP 248
A + PAA E E+P + PK +E
Sbjct: 116 EQQAKKREEAPAAGEKPTAERPATAARPKPKAPREEVH 153
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
0.318 0.134 0.409
Gapped
Lambda K H
0.267 0.0698 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,440,077
Number of extensions: 2344946
Number of successful extensions: 3470
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3228
Number of HSP's successfully gapped: 149
Length of query: 480
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 379
Effective length of database: 6,457,848
Effective search space: 2447524392
Effective search space used: 2447524392
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: 61 (27.3 bits)