RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13308
(166 letters)
>gnl|CDD|198320 cd03211, GST_C_Metaxin2, C-terminal, alpha helical domain of
Metaxin 2. Glutathione S-transferase (GST) C-terminal
domain family, Metaxin subfamily, Metaxin 2; a metaxin 1
binding protein identified through a yeast two-hybrid
system using metaxin 1 as the bait. Metaxin 2 shares
sequence similarity with metaxin 1 but does not contain
a C-terminal mitochondrial outer membrane signal-anchor
domain. It associates with mitochondrial membranes
through its interaction with metaxin 1, which is a
component of the mitochondrial preprotein import complex
of the outer membrane. The biological function of
metaxin 2 is unknown. It is likely that it also plays a
role in protein translocation into the mitochondria.
However, this has not been experimentally validated. In
a recent proteomics study, it has been shown that
metaxin 2 is overexpressed in response to
lipopolysaccharide-induced liver injury.
Length = 126
Score = 190 bits (484), Expect = 2e-63
Identities = 74/123 (60%), Positives = 96/123 (78%)
Query: 2 YITWCDPTTYREVTKVRHGAVAPWPLNIYLTYKKKLTVQHRLKTLKWLEKSLDQVYKDVD 61
YI+WCD TY EVTK R+G+V PWPLN L Y+K+ V +LK L W +KSLDQV+ +V+
Sbjct: 4 YISWCDEETYNEVTKPRYGSVYPWPLNHILAYRKQREVLRKLKALGWSDKSLDQVFDEVE 63
Query: 62 KCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTIRAYPNLVEHCT 121
KCCQ+LSE+L N +FF D+PTELDAL+FGH++ +LTTPLPN+ A+ ++ YPNLVE C
Sbjct: 64 KCCQALSEKLGTNQYFFGDQPTELDALVFGHLFTILTTPLPNDELAAIVKKYPNLVEFCR 123
Query: 122 RIE 124
RIE
Sbjct: 124 RIE 126
>gnl|CDD|198321 cd03212, GST_C_Metaxin1_3, C-terminal, alpha helical domain of
Metaxin 1, Metaxin 3, and similar proteins. Glutathione
S-transferase (GST) C-terminal domain family, Metaxin
subfamily, Metaxin 1-like proteins; composed of metaxins
1 and 3, and similar proteins. Mammalian metaxin (or
metaxin 1) is a component of the preprotein import
complex of the mitochondrial outer membrane. Metaxin
extends to the cytosol and is anchored to the
mitochondrial membrane through its C-terminal domain. In
mice, metaxin is required for embryonic development.
Like the murine gene, the human metaxin gene is located
downstream to the glucocerebrosidase (GBA) pseudogene
and is convergently transcribed. Inherited deficiency of
GBA results in Gaucher disease, which presents many
diverse clinical phenotypes. Alterations in the metaxin
gene, in addition to GBA mutations, may be associated
with Gaucher disease. Genome sequencing shows that a
third metaxin gene also exists in zebrafish, Xenopus,
chicken, and mammals.
Length = 137
Score = 105 bits (263), Expect = 1e-29
Identities = 54/133 (40%), Positives = 74/133 (55%), Gaps = 6/133 (4%)
Query: 2 YITWCDPTTYREVTKVRHGAVAPWPLNIYLT------YKKKLTVQHRLKTLKWLEKSLDQ 55
Y W D Y EVT+ + P+PLN Y K +L + L L E+ +
Sbjct: 5 YTLWVDEKNYVEVTRPWYAKALPFPLNFYYPGRYQRRAKDRLQLLRGLSELDSEEEVEKE 64
Query: 56 VYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTIRAYPN 115
+YKD +C LSERL + FFF D+PT LDAL+FG++ +L PLPNN+ + ++ PN
Sbjct: 65 LYKDAKECLNLLSERLGEKKFFFGDRPTSLDALVFGYLAPLLKAPLPNNKLQNHLKGCPN 124
Query: 116 LVEHCTRIEQNYF 128
LV+ RI QNYF
Sbjct: 125 LVQFVDRILQNYF 137
>gnl|CDD|198302 cd03193, GST_C_Metaxin, C-terminal, alpha helical domain of Metaxin
and related proteins. Glutathione S-transferase (GST)
C-terminal domain family, Metaxin subfamily; composed of
metaxins and related proteins. Metaxin 1 is a component
of a preprotein import complex of the mitochondrial
outer membrane. It extends to the cytosol and is
anchored to the mitochondrial membrane through its
C-terminal domain. In mice, metaxin is required for
embryonic development. In humans, alterations in the
metaxin gene may be associated with Gaucher disease.
Metaxin 2 binds to metaxin 1 and may also play a role in
protein translocation into the mitochondria. Genome
sequencing shows that a third metaxin gene also exists
in zebrafish, Xenopus, chicken, and mammals. Sequence
analysis suggests that all three metaxins share a common
ancestry and that they possess similarity to GSTs. Also
included in the subfamily are uncharacterized proteins
with similarity to metaxins, including a novel GST from
Rhodococcus with toluene o-monooxygenase and
glutamylcysteine synthetase activities. Other members
are the cadmium-inducible lysosomal protein CDR-1 and
its homologs from C. elegans, and the failed axon
connections (fax) protein from Drosophila. CDR-1 is an
integral membrane protein that functions to protect
against cadmium toxicity and may also have a role in
osmoregulation to maintain salt balance in C. elegans.
The fax gene of Drosophila was identified as a genetic
modifier of Abelson (Abl) tyrosine kinase. The fax
protein is localized in cellular membranes and is
expressed in embryonic mesoderm and axons of the central
nervous system.
Length = 88
Score = 81.1 bits (201), Expect = 6e-21
Identities = 26/82 (31%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 47 KWLEKSL-----DQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPL 101
+ +E L ++Y+ + ++LS L F F DKPT +DA +F H+ ++L P
Sbjct: 6 RMVETHLYWALRREIYELALEDLEALSTLLGDKKFLFGDKPTSVDATVFAHLASILYPPE 65
Query: 102 PNNRFASTIRAYPNLVEHCTRI 123
+ + + PNLVE+C RI
Sbjct: 66 DSPLLRVLVASSPNLVEYCERI 87
>gnl|CDD|221231 pfam11801, Tom37_C, Tom37 C-terminal domain. The TOM37 protein is
one of the outer membrane proteins that make up the TOM
complex for guiding cytosolic mitochondrial beta-barrel
proteins from the cytosol across the outer mitochondrial
membrane into the intramembrane space. In conjunction
with TOM70 it guides peptides without an MTS into TOM40,
the protein that forms the passage through the outer
membrane. It has homology with Metaxin-1, also part of
the outer mitochondrial membrane beta-barrel protein
transport complex.
Length = 155
Score = 44.6 bits (106), Expect = 2e-06
Identities = 27/140 (19%), Positives = 49/140 (35%), Gaps = 30/140 (21%)
Query: 2 YITWCDPTTYREVTKVRHGAVAPWPLNIYLTYKKKLTVQHRLK----------------- 44
Y + + Y + T+ + P+P+ + + + R++
Sbjct: 16 YQLYVNSKNYEKYTRKLFSKLLPFPMMYNTPLRLRSQAKERVELLGLDSRTSADDASEEA 75
Query: 45 -------------TLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFG 91
T K EK L + +C L E L + F F D P+ D L F
Sbjct: 76 AEVAQSLTHERQLTAKQKEKELLREEALNLECLTLLEELLGQWGFLFGDSPSSSDLLFFA 135
Query: 92 HIYAVLTTPLPNNRFASTIR 111
++Y +L LP+ + +R
Sbjct: 136 YLYLLLVPKLPDGFIRNHLR 155
>gnl|CDD|222111 pfam13410, GST_C_2, Glutathione S-transferase, C-terminal domain.
This domain is closely related to pfam00043.
Length = 69
Score = 39.3 bits (92), Expect = 5e-05
Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 4/73 (5%)
Query: 50 EKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFAST 109
+ +L++ +++ +L ERL + D+P+ D L + + + A
Sbjct: 1 QAALERALAQLERALDALEERLADGPYLLGDRPSLADIALAPALARLDFRGPGLDLRA-- 58
Query: 110 IRAYPNLVEHCTR 122
YPNL R
Sbjct: 59 --GYPNLRAWLER 69
>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 = 37.9 bits (88), Expect = 3e-04
Identities = 11/85 (12%), Positives = 27/85 (31%), Gaps = 4/85 (4%)
Query: 39 VQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLT 98
+ L E +++ +++ +L + L + D+ + D L + +
Sbjct: 20 LYLEKVPLPKDEAAVEAAREELPALLAALEQLLAGRPYLAGDQFSLADVALAPVLARLEA 79
Query: 99 TPLPNNRFASTIRAYPNLVEHCTRI 123
+ YP L R+
Sbjct: 80 LGPY----YDLLDEYPRLKAWYDRL 100
>gnl|CDD|223698 COG0625, Gst, Glutathione S-transferase [Posttranslational
modification, protein turnover, chaperones].
Length = 211
Score = 30.9 bits (70), Expect = 0.20
Identities = 13/90 (14%), Positives = 26/90 (28%), Gaps = 7/90 (7%)
Query: 36 KLTVQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYA 95
+ + LE +L+ ++ L L + D+ T D L ++
Sbjct: 112 QRRRALLGSEPELLEAALEAARAEIRALLALLEALLADGPYLAGDRFTIADIALAPLLWR 171
Query: 96 VLTTPLPNNRFASTIRAYPNLVEHCTRIEQ 125
+ + YP L R+
Sbjct: 172 L-------ALLGEELADYPALKAWYERVLA 194
>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 = 28.8 bits (65), Expect = 0.41
Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 44 KTLKWLEKSLD-QVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAV 96
+ +WL+ + K+++ +SL+ L F T D +F +Y
Sbjct: 4 QVDQWLDLAGSLLKGKELEALLKSLNSYLASRTFLVGYSLTLADVAVFSALYPS 57
>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 = 28.0 bits (63), Expect = 1.2
Identities = 13/85 (15%), Positives = 28/85 (32%), Gaps = 7/85 (8%)
Query: 41 HRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTP 100
R E+ + +++ L +L + D+ + DA LF V+
Sbjct: 28 ARWADDALAEEVKAAARERLERRLAYLDAQLAGGPYLLGDQFSVADAYLF-----VVLRW 82
Query: 101 LPNNRFASTIRAYPNLVEHCTRIEQ 125
+ +P+L + R+
Sbjct: 83 AR--AVGLDLSDWPHLAAYLARVAA 105
>gnl|CDD|238767 cd01490, Ube1_repeat2, Ubiquitin activating enzyme (E1), repeat 2.
E1, a highly conserved small protein present universally
in eukaryotic cells, is part of cascade to attach
ubiquitin (Ub) covalently to substrate proteins. This
cascade consists of activating (E1), conjugating (E2),
and/or ligating (E3) enzymes and then targets them for
degradation by the 26S proteasome. E1 activates
ubiquitin by C-terminal adenylation, and subsequently
forms a highly reactive thioester bond between its
catalytic cysteine and ubiquitin's C-terminus. E1 also
associates with E2 and promotes ubiquitin transfer to
the E2's catalytic cysteine. Ubiquitin-E1 is a
single-chain protein with a weakly conserved two-fold
repeat. This CD represents the second repeat of Ub-E1.
Length = 435
Score = 28.8 bits (65), Expect = 1.5
Identities = 10/36 (27%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 109 TIRAYPNLVEHC---TRIE-QNYFKKDSTEAKYFLW 140
T++ +PN +EH R E + FK+ +L+
Sbjct: 164 TLKNFPNAIEHTIQWARDEFEGLFKQPPENVNQYLF 199
>gnl|CDD|173774 cd00223, TOPRIM_TopoIIB_SPO, TOPRIM_TopoIIB_SPO:
topoisomerase-primase (TOPRIM) nucleotidyl
transferase/hydrolase domain of the type found in the
type IIB family of DNA topoisomerases and Spo11. This
subgroup contains proteins similar to Sulfolobus
shibatae topoisomerase VI (TopoVI) and Saccharomyces
cerevisiae meiotic recombination factor: Spo11. Type
II DNA topoisomerases catalyze the ATP-dependent
transport of one DNA duplex through another, in the
process generating transient double strand breaks via
covalent attachments to both DNA strands at the 5'
positions. TopoVI enzymes are heterotetramers found in
archaea and plants. Spo11 plays a role in generating the
double strand breaks that initiate homologous
recombination during meiosis. S. shibatae TopoVI
relaxes both positive and negative supercoils, and in
addition has a strong decatenase activity. The TOPRIM
domain has two conserved motifs, one of which centers at
a conserved glutamate and the other one at two conserved
aspartates (DxD. For topoisomerases the conserved
glutamate is believed to act as a general base in strand
joining and, as a general acid in strand cleavage. The
DXD motif may co-ordinate Mg2+, a cofactor required for
full catalytic function.
Length = 160
Score = 28.0 bits (63), Expect = 1.5
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 6/56 (10%)
Query: 24 PWPLNIYLTYK---KKL---TVQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEK 73
P+ ++I LTYK KL + L+WL + + D LSER K
Sbjct: 62 PYGISILLTYKYGSIKLAYESESLATPDLRWLGLRPSDIIRLPDLPLLPLSERDLK 117
>gnl|CDD|226044 COG3513, COG3513, Predicted CRISPR-associated nuclease, contains
McrA/HNH-nuclease and RuvC-like nuclease domain [Defense
mechanisms].
Length = 1088
Score = 28.7 bits (64), Expect = 1.7
Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 1/66 (1%)
Query: 91 GHIYAVLTTPLPNNRFASTIRAYPNLVEHCTRIEQNYF-KKDSTEAKYFLWLTNLSSVVV 149
H+ ++ L R ++ + CT Y K++ A F+WLT +++ +
Sbjct: 232 KHLEELVAILLMQQRPYPFLKDNSKKIGKCTFFRIEYKAGKNAYGASRFVWLTRKNNLRI 291
Query: 150 RQWTSD 155
W ++
Sbjct: 292 LPWNTE 297
>gnl|CDD|233320 TIGR01222, minC, septum site-determining protein MinC. The minC
protein assists in correct placement of the septum for
cell division by inhibiting septum formation at other
sites. Homologs from Deinocoocus, Synechocystis PCC
6803, and Helicobacter pylori do not hit the full
length of the model and score between the trusted and
noise cutoffs [Cellular processes, Cell division].
Length = 217
Score = 27.4 bits (61), Expect = 3.6
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 57 YKDVDKCCQSLSERLEKNNFFFKDKPTELD 86
+++D+ Q LSE++ + FF P LD
Sbjct: 18 DQNLDELLQELSEKITQAPKFFAKGPIILD 47
>gnl|CDD|198318 cd03209, GST_C_Mu, C-terminal, alpha helical domain of Class Mu
Glutathione S-transferases. Glutathione S-transferase
(GST) C-terminal domain family, Class Mu 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. The class Mu subfamily is composed of
eukaryotic GSTs. In rats, at least six distinct class Mu
subunits have been identified, with homologous genes in
humans for five of these subunits. Class Mu GSTs can
form homodimers and heterodimers, giving a large number
of possible isoenzymes that can be formed, all with
overlapping activities but different substrate
specificities. They are the most abundant GSTs in human
liver, skeletal muscle and brain, and are believed to
provide protection against diseases including cancer and
neurodegenerative disorders. Some isoenzymes have
additional specific functions. Human GST M1-1 acts as an
endogenous inhibitor of ASK1 (apoptosis
signal-regulating kinase 1) thereby suppressing
ASK1-mediated cell death. Human GSTM2-2 and 3-3 have
been identified as prostaglandin E2 synthases in the
brain and may play crucial roles in temperature and
sleep-wake regulation.
Length = 121
Score = 26.4 bits (59), Expect = 4.0
Identities = 22/80 (27%), Positives = 30/80 (37%), Gaps = 13/80 (16%)
Query: 58 KDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTI-RAYPNL 116
+ + + SE L +F DK T +D LL Y L + F A+PNL
Sbjct: 38 EKLPDKLKLFSEFLGDRPWFAGDKITYVDFLL----YEAL---DQHRIFEPDCLDAFPNL 90
Query: 117 VEHCTRIEQ-----NYFKKD 131
+ R E Y K D
Sbjct: 91 KDFLERFEALPKISAYMKSD 110
>gnl|CDD|223512 COG0435, ECM4, Predicted glutathione S-transferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 324
Score = 27.3 bits (61), Expect = 4.3
Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 9/70 (12%)
Query: 50 EKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIY---AVLTTPLPNNRF 106
E+++ ++++ +DK L + L + + D+ TE D LF + V N
Sbjct: 204 EEAVKKLFEALDK----LEQILSERRYLTGDQLTEADIRLFTTLVRFDPVYVGHFKCNL- 258
Query: 107 ASTIRAYPNL 116
IR YPNL
Sbjct: 259 -RRIRDYPNL 267
>gnl|CDD|238761 cd01484, E1-2_like, Ubiquitin activating enzyme (E1), repeat
2-like. E1, a highly conserved small protein present
universally in eukaryotic cells, is part of cascade to
attach ubiquitin (Ub) covalently to substrate proteins.
This cascade consists of activating (E1), conjugating
(E2), and/or ligating (E3) enzymes and then targets them
for degradation by the 26S proteasome. E1 activates
ubiquitin by C-terminal adenylation, and subsequently
forms a highly reactive thioester bond between its
catalytic cysteine and ubiquitin's C-terminus. E1 also
associates with E2 and promotes ubiquitin transfer to
the E2's catalytic cysteine. A set of novel molecules
with a structural similarity to Ub, called Ub-like
proteins (Ubls), have similar conjugation cascades. In
contrast to ubiquitin-E1, which is a single-chain
protein with a weakly conserved two-fold repeat, many of
the Ubls-E1are a heterodimer where each subunit
corresponds to one half of a single-chain E1. This CD
represents the family homologous to the second repeat of
Ub-E1.
Length = 234
Score = 26.8 bits (59), Expect = 5.0
Identities = 11/47 (23%), Positives = 17/47 (36%)
Query: 100 PLPNNRFASTIRAYPNLVEHCTRIEQNYFKKDSTEAKYFLWLTNLSS 146
P N TI + P L EHC + D ++ +N +
Sbjct: 148 PPQKNFPMCTIASMPRLPEHCIEWARMLQWDDPEHIQFIFQASNERA 194
>gnl|CDD|181787 PRK09343, PRK09343, prefoldin subunit beta; Provisional.
Length = 121
Score = 26.2 bits (58), Expect = 5.5
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 35 KKLTVQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNN 75
+K ++ R +TL+ EK L + K++ ++E L K
Sbjct: 79 RKELLELRSRTLEKQEKKLREKLKELQ---AKINEMLSKYY 116
>gnl|CDD|216841 pfam02006, DUF137, Protein of unknown function DUF137. This family
of archaeal proteins has no known function.
Length = 178
Score = 26.4 bits (59), Expect = 6.5
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 110 IRAYPNLVEHCTRIEQ 125
RA PNL E +++
Sbjct: 137 TRAIPNLTELAKELKK 152
>gnl|CDD|217915 pfam04130, Spc97_Spc98, Spc97 / Spc98 family. The spindle pole
body (SPB) functions as the microtubule-organising
centre in yeast. Members of this family are spindle pole
body (SBP) components such as Spc97 and Spc98 that form
a complex with gamma-tubulin. This family of proteins
includes the grip motif 1 and grip moti 2.
Length = 528
Score = 26.7 bits (59), Expect = 6.6
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 3/56 (5%)
Query: 24 PWPLNIYLTY---KKKLTVQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNNF 76
PWPL++ LT KK + L LK E L++++K+++K + S R +
Sbjct: 411 PWPLSLILTPEALKKYQRIFRFLLRLKRAEYLLNKLWKELNKRRRLGSTRRNEPLL 466
>gnl|CDD|227117 COG4776, Rnb, Exoribonuclease II [Transcription].
Length = 645
Score = 26.7 bits (59), Expect = 6.6
Identities = 16/62 (25%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 30 YLTYKKKLTVQHRLKTLKWLEKSLD---------QVYKDVDKCCQSLSERLEKNNFFFKD 80
+ K KL H WLE + D Q + + + CQ+ E + + FKD
Sbjct: 305 TIESKAKLVYDH---VSDWLENTGDWQPESEAIAQQIRLLHQFCQARIEWRKTHALVFKD 361
Query: 81 KP 82
+P
Sbjct: 362 RP 363
>gnl|CDD|118177 pfam09644, Mg296, Mg296 protein. This protein of 129 residues is
expressed in bacteria. It consists of three identical
chains of five alpha helices. Two copies of each chain
associate into a complex of six units of possible
biological significance but of unknown function.
Length = 121
Score = 26.0 bits (57), Expect = 6.8
Identities = 10/29 (34%), Positives = 12/29 (41%)
Query: 43 LKTLKWLEKSLDQVYKDVDKCCQSLSERL 71
+K L L + D KCCQ E L
Sbjct: 68 IKQLDHLADLVKNPKDDDKKCCQQFYEAL 96
>gnl|CDD|145415 pfam02251, PA28_alpha, Proteasome activator pa28 alpha subunit.
PA28 activator complex (also known as 11s regulator of
20S proteasome) is a ring shaped hexameric structure of
alternating alpha and beta subunits. This family
represents the alpha subunit. The activator complex
binds to the 20S proteasome ana simulates peptidase
activity in and ATP-independent manner.
Length = 64
Score = 24.9 bits (55), Expect = 7.3
Identities = 19/38 (50%), Positives = 22/38 (57%), Gaps = 5/38 (13%)
Query: 55 QVYKDVDKCCQSL---SERLEKNNFFFKDKPTELDALL 89
+ K VD QSL +ERL N FF +K ELDALL
Sbjct: 4 ENKKKVDAFRQSLTKEAERLVSN--FFPEKILELDALL 39
>gnl|CDD|237030 PRK12270, kgd, alpha-ketoglutarate decarboxylase; Reviewed.
Length = 1228
Score = 26.8 bits (60), Expect = 7.6
Identities = 7/19 (36%), Positives = 8/19 (42%)
Query: 100 PLPNNRFASTIRAYPNLVE 118
PLP + YPN E
Sbjct: 1146 PLPRAELREALARYPNATE 1164
>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 = 25.3 bits (56), Expect = 7.8
Identities = 14/76 (18%), Positives = 28/76 (36%), Gaps = 6/76 (7%)
Query: 50 EKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFAST 109
E +++ + + K ++L E L+ + DK T D L + +
Sbjct: 21 EPEVEEALEKLLKVLEALEEVLKGKTYLVGDKLTLADIALAPALDWLYMLEP------DP 74
Query: 110 IRAYPNLVEHCTRIEQ 125
+ +PNL R+
Sbjct: 75 LEKFPNLKAWRKRVAA 90
>gnl|CDD|216977 pfam02330, MAM33, Mitochondrial glycoprotein. This mitochondrial
matrix protein family contains members of the MAM33
family which bind to the globular 'heads' of C1Q. It is
thought to be involved in mitochondrial oxidative
phosphorylation and in nucleus-mitochondrion
interactions.
Length = 202
Score = 26.0 bits (57), Expect = 9.8
Identities = 19/93 (20%), Positives = 25/93 (26%), Gaps = 17/93 (18%)
Query: 56 VYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTIRAYPN 115
Y D QS + K LD L + L + FA + AY
Sbjct: 127 FYPSGDSLNQSAEAEWRDTYYGPSFK--NLDPELQDLFHRYLEERGVDATFAKFLVAYST 184
Query: 116 LVEHCTRIEQNYFKKDSTEAKYFLWLTNLSSVV 148
EH +Y WL + V
Sbjct: 185 AKEH---------------QEYITWLEKVKKFV 202
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
0.320 0.134 0.421
Gapped
Lambda K H
0.267 0.0703 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,303,027
Number of extensions: 724949
Number of successful extensions: 688
Number of sequences better than 10.0: 1
Number of HSP's gapped: 684
Number of HSP's successfully gapped: 36
Length of query: 166
Length of database: 10,937,602
Length adjustment: 90
Effective length of query: 76
Effective length of database: 6,945,742
Effective search space: 527876392
Effective search space used: 527876392
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.0 bits)