RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10805
(253 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 = 194 bits (494), Expect = 2e-63
Identities = 74/123 (60%), Positives = 96/123 (78%)
Query: 124 YITWCDPTTYREVTKVRHGAVAPWPLNIYLTYKKKLTVQHRLKTLKWLEKSLDQVYKDVD 183
YI+WCD TY EVTK R+G+V PWPLN L Y+K+ V +LK L W +KSLDQV+ +V+
Sbjct: 4 YISWCDEETYNEVTKPRYGSVYPWPLNHILAYRKQREVLRKLKALGWSDKSLDQVFDEVE 63
Query: 184 KCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTIRAYPNLVEHCT 243
KCCQ+LSE+L N +FF D+PTELDAL+FGH++ +LTTPLPN+ A+ ++ YPNLVE C
Sbjct: 64 KCCQALSEKLGTNQYFFGDQPTELDALVFGHLFTILTTPLPNDELAAIVKKYPNLVEFCR 123
Query: 244 RIE 246
RIE
Sbjct: 124 RIE 126
>gnl|CDD|239377 cd03079, GST_N_Metaxin2, GST_N 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 = 74
Score = 115 bits (290), Expect = 2e-33
Identities = 46/74 (62%), Positives = 55/74 (74%)
Query: 49 VKLYQPYEVEQILLPDNAHCLAVQAYLKMLGLKYTVDFRKNAEYMSPSNRVPFIKVGQFL 108
LYQPYE EQILLPDNA CLAVQ +LKM L + V R NAE+MSPS +VPFI+VG +
Sbjct: 1 AALYQPYEEEQILLPDNASCLAVQTFLKMCNLPFNVRCRANAEFMSPSGKVPFIRVGNQI 60
Query: 109 VAELDPIVKFTQNK 122
V+E PIV+F + K
Sbjct: 61 VSEFGPIVQFVEAK 74
>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 = 104 bits (262), Expect = 2e-28
Identities = 53/133 (39%), Positives = 73/133 (54%), Gaps = 6/133 (4%)
Query: 124 YITWCDPTTYREVTKVRHGAVAPWPLNIYLT------YKKKLTVQHRLKTLKWLEKSLDQ 177
Y W D Y EVT+ + P+PLN Y K +L + L L E+ +
Sbjct: 5 YTLWVDEKNYVEVTRPWYAKALPFPLNFYYPGRYQRRAKDRLQLLRGLSELDSEEEVEKE 64
Query: 178 VYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFASTIRAYPN 237
+YKD +C LSERL + FFF D+PT LDAL+FG++ +L PLPNN+ + ++ PN
Sbjct: 65 LYKDAKECLNLLSERLGEKKFFFGDRPTSLDALVFGYLAPLLKAPLPNNKLQNHLKGCPN 124
Query: 238 LVEHCTRIEQTYF 250
LV+ RI Q YF
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 = 80.4 bits (199), Expect = 1e-19
Identities = 26/82 (31%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 169 KWLEKSL-----DQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPL 223
+ +E L ++Y+ + ++LS L F F DKPT +DA +F H+ ++L P
Sbjct: 6 RMVETHLYWALRREIYELALEDLEALSTLLGDKKFLFGDKPTSVDATVFAHLASILYPPE 65
Query: 224 PNNRFASTIRAYPNLVEHCTRI 245
+ + + PNLVE+C RI
Sbjct: 66 DSPLLRVLVASSPNLVEYCERI 87
>gnl|CDD|239352 cd03054, GST_N_Metaxin, GST_N 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.
Length = 72
Score = 65.3 bits (160), Expect = 3e-14
Identities = 21/68 (30%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 51 LYQPYEVEQILLPDNAHCLAVQAYLKMLGLKYTVDFRKNAEYMSPSNRVPFIKVGQFLVA 110
LYQ L + CL V+ YL+M G+ Y V F N SP+ ++PF+++ +A
Sbjct: 3 LYQWGR-AFGLPSLSPECLKVETYLRMAGIPYEVVFSSNPW-RSPTGKLPFLELNGEKIA 60
Query: 111 ELDPIVKF 118
+ + I+++
Sbjct: 61 DSEKIIEY 68
>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 = 45.4 bits (108), Expect = 4e-06
Identities = 27/140 (19%), Positives = 49/140 (35%), Gaps = 30/140 (21%)
Query: 124 YITWCDPTTYREVTKVRHGAVAPWPLNIYLTYKKKLTVQHRLK----------------- 166
Y + + Y + T+ + P+P+ + + + R++
Sbjct: 16 YQLYVNSKNYEKYTRKLFSKLLPFPMMYNTPLRLRSQAKERVELLGLDSRTSADDASEEA 75
Query: 167 -------------TLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFG 213
T K EK L + +C L E L + F F D P+ D L F
Sbjct: 76 AEVAQSLTHERQLTAKQKEKELLREEALNLECLTLLEELLGQWGFLFGDSPSSSDLLFFA 135
Query: 214 HIYAVLTTPLPNNRFASTIR 233
++Y +L LP+ + +R
Sbjct: 136 YLYLLLVPKLPDGFIRNHLR 155
>gnl|CDD|239376 cd03078, GST_N_Metaxin1_like, GST_N family, Metaxin subfamily,
Metaxin 1-like proteins; composed of metaxins 1 and 3,
and similar proteins including Tom37 from fungi.
Mammalian metaxin (or metaxin 1) and the fungal protein
Tom37 are components of preprotein import complexes 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 = 73
Score = 40.3 bits (95), Expect = 5e-05
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 1/54 (1%)
Query: 65 NAHCLAVQAYLKMLGLKYTVDFRKNAEYMSPSNRVPFIKVGQFLVAELDPIVKF 118
+ CLAV AYLK G V N + SP+ ++P + ++ + I+++
Sbjct: 16 DPECLAVLAYLKFAGAPLKVVPSNN-PWRSPTGKLPALLTSGTKISGPEKIIEY 68
>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 = 1e-04
Identities = 15/73 (20%), Positives = 29/73 (39%), Gaps = 4/73 (5%)
Query: 172 EKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTPLPNNRFAST 231
+ +L++ +++ +L ERL + D+P+ D L + + + A
Sbjct: 1 QAALERALAQLERALDALEERLADGPYLLGDRPSLADIALAPALARLDFRGPGLDLRA-- 58
Query: 232 IRAYPNLVEHCTR 244
YPNL R
Sbjct: 59 --GYPNLRAWLER 69
>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 = 37.9 bits (89), Expect = 3e-04
Identities = 18/77 (23%), Positives = 34/77 (44%), Gaps = 15/77 (19%)
Query: 49 VKLYQPYEVEQILLPDNAHCLAVQAYLKMLGLKYT---VDFRKNAEY----MSPSNRVPF 101
+KLY P + L V+ L+ GL Y VD + + ++P +VP
Sbjct: 1 LKLYY--------FPGSPRSLRVRLALEEKGLPYELVPVDLGEGEQEEFLALNPLGKVPV 52
Query: 102 IKVGQFLVAELDPIVKF 118
++ G ++ E I+++
Sbjct: 53 LEDGGLVLTESLAILEY 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 = 6e-04
Identities = 11/85 (12%), Positives = 27/85 (31%), Gaps = 4/85 (4%)
Query: 161 VQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLT 220
+ L E +++ +++ +L + L + D+ + D L + +
Sbjct: 20 LYLEKVPLPKDEAAVEAAREELPALLAALEQLLAGRPYLAGDQFSLADVALAPVLARLEA 79
Query: 221 TPLPNNRFASTIRAYPNLVEHCTRI 245
+ YP L R+
Sbjct: 80 LGPY----YDLLDEYPRLKAWYDRL 100
>gnl|CDD|239378 cd03080, GST_N_Metaxin_like, GST_N family, Metaxin subfamily,
Metaxin-like proteins; a heterogenous group of proteins,
predominantly uncharacterized, with similarity to
metaxins and GSTs. 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. One
characterized member of this subgroup is a novel GST
from Rhodococcus with toluene o-monooxygenase and
gamma-glutamylcysteine synthetase activities. Also
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 = 75
Score = 30.7 bits (70), Expect = 0.13
Identities = 14/35 (40%), Positives = 21/35 (60%), Gaps = 1/35 (2%)
Query: 68 CLAVQAYLKMLGLKYTVDFRKNAEYMSPSNRVPFI 102
CL V+ +L+M G+ Y F A+ SP ++PFI
Sbjct: 20 CLKVETFLRMAGIPYENKFGGLAK-RSPKGKLPFI 53
>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 = 29.6 bits (67), Expect = 0.31
Identities = 11/54 (20%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 166 KTLKWLEKSLD-QVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAV 218
+ +WL+ + K+++ +SL+ L F T D +F +Y
Sbjct: 4 QVDQWLDLAGSLLKGKELEALLKSLNSYLASRTFLVGYSLTLADVAVFSALYPS 57
>gnl|CDD|239274 cd02976, NrdH, NrdH-redoxin (NrdH) family; NrdH is a small
monomeric protein with a conserved redox active CXXC
motif within a TRX fold, characterized by a glutaredoxin
(GRX)-like sequence and TRX-like activity profile. In
vitro, it displays protein disulfide reductase activity
that is dependent on TRX reductase, not glutathione
(GSH). It is part of the NrdHIEF operon, where NrdEF
codes for class Ib ribonucleotide reductase (RNR-Ib), an
efficient enzyme at low oxygen levels. Under these
conditions when GSH is mostly conjugated to spermidine,
NrdH can still function and act as a hydrogen donor for
RNR-Ib. It has been suggested that the NrdHEF system may
be the oldest RNR reducing system, capable of
functioning in a microaerophilic environment, where GSH
was not yet available. NrdH from Corynebacterium
ammoniagenes can form domain-swapped dimers, although it
is unknown if this happens in vivo. Domain-swapped
dimerization, which results in the blocking of the TRX
reductase binding site, could be a mechanism for
regulating the oxidation state of the protein.
Length = 73
Score = 29.5 bits (67), Expect = 0.35
Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 15/74 (20%)
Query: 48 DVKLYQPYEVEQILLPDNAHCLAVQAYLKMLGLKYT-VDFRKNAEYM------SPSNRVP 100
+V +Y PD +C A + +L G+ + VD ++ E + + VP
Sbjct: 1 EVTVYT--------KPDCPYCKATKRFLDERGIPFEEVDVDEDPEALEELKKLNGYRSVP 52
Query: 101 FIKVGQFLVAELDP 114
+ +G ++ P
Sbjct: 53 VVVIGDEHLSGFRP 66
>gnl|CDD|223698 COG0625, Gst, Glutathione S-transferase [Posttranslational
modification, protein turnover, chaperones].
Length = 211
Score = 30.5 bits (69), Expect = 0.57
Identities = 13/90 (14%), Positives = 26/90 (28%), Gaps = 7/90 (7%)
Query: 158 KLTVQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYA 217
+ + LE +L+ ++ L L + D+ T D L ++
Sbjct: 112 QRRRALLGSEPELLEAALEAARAEIRALLALLEALLADGPYLAGDRFTIADIALAPLLWR 171
Query: 218 VLTTPLPNNRFASTIRAYPNLVEHCTRIEQ 247
+ + YP L R+
Sbjct: 172 L-------ALLGEELADYPALKAWYERVLA 194
>gnl|CDD|216931 pfam02211, NHase_beta, Nitrile hydratase beta subunit. Nitrile
hydratases EC:4.2.1.84 are unusual metalloenzymes that
catalyze the hydration of nitriles to their
corresponding amides. They are used as biocatalysts in
acrylamide production, one of the few commercial scale
bioprocesses, as well as in environmental remediation
for the removal of nitriles from waste streams. Nitrile
hydratases are composed of two subunits, alpha and beta,
and they contain one iron atom per alpha beta unit.
Length = 220
Score = 29.9 bits (68), Expect = 0.88
Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 11/35 (31%)
Query: 29 MHLLHVVFIFFPAREIWPDD--------VKLYQPY 55
L V F A E+W DD V L++PY
Sbjct: 185 QPLYTVRF---DAEELWGDDADPNDSVYVDLWEPY 216
>gnl|CDD|218287 pfam04841, Vps16_N, Vps16, N-terminal region. This protein forms
part of the Class C vacuolar protein sorting (Vps)
complex. Vps16 is essential for vacuolar protein
sorting, which is essential for viability in plants, but
not yeast. The Class C Vps complex is required for
SNARE-mediated membrane fusion at the lysosome-like
yeast vacuole. It is thought to play essential roles in
membrane docking and fusion at the Golgi-to-endosome and
endosome-to-vacuole stages of transport. The role of
VPS16 in this complex is not known.
Length = 408
Score = 29.8 bits (67), Expect = 1.3
Identities = 19/95 (20%), Positives = 35/95 (36%), Gaps = 6/95 (6%)
Query: 95 PSNRVPFI-KVGQFLVAELDPIVKFTQNKNYITWCDPTTYREVTKVRHGAVAPWPLNIYL 153
+ V F L AE+D + T + + P + + G+ P L
Sbjct: 285 DGDSVQFWYDFTTNLSAEVDGVRIITTSSHEFLSRVPAASENIFAI--GSTEP---GAML 339
Query: 154 TYKKKLTVQHRLKTLKWLEKSLDQVYKDVDKCCQS 188
+ H K ++L++ D + K VD C ++
Sbjct: 340 VEAFQEMEDHSPKADEYLKEIQDVLEKAVDDCIEA 374
>gnl|CDD|217286 pfam02919, Topoisom_I_N, Eukaryotic DNA topoisomerase I, DNA
binding fragment. Topoisomerase I promotes the
relaxation of DNA superhelical tension by introducing a
transient single-stranded break in duplex DNA and are
vital for the processes of replication, transcription,
and recombination. This family may be more than one
structural domain.
Length = 215
Score = 29.5 bits (67), Expect = 1.5
Identities = 21/61 (34%), Positives = 27/61 (44%), Gaps = 5/61 (8%)
Query: 31 LLHVVFIFFPAREIWPDDVKLYQPYEVEQILLPDNAHCLAVQAYLKMLGLKYTVD--FRK 88
L H IF P E P VKLY Y+ + + L A +A + ML Y F+K
Sbjct: 6 LEHNGVIFPPPYEPLPHGVKLY--YDGKPVDLTPEAEEVATF-FAVMLETDYATKPVFQK 62
Query: 89 N 89
N
Sbjct: 63 N 63
>gnl|CDD|131251 TIGR02196, GlrX_YruB, Glutaredoxin-like protein, YruB-family. This
glutaredoxin-like protein family contains the conserved
CxxC motif and includes the Clostridium pasteurianum
protein YruB which has been cloned from a rubredoxin
operon. Somewhat related to NrdH, it is unknown whether
this protein actually interacts with
glutathione/glutathione reducatase, or, like NrdH, some
other reductant system.
Length = 74
Score = 27.3 bits (61), Expect = 1.8
Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 63 PDNAHCLAVQAYLKMLGLKY-TVDFRKNAEYM------SPSNRVPFIKVGQFLVAELDP 114
P C + YL G+ + +D K++ VP I +G ++ DP
Sbjct: 8 PWCPPCKKAKEYLTSKGIAFEEIDVEKDSAAREEVLKVLGQRGVPVIVIGHKIIVGFDP 66
>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 = 1.9
Identities = 13/85 (15%), Positives = 28/85 (32%), Gaps = 7/85 (8%)
Query: 163 HRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIYAVLTTP 222
R E+ + +++ L +L + D+ + DA LF V+
Sbjct: 28 ARWADDALAEEVKAAARERLERRLAYLDAQLAGGPYLLGDQFSVADAYLF-----VVLRW 82
Query: 223 LPNNRFASTIRAYPNLVEHCTRIEQ 247
+ +P+L + R+
Sbjct: 83 AR--AVGLDLSDWPHLAAYLARVAA 105
>gnl|CDD|188994 cd06455, M3A_TOP, Peptidase M3 Thimet oligopeptidase (TOP) also
includes neurolysin. Peptidase M3 Thimet oligopeptidase
(TOP; PZ-peptidase; endo-oligopeptidase A; endopeptidase
24.15; soluble metallo-endopeptidase; EC 3.4.24.15)
family also includes neurolysin (endopeptidase 24.16,
microsomal endopeptidase, mitochondrial oligopeptidase
M, neurotensin endopeptidase, soluble angiotensin
II-binding protein, thimet oligopeptidase II) which
hydrolyzes oligopeptides such as neurotensin, bradykinin
and dynorphin A. TOP and neurolysin are neuropeptidases
expressed abundantly in the testis, but also found in
the liver, lung and kidney. They are involved in the
metabolism of neuropeptides under 20 amino acid residues
long and cleave most bioactive peptides at the same
sites, but recognize different positions on some
naturally occurring and synthetic peptides; they cleave
at distinct sites on the 13-residue bioactive peptide
neurotensin, which modulates central dopaminergic and
cholinergic circuits. TOP has been shown to degrade
peptides released by the proteasome, limiting the extent
of antigen presentation by major histocompatibility
complex class I molecules, and has been associated with
amyloid protein precursor processing.
Length = 637
Score = 29.4 bits (67), Expect = 2.0
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 2/40 (5%)
Query: 13 FDLDSEGVIIGTKKIYMHLLHVVFIFFPAREIWPDDVKLY 52
F L+ VI G IY L + F +W +DV+LY
Sbjct: 321 FPLEV--VIQGLLDIYQELFGLKFEEVDDAPVWHEDVRLY 358
>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 = 3.7
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 6/56 (10%)
Query: 146 PWPLNIYLTYK---KKL---TVQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEK 195
P+ ++I LTYK KL + L+WL + + D LSER K
Sbjct: 62 PYGISILLTYKYGSIKLAYESESLATPDLRWLGLRPSDIIRLPDLPLLPLSERDLK 117
>gnl|CDD|233688 TIGR02022, hutF, formiminoglutamate deiminase. In some species,
histidine utilization goes via urocanate to glutamate in
four step, the last being removal of formamide. This
model describes an alternate fourth step,
formiminoglutamate hydrolase, which leads to
N-formyl-L-glutamate. This product may be acted on by
formylglutamate amidohydrolase (TIGR02017) and bypass
glutamate as a product during its degradation.
Alternatively, removal of formate (by EC 3.5.1.68) would
yield glutamate [Energy metabolism, Amino acids and
amines].
Length = 454
Score = 28.6 bits (64), Expect = 3.9
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 55 YEVEQILLPDNAHCLAVQAYLKMLGLKYT 83
Y L P+ +A Q Y++ML +T
Sbjct: 86 YRFADRLTPEQLQAIARQLYVEMLEAGFT 114
>gnl|CDD|182614 PRK10645, PRK10645, divalent-cation tolerance protein CutA;
Provisional.
Length = 112
Score = 27.0 bits (60), Expect = 4.3
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 50 KLYQPYEVEQILLPDNAHCLAVQAYLK 76
KL Q YEV+ +L +H A+ LK
Sbjct: 55 KLEQEYEVQMLLKTTVSHQQALLECLK 81
>gnl|CDD|239570 cd03488, Topoisomer_IB_N_htopoI_like, Topoisomer_IB_N_htopoI_like
: N-terminal DNA binding fragment found in eukaryotic
DNA topoisomerase (topo) IB proteins similar to the
monomeric yeast and human topo I. Topo I enzymes are
divided into: topo type IA (bacterial) and type IB
(eukaryotic). Topo I relaxes superhelical tension in
duplex DNA by creating a single-strand nick, the broken
strand can then rotate around the unbroken strand to
remove DNA supercoils and, the nick is religated,
liberating topo I. These enzymes regulate the
topological changes that accompany DNA replication,
transcription and other nuclear processes. Human topo
I is the target of a diverse set of anticancer drugs
including camptothecins (CPTs). CPTs bind to the topo
I-DNA complex and inhibit religation of the
single-strand nick, resulting in the accumulation of
topo I-DNA adducts. This family may represent more
than one structural domain.
Length = 215
Score = 27.7 bits (62), Expect = 4.8
Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 10/76 (13%)
Query: 31 LLHVVFIFFPAREIWPDDVKLYQPYEVEQILLPDNAHCLAVQAYLKMLGLKYTVD--FRK 88
L H +F P E P +VK Y Y+ + + L A +A Y KML Y F+K
Sbjct: 5 LEHNGPVFAPPYEPLPKNVKFY--YDGKPVKLSPEAEEVA-TFYAKMLEHDYATKEIFQK 61
Query: 89 N-----AEYMSPSNRV 99
N + M+ +V
Sbjct: 62 NFFKDFKKVMTKEEKV 77
>gnl|CDD|223512 COG0435, ECM4, Predicted glutathione S-transferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 324
Score = 27.3 bits (61), Expect = 7.5
Identities = 19/70 (27%), Positives = 32/70 (45%), Gaps = 9/70 (12%)
Query: 172 EKSLDQVYKDVDKCCQSLSERLEKNNFFFKDKPTELDALLFGHIY---AVLTTPLPNNRF 228
E+++ ++++ +DK L + L + + D+ TE D LF + V N
Sbjct: 204 EEAVKKLFEALDK----LEQILSERRYLTGDQLTEADIRLFTTLVRFDPVYVGHFKCNL- 258
Query: 229 ASTIRAYPNL 238
IR YPNL
Sbjct: 259 -RRIRDYPNL 267
>gnl|CDD|181787 PRK09343, PRK09343, prefoldin subunit beta; Provisional.
Length = 121
Score = 26.6 bits (59), Expect = 8.3
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 157 KKLTVQHRLKTLKWLEKSLDQVYKDVDKCCQSLSERLEKNN 197
+K ++ R +TL+ EK L + K++ ++E L K
Sbjct: 79 RKELLELRSRTLEKQEKKLREKLKELQ---AKINEMLSKYY 116
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
0.322 0.137 0.423
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: 12,923,805
Number of extensions: 1226416
Number of successful extensions: 1004
Number of sequences better than 10.0: 1
Number of HSP's gapped: 998
Number of HSP's successfully gapped: 41
Length of query: 253
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 158
Effective length of database: 6,723,972
Effective search space: 1062387576
Effective search space used: 1062387576
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 (21.9 bits)
S2: 58 (26.2 bits)