RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6819
(135 letters)
>gnl|CDD|239245 cd02947, TRX_family, TRX family; composed of two groups: Group I,
which includes proteins that exclusively encode a TRX
domain; and Group II, which are composed of fusion
proteins of TRX and additional domains. Group I TRX is a
small ancient protein that alter the redox state of
target proteins via the reversible oxidation of an
active site dithiol, present in a CXXC motif, partially
exposed at the protein's surface. TRX reduces protein
disulfide bonds, resulting in a disulfide bond at its
active site. Oxidized TRX is converted to the active
form by TRX reductase, using reducing equivalents
derived from either NADPH or ferredoxins. By altering
their redox state, TRX regulates the functions of at
least 30 target proteins, some of which are enzymes and
transcription factors. It also plays an important role
in the defense against oxidative stress by directly
reducing hydrogen peroxide and certain radicals, and by
serving as a reductant for peroxiredoxins. At least two
major types of functional TRXs have been reported in
most organisms; in eukaryotes, they are located in the
cytoplasm and the mitochondria. Higher plants contain
more types (at least 20 TRX genes have been detected in
the genome of Arabidopsis thaliana), two of which (types
f amd m) are located in the same compartment, the
chloroplast. Also included in the alignment are TRX-like
domains which show sequence homology to TRX but do not
contain the redox active CXXC motif. Group II proteins,
in addition to either a redox active TRX or a TRX-like
domain, also contain additional domains, which may or
may not possess homology to known proteins.
Length = 93
Score = 80.7 bits (200), Expect = 4e-21
Identities = 28/93 (30%), Positives = 51/93 (54%), Gaps = 1/93 (1%)
Query: 32 EQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAIIDVEKNAELVHTF 91
E+F + + + PV+V+F A WC PC + P L+++ + +DV++N EL +
Sbjct: 1 EEFEELI-KSAKPVVVDFWAPWCGPCKAIAPVLEELAEEYPKVKFVKVDVDENPELAEEY 59
Query: 92 EVKAVPAVLAVKNGLVIDKFIGLIENEMIENMV 124
V+++P L KNG +D+ +G E +E +
Sbjct: 60 GVRSIPTFLFFKNGKEVDRVVGADPKEELEEFL 92
>gnl|CDD|225660 COG3118, COG3118, Thioredoxin domain-containing protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 304
Score = 77.0 bits (190), Expect = 8e-18
Identities = 30/90 (33%), Positives = 47/90 (52%), Gaps = 1/90 (1%)
Query: 43 VPVIVNFHAEWCEPCHLLTPQLKKML-GNSDSIDLAIIDVEKNAELVHTFEVKAVPAVLA 101
VPV+V+F A WC PC LTP L+K+ LA ++ + + F V+++P V A
Sbjct: 44 VPVLVDFWAPWCGPCKQLTPTLEKLAAEYKGKFKLAKVNCDAEPMVAAQFGVQSIPTVYA 103
Query: 102 VKNGLVIDKFIGLIENEMIENMVSKLLPKD 131
K+G +D F G + + K+LP +
Sbjct: 104 FKDGQPVDGFQGAQPESQLRQFLDKVLPAE 133
>gnl|CDD|200072 TIGR01068, thioredoxin, thioredoxin. Several proteins, such as
protein disulfide isomerase, have two or more copies of
a domain closely related to thioredoxin. This model is
designed to recognize authentic thioredoxin, a small
protein that should be hit exactly once by This model.
Any protein that hits once with a score greater than the
second (per domain) trusted cutoff may be taken as
thioredoxin [Energy metabolism, Electron transport].
Length = 101
Score = 67.3 bits (165), Expect = 1e-15
Identities = 23/100 (23%), Positives = 57/100 (57%), Gaps = 1/100 (1%)
Query: 30 NNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGN-SDSIDLAIIDVEKNAELV 88
+ F + + ++ PV+V+F A WC PC ++ P L+++ + ++V++N ++
Sbjct: 2 TDANFDETIASSDKPVLVDFWAPWCGPCKMIAPILEELAKEYEGKVKFVKLNVDENPDIA 61
Query: 89 HTFEVKAVPAVLAVKNGLVIDKFIGLIENEMIENMVSKLL 128
+ ++++P +L KNG +D+ +G + ++ +++K L
Sbjct: 62 AKYGIRSIPTLLLFKNGKEVDRSVGALPKAALKQLINKNL 101
>gnl|CDD|239254 cd02956, ybbN, ybbN protein family; ybbN is a hypothetical protein
containing a redox-inactive TRX-like domain. Its gene
has been sequenced from several gammaproteobacteria and
actinobacteria.
Length = 96
Score = 66.9 bits (164), Expect = 1e-15
Identities = 25/98 (25%), Positives = 44/98 (44%), Gaps = 3/98 (3%)
Query: 29 ENNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKML-GNSDSIDLAIIDVEKNAEL 87
+N +Q ++ VPV+V+F A P L P L+++ LA ++ + ++
Sbjct: 1 QNFQQVLQESTQ--VPVVVDFWAPRSPPSKELLPLLERLAEEYQGQFVLAKVNCDAQPQI 58
Query: 88 VHTFEVKAVPAVLAVKNGLVIDKFIGLIENEMIENMVS 125
F V+A+P V G +D F G E + M+
Sbjct: 59 AQQFGVQALPTVYLFAAGQPVDGFQGAQPEEQLRQMLD 96
>gnl|CDD|215704 pfam00085, Thioredoxin, Thioredoxin. Thioredoxins are small
enzymes that participate in redox reactions, via the
reversible oxidation of an active centre disulfide bond.
Some members with only the active site are not separated
from the noise.
Length = 104
Score = 60.7 bits (148), Expect = 4e-13
Identities = 27/86 (31%), Positives = 46/86 (53%), Gaps = 3/86 (3%)
Query: 30 NNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGN--SDSIDLAIIDVEKNAEL 87
+E F + V + PV+V+F+A WC PC L P+ +K L D + A +D ++N +L
Sbjct: 6 TDENFDEEVAKSDKPVLVDFYAPWCGPCKALAPEYEK-LAQEYKDDVKFAKVDADENPDL 64
Query: 88 VHTFEVKAVPAVLAVKNGLVIDKFIG 113
+ V+ P + KNG + ++G
Sbjct: 65 ASEYGVRGFPTIKFFKNGKKVSDYVG 90
>gnl|CDD|173347 PTZ00051, PTZ00051, thioredoxin; Provisional.
Length = 98
Score = 53.7 bits (129), Expect = 2e-10
Identities = 24/88 (27%), Positives = 46/88 (52%), Gaps = 1/88 (1%)
Query: 26 YIIENNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAIIDVEKNA 85
+I+ + +F + N + VIV+F+AEWC PC + P ++ + +DV++ +
Sbjct: 3 HIVTSQAEFESTLSQNEL-VIVDFYAEWCGPCKRIAPFYEECSKEYTKMVFVKVDVDELS 61
Query: 86 ELVHTFEVKAVPAVLAVKNGLVIDKFIG 113
E+ + ++P KNG V+D +G
Sbjct: 62 EVAEKENITSMPTFKVFKNGSVVDTLLG 89
>gnl|CDD|239282 cd02984, TRX_PICOT, TRX domain, PICOT (for PKC-interacting cousin
of TRX) subfamily; PICOT is a protein that interacts
with protein kinase C (PKC) theta, a calcium independent
PKC isoform selectively expressed in skeletal muscle and
T lymphocytes. PICOT contains an N-terminal TRX-like
domain, which does not contain the catalytic CXXC motif,
followed by one to three glutaredoxin domains. The
TRX-like domain is required for interaction with PKC
theta. PICOT inhibits the activation of c-Jun N-terminal
kinase and the transcription factors, AP-1 and NF-kB,
induced by PKC theta or T-cell activating stimuli.
Length = 97
Score = 48.8 bits (117), Expect = 1e-08
Identities = 21/85 (24%), Positives = 45/85 (52%), Gaps = 2/85 (2%)
Query: 31 NEQFIKHVMNNPV-PVIVNFHAEWCEPCHLLTPQLKKMLGNSD-SIDLAIIDVEKNAELV 88
E+F + + ++ ++++F A W EPC + +++ + S+ I+ E+ E+
Sbjct: 2 EEEFEELLKSDASKLLVLHFWAPWAEPCKQMNQVFEELAKEAFPSVLFLSIEAEELPEIS 61
Query: 89 HTFEVKAVPAVLAVKNGLVIDKFIG 113
FE+ AVP + +NG ++D+ G
Sbjct: 62 EKFEITAVPTFVFFRNGTIVDRVSG 86
>gnl|CDD|239259 cd02961, PDI_a_family, Protein Disulfide Isomerase (PDIa) family,
redox active TRX domains; composed of eukaryotic
proteins involved in oxidative protein folding in the
endoplasmic reticulum (ER) by acting as catalysts and
folding assistants. Members of this family include PDI
and PDI-related proteins like ERp72, ERp57 (or ERp60),
ERp44, P5, PDIR, ERp46 and the transmembrane PDIs. PDI,
ERp57, ERp72, P5, PDIR and ERp46 are all oxidases,
catalyzing the formation of disulfide bonds of newly
synthesized polypeptides in the ER. They also exhibit
reductase activity in acting as isomerases to correct
any non-native disulfide bonds, as well as chaperone
activity to prevent protein aggregation and facilitate
the folding of newly synthesized proteins. These
proteins usually contain multiple copies of a redox
active TRX (a) domain containing a CXXC motif, and may
also contain one or more redox inactive TRX-like (b)
domains. Only one a domain is required for the oxidase
function but multiple copies are necessary for the
isomerase function. The different types of PDIs may show
different substrate specificities and tissue-specific
expression, or may be induced by stress. PDIs are in
their reduced form at steady state and are oxidized to
the active form by Ero1, which is localized in the ER
through ERp44. Some members of this family also contain
a DnaJ domain in addition to the redox active a domains;
examples are ERdj5 and Pfj2. Also included in the family
is the redox inactive N-terminal TRX-like domain of
ERp29.
Length = 101
Score = 48.8 bits (117), Expect = 2e-08
Identities = 21/79 (26%), Positives = 38/79 (48%), Gaps = 4/79 (5%)
Query: 30 NNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKM---LGNSDSIDLAIIDVEKNAE 86
++ F + V ++ V+V F+A WC C L P+ +K+ L + +A +D N +
Sbjct: 4 TDDNFDELVKDSK-DVLVEFYAPWCGHCKALAPEYEKLAKELKGDGKVVVAKVDCTANND 62
Query: 87 LVHTFEVKAVPAVLAVKNG 105
L + V+ P + NG
Sbjct: 63 LCSEYGVRGYPTIKLFPNG 81
>gnl|CDD|239285 cd02987, Phd_like_Phd, Phosducin (Phd)-like family, Phd subfamily;
Phd is a cytosolic regulator of G protein functions. It
specifically binds G protein betagamma (Gbg)-subunits
with high affinity, resulting in the solubilization of
Gbg from the plasma membrane. This impedes the formation
of a functional G protein trimer (G protein
alphabetagamma), thereby inhibiting G protein-mediated
signal transduction. Phd also inhibits the GTPase
activity of G protein alpha. Phd can be phosphorylated
by protein kinase A and G protein-coupled receptor
kinase 2, leading to its inactivation. Phd was
originally isolated from the retina, where it is highly
expressed and has been implicated to play an important
role in light adaptation. It is also found in the pineal
gland, liver, spleen, striated muscle and the brain. The
C-terminal domain of Phd adopts a thioredoxin fold, but
it does not contain a CXXC motif. Phd interacts with G
protein beta mostly through the N-terminal helical
domain.
Length = 175
Score = 45.4 bits (108), Expect = 8e-07
Identities = 23/115 (20%), Positives = 41/115 (35%), Gaps = 10/115 (8%)
Query: 7 QSTLFKRCFNHFLERKFKSYIIENNEQFIKHVMNNP--VPVIVNFHAEWCEPCHLLTPQL 64
F R F E +++ EQF+ + V+V+ + C L L
Sbjct: 53 AKLPFGRRFGKVYE-------LDSGEQFLDAIDKEGKDTTVVVHIYEPGIPGCAALNSSL 105
Query: 65 KKMLGNSDSIDLAIIDVEKNAELVHTFEVKAVPAVLAVKNGLVIDKFIGLIENEM 119
+ ++ I F+ A+PA+L K G +I F+ + E+
Sbjct: 106 LCLAAEYPAVKFCKI-RASATGASDEFDTDALPALLVYKGGELIGNFVRVTEDLG 159
>gnl|CDD|181812 PRK09381, trxA, thioredoxin; Provisional.
Length = 109
Score = 43.5 bits (102), Expect = 2e-06
Identities = 21/86 (24%), Positives = 45/86 (52%), Gaps = 1/86 (1%)
Query: 31 NEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGN-SDSIDLAIIDVEKNAELVH 89
++ F V+ ++V+F AEWC PC ++ P L ++ + +A +++++N
Sbjct: 10 DDSFDTDVLKADGAILVDFWAEWCGPCKMIAPILDEIADEYQGKLTVAKLNIDQNPGTAP 69
Query: 90 TFEVKAVPAVLAVKNGLVIDKFIGLI 115
+ ++ +P +L KNG V +G +
Sbjct: 70 KYGIRGIPTLLLFKNGEVAATKVGAL 95
>gnl|CDD|182889 PRK10996, PRK10996, thioredoxin 2; Provisional.
Length = 139
Score = 43.9 bits (104), Expect = 2e-06
Identities = 22/88 (25%), Positives = 44/88 (50%), Gaps = 1/88 (1%)
Query: 23 FKSYIIENNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLG-NSDSIDLAIIDV 81
F +I + + ++ + +PV+++F A WC PC P + + S + ++
Sbjct: 33 FDGEVINATGETLDKLLQDDLPVVIDFWAPWCGPCRNFAPIFEDVAAERSGKVRFVKVNT 92
Query: 82 EKNAELVHTFEVKAVPAVLAVKNGLVID 109
E EL F ++++P ++ KNG V+D
Sbjct: 93 EAERELSARFRIRSIPTIMIFKNGQVVD 120
>gnl|CDD|200074 TIGR01126, pdi_dom, protein disulfide-isomerase domain. This model
describes a domain of eukaryotic protein disulfide
isomerases, generally found in two copies. The high
cutoff for total score reflects the expectation of
finding both copies. The domain is similar to
thioredoxin but the redox-active disulfide region motif
is APWCGHCK [Protein fate, Protein folding and
stabilization].
Length = 102
Score = 42.3 bits (100), Expect = 4e-06
Identities = 27/100 (27%), Positives = 42/100 (42%), Gaps = 4/100 (4%)
Query: 30 NNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKM---LGNSDSIDLAIIDVEKNAE 86
F + V++N V+V F+A WC C L P+ +K+ L I LA +D +
Sbjct: 2 TASNFDEIVLSNK-DVLVEFYAPWCGHCKNLAPEYEKLAKELKKDPDIVLAKVDATAEKD 60
Query: 87 LVHTFEVKAVPAVLAVKNGLVIDKFIGLIENEMIENMVSK 126
L F V P + G + G + E I V++
Sbjct: 61 LASRFGVSGFPTIKFFPKGKKPVDYEGGRDLEAIVEFVNE 100
>gnl|CDD|223600 COG0526, TrxA, Thiol-disulfide isomerase and thioredoxins
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 127
Score = 42.6 bits (99), Expect = 6e-06
Identities = 22/93 (23%), Positives = 46/93 (49%), Gaps = 6/93 (6%)
Query: 44 PVIVNFHAEWCEPCHLLTPQLKKMLGNSDS----IDLAIIDVEKNAELVHTFEVKAVPAV 99
PV+V+F A WC PC P L+++ + + + D + V+++P +
Sbjct: 34 PVLVDFWAPWCPPCRAEAPLLEELAEEYGGDVEVVAVNVDDENPDLAAEFGVAVRSIPTL 93
Query: 100 LAVKNGLVIDKFIG--LIENEMIENMVSKLLPK 130
L K+G +D+ +G ++ E + + + +LL +
Sbjct: 94 LLFKDGKEVDRLVGGKVLPKEALIDALGELLAR 126
>gnl|CDD|239255 cd02957, Phd_like, Phosducin (Phd)-like family; composed of Phd and
Phd-like proteins (PhLP), characterized as cytosolic
regulators of G protein functions. Phd and PhLPs
specifically bind G protein betagamma (Gbg)-subunits
with high affinity, resulting in the solubilization of
Gbg from the plasma membrane and impeding G
protein-mediated signal transduction by inhibiting the
formation of a functional G protein trimer (G protein
alphabetagamma). Phd also inhibits the GTPase activity
of G protein alpha. Phd can be phosphorylated by protein
kinase A and G protein-coupled receptor kinase 2,
leading to its inactivation. Phd was originally isolated
from the retina, where it is highly expressed and has
been implicated to play an important role in light
adaptation. It is also found in the pineal gland, liver,
spleen, striated muscle and the brain. The C-terminal
domain of Phd adopts a thioredoxin fold, but it does not
contain a CXXC motif. Phd interacts with G protein beta
mostly through the N-terminal helical domain. Also
included in this family is a PhLP characterized as a
viral inhibitor of apoptosis (IAP)-associated factor,
named VIAF, that functions in caspase activation during
apoptosis.
Length = 113
Score = 41.8 bits (99), Expect = 8e-06
Identities = 25/98 (25%), Positives = 47/98 (47%), Gaps = 3/98 (3%)
Query: 21 RKFKSYIIENNEQFIKHVMNNP--VPVIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAI 78
+ F ++++F++ V V+V+F+ C +L L+++
Sbjct: 1 KGFGEVREISSKEFLEEVTKASKGTRVVVHFYEPGFPRCKILDSHLEELAAKYPETKFVK 60
Query: 79 IDVEKNAELVHTFEVKAVPAVLAVKNGLVIDKFIGLIE 116
I+ EK A LV+ ++K +P +L KNG +ID +G E
Sbjct: 61 INAEK-AFLVNYLDIKVLPTLLVYKNGELIDNIVGFEE 97
>gnl|CDD|239247 cd02949, TRX_NTR, TRX domain, novel NADPH thioredoxin reductase
(NTR) family; composed of fusion proteins found only in
oxygenic photosynthetic organisms containing both TRX
and NTR domains. The TRX domain functions as a protein
disulfide reductase via the reversible oxidation of an
active center dithiol present in a CXXC motif, while the
NTR domain functions as a reductant to oxidized TRX. The
fusion protein is bifunctional, showing both TRX and
NTR activities, but it is not an independent NTR/TRX
system. In plants, the protein is found exclusively in
shoots and mature leaves and is localized in the
chloroplast. It is involved in plant protection against
oxidative stress.
Length = 97
Score = 41.3 bits (97), Expect = 9e-06
Identities = 15/75 (20%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 41 NPVPVIVNFHAEWCEPCHLLTPQLKKMLGN-SDSIDLAIIDVEKNAELVHTFEVKAVPAV 99
+ ++V + + C PC L P L K++ ++ ID++++ E+ + P V
Sbjct: 12 SDRLILVLYTSPTCGPCRTLKPILNKVIDEFDGAVHFVEIDIDEDQEIAEAAGIMGTPTV 71
Query: 100 LAVKNGLVIDKFIGL 114
K+ ++ + G+
Sbjct: 72 QFFKDKELVKEISGV 86
>gnl|CDD|239302 cd03004, PDI_a_ERdj5_C, PDIa family, C-terminal ERdj5 subfamily;
ERdj5, also known as JPDI and macrothioredoxin, is a
protein containing an N-terminal DnaJ domain and four
redox active TRX domains. This subfamily is composed of
the three TRX domains located at the C-terminal half of
the protein. ERdj5 is a ubiquitous protein localized in
the endoplasmic reticulum (ER) and is abundant in
secretory cells. It's transcription is induced during
ER stress. It interacts with BiP through its DnaJ
domain in an ATP-dependent manner. BiP, an ER-resident
member of the Hsp70 chaperone family, functions in
ER-associated degradation and protein translocation.
Also included in the alignment is the single complete
TRX domain of an uncharacterized protein from Tetraodon
nigroviridis, which also contains a DnaJ domain at its
N-terminus.
Length = 104
Score = 41.1 bits (97), Expect = 1e-05
Identities = 16/38 (42%), Positives = 23/38 (60%)
Query: 30 NNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKM 67
E F + V+N P +V+F+A WC PC L P+L+K
Sbjct: 7 TPEDFPELVLNRKEPWLVDFYAPWCGPCQALLPELRKA 44
>gnl|CDD|239292 cd02994, PDI_a_TMX, PDIa family, TMX subfamily; composed of
proteins similar to the TRX-related human transmembrane
protein, TMX. TMX is a type I integral membrane protein;
the N-terminal redox active TRX domain is present in the
endoplasmic reticulum (ER) lumen while the C-terminus is
oriented towards the cytoplasm. It is expressed in many
cell types and its active site motif (CPAC) is unique.
In vitro, TMX reduces interchain disulfides of insulin
and renatures inactive RNase containing incorrect
disulfide bonds. The C. elegans homolog, DPY-11, is
expressed only in the hypodermis and resides in the
cytoplasm. It is required for body and sensory organ
morphogeneis. Another uncharacterized TRX-related
transmembrane protein, human TMX4, is included in the
alignment. The active site sequence of TMX4 is CPSC.
Length = 101
Score = 40.8 bits (96), Expect = 1e-05
Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 46 IVNFHAEWCEPCHLLTPQLKKMLGNSDS--IDLAIIDVEKNAELVHTFEVKAVPAVLAVK 103
++ F+A WC C L P+ ++ SD I++A +DV + L F V A+P + K
Sbjct: 20 MIEFYAPWCPACQQLQPEWEEFADWSDDLGINVAKVDVTQEPGLSGRFFVTALPTIYHAK 79
Query: 104 NG 105
+G
Sbjct: 80 DG 81
>gnl|CDD|239299 cd03001, PDI_a_P5, PDIa family, P5 subfamily; composed of
eukaryotic proteins similar to human P5, a PDI-related
protein with a domain structure of aa'b (where a and a'
are redox active TRX domains and b is a redox inactive
TRX-like domain). Like PDI, P5 is located in the
endoplasmic reticulum (ER) and displays both isomerase
and chaperone activities, which are independent of each
other. Compared to PDI, the isomerase and chaperone
activities of P5 are lower. The first cysteine in the
CXXC motif of both redox active domains in P5 is
necessary for isomerase activity. The P5 gene was first
isolated as an amplified gene from a
hydroxyurea-resistant hamster cell line. The zebrafish
P5 homolog has been implicated to play a critical role
in establishing left/right asymmetries in the embryonic
midline. Some members of this subfamily are P5-like
proteins containing only one redox active TRX domain.
Length = 103
Score = 40.7 bits (96), Expect = 2e-05
Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 1/71 (1%)
Query: 30 NNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGN-SDSIDLAIIDVEKNAELV 88
+ F K V+N+ +V F+A WC C L P+ KK + + +D + + L
Sbjct: 6 TDSNFDKKVLNSDDVWLVEFYAPWCGHCKNLAPEWKKAAKALKGIVKVGAVDADVHQSLA 65
Query: 89 HTFEVKAVPAV 99
+ V+ P +
Sbjct: 66 QQYGVRGFPTI 76
>gnl|CDD|238829 cd01659, TRX_superfamily, Thioredoxin (TRX) superfamily; a large,
diverse group of proteins containing a TRX-fold. Many
members contain a classic TRX domain with a redox active
CXXC motif. They function as protein disulfide
oxidoreductases (PDOs), altering the redox state of
target proteins via the reversible oxidation of their
active site dithiol. The PDO members of this superfamily
include TRX, protein disulfide isomerase (PDI),
tlpA-like, glutaredoxin, NrdH redoxin, and the bacterial
Dsb (DsbA, DsbC, DsbG, DsbE, DsbDgamma) protein
families. Members of the superfamily that do not
function as PDOs but contain a TRX-fold domain include
phosducins, peroxiredoxins and glutathione (GSH)
peroxidases, SCO proteins, GSH transferases (GST,
N-terminal domain), arsenic reductases, TRX-like
ferredoxins and calsequestrin, among others.
Length = 69
Score = 39.2 bits (91), Expect = 3e-05
Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 46 IVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAIIDVEKNAELVHT---FEVKAVPAVLAV 102
+V F+A WC C L P L ++ + + +DV+++ L + V VP ++
Sbjct: 1 LVLFYAPWCPFCQALRPVLAELALLNKGVKFEAVDVDEDPALEKELKRYGVGGVPTLVVF 60
Query: 103 KNGLVI 108
G+ +
Sbjct: 61 GPGIGV 66
>gnl|CDD|239273 cd02975, PfPDO_like_N, Pyrococcus furiosus protein disulfide
oxidoreductase (PfPDO)-like family, N-terminal TRX-fold
subdomain; composed of proteins with similarity to
PfPDO, a redox active thermostable protein believed to
be the archaeal counterpart of bacterial DsbA and
eukaryotic protein disulfide isomerase (PDI), which are
both involved in oxidative protein folding. PfPDO
contains two redox active CXXC motifs in two contiguous
TRX-fold subdomains. The active site in the N-terminal
TRX-fold subdomain is required for isomerase but not
for reductase activity of PfPDO. The exclusive presence
of PfPDO-like proteins in extremophiles may suggest
that they have a special role in adaptation to extreme
conditions.
Length = 113
Score = 39.7 bits (93), Expect = 5e-05
Identities = 18/61 (29%), Positives = 31/61 (50%)
Query: 39 MNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAIIDVEKNAELVHTFEVKAVPA 98
M NPV ++V E C+ C + L+++ SD + L I D +++ E + V+ VP
Sbjct: 19 MKNPVDLVVFSSKEGCQYCEVTKQLLEELSELSDKLKLEIYDFDEDKEKAEKYGVERVPT 78
Query: 99 V 99
Sbjct: 79 T 79
>gnl|CDD|221921 pfam13098, Thioredoxin_2, Thioredoxin-like domain.
Length = 105
Score = 39.3 bits (92), Expect = 7e-05
Identities = 19/96 (19%), Positives = 32/96 (33%), Gaps = 18/96 (18%)
Query: 44 PVIVNFHAEWCEPCHLLTPQLKKMLGN----SDSIDLAIIDVEK-------------NAE 86
PV+V F C C L +L K D+ + ++V+ E
Sbjct: 7 PVLVVFTDPDCPYCKKLHKELLKDPDVQEYLKDNFVVIYVNVDDSKEVTDFDGETLSEKE 66
Query: 87 LVHTFEVKAVPA-VLAVKNGLVIDKFIGLIENEMIE 121
L + V+ P V +G + + G + E
Sbjct: 67 LARKYGVRGTPTIVFLDGDGKEVARLPGYLPPEEFL 102
>gnl|CDD|239303 cd03005, PDI_a_ERp46, PDIa family, endoplasmic reticulum protein 46
(ERp46) subfamily; ERp46 is an ER-resident protein
containing three redox active TRX domains. Yeast
complementation studies show that ERp46 can substitute
for protein disulfide isomerase (PDI) function in vivo.
It has been detected in many tissues, however,
transcript and protein levels do not correlate in all
tissues, suggesting regulation at a posttranscriptional
level. An identical protein, named endoPDI, has been
identified as an endothelial PDI that is highly
expressed in the endothelium of tumors and hypoxic
lesions. It has a protective effect on cells exposed to
hypoxia.
Length = 102
Score = 38.4 bits (90), Expect = 1e-04
Identities = 28/86 (32%), Positives = 42/86 (48%), Gaps = 6/86 (6%)
Query: 32 EQFIKHVMNNPVPVIVNFHAEWCEPCHLLTP---QL-KKMLGNSDSIDLAIIDVEKNAEL 87
+ F H+ V F A WC C L P QL KK + S+ +A +D ++ EL
Sbjct: 8 DNFDHHIAEGNH--FVKFFAPWCGHCKRLAPTWEQLAKKFNNENPSVKIAKVDCTQHREL 65
Query: 88 VHTFEVKAVPAVLAVKNGLVIDKFIG 113
F+V+ P +L K+G +DK+ G
Sbjct: 66 CSEFQVRGYPTLLLFKDGEKVDKYKG 91
>gnl|CDD|239294 cd02996, PDI_a_ERp44, PDIa family, endoplasmic reticulum protein 44
(ERp44) subfamily; ERp44 is an ER-resident protein,
induced during stress, involved in thiol-mediated ER
retention. It contains an N-terminal TRX domain, similar
to that of PDIa, with a CXFS motif followed by two redox
inactive TRX-like domains, homologous to the b and b'
domains of PDI. The CXFS motif in the N-terminal domain
allows ERp44 to form stable reversible mixed disulfides
with its substrates. Through this activity, ERp44
mediates the ER localization of Ero1alpha, a protein
that oxidizes protein disulfide isomerases into their
active form. ERp44 also prevents the secretion of
unassembled cargo protein with unpaired cysteines. It
also modulates the activity of inositol
1,4,5-triphosphate type I receptor (IP3R1), an
intracellular channel protein that mediates calcium
release from the ER to the cytosol.
Length = 108
Score = 38.5 bits (90), Expect = 1e-04
Identities = 16/83 (19%), Positives = 42/83 (50%), Gaps = 7/83 (8%)
Query: 35 IKHVMNNPVPVIVNFHAEWCEPCHLLTP-------QLKKMLGNSDSIDLAIIDVEKNAEL 87
I ++ + V+VNF+A+WC +L P ++K+ ++ + +D +K +++
Sbjct: 11 IDDILQSAELVLVNFYADWCRFSQMLHPIFEEAAAKIKEEFPDAGKVVWGKVDCDKESDI 70
Query: 88 VHTFEVKAVPAVLAVKNGLVIDK 110
+ + P + +NG+++ +
Sbjct: 71 ADRYRINKYPTLKLFRNGMMMKR 93
>gnl|CDD|239264 cd02966, TlpA_like_family, TlpA-like family; composed of TlpA,
ResA, DsbE and similar proteins. TlpA, ResA and DsbE are
bacterial protein disulfide reductases with important
roles in cytochrome maturation. They are
membrane-anchored proteins with a soluble TRX domain
containing a CXXC motif located in the periplasm. The
TRX domains of this family contain an insert,
approximately 25 residues in length, which correspond to
an extra alpha helix and a beta strand when compared
with TRX. TlpA catalyzes an essential reaction in the
biogenesis of cytochrome aa3, while ResA and DsbE are
essential proteins in cytochrome c maturation. Also
included in this family are proteins containing a
TlpA-like TRX domain with domain architectures similar
to E. coli DipZ protein, and the N-terminal TRX domain
of PilB protein from Neisseria which acts as a disulfide
reductase that can recylce methionine sulfoxide
reductases.
Length = 116
Score = 38.0 bits (89), Expect = 2e-04
Identities = 18/96 (18%), Positives = 36/96 (37%), Gaps = 26/96 (27%)
Query: 44 PVIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAII----------DVEK---------- 83
V+VNF A WC PC P+L+ + + ++ V+
Sbjct: 21 VVLVNFWASWCPPCRAEMPELEALAKEYKDDGVEVVGVNVDDDDPAAVKAFLKKYGITFP 80
Query: 84 -----NAELVHTFEVKAVPAVLAV-KNGLVIDKFIG 113
+ EL + V+ +P + ++G + + +G
Sbjct: 81 VLLDPDGELAKAYGVRGLPTTFLIDRDGRIRARHVG 116
>gnl|CDD|239296 cd02998, PDI_a_ERp38, PDIa family, endoplasmic reticulum protein 38
(ERp38) subfamily; composed of proteins similar to the
P5-like protein first isolated from alfalfa, which
contains two redox active TRX (a) domains at the
N-terminus, like human P5, and a C-terminal domain with
homology to the C-terminal domain of ERp29, unlike human
P5. The cDNA clone of this protein (named G1) was
isolated from an alfalfa cDNA library by screening with
human protein disulfide isomerase (PDI) cDNA. The G1
protein is constitutively expressed in all major organs
of the plant and its expression is induced by treatment
with tunicamycin, indicating that it may be a
glucose-regulated protein. The G1 homolog in the
eukaryotic social amoeba Dictyostelium discoideum is
also described as a P5-like protein, which is located in
the endoplasmic reticulum (ER) despite the absence of an
ER-retrieval signal. G1 homologs from Aspergillus niger
and Neurospora crassa have also been characterized, and
are named TIGA and ERp38, respectively. Also included in
the alignment is an atypical PDI from Leishmania
donovani containing a single a domain, and the
C-terminal a domain of a P5-like protein from Entamoeba
histolytica.
Length = 105
Score = 38.0 bits (89), Expect = 2e-04
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 4/75 (5%)
Query: 30 NNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTP---QLKKMLGNSDSIDLAIIDV-EKNA 85
+ F K V ++ V+V F+A WC C L P +L + N D + +A +D E N
Sbjct: 6 TDSNFDKVVGDDKKDVLVEFYAPWCGHCKNLAPEYEKLAAVFANEDDVVIAKVDADEANK 65
Query: 86 ELVHTFEVKAVPAVL 100
+L + V P +
Sbjct: 66 DLAKKYGVSGFPTLK 80
>gnl|CDD|240266 PTZ00102, PTZ00102, disulphide isomerase; Provisional.
Length = 477
Score = 39.0 bits (91), Expect = 3e-04
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 3/75 (4%)
Query: 34 FIKHVMNNPVPVIVNFHAEWCEPCHLLTP---QLKKMLGNSDSIDLAIIDVEKNAELVHT 90
F + V + V++ +A WC C L P +L + ++DSI +A ++ N +
Sbjct: 367 FEEIVFKSDKDVLLEIYAPWCGHCKNLEPVYNELGEKYKDNDSIIVAKMNGTANETPLEE 426
Query: 91 FEVKAVPAVLAVKNG 105
F A P +L VK G
Sbjct: 427 FSWSAFPTILFVKAG 441
Score = 39.0 bits (91), Expect = 3e-04
Identities = 30/104 (28%), Positives = 42/104 (40%), Gaps = 8/104 (7%)
Query: 6 FQSTLFKRCFNHFLERKFKSYIIENNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLK 65
+F HF+ ++FI N + V+V F+A WC C L P+ K
Sbjct: 17 LAFAVFGSAEEHFISEHVTVLTDSTFDKFIT---ENEI-VLVKFYAPWCGHCKRLAPEYK 72
Query: 66 K---MLGNSDS-IDLAIIDVEKNAELVHTFEVKAVPAVLAVKNG 105
K ML S I LA +D + EL F V+ P + G
Sbjct: 73 KAAKMLKEKKSEIVLASVDATEEMELAQEFGVRGYPTIKFFNKG 116
>gnl|CDD|239298 cd03000, PDI_a_TMX3, PDIa family, TMX3 subfamily; composed of
eukaryotic proteins similar to human TMX3, a TRX related
transmembrane protein containing one redox active TRX
domain at the N-terminus and a classical ER retrieval
sequence for type I transmembrane proteins at the
C-terminus. The TMX3 transcript is found in a variety of
tissues with the highest levels detected in skeletal
muscle and the heart. In vitro, TMX3 showed oxidase
activity albeit slightly lower than that of protein
disulfide isomerase.
Length = 104
Score = 36.3 bits (84), Expect = 8e-04
Identities = 17/68 (25%), Positives = 32/68 (47%), Gaps = 4/68 (5%)
Query: 46 IVNFHAEWCEPCHLLTP---QLKKMLGNSDS-IDLAIIDVEKNAELVHTFEVKAVPAVLA 101
+V+F+A WC C L P ++ L +S S + + +D + + F V+ P +
Sbjct: 19 LVDFYAPWCGHCKKLEPVWNEVGAELKSSGSPVRVGKLDATAYSSIASEFGVRGYPTIKL 78
Query: 102 VKNGLVID 109
+K L +
Sbjct: 79 LKGDLAYN 86
>gnl|CDD|239300 cd03002, PDI_a_MPD1_like, PDI family, MPD1-like subfamily;
composed of eukaryotic proteins similar to
Saccharomyces cerevisiae MPD1 protein, which contains a
single redox active TRX domain located at the
N-terminus, and an ER retention signal at the
C-terminus indicative of an ER-resident protein. MPD1
has been shown to suppress the maturation defect of
carboxypeptidase Y caused by deletion of the yeast PDI1
gene. Other characterized members of this subfamily
include the Aspergillus niger prpA protein and Giardia
PDI-1. PrpA is non-essential to strain viability,
however, its transcript level is induced by
heterologous protein expression suggesting a possible
role in oxidative protein folding during high protein
production. Giardia PDI-1 has the ability to refold
scrambled RNase and exhibits transglutaminase activity.
Length = 109
Score = 35.8 bits (83), Expect = 0.001
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 4/77 (5%)
Query: 27 IIE-NNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGNSDS-IDLAII--DVE 82
+ E + F K V N +V F+A WC C L P+ K D + +A + D +
Sbjct: 2 VYELTPKNFDKVVHNTNYTTLVEFYAPWCGHCKNLKPEYAKAAKELDGLVQVAAVDCDED 61
Query: 83 KNAELVHTFEVKAVPAV 99
KN L + V+ P +
Sbjct: 62 KNKPLCGKYGVQGFPTL 78
>gnl|CDD|185622 PTZ00443, PTZ00443, Thioredoxin domain-containing protein;
Provisional.
Length = 224
Score = 36.5 bits (84), Expect = 0.002
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 44 PVIVNFHAEWCEPCHLLTP---QLKKMLGNSDSIDLAIIDVEKNAELVHTFEVKAVPAVL 100
P V F+A WC C + P +L K L +++A +D + L F +K P +L
Sbjct: 54 PWFVKFYAPWCSHCRKMAPAWERLAKAL--KGQVNVADLDATRALNLAKRFAIKGYPTLL 111
Query: 101 AVKNG 105
G
Sbjct: 112 LFDKG 116
>gnl|CDD|226685 COG4232, COG4232, Thiol:disulfide interchange protein
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 569
Score = 37.0 bits (86), Expect = 0.002
Identities = 19/95 (20%), Positives = 32/95 (33%), Gaps = 10/95 (10%)
Query: 44 PVIVNFHAEWCEPCHLLTPQL----KKMLGNSDSIDLAIIDVEKN----AELVHTFEVKA 95
PV+++F+A+WC C + D + L DV N L+ V
Sbjct: 476 PVMLDFYADWCVTCKENEKYTFSDPQVQQALQDVVLLQ-ADVTANDPAITALLKRLGVFG 534
Query: 96 VPAVLAV-KNGLVIDKFIGLIENEMIENMVSKLLP 129
VP L G + G + + + +
Sbjct: 535 VPTYLFFGPQGSEPEILTGFLTADAFLEHLERAAR 569
>gnl|CDD|233282 TIGR01130, ER_PDI_fam, protein disulfide isomerase, eukaryotic.
This model represents eukaryotic protein disulfide
isomerases retained in the endoplasmic reticulum (ER)
and closely related forms. Some members have been
assigned alternative or additional functions such as
prolyl 4-hydroxylase and
dolichyl-diphosphooligosaccharide-protein
glycotransferase. Members of this family have at least
two protein-disulfide domains, each similar to
thioredoxin but with the redox-active disulfide in the
motif PWCGHCK, and an ER retention signal at the extreme
C-terminus (KDEL, HDEL, and similar motifs).
Length = 462
Score = 36.6 bits (85), Expect = 0.002
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 8/86 (9%)
Query: 29 ENNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKK----MLGNSDSIDLAIIDVEKN 84
+N + FIK ++ V+V F+A WC C L P+ +K + I LA +D +
Sbjct: 9 DNFDDFIK---SHEF-VLVEFYAPWCGHCKSLAPEYEKAADELKKKGPPIKLAKVDATEE 64
Query: 85 AELVHTFEVKAVPAVLAVKNGLVIDK 110
+L + V P + +NG
Sbjct: 65 KDLAQKYGVSGYPTLKIFRNGEDSVS 90
Score = 30.8 bits (70), Expect = 0.20
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 38 VMNNPVPVIVNFHAEWCEPCHLLTP---QLKKMLGNSDSIDLAIIDVEKNAELVHTFEVK 94
V++ V+V F+A WC C L P +L + +++S D+ I ++ A V FEV+
Sbjct: 360 VLDETKDVLVEFYAPWCGHCKNLAPIYEELAEKYKDAES-DVVIAKMDATANDVPPFEVE 418
Query: 95 AVPAVLAVKNG 105
P + V G
Sbjct: 419 GFPTIKFVPAG 429
>gnl|CDD|239293 cd02995, PDI_a_PDI_a'_C, PDIa family, C-terminal TRX domain (a')
subfamily; composed of the C-terminal redox active a'
domains of PDI, ERp72, ERp57 (or ERp60) and EFP1. PDI,
ERp72 and ERp57 are endoplasmic reticulum (ER)-resident
eukaryotic proteins involved in oxidative protein
folding. They are oxidases, catalyzing the formation of
disulfide bonds of newly synthesized polypeptides in the
ER. They also exhibit reductase activity in acting as
isomerases to correct any non-native disulfide bonds, as
well as chaperone activity to prevent protein
aggregation and facilitate the folding of newly
synthesized proteins. PDI and ERp57 have the abb'a'
domain structure (where a and a' are redox active TRX
domains while b and b' are redox inactive TRX-like
domains). PDI also contains an acidic region (c domain)
after the a' domain that is absent in ERp57. ERp72 has
an additional a domain at the N-terminus (a"abb'a'
domain structure). ERp57 interacts with the lectin
chaperones, calnexin and calreticulin, and specifically
promotes the oxidative folding of glycoproteins, while
PDI shows a wider substrate specificity. ERp72
associates with several ER chaperones and folding
factors to form complexes in the ER that bind nascent
proteins. EFP1 is a binding partner protein of thyroid
oxidase, which is responsible for the generation of
hydrogen peroxide, a crucial substrate of
thyroperoxidase, which functions to iodinate
thyroglobulin and synthesize thyroid hormones.
Length = 104
Score = 34.8 bits (81), Expect = 0.003
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 4/75 (5%)
Query: 34 FIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKM---LGNSDSIDLAIIDVEKNAELVHT 90
F + V+++ V+V F+A WC C L P +++ L D++ +A +D N ++
Sbjct: 10 FDEVVLDSDKDVLVEFYAPWCGHCKALAPIYEELAEKLKGDDNVVIAKMDATAN-DVPSE 68
Query: 91 FEVKAVPAVLAVKNG 105
F V P +L G
Sbjct: 69 FVVDGFPTILFFPAG 83
>gnl|CDD|239262 cd02964, TryX_like_family, Tryparedoxin (TryX)-like family;
composed of TryX and related proteins including
nucleoredoxin (NRX), rod-derived cone viability factor
(RdCVF) and the nematode homolog described as a 16-kD
class of TRX. Most members of this family, except RdCVF,
are protein disulfide oxidoreductases containing an
active site CXXC motif, similar to TRX.
Length = 132
Score = 35.3 bits (82), Expect = 0.003
Identities = 21/97 (21%), Positives = 34/97 (35%), Gaps = 32/97 (32%)
Query: 45 VIVNFHAEWCEPCHLLTPQLKKM---LGNSDSIDLAII---------------------- 79
V + F A WC PC TP+L + L + I+
Sbjct: 20 VGLYFSASWCPPCRAFTPKLVEFYEKLKEEGK-NFEIVFVSRDRSEESFNEYFSEMPPWL 78
Query: 80 -----DVEKNAELVHTFEVKAVPAVLAVK-NGLVIDK 110
D E L F+V+ +P ++ +K +G V+
Sbjct: 79 AVPFEDEELRELLEKQFKVEGIPTLVVLKPDGDVVTT 115
>gnl|CDD|239248 cd02950, TxlA, TRX-like protein A (TxlA) family; TxlA was
originally isolated from the cyanobacterium
Synechococcus. It is found only in oxygenic
photosynthetic organisms. TRX is a small enzyme that
participate in redox reactions, via the reversible
oxidation of an active site dithiol present in a CXXC
motif. Disruption of the txlA gene suggests that the
protein is involved in the redox regulation of the
structure and function of photosynthetic apparatus. The
plant homolog (designated as HCF164) is localized in the
chloroplast and is involved in the assembly of the
cytochrome b6f complex, which takes a central position
in photosynthetic electron transport.
Length = 142
Score = 35.0 bits (81), Expect = 0.004
Identities = 21/94 (22%), Positives = 44/94 (46%), Gaps = 4/94 (4%)
Query: 39 MNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGN-SDSIDLAIIDV--EKNAELVHTFEVKA 95
++N P +V F+A+WC C + P + K+ D ++ +++V K + + V
Sbjct: 17 LSNGKPTLVEFYADWCTVCQEMAPDVAKLKQKYGDQVNFVMLNVDNPKWLPEIDRYRVDG 76
Query: 96 VPA-VLAVKNGLVIDKFIGLIENEMIENMVSKLL 128
+P V + G + IGL +++ + L+
Sbjct: 77 IPHFVFLDREGNEEGQSIGLQPKQVLAQNLDALV 110
>gnl|CDD|239287 cd02989, Phd_like_TxnDC9, Phosducin (Phd)-like family, Thioredoxin
(TRX) domain containing protein 9 (TxnDC9) subfamily;
composed of predominantly uncharacterized eukaryotic
proteins, containing a TRX-like domain without the redox
active CXXC motif. The gene name for the human protein
is TxnDC9. The two characterized members are described
as Phd-like proteins, PLP1 of Saccharomyces cerevisiae
and PhLP3 of Dictyostelium discoideum. Gene disruption
experiments show that both PLP1 and PhLP3 are
non-essential proteins. Unlike Phd and most Phd-like
proteins, members of this group do not contain the Phd
N-terminal helical domain which is implicated in binding
to the G protein betagamma subunit.
Length = 113
Score = 34.1 bits (79), Expect = 0.005
Identities = 19/86 (22%), Positives = 40/86 (46%), Gaps = 1/86 (1%)
Query: 28 IENNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAIIDVEKNAEL 87
+ + ++F + V ++ V +H E+ C ++ L+ + ++ EK L
Sbjct: 9 VSDEKEFFEIVKSSERVVCHFYHPEF-FRCKIMDKHLEILAKKHLETKFIKVNAEKAPFL 67
Query: 88 VHTFEVKAVPAVLAVKNGLVIDKFIG 113
V +K +P V+ KNG +D+ +G
Sbjct: 68 VEKLNIKVLPTVILFKNGKTVDRIVG 93
>gnl|CDD|239246 cd02948, TRX_NDPK, TRX domain, TRX and NDP-kinase (NDPK) fusion
protein family; most members of this group are fusion
proteins which contain one redox active TRX domain
containing a CXXC motif and three NDPK domains, and are
characterized as intermediate chains (ICs) of axonemal
outer arm dynein. Dyneins are molecular motors that
generate force against microtubules to produce cellular
movement, and are divided into two classes: axonemal and
cytoplasmic. They are supramolecular complexes
consisting of three protein groups classified according
to size: dynein heavy, intermediate and light chains.
Axonemal dyneins form two structures, the inner and
outer arms, which are attached to doublet microtubules
throughout the cilia and flagella. The human homolog is
the sperm-specific Sptrx-2, presumed to be a component
of the human sperm axoneme architecture. Included in
this group is another human protein, TRX-like protein 2,
a smaller fusion protein containing one TRX and one NDPK
domain, which is also associated with microtubular
structures. The other members of this group are
hypothetical insect proteins containing a TRX domain and
outer arm dynein light chains (14 and 16kDa) of
Chlamydomonas reinhardtii. Using standard assays, the
fusion proteins have shown no TRX enzymatic activity.
Length = 102
Score = 33.5 bits (77), Expect = 0.007
Identities = 21/88 (23%), Positives = 40/88 (45%), Gaps = 4/88 (4%)
Query: 28 IENNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLG--NSDSIDLAIIDVEKNA 85
I N E++ + +++N +V+ + EWC PC + KK+ D + A + +
Sbjct: 4 INNQEEW-EELLSNKGLTVVDVYQEWCGPCKAVVSLFKKIKNELGDDLLHFATAEAD-TI 61
Query: 86 ELVHTFEVKAVPAVLAVKNGLVIDKFIG 113
+ + + K P L KNG ++ G
Sbjct: 62 DTLKRYRGKCEPTFLFYKNGELVAVIRG 89
>gnl|CDD|222442 pfam13899, Thioredoxin_7, Thioredoxin-like. Thioredoxins are
small enzymes that participate in redox reactions, via
the reversible oxidation of an active centre disulfide
bond.
Length = 81
Score = 33.0 bits (76), Expect = 0.009
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 6/33 (18%)
Query: 44 PVIVNFHAEWCEPCHLL------TPQLKKMLGN 70
P++V+F A+WC C L P++K +
Sbjct: 19 PLLVDFGADWCPTCQALDRDFLSDPRVKALAEK 51
>gnl|CDD|239251 cd02953, DsbDgamma, DsbD gamma family; DsbD gamma is the C-terminal
periplasmic domain of the bacterial protein DsbD. It
contains a CXXC motif in a TRX fold and shuttles the
reducing potential from the membrane domain (DsbD beta)
to the N-terminal periplasmic domain (DsbD alpha). DsbD
beta, a transmembrane domain comprising of eight
helices, acquires its reducing potential from the
cytoplasmic thioredoxin. DsbD alpha transfers the
acquired reducing potential from DsbD gamma to target
proteins such as the periplasmic protein disulphide
isomerases, DsbC and DsbG. This flow of reducing
potential from the cytoplasm through DsbD allows DsbC
and DsbG to act as isomerases in the oxidizing
environment of the bacterial periplasm. DsbD also
transfers reducing potential from the cytoplasm to
specific reductases in the periplasm which are involved
in the maturation of cytochromes.
Length = 104
Score = 33.0 bits (76), Expect = 0.011
Identities = 19/67 (28%), Positives = 26/67 (38%), Gaps = 12/67 (17%)
Query: 44 PVIVNFHAEWCEPCH------LLTPQLKKMLGNSDSIDLAIIDVEKN----AELVHTFEV 93
PV V+F A+WC C P+++ L + L D KN L+ F V
Sbjct: 13 PVFVDFTADWCVTCKVNEKVVFSDPEVQAAL--KKDVVLLRADWTKNDPEITALLKRFGV 70
Query: 94 KAVPAVL 100
P L
Sbjct: 71 FGPPTYL 77
>gnl|CDD|222448 pfam13905, Thioredoxin_8, Thioredoxin-like. Thioredoxins are
small enzymes that participate in redox reactions, via
the reversible oxidation of an active centre disulfide
bond.
Length = 94
Score = 32.7 bits (75), Expect = 0.015
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 44 PVIVNFHAEWCEPCHLLTPQLKKM 67
V++ F A WC PC TP+LK++
Sbjct: 3 VVLLYFWASWCPPCRAFTPELKEL 26
>gnl|CDD|239307 cd03009, TryX_like_TryX_NRX, Tryparedoxin (TryX)-like family,
TryX and nucleoredoxin (NRX) subfamily; TryX and NRX
are thioredoxin (TRX)-like protein disulfide
oxidoreductases that alter the redox state of target
proteins via the reversible oxidation of an active
center CXXC motif. TryX is involved in the regulation
of oxidative stress in parasitic trypanosomatids by
reducing TryX peroxidase, which in turn catalyzes the
reduction of hydrogen peroxide and organic
hydroperoxides. TryX derives reducing equivalents from
reduced trypanothione, a polyamine peptide conjugate
unique to trypanosomatids, which is regenerated by the
NADPH-dependent flavoprotein trypanothione reductase.
Vertebrate NRX is a 400-amino acid nuclear protein with
one redox active TRX domain containing a CPPC active
site motif followed by one redox inactive TRX-like
domain. Mouse NRX transcripts are expressed in all
adult tissues but is restricted to the nervous system
and limb buds in embryos. Plant NRX, longer than the
vertebrate NRX by about 100-200 amino acids, is a
nuclear protein containing a redox inactive TRX-like
domain between two redox active TRX domains. Both
vertebrate and plant NRXs show thiol oxidoreductase
activity in vitro. Their localization in the nucleus
suggests a role in the redox regulation of nuclear
proteins such as transcription factors.
Length = 131
Score = 31.5 bits (72), Expect = 0.064
Identities = 15/51 (29%), Positives = 20/51 (39%), Gaps = 15/51 (29%)
Query: 44 PVIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAIIDV-EKNAELVHTFEV 93
V + F A WC PC TP+L ++ EK E FE+
Sbjct: 20 TVGLYFSASWCPPCRAFTPKL--------------VEFYEKLKESGKNFEI 56
>gnl|CDD|239295 cd02997, PDI_a_PDIR, PDIa family, PDIR subfamily; composed of
proteins similar to human PDIR (for Protein Disulfide
Isomerase Related). PDIR is composed of three redox
active TRX (a) domains and an N-terminal redox inactive
TRX-like (b) domain. Similar to PDI, it is involved in
oxidative protein folding in the endoplasmic reticulum
(ER) through its isomerase and chaperone activities.
These activities are lower compared to PDI, probably due
to PDIR acting only on a subset of proteins. PDIR is
preferentially expressed in cells actively secreting
proteins and its expression is induced by stress.
Similar to PDI, the isomerase and chaperone activities
of PDIR are independent; CXXC mutants lacking isomerase
activity retain chaperone activity.
Length = 104
Score = 30.4 bits (69), Expect = 0.12
Identities = 25/90 (27%), Positives = 39/90 (43%), Gaps = 9/90 (10%)
Query: 29 ENNEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKK---MLGNSDSIDLAIIDVEK-- 83
E+ +F+K V+V F+A WC C + P+ K L LA +D K
Sbjct: 8 EDFRKFLK----KEKHVLVMFYAPWCGHCKKMKPEFTKAATELKEDGKGVLAAVDCTKPE 63
Query: 84 NAELVHTFEVKAVPAVLAVKNGLVIDKFIG 113
+ L + VK P +NG ++K+ G
Sbjct: 64 HDALKEEYNVKGFPTFKYFENGKFVEKYEG 93
>gnl|CDD|129481 TIGR00385, dsbE, periplasmic protein thiol:disulfide
oxidoreductases, DsbE subfamily. Involved in the
biogenesis of c-type cytochromes as well as in
disulfide bond formation in some periplasmic proteins
[Protein fate, Protein folding and stabilization].
Length = 173
Score = 30.9 bits (70), Expect = 0.13
Identities = 10/37 (27%), Positives = 16/37 (43%), Gaps = 5/37 (13%)
Query: 31 NEQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKM 67
+ + PV++N A WC PC P L ++
Sbjct: 57 ADVLTQ-----GKPVLLNVWASWCPPCRAEHPYLNEL 88
>gnl|CDD|239308 cd03010, TlpA_like_DsbE, TlpA-like family, DsbE (also known as
CcmG and CycY) subfamily; DsbE is a membrane-anchored,
periplasmic TRX-like reductase containing a CXXC motif
that specifically donates reducing equivalents to
apocytochrome c via CcmH, another cytochrome c
maturation (Ccm) factor with a redox active CXXC motif.
Assembly of cytochrome c requires the ligation of heme
to reduced thiols of the apocytochrome. In bacteria,
this assembly occurs in the periplasm. The reductase
activity of DsbE in the oxidizing environment of the
periplasm is crucial in the maturation of cytochrome c.
Length = 127
Score = 29.9 bits (68), Expect = 0.22
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 44 PVIVNFHAEWCEPCHLLTPQL 64
P ++N A WC PC P L
Sbjct: 27 PYLLNVWASWCAPCREEHPVL 47
>gnl|CDD|239283 cd02985, TRX_CDSP32, TRX family, chloroplastic drought-induced
stress protein of 32 kD (CDSP32); CDSP32 is composed of
two TRX domains, a C-terminal TRX domain which contains
a redox active CXXC motif and an N-terminal TRX-like
domain which contains an SXXS sequence instead of the
redox active motif. CDSP32 is a stress-inducible TRX,
i.e., it acts as a TRX by reducing protein disulfides
and is induced by environmental and oxidative stress
conditions. It plays a critical role in plastid defense
against oxidative damage, a role related to its function
as a physiological electron donor to BAS1, a plastidic
2-cys peroxiredoxin. Plants lacking CDSP32 exhibit
decreased photosystem II photochemical efficiencies and
chlorophyll retention compared to WT controls, as well
as an increased proportion of BAS1 in its overoxidized
monomeric form.
Length = 103
Score = 29.0 bits (65), Expect = 0.37
Identities = 16/79 (20%), Positives = 35/79 (44%), Gaps = 3/79 (3%)
Query: 45 VIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAII---DVEKNAELVHTFEVKAVPAVLA 101
V++ F + P + P + K+ + + ++ + + EL ++ VP L
Sbjct: 18 VVLEFALKHSGPSVKIYPTMVKLSRTCNDVVFLLVNGDENDSTMELCRREKIIEVPHFLF 77
Query: 102 VKNGLVIDKFIGLIENEMI 120
K+G I + G+ +E+I
Sbjct: 78 YKDGEKIHEEEGIGPDELI 96
>gnl|CDD|179545 PRK03147, PRK03147, thiol-disulfide oxidoreductase; Provisional.
Length = 173
Score = 28.8 bits (65), Expect = 0.68
Identities = 24/110 (21%), Positives = 45/110 (40%), Gaps = 25/110 (22%)
Query: 45 VIVNFHAEWCEPCHLLTPQLKKMLG------------NSDSIDLAI------------ID 80
V +NF WC+PC P + ++ N D +LA+ +
Sbjct: 64 VFLNFWGTWCKPCEKEMPYMNELYPKYKEKGVEIIAVNVDETELAVKNFVNRYGLTFPVA 123
Query: 81 VEKNAELVHTFEVKAVPA-VLAVKNGLVIDKFIGLIENEMIENMVSKLLP 129
++K +++ + V +P L K+G V+ G + E +E + K+ P
Sbjct: 124 IDKGRQVIDAYGVGPLPTTFLIDKDGKVVKVITGEMTEEQLEEYLEKIKP 173
>gnl|CDD|239290 cd02992, PDI_a_QSOX, PDIa family, Quiescin-sulfhydryl oxidase
(QSOX) subfamily; QSOX is a eukaryotic protein
containing an N-terminal redox active TRX domain,
similar to that of PDI, and a small C-terminal flavin
adenine dinucleotide (FAD)-binding domain homologous to
the yeast ERV1p protein. QSOX oxidizes thiol groups to
disulfides like PDI, however, unlike PDI, this
oxidation is accompanied by the reduction of oxygen to
hydrogen peroxide. QSOX is localized in high
concentrations in cells with heavy secretory load and
prefers peptides and proteins as substrates, not
monothiols like glutathione. Inside the cell, QSOX is
found in the endoplasmic reticulum and Golgi. The flow
of reducing equivalents in a QSOX-catalyzed reaction
goes from the dithiol substrate -> dithiol of the QSOX
TRX domain -> dithiols of the QSOX ERV1p domain -> FAD
-> oxygen.
Length = 114
Score = 28.0 bits (63), Expect = 0.75
Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 6/66 (9%)
Query: 38 VMNNPVPVIVNFHAEWCEPCHLLTPQLKKM----LGNSDSIDLAIIDV--EKNAELVHTF 91
++ +P +V F+A WC C P KK+ + +A +D E+N L F
Sbjct: 15 LLGSPSAWLVEFYASWCGHCRAFAPTWKKLARDLRKWRPVVRVAAVDCADEENVALCRDF 74
Query: 92 EVKAVP 97
V P
Sbjct: 75 GVTGYP 80
>gnl|CDD|239301 cd03003, PDI_a_ERdj5_N, PDIa family, N-terminal ERdj5 subfamily;
ERdj5, also known as JPDI and macrothioredoxin, is a
protein containing an N-terminal DnaJ domain and four
redox active TRX domains. This subfamily is comprised of
the first TRX domain of ERdj5 located after the DnaJ
domain at the N-terminal half of the protein. ERdj5 is a
ubiquitous protein localized in the endoplasmic
reticulum (ER) and is abundant in secretory cells. It's
transcription is induced during ER stress. It interacts
with BiP through its DnaJ domain in an ATP-dependent
manner. BiP, an ER-resident member of the Hsp70
chaperone family, functions in ER-associated degradation
and protein translocation.
Length = 101
Score = 27.9 bits (62), Expect = 0.77
Identities = 16/69 (23%), Positives = 32/69 (46%), Gaps = 1/69 (1%)
Query: 46 IVNFHAEWCEPCHLLTPQLKKMLGNSDS-IDLAIIDVEKNAELVHTFEVKAVPAVLAVKN 104
VNF++ C CH L P ++ D I + ++ + L + V + P++ +
Sbjct: 22 FVNFYSPRCSHCHDLAPTWREFAKEMDGVIRIGAVNCGDDRMLCRSQGVNSYPSLYVFPS 81
Query: 105 GLVIDKFIG 113
G+ +K+ G
Sbjct: 82 GMNPEKYYG 90
>gnl|CDD|239309 cd03011, TlpA_like_ScsD_MtbDsbE, TlpA-like family, suppressor for
copper sensitivity D protein (ScsD) and actinobacterial
DsbE homolog subfamily; composed of ScsD, the DsbE
homolog of Mycobacterium tuberculosis (MtbDsbE) and
similar proteins, all containing a redox-active CXXC
motif. The Salmonella typhimurium ScsD is a
thioredoxin-like protein which confers copper tolerance
to copper-sensitive mutants of E. coli. MtbDsbE has
been characterized as an oxidase in vitro, catalyzing
the disulfide bond formation of substrates like
hirudin. The reduced form of MtbDsbE is more stable
than its oxidized form, consistent with an oxidase
function. This is in contrast to the function of DsbE
from gram-negative bacteria which is a specific
reductase of apocytochrome c.
Length = 123
Score = 27.6 bits (62), Expect = 1.3
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 44 PVIVNFHAEWCEPCHLLTP 62
PV+V F A WC C +P
Sbjct: 22 PVLVYFWATWCPVCRFTSP 40
>gnl|CDD|226739 COG4289, COG4289, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 458
Score = 27.6 bits (61), Expect = 2.1
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 5/49 (10%)
Query: 48 NFHAEWCEPCHLLTPQLKKMLGN-----SDSIDLAIIDVEKNAELVHTF 91
H W EPC T + + G S DL + EK A+ ++F
Sbjct: 355 ESHPFWQEPCKSSTNPMMVIEGEDVALSSGQEDLFMRGTEKYAKFAYSF 403
>gnl|CDD|236014 PRK07418, PRK07418, acetolactate synthase 3 catalytic subunit;
Reviewed.
Length = 616
Score = 27.3 bits (61), Expect = 2.7
Identities = 18/86 (20%), Positives = 35/86 (40%), Gaps = 19/86 (22%)
Query: 3 VKQFQSTLFKRCFNH-----------FLERKF--KSYIIENNEQF---IKHVMNNPVPVI 46
V+Q+Q + + ++ L F K +I +Q I + + PV+
Sbjct: 494 VRQWQESFYGERYSASNMEPGMPDFVKLAEAFGVKGMVISERDQLKDAIAEALAHDGPVL 553
Query: 47 VNFHAEWCEPCHLLTPQLK---KMLG 69
++ H E C+ + P K +M+G
Sbjct: 554 IDVHVRRDENCYPMVPPGKSNAQMVG 579
>gnl|CDD|234496 TIGR04198, paramyx_RNAcap, mRNA capping enzyme, paramyxovirus
family. This model represents a common C-terminal
region shared by paramyxovirus-like RNA-dependent RNA
polymerases (see model pfam00946). Polymerase proteins
described by these two models are often called L protein
(large polymerase protein). Capping of mRNA requires RNA
triphosphatase and guanylyl transferase activities,
demonstrated for the rinderpest virus L protein and at
least partially localized to the region of this model.
Length = 893
Score = 27.1 bits (60), Expect = 3.5
Identities = 18/96 (18%), Positives = 29/96 (30%), Gaps = 19/96 (19%)
Query: 8 STLFKRCFNHFLERKFKSYIIENNEQFIKHVMNNPVPVIVNFHAEWCEPCHL-------L 60
++L ++ +R+F NF W P L
Sbjct: 558 NSLLDLD-DNPPQREFPPPPSALAGLGSGT------GRCDNFEDLWNGPSDLTDITTWDY 610
Query: 61 TPQLKKMLGNSDSIDLAIIDVE----KNAELVHTFE 92
+ + DS+DL D+E K+ E V F
Sbjct: 611 FNFILNQVPL-DSLDLIHCDMELTDDKDIEKVLQFS 645
>gnl|CDD|236281 PRK08517, PRK08517, DNA polymerase III subunit epsilon;
Provisional.
Length = 257
Score = 26.9 bits (60), Expect = 3.7
Identities = 13/50 (26%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 78 IIDVEKNAELVHTFEVKAVPAVLAVKNGLVIDKFIGLIENEMIENMVSKL 127
+D+E N ++ + AV VKNG +ID+F ++ + + +++L
Sbjct: 72 FVDIETNGSKPKKHQIIEIGAVK-VKNGEIIDRFESFVKAKEVPEYITEL 120
>gnl|CDD|185310 PRK15412, PRK15412, thiol:disulfide interchange protein DsbE;
Provisional.
Length = 185
Score = 26.5 bits (58), Expect = 3.8
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 22 KFKSYIIENNEQFIK-HVMNNPVPVIVNFHAEWCEPC 57
KF+ +EN QF + V+ PV++N A WC C
Sbjct: 47 KFRLESLENPGQFYQADVLTQGKPVLLNVWATWCPTC 83
>gnl|CDD|215891 pfam00387, PI-PLC-Y, Phosphatidylinositol-specific phospholipase
C, Y domain. This associates with pfam00388 to form a
single structural unit.
Length = 117
Score = 25.9 bits (58), Expect = 4.1
Identities = 10/36 (27%), Positives = 17/36 (47%), Gaps = 1/36 (2%)
Query: 2 SVKQFQSTLFKRCFNHFLERKFKSYIIENNEQFIKH 37
S + +S + F E K K + E+ +F+KH
Sbjct: 16 SFELPESKTPYHISS-FSETKAKKLLKESPAEFVKH 50
>gnl|CDD|239276 cd02978, KaiB_like, KaiB-like family; composed of the circadian
clock proteins, KaiB and the N-terminal KaiB-like
sensory domain of SasA. KaiB is an essential protein in
maintaining circadian rhythm. It was originally
discovered from the cyanobacterium Synechococcus as
part of the circadian clock gene cluster, kaiABC. KaiB
attenuates KaiA-enhanced KaiC autokinase activity by
interacting with KaiA-KaiC complexes in a circadian
fashion. KaiB is membrane-associated as well as
cytosolic. The amount of membrane-associated protein
peaks in the evening (at circadian time (CT) 12-16)
while the cytosolic form peaks later (at CT 20). The
rhythmic localization of KaiB may function in
regulating the formation of Kai complexes. SasA is a
sensory histidine kinase which associates with KaiC.
Although it is not an essential oscillator component,
it is important in enhancing kaiABC expression and is
important in metabolic growth control under day/night
cycle conditions. SasA contains an N-terminal sensory
domain with a TRX fold which is involved in the
SasA-KaiC interaction. This domain shows high sequence
similarity with KaiB. However, the KaiB structure does
not show a classical TRX fold. The N-terminal half of
KaiB shares the same beta-alpha-beta topology as TRX,
but the topology of its C-terminal half diverges.
Length = 72
Score = 25.2 bits (56), Expect = 4.5
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 72 DSIDLAIIDVEKNAELVHTFEVKAVPA 98
+L +IDV K +L ++ A P
Sbjct: 32 GPYELEVIDVLKQPQLAEEDKIVATPT 58
>gnl|CDD|236478 PRK09356, PRK09356, imidazolonepropionase; Validated.
Length = 406
Score = 25.9 bits (58), Expect = 7.1
Identities = 16/34 (47%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 75 DLAIIDVEKNAELVHTFEVKAVPAVLAVKNGLVI 108
DL I D AEL + F V V V VKNG V+
Sbjct: 373 DLVIWDAPSPAELPYHFGVNPVETV--VKNGEVV 404
>gnl|CDD|215481 PLN02889, PLN02889, oxo-acid-lyase/anthranilate synthase.
Length = 918
Score = 26.0 bits (57), Expect = 7.6
Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 32 EQFIKHVMNNPVPVIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAIIDVEKN 84
EQ+IK V + I + E E C LT Q++K +G DS+ L + EKN
Sbjct: 644 EQYIKDV-QKCLKYIKD--GESYELC--LTTQMRKRIGEIDSLGLYLHLREKN 691
>gnl|CDD|181342 PRK08271, PRK08271, anaerobic ribonucleoside triphosphate
reductase; Provisional.
Length = 623
Score = 26.1 bits (58), Expect = 8.4
Identities = 9/35 (25%), Positives = 18/35 (51%), Gaps = 7/35 (20%)
Query: 15 FNHFLERKFK-SYI------IENNEQFIKHVMNNP 42
F++F + + Y+ IEN+ Q + + +N P
Sbjct: 181 FDYFARKDYGDDYLPTHRKEIENHLQIVVYSLNQP 215
>gnl|CDD|219589 pfam07808, RED_N, RED-like protein N-terminal region. This family
contains sequences that are similar to the N-terminal
region of Red protein. This and related proteins contain
a RED repeat which consists of a number of RE and RD
sequence elements. The region in question has several
conserved NLS sequences and a putative trimeric
coiled-coil region, suggesting that these proteins are
expressed in the nucleus. The function of Red protein is
unknown, but efficient sequestration to nuclear bodies
suggests that its expression may be tightly regulated of
that the protein self-aggregates extremely efficiently.
Length = 238
Score = 25.6 bits (56), Expect = 8.7
Identities = 13/39 (33%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 2 SVKQFQSTLFKRCFNHFLERKFKSYIIENNEQFIKHVMN 40
S F++ L K F F + +S I NNE F M
Sbjct: 137 SKITFKTELGKNIFKQF--QLQESQKIINNELFAPGRMA 173
>gnl|CDD|239656 cd03684, ClC_3_like, ClC-3-like chloride channel proteins. This CD
includes ClC-3, ClC-4, ClC-5 and ClC-Y1. ClC-3 was
initially cloned from rat kidney. Expression of ClC-3
produces outwardly-rectifying Cl currents that are
inhibited by protein kinase C activation. It has been
suggested that ClC-3 may be a ubiquitous
swelling-activated Cl channel that has very similar
characteristics to those of native volume-regulated Cl
currents. The function of ClC-4 is unclear. Studies of
human ClC-4 have revealed that it gives rise to Cl
currents that rapidly activate at positive voltages, and
are sensitive to extracellular pH, with currents
decreasing when pH falls below 6.5. ClC-4 is broadly
distributed, especially in brain and heart. ClC-5 is
predominantly expressed in the kidney, but can be found
in the brain and liver. Mutations in the ClC-5 gene
cause certain hereditary diseases, including Dent's
disease, an X-chromosome linked syndrome characterised
by proteinuria, hypercalciuria, and kidney stones
(nephrolithiasis), leading to progressive renal failure.
These proteins belong to the ClC superfamily of
chloride ion channels, which share the unique
double-barreled architecture and voltage-dependent
gating mechanism. The gating is conferred by the
permeating anion itself, acting as the gating charge.
This domain is found in the eukaryotic halogen ion (Cl-
and I-) channel proteins, that perform a variety of
functions including cell volume regulation, the membrane
potential stabilization, transepithelial chloride
transport and charge compensation necessary for the
acidification of intracellular organelles.
Length = 445
Score = 25.6 bits (57), Expect = 8.7
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 11/52 (21%)
Query: 89 HTFEVKAVPAVLAVKNGLVIDKFIGLIENEMIE------NMVSKLLPKDKTN 134
T +K+V VLAV +GL + K E ++ N++S+L PK + N
Sbjct: 77 WTLLIKSVGLVLAVASGLSLGK-----EGPLVHIATCVGNIISRLFPKYRRN 123
>gnl|CDD|116303 pfam07689, KaiB, KaiB domain. The cyanobacterial clock proteins
KaiA and KaiB are proposed as regulators of the
circadian rhythm in cyanobacteria. Mutations in both
proteins have been reported to alter or abolish
circadian rhythmicity. KaiB adopts an alpha-beta
meander motif and is found to be a dimer.
Length = 82
Score = 24.6 bits (54), Expect = 9.2
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 72 DSIDLAIIDVEKNAELVHTFEVKAVPA 98
+L +IDV + EL + A P
Sbjct: 28 FPYELQVIDVLEQPELAEEDRLVATPT 54
>gnl|CDD|184456 PRK14018, PRK14018, trifunctional thioredoxin/methionine sulfoxide
reductase A/B protein; Provisional.
Length = 521
Score = 25.6 bits (56), Expect = 9.5
Identities = 18/108 (16%), Positives = 30/108 (27%), Gaps = 31/108 (28%)
Query: 44 PVIVNFHAEWCEPCHLLTPQLKKMLGNSDSIDLAIIDV-------EKNA----------- 85
P ++ F A WC C + +K ++ +I V EK
Sbjct: 58 PTLIKFWASWCPLCLSELGETEKWAQDAKFSSANLITVASPGFLHEKKDGDFQKWYAGLD 117
Query: 86 ------------ELVHTFEVKAVPA-VLAVKNGLVIDKFIGLIENEMI 120
L + + P+ + K+G V G I
Sbjct: 118 YPKLPVLTDNGGTLAQSLNISVYPSWAIIGKDGDVQRIVKGSISEAQA 165
>gnl|CDD|237904 PRK15080, PRK15080, ethanolamine utilization protein EutJ;
Provisional.
Length = 267
Score = 25.6 bits (57), Expect = 9.8
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 3/29 (10%)
Query: 86 ELVHTF-EVKAVPAVLAVKNGLVIDKFIG 113
E+ H E A AVL + NG V+D IG
Sbjct: 117 EVTHVLDEPTAAAAVLGIDNGAVVD--IG 143
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 0.404
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,808,312
Number of extensions: 610736
Number of successful extensions: 679
Number of sequences better than 10.0: 1
Number of HSP's gapped: 660
Number of HSP's successfully gapped: 83
Length of query: 135
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 48
Effective length of database: 7,078,804
Effective search space: 339782592
Effective search space used: 339782592
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: 53 (24.2 bits)