RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy3452
(116 letters)
>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 = 83.8 bits (208), Expect = 2e-22
Identities = 28/56 (50%), Positives = 38/56 (67%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPTF 60
+ FY+P CG+CK PEY K A+ LK + KV +A +DCT + LC EY ++GYPT
Sbjct: 20 VEFYAPWCGHCKALAPEYEKLAKELKGDGKVVVAKVDCTANNDLCSEYGVRGYPTI 75
>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 = 83.5 bits (207), Expect = 3e-22
Identities = 33/60 (55%), Positives = 46/60 (76%), Gaps = 2/60 (3%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCT--EHGPLCKEYDIKGYPTFHH 62
++FY+P CG+CKK KPE+ KAA LK++ K LAA+DCT EH L +EY++KG+PTF +
Sbjct: 22 VMFYAPWCGHCKKMKPEFTKAATELKEDGKGVLAAVDCTKPEHDALKEEYNVKGFPTFKY 81
>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 = 82.8 bits (205), Expect = 7e-20
Identities = 26/54 (48%), Positives = 34/54 (62%), Gaps = 1/54 (1%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLK-DNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
FY+P CG+CK PEY KAA+ LK + LA +D TE L ++Y + GYPT
Sbjct: 25 FYAPWCGHCKSLAPEYEKAADELKKKGPPIKLAKVDATEEKDLAQKYGVSGYPT 78
Score = 50.8 bits (122), Expect = 1e-08
Identities = 20/56 (35%), Positives = 32/56 (57%), Gaps = 3/56 (5%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKD-NHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+ FY+P CG+CK P Y + AE KD V +A +D T + ++++G+PT
Sbjct: 369 VEFYAPWCGHCKNLAPIYEELAEKYKDAESDVVIAKMDATAND--VPPFEVEGFPT 422
>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 = 73.9 bits (182), Expect = 1e-18
Identities = 22/55 (40%), Positives = 32/55 (58%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+ FY+P CG+CK PEY K A+ LK + + LA +D T L + + G+PT
Sbjct: 18 VEFYAPWCGHCKNLAPEYEKLAKELKKDPDIVLAKVDATAEKDLASRFGVSGFPT 72
>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 = 71.1 bits (175), Expect = 2e-17
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPTFH 61
+ FY+P CG CK PEY K A+ KD+ V A +D E+ L EY ++G+PT
Sbjct: 23 VDFYAPWCGPCKALAPEYEKLAQEYKDD--VKFAKVDADENPDLASEYGVRGFPTIK 77
>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 = 70.4 bits (173), Expect = 4e-17
Identities = 23/55 (41%), Positives = 35/55 (63%), Gaps = 2/55 (3%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+ FY+P CG+CK PE+ KAA+ LK V + A+D H L ++Y ++G+PT
Sbjct: 23 VEFYAPWCGHCKNLAPEWKKAAKALKG--IVKVGAVDADVHQSLAQQYGVRGFPT 75
>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 = 65.8 bits (161), Expect = 2e-15
Identities = 28/55 (50%), Positives = 39/55 (70%), Gaps = 4/55 (7%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTE--HGPLCKEYDIKGYPT 59
FY+P CG+CK KPEY KAA+ L + V +AA+DC E + PLC +Y ++G+PT
Sbjct: 25 FYAPWCGHCKNLKPEYAKAAKEL--DGLVQVAAVDCDEDKNKPLCGKYGVQGFPT 77
>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 = 65.0 bits (159), Expect = 5e-15
Identities = 23/54 (42%), Positives = 32/54 (59%), Gaps = 1/54 (1%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTE-HGPLCKEYDIKGYPT 59
FY+P CG+CK PEY K A V + V +A +D E + L K+Y + G+PT
Sbjct: 25 FYAPWCGHCKNLAPEYEKLAAVFANEDDVVIAKVDADEANKDLAKKYGVSGFPT 78
>gnl|CDD|240266 PTZ00102, PTZ00102, disulphide isomerase; Provisional.
Length = 477
Score = 61.3 bits (149), Expect = 3e-12
Identities = 26/56 (46%), Positives = 41/56 (73%), Gaps = 1/56 (1%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKD-NHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+ FY+P CG+CK+ PEY KAA++LK+ ++ LA++D TE L +E+ ++GYPT
Sbjct: 54 VKFYAPWCGHCKRLAPEYKKAAKMLKEKKSEIVLASVDATEEMELAQEFGVRGYPT 109
Score = 45.9 bits (109), Expect = 6e-07
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+ Y+P CG+CK +P Y + E KDN + +A ++ T + +E+ +PT
Sbjct: 380 LEIYAPWCGHCKNLEPVYNELGEKYKDNDSIIVAKMNGTANETPLEEFSWSAFPT 434
>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 = 57.3 bits (139), Expect = 4e-12
Identities = 22/56 (39%), Positives = 37/56 (66%), Gaps = 1/56 (1%)
Query: 5 ILFYSPGCGYCKKAKPEYVK-AAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+ F++P CG+CK+ P + + A + +N V +A +DCT+H LC E+ ++GYPT
Sbjct: 21 VKFFAPWCGHCKRLAPTWEQLAKKFNNENPSVKIAKVDCTQHRELCSEFQVRGYPT 76
>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 = 55.8 bits (135), Expect = 2e-11
Identities = 23/53 (43%), Positives = 34/53 (64%), Gaps = 2/53 (3%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
FY+P CG C+ PE KAA LK KV + ++DC ++ LC++ +I+ YPT
Sbjct: 26 FYAPWCGPCQALLPELRKAARALK--GKVKVGSVDCQKYESLCQQANIRAYPT 76
>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 = 52.6 bits (127), Expect = 3e-10
Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 5/57 (8%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCT--EHGPLCKEYDIKGYPT 59
+ FY+P CG+CK P Y + AE LK + V +A +D T + E+ + G+PT
Sbjct: 23 VEFYAPWCGHCKALAPIYEELAEKLKGDDNVVIAKMDATANDVPS---EFVVDGFPT 76
>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 = 52.5 bits (126), Expect = 3e-10
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKD-NHKVALAAIDCTEHGPLCKEYDIKGYPT 59
FY+P CG+CKK +P + + LK V + +D T + + E+ ++GYPT
Sbjct: 22 FYAPWCGHCKKLEPVWNEVGAELKSSGSPVRVGKLDATAYSSIASEFGVRGYPT 75
>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 = 51.0 bits (123), Expect = 8e-10
Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 3/59 (5%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPTFHHL 63
+ F++P CG CK P E+ ++ KV +D E+ L +EY ++ PTF
Sbjct: 15 VDFWAPWCGPCKAIAPVL---EELAEEYPKVKFVKVDVDENPELAEEYGVRSIPTFLFF 70
>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 = 48.8 bits (117), Expect = 1e-08
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHK-VALAAIDCT--EHGPLCKEYDIKGYPTF 60
FY+ CG+C+ P + K A L+ V +AA+DC E+ LC+++ + GYPT
Sbjct: 26 FYASWCGHCRAFAPTWKKLARDLRKWRPVVRVAAVDCADEENVALCRDFGVTGYPTL 82
>gnl|CDD|185622 PTZ00443, PTZ00443, Thioredoxin domain-containing protein;
Provisional.
Length = 224
Score = 46.9 bits (111), Expect = 2e-07
Identities = 22/54 (40%), Positives = 32/54 (59%), Gaps = 2/54 (3%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPTF 60
FY+P C +C+K P + + A+ LK +V +A +D T L K + IKGYPT
Sbjct: 59 FYAPWCSHCRKMAPAWERLAKALKG--QVNVADLDATRALNLAKRFAIKGYPTL 110
>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 = 42.7 bits (100), Expect = 9e-07
Identities = 20/59 (33%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLC---KEYDIKGYPTF 60
+LFY+P C +C+ +P AE+ N V A+D E L K Y + G PT
Sbjct: 2 VLFYAPWCPFCQALRPV---LAELALLNKGVKFEAVDVDEDPALEKELKRYGVGGVPTL 57
>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 = 40.1 bits (94), Expect = 2e-05
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLK----DNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
FY+ C + + P + +AA +K D KV +DC + + Y I YPT
Sbjct: 25 FYADWCRFSQMLHPIFEEAAAKIKEEFPDAGKVVWGKVDCDKESDIADRYRINKYPT 81
Score = 27.7 bits (62), Expect = 0.79
Identities = 8/32 (25%), Positives = 14/32 (43%)
Query: 71 RLALAAIDCTEHGPLCKEYDIKGYPTFQYFHY 102
++ +DC + + Y I YPT + F
Sbjct: 56 KVVWGKVDCDKESDIADRYRINKYPTLKLFRN 87
>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 = 39.4 bits (92), Expect = 3e-05
Identities = 14/53 (26%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
FYSP C +C P + + A+ + ++ A++C + LC+ + YP+
Sbjct: 25 FYSPRCSHCHDLAPTWREFAKEMDGVIRIG--AVNCGDDRMLCRSQGVNSYPS 75
>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 = 37.0 bits (86), Expect = 2e-04
Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPTFHH 62
I FY+P C C++ +PE+ + A+ D+ + +A +D T+ L + + PT +H
Sbjct: 21 IEFYAPWCPACQQLQPEWEEFADW-SDDLGINVAKVDVTQEPGLSGRFFVTALPTIYH 77
>gnl|CDD|221921 pfam13098, Thioredoxin_2, Thioredoxin-like domain.
Length = 105
Score = 35.9 bits (83), Expect = 9e-04
Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 14/70 (20%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKD-NHKVALAAIDCTEHGPLC-------------K 50
++F P C YCKK E +K +V + + ++ + + +
Sbjct: 10 VVFTDPDCPYCKKLHKELLKDPDVQEYLKDNFVVIYVNVDDSKEVTDFDGETLSEKELAR 69
Query: 51 EYDIKGYPTF 60
+Y ++G PT
Sbjct: 70 KYGVRGTPTI 79
>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 = 33.5 bits (77), Expect = 0.005
Identities = 20/94 (21%), Positives = 34/94 (36%), Gaps = 15/94 (15%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYP-TFHHL 63
+ F++ C C+ PE + E LK KV + + K+Y +K P + ++
Sbjct: 6 LYFWASWCPPCRAFTPELKELYEKLKKP-KVEIVYVSLDRDEEEWKKY-LKKMPKDWLNV 63
Query: 64 ALTIMIIRLALAAIDCTEHGPLCKEYDIKGYPTF 97
E L + Y +K PT
Sbjct: 64 PF------------GDKERNELLRLYGVKAIPTL 85
>gnl|CDD|223600 COG0526, TrxA, Thiol-disulfide isomerase and thioredoxins
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 127
Score = 33.7 bits (76), Expect = 0.007
Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 5/59 (8%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGP-LCKEY--DIKGYPTF 60
+ F++P C C+ P + AE V + A++ + P L E+ ++ PT
Sbjct: 37 VDFWAPWCPPCRAEAPLLEELAEEYGG--DVEVVAVNVDDENPDLAAEFGVAVRSIPTL 93
>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 = 33.0 bits (76), Expect = 0.008
Identities = 15/53 (28%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
F++P CG CK P + A+ KV ++ E+ + +Y I+ PT
Sbjct: 21 FWAPWCGPCKMIAPILEELAKEY--EGKVKFVKLNVDENPDIAAKYGIRSIPT 71
>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 = 32.5 bits (74), Expect = 0.013
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+L+ SP CG C+ KP K + + V ID E + + I G PT
Sbjct: 18 VLYTSPTCGPCRTLKPILNKVIDEF--DGAVHFVEIDIDEDQEIAEAAGIMGTPT 70
>gnl|CDD|131782 TIGR02735, purC_vibrio,
phosphoribosylaminoimidazole-succinocarboxamide
synthase, Vibrio type. Members of this protein family
appear to represent a novel form of
phosphoribosylaminoimidazole-succinocarboxamide
synthase (SAICAR synthetase), significantly different
in sequence and gap pattern from a form (see TIGR00081)
shared by a broad range of bacteria and eukaryotes.
Members of this family are found within the
gammaproteobacteria in the genera Vibrio, Shewanella,
and Colwellia, and also (reported as a fragment) in the
primitive eukarote Guillardia theta [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 365
Score = 33.3 bits (76), Expect = 0.014
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 55 KGYPTFHHLALTIMIIRLALAAIDCTEHGPLCKEYDIKGYP 95
KGYP H L IM+I ++A DC H E + G P
Sbjct: 44 KGYPVAHDAPLAIMVISDRISAFDCIWHA----EGGLNGVP 80
>gnl|CDD|173347 PTZ00051, PTZ00051, thioredoxin; Provisional.
Length = 98
Score = 32.2 bits (73), Expect = 0.015
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPTF 60
FY+ CG CK+ P Y E K+ K+ +D E + ++ +I PTF
Sbjct: 25 FYAEWCGPCKRIAPFY---EECSKEYTKMVFVKVDVDELSEVAEKENITSMPTF 75
>gnl|CDD|225660 COG3118, COG3118, Thioredoxin domain-containing protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 304
Score = 32.3 bits (74), Expect = 0.030
Identities = 15/55 (27%), Positives = 27/55 (49%), Gaps = 2/55 (3%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+ F++P CG CK+ P K A + K LA ++C + ++ ++ PT
Sbjct: 48 VDFWAPWCGPCKQLTPTLEKLAA--EYKGKFKLAKVNCDAEPMVAAQFGVQSIPT 100
>gnl|CDD|239271 cd02973, TRX_GRX_like, Thioredoxin (TRX)-Glutaredoxin (GRX)-like
family; composed of archaeal and bacterial proteins
that show similarity to both TRX and GRX, including the
C-terminal TRX-fold subdomain of Pyrococcus furiosus
protein disulfide oxidoreductase (PfPDO). All members
contain a redox-active CXXC motif and may function as
PDOs. The archaeal proteins Mj0307 and Mt807 show
structures more similar to GRX, but activities more
similar to TRX. Some members of the family are similar
to PfPDO in that they contain a second CXXC motif
located in a second TRX-fold subdomain at the
N-terminus; the superimposable N- and C-terminal TRX
subdomains form a compact structure. PfPDO is
postulated to be the archaeal counterpart of bacterial
DsbA and eukaryotic protein disulfide isomerase (PDI).
The C-terminal CXXC motif of PfPDO is required for its
oxidase, reductase and isomerase activities. Also
included in the family is the C-terminal TRX-fold
subdomain of the N-terminal domain (NTD) of bacterial
AhpF, which has a similar fold as PfPDO with two
TRX-fold subdomains but without the second CXXC motif.
Length = 67
Score = 30.6 bits (70), Expect = 0.030
Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 6 LFYSPGCGYCKKAKPEYVKAA-EVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+F SP C YC P+ V+AA + N ++ ID E L EY + P
Sbjct: 5 VFVSPTCPYC----PDAVQAANRIAALNPNISAEMIDAAEFPDLADEYGVMSVPA 55
>gnl|CDD|215931 pfam00462, Glutaredoxin, Glutaredoxin.
Length = 60
Score = 29.8 bits (68), Expect = 0.058
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 8/41 (19%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEH 45
+LF P C +CK+AK +L D+ V ID E
Sbjct: 2 VLFTKPTCPFCKRAK-------RLL-DSLGVKFEEIDVDED 34
>gnl|CDD|239270 cd02972, DsbA_family, DsbA family; consists of DsbA and DsbA-like
proteins, including DsbC, DsbG, glutathione (GSH)
S-transferase kappa (GSTK),
2-hydroxychromene-2-carboxylate (HCCA) isomerase, an
oxidoreductase (FrnE) presumed to be involved in
frenolicin biosynthesis, a 27-kDa outer membrane
protein, and similar proteins. Members of this family
contain a redox active CXXC motif (except GSTK and HCCA
isomerase) imbedded in a TRX fold, and an alpha helical
insert of about 75 residues (shorter in DsbC and DsbG)
relative to TRX. DsbA is involved in the oxidative
protein folding pathway in prokaryotes, catalyzing
disulfide bond formation of proteins secreted into the
bacterial periplasm. DsbC and DsbG function as protein
disulfide isomerases and chaperones to correct
non-native disulfide bonds formed by DsbA and prevent
aggregation of incorrectly folded proteins.
Length = 98
Score = 30.5 bits (69), Expect = 0.076
Identities = 9/31 (29%), Positives = 13/31 (41%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKV 35
+ F+ P C YC +PE K +V
Sbjct: 2 VEFFDPLCPYCYLFEPELEKLLYADDGGVRV 32
>gnl|CDD|235920 PRK07054, PRK07054, salicylate biosynthesis isochorismate synthase;
Validated.
Length = 475
Score = 31.3 bits (71), Expect = 0.078
Identities = 12/37 (32%), Positives = 16/37 (43%), Gaps = 3/37 (8%)
Query: 30 KDNHKVALAAIDCTEHG--PLCKEYDIKGYPTFHHLA 64
KD + AL +D PL + DI P+ H L
Sbjct: 304 KDRLEHALV-VDAIRAALAPLSRALDIPDQPSLHRLP 339
>gnl|CDD|239017 cd02066, GRX_family, Glutaredoxin (GRX) family; composed of GRX,
approximately 10 kDa in size, and proteins containing a
GRX or GRX-like domain. GRX is a glutathione (GSH)
dependent reductase, catalyzing the disulfide reduction
of target proteins such as ribonucleotide reductase. It
contains a redox active CXXC motif in a TRX fold and
uses a similar dithiol mechanism employed by TRXs for
intramolecular disulfide bond reduction of protein
substrates. Unlike TRX, GRX has preference for mixed
GSH disulfide substrates, in which it uses a monothiol
mechanism where only the N-terminal cysteine is
required. The flow of reducing equivalents in the GRX
system goes from NADPH -> GSH reductase -> GSH -> GRX
-> protein substrates. By altering the redox state of
target proteins, GRX is involved in many cellular
functions including DNA synthesis, signal transduction
and the defense against oxidative stress. Different
classes are known including human GRX1 and GRX2, as
well as E. coli GRX1 and GRX3, which are members of
this family. E. coli GRX2, however, is a 24-kDa protein
that belongs to the GSH S-transferase (GST) family.
Length = 72
Score = 29.7 bits (68), Expect = 0.087
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 9/57 (15%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKE-YDIKGYPTF 60
++F C YCK+AK +L ++ + ID E G L +E ++ G+PT
Sbjct: 3 VVFSKSTCPYCKRAK-------RLL-ESLGIEFEEIDILEDGELREELKELSGWPTV 51
>gnl|CDD|129505 TIGR00411, redox_disulf_1, small redox-active disulfide protein
1. This protein is homologous to a family of proteins
that includes thioredoxins, glutaredoxins,
protein-disulfide isomerases, and others, some of which
have several such domains. The sequence of this protein
at the redox-active disufide site, CPYC, matches
glutaredoxins rather than thioredoxins, although its
overall sequence seems closer to thioredoxins. It is
suggested to be a ribonucleotide-reducing system
component distinct from thioredoxin or glutaredoxin
[Unknown function, General].
Length = 82
Score = 29.9 bits (67), Expect = 0.11
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 6 LFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
LF SP C YC AK + A+ + D V + I+ E+ EY I P
Sbjct: 5 LFTSPTCPYCPAAKRVVEEVAKEMGD--AVEVEYINVMENPQKAMEYGIMAVPA 56
>gnl|CDD|239321 cd03023, DsbA_Com1_like, DsbA family, Com1-like subfamily;
composed of proteins similar to Com1, a 27-kDa outer
membrane-associated immunoreactive protein originally
found in both acute and chronic disease strains of the
pathogenic bacteria Coxiella burnetti. It contains a
CXXC motif, assumed to be imbedded in a DsbA-like
structure. Its homology to DsbA suggests that the
protein is a protein disulfide oxidoreductase. The role
of such a protein in pathogenesis is unknown.
Length = 154
Score = 30.6 bits (70), Expect = 0.11
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVAL 37
F+ CGYCKK PE K +LK++ V +
Sbjct: 12 FFDYNCGYCKKLAPELEK---LLKEDPDVRV 39
>gnl|CDD|184420 PRK13960, PRK13960,
phosphoribosylaminoimidazole-succinocarboxamide
synthase; Provisional.
Length = 367
Score = 30.4 bits (69), Expect = 0.16
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 4/41 (9%)
Query: 55 KGYPTFHHLALTIMIIRLALAAIDCTEHGPLCKEYDIKGYP 95
KGY L IM+I ++A DC HG E + G P
Sbjct: 45 KGYNVPADAPLAIMVISDRISAFDCIWHG----EGGLNGVP 81
>gnl|CDD|239249 cd02951, SoxW, SoxW family; SoxW is a bacterial periplasmic TRX,
containing a redox active CXXC motif, encoded by a
genetic locus (sox operon) involved in thiosulfate
oxidation. Sulfur bacteria oxidize sulfur compounds to
provide reducing equivalents for carbon dioxide
fixation during autotrophic growth and the respiratory
electron transport chain. It is unclear what the role
of SoxW is, since it has been found to be dispensable
in the oxidation of thiosulfate to sulfate. SoxW is
specifically kept in the reduced state by SoxV, which
is essential in thiosulfate oxidation.
Length = 125
Score = 29.6 bits (67), Expect = 0.20
Identities = 18/70 (25%), Positives = 28/70 (40%), Gaps = 14/70 (20%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEV---LKDNHKVALAAID-----------CTEHGPLCK 50
+LF PGC YC K K +Y+ V ++ + V ID L +
Sbjct: 19 LLFSQPGCPYCDKLKRDYLNDPAVQAYIRAHFVVVYINIDGDKEVTDFDGEALSEKELAR 78
Query: 51 EYDIKGYPTF 60
+Y ++ PT
Sbjct: 79 KYRVRFTPTV 88
>gnl|CDD|233495 TIGR01617, arsC_related, transcriptional regulator, Spx/MgsR
family. This model represents a portion of the
proteins within the larger set covered by pfam03960.
That larger family includes a glutaredoxin-dependent
arsenate reductase (TIGR00014). Characterized members
of this family include Spx and MgsR from Bacillus
subtili. Spx is a global regulator for response to
thiol-specific oxidative stress. It interacts with RNA
polymerase. MgsR (modulator of the general stress
response, also called YqgZ) provides a second level of
regulation for more than a third of the proteins in the
B. subtilis general stress regulon controlled by
Sigma-B [Regulatory functions, DNA interactions].
Length = 117
Score = 28.9 bits (65), Expect = 0.35
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 8/42 (19%)
Query: 6 LFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGP 47
++ SP C CKKA+ + + + ID E GP
Sbjct: 3 VYGSPNCTTCKKARRWL--------EANGIEYQFIDIGEDGP 36
>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 = 27.6 bits (62), Expect = 0.62
Identities = 11/55 (20%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
+ F++P K+ P + AE + + LA ++C + +++ ++ PT
Sbjct: 17 VDFWAPRSPPSKELLPLLERLAE--EYQGQFVLAKVNCDAQPQIAQQFGVQALPT 69
>gnl|CDD|239304 cd03006, PDI_a_EFP1_N, PDIa family, N-terminal EFP1 subfamily;
EFP1 is a binding partner protein of thyroid oxidase
(ThOX), also called Duox. ThOX proteins are responsible
for the generation of hydrogen peroxide, a crucial
substrate of thyroperoxidase, which functions to
iodinate thyroglobulin and synthesize thyroid hormones.
EFP1 was isolated through a yeast two-hybrid method
using the EF-hand fragment of dog Duox1 as a bait. It
could be one of the partners in the assembly of a
multiprotein complex constituting the thyroid hydrogen
peroxide generating system. EFP1 contains two TRX
domains related to the redox active TRX domains of
protein disulfide isomerase (PDI). This subfamily is
composed of the N-terminal TRX domain of EFP1, which
contains a CXXS sequence in place of the typical CXXC
motif, similar to ERp44. The CXXS motif allows the
formation of stable mixed disulfides, crucial for the
ER-retention function of ERp44.
Length = 113
Score = 28.2 bits (63), Expect = 0.63
Identities = 11/38 (28%), Positives = 22/38 (57%), Gaps = 2/38 (5%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDC 42
+++Y+P + A+ E+ + A+ L D +V AI+C
Sbjct: 34 VMYYAPWDAQSQAARQEFEQVAQKLSD--QVLFVAINC 69
>gnl|CDD|239334 cd03036, ArsC_like, Arsenate Reductase (ArsC) family, unknown
subfamily; uncharacterized proteins containing a CXXC
motif with similarity to thioredoxin (TRX)-fold arsenic
reductases, ArsC. Proteins containing a redox active
CXXC motif like TRX and glutaredoxin (GRX) function as
protein disulfide oxidoreductases, altering the redox
state of target proteins via the reversible oxidation
of the active site dithiol. ArsC catalyzes the
reduction of arsenate [As(V)] to arsenite [As(III)],
using reducing equivalents derived from glutathione via
GRX, through a single catalytic cysteine.
Length = 111
Score = 27.6 bits (62), Expect = 0.83
Identities = 16/44 (36%), Positives = 18/44 (40%), Gaps = 9/44 (20%)
Query: 5 ILFYS-PGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGP 47
+ FY P C C+KAK D H V AID E P
Sbjct: 1 LKFYEYPKCSTCRKAKKWL--------DEHGVDYTAIDIVEEPP 36
>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 = 27.0 bits (60), Expect = 0.89
Identities = 14/54 (25%), Positives = 23/54 (42%), Gaps = 4/54 (7%)
Query: 6 LFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPT 59
++ +P C CKKAK EY+ + + + V D + K +G P
Sbjct: 4 VYTTPWCPPCKKAK-EYLTSKGIAFEEIDVEK---DSAAREEVLKVLGQRGVPV 53
>gnl|CDD|239327 cd03029, GRX_hybridPRX5, Glutaredoxin (GRX) family, PRX5 hybrid
subfamily; composed of hybrid proteins containing
peroxiredoxin (PRX) and GRX domains, which is found in
some pathogenic bacteria and cyanobacteria. PRXs are
thiol-specific antioxidant (TSA) proteins that confer a
protective antioxidant role in cells through their
peroxidase activity in which hydrogen peroxide,
peroxynitrate, and organic hydroperoxides are reduced
and detoxified using reducing equivalents derived from
either thioredoxin, glutathione, trypanothione and
AhpF. GRX is a glutathione (GSH) dependent reductase,
catalyzing the disulfide reduction of target proteins.
PRX-GRX hybrid proteins from Haemophilus influenza and
Neisseria meningitis exhibit GSH-dependent peroxidase
activity. The flow of reducing equivalents in the
catalytic cycle of the hybrid protein goes from NADPH
-> GSH reductase -> GSH -> GRX domain of hybrid -> PRX
domain of hybrid -> peroxide substrate.
Length = 72
Score = 26.7 bits (59), Expect = 1.3
Identities = 10/27 (37%), Positives = 14/27 (51%), Gaps = 7/27 (25%)
Query: 6 LFYSPGCGYCKKAKPEYVKAAEVLKDN 32
LF PGC +C +AK L++N
Sbjct: 5 LFTKPGCPFCARAK-------AALQEN 24
>gnl|CDD|181812 PRK09381, trxA, thioredoxin; Provisional.
Length = 109
Score = 27.3 bits (60), Expect = 1.3
Identities = 14/54 (25%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPTF 60
F++ CG CK P + A+ + K+ +A ++ ++ +Y I+G PT
Sbjct: 28 FWAEWCGPCKMIAPILDEIADEYQG--KLTVAKLNIDQNPGTAPKYGIRGIPTL 79
>gnl|CDD|239291 cd02993, PDI_a_APS_reductase, PDIa family, 5'-Adenylylsulfate
(APS) reductase subfamily; composed of plant-type APS
reductases containing a C-terminal redox active TRX
domain and an N-terminal reductase domain which is part
of a superfamily that includes N type ATP PPases. APS
reductase catalyzes the reduction of activated sulfate
to sulfite, a key step in the biosynthesis of
sulfur-containing metabolites. Sulfate is first
activated by ATP sulfurylase, forming APS, which can be
phosphorylated to 3'-phosphoadenosine-5'-phosphosulfate
(PAPS). Depending on the organism, either APS or PAPS
can be used for sulfate reduction. Prokaryotes and
fungi use PAPS, whereas plants use both APS and PAPS.
Since plant-type APS reductase uses glutathione (GSH)
as its electron donor, the C-terminal domain may
function like glutaredoxin, a GSH-dependent member of
the TRX superfamily. The flow of reducing equivalents
goes from GSH -> C-terminal TRX domain -> N-terminal
reductase domain -> APS. Plant-type APS reductase shows
no homology to that of dissimilatory sulfate-reducing
bacteria, which is an iron-sulfur flavoenzyme. Also
included in the alignment is EYE2 from Chlamydomonas
reinhardtii, a protein required for eyespot assembly.
Length = 109
Score = 27.0 bits (60), Expect = 1.4
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDC-TEHGPLCKE-YDIKGYPT 59
++ Y+P C +C+ + Y + AE L V +A + E KE +K +PT
Sbjct: 26 VVLYAPWCPFCQAMEASYEELAEKLA-GSNVKVAKFNADGEQREFAKEELQLKSFPT 81
>gnl|CDD|179316 PRK01655, spxA, transcriptional regulator Spx; Reviewed.
Length = 131
Score = 27.0 bits (60), Expect = 2.0
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 6 LFYSPGCGYCKKAK 19
LF SP C C+KAK
Sbjct: 4 LFTSPSCTSCRKAK 17
>gnl|CDD|239265 cd02967, mauD, Methylamine utilization (mau) D family; mauD
protein is the translation product of the mauD gene
found in methylotrophic bacteria, which are able to use
methylamine as a sole carbon source and a nitrogen
source. mauD is an essential accessory protein for the
biosynthesis of methylamine dehydrogenase (MADH), the
enzyme that catalyzes the oxidation of methylamine and
other primary amines. MADH possesses an alpha2beta2
subunit structure; the alpha subunit is also referred
to as the large subunit. Each beta (small) subunit
contains a tryptophan tryptophylquinone (TTQ)
prosthetic group. Accessory proteins are essential for
the proper transport of MADH to the periplasm, TTQ
synthesis and the formation of several structural
disulfide bonds. Bacterial mutants containing an
insertion on the mauD gene were unable to grow on
methylamine as a sole carbon source, were found to lack
the MADH small subunit and had decreased amounts of the
MADH large subunit.
Length = 114
Score = 26.6 bits (59), Expect = 2.1
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAI-DCTEHGPLCKEYDIKGYPT 59
+ F SP C CKK P A D V LA+ + EH K++ ++ +P
Sbjct: 26 LFFLSPTCPVCKKLLPVIRSIARAEADWLDVVLASDGEKAEHQRFLKKHGLEAFPY 81
>gnl|CDD|183036 PRK11200, grxA, glutaredoxin 1; Provisional.
Length = 85
Score = 26.1 bits (58), Expect = 2.2
Identities = 11/19 (57%), Positives = 12/19 (63%), Gaps = 1/19 (5%)
Query: 1 MFYSILFYSPGCGYCKKAK 19
MF I F PGC YC +AK
Sbjct: 1 MFVVI-FGRPGCPYCVRAK 18
>gnl|CDD|145928 pfam03040, CemA, CemA family. Members of this family are probable
integral membrane proteins. Their molecular function is
unknown. CemA proteins are found in the inner envelope
membrane of chloroplasts but not in the thylakoid
membrane. A cyanobacterial member of this family has
been implicated in CO2 transport, but is probably not a
CO2 transporter itself. They are predicted to be
haem-binding however this has not been proven
experimentally.
Length = 230
Score = 26.7 bits (60), Expect = 2.3
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 5/22 (22%)
Query: 97 FQY--FHYFNKQSPS---PYHN 113
F+Y F Y N+ SPS YH+
Sbjct: 206 FKYWIFRYLNRISPSLVATYHS 227
>gnl|CDD|223767 COG0695, GrxC, Glutaredoxin and related proteins
[Posttranslational modification, protein turnover,
chaperones].
Length = 80
Score = 26.1 bits (58), Expect = 2.4
Identities = 9/17 (52%), Positives = 13/17 (76%), Gaps = 1/17 (5%)
Query: 4 SILFYS-PGCGYCKKAK 19
++ Y+ PGC YCK+AK
Sbjct: 2 NVTIYTKPGCPYCKRAK 18
>gnl|CDD|239330 cd03032, ArsC_Spx, Arsenate Reductase (ArsC) family, Spx
subfamily; Spx is a unique RNA polymerase
(RNAP)-binding protein present in bacilli and some
mollicutes. It inhibits transcription by binding to the
C-terminal domain of the alpha subunit of RNAP,
disrupting complex formation between RNAP and certain
transcriptional activator proteins like ResD and ComA.
In response to oxidative stress, Spx can also activate
transcription, making it a general regulator that
exerts both positive and negative control over
transcription initiation. Spx has been shown to exert
redox-sensitive transcriptional control over genes like
trxA (TRX) and trxB (TRX reductase), genes that
function in thiol homeostasis. This redox-sensitive
activity is dependent on the presence of a CXXC motif,
present in some members of the Spx subfamily, that acts
as a thiol/disulfide switch. Spx has also been shown to
repress genes in a sulfate-dependent manner independent
of the presence of the CXXC motif.
Length = 115
Score = 26.1 bits (58), Expect = 2.8
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 5 ILFYSPGCGYCKKAK 19
L+ SP C C+KAK
Sbjct: 3 KLYTSPSCSSCRKAK 17
>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 = 25.6 bits (57), Expect = 3.0
Identities = 6/15 (40%), Positives = 8/15 (53%)
Query: 5 ILFYSPGCGYCKKAK 19
++ P C YCK K
Sbjct: 3 TVYTKPDCPYCKATK 17
>gnl|CDD|131245 TIGR02190, GlrX-dom, Glutaredoxin-family domain. This C-terminal
domain with homology to glutaredoxin is fused to an
N-terminal peroxiredoxin-like domain.
Length = 79
Score = 25.2 bits (55), Expect = 4.3
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 7/28 (25%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDN 32
++F PGC +C KAK LK+
Sbjct: 11 VVFTKPGCPFCAKAK-------ATLKEK 31
>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 = 25.8 bits (57), Expect = 4.4
Identities = 13/54 (24%), Positives = 22/54 (40%)
Query: 7 FYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPTF 60
FY+ C C++ P+ K + D + +D + P Y + G P F
Sbjct: 27 FYADWCTVCQEMAPDVAKLKQKYGDQVNFVMLNVDNPKWLPEIDRYRVDGIPHF 80
>gnl|CDD|232970 TIGR00424, APS_reduc, 5'-adenylylsulfate reductase,
thioredoxin-independent. This enzyme, involved in the
assimilation of inorganic sulfate, is closely related to
the thioredoxin-dependent PAPS reductase of Bacteria
(CysH) and Saccharomyces cerevisiae. However, it has its
own C-terminal thioredoxin-like domain and is not
thioredoxin-dependent. Also, it has a substrate
preference for 5'-adenylylsulfate (APS) over
3'-phosphoadenylylsulfate (PAPS) so the pathway does not
require an APS kinase (CysC) to convert APS to PAPS.
Arabidopsis thaliana appears to have three isozymes, all
able to complement E. coli CysH mutants (even in
backgrounds lacking thioredoxin or APS kinase) but
likely localized to different compartments in
Arabidopsis [Central intermediary metabolism, Sulfur
metabolism].
Length = 463
Score = 26.1 bits (57), Expect = 4.4
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 1/56 (1%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNH-KVALAAIDCTEHGPLCKEYDIKGYPT 59
++ Y+P C +C+ + Y++ AE L + KVA D + +E + +PT
Sbjct: 376 VVLYAPWCPFCQAMEASYLELAEKLAGSGVKVAKFRADGDQKEFAKQELQLGSFPT 431
>gnl|CDD|214345 CHL00043, cemA, envelope membrane protein.
Length = 261
Score = 25.9 bits (58), Expect = 5.8
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 5/22 (22%)
Query: 97 FQY--FHYFNKQSPS---PYHN 113
F+Y F Y N+ SPS YH+
Sbjct: 237 FKYWIFRYLNRVSPSLVVIYHS 258
>gnl|CDD|239275 cd02977, ArsC_family, Arsenate Reductase (ArsC) family; composed
of TRX-fold arsenic reductases and similar proteins
including the transcriptional regulator, Spx. ArsC
catalyzes the reduction of arsenate [As(V)] to arsenite
[As(III)], using reducing equivalents derived from
glutathione (GSH) via glutaredoxin (GRX), through a
single catalytic cysteine. This family of predominantly
bacterial enzymes is unrelated to two other families of
arsenate reductases which show similarity to
low-molecular-weight acid phosphatases and
phosphotyrosyl phosphatases. Spx is a general regulator
that exerts negative and positive control over
transcription initiation by binding to the C-terminal
domain of the alpha subunit of RNA polymerase.
Length = 105
Score = 25.1 bits (56), Expect = 6.6
Identities = 8/43 (18%), Positives = 17/43 (39%), Gaps = 8/43 (18%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGP 47
++ +P C +KA +++ H + ID + P
Sbjct: 2 TIYGNPNCSTSRKAL-AWLEE-------HGIEYEFIDYLKEPP 36
>gnl|CDD|218740 pfam05768, DUF836, Glutaredoxin-like domain (DUF836). These
proteins are related to the pfam00462 family.
Length = 76
Score = 24.5 bits (54), Expect = 7.0
Identities = 13/49 (26%), Positives = 17/49 (34%), Gaps = 4/49 (8%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYD 53
L+ PGC C+ AK L+ L ID + L Y
Sbjct: 3 TLYGKPGCHLCEGAKE----VLAELEAALGFDLERIDIDDDEELFARYG 47
>gnl|CDD|183262 PRK11657, dsbG, disulfide isomerase/thiol-disulfide oxidase;
Provisional.
Length = 251
Score = 25.7 bits (57), Expect = 7.0
Identities = 10/27 (37%), Positives = 16/27 (59%), Gaps = 5/27 (18%)
Query: 6 LFYSPGCGYCKK----AKPEYVKAAEV 28
+F P C YCK+ A+P +V + +V
Sbjct: 123 VFADPNCPYCKQFWQQARP-WVDSGKV 148
>gnl|CDD|131238 TIGR02183, GRXA, Glutaredoxin, GrxA family. Glutaredoxins are
thioltransferases (disulfide reductases) which utilize
glutathione and NADPH as cofactors. Oxidized
glutathione is regenerated by glutathione reductase.
Together these components compose the glutathione
system. Glutaredoxins utilize the CXXC motif common to
thioredoxins and are involved in multiple cellular
processes including protection from redox stress,
reduction of critical enzymes such as ribonucleotide
reductase and the generation of reduced sulfur for iron
sulfur cluster formation. Glutaredoxins are capable of
reduction of mixed disulfides of glutathione as well as
the formation of glutathione mixed disulfides. This
model includes the E. coli glyutaredoxin GrxA which
appears to have primary responsibility for the
reduction of ribonucleotide reductase.
Length = 86
Score = 24.8 bits (54), Expect = 8.2
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 3 YSILFYSPGCGYCKKAKPEYVKAAEVLKD 31
+ ++F PGC YC +AK K A D
Sbjct: 1 FVVIFGRPGCPYCVRAKQLAEKLAIERAD 29
>gnl|CDD|205417 pfam13237, Fer4_10, 4Fe-4S dicluster domain. This family
includes proteins containing domains which bind to
iron-sulfur clusters. Members include bacterial
ferredoxins, various dehydrogenases, and various
reductases. The structure of the domain is an
alpha-antiparallel beta sandwich.
Length = 51
Score = 23.9 bits (51), Expect = 8.9
Identities = 11/36 (30%), Positives = 14/36 (38%)
Query: 11 GCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHG 46
GCG C A P V A + + V + C G
Sbjct: 9 GCGRCVAACPARVGAGAIRDEGGAVEIDPDRCIGCG 44
>gnl|CDD|152844 pfam12410, rpo30_N, Poxvirus DNA dependent RNA polymerase 30kDa
subunit. This family of proteins is found in viruses.
Proteins in this family are typically between 193 and
259 amino acids in length. The family is found in
association with pfam01096. There are two conserved
sequence motifs: GIEYSKD and LRY. This family is N
terminal of the 30 kDa subunit of poxvirus
DNA-d-RNA-pol. It has structural similarity to the
eukaryotic transcriptional elongation factor SII.
Length = 136
Score = 25.0 bits (55), Expect = 9.0
Identities = 14/36 (38%), Positives = 17/36 (47%), Gaps = 3/36 (8%)
Query: 69 IIRLALAAIDCTEHGPLCKEYDIKGYPTFQYFHYFN 104
I+R L I C + G EYDI + Y YFN
Sbjct: 97 ILRYLLFGIKCVKKG---VEYDIDKLRDYDYDEYFN 129
>gnl|CDD|233765 TIGR02180, GRX_euk, Glutaredoxin. Glutaredoxins are
thioltransferases (disulfide reductases) which utilize
glutathione and NADPH as cofactors. Oxidized
glutathione is regenerated by glutathione reductase.
Together these components compose the glutathione
system. Glutaredoxins utilize the CXXC motif common to
thioredoxins and are involved in multiple cellular
processes including protection from redox stress,
reduction of critical enzymes such as ribonucleotide
reductase and the generation of reduced sulfur for iron
sulfur cluster formation. Glutaredoxins are capable of
reduction of mixed disulfides of glutathione as well as
the formation of glutathione mixed disulfides. This
model represents eukaryotic glutaredoxins and includes
sequences from fungi, plants and metazoans as well as
viruses.
Length = 84
Score = 24.5 bits (54), Expect = 9.0
Identities = 12/44 (27%), Positives = 19/44 (43%), Gaps = 8/44 (18%)
Query: 5 ILFYSPGCGYCKKAKPEYVKAAEVLKDNH-KVALAAIDCTEHGP 47
++F C YCKKAK E+L + K A ++ +
Sbjct: 2 VVFSKSYCPYCKKAK-------EILAKLNVKPAYEVVELDQLSN 38
>gnl|CDD|107366 cd06371, PBP1_sensory_GC_DEF_like, Ligand-binding domain of
membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that
are specifically expressed in sensory tissues. This
group includes the ligand-binding domain of membrane
guanylyl cyclases (GC-D, GC-E, and GC-F) that are
specifically expressed in sensory tissues. They share a
similar topology with an N-terminal extracellular
ligand-binding domain, a single transmembrane domain,
and a C-terminal cytosolic region that contains
kinase-like and catalytic domains. GC-D is specifically
expressed in a subpopulation of olfactory sensory
neurons. GC-E and GC-F are colocalized within the same
photoreceptor cells of the retina and have important
roles in phototransduction. Unlike the other family
members, GC-E and GC-F have no known extracellular
ligands. Instead, they are activated under low calcium
conditions by guanylyl cyclase activating proteins
called GCAPs. GC-D expressing neurons have been
implicated in pheromone detection and GC-D is
phylogenetically more similar to the Ca2+-regulated GC-E
and GC-F than to receptor GC-A, -B and -C which are
activated by peptide ligands. Moreover, these olfactory
GCs and retinal GCs share characteristic sequence
similarity in a regulatory domain that is involved in
the binding of GCAPs, suggesting GC-D activity may be
regulated by an unknown extracellular ligand and
intracellular Ca2+. Rodent GC-D-expressing neurons have
been implicated in pheromone detection and were recently
shown to respond to atmospheric CO2 which is an
olfactory stimulus for many invertebrates and regulates
some insect innate behavior, such as the location of
food and hosts.
Length = 382
Score = 25.3 bits (56), Expect = 9.8
Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 4/50 (8%)
Query: 11 GCGYCKKAKPEYVKAAEVLKDNHKVALAAIDCTEHGPLCKEYDIKGYPTF 60
+ P Y +AA +L AL + C + + D++ YPTF
Sbjct: 67 ASAFVGPVNPGYCEAAALLAKEWDKALFSWGCVNY----ELDDVRSYPTF 112
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.324 0.141 0.464
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: 5,971,972
Number of extensions: 496359
Number of successful extensions: 704
Number of sequences better than 10.0: 1
Number of HSP's gapped: 683
Number of HSP's successfully gapped: 99
Length of query: 116
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 37
Effective length of database: 7,433,636
Effective search space: 275044532
Effective search space used: 275044532
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 53 (24.2 bits)