RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9104
(128 letters)
>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 = 145 bits (368), Expect = 8e-43
Identities = 53/89 (59%), Positives = 60/89 (67%), Gaps = 1/89 (1%)
Query: 33 SSVLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVD 92
VL L +F+ I HE LV FYAPWCGHCK L PEYEKAA ++K PPI KVD
Sbjct: 1 EDVLVLTKDNFDDFIKSHEFVLVEFYAPWCGHCKSLAPEYEKAADELKKKGPPIKLAKVD 60
Query: 93 CTEAGKETCNKHGVSGYPTLKIFRNGQVS 121
TE K+ K+GVSGYPTLKIFRNG+ S
Sbjct: 61 ATEE-KDLAQKYGVSGYPTLKIFRNGEDS 88
Score = 70.5 bits (173), Expect = 2e-15
Identities = 34/92 (36%), Positives = 44/92 (47%), Gaps = 10/92 (10%)
Query: 31 DESSVLDLGDSDFEAVINQHE-TALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFV 89
DE V L +F+ ++ LV FYAPWCGHCK L P YE+ A K A+ +
Sbjct: 344 DEGPVKVLVGKNFDEIVLDETKDVLVEFYAPWCGHCKNLAPIYEELAEKYKDAESDVVIA 403
Query: 90 KVDCTEAGKETCNKH---GVSGYPTLKIFRNG 118
K+D T N V G+PT+K G
Sbjct: 404 KMDATA------NDVPPFEVEGFPTIKFVPAG 429
>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 = 122 bits (309), Expect = 1e-37
Identities = 41/83 (49%), Positives = 57/83 (68%), Gaps = 2/83 (2%)
Query: 36 LDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTE 95
++L D +F+ ++ + LV FYAPWCGHCK L PEYEK A ++KG D + KVDCT
Sbjct: 1 VELTDDNFDELVKDSKDVLVEFYAPWCGHCKALAPEYEKLAKELKG-DGKVVVAKVDCTA 59
Query: 96 AGKETCNKHGVSGYPTLKIFRNG 118
+ C+++GV GYPT+K+F NG
Sbjct: 60 -NNDLCSEYGVRGYPTIKLFPNG 81
>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 = 117 bits (296), Expect = 1e-35
Identities = 42/86 (48%), Positives = 54/86 (62%), Gaps = 2/86 (2%)
Query: 34 SVLDLGDSDFEAVINQ-HETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVD 92
+V++L DS+F+ V+ + LV FYAPWCGHCK L PEYEK A + + KVD
Sbjct: 1 NVVELTDSNFDKVVGDDKKDVLVEFYAPWCGHCKNLAPEYEKLAAVFA-NEDDVVIAKVD 59
Query: 93 CTEAGKETCNKHGVSGYPTLKIFRNG 118
EA K+ K+GVSG+PTLK F G
Sbjct: 60 ADEANKDLAKKYGVSGFPTLKFFPKG 85
>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 = 111 bits (280), Expect = 4e-33
Identities = 40/82 (48%), Positives = 54/82 (65%), Gaps = 2/82 (2%)
Query: 38 LGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAG 97
L S+F+ ++ ++ LV FYAPWCGHCK L PEYEK A ++K DP I KVD T
Sbjct: 1 LTASNFDEIVLSNKDVLVEFYAPWCGHCKNLAPEYEKLAKELKK-DPDIVLAKVDATAE- 58
Query: 98 KETCNKHGVSGYPTLKIFRNGQ 119
K+ ++ GVSG+PT+K F G+
Sbjct: 59 KDLASRFGVSGFPTIKFFPKGK 80
>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 = 110 bits (276), Expect = 1e-32
Identities = 40/87 (45%), Positives = 53/87 (60%), Gaps = 2/87 (2%)
Query: 34 SVLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDC 93
V+ L D DF + + + LVMFYAPWCGHCKK+KPE+ KAAT++K D VDC
Sbjct: 1 DVVHLTDEDFRKFLKKEKHVLVMFYAPWCGHCKKMKPEFTKAATELK-EDGKGVLAAVDC 59
Query: 94 TEAGKETCNKHG-VSGYPTLKIFRNGQ 119
T+ + + V G+PT K F NG+
Sbjct: 60 TKPEHDALKEEYNVKGFPTFKYFENGK 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 = 107 bits (269), Expect = 2e-31
Identities = 45/95 (47%), Positives = 56/95 (58%), Gaps = 5/95 (5%)
Query: 35 VLDLGDSDFEAVI-NQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDC 93
V +L +F+ V+ N + T LV FYAPWCGHCK LKPEY KAA K D + VDC
Sbjct: 2 VYELTPKNFDKVVHNTNYTTLVEFYAPWCGHCKNLKPEYAKAA---KELDGLVQVAAVDC 58
Query: 94 TEA-GKETCNKHGVSGYPTLKIFRNGQVSKAKKTE 127
E K C K+GV G+PTLK+FR + + E
Sbjct: 59 DEDKNKPLCGKYGVQGFPTLKVFRPPKKASKHAVE 93
>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 = 104 bits (261), Expect = 3e-30
Identities = 37/90 (41%), Positives = 52/90 (57%), Gaps = 5/90 (5%)
Query: 34 SVLDLGDSDFEAVINQ-HETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVD 92
V L D +F+ + + + LV FYAPWCG CK L PEYEK A + K + F KVD
Sbjct: 1 VVKVLTDENFDEEVAKSDKPVLVDFYAPWCGPCKALAPEYEKLAQEYKD---DVKFAKVD 57
Query: 93 CTEAGKETCNKHGVSGYPTLKIFRNGQVSK 122
E + +++GV G+PT+K F+NG+
Sbjct: 58 ADEN-PDLASEYGVRGFPTIKFFKNGKKVS 86
>gnl|CDD|240266 PTZ00102, PTZ00102, disulphide isomerase; Provisional.
Length = 477
Score = 104 bits (260), Expect = 3e-27
Identities = 45/108 (41%), Positives = 54/108 (50%), Gaps = 2/108 (1%)
Query: 11 LCSLIRSNLMLVLGFALVSCDESSVLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKP 70
LI + E V L DS F+ I ++E LV FYAPWCGHCK+L P
Sbjct: 11 FLLLILLAFAVFGSAEEHFISEH-VTVLTDSTFDKFITENEIVLVKFYAPWCGHCKRLAP 69
Query: 71 EYEKAATDVKGADPPISFVKVDCTEAGKETCNKHGVSGYPTLKIFRNG 118
EY+KAA +K I VD TE E + GV GYPT+K F G
Sbjct: 70 EYKKAAKMLKEKKSEIVLASVDATE-EMELAQEFGVRGYPTIKFFNKG 116
Score = 50.1 bits (120), Expect = 3e-08
Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 2/80 (2%)
Query: 39 GDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGK 98
G++ E V + L+ YAPWCGHCK L+P Y + K D I K++ T A +
Sbjct: 364 GNTFEEIVFKSDKDVLLEIYAPWCGHCKNLEPVYNELGEKYKDND-SIIVAKMNGT-ANE 421
Query: 99 ETCNKHGVSGYPTLKIFRNG 118
+ S +PT+ + G
Sbjct: 422 TPLEEFSWSAFPTILFVKAG 441
>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 = 96.2 bits (240), Expect = 4e-27
Identities = 35/85 (41%), Positives = 52/85 (61%), Gaps = 2/85 (2%)
Query: 35 VLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCT 94
VL+L + +F+ I V F+APWCGHCK+L P +E+ A +P + KVDCT
Sbjct: 2 VLELTEDNFDHHI-AEGNHFVKFFAPWCGHCKRLAPTWEQLAKKFNNENPSVKIAKVDCT 60
Query: 95 EAGKETCNKHGVSGYPTLKIFRNGQ 119
+E C++ V GYPTL +F++G+
Sbjct: 61 -QHRELCSEFQVRGYPTLLLFKDGE 84
>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 = 92.0 bits (229), Expect = 2e-25
Identities = 38/88 (43%), Positives = 55/88 (62%), Gaps = 5/88 (5%)
Query: 35 VLDLGDSDFEA-VINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDC 93
V++L DS+F+ V+N + LV FYAPWCGHCK L PE++KAA +KG + VD
Sbjct: 2 VVELTDSNFDKKVLNSDDVWLVEFYAPWCGHCKNLAPEWKKAAKALKGI---VKVGAVDA 58
Query: 94 TEAGKETCNKHGVSGYPTLKIFRNGQVS 121
+ ++GV G+PT+K+F G+ S
Sbjct: 59 D-VHQSLAQQYGVRGFPTIKVFGAGKNS 85
>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 = 89.7 bits (223), Expect = 1e-24
Identities = 37/91 (40%), Positives = 50/91 (54%), Gaps = 6/91 (6%)
Query: 33 SSVLDLGDSDF-EAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKV 91
SV+ L DF E V+N+ E LV FYAPWCG C+ L PE KAA +KG + V
Sbjct: 1 PSVITLTPEDFPELVLNRKEPWLVDFYAPWCGPCQALLPELRKAARALKGK---VKVGSV 57
Query: 92 DCTEAGKETCNKHGVSGYPTLKIFRNGQVSK 122
DC + C + + YPT++++ G SK
Sbjct: 58 DCQ-KYESLCQQANIRAYPTIRLY-PGNASK 86
>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 = 84.1 bits (209), Expect = 2e-22
Identities = 29/80 (36%), Positives = 43/80 (53%), Gaps = 5/80 (6%)
Query: 41 SDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKET 100
+FE +I + +V F+APWCG CK + P E+ A + P + FVKVD + E
Sbjct: 1 EEFEELIKSAKPVVVDFWAPWCGPCKAIAPVLEELAEE----YPKVKFVKVD-VDENPEL 55
Query: 101 CNKHGVSGYPTLKIFRNGQV 120
++GV PT F+NG+
Sbjct: 56 AEEYGVRSIPTFLFFKNGKE 75
>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 = 77.5 bits (191), Expect = 8e-20
Identities = 34/86 (39%), Positives = 51/86 (59%), Gaps = 3/86 (3%)
Query: 35 VLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCT 94
VLDL DS + + + + LV FYAPWCGHCKKL+P + + ++K + P+ K+D T
Sbjct: 2 VLDLDDSFKD--VRKEDIWLVDFYAPWCGHCKKLEPVWNEVGAELKSSGSPVRVGKLDAT 59
Query: 95 EAGKETCNKHGVSGYPTLKIFRNGQV 120
A ++ GV GYPT+K+ +
Sbjct: 60 -AYSSIASEFGVRGYPTIKLLKGDLA 84
>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 = 72.7 bits (179), Expect = 9e-18
Identities = 33/101 (32%), Positives = 46/101 (45%), Gaps = 7/101 (6%)
Query: 34 SVLDLGDSDFEAVI-NQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVD 92
V+ L + F + + LV FYA WCGHC+ P ++K A D++ P + VD
Sbjct: 2 PVIVLDAASFNSALLGSPSAWLVEFYASWCGHCRAFAPTWKKLARDLRKWRPVVRVAAVD 61
Query: 93 CT-EAGKETCNKHGVSGYPTLKIF-----RNGQVSKAKKTE 127
C E C GV+GYPTL+ F K + E
Sbjct: 62 CADEENVALCRDFGVTGYPTLRYFPPFSKEATDGLKQEGPE 102
>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 = 69.1 bits (170), Expect = 2e-16
Identities = 32/81 (39%), Positives = 41/81 (50%), Gaps = 11/81 (13%)
Query: 46 VINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCNKH- 104
V++ + LV FYAPWCGHCK L P YE+ A +KG D + K+D T N
Sbjct: 14 VLDSDKDVLVEFYAPWCGHCKALAPIYEELAEKLKGDDNVV-IAKMDATA------NDVP 66
Query: 105 ---GVSGYPTLKIFRNGQVSK 122
V G+PT+ F G S
Sbjct: 67 SEFVVDGFPTILFFPAGDKSN 87
>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 = 69.0 bits (169), Expect = 2e-16
Identities = 32/94 (34%), Positives = 53/94 (56%), Gaps = 6/94 (6%)
Query: 33 SSVLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADP---PISFV 89
S ++ L + + ++ E LV FYA WC + L P +E+AA +K P + +
Sbjct: 1 SEIVSLTSGNIDDILQSAELVLVNFYADWCRFSQMLHPIFEEAAAKIKEEFPDAGKVVWG 60
Query: 90 KVDC-TEAGKETCNKHGVSGYPTLKIFRNGQVSK 122
KVDC E+ + +++ ++ YPTLK+FRNG + K
Sbjct: 61 KVDCDKES--DIADRYRINKYPTLKLFRNGMMMK 92
>gnl|CDD|173347 PTZ00051, PTZ00051, thioredoxin; Provisional.
Length = 98
Score = 67.2 bits (164), Expect = 8e-16
Identities = 31/80 (38%), Positives = 48/80 (60%), Gaps = 5/80 (6%)
Query: 41 SDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKET 100
++FE+ ++Q+E +V FYA WCG CK++ P YE+ + + + FVKVD E E
Sbjct: 9 AEFESTLSQNELVIVDFYAEWCGPCKRIAPFYEECSKEY----TKMVFVKVDVDEL-SEV 63
Query: 101 CNKHGVSGYPTLKIFRNGQV 120
K ++ PT K+F+NG V
Sbjct: 64 AEKENITSMPTFKVFKNGSV 83
>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 = 65.8 bits (161), Expect = 3e-15
Identities = 28/82 (34%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 40 DSDFEAVINQHET-ALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGK 98
D++F+ I + LV F+APWCG CK + P E+ A + +G + FVK++ +
Sbjct: 3 DANFDETIASSDKPVLVDFWAPWCGPCKMIAPILEELAKEYEGK---VKFVKLN-VDENP 58
Query: 99 ETCNKHGVSGYPTLKIFRNGQV 120
+ K+G+ PTL +F+NG+
Sbjct: 59 DIAAKYGIRSIPTLLLFKNGKE 80
>gnl|CDD|185622 PTZ00443, PTZ00443, Thioredoxin domain-containing protein;
Provisional.
Length = 224
Score = 64.3 bits (156), Expect = 1e-13
Identities = 31/102 (30%), Positives = 53/102 (51%), Gaps = 9/102 (8%)
Query: 31 DESSVLDLGDSDFEAVINQHETA-----LVMFYAPWCGHCKKLKPEYEKAATDVKGADPP 85
D ++++ L D +FE + A V FYAPWC HC+K+ P +E+ A +KG
Sbjct: 28 DANALVLLNDKNFEKLTQASTGATTGPWFVKFYAPWCSHCRKMAPAWERLAKALKGQ--- 84
Query: 86 ISFVKVDCTEAGKETCNKHGVSGYPTLKIFRNGQVSKAKKTE 127
++ +D T A + + GYPTL +F G++ + + +
Sbjct: 85 VNVADLDATRA-LNLAKRFAIKGYPTLLLFDKGKMYQYEGGD 125
>gnl|CDD|223600 COG0526, TrxA, Thiol-disulfide isomerase and thioredoxins
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 127
Score = 58.8 bits (141), Expect = 3e-12
Identities = 26/108 (24%), Positives = 46/108 (42%), Gaps = 6/108 (5%)
Query: 20 MLVLGFALVSCDESSVL-DLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATD 78
M +L F L ++ +L + + + LV F+APWC C+ P E+ A +
Sbjct: 1 MALLSFLLGELATAASFEELDGAPLSLSELKGKPVLVDFWAPWCPPCRAEAPLLEELAEE 60
Query: 79 VKGADPPISFVKVDCTEAGKETCNKHG--VSGYPTLKIFRNGQVSKAK 124
G + V V+ + + + G V PTL +F++G+
Sbjct: 61 YGG---DVEVVAVNVDDENPDLAAEFGVAVRSIPTLLLFKDGKEVDRL 105
>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 = 57.9 bits (140), Expect = 4e-12
Identities = 28/84 (33%), Positives = 44/84 (52%), Gaps = 4/84 (4%)
Query: 35 VLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCT 94
++ L DF+A +N E V FY+P C HC L P + + A ++ G I V+C
Sbjct: 3 IVTLDRGDFDAAVNSGEIWFVNFYSPRCSHCHDLAPTWREFAKEMDGV---IRIGAVNCG 59
Query: 95 EAGKETCNKHGVSGYPTLKIFRNG 118
+ + C GV+ YP+L +F +G
Sbjct: 60 D-DRMLCRSQGVNSYPSLYVFPSG 82
>gnl|CDD|225660 COG3118, COG3118, Thioredoxin domain-containing protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 304
Score = 60.5 bits (147), Expect = 7e-12
Identities = 32/90 (35%), Positives = 47/90 (52%), Gaps = 7/90 (7%)
Query: 33 SSVLDLGDSDFEAVINQHETA---LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFV 89
+ D+ +++FE + Q LV F+APWCG CK+L P EK A + KG
Sbjct: 23 PGIKDVTEANFEQEVIQSSREVPVLVDFWAPWCGPCKQLTPTLEKLAAEYKGK---FKLA 79
Query: 90 KVDCTEAGKETCNKHGVSGYPTLKIFRNGQ 119
KV+C +A + GV PT+ F++GQ
Sbjct: 80 KVNC-DAEPMVAAQFGVQSIPTVYAFKDGQ 108
>gnl|CDD|182889 PRK10996, PRK10996, thioredoxin 2; Provisional.
Length = 139
Score = 55.5 bits (134), Expect = 8e-11
Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 4/78 (5%)
Query: 43 FEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCN 102
+ ++ ++ F+APWCG C+ P +E A + G + FVKV+ TEA +E
Sbjct: 45 LDKLLQDDLPVVIDFWAPWCGPCRNFAPIFEDVAAERSGK---VRFVKVN-TEAERELSA 100
Query: 103 KHGVSGYPTLKIFRNGQV 120
+ + PT+ IF+NGQV
Sbjct: 101 RFRIRSIPTIMIFKNGQV 118
>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 = 53.5 bits (128), Expect = 1e-10
Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 6/69 (8%)
Query: 54 LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGK--ETCNKHGVSGYPT 111
LV+FYAPWC C+ L+P ++ + + F VD E + ++GV G PT
Sbjct: 1 LVLFYAPWCPFCQALRPVLA----ELALLNKGVKFEAVDVDEDPALEKELKRYGVGGVPT 56
Query: 112 LKIFRNGQV 120
L +F G
Sbjct: 57 LVVFGPGIG 65
>gnl|CDD|181812 PRK09381, trxA, thioredoxin; Provisional.
Length = 109
Score = 52.0 bits (124), Expect = 9e-10
Identities = 29/91 (31%), Positives = 50/91 (54%), Gaps = 5/91 (5%)
Query: 35 VLDLGDSDFEA-VINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDC 93
++ L D F+ V+ LV F+A WCG CK + P ++ A + +G ++ K++
Sbjct: 5 IIHLTDDSFDTDVLKADGAILVDFWAEWCGPCKMIAPILDEIADEYQGK---LTVAKLN- 60
Query: 94 TEAGKETCNKHGVSGYPTLKIFRNGQVSKAK 124
+ T K+G+ G PTL +F+NG+V+ K
Sbjct: 61 IDQNPGTAPKYGIRGIPTLLLFKNGEVAATK 91
>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 = 50.3 bits (121), Expect = 3e-09
Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 6/83 (7%)
Query: 40 DSDFEAVINQHETAL--VMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAG 97
+ +FE ++ + L + F+APW CK++ +E+ A + A P + F+ ++ E
Sbjct: 2 EEEFEELLKSDASKLLVLHFWAPWAEPCKQMNQVFEELAKE---AFPSVLFLSIE-AEEL 57
Query: 98 KETCNKHGVSGYPTLKIFRNGQV 120
E K ++ PT FRNG +
Sbjct: 58 PEISEKFEITAVPTFVFFRNGTI 80
>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 = 48.1 bits (115), Expect = 2e-08
Identities = 24/63 (38%), Positives = 39/63 (61%), Gaps = 4/63 (6%)
Query: 33 SSVLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVD 92
S+V++L DS++ V+ ++ FYAPWC C++L+PE+E+ A D I+ KVD
Sbjct: 1 SNVVELTDSNWTLVLEGE--WMIEFYAPWCPACQQLQPEWEEFAD--WSDDLGINVAKVD 56
Query: 93 CTE 95
T+
Sbjct: 57 VTQ 59
>gnl|CDD|239297 cd02999, PDI_a_ERp44_like, PDIa family, endoplasmic reticulum
protein 44 (ERp44)-like subfamily; composed of
uncharacterized PDI-like eukaryotic proteins containing
only one redox active TRX (a) domain with a CXXS motif,
similar to ERp44. CXXS is still a redox active motif;
however, the mixed disulfide formed with the substrate
is more stable than those formed by CXXC motif proteins.
PDI-related proteins are usually involved in the
oxidative protein folding in the ER by acting as
catalysts and folding assistants. ERp44 is involved in
thiol-mediated retention in the ER.
Length = 100
Score = 46.2 bits (110), Expect = 1e-07
Identities = 16/71 (22%), Positives = 34/71 (47%), Gaps = 4/71 (5%)
Query: 48 NQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCNKHGVS 107
N+ + V+FYA WC +P + ++ P I + ++ + +++GV
Sbjct: 16 NREDYTAVLFYASWCPFSASFRPHFNALSS----MFPQIRHLAIEESSIKPSLLSRYGVV 71
Query: 108 GYPTLKIFRNG 118
G+PT+ +F +
Sbjct: 72 GFPTILLFNST 82
>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 = 46.3 bits (110), Expect = 1e-07
Identities = 21/87 (24%), Positives = 45/87 (51%), Gaps = 6/87 (6%)
Query: 33 SSVLDLGDSDFEAVI---NQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFV 89
+V+ L ++ EA+ ++++ LV+ YAPWC C+ ++ YE+ A + G++ +
Sbjct: 1 EAVVTLSRAEIEALAKGERRNQSTLVVLYAPWCPFCQAMEASYEELAEKLAGSN--VKVA 58
Query: 90 KVDCTEAGKETCNKH-GVSGYPTLKIF 115
K + +E + + +PT+ F
Sbjct: 59 KFNADGEQREFAKEELQLKSFPTILFF 85
>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 = 44.6 bits (106), Expect = 4e-07
Identities = 23/81 (28%), Positives = 41/81 (50%), Gaps = 6/81 (7%)
Query: 41 SDFEAVINQH-ETALVM-FYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGK 98
+F+ V+ + + +V+ F+AP K+L P E+ A + +G KV+C +A
Sbjct: 1 QNFQQVLQESTQVPVVVDFWAPRSPPSKELLPLLERLAEEYQGQ---FVLAKVNC-DAQP 56
Query: 99 ETCNKHGVSGYPTLKIFRNGQ 119
+ + GV PT+ +F GQ
Sbjct: 57 QIAQQFGVQALPTVYLFAAGQ 77
>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 = 44.8 bits (106), Expect = 5e-07
Identities = 23/65 (35%), Positives = 35/65 (53%), Gaps = 6/65 (9%)
Query: 32 ESSVLDL--GDSDF-EAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISF 88
S VLD G D+ E + E +LVM+YAPW + + E+E+ A K +D + F
Sbjct: 8 RSPVLDFYKGQLDYAEELRTDAEVSLVMYYAPWDAQSQAARQEFEQVAQ--KLSD-QVLF 64
Query: 89 VKVDC 93
V ++C
Sbjct: 65 VAINC 69
>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 = 44.0 bits (104), Expect = 6e-07
Identities = 23/71 (32%), Positives = 39/71 (54%), Gaps = 7/71 (9%)
Query: 50 HET---ALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCNKHGV 106
HE+ LV++ +P CG C+ LKP K + GA + FV++D + +E G+
Sbjct: 10 HESDRLILVLYTSPTCGPCRTLKPILNKVIDEFDGA---VHFVEID-IDEDQEIAEAAGI 65
Query: 107 SGYPTLKIFRN 117
G PT++ F++
Sbjct: 66 MGTPTVQFFKD 76
>gnl|CDD|215175 PLN02309, PLN02309, 5'-adenylylsulfate reductase.
Length = 457
Score = 44.0 bits (104), Expect = 4e-06
Identities = 23/88 (26%), Positives = 42/88 (47%), Gaps = 6/88 (6%)
Query: 32 ESSVLDLGDSDFEAVI---NQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISF 88
+V+ L + E ++ N+ E LV+ YAPWC C+ ++ YE+ A + G+ +
Sbjct: 344 SQNVVALSRAGIENLLKLENRKEPWLVVLYAPWCPFCQAMEASYEELAEKLAGS--GVKV 401
Query: 89 VKVDCTEAGKETCNKH-GVSGYPTLKIF 115
K KE + + +PT+ +F
Sbjct: 402 AKFRADGDQKEFAKQELQLGSFPTILLF 429
>gnl|CDD|221921 pfam13098, Thioredoxin_2, Thioredoxin-like domain.
Length = 105
Score = 41.6 bits (98), Expect = 7e-06
Identities = 20/85 (23%), Positives = 33/85 (38%), Gaps = 13/85 (15%)
Query: 49 QHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCN------ 102
+ LV+F P C +CKKL E K + + V+ ++ + T
Sbjct: 4 NGKPVLVVFTDPDCPYCKKLHKELLKDPDVQEYLKDNFVVIYVNVDDSKEVTDFDGETLS 63
Query: 103 ------KHGVSGYPTLKIF-RNGQV 120
K+GV G PT+ +G+
Sbjct: 64 EKELARKYGVRGTPTIVFLDGDGKE 88
>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 = 37.3 bits (87), Expect = 2e-04
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 1/57 (1%)
Query: 54 LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCT-EAGKETCNKHGVSGY 109
L+ F+A WC C+ PE ++ +K I +V +D E K+ K
Sbjct: 5 LLYFWASWCPPCRAFTPELKELYEKLKKPKVEIVYVSLDRDEEEWKKYLKKMPKDWL 61
>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 = 37.6 bits (88), Expect = 2e-04
Identities = 16/74 (21%), Positives = 23/74 (31%), Gaps = 3/74 (4%)
Query: 49 QHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCT---EAGKETCNKHG 105
Q + V F A WC CK + + ++ D T + G
Sbjct: 10 QGKPVFVDFTADWCVTCKVNEKVVFSDPEVQAALKKDVVLLRADWTKNDPEITALLKRFG 69
Query: 106 VSGYPTLKIFRNGQ 119
V G PT + G
Sbjct: 70 VFGPPTYLFYGPGG 83
>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 = 36.9 bits (86), Expect = 5e-04
Identities = 12/47 (25%), Positives = 18/47 (38%)
Query: 33 SSVLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDV 79
+ L F+ + LV F+A WC C+ P + A D
Sbjct: 3 FTATTLDGEQFDLESLSGKPVLVYFWATWCPVCRFTSPTVNQLAADY 49
>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 = 33.4 bits (77), Expect = 0.005
Identities = 17/79 (21%), Positives = 26/79 (32%), Gaps = 7/79 (8%)
Query: 41 SDFEAVINQHETA----LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEA 96
D + + + LV F A WC C+ L ++ VK ++VD T
Sbjct: 4 QDLDEALAKAREEGKPLLVDFGADWCPTCQALDRDFLSDPR-VKALAEKFVLLRVDVTTR 62
Query: 97 GKETCNKHGVSGYPTLKIF 115
G G P +
Sbjct: 63 DPNL-LLDG-QGVPHVVFL 79
>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 = 35.0 bits (80), Expect = 0.006
Identities = 18/69 (26%), Positives = 34/69 (49%), Gaps = 3/69 (4%)
Query: 48 NQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCNKH-GV 106
+ E LV+ YAPWC C+ ++ Y + A + G+ ++ + D + KE + +
Sbjct: 369 ERKEAWLVVLYAPWCPFCQAMEASYLELAEKLAGSGVKVAKFRADGDQ--KEFAKQELQL 426
Query: 107 SGYPTLKIF 115
+PT+ F
Sbjct: 427 GSFPTILFF 435
>gnl|CDD|226685 COG4232, COG4232, Thiol:disulfide interchange protein
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 569
Score = 34.7 bits (80), Expect = 0.008
Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 4/74 (5%)
Query: 48 NQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTE---AGKETCNKH 104
+ + ++ FYA WC CK+ + Y + V+ A + ++ D T A +
Sbjct: 472 AKAKPVMLDFYADWCVTCKENEK-YTFSDPQVQQALQDVVLLQADVTANDPAITALLKRL 530
Query: 105 GVSGYPTLKIFRNG 118
GV G PT F
Sbjct: 531 GVFGVPTYLFFGPQ 544
>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 = 33.8 bits (78), Expect = 0.008
Identities = 21/76 (27%), Positives = 32/76 (42%), Gaps = 7/76 (9%)
Query: 44 EAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFV--KVDCTEAGKETC 101
A+ N T LV FYA WC C+++ P+ K ++FV VD + E
Sbjct: 15 VALSNGKPT-LVEFYADWCTVCQEMAPDVAKLKQKYGDQ---VNFVMLNVDNPKWLPEI- 69
Query: 102 NKHGVSGYPTLKIFRN 117
+++ V G P
Sbjct: 70 DRYRVDGIPHFVFLDR 85
>gnl|CDD|225054 COG2143, COG2143, Thioredoxin-related protein [Posttranslational
modification, protein turnover, chaperones].
Length = 182
Score = 32.5 bits (74), Expect = 0.030
Identities = 21/116 (18%), Positives = 45/116 (38%), Gaps = 20/116 (17%)
Query: 19 LMLVLGFALVSC----DESSVLDLGDSDFEAVINQHETALVMFYAPWCGHCKKLK----- 69
++L++ L +C ++ S +D+ D + N + L+MF + C +C++ K
Sbjct: 8 VLLIISLFLSACKSNNEKRSNIDVFDDNKSISPND-KYLLLMFESNGCSYCERFKKDLKN 66
Query: 70 -PEYEKAAT--------DVKGADPPISFVKV-DCTEAGKETCNKHGVSGYPTLKIF 115
+ ++ + P + V + + +E K V PT F
Sbjct: 67 VKRLREYLKEHFSAYYLNISYSKPVLFKVGDKEEKMSTEELAQKFAVRSTPTFVFF 122
>gnl|CDD|133998 PHA02125, PHA02125, thioredoxin-like protein.
Length = 75
Score = 31.1 bits (70), Expect = 0.035
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 10/57 (17%)
Query: 56 MFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCNKHGVSGYPTL 112
+F A WC +CK +KP A+ ++V VD T+ G E KH + PTL
Sbjct: 4 LFGAEWCANCKMVKPML---------ANVEYTYVDVD-TDEGVELTAKHHIRSLPTL 50
>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 = 31.8 bits (73), Expect = 0.050
Identities = 16/36 (44%), Positives = 21/36 (58%), Gaps = 4/36 (11%)
Query: 54 LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFV 89
+V F+ CG+CKKL PE EK +K DP + V
Sbjct: 9 IVEFFDYNCGYCKKLAPELEKL---LK-EDPDVRVV 40
>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 = 31.1 bits (71), Expect = 0.069
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 54 LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVD--CTEAGKETCNKHGVSGYPT 111
LV F+A WC C+ PE E A + K + V VD A K K+G++ +P
Sbjct: 23 LVNFWASWCPPCRAEMPELEALAKEYKDDGVEVVGVNVDDDDPAAVKAFLKKYGIT-FPV 81
Query: 112 L 112
L
Sbjct: 82 L 82
>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 = 29.7 bits (67), Expect = 0.13
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 12/63 (19%)
Query: 55 VMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCT---EAGKETCNKHGVSGYPT 111
++ PWC CKK K EY + I+F ++D A +E G G P
Sbjct: 3 KVYTTPWCPPCKKAK-EYLTSKG--------IAFEEIDVEKDSAAREEVLKVLGQRGVPV 53
Query: 112 LKI 114
+ I
Sbjct: 54 IVI 56
>gnl|CDD|239261 cd02963, TRX_DnaJ, TRX domain, DnaJ domain containing protein
family; composed of uncharacterized proteins of about
500-800 amino acids, containing an N-terminal DnaJ
domain followed by one redox active TRX domain. DnaJ is
a member of the 40 kDa heat-shock protein (Hsp40) family
of molecular chaperones, which regulate the activity of
Hsp70s. TRX is involved in the redox regulation of many
protein substrates through the reduction of disulfide
bonds. TRX has been implicated to catalyse the reduction
of Hsp33, a chaperone holdase that binds to unfolded
protein intermediates. The presence of DnaJ and TRX
domains in members of this family suggests that they
could be involved in a redox-regulated chaperone
network.
Length = 111
Score = 30.0 bits (68), Expect = 0.14
Identities = 16/70 (22%), Positives = 30/70 (42%), Gaps = 7/70 (10%)
Query: 54 LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKET--CNKHGVSGYPT 111
L+ + WC C ++P +++ +++ + V+ AG E K G P
Sbjct: 28 LIKITSDWCFSCIHIEPVWKEVIQELEPLG--VGIATVN---AGHERRLARKLGAHSVPA 82
Query: 112 LKIFRNGQVS 121
+ NGQV+
Sbjct: 83 IVGIINGQVT 92
>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 = 29.7 bits (67), Expect = 0.15
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 54 LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVD 92
+V F+ P C +C +PE EK + D + V
Sbjct: 1 IVEFFDPLCPYCYLFEPELEKL---LYADDGGVRVVYRP 36
>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 = 29.8 bits (68), Expect = 0.17
Identities = 22/93 (23%), Positives = 39/93 (41%), Gaps = 15/93 (16%)
Query: 34 SVLDLGDSDFEAVINQ---HETALVMFYAPWCGHCKKLKPEYEKAAT---DVKGADPPIS 87
V ++ +F + + +V FY P CK L E+ A + K
Sbjct: 5 EVREISSKEFLEEVTKASKGTRVVVHFYEPGFPRCKILDSHLEELAAKYPETK------- 57
Query: 88 FVKVDCTEAGKETCNKHGVSGYPTLKIFRNGQV 120
FVK++ +A N + PTL +++NG++
Sbjct: 58 FVKINAEKAF--LVNYLDIKVLPTLLVYKNGEL 88
>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 = 30.0 bits (68), Expect = 0.19
Identities = 19/76 (25%), Positives = 29/76 (38%), Gaps = 16/76 (21%)
Query: 54 LVMFYAPWCGHCKKLKPEY--EKAA------------TDVKGADPPISFVKVDCTEAGKE 99
L++F P C +C KLK +Y + A ++ G F +E KE
Sbjct: 18 LLLFSQPGCPYCDKLKRDYLNDPAVQAYIRAHFVVVYINIDGDKEVTDFDGEALSE--KE 75
Query: 100 TCNKHGVSGYPTLKIF 115
K+ V PT+
Sbjct: 76 LARKYRVRFTPTVIFL 91
>gnl|CDD|234717 PRK00293, dipZ, thiol:disulfide interchange protein precursor;
Provisional.
Length = 571
Score = 29.8 bits (68), Expect = 0.38
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 13/81 (16%)
Query: 48 NQHETALVM--FYAPWCGHCKKLKPEYEK---AATDVKGADPPISFVKVDCTE---AGKE 99
+ + VM YA WC CK E+EK + V+ A ++ D T
Sbjct: 470 AKGKGKPVMLDLYADWCVACK----EFEKYTFSDPQVQQALADTVLLQADVTANNAEDVA 525
Query: 100 TCNKHGVSGYPTLKIFR-NGQ 119
+ V G PT+ F GQ
Sbjct: 526 LLKHYNVLGLPTILFFDAQGQ 546
>gnl|CDD|131709 TIGR02661, MauD, methylamine dehydrogenase accessory protein
MauD. This protein, MauD, appears critical to proper
formation of the small subunit of methylamine
dehydrogenase, which has both an unusual tryptophan
tryptophylquinone cofactor and multiple disulfide
bonds. MauD shares sequence similarity, including a
CPxC motif, with a number of thiol:disulfide
interchange proteins. In MauD mutants, the small
subunit apparently does not form properly and is
rapidly degraded [Protein fate, Protein folding and
stabilization, Energy metabolism, Amino acids and
amines].
Length = 189
Score = 28.7 bits (64), Expect = 0.61
Identities = 17/45 (37%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 31 DESSVLDLGDSDFEAV-----INQHETALVMFYAPWCGHCKKLKP 70
D + + +L D D E V I L+MF AP C C KL P
Sbjct: 50 DAAPIFNLPDFDGEPVRIGGSIAPGRPTLLMFTAPSCPVCDKLFP 94
>gnl|CDD|216002 pfam00578, AhpC-TSA, AhpC/TSA family. This family contains
proteins related to alkyl hydroperoxide reductase (AhpC)
and thiol specific antioxidant (TSA).
Length = 124
Score = 28.3 bits (64), Expect = 0.64
Identities = 18/72 (25%), Positives = 30/72 (41%), Gaps = 3/72 (4%)
Query: 53 ALVMFYAP-WCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCNKHGVSGYPT 111
++ FY + C P + K + V VD E+ K+ K G+ +P
Sbjct: 28 VVLFFYPKDFTPVCTTELPALADLYEEFKKLGVEVLGVSVDSPESHKKFAEKLGLP-FPL 86
Query: 112 LKIFRNGQVSKA 123
L +G+V+KA
Sbjct: 87 LSD-PDGEVAKA 97
>gnl|CDD|239257 cd02959, ERp19, Endoplasmic reticulum protein 19 (ERp19) family;
ERp19 is also known as ERp18, a protein located in the
ER containing one redox active TRX domain. Denaturation
studies indicate that the reduced form is more stable
than the oxidized form, suggesting that the protein is
involved in disulfide bond formation. In vitro, ERp19
has been shown to possess thiol-disulfide oxidase
activity which is dependent on the presence of both
active site cysteines. Although described as protein
disulfide isomerase (PDI)-like, the protein does not
complement for PDI activity. ERp19 shows a wide tissue
distribution but is most abundant in liver, testis,
heart and kidney.
Length = 117
Score = 27.9 bits (62), Expect = 0.81
Identities = 8/19 (42%), Positives = 14/19 (73%)
Query: 54 LVMFYAPWCGHCKKLKPEY 72
+++ + WCG CK LKP++
Sbjct: 23 MLLIHKTWCGACKALKPKF 41
>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 = 27.2 bits (61), Expect = 1.0
Identities = 17/64 (26%), Positives = 26/64 (40%), Gaps = 12/64 (18%)
Query: 54 LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCT---EAGKETCNKHGVSGYP 110
+ ++ P C +CK K D +G I F +VD EA +E +G P
Sbjct: 2 VTVYTKPDCPYCKAT-----KRFLDERG----IPFEEVDVDEDPEALEELKKLNGYRSVP 52
Query: 111 TLKI 114
+ I
Sbjct: 53 VVVI 56
>gnl|CDD|239318 cd03020, DsbA_DsbC_DsbG, DsbA family, DsbC and DsbG subfamily;
V-shaped homodimeric proteins containing a redox active
CXXC motif imbedded in a TRX fold. They function as
protein disulfide isomerases and chaperones in the
bacterial periplasm to correct non-native disulfide
bonds formed by DsbA and prevent aggregation of
incorrectly folded proteins. DsbC and DsbG are kept in
their reduced state by the cytoplasmic membrane protein
DsbD, which utilizes the TRX/TRX reductase system in the
cytosol as a source of reducing equivalents. DsbG differ
from DsbC in that it has a more limited substrate
specificity, and it may preferentially act later in the
folding process to catalyze disulfide rearrangements in
folded or partially folded proteins. Also included in
the alignment is the predicted protein TrbB, whose gene
was sequenced from the enterohemorrhagic E. coli type IV
pilus gene cluster, which is required for efficient
plasmid transfer.
Length = 197
Score = 28.1 bits (63), Expect = 1.3
Identities = 9/30 (30%), Positives = 16/30 (53%)
Query: 50 HETALVMFYAPWCGHCKKLKPEYEKAATDV 79
+ + +F P C +C+KL+ E + A V
Sbjct: 77 GKRVVYVFTDPDCPYCRKLEKELKPNADGV 106
>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 = 26.8 bits (59), Expect = 1.4
Identities = 13/65 (20%), Positives = 25/65 (38%), Gaps = 6/65 (9%)
Query: 56 MFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCNKHGVSGYPTLKIF 115
+F +P C +C P ++ +V V+ + ++G+ P + I
Sbjct: 5 LFTSPTCPYC----PAAKRVVEEVAKEMGDAVEVEYINVMENPQKAMEYGIMAVPAIVI- 59
Query: 116 RNGQV 120
NG V
Sbjct: 60 -NGDV 63
>gnl|CDD|226062 COG3531, COG3531, Predicted protein-disulfide isomerase
[Posttranslational modification, protein turnover,
chaperones].
Length = 212
Score = 27.8 bits (62), Expect = 1.7
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 95 EAGKETCNKHGVSGYPTLKIFRNGQ 119
+ + G +G+PTL + RNG
Sbjct: 161 ADSRRLMQRLGAAGFPTLALERNGT 185
>gnl|CDD|239260 cd02962, TMX2, TMX2 family; composed of proteins similar to human
TMX2, a 372-amino acid TRX-related transmembrane
protein, identified and characterized through the
cloning of its cDNA from a human fetal library. It
contains a TRX domain but the redox active CXXC motif is
replaced with SXXC. Sequence analysis predicts that TMX2
may be a Type I membrane protein, with its C-terminal
half protruding on the luminal side of the endoplasmic
reticulum (ER). In addition to the TRX domain,
transmembrane region and ER-retention signal, TMX2 also
contains a Myb DNA-binding domain repeat signature and a
dileucine motif in the tail.
Length = 152
Score = 27.3 bits (61), Expect = 1.9
Identities = 18/71 (25%), Positives = 27/71 (38%), Gaps = 9/71 (12%)
Query: 54 LVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCNKHGVSGY---- 109
LV F+ W C P + A +K + + F K+D K VS
Sbjct: 51 LVEFFTTWSPECVNFAPVF--AELSLKYNNNNLKFGKIDIGRFPNVAE-KFRVSTSPLSK 107
Query: 110 --PTLKIFRNG 118
PT+ +F+ G
Sbjct: 108 QLPTIILFQGG 118
>gnl|CDD|224565 COG1651, DsbG, Protein-disulfide isomerase [Posttranslational
modification, protein turnover, chaperones].
Length = 244
Score = 27.1 bits (60), Expect = 2.7
Identities = 13/55 (23%), Positives = 21/55 (38%), Gaps = 11/55 (20%)
Query: 38 LGDSDFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVD 92
LG+ + V F+ C +CK+ PE +K D D + V +
Sbjct: 79 LGNPYAPVTV-------VEFFDYTCPYCKEAFPELKKKYID----DGKVRLVLRE 122
>gnl|CDD|131785 TIGR02738, TrbB, type-F conjugative transfer system pilin
assembly thiol-disulfide isomerase TrbB. This protein
is part of a large group of proteins involved in
conjugative transfer of plasmid DNA, specifically the
F-type system. This protein has been predicted to
contain a thioredoxin fold, contains a conserved pair
of cysteines and has been shown to function as a thiol
disulfide isomerase by complementation of an Ecoli DsbA
defect. The protein is believed to be involved in pilin
assembly. The protein is closely related to TraF
(TIGR02739) which is somewhat longer, lacks the
cysteine motif and is apparently not functional as a
disulfide bond isomerase.
Length = 153
Score = 26.7 bits (59), Expect = 2.8
Identities = 16/61 (26%), Positives = 22/61 (36%), Gaps = 9/61 (14%)
Query: 19 LMLVLGFALVSCDESSVLDLGDSDFEAV---------INQHETALVMFYAPWCGHCKKLK 69
L+L + DE + L A NQ + ALV FY C +C +
Sbjct: 10 LLLAGLAQASTLDEITNLWAPPQGLTAATDNAPQGRHANQDDYALVFFYQSTCPYCHQFA 69
Query: 70 P 70
P
Sbjct: 70 P 70
>gnl|CDD|233769 TIGR02187, GlrX_arch, Glutaredoxin-like domain protein. This
family of archaeal proteins contains a C-terminal domain
with homology to bacterial and eukaryotic glutaredoxins,
including a CPYC motif. There is an N-terminal domain
which has even more distant homology to glutaredoxins.
The name "glutaredoxin" may be inappropriate in the
sense of working in tandem with glutathione and
glutathione reductase which may not be present in the
archaea. The overall domain structure appears to be
related to bacterial alkylhydroperoxide reductases, but
the homology may be distant enough that the function of
this family is wholly different.
Length = 215
Score = 27.0 bits (60), Expect = 3.0
Identities = 16/58 (27%), Positives = 22/58 (37%), Gaps = 6/58 (10%)
Query: 62 CGHCKKLKPEYEKAATDVKGADPPISFVKVD-CTEAGKETCNKHGVSGYPTLKIFRNG 118
C +CK E E+ ++ P + D T KE K+GV PT I
Sbjct: 34 CQYCK----ETEQLLEELSEVSPKLKLEIYDFDTPEDKEEAEKYGVERVPTT-IILEE 86
>gnl|CDD|180121 PRK05508, PRK05508, methionine sulfoxide reductase B; Provisional.
Length = 119
Score = 26.2 bits (58), Expect = 3.2
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 66 KKLKPEYEKAATDVKGADPPISFVKVDCTEAGKETCNKHGVSGYPTLKIFRNG 118
+L PE E+A KG +PP S D E G C + G Y + F++G
Sbjct: 2 NELTPE-EEAVILRKGTEPPFSGEYNDFFEKGTYVCKQCGAPLYRSEDKFKSG 53
>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 = 26.2 bits (58), Expect = 3.2
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 54 LVMFYAPWCGHCKKLKPEYEKAATD 78
L+ F +P C CKKL P A
Sbjct: 25 LLFFLSPTCPVCKKLLPVIRSIARA 49
>gnl|CDD|184456 PRK14018, PRK14018, trifunctional thioredoxin/methionine
sulfoxide reductase A/B protein; Provisional.
Length = 521
Score = 26.8 bits (59), Expect = 3.5
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 45 AVINQHETALVMFYAPWCGHCKKLKPEYEKAATDVK 80
+ + + L+ F+A WC C E EK A D K
Sbjct: 51 VYLKKDKPTLIKFWASWCPLCLSELGETEKWAQDAK 86
>gnl|CDD|131255 TIGR02200, GlrX_actino, Glutaredoxin-like protein. This family
of glutaredoxin-like proteins is limited to the
Actinobacteria and contains the conserved CxxC motif.
Length = 77
Score = 25.6 bits (56), Expect = 3.7
Identities = 5/14 (35%), Positives = 9/14 (64%)
Query: 56 MFYAPWCGHCKKLK 69
++ WCG+C +L
Sbjct: 4 VYGTTWCGYCAQLM 17
>gnl|CDD|184564 PRK14196, PRK14196, chromosome condensation membrane protein;
Provisional.
Length = 127
Score = 26.0 bits (58), Expect = 4.1
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 5 WSSGHVLCSLIRSNLMLVLGFALVS 29
W+ +V L+ S M LGF S
Sbjct: 98 WALLNVALHLLGSLAMTALGFWTFS 122
>gnl|CDD|176182 cd05279, Zn_ADH1, Liver alcohol dehydrogenase and related
zinc-dependent alcohol dehydrogenases.
NAD(P)(H)-dependent oxidoreductases are the major
enzymes in the interconversion of alcohols and
aldehydes, or ketones. Alcohol dehydrogenase in the
liver converts ethanol and NAD+ to acetaldehyde and
NADH, while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. There are 7 vertebrate ADH 7
classes, 6 of which have been identified in humans.
Class III, glutathione-dependent formaldehyde
dehydrogenase, has been identified as the primordial
form and exists in diverse species, including plants,
micro-organisms, vertebrates, and invertebrates. Class
I, typified by liver dehydrogenase, is an evolving
form. Gene duplication and functional specialization of
ADH into ADH classes and subclasses created numerous
forms in vertebrates. For example, the A, B and C
(formerly alpha, beta, gamma) human class I subunits
have high overall structural similarity, but differ in
the substrate binding pocket and therefore in substrate
specificity. In human ADH catalysis, the zinc ion
helps coordinate the alcohol, followed by deprotonation
of a histidine (His-51), the ribose of NAD, a serine
(Ser-48), then the alcohol, which allows the transfer
of a hydride to NAD+, creating NADH and a zinc-bound
aldehyde or ketone. In yeast and some bacteria, the
active site zinc binds an aldehyde, polarizing it, and
leading to the reverse reaction. ADH is a member of the
medium chain alcohol dehydrogenase family (MDR), which
has a NAD(P)(H)-binding domain in a Rossmann fold of an
beta-alpha form. The NAD(H)-binding region is
comprised of 2 structurally similar halves, each of
which contacts a mononucleotide. A GxGxxG motif after
the first mononucleotide contact half allows the close
contact of the coenzyme with the ADH backbone. The
N-terminal catalytic domain has a distant homology to
GroES. These proteins typically form dimers (typically
higher plants, mammals) or tetramers (yeast, bacteria),
and have 2 tightly bound zinc atoms per subunit, a
catalytic zinc at the active site and a structural zinc
in a lobe of the catalytic domain. NAD(H) binding
occurs in the cleft between the catalytic and
coenzyme-binding domains at the active site, and
coenzyme binding induces a conformational closing of
this cleft. Coenzyme binding typically precedes and
contributes to substrate binding.
Length = 365
Score = 26.2 bits (58), Expect = 5.5
Identities = 5/12 (41%), Positives = 7/12 (58%)
Query: 55 VMFYAPWCGHCK 66
+ + P CG CK
Sbjct: 82 IPLFGPQCGKCK 93
>gnl|CDD|214748 smart00631, Zn_pept, Zn_pept domain.
Length = 277
Score = 26.1 bits (58), Expect = 6.4
Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 42 DFEAVINQHETALVMFYAPWCGHCKKLKPEYEKAATDV 79
F+ I+ H + ++ Y P+ G+ K P V
Sbjct: 173 RFKLYIDLHSYSQLILY-PY-GYTKNDLPPNVDDLDAV 208
>gnl|CDD|223485 COG0408, HemF, Coproporphyrinogen III oxidase [Coenzyme
metabolism].
Length = 303
Score = 25.8 bits (57), Expect = 6.8
Identities = 8/18 (44%), Positives = 10/18 (55%)
Query: 96 AGKETCNKHGVSGYPTLK 113
A K+ C+ HG YP K
Sbjct: 151 AAKDACDPHGPEDYPRFK 168
>gnl|CDD|179545 PRK03147, PRK03147, thiol-disulfide oxidoreductase; Provisional.
Length = 173
Score = 25.7 bits (57), Expect = 7.6
Identities = 32/129 (24%), Positives = 54/129 (41%), Gaps = 21/129 (16%)
Query: 14 LIRSNLMLVL----GFALVSC--DESSVLDLGDS--DFEAV-INQHETAL-------VM- 56
L R+ ++L+L G+ + S + + +G +F + + L V
Sbjct: 7 LFRTIILLILLAAVGYTIYSNFFADKEKVQVGKEAPNFVLTDLEGKKIELKDLKGKGVFL 66
Query: 57 -FYAPWCGHCKKLKPEYEKAATDVKGADPPISFVKVDCTE-AGKETCNKHGVSGYPTLKI 114
F+ WC C+K P + K I V VD TE A K N++G++ +P + I
Sbjct: 67 NFWGTWCKPCEKEMPYMNELYPKYKEKGVEIIAVNVDETELAVKNFVNRYGLT-FP-VAI 124
Query: 115 FRNGQVSKA 123
+ QV A
Sbjct: 125 DKGRQVIDA 133
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.318 0.134 0.415
Gapped
Lambda K H
0.267 0.0716 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,043,305
Number of extensions: 495383
Number of successful extensions: 513
Number of sequences better than 10.0: 1
Number of HSP's gapped: 479
Number of HSP's successfully gapped: 85
Length of query: 128
Length of database: 10,937,602
Length adjustment: 86
Effective length of query: 42
Effective length of database: 7,123,158
Effective search space: 299172636
Effective search space used: 299172636
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (24.2 bits)