RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9732
(250 letters)
>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 = 132 bits (333), Expect = 2e-39
Identities = 42/63 (66%), Positives = 55/63 (87%)
Query: 1 MLQGEWMVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALP 60
+L+GEWM+EF+APWCPAC+Q++ W+E++ W+ DL INVA+VDVT PGLSGRF VTALP
Sbjct: 14 VLEGEWMIEFYAPWCPACQQLQPEWEEFADWSDDLGINVAKVDVTQEPGLSGRFFVTALP 73
Query: 61 TIF 63
TI+
Sbjct: 74 TIY 76
>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 = 72.3 bits (178), Expect = 2e-16
Identities = 24/83 (28%), Positives = 41/83 (49%), Gaps = 6/83 (7%)
Query: 6 WMVEFFAPWCPACKQMEKVWQEYSGW-AQDLNINVAQVDVTVSPGLSGRFMVTALPTI-- 62
+VEF+APWC CK + +++ + D + VA+VD T + L + V PTI
Sbjct: 18 VLVEFYAPWCGHCKALAPEYEKLAKELKGDGKVVVAKVDCTANNDLCSEYGVRGYPTIKL 77
Query: 63 FQEGIRGNIERGYFNIAKEIEEL 85
F G + ++ + + +E L
Sbjct: 78 FPNGSKEPVK---YEGPRTLESL 97
>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 = 62.6 bits (153), Expect = 8e-13
Identities = 22/62 (35%), Positives = 33/62 (53%), Gaps = 9/62 (14%)
Query: 6 WMVEFFAPWCPACKQM----EKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPT 61
+V+F+APWC CK + EK+ QEY ++ A+VD +P L+ + V PT
Sbjct: 21 VLVDFYAPWCGPCKALAPEYEKLAQEYKD-----DVKFAKVDADENPDLASEYGVRGFPT 75
Query: 62 IF 63
I
Sbjct: 76 IK 77
>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 = 60.9 bits (148), Expect = 3e-12
Identities = 23/75 (30%), Positives = 40/75 (53%), Gaps = 4/75 (5%)
Query: 3 QGEWMVEFFAPWCPACKQMEKVWQEYSGWAQDLN--INVAQVDVTVSPGLSGRFMVTALP 60
+ W+V+F+APWC CK++E VW E + + V ++D T ++ F V P
Sbjct: 15 EDIWLVDFYAPWCGHCKKLEPVWNEVGAELKSSGSPVRVGKLDATAYSSIASEFGVRGYP 74
Query: 61 TIFQEGIRGNIERGY 75
TI + ++G++ Y
Sbjct: 75 TI--KLLKGDLAYNY 87
>gnl|CDD|185622 PTZ00443, PTZ00443, Thioredoxin domain-containing protein;
Provisional.
Length = 224
Score = 60.8 bits (147), Expect = 4e-11
Identities = 23/62 (37%), Positives = 35/62 (56%), Gaps = 5/62 (8%)
Query: 4 GEWMVEFFAPWCPACKQMEKVWQEYSGWAQDLN--INVAQVDVTVSPGLSGRFMVTALPT 61
G W V+F+APWC C++M W+ A+ L +NVA +D T + L+ RF + PT
Sbjct: 53 GPWFVKFYAPWCSHCRKMAPAWERL---AKALKGQVNVADLDATRALNLAKRFAIKGYPT 109
Query: 62 IF 63
+
Sbjct: 110 LL 111
>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 = 57.7 bits (140), Expect = 5e-11
Identities = 23/62 (37%), Positives = 33/62 (53%), Gaps = 7/62 (11%)
Query: 6 WMVEFFAPWCPACKQMEKVW----QEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPT 61
+VEF+APWC CK + + +E D +I +A+VD T L+ RF V+ PT
Sbjct: 16 VLVEFYAPWCGHCKNLAPEYEKLAKELKK---DPDIVLAKVDATAEKDLASRFGVSGFPT 72
Query: 62 IF 63
I
Sbjct: 73 IK 74
>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 = 56.0 bits (136), Expect = 2e-10
Identities = 24/82 (29%), Positives = 43/82 (52%), Gaps = 5/82 (6%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPT--IFQ 64
+V+F+APWC CK + V +E + + + +VDV +P L+ + V ++PT F+
Sbjct: 14 VVDFWAPWCGPCKAIAPVLEELA--EEYPKVKFVKVDVDENPELAEEYGVRSIPTFLFFK 71
Query: 65 EGIRGNIERGYFNIAKEIEELF 86
G + G + +E+EE
Sbjct: 72 NGKEVDRVVG-ADPKEELEEFL 92
>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 = 55.8 bits (135), Expect = 3e-10
Identities = 24/66 (36%), Positives = 34/66 (51%), Gaps = 7/66 (10%)
Query: 6 WMVEFFAPWCPACKQMEKVWQEYSGWAQDLN--INVAQVDVTVSPGLSGRFMVTALPTI- 62
W+VEF+APWC CK + W++ A+ L + V VD V L+ ++ V PTI
Sbjct: 21 WLVEFYAPWCGHCKNLAPEWKKA---AKALKGIVKVGAVDADVHQSLAQQYGVRGFPTIK 77
Query: 63 -FQEGI 67
F G
Sbjct: 78 VFGAGK 83
>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 = 51.1 bits (123), Expect = 1e-08
Identities = 21/82 (25%), Positives = 35/82 (42%), Gaps = 4/82 (4%)
Query: 6 WMVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPTI--- 62
W+V+F+APWC C+ + ++ + A + V VD L + + A PTI
Sbjct: 22 WLVDFYAPWCGPCQALLPELRKAAR-ALKGKVKVGSVDCQKYESLCQQANIRAYPTIRLY 80
Query: 63 FQEGIRGNIERGYFNIAKEIEE 84
+ + G+ A I E
Sbjct: 81 PGNASKYHSYNGWHRDADSILE 102
>gnl|CDD|225660 COG3118, COG3118, Thioredoxin domain-containing protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 304
Score = 52.0 bits (125), Expect = 6e-08
Identities = 23/72 (31%), Positives = 40/72 (55%), Gaps = 11/72 (15%)
Query: 1 MLQGEWMVEFFAPWCPACKQM----EKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMV 56
+ +V+F+APWC CKQ+ EK+ EY G +A+V+ P ++ +F V
Sbjct: 41 SREVPVLVDFWAPWCGPCKQLTPTLEKLAAEYKG-----KFKLAKVNCDAEPMVAAQFGV 95
Query: 57 TALPTI--FQEG 66
++PT+ F++G
Sbjct: 96 QSIPTVYAFKDG 107
>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 = 51.6 bits (124), Expect = 1e-07
Identities = 25/73 (34%), Positives = 37/73 (50%), Gaps = 10/73 (13%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDL-----NINVAQVDVTVSPGLSGRFMVTALPT 61
+VEF+APWC CK + EY A +L I +A+VD T L+ ++ V+ PT
Sbjct: 22 LVEFYAPWCGHCKSLAP---EYEKAADELKKKGPPIKLAKVDATEEKDLAQKYGVSGYPT 78
Query: 62 --IFQEGIRGNIE 72
IF+ G +
Sbjct: 79 LKIFRNGEDSVSD 91
Score = 47.0 bits (112), Expect = 4e-06
Identities = 22/62 (35%), Positives = 33/62 (53%), Gaps = 10/62 (16%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLNINV--AQVDVT---VSPGLSGRFMVTALPT 61
+VEF+APWC CK + +++E + +D +V A++D T V P F V PT
Sbjct: 368 LVEFYAPWCGHCKNLAPIYEELAEKYKDAESDVVIAKMDATANDVPP-----FEVEGFPT 422
Query: 62 IF 63
I
Sbjct: 423 IK 424
>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 = 48.3 bits (116), Expect = 1e-07
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 12/63 (19%)
Query: 7 MVEFFAPWCPACKQMEKVWQE----YSGWAQDLNINVAQVDVTVS--PGLSGRFMVTALP 60
+VEF+APWC CK + +++E G D N+ +A++D T + P F+V P
Sbjct: 22 LVEFYAPWCGHCKALAPIYEELAEKLKG---DDNVVIAKMDATANDVPSE---FVVDGFP 75
Query: 61 TIF 63
TI
Sbjct: 76 TIL 78
>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 = 46.9 bits (112), Expect = 4e-07
Identities = 16/60 (26%), Positives = 36/60 (60%), Gaps = 9/60 (15%)
Query: 7 MVEFFAPWCPACKQM----EKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPTI 62
+V+F+APWC CK + E++ +EY G + +++V +P ++ ++ + ++PT+
Sbjct: 18 LVDFWAPWCGPCKMIAPILEELAKEYEGKVK-----FVKLNVDENPDIAAKYGIRSIPTL 72
>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 = 46.5 bits (111), Expect = 6e-07
Identities = 19/63 (30%), Positives = 38/63 (60%), Gaps = 4/63 (6%)
Query: 8 VEFFAPWCPACKQMEKVWQEYSG-WAQDLNINVAQVDVTVSPG-LSGRFMVTALPTI--F 63
VEF+APWC CK + +++ + +A + ++ +A+VD + L+ ++ V+ PT+ F
Sbjct: 23 VEFYAPWCGHCKNLAPEYEKLAAVFANEDDVVIAKVDADEANKDLAKKYGVSGFPTLKFF 82
Query: 64 QEG 66
+G
Sbjct: 83 PKG 85
>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 = 46.1 bits (110), Expect = 8e-07
Identities = 21/58 (36%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 8 VEFFAPWCPACKQMEKVWQEYSGWAQDLNINV--AQVDVTVSPGLSGRFMVTALPTIF 63
V+FFAPWC CK++ W++ + + N +V A+VD T L F V PT+
Sbjct: 21 VKFFAPWCGHCKRLAPTWEQLAKKFNNENPSVKIAKVDCTQHRELCSEFQVRGYPTLL 78
>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 = 44.2 bits (105), Expect = 3e-06
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 13/66 (19%)
Query: 8 VEFFAPWCPACKQM----EKVWQEYSG-WAQDLNINVAQVDVTVSPGLSGRFMVTALPTI 62
V+F+AP P K++ E++ +EY G + +A+V+ P ++ +F V ALPT+
Sbjct: 17 VDFWAPRSPPSKELLPLLERLAEEYQGQFV------LAKVNCDAQPQIAQQFGVQALPTV 70
Query: 63 --FQEG 66
F G
Sbjct: 71 YLFAAG 76
>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 = 44.3 bits (105), Expect = 4e-06
Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 7/60 (11%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLN--INVAQVDVTVSPG--LSGRFMVTALPTI 62
+VEF+APWC CK ++ EY+ A++L+ + VA VD L G++ V PT+
Sbjct: 22 LVEFYAPWCGHCKNLKP---EYAKAAKELDGLVQVAAVDCDEDKNKPLCGKYGVQGFPTL 78
>gnl|CDD|240266 PTZ00102, PTZ00102, disulphide isomerase; Provisional.
Length = 477
Score = 47.1 bits (112), Expect = 4e-06
Identities = 23/61 (37%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLN-----INVAQVDVTVSPGLSGRFMVTALPT 61
+V+F+APWC CK++ EY A+ L I +A VD T L+ F V PT
Sbjct: 53 LVKFYAPWCGHCKRLAP---EYKKAAKMLKEKKSEIVLASVDATEEMELAQEFGVRGYPT 109
Query: 62 I 62
I
Sbjct: 110 I 110
Score = 34.7 bits (80), Expect = 0.038
Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 1/58 (1%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDL-NINVAQVDVTVSPGLSGRFMVTALPTIF 63
++E +APWC CK +E V+ E +D +I VA+++ T + F +A PTI
Sbjct: 379 LLEIYAPWCGHCKNLEPVYNELGEKYKDNDSIIVAKMNGTANETPLEEFSWSAFPTIL 436
>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 = 43.8 bits (104), Expect = 5e-06
Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 3/61 (4%)
Query: 8 VEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPT--IFQE 65
+ F+APW CKQM +V++E + A ++ ++ P +S +F +TA+PT F+
Sbjct: 19 LHFWAPWAEPCKQMNQVFEELAKEA-FPSVLFLSIEAEELPEISEKFEITAVPTFVFFRN 77
Query: 66 G 66
G
Sbjct: 78 G 78
>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 = 7e-06
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGL---SGRFMVTALPTIF 63
+V F+APWCP C+ + V E + + + VDV P L R+ V +PT+
Sbjct: 1 LVLFYAPWCPFCQALRPVLAELA--LLNKGVKFEAVDVDEDPALEKELKRYGVGGVPTLV 58
>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 = 41.9 bits (99), Expect = 2e-05
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 11/68 (16%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLNIN----VAQVDVTVS--PGLSGRFMVTALP 60
+V F+APWC CK+M+ E++ A +L + +A VD T L + V P
Sbjct: 21 LVMFYAPWCGHCKKMKP---EFTKAATELKEDGKGVLAAVDCTKPEHDALKEEYNVKGFP 77
Query: 61 TI--FQEG 66
T F+ G
Sbjct: 78 TFKYFENG 85
>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 = 40.8 bits (96), Expect = 1e-04
Identities = 23/69 (33%), Positives = 34/69 (49%), Gaps = 8/69 (11%)
Query: 6 WMVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTA------L 59
W+VEFF W P C V+ E S + N+ ++D+ P ++ +F V+ L
Sbjct: 50 WLVEFFTTWSPECVNFAPVFAELSLKYNNNNLKFGKIDIGRFPNVAEKFRVSTSPLSKQL 109
Query: 60 PTI--FQEG 66
PTI FQ G
Sbjct: 110 PTIILFQGG 118
>gnl|CDD|182889 PRK10996, PRK10996, thioredoxin 2; Provisional.
Length = 139
Score = 39.3 bits (92), Expect = 3e-04
Identities = 22/73 (30%), Positives = 35/73 (47%), Gaps = 11/73 (15%)
Query: 8 VEFFAPWCPACKQM----EKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPTI- 62
++F+APWC C+ E V E SG + +V+ LS RF + ++PTI
Sbjct: 57 IDFWAPWCGPCRNFAPIFEDVAAERSG-----KVRFVKVNTEAERELSARFRIRSIPTIM 111
Query: 63 -FQEGIRGNIERG 74
F+ G ++ G
Sbjct: 112 IFKNGQVVDMLNG 124
>gnl|CDD|221921 pfam13098, Thioredoxin_2, Thioredoxin-like domain.
Length = 105
Score = 38.5 bits (90), Expect = 4e-04
Identities = 24/98 (24%), Positives = 36/98 (36%), Gaps = 19/98 (19%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDL--NINVAQVDVTVSPG-------------LS 51
+V F P CP CK++ K + + L N V V+V S L+
Sbjct: 9 LVVFTDPDCPYCKKLHKELLKDPDVQEYLKDNFVVIYVNVDDSKEVTDFDGETLSEKELA 68
Query: 52 GRFMVTALPTIF---QEGIRGNIERGYFNIAKEIEELF 86
++ V PTI +G GY +E +L
Sbjct: 69 RKYGVRGTPTIVFLDGDGKEVARLPGYLP-PEEFLKLL 105
>gnl|CDD|181812 PRK09381, trxA, thioredoxin; Provisional.
Length = 109
Score = 38.5 bits (89), Expect = 4e-04
Identities = 19/69 (27%), Positives = 39/69 (56%), Gaps = 11/69 (15%)
Query: 4 GEWMVEFFAPWCPACKQ----MEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTAL 59
G +V+F+A WC CK ++++ EY G + VA++++ +PG + ++ + +
Sbjct: 22 GAILVDFWAEWCGPCKMIAPILDEIADEYQG-----KLTVAKLNIDQNPGTAPKYGIRGI 76
Query: 60 PT--IFQEG 66
PT +F+ G
Sbjct: 77 PTLLLFKNG 85
>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 = 38.0 bits (89), Expect = 6e-04
Identities = 26/94 (27%), Positives = 33/94 (35%), Gaps = 11/94 (11%)
Query: 3 QGEW-MVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVA--QVDVT-VSPG---LSGRFM 55
QG+ V+F A WC CK EKV L +V + D T P L RF
Sbjct: 10 QGKPVFVDFTADWCVTCKVNEKVVFSDPEVQAALKKDVVLLRADWTKNDPEITALLKRFG 69
Query: 56 VTALPTIF----QEGIRGNIERGYFNIAKEIEEL 85
V PT G+ + +E L
Sbjct: 70 VFGPPTYLFYGPGGEPEPLRLPGFLTADEFLEAL 103
>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 = 36.7 bits (85), Expect = 0.002
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 6/40 (15%)
Query: 6 WMVEFFAPWCPACKQMEKVWQEYSGWAQDL---NINVAQV 42
+V +APWCP C+ ME Y A+ L N+ VA+
Sbjct: 24 TLVVLYAPWCPFCQAME---ASYEELAEKLAGSNVKVAKF 60
>gnl|CDD|234717 PRK00293, dipZ, thiol:disulfide interchange protein precursor;
Provisional.
Length = 571
Score = 38.7 bits (91), Expect = 0.002
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 17/68 (25%)
Query: 7 MVEFFAPWCPACKQMEK-------VWQEYSGWAQDLNINVAQVDVTVSP----GLSGRFM 55
M++ +A WC ACK+ EK V Q + + Q DVT + L +
Sbjct: 478 MLDLYADWCVACKEFEKYTFSDPQVQQALADTV------LLQADVTANNAEDVALLKHYN 531
Query: 56 VTALPTIF 63
V LPTI
Sbjct: 532 VLGLPTIL 539
>gnl|CDD|239248 cd02950, TxlA, TRX-like protein A (TxlA) family; TxlA was
originally isolated from the cyanobacterium
Synechococcus. It is found only in oxygenic
photosynthetic organisms. TRX is a small enzyme that
participate in redox reactions, via the reversible
oxidation of an active site dithiol present in a CXXC
motif. Disruption of the txlA gene suggests that the
protein is involved in the redox regulation of the
structure and function of photosynthetic apparatus. The
plant homolog (designated as HCF164) is localized in
the chloroplast and is involved in the assembly of the
cytochrome b6f complex, which takes a central position
in photosynthetic electron transport.
Length = 142
Score = 35.0 bits (81), Expect = 0.012
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 7/41 (17%)
Query: 7 MVEFFAPWCPACKQM----EKVWQEYSGWAQDLNINVAQVD 43
+VEF+A WC C++M K+ Q+Y +N + VD
Sbjct: 24 LVEFYADWCTVCQEMAPDVAKLKQKYG---DQVNFVMLNVD 61
>gnl|CDD|173347 PTZ00051, PTZ00051, thioredoxin; Provisional.
Length = 98
Score = 34.1 bits (78), Expect = 0.013
Identities = 17/62 (27%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPT--IFQ 64
+V+F+A WC CK++ ++E S + + +VDV ++ + +T++PT +F+
Sbjct: 22 IVDFYAEWCGPCKRIAPFYEECS--KEYTKMVFVKVDVDELSEVAEKENITSMPTFKVFK 79
Query: 65 EG 66
G
Sbjct: 80 NG 81
>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 = 34.5 bits (80), Expect = 0.013
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 7 MVEFFAPWCPACKQ----MEKVWQEYSG 30
+V F+A WCP C+ +E + +EY
Sbjct: 23 LVNFWASWCPPCRAEMPELEALAKEYKD 50
>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 = 35.8 bits (82), Expect = 0.020
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 6 WMVEFFAPWCPACKQMEKVWQE 27
W+V +APWCP C+ ME + E
Sbjct: 374 WLVVLYAPWCPFCQAMEASYLE 395
>gnl|CDD|226685 COG4232, COG4232, Thiol:disulfide interchange protein
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 569
Score = 35.4 bits (82), Expect = 0.025
Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 5/62 (8%)
Query: 7 MVEFFAPWCPACKQMEK-VWQEYSGWAQDLNINVAQVDVT----VSPGLSGRFMVTALPT 61
M++F+A WC CK+ EK + + ++ + Q DVT L R V +PT
Sbjct: 478 MLDFYADWCVTCKENEKYTFSDPQVQQALQDVVLLQADVTANDPAITALLKRLGVFGVPT 537
Query: 62 IF 63
Sbjct: 538 YL 539
>gnl|CDD|221969 pfam13190, PDGLE, PDGLE domain. This short presumed domain is
usually found on its own. However, it is also found
associated with pfam01891 suggesting it may have a role
in cobalt uptake. The domain is named after a short
motif found within many members of the family.
Length = 84
Score = 32.5 bits (75), Expect = 0.031
Identities = 12/36 (33%), Positives = 16/36 (44%), Gaps = 5/36 (13%)
Query: 129 MEDYGIPAWGSY--TIFAMVTIMIGALLGLLLVFII 162
+ DY IP TI + V IG L L L + +
Sbjct: 49 LPDYSIPGLDERLGTILSGV---IGVALTLALAYGV 81
>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 = 33.0 bits (76), Expect = 0.035
Identities = 22/65 (33%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 6 WMVEFFAPWCPACKQMEKVWQEYSGWAQDLN-----INVAQVDVT--VSPGLSGRFMVTA 58
W+VEF+A WC C+ W A+DL + VA VD + L F VT
Sbjct: 22 WLVEFYASWCGHCRAFAPTW---KKLARDLRKWRPVVRVAAVDCADEENVALCRDFGVTG 78
Query: 59 LPTIF 63
PT+
Sbjct: 79 YPTLR 83
>gnl|CDD|223600 COG0526, TrxA, Thiol-disulfide isomerase and thioredoxins
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 127
Score = 32.9 bits (74), Expect = 0.047
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTV 46
+V+F+APWCP C+ + +E A++ +V V V V
Sbjct: 36 LVDFWAPWCPPCRAEAPLLEE---LAEEYGGDVEVVAVNV 72
>gnl|CDD|184456 PRK14018, PRK14018, trifunctional thioredoxin/methionine
sulfoxide reductase A/B protein; Provisional.
Length = 521
Score = 34.5 bits (79), Expect = 0.047
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPG 49
+++F+A WCP C E WAQD + A + SPG
Sbjct: 60 LIKFWASWCPLCL---SELGETEKWAQDAKFSSANLITVASPG 99
>gnl|CDD|215175 PLN02309, PLN02309, 5'-adenylylsulfate reductase.
Length = 457
Score = 34.4 bits (79), Expect = 0.047
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 6 WMVEFFAPWCPACKQMEKVWQE 27
W+V +APWCP C+ ME ++E
Sbjct: 368 WLVVLYAPWCPFCQAMEASYEE 389
>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 = 33.0 bits (76), Expect = 0.049
Identities = 17/82 (20%), Positives = 28/82 (34%), Gaps = 21/82 (25%)
Query: 8 VEFFAPWCPACKQME----KVWQEY--------SGWAQDLNINVAQVDVTV------SPG 49
V F+A WCP C+ ++ +Y SG + + +
Sbjct: 25 VYFWATWCPVCRFTSPTVNQLAADYPVVSVALRSGDDGAVARFMQKKGYGFPVINDPDGV 84
Query: 50 LSGRFMVTALPTIF---QEGIR 68
+S R+ V+ P I GI
Sbjct: 85 ISARWGVSVTPAIVIVDPGGIV 106
>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 = 31.2 bits (71), Expect = 0.14
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSG 52
+VEFF P CP C E ++ A D + V + G+
Sbjct: 1 IVEFFDPLCPYCYLFEPELEKLLY-ADDGGVRVVYRPFPLLGGMPP 45
>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 = 30.2 bits (68), Expect = 0.35
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 6 WMVEFFAPWCPACKQMEKVWQEYS 29
W V F++P C C + W+E++
Sbjct: 21 WFVNFYSPRCSHCHDLAPTWREFA 44
>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 = 29.5 bits (66), Expect = 0.46
Identities = 15/57 (26%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 7 MVEFF-APWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPTI 62
+E F +P CP C ++V +E + D + V ++V +P + + + A+P I
Sbjct: 2 KIELFTSPTCPYCPAAKRVVEEVAKEMGDA-VEVEYINVMENPQKAMEYGIMAVPAI 57
>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 = 29.3 bits (66), Expect = 0.84
Identities = 10/39 (25%), Positives = 22/39 (56%)
Query: 6 WMVEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDV 44
++++ + WC +C +E VW+E + L + +A V+
Sbjct: 27 YLIKITSDWCFSCIHIEPVWKEVIQELEPLGVGIATVNA 65
>gnl|CDD|214429 MTH00139, COX2, cytochrome c oxidase subunit II; Provisional.
Length = 226
Score = 29.7 bits (67), Expect = 1.2
Identities = 17/79 (21%), Positives = 31/79 (39%), Gaps = 9/79 (11%)
Query: 101 FPEHSTTIQCNVLMLISEIQNKKMHNKMMEDYGIP------AWGSYTIFAMVTIMIGALL 154
F +H+ I +L + I M NK + W T+ ++ AL
Sbjct: 23 FHDHAMVILIMILSFVGYISLSLMSNKFTSRSLLESQEVETIW---TVLPAFILLFLALP 79
Query: 155 GLLLVFIIDQIYPPSAVVK 173
L L++++D++ P K
Sbjct: 80 SLRLLYLMDEVSDPYLTFK 98
>gnl|CDD|239308 cd03010, TlpA_like_DsbE, TlpA-like family, DsbE (also known as
CcmG and CycY) subfamily; DsbE is a membrane-anchored,
periplasmic TRX-like reductase containing a CXXC motif
that specifically donates reducing equivalents to
apocytochrome c via CcmH, another cytochrome c
maturation (Ccm) factor with a redox active CXXC motif.
Assembly of cytochrome c requires the ligation of heme
to reduced thiols of the apocytochrome. In bacteria,
this assembly occurs in the periplasm. The reductase
activity of DsbE in the oxidizing environment of the
periplasm is crucial in the maturation of cytochrome c.
Length = 127
Score = 28.7 bits (65), Expect = 1.3
Identities = 4/15 (26%), Positives = 10/15 (66%)
Query: 6 WMVEFFAPWCPACKQ 20
+++ +A WC C++
Sbjct: 28 YLLNVWASWCAPCRE 42
>gnl|CDD|182863 PRK10954, PRK10954, periplasmic protein disulfide isomerase I;
Provisional.
Length = 207
Score = 29.7 bits (67), Expect = 1.3
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 8 VEFFAPWCPACKQMEKVWQ 26
+EFF+ +CP C Q E+V+
Sbjct: 42 LEFFSFYCPHCYQFEEVYH 60
>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 = 28.1 bits (63), Expect = 1.5
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 1/56 (1%)
Query: 8 VEFFAPWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMVTALPTIF 63
V F+A WCP + S + ++A + ++ P L R+ V PTI
Sbjct: 23 VLFYASWCPFSASFRPHFNALSSMFPQIR-HLAIEESSIKPSLLSRYGVVGFPTIL 77
>gnl|CDD|220186 pfam09335, SNARE_assoc, SNARE associated Golgi protein. This is a
family of SNARE associated Golgi proteins. The yeast
member of this family localises with the t-SNARE Tlg2.
Length = 123
Score = 28.0 bits (63), Expect = 2.4
Identities = 8/34 (23%), Positives = 18/34 (52%)
Query: 141 TIFAMVTIMIGALLGLLLVFIIDQIYPPSAVVKK 174
+ ++GALLG LL +++ + A+ ++
Sbjct: 16 PWLGFLVALLGALLGSLLAYLLGRYLGRRALRRR 49
>gnl|CDD|235668 PRK06007, fliF, flagellar MS-ring protein; Reviewed.
Length = 542
Score = 29.1 bits (66), Expect = 2.5
Identities = 13/72 (18%), Positives = 28/72 (38%), Gaps = 12/72 (16%)
Query: 133 GIPAWGSYTIFAMVTIMIGALLGLLLVFIIDQIYPPSAVVKKSSVTKKKKGKDLGAKDSD 192
+P W ++ + GALL L+L+F V++ + + + +
Sbjct: 428 ELPFWQQPWFMDLIKLAAGALLILILIFF---------VLRP---RLRPLLPEEELAEEE 475
Query: 193 VETDESDLRDDT 204
+E+ L +D
Sbjct: 476 AAAEEAALEEDE 487
>gnl|CDD|239317 cd03019, DsbA_DsbA, DsbA family, DsbA subfamily; DsbA is a
monomeric thiol disulfide oxidoreductase protein
containing a redox active CXXC motif imbedded in a TRX
fold. It is involved in the oxidative protein folding
pathway in prokaryotes, and is the strongest thiol
oxidant known, due to the unusual stability of the
thiolate anion form of the first cysteine in the CXXC
motif. The highly unstable oxidized form of DsbA
directly donates disulfide bonds to reduced proteins
secreted into the bacterial periplasm. This rapid and
unidirectional process helps to catalyze the folding of
newly-synthesized polypeptides. To regain catalytic
activity, reduced DsbA is then reoxidized by the
membrane protein DsbB, which generates its disulfides
from oxidized quinones, which in turn are reoxidized by
the electron transport chain.
Length = 178
Score = 28.4 bits (64), Expect = 2.8
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 8 VEFFAPWCPACKQMEKVWQEYS 29
+EFF+ CP C E + + +
Sbjct: 20 IEFFSYGCPHCYNFEPILEAWV 41
>gnl|CDD|227301 COG4966, PilW, Tfp pilus assembly protein PilW [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 318
Score = 28.2 bits (63), Expect = 3.7
Identities = 7/24 (29%), Positives = 17/24 (70%)
Query: 143 FAMVTIMIGALLGLLLVFIIDQIY 166
F+++ +MI L+GL+++ + +Y
Sbjct: 15 FSLIELMIALLIGLIVLLAVGSLY 38
>gnl|CDD|182433 PRK10406, PRK10406, alpha-ketoglutarate transporter; Provisional.
Length = 432
Score = 28.6 bits (64), Expect = 3.7
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 138 GSYTIFAMVTIMIGALLGLLLVFIIDQI 165
G Y F VT++ G LL LL+V ++ Q
Sbjct: 159 GFYASFQYVTLIGGQLLALLVVVVLQQT 186
>gnl|CDD|218148 pfam04557, tRNA_synt_1c_R2, Glutaminyl-tRNA synthetase,
non-specific RNA binding region part 2. This is a
region found N terminal to the catalytic domain of
glutaminyl-tRNA synthetase (EC 6.1.1.18) in eukaryotes
but not in Escherichia coli. This region is thought to
bind RNA in a non-specific manner, enhancing
interactions between the tRNA and enzyme, but is not
essential for enzyme function.
Length = 83
Score = 26.6 bits (59), Expect = 4.8
Identities = 12/39 (30%), Positives = 18/39 (46%)
Query: 171 VVKKSSVTKKKKGKDLGAKDSDVETDESDLRDDTGLIEG 209
+VKK KKKK +D A + D+ + +EG
Sbjct: 22 LVKKKKKKKKKKAEDTAATAKAKKATAEDVSEGAMFMEG 60
>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 = 26.5 bits (59), Expect = 4.9
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 7 MVEFFAPWCPACKQMEK-VWQEYSGWAQDLNINVAQVDVT 45
+V+F A WCP C+ +++ + A + +VDVT
Sbjct: 21 LVDFGADWCPTCQALDRDFLSDPRVKALAEKFVLLRVDVT 60
>gnl|CDD|226669 COG4214, XylH, ABC-type xylose transport system, permease component
[Carbohydrate transport and metabolism].
Length = 394
Score = 28.0 bits (63), Expect = 5.0
Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 128 MMEDYGIPAWGSYTIFAM-VTIMIGALLGLLLVFIIDQIYPPSAVV 172
+ +G+P G + VT+++G L+G F I + PS +V
Sbjct: 97 LDVKWGLPWLGWPLPVTIIVTLVLGGLIGAWQGFWIAYLKVPSFIV 142
>gnl|CDD|183832 PRK12935, PRK12935, acetoacetyl-CoA reductase; Provisional.
Length = 247
Score = 27.7 bits (61), Expect = 6.2
Identities = 17/56 (30%), Positives = 28/56 (50%), Gaps = 3/56 (5%)
Query: 30 GWAQDLNINVAQVDVTVS---PGLSGRFMVTALPTIFQEGIRGNIERGYFNIAKEI 82
G+ + L + +A+ +VTV+ PG MV +P ++ I I + F A EI
Sbjct: 165 GFTKSLALELAKTNVTVNAICPGFIDTEMVAEVPEEVRQKIVAKIPKKRFGQADEI 220
>gnl|CDD|223767 COG0695, GrxC, Glutaredoxin and related proteins
[Posttranslational modification, protein turnover,
chaperones].
Length = 80
Score = 26.1 bits (58), Expect = 6.3
Identities = 17/86 (19%), Positives = 30/86 (34%), Gaps = 17/86 (19%)
Query: 7 MVEFFA-PWCPACKQMEKVWQEYSGWAQDLNINVAQVDVTVSPGLSGRFMV------TAL 59
V + P CP CK+ +++ ++ ++DV R MV +
Sbjct: 2 NVTIYTKPGCPYCKRAKRLLDR-------KGVDYEEIDVDDDEPEEAREMVKRGKGQRTV 54
Query: 60 PTIFQEGIRGNIERGYFNIAKEIEEL 85
P IF I G G ++ +
Sbjct: 55 PQIF---IGGKHVGGCDDLDALEAKG 77
>gnl|CDD|129481 TIGR00385, dsbE, periplasmic protein thiol:disulfide
oxidoreductases, DsbE subfamily. Involved in the
biogenesis of c-type cytochromes as well as in
disulfide bond formation in some periplasmic proteins
[Protein fate, Protein folding and stabilization].
Length = 173
Score = 27.0 bits (60), Expect = 6.9
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 7 MVEFFAPWCPACKQMEKVWQEYSGWAQDLNI 37
++ +A WCP C+ E + Q L I
Sbjct: 67 LLNVWASWCPPCRAEHPYLNELA--KQGLPI 95
>gnl|CDD|224088 COG1166, SpeA, Arginine decarboxylase (spermidine biosynthesis)
[Amino acid transport and metabolism].
Length = 652
Score = 27.7 bits (62), Expect = 7.2
Identities = 6/25 (24%), Positives = 13/25 (52%)
Query: 68 RGNIERGYFNIAKEIEELFRVEHNF 92
R E+ Y I ++++L R ++
Sbjct: 439 RAWAEQLYLAICHKVQQLLRQKNRS 463
>gnl|CDD|183235 PRK11618, PRK11618, inner membrane ABC transporter permease protein
YjfF; Provisional.
Length = 317
Score = 27.6 bits (62), Expect = 7.2
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 127 KMMEDYGIPAWGSYTIFAMVTIMIGALLGLLLVFIID 163
K++ DYG F +V +M GA G + +I
Sbjct: 78 KLIGDYGWSPL---LAFPLVLVM-GAAFGAFMGALIH 110
>gnl|CDD|240453 cd12873, SPRY_DDX1, SPRY domain associated with DEAD box gene DDX1.
This SPRY domain is associated with the DEAD box gene,
DDX1, an RNA-dependent ATPase involved in HIV-1 Rev
function and virus replication. It is suggested that
DDX1 acts as a cellular cofactor by promoting
oligomerization of Rev on the Rev response element
(RRE). DDX1 RNA is overexpressed in breast cancer, data
showing a strong and independent association between
poor prognosis and deregulation of the DEAD box protein
DDX1, thus potentially serving as an effective
prognostic biomarker for early recurrence in primary
breast cancer. DDX1 also interacts with RelA and
enhances nuclear factor kappaB-mediated transcription.
DEAD-box proteins are associated with all levels of RNA
metabolism and function, and have been implicated in
translation initiation, transcription, RNA splicing,
ribosome assembly, RNA transport, and RNA decay.
Length = 155
Score = 26.8 bits (60), Expect = 7.5
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 122 KKMHNKMMEDYGIP 135
KK H + EDYG P
Sbjct: 81 KKSHGRQFEDYGEP 94
>gnl|CDD|235957 PRK07193, fliF, flagellar MS-ring protein; Reviewed.
Length = 552
Score = 27.3 bits (61), Expect = 8.9
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 134 IPAWGSYTIFAMVTIMIGALLGLLLVFII 162
+P W ++ A + +IG LL LLL+ +
Sbjct: 423 MPWWQEPSVQAWLRYLIGGLLALLLLLFV 451
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.136 0.412
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: 12,720,835
Number of extensions: 1190819
Number of successful extensions: 1627
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1607
Number of HSP's successfully gapped: 81
Length of query: 250
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 155
Effective length of database: 6,723,972
Effective search space: 1042215660
Effective search space used: 1042215660
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.1 bits)