RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy7938
(305 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 = 219 bits (559), Expect = 3e-68
Identities = 95/254 (37%), Positives = 136/254 (53%), Gaps = 18/254 (7%)
Query: 35 SFVTEFLAGNLKH---SKFKKNLYIHLEEDMAKYKPASPEINVDTVRSFVTEFLAGNLKV 91
V EF S LY +++E + + +R+ E A +
Sbjct: 217 PLVGEFTQETAAKYFESGPLVVLYYNVDESLDP---------FEELRNRFLE-AAKKFRG 266
Query: 92 LFVTINT-DEEDHQKILEFFGMSKDEVPSLRLIRLEEDMAKYKPATPEISVDTVRSFVTE 150
FV DEED + LE+FG+ ++ P++ + LE KY E S + + +FV +
Sbjct: 267 KFVNFAVADEEDFGRELEYFGLKAEKFPAVAIQDLEG-NKKYPMDQEEFSSENLEAFVKD 325
Query: 151 FLAGNLKQHLLSQPLPEDWDKNAVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAP 210
FL G LK +L S+P+PED D+ VKVLV NFDEI D++K VLVEFYAPWCGHCK LAP
Sbjct: 326 FLDGKLKPYLKSEPIPED-DEGPVKVLVGKNFDEIVLDETKDVLVEFYAPWCGHCKNLAP 384
Query: 211 IYDKLGEKFADRD-DITIAKIDATVNELEHTKITSFPTLKLYAKDDNR-VIDYNGERVLE 268
IY++L EK+ D + D+ IAK+DAT N++ ++ FPT+K + Y+G+R LE
Sbjct: 385 IYEELAEKYKDAESDVVIAKMDATANDVPPFEVEGFPTIKFVPAGKKSEPVPYDGDRTLE 444
Query: 269 ALSNFVESGGKEGG 282
S F+
Sbjct: 445 DFSKFIAKHATFPL 458
Score = 96.3 bits (240), Expect = 2e-22
Identities = 42/105 (40%), Positives = 62/105 (59%), Gaps = 4/105 (3%)
Query: 173 AVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRD-DITIAKID 231
V VL NFD+ + VLVEFYAPWCGHCK LAP Y+K ++ + I +AK+D
Sbjct: 2 DVLVLTKDNFDD-FIKSHEFVLVEFYAPWCGHCKSLAPEYEKAADELKKKGPPIKLAKVD 60
Query: 232 ATVNELEHTK--ITSFPTLKLYAKDDNRVIDYNGERVLEALSNFV 274
AT + K ++ +PTLK++ ++ V DYNG R + + ++
Sbjct: 61 ATEEKDLAQKYGVSGYPTLKIFRNGEDSVSDYNGPRDADGIVKYM 105
Score = 36.6 bits (85), Expect = 0.014
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 1 MSKDEVPSLRLIRLEEDMAKYKPATPEINVDTVRSFVTEFLAGNLK 46
+ ++ P++ + LE KY E + + + +FV +FL G LK
Sbjct: 288 LKAEKFPAVAIQDLEG-NKKYPMDQEEFSSENLEAFVKDFLDGKLK 332
>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 = 152 bits (386), Expect = 1e-46
Identities = 53/103 (51%), Positives = 68/103 (66%), Gaps = 2/103 (1%)
Query: 174 VKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDAT 233
VKV+V NFDE+ D K VLVEFYAPWCGHCK LAPIY++L EK D++ IAK+DAT
Sbjct: 2 VKVVVGKNFDEVVLDSDKDVLVEFYAPWCGHCKALAPIYEELAEKLKGDDNVVIAKMDAT 61
Query: 234 VNELEHTKIT-SFPTLKLY-AKDDNRVIDYNGERVLEALSNFV 274
N++ + FPT+ + A D + I Y G+R LE L F+
Sbjct: 62 ANDVPSEFVVDGFPTILFFPAGDKSNPIKYEGDRTLEDLIKFI 104
>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 = 129 bits (327), Expect = 7e-38
Identities = 52/105 (49%), Positives = 63/105 (60%), Gaps = 3/105 (2%)
Query: 173 AVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDA 232
V L SNFD++ D K VLVEFYAPWCGHCK LAP Y+KL FA+ DD+ IAK+DA
Sbjct: 1 NVVELTDSNFDKVVGDDKKDVLVEFYAPWCGHCKNLAPEYEKLAAVFANEDDVVIAKVDA 60
Query: 233 TVNELEHTK---ITSFPTLKLYAKDDNRVIDYNGERVLEALSNFV 274
+ K ++ FPTLK + K + Y G R LE L FV
Sbjct: 61 DEANKDLAKKYGVSGFPTLKFFPKGSTEPVKYEGGRDLEDLVKFV 105
>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 = 129 bits (326), Expect = 1e-37
Identities = 51/102 (50%), Positives = 62/102 (60%), Gaps = 4/102 (3%)
Query: 177 LVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNE 236
L ASNFDEI K VLVEFYAPWCGHCK LAP Y+KL ++ DI +AK+DAT +
Sbjct: 1 LTASNFDEIVLSN-KDVLVEFYAPWCGHCKNLAPEYEKLAKELKKDPDIVLAKVDATAEK 59
Query: 237 L--EHTKITSFPTLKLYAKDDNRVIDYNGERVLEALSNFVES 276
++ FPT+K + K V DY G R LEA+ FV
Sbjct: 60 DLASRFGVSGFPTIKFFPKGKKPV-DYEGGRDLEAIVEFVNE 100
>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 = 128 bits (325), Expect = 1e-37
Identities = 44/102 (43%), Positives = 58/102 (56%), Gaps = 3/102 (2%)
Query: 175 KVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATV 234
L NFDE+ D SK VLVEFYAPWCGHCK LAP Y+KL ++ + +AK+D T
Sbjct: 1 VELTDDNFDELVKD-SKDVLVEFYAPWCGHCKALAPEYEKLAKELKGDGKVVVAKVDCTA 59
Query: 235 NE--LEHTKITSFPTLKLYAKDDNRVIDYNGERVLEALSNFV 274
N + +PT+KL+ + Y G R LE+L F+
Sbjct: 60 NNDLCSEYGVRGYPTIKLFPNGSKEPVKYEGPRTLESLVEFI 101
>gnl|CDD|240266 PTZ00102, PTZ00102, disulphide isomerase; Provisional.
Length = 477
Score = 127 bits (320), Expect = 2e-33
Identities = 81/226 (35%), Positives = 119/226 (52%), Gaps = 31/226 (13%)
Query: 59 EEDMAKYKPASPEINVDTVRSFVTEFLAGNLKVLFVTINTDE-----EDHQKILEFFGMS 113
ED KYK VR + K FV ++T++ ++H I EF G++
Sbjct: 259 TEDYDKYK--------SVVRKVARKLRE---KYAFVWLDTEQFGSHAKEHLLIEEFPGLA 307
Query: 114 KDEVPSLRLIRLEEDMAKYKPATPEI-SVDTVRSFVTEFLAGNLKQHLLSQPLPEDWDKN 172
+ P+ R + PA SV+ + F + AG +++ + S+P+PE+
Sbjct: 308 Y-QSPAGRYL--------LPPAKESFDSVEALIEFFKDVEAGKVEKSIKSEPIPEE-QDG 357
Query: 173 AVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDA 232
VKV+V + F+EI F K VL+E YAPWCGHCK L P+Y++LGEK+ D D I +AK++
Sbjct: 358 PVKVVVGNTFEEIVFKSDKDVLLEIYAPWCGHCKNLEPVYNELGEKYKDNDSIIVAKMNG 417
Query: 233 TVNE--LEHTKITSFPTLKLYAKDDNRV-IDYNGERVLEALSNFVE 275
T NE LE ++FPT+ L+ K R I Y GER +E FV
Sbjct: 418 TANETPLEEFSWSAFPTI-LFVKAGERTPIPYEGERTVEGFKEFVN 462
Score = 81.0 bits (200), Expect = 4e-17
Identities = 37/112 (33%), Positives = 66/112 (58%), Gaps = 6/112 (5%)
Query: 167 EDWDKNAVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADR-DDI 225
E + V VL S FD+ +++ VLV+FYAPWCGHCK+LAP Y K + ++ +I
Sbjct: 27 EHFISEHVTVLTDSTFDKF-ITENEIVLVKFYAPWCGHCKRLAPEYKKAAKMLKEKKSEI 85
Query: 226 TIAKIDAT--VNELEHTKITSFPTLKLYAKDDNRVIDYNGERVLEALSNFVE 275
+A +DAT + + + +PT+K + K + ++Y+G R + + ++++
Sbjct: 86 VLASVDATEEMELAQEFGVRGYPTIKFFNKGNP--VNYSGGRTADGIVSWIK 135
>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 = 117 bits (296), Expect = 3e-33
Identities = 46/105 (43%), Positives = 63/105 (60%), Gaps = 5/105 (4%)
Query: 174 VKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDAT 233
VKVL NFDE K VLV+FYAPWCG CK LAP Y+KL +++ DD+ AK+DA
Sbjct: 2 VKVLTDENFDEEVAKSDKPVLVDFYAPWCGPCKALAPEYEKLAQEYK--DDVKFAKVDAD 59
Query: 234 VNELEHTK--ITSFPTLKLYAKDDNRVIDYNGERVLEALSNFVES 276
N ++ + FPT+K + K+ +V DY G R + L F++
Sbjct: 60 ENPDLASEYGVRGFPTIKFF-KNGKKVSDYVGARTKDDLVAFIKK 103
>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 = 93.5 bits (233), Expect = 4e-24
Identities = 45/107 (42%), Positives = 64/107 (59%), Gaps = 10/107 (9%)
Query: 173 AVKVLVASNFDE-IAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRD-DITIAKI 230
V L NFD IA + V+F+APWCGHCK+LAP +++L +KF + + + IAK+
Sbjct: 1 GVLELTEDNFDHHIA---EGNHFVKFFAPWCGHCKRLAPTWEQLAKKFNNENPSVKIAKV 57
Query: 231 DATV-NEL--EHTKITSFPTLKLYAKDDNRVIDYNGERVLEALSNFV 274
D T EL E ++ +PTL L+ KD +V Y G R L++L FV
Sbjct: 58 DCTQHRELCSEF-QVRGYPTLLLF-KDGEKVDKYKGTRDLDSLKEFV 102
>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 = 90.4 bits (225), Expect = 7e-23
Identities = 37/108 (34%), Positives = 52/108 (48%), Gaps = 12/108 (11%)
Query: 173 AVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDA 232
V L SNFD+ + LVEFYAPWCGHCK LAP + K + + + + +DA
Sbjct: 1 DVVELTDSNFDKKVLNSDDVWLVEFYAPWCGHCKNLAPEWKKAAKAL--KGIVKVGAVDA 58
Query: 233 TVNELEHTKITS------FPTLKLYAKDDNRVIDYNGERVLEALSNFV 274
V H + FPT+K++ N DY G R +A+ +
Sbjct: 59 DV----HQSLAQQYGVRGFPTIKVFGAGKNSPQDYQGGRTAKAIVSAA 102
>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 = 82.8 bits (205), Expect = 5e-20
Identities = 37/101 (36%), Positives = 51/101 (50%), Gaps = 6/101 (5%)
Query: 177 LVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNE 236
L +F + K KHVLV FYAPWCGHCK++ P + K + + +A +D T E
Sbjct: 5 LTDEDFRK-FLKKEKHVLVMFYAPWCGHCKKMKPEFTKAATELKEDGKGVLAAVDCTKPE 63
Query: 237 LEHTK----ITSFPTLKLYAKDDNRVIDYNGERVLEALSNF 273
+ K + FPT K Y ++ V Y GER E + F
Sbjct: 64 HDALKEEYNVKGFPTFK-YFENGKFVEKYEGERTAEDIIEF 103
>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 = 76.2 bits (188), Expect = 2e-17
Identities = 39/105 (37%), Positives = 57/105 (54%), Gaps = 8/105 (7%)
Query: 177 LVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNE 236
L NFD++ + + LVEFYAPWCGHCK L P Y K ++ + D N+
Sbjct: 5 LTPKNFDKVVHNTNYTTLVEFYAPWCGHCKNLKPEYAKAAKELDGLVQVAAVDCDEDKNK 64
Query: 237 ---LEHTKITSFPTLKLY--AKDDNR--VIDYNGERVLEALSNFV 274
++ + FPTLK++ K ++ V DYNGER +A+ +FV
Sbjct: 65 PLCGKY-GVQGFPTLKVFRPPKKASKHAVEDYNGERSAKAIVDFV 108
>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 = 71.8 bits (177), Expect = 4e-16
Identities = 31/100 (31%), Positives = 50/100 (50%), Gaps = 11/100 (11%)
Query: 180 SNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEH 239
F+E+ +K V+V+F+APWCG CK +AP+ ++L E++ + K+D V+E
Sbjct: 1 EEFEELI-KSAKPVVVDFWAPWCGPCKAIAPVLEELAEEY---PKVKFVKVD--VDENPE 54
Query: 240 T----KITSFPTLKLYAKDDNRVIDYNGERVLEALSNFVE 275
+ S PT + K+ V G E L F+E
Sbjct: 55 LAEEYGVRSIPTFLFF-KNGKEVDRVVGADPKEELEEFLE 93
>gnl|CDD|200072 TIGR01068, thioredoxin, thioredoxin. Several proteins, such as
protein disulfide isomerase, have two or more copies of
a domain closely related to thioredoxin. This model is
designed to recognize authentic thioredoxin, a small
protein that should be hit exactly once by This model.
Any protein that hits once with a score greater than the
second (per domain) trusted cutoff may be taken as
thioredoxin [Energy metabolism, Electron transport].
Length = 101
Score = 70.4 bits (173), Expect = 2e-15
Identities = 31/84 (36%), Positives = 46/84 (54%), Gaps = 9/84 (10%)
Query: 179 ASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELE 238
+NFDE K VLV+F+APWCG CK +API ++L +++ + K++ V+E
Sbjct: 3 DANFDETIASSDKPVLVDFWAPWCGPCKMIAPILEELAKEYE--GKVKFVKLN--VDENP 58
Query: 239 HT----KITSFPTLKLYAKDDNRV 258
I S PTL L+ K+ V
Sbjct: 59 DIAAKYGIRSIPTLLLF-KNGKEV 81
>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 = 70.0 bits (172), Expect = 3e-15
Identities = 29/105 (27%), Positives = 53/105 (50%), Gaps = 5/105 (4%)
Query: 173 AVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDA 232
+V L +F E+ ++ + LV+FYAPWCG C+ L P K + + + +D
Sbjct: 2 SVITLTPEDFPELVLNRKEPWLVDFYAPWCGPCQALLPELRKAARALKGK--VKVGSVDC 59
Query: 233 TVNEL--EHTKITSFPTLKLYAKDDNRVIDYNGE-RVLEALSNFV 274
E + I ++PT++LY + ++ YNG R +++ F+
Sbjct: 60 QKYESLCQQANIRAYPTIRLYPGNASKYHSYNGWHRDADSILEFI 104
>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 = 69.0 bits (169), Expect = 7e-15
Identities = 29/86 (33%), Positives = 47/86 (54%), Gaps = 11/86 (12%)
Query: 194 LVEFYAPWCGHCKQLAPIYDKLGEKFADRD-DITIAKIDATV-----NELEHTKITSFPT 247
LV+FYAPWCGHCK+L P+++++G + + + K+DAT +E + +PT
Sbjct: 19 LVDFYAPWCGHCKKLEPVWNEVGAELKSSGSPVRVGKLDATAYSSIASEF---GVRGYPT 75
Query: 248 LKLYAKDDNRVIDYNGERVLEALSNF 273
+KL D +Y G R + + F
Sbjct: 76 IKLLKGD--LAYNYRGPRTKDDIVEF 99
>gnl|CDD|185622 PTZ00443, PTZ00443, Thioredoxin domain-containing protein;
Provisional.
Length = 224
Score = 66.2 bits (161), Expect = 8e-13
Identities = 35/111 (31%), Positives = 61/111 (54%), Gaps = 11/111 (9%)
Query: 170 DKNAVKVLVASNFDEIAFDKSKHV----LVEFYAPWCGHCKQLAPIYDKLGEKFADRDDI 225
D NA+ +L NF+++ + V+FYAPWC HC+++AP +++L + + +
Sbjct: 28 DANALVLLNDKNFEKLTQASTGATTGPWFVKFYAPWCSHCRKMAPAWERLAKAL--KGQV 85
Query: 226 TIAKIDAT--VNELEHTKITSFPTLKLYAKDDNRVIDY-NGERVLEALSNF 273
+A +DAT +N + I +PTL L+ D ++ Y G+R E L+ F
Sbjct: 86 NVADLDATRALNLAKRFAIKGYPTLLLF--DKGKMYQYEGGDRSTEKLAAF 134
>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 = 63.1 bits (154), Expect = 1e-12
Identities = 28/85 (32%), Positives = 40/85 (47%), Gaps = 11/85 (12%)
Query: 173 AVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFAD-RDDITIAKID 231
V VL A++F+ LVEFYA WCGHC+ AP + KL R + +A +D
Sbjct: 2 PVIVLDAASFNSALLGSPSAWLVEFYASWCGHCRAFAPTWKKLARDLRKWRPVVRVAAVD 61
Query: 232 -------ATVNELEHTKITSFPTLK 249
A + +T +PTL+
Sbjct: 62 CADEENVALCRDFG---VTGYPTLR 83
>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 = 61.6 bits (150), Expect = 3e-12
Identities = 35/105 (33%), Positives = 54/105 (51%), Gaps = 10/105 (9%)
Query: 174 VKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDAT 233
V L SN+ + ++EFYAPWC C+QL P +++ + +D I +AK+D T
Sbjct: 3 VVELTDSNWTLVLEG---EWMIEFYAPWCPACQQLQPEWEEFADW-SDDLGINVAKVDVT 58
Query: 234 VNELEHTK--ITSFPTLKLYAKD-DNRVIDYNGERVLEALSNFVE 275
+ +T+ PT+ +AKD R Y G R E L +F+E
Sbjct: 59 QEPGLSGRFFVTALPTI-YHAKDGVFR--RYQGPRDKEDLISFIE 100
>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 = 60.1 bits (146), Expect = 1e-11
Identities = 34/100 (34%), Positives = 50/100 (50%), Gaps = 7/100 (7%)
Query: 181 NFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIY----DKLGEKFADRDDITIAKIDATVNE 236
N D+I ++ VLV FYA WC + L PI+ K+ E+F D + K+D
Sbjct: 10 NIDDI-LQSAELVLVNFYADWCRFSQMLHPIFEEAAAKIKEEFPDAGKVVWGKVDCDKES 68
Query: 237 LEHTK--ITSFPTLKLYAKDDNRVIDYNGERVLEALSNFV 274
+ I +PTLKL+ +Y G+R +EAL+ FV
Sbjct: 69 DIADRYRINKYPTLKLFRNGMMMKREYRGQRSVEALAEFV 108
>gnl|CDD|215175 PLN02309, PLN02309, 5'-adenylylsulfate reductase.
Length = 457
Score = 59.0 bits (143), Expect = 9e-10
Identities = 33/93 (35%), Positives = 52/93 (55%), Gaps = 6/93 (6%)
Query: 189 KSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEHTK----ITS 244
+ + LV YAPWC C+ + Y++L EK A + +AK A ++ E K + S
Sbjct: 364 RKEPWLVVLYAPWCPFCQAMEASYEELAEKLAGS-GVKVAKFRADGDQKEFAKQELQLGS 422
Query: 245 FPTLKLYAKDDNRVIDYNGE-RVLEALSNFVES 276
FPT+ L+ K+ +R I Y E R +++L +FV S
Sbjct: 423 FPTILLFPKNSSRPIKYPSEKRDVDSLLSFVNS 455
>gnl|CDD|239280 cd02982, PDI_b'_family, Protein Disulfide Isomerase (PDIb') family,
redox inactive TRX-like domain b'; 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, calsequestrin and other PDI-related
proteins like ERp72, ERp57 (or ERp60), ERp44, P5 and
PDIR. PDI, ERp57, ERp72, P5 and PDIR 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 contain multiple copies of a redox active TRX
(a) domain containing a CXXC motif, and one or more
redox inactive TRX-like (b) domains. The molecular
structure of PDI is abb'a'. Also included in this family
is the PDI-related protein ERp27, which contains only
redox-inactive TRX-like (b and b') domains. The redox
inactive domains are implicated in substrate recognition
with the b' domain serving as the primary substrate
binding site. Only the b' domain is necessary for the
binding of small peptide substrates. In addition to the
b' domain, other domains are required for the binding of
larger polypeptide substrates. The b' domain is also
implicated in chaperone activity.
Length = 103
Score = 54.2 bits (131), Expect = 1e-09
Identities = 21/63 (33%), Positives = 39/63 (61%), Gaps = 3/63 (4%)
Query: 90 KVLFVTINTDEEDHQKILEFFGMSKDEVPSLRLIRLEEDMAKYKPATPEISVDTVRSFVT 149
K+LFV + D +D + LE+FG+ ++++P + +I L D KY E++ +++ FV
Sbjct: 44 KLLFVVV--DADDFGRHLEYFGLKEEDLPVIAIINL-SDGKKYLMPEEELTAESLEEFVE 100
Query: 150 EFL 152
+FL
Sbjct: 101 DFL 103
Score = 28.8 bits (65), Expect = 1.1
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 4/58 (6%)
Query: 28 INVDTVRSFVTEFLAGNLKHSKFKKNLYIHLEEDMAKYKPASPEINVDTVRSFVTEFL 85
++ D + F LK I+L D KY E+ +++ FV +FL
Sbjct: 50 VDADDFGRHLEYF---GLKEEDLPVIAIINLS-DGKKYLMPEEELTAESLEEFVEDFL 103
>gnl|CDD|173347 PTZ00051, PTZ00051, thioredoxin; Provisional.
Length = 98
Score = 53.0 bits (127), Expect = 4e-09
Identities = 25/63 (39%), Positives = 39/63 (61%), Gaps = 9/63 (14%)
Query: 193 VLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNEL----EHTKITSFPTL 248
V+V+FYA WCG CK++AP Y++ +++ + K+D V+EL E ITS PT
Sbjct: 21 VIVDFYAEWCGPCKRIAPFYEECSKEYT---KMVFVKVD--VDELSEVAEKENITSMPTF 75
Query: 249 KLY 251
K++
Sbjct: 76 KVF 78
>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 = 51.7 bits (124), Expect = 1e-08
Identities = 30/86 (34%), Positives = 47/86 (54%), Gaps = 6/86 (6%)
Query: 194 LVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEHTK----ITSFPTLK 249
LV YAPWC C+ + Y++L EK A ++ +AK +A + E K + SFPT+
Sbjct: 25 LVVLYAPWCPFCQAMEASYEELAEKLAGS-NVKVAKFNADGEQREFAKEELQLKSFPTIL 83
Query: 250 LYAKDDNRVIDYNGE-RVLEALSNFV 274
+ K+ + I Y E R +++L FV
Sbjct: 84 FFPKNSRQPIKYPSEQRDVDSLLMFV 109
>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 = 52.7 bits (126), Expect = 8e-08
Identities = 31/86 (36%), Positives = 45/86 (52%), Gaps = 6/86 (6%)
Query: 194 LVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEHTK----ITSFPTLK 249
LV YAPWC C+ + Y +L EK A +AK A ++ E K + SFPT+
Sbjct: 375 LVVLYAPWCPFCQAMEASYLELAEKLAGSGV-KVAKFRADGDQKEFAKQELQLGSFPTIL 433
Query: 250 LYAKDDNRVIDYNGE-RVLEALSNFV 274
+ K +R I Y E R +++L +FV
Sbjct: 434 FFPKHSSRPIKYPSEKRDVDSLMSFV 459
>gnl|CDD|181812 PRK09381, trxA, thioredoxin; Provisional.
Length = 109
Score = 48.1 bits (114), Expect = 2e-07
Identities = 26/77 (33%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 177 LVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNE 236
L +FD +LV+F+A WCG CK +API D++ +++ + +T+AK++ N
Sbjct: 8 LTDDSFDTDVLKADGAILVDFWAEWCGPCKMIAPILDEIADEYQGK--LTVAKLNIDQNP 65
Query: 237 LEHTK--ITSFPTLKLY 251
K I PTL L+
Sbjct: 66 GTAPKYGIRGIPTLLLF 82
>gnl|CDD|223600 COG0526, TrxA, Thiol-disulfide isomerase and thioredoxins
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 127
Score = 48.4 bits (114), Expect = 3e-07
Identities = 27/84 (32%), Positives = 42/84 (50%), Gaps = 8/84 (9%)
Query: 189 KSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEH-----TKIT 243
K K VLV+F+APWC C+ AP+ ++L E++ D+ + ++ + +
Sbjct: 31 KGKPVLVDFWAPWCPPCRAEAPLLEELAEEY--GGDVEVVAVNVDDENPDLAAEFGVAVR 88
Query: 244 SFPTLKLYAKDDNRVIDYNGERVL 267
S PTL L KD V G +VL
Sbjct: 89 SIPTL-LLFKDGKEVDRLVGGKVL 111
>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 = 47.1 bits (112), Expect = 5e-07
Identities = 30/100 (30%), Positives = 44/100 (44%), Gaps = 14/100 (14%)
Query: 180 SNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEH 239
+FD + V FY+P C HC LAP + +FA D I +I A VN +
Sbjct: 9 GDFDAAVNS-GEIWFVNFYSPRCSHCHDLAPTW----REFAKEMDGVI-RIGA-VNCGDD 61
Query: 240 ------TKITSFPTLKLYAKDDNRVIDYNGERVLEALSNF 273
+ S+P+L ++ N Y G+R E+L F
Sbjct: 62 RMLCRSQGVNSYPSLYVFPSGMNPE-KYYGDRSKESLVKF 100
>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 = 46.6 bits (111), Expect = 2e-06
Identities = 19/48 (39%), Positives = 29/48 (60%)
Query: 184 EIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKID 231
E+A K LVEFYA WC C+++AP KL +K+ D+ + + +D
Sbjct: 14 EVALSNGKPTLVEFYADWCTVCQEMAPDVAKLKQKYGDQVNFVMLNVD 61
>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 = 45.0 bits (107), Expect = 2e-06
Identities = 25/92 (27%), Positives = 42/92 (45%), Gaps = 2/92 (2%)
Query: 183 DEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEHTKI 242
D +AF++ + V FYA WC P ++ L F + I + + L +
Sbjct: 11 DLMAFNREDYTAVLFYASWCPFSASFRPHFNALSSMFPQIRHLAIEESSIKPSLLSRYGV 70
Query: 243 TSFPTLKLYAKDDNRVIDYNGERVLEALSNFV 274
FPT+ L+ + + YNG R L++L+ F
Sbjct: 71 VGFPTILLF--NSTPRVRYNGTRTLDSLAAFY 100
>gnl|CDD|182889 PRK10996, PRK10996, thioredoxin 2; Provisional.
Length = 139
Score = 45.4 bits (108), Expect = 3e-06
Identities = 24/91 (26%), Positives = 45/91 (49%), Gaps = 16/91 (17%)
Query: 179 ASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELE 238
D++ D V+++F+APWCG C+ API++ + + + + + K++ T E E
Sbjct: 42 GETLDKLLQD-DLPVVIDFWAPWCGPCRNFAPIFEDVAAERSGK--VRFVKVN-TEAERE 97
Query: 239 ---HTKITSFPTLKLYAKDDNRVIDYNGERV 266
+I S PT+ ++ NG+ V
Sbjct: 98 LSARFRIRSIPTIMIFK---------NGQVV 119
>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 = 43.1 bits (101), Expect = 5e-06
Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 8/72 (11%)
Query: 194 LVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEHTKITSF-----PTL 248
LV FYAPWC C+ L P+ +L + +D + ++ + PTL
Sbjct: 1 LVLFYAPWCPFCQALRPVLAELALLN---KGVKFEAVDVDEDPALEKELKRYGVGGVPTL 57
Query: 249 KLYAKDDNRVID 260
++
Sbjct: 58 VVFGPGIGVKYG 69
>gnl|CDD|225660 COG3118, COG3118, Thioredoxin domain-containing protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 304
Score = 46.6 bits (111), Expect = 5e-06
Identities = 35/132 (26%), Positives = 58/132 (43%), Gaps = 15/132 (11%)
Query: 180 SNFDEIAFDKSKH--VLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNEL 237
+NF++ S+ VLV+F+APWCG CKQL P +KL ++ + +AK++ +
Sbjct: 31 ANFEQEVIQSSREVPVLVDFWAPWCGPCKQLTPTLEKLAAEYKGK--FKLAKVNCDAEPM 88
Query: 238 --EHTKITSFPTLKLYAKDDNRVID-YNGERVLEALSNFVES-GGKEGGLPSG-----AQ 288
+ S PT +YA D + +D + G + L F++ E +
Sbjct: 89 VAAQFGVQSIPT--VYAFKDGQPVDGFQGAQPESQLRQFLDKVLPAEEEEALAEAKELIE 146
Query: 289 QGKFRLVYSLFK 300
F L K
Sbjct: 147 AEDFGEAAPLLK 158
>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 = 41.5 bits (98), Expect = 3e-05
Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 5/58 (8%)
Query: 180 SNFDEIAFDKSKH--VLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVN 235
NF ++ +S V+V+F+AP K+L P+ ++L E++ + +AK++
Sbjct: 1 QNFQQV-LQESTQVPVVVDFWAPRSPPSKELLPLLERLAEEYQGQ--FVLAKVNCDAQ 55
>gnl|CDD|221921 pfam13098, Thioredoxin_2, Thioredoxin-like domain.
Length = 105
Score = 40.5 bits (95), Expect = 1e-04
Identities = 19/92 (20%), Positives = 29/92 (31%), Gaps = 16/92 (17%)
Query: 188 DKSKHVLVEFYAPWCGHCKQLAP-------IYDKLGEKFA--------DRDDITIAKIDA 232
K VLV F P C +CK+L + + L + F ++
Sbjct: 3 GNGKPVLVVFTDPDCPYCKKLHKELLKDPDVQEYLKDNFVVIYVNVDDSKEVTDFDGETL 62
Query: 233 TVNELEHT-KITSFPTLKLYAKDDNRVIDYNG 263
+ EL + PT+ D V G
Sbjct: 63 SEKELARKYGVRGTPTIVFLDGDGKEVARLPG 94
>gnl|CDD|222416 pfam13848, Thioredoxin_6, Thioredoxin-like domain.
Length = 183
Score = 41.6 bits (98), Expect = 1e-04
Identities = 22/128 (17%), Positives = 46/128 (35%), Gaps = 22/128 (17%)
Query: 23 PATPEINVDTVRSFVTEFLAGNLKHSKFKKNLYIHLEEDMAKYKPASPEINVDTVRSFVT 82
P E + K L + +++D E + V
Sbjct: 78 PLVGEFTPENAEELFES-----------GKPLLLFIKKD-----SEETEKLKNRVEEVAK 121
Query: 83 EFLAGNLKVLFVTINTDEEDHQKILEFFGMSKDEVPSLRLIRLEEDMAKYKPATPEISVD 142
+F K+ F T++ +LE+ G+S ++P + ++ KY P E S +
Sbjct: 122 KFKG---KINFATVDGKSFGR--VLEYLGLSSADLPVIVIVDSASHKKKYFP-EDEFSPE 175
Query: 143 TVRSFVTE 150
+++ F+ +
Sbjct: 176 SLKEFLND 183
>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 = 39.1 bits (92), Expect = 4e-04
Identities = 13/35 (37%), Positives = 19/35 (54%)
Query: 189 KSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRD 223
K K VLV F+A WC C+ P + L +++ D
Sbjct: 18 KGKVVLVNFWASWCPPCRAEMPELEALAKEYKDDG 52
>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 = 39.7 bits (93), Expect = 5e-04
Identities = 16/50 (32%), Positives = 27/50 (54%), Gaps = 1/50 (2%)
Query: 182 FDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKID 231
+E+ DK LVEF+ W C AP++ +L K+ + +++ KID
Sbjct: 39 EEELERDKRVTWLVEFFTTWSPECVNFAPVFAELSLKYNN-NNLKFGKID 87
>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 = 36.8 bits (86), Expect = 0.001
Identities = 16/78 (20%), Positives = 30/78 (38%), Gaps = 8/78 (10%)
Query: 195 VEFYA-PWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNEL-EHTKITSFPTLKLYA 252
V Y P C +CK D+ G F + D + + + EL + S P + +
Sbjct: 2 VTVYTKPDCPYCKATKRFLDERGIPFEEVD---VDEDPEALEELKKLNGYRSVPVVVI-- 56
Query: 253 KDDNRVIDYNGERVLEAL 270
D + + +++ L
Sbjct: 57 -GDEHLSGFRPDKLRALL 73
>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 = 36.3 bits (84), Expect = 0.003
Identities = 23/83 (27%), Positives = 39/83 (46%), Gaps = 1/83 (1%)
Query: 193 VLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEHTKITSFPTLKLYA 252
+LV + +P CG C+ L PI +K+ ++F ID E I PT++ +
Sbjct: 16 ILVLYTSPTCGPCRTLKPILNKVIDEFDGAVHFVEIDIDEDQEIAEAAGIMGTPTVQFF- 74
Query: 253 KDDNRVIDYNGERVLEALSNFVE 275
KD V + +G ++ F+E
Sbjct: 75 KDKELVKEISGVKMKSEYREFIE 97
>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 = 35.3 bits (82), Expect = 0.015
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 189 KSKHVLVEFYAPWCGHCKQLAPIYDKLGEK 218
+VEF+ CG+CK+LAP +KL ++
Sbjct: 4 NGDVTIVEFFDYNCGYCKKLAPELEKLLKE 33
>gnl|CDD|222448 pfam13905, Thioredoxin_8, Thioredoxin-like. Thioredoxins are small
enzymes that participate in redox reactions, via the
reversible oxidation of an active centre disulfide bond.
Length = 94
Score = 33.5 bits (77), Expect = 0.023
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 190 SKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITI 227
K VL+ F+A WC C+ P +L EK + I
Sbjct: 1 GKVVLLYFWASWCPPCRAFTPELKELYEKLKK-PKVEI 37
>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 = 33.4 bits (77), Expect = 0.023
Identities = 19/63 (30%), Positives = 36/63 (57%), Gaps = 4/63 (6%)
Query: 188 DKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDA-TVNEL-EHTKITSF 245
D SK +++ F+APW CKQ+ ++++L ++ + I+A + E+ E +IT+
Sbjct: 12 DASKLLVLHFWAPWAEPCKQMNQVFEELAKEAF--PSVLFLSIEAEELPEISEKFEITAV 69
Query: 246 PTL 248
PT
Sbjct: 70 PTF 72
>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 = 34.2 bits (79), Expect = 0.023
Identities = 13/39 (33%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 182 FDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFA 220
FD + K VLV F+A WC C+ +P ++L +
Sbjct: 13 FDLESLSG-KPVLVYFWATWCPVCRFTSPTVNQLAADYP 50
>gnl|CDD|239262 cd02964, TryX_like_family, Tryparedoxin (TryX)-like family;
composed of TryX and related proteins including
nucleoredoxin (NRX), rod-derived cone viability factor
(RdCVF) and the nematode homolog described as a 16-kD
class of TRX. Most members of this family, except RdCVF,
are protein disulfide oxidoreductases containing an
active site CXXC motif, similar to TRX.
Length = 132
Score = 34.1 bits (79), Expect = 0.029
Identities = 12/35 (34%), Positives = 17/35 (48%), Gaps = 4/35 (11%)
Query: 191 KHVLVEFYAPWCGHCKQLAPI----YDKLGEKFAD 221
K V + F A WC C+ P Y+KL E+ +
Sbjct: 18 KTVGLYFSASWCPPCRAFTPKLVEFYEKLKEEGKN 52
>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 = 32.8 bits (75), Expect = 0.040
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 194 LVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITI 227
+VEF+ P C +C P +KL +AD + +
Sbjct: 1 IVEFFDPLCPYCYLFEPELEKL--LYADDGGVRV 32
>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 = 32.2 bits (74), Expect = 0.082
Identities = 21/92 (22%), Positives = 30/92 (32%), Gaps = 15/92 (16%)
Query: 189 KSKHVLVEFYAPWCGHCKQL-------APIYDKLGEKFAD-RDDITIAKIDATVNE-LEH 239
+ K V V+F A WC CK + L + R D T K D + L+
Sbjct: 10 QGKPVFVDFTADWCVTCKVNEKVVFSDPEVQAALKKDVVLLRADWT--KNDPEITALLKR 67
Query: 240 TKITSFPTLKLYAKDDNRVIDYNGERVLEALS 271
+ PT Y R+ L+
Sbjct: 68 FGVFGPPTYLFYGPGGEP----EPLRLPGFLT 95
>gnl|CDD|183859 PRK13103, secA, preprotein translocase subunit SecA; Reviewed.
Length = 913
Score = 33.8 bits (77), Expect = 0.11
Identities = 15/41 (36%), Positives = 23/41 (56%)
Query: 142 DTVRSFVTEFLAGNLKQHLLSQPLPEDWDKNAVKVLVASNF 182
+T+ F E L + QH+ Q LPE WD ++ +AS+F
Sbjct: 674 ETIAEFREEVLNATISQHIPPQSLPEQWDVAGLEAALASDF 714
>gnl|CDD|239307 cd03009, TryX_like_TryX_NRX, Tryparedoxin (TryX)-like family, TryX
and nucleoredoxin (NRX) subfamily; TryX and NRX are
thioredoxin (TRX)-like protein disulfide oxidoreductases
that alter the redox state of target proteins via the
reversible oxidation of an active center CXXC motif.
TryX is involved in the regulation of oxidative stress
in parasitic trypanosomatids by reducing TryX
peroxidase, which in turn catalyzes the reduction of
hydrogen peroxide and organic hydroperoxides. TryX
derives reducing equivalents from reduced trypanothione,
a polyamine peptide conjugate unique to trypanosomatids,
which is regenerated by the NADPH-dependent flavoprotein
trypanothione reductase. Vertebrate NRX is a 400-amino
acid nuclear protein with one redox active TRX domain
containing a CPPC active site motif followed by one
redox inactive TRX-like domain. Mouse NRX transcripts
are expressed in all adult tissues but is restricted to
the nervous system and limb buds in embryos. Plant NRX,
longer than the vertebrate NRX by about 100-200 amino
acids, is a nuclear protein containing a redox inactive
TRX-like domain between two redox active TRX domains.
Both vertebrate and plant NRXs show thiol oxidoreductase
activity in vitro. Their localization in the nucleus
suggests a role in the redox regulation of nuclear
proteins such as transcription factors.
Length = 131
Score = 32.3 bits (74), Expect = 0.13
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 13/47 (27%)
Query: 191 KHVLVEFYAPWCGHCK----QLAPIYDKL---GEKF------ADRDD 224
K V + F A WC C+ +L Y+KL G+ F DRD+
Sbjct: 19 KTVGLYFSASWCPPCRAFTPKLVEFYEKLKESGKNFEIVFISWDRDE 65
>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 = 30.9 bits (70), Expect = 0.28
Identities = 9/39 (23%), Positives = 20/39 (51%)
Query: 184 EIAFDKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADR 222
E ++ LV +YAPW + ++++ +K +D+
Sbjct: 23 EELRTDAEVSLVMYYAPWDAQSQAARQEFEQVAQKLSDQ 61
>gnl|CDD|226685 COG4232, COG4232, Thiol:disulfide interchange protein
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 569
Score = 32.3 bits (74), Expect = 0.28
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 2/60 (3%)
Query: 183 DEIAFDKSKHVLVEFYAPWCGHCKQLAP-IYDKLGEKFADRDDITIAKIDATVNELEHTK 241
+A K+K V+++FYA WC CK+ + + A D+ + + D T N+ T
Sbjct: 467 QALAEAKAKPVMLDFYADWCVTCKENEKYTFSDPQVQQA-LQDVVLLQADVTANDPAITA 525
>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 = 29.6 bits (67), Expect = 0.40
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 6/42 (14%)
Query: 184 EIAFDKSKHVLVEFYAPWCGHCKQLA------PIYDKLGEKF 219
A ++ K +LV+F A WC C+ L P L EKF
Sbjct: 11 AKAREEGKPLLVDFGADWCPTCQALDRDFLSDPRVKALAEKF 52
>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 = 31.1 bits (71), Expect = 0.41
Identities = 16/77 (20%), Positives = 28/77 (36%), Gaps = 19/77 (24%)
Query: 155 NLKQHLLSQPLPEDWD----KNAVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAP 210
+L + L+Q D +A+ N K V+ F P C +C++L
Sbjct: 47 DLTEARLAQLNAIDLSALPLDDAIVY-GKGN--------GKRVVYVFTDPDCPYCRKLEK 97
Query: 211 IYDKLGEKFADRDDITI 227
E + D +T+
Sbjct: 98 ------ELKPNADGVTV 108
>gnl|CDD|221789 pfam12818, Tegument_dsDNA, dsDNA viral tegument protein. This is a
family of tegument proteins from double-stranded DNA
herpesvirus and related viral species.
Length = 282
Score = 31.2 bits (71), Expect = 0.51
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 2/59 (3%)
Query: 53 NLYI-HLEEDMAKYKPASPEINVDTVRSFVTE-FLAGNLKVLFVTINTDEEDHQKILEF 109
L++ L +D+ ASP+ DTV FV+ FL V+F+ ++ D
Sbjct: 195 TLFLSKLPQDILSQLKASPDAEEDTVEEFVSGYFLNVYCSVVFLVVSDDPIATPGGQGR 253
>gnl|CDD|215931 pfam00462, Glutaredoxin, Glutaredoxin.
Length = 60
Score = 28.6 bits (65), Expect = 0.71
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 4/50 (8%)
Query: 200 PWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNEL-EHTKITSFPTL 248
P C CK+ + D LG KF + D + + EL E + + P +
Sbjct: 7 PTCPFCKRAKRLLDSLGVKFEEID---VDEDPEIREELKELSGWPTVPQV 53
>gnl|CDD|222147 pfam13462, Thioredoxin_4, Thioredoxin.
Length = 170
Score = 30.0 bits (68), Expect = 0.83
Identities = 8/37 (21%), Positives = 15/37 (40%)
Query: 189 KSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDI 225
+ ++E+ C HC + KL K+ D +
Sbjct: 12 DAPVTVIEYADFTCPHCARFHEEVKKLLAKYIDTGKV 48
>gnl|CDD|129481 TIGR00385, dsbE, periplasmic protein thiol:disulfide
oxidoreductases, DsbE subfamily. Involved in the
biogenesis of c-type cytochromes as well as in disulfide
bond formation in some periplasmic proteins [Protein
fate, Protein folding and stabilization].
Length = 173
Score = 30.1 bits (68), Expect = 0.95
Identities = 14/61 (22%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 155 NLKQHLLSQPLPEDWDKNAVKVLVASNFDEIAFDKSKHVLVEFYAPWCGHCKQLAPIYDK 214
L L+ +P+P + + D + K VL+ +A WC C+ P ++
Sbjct: 30 ALPSALIGKPVPAFRLASLDEPGQFYTADV--LTQGKPVLLNVWASWCPPCRAEHPYLNE 87
Query: 215 L 215
L
Sbjct: 88 L 88
>gnl|CDD|185219 PRK15319, PRK15319, AIDA autotransporter-like protein ShdA;
Provisional.
Length = 2039
Score = 30.8 bits (69), Expect = 1.0
Identities = 16/52 (30%), Positives = 25/52 (48%)
Query: 212 YDKLGEKFADRDDITIAKIDATVNELEHTKITSFPTLKLYAKDDNRVIDYNG 263
+D L +R+D+ ID V+E ++T +L YA DN D +G
Sbjct: 1149 FDDLTIAGMNREDVDFLTIDGKVDEADNTHYDLTASLSWYADRDNATTDAHG 1200
>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 = 27.9 bits (62), Expect = 1.7
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 197 FYAPWCGHCKQLAPIYDKLG 216
+ WCG+C QL DKLG
Sbjct: 5 YGTTWCGYCAQLMRTLDKLG 24
>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 = 28.3 bits (64), Expect = 2.7
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 189 KSKHVLVEFYAPWCGHCKQLAPIYDKLGEK 218
K K L+ +A WC C++ P+ L +
Sbjct: 24 KGKPYLLNVWASWCAPCREEHPVLMALARQ 53
>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 = 28.6 bits (64), Expect = 2.7
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 190 SKHVLVEFYAPWCGHCKQLAPIYDKLGEKF 219
+ LV FY C +C Q AP+ + ++F
Sbjct: 50 DDYALVFFYQSTCPYCHQFAPVLKRFSQQF 79
>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 = 27.6 bits (62), Expect = 4.1
Identities = 12/50 (24%), Positives = 19/50 (38%), Gaps = 3/50 (6%)
Query: 177 LVASNFDEIAFD--KSKHVLVEFYAP-WCGHCKQLAPIYDKLGEKFADRD 223
L + E++ K K V++ FY + C P L E+F
Sbjct: 10 LPDLDGKEVSLSDYKGKWVVLFFYPKDFTPVCTTELPALADLYEEFKKLG 59
>gnl|CDD|234717 PRK00293, dipZ, thiol:disulfide interchange protein precursor;
Provisional.
Length = 571
Score = 28.6 bits (65), Expect = 4.6
Identities = 24/90 (26%), Positives = 35/90 (38%), Gaps = 27/90 (30%)
Query: 189 KSKHVLVEFYAPWCGHCKQLAPIYDKLGEK--FADRD------DITIAKIDATVNE---- 236
K K V+++ YA WC CK+ EK F+D D + + D T N
Sbjct: 473 KGKPVMLDLYADWCVACKEF--------EKYTFSDPQVQQALADTVLLQADVTANNAEDV 524
Query: 237 --LEHTKITSFPTLKLYAKD-----DNRVI 259
L+H + PT+ + D RV
Sbjct: 525 ALLKHYNVLGLPTILFFDAQGQEIPDARVT 554
>gnl|CDD|179545 PRK03147, PRK03147, thiol-disulfide oxidoreductase; Provisional.
Length = 173
Score = 27.7 bits (62), Expect = 5.5
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 189 KSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADR 222
K K V + F+ WC C++ P ++L K+ ++
Sbjct: 60 KGKGVFLNFWGTWCKPCEKEMPYMNELYPKYKEK 93
>gnl|CDD|239283 cd02985, TRX_CDSP32, TRX family, chloroplastic drought-induced
stress protein of 32 kD (CDSP32); CDSP32 is composed of
two TRX domains, a C-terminal TRX domain which contains
a redox active CXXC motif and an N-terminal TRX-like
domain which contains an SXXS sequence instead of the
redox active motif. CDSP32 is a stress-inducible TRX,
i.e., it acts as a TRX by reducing protein disulfides
and is induced by environmental and oxidative stress
conditions. It plays a critical role in plastid defense
against oxidative damage, a role related to its function
as a physiological electron donor to BAS1, a plastidic
2-cys peroxiredoxin. Plants lacking CDSP32 exhibit
decreased photosystem II photochemical efficiencies and
chlorophyll retention compared to WT controls, as well
as an increased proportion of BAS1 in its overoxidized
monomeric form.
Length = 103
Score = 27.1 bits (60), Expect = 5.7
Identities = 18/81 (22%), Positives = 31/81 (38%), Gaps = 9/81 (11%)
Query: 188 DKSKHVLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKI-----DATVNELEHTKI 242
K + V++EF G ++ P KL +D+ + D+T+ KI
Sbjct: 13 AKGRLVVLEFALKHSGPSVKIYPTMVKLSRTC---NDVVFLLVNGDENDSTMELCRREKI 69
Query: 243 TSFPTLKLYAKDDNRVIDYNG 263
P Y KD ++ + G
Sbjct: 70 IEVPHFLFY-KDGEKIHEEEG 89
>gnl|CDD|239279 cd02981, PDI_b_family, Protein Disulfide Isomerase (PDIb) family,
redox inactive TRX-like domain b; 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,
calsequestrin and other PDI-related proteins like ERp72,
ERp57, ERp44 and PDIR. PDI, ERp57 (or ERp60), ERp72 and
PDIR 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 contain multiple
copies of a redox active TRX (a) domain containing a
CXXC motif, and one or more redox inactive TRX-like (b)
domains. The molecular structure of PDI is abb'a'. Also
included in this family is the PDI-related protein
ERp27, which contains only redox-inactive TRX-like (b
and b') domains. The redox inactive b domains are
implicated in substrate recognition.
Length = 97
Score = 26.5 bits (59), Expect = 6.2
Identities = 11/55 (20%), Positives = 23/55 (41%), Gaps = 2/55 (3%)
Query: 222 RDDITIAKIDATVNELEHTKITSFPTLKLYAKDDNRVIDYNGERVLEALSNFVES 276
RDD + E+ ++ L+ + ++Y+GE E+L F++
Sbjct: 44 RDDYGFG--HTSDKEVAKKLKVKPGSVVLFKPFEEEPVEYDGEFTEESLVEFIKD 96
>gnl|CDD|184456 PRK14018, PRK14018, trifunctional thioredoxin/methionine sulfoxide
reductase A/B protein; Provisional.
Length = 521
Score = 27.9 bits (62), Expect = 6.9
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 187 FDKSKHVLVEFYAPWCGHC 205
K K L++F+A WC C
Sbjct: 53 LKKDKPTLIKFWASWCPLC 71
>gnl|CDD|239052 cd02137, Nitroreductase_1, Nitroreductase-like family 1. A
subfamily of the nitroreductase family containing
uncharacterized proteins that are similar to
nitroreductase. Nitroreductase catalyzes the reduction
of nitroaromatic compounds such as nitrotoluenes,
nitrofurans and nitroimidazoles. This process requires
NAD(P)H as electron donor in an obligatory two-electron
transfer and uses FMN as cofactor. The enzyme is
typically a homodimer. Members of this family are also
called NADH dehydrogenase, oxygen-insensitive NAD(P)H
nitrogenase or dihydropteridine reductase.
Length = 148
Score = 27.2 bits (61), Expect = 7.6
Identities = 11/43 (25%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 102 DHQKILEFFGMSKDEVPSLRLIRLEEDMAKYKPATPEISVDTV 144
D +K+ E + VP + LI + + + P + + VD V
Sbjct: 107 DAEKVAELLNLPARYVPVM-LIAIGKAAEEEGPPSYRLPVDEV 148
>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 = 26.7 bits (59), Expect = 8.8
Identities = 12/42 (28%), Positives = 19/42 (45%), Gaps = 6/42 (14%)
Query: 184 EIAFDKSKHVLVEFYAPWCGHCKQLAPIY------DKLGEKF 219
+ A D K +++ + WCG CK L P + +L F
Sbjct: 13 KEAKDSGKPLMLLIHKTWCGACKALKPKFAESKEISELSHNF 54
>gnl|CDD|225931 COG3396, COG3396, Uncharacterized conserved protein [Function
unknown].
Length = 265
Score = 27.3 bits (61), Expect = 9.9
Identities = 12/48 (25%), Positives = 18/48 (37%), Gaps = 15/48 (31%)
Query: 193 VLVEFYAPWCGHCKQLAPIYDKLGEKFADRDDITIAKIDATVNELEHT 240
VL W GH AP + +D+ +A I +E+ H
Sbjct: 33 VLALREGEWLGH----APTLE---------EDLALANI--VQDEMGHG 65
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
0.317 0.135 0.387
Gapped
Lambda K H
0.267 0.0674 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,926,166
Number of extensions: 1565546
Number of successful extensions: 1610
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1571
Number of HSP's successfully gapped: 90
Length of query: 305
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 208
Effective length of database: 6,635,264
Effective search space: 1380134912
Effective search space used: 1380134912
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: 59 (26.6 bits)