RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy543
(278 letters)
>gnl|CDD|218936 pfam06201, PITH, PITH domain. This family was formerly known as
DUF1000. The full-length, Txnl1, protein which is a
probable component of the 26S proteasome, uses its
C-terminal, PITH, domain to associate specifically with
the 26S proteasome. PITH derives from
proteasome-interacting thioredoxin domain.
Length = 151
Score = 167 bits (426), Expect = 2e-52
Identities = 70/152 (46%), Positives = 87/152 (57%), Gaps = 10/152 (6%)
Query: 116 DLTSFIMKNQCEALNESDQHPFTNCL-------NTAETYLESDADEQLILSFTFNQSVKI 168
L S I ++ E LNESD+ L E YLESDADEQL+++ F Q VK+
Sbjct: 1 SLYSQIDLDKVECLNESDEGSGAKSLFKPWDERLDPEPYLESDADEQLLINIPFTQPVKL 60
Query: 169 HSLKIKA-PKDKGPKTLKLFINQPKTLDFDAATSNQSVQQIELTEKDLDGT-PINLRYVK 226
HS+ I+ D PKT+KLFIN P LDFD A Q +EL+E D +G L+YVK
Sbjct: 61 HSILIRGLDDDSAPKTIKLFINPP-NLDFDDAEDLTPTQTLELSESDDEGGVEYPLKYVK 119
Query: 227 FQNVQNLQIFVLDNQTEAETTVITHLALIGSP 258
FQNV +L IF DN E ETT I ++ L G P
Sbjct: 120 FQNVNSLTIFFEDNFGEDETTRIDYIGLRGEP 151
>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 = 112 bits (283), Expect = 1e-31
Identities = 38/74 (51%), Positives = 50/74 (67%), Gaps = 2/74 (2%)
Query: 10 AHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDLAAA 69
F + + K VVVDF A WCGPC+ IAPV E+L+ +YP F KVDVD+N +LA
Sbjct: 1 EEFEELIKS--AKPVVVDFWAPWCGPCKAIAPVLEELAEEYPKVKFVKVDVDENPELAEE 58
Query: 70 QGVSAMPTFIFFRN 83
GV ++PTF+FF+N
Sbjct: 59 YGVRSIPTFLFFKN 72
>gnl|CDD|215704 pfam00085, Thioredoxin, Thioredoxin. Thioredoxins are small
enzymes that participate in redox reactions, via the
reversible oxidation of an active centre disulfide
bond. Some members with only the active site are not
separated from the noise.
Length = 104
Score = 99 bits (250), Expect = 8e-27
Identities = 35/81 (43%), Positives = 52/81 (64%), Gaps = 2/81 (2%)
Query: 4 IVINSDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYP-NAAFFKVDVDQ 62
+ + +D +F E+ K V+VDF A WCGPC+ +AP +E+L+++Y + F KVD D+
Sbjct: 2 VKVLTDENFDEEVAK-SDKPVLVDFYAPWCGPCKALAPEYEKLAQEYKDDVKFAKVDADE 60
Query: 63 NQDLAAAQGVSAMPTFIFFRN 83
N DLA+ GV PT FF+N
Sbjct: 61 NPDLASEYGVRGFPTIKFFKN 81
>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 = 96.6 bits (241), Expect = 2e-25
Identities = 33/77 (42%), Positives = 53/77 (68%), Gaps = 2/77 (2%)
Query: 8 SDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPN-AAFFKVDVDQNQDL 66
+DA+F + + K V+VDF A WCGPC+ IAP+ E+L+++Y F K++VD+N D+
Sbjct: 2 TDANFDETIAS-SDKPVLVDFWAPWCGPCKMIAPILEELAKEYEGKVKFVKLNVDENPDI 60
Query: 67 AAAQGVSAMPTFIFFRN 83
AA G+ ++PT + F+N
Sbjct: 61 AAKYGIRSIPTLLLFKN 77
>gnl|CDD|173347 PTZ00051, PTZ00051, thioredoxin; Provisional.
Length = 98
Score = 87.6 bits (217), Expect = 5e-22
Identities = 34/78 (43%), Positives = 53/78 (67%), Gaps = 2/78 (2%)
Query: 6 INSDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQD 65
+ S A F + ++ +LV+VDF A WCGPC+RIAP +E+ S++Y F KVDVD+ +
Sbjct: 5 VTSQAEFESTLS--QNELVIVDFYAEWCGPCKRIAPFYEECSKEYTKMVFVKVDVDELSE 62
Query: 66 LAAAQGVSAMPTFIFFRN 83
+A + +++MPTF F+N
Sbjct: 63 VAEKENITSMPTFKVFKN 80
>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 = 81.1 bits (201), Expect = 1e-19
Identities = 28/84 (33%), Positives = 44/84 (52%), Gaps = 5/84 (5%)
Query: 8 SDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKY---PNAAFFKVDVDQNQ 64
+D +F + + +K V+V+F A WCG C+ +AP +E+L+++ KVD N
Sbjct: 4 TDDNFDELVKD--SKDVLVEFYAPWCGHCKALAPEYEKLAKELKGDGKVVVAKVDCTANN 61
Query: 65 DLAAAQGVSAMPTFIFFRNKIPDP 88
DL + GV PT F N +P
Sbjct: 62 DLCSEYGVRGYPTIKLFPNGSKEP 85
>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 = 68.5 bits (168), Expect = 6e-15
Identities = 24/77 (31%), Positives = 50/77 (64%), Gaps = 1/77 (1%)
Query: 8 SDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRK-YPNAAFFKVDVDQNQDL 66
S+ F + + +KL+V+ F A W PC+++ VFE+L+++ +P+ F ++ ++ ++
Sbjct: 1 SEEEFEELLKSDASKLLVLHFWAPWAEPCKQMNQVFEELAKEAFPSVLFLSIEAEELPEI 60
Query: 67 AAAQGVSAMPTFIFFRN 83
+ ++A+PTF+FFRN
Sbjct: 61 SEKFEITAVPTFVFFRN 77
>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 = 66.2 bits (162), Expect = 5e-14
Identities = 27/68 (39%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 20 GTKLVVVDFTASWCGPCQRIAPVFEQLSRKY---PNAAFFKVDVDQNQDLAAAQGVSAMP 76
K V+V+F A WCG C+ +AP +E+L+++ P+ KVD +DLA+ GVS P
Sbjct: 12 SNKDVLVEFYAPWCGHCKNLAPEYEKLAKELKKDPDIVLAKVDATAEKDLASRFGVSGFP 71
Query: 77 TFIFFRNK 84
T FF
Sbjct: 72 TIKFFPKG 79
>gnl|CDD|223600 COG0526, TrxA, Thiol-disulfide isomerase and thioredoxins
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 127
Score = 63.8 bits (154), Expect = 7e-13
Identities = 27/66 (40%), Positives = 40/66 (60%), Gaps = 4/66 (6%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAA-FFKVDV-DQNQDLAAA--QGVSAMPT 77
K V+VDF A WC PC+ AP+ E+L+ +Y V+V D+N DLAA V ++PT
Sbjct: 33 KPVLVDFWAPWCPPCRAEAPLLEELAEEYGGDVEVVAVNVDDENPDLAAEFGVAVRSIPT 92
Query: 78 FIFFRN 83
+ F++
Sbjct: 93 LLLFKD 98
>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 = 62.3 bits (152), Expect = 2e-12
Identities = 18/63 (28%), Positives = 27/63 (42%), Gaps = 1/63 (1%)
Query: 20 GTKLVVVDFTASWCGPCQRIAPVFEQLSRK-YPNAAFFKVDVDQNQDLAAAQGVSAMPTF 78
+ +VDF A WCGPCQ + P + +R VD + + L + A PT
Sbjct: 18 RKEPWLVDFYAPWCGPCQALLPELRKAARALKGKVKVGSVDCQKYESLCQQANIRAYPTI 77
Query: 79 IFF 81
+
Sbjct: 78 RLY 80
>gnl|CDD|182889 PRK10996, PRK10996, thioredoxin 2; Provisional.
Length = 139
Score = 63.2 bits (154), Expect = 2e-12
Identities = 23/61 (37%), Positives = 39/61 (63%), Gaps = 1/61 (1%)
Query: 24 VVVDFTASWCGPCQRIAPVFEQLSRKYP-NAAFFKVDVDQNQDLAAAQGVSAMPTFIFFR 82
VV+DF A WCGPC+ AP+FE ++ + F KV+ + ++L+A + ++PT + F+
Sbjct: 55 VVIDFWAPWCGPCRNFAPIFEDVAAERSGKVRFVKVNTEAERELSARFRIRSIPTIMIFK 114
Query: 83 N 83
N
Sbjct: 115 N 115
>gnl|CDD|181812 PRK09381, trxA, thioredoxin; Provisional.
Length = 109
Score = 60.5 bits (146), Expect = 7e-12
Identities = 23/62 (37%), Positives = 39/62 (62%), Gaps = 1/62 (1%)
Query: 23 LVVVDFTASWCGPCQRIAPVFEQLSRKYPNA-AFFKVDVDQNQDLAAAQGVSAMPTFIFF 81
++VDF A WCGPC+ IAP+ ++++ +Y K+++DQN A G+ +PT + F
Sbjct: 23 AILVDFWAEWCGPCKMIAPILDEIADEYQGKLTVAKLNIDQNPGTAPKYGIRGIPTLLLF 82
Query: 82 RN 83
+N
Sbjct: 83 KN 84
>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 = 60.0 bits (146), Expect = 8e-12
Identities = 29/100 (29%), Positives = 46/100 (46%), Gaps = 22/100 (22%)
Query: 26 VDFTASWCGPCQRIAPVFEQLSRKY----PNAAFFKVDVDQNQDLAAAQGVSAMPTFIFF 81
V F A WCG C+R+AP +EQL++K+ P+ KVD Q+++L + V PT + F
Sbjct: 21 VKFFAPWCGHCKRLAPTWEQLAKKFNNENPSVKIAKVDCTQHRELCSEFQVRGYPTLLLF 80
Query: 82 RNKIPDPNTLEAKIKQYYGVGEESGEESGVAGHMDLTSFI 121
++ GE+ + G L F+
Sbjct: 81 KD------------------GEKVDKYKGTRDLDSLKEFV 102
>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 = 59.2 bits (144), Expect = 2e-11
Identities = 32/82 (39%), Positives = 48/82 (58%), Gaps = 5/82 (6%)
Query: 4 IVINSDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAA---FFKVDV 60
+V +D++F + + K V+V+F A WCG C+ +AP +E+L+ + N KVD
Sbjct: 2 VVELTDSNFDKVVGD-DKKDVLVEFYAPWCGHCKNLAPEYEKLAAVFANEDDVVIAKVDA 60
Query: 61 DQ-NQDLAAAQGVSAMPTFIFF 81
D+ N+DLA GVS PT FF
Sbjct: 61 DEANKDLAKKYGVSGFPTLKFF 82
>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 = 58.8 bits (143), Expect = 3e-11
Identities = 26/85 (30%), Positives = 38/85 (44%), Gaps = 25/85 (29%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYPN------------------AAF-------F 56
K+V+V+F ASWC PC+ P E L+++Y + AF F
Sbjct: 20 KVVLVNFWASWCPPCRAEMPELEALAKEYKDDGVEVVGVNVDDDDPAAVKAFLKKYGITF 79
Query: 57 KVDVDQNQDLAAAQGVSAMPTFIFF 81
V +D + +LA A GV +PT
Sbjct: 80 PVLLDPDGELAKAYGVRGLPTTFLI 104
>gnl|CDD|240266 PTZ00102, PTZ00102, disulphide isomerase; Provisional.
Length = 477
Score = 62.8 bits (153), Expect = 3e-11
Identities = 24/69 (34%), Positives = 33/69 (47%), Gaps = 4/69 (5%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFE----QLSRKYPNAAFFKVDVDQNQDLAAAQGVSAMPT 77
++V+V F A WCG C+R+AP ++ L K VD + +LA GV PT
Sbjct: 50 EIVLVKFYAPWCGHCKRLAPEYKKAAKMLKEKKSEIVLASVDATEEMELAQEFGVRGYPT 109
Query: 78 FIFFRNKIP 86
FF P
Sbjct: 110 IKFFNKGNP 118
Score = 36.7 bits (85), Expect = 0.011
Identities = 23/81 (28%), Positives = 38/81 (46%), Gaps = 9/81 (11%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYP---NAAFFKVDVDQNQDLAAAQGVSAMPTF 78
K V+++ A WCG C+ + PV+ +L KY + K++ N+ SA PT
Sbjct: 376 KDVLLEIYAPWCGHCKNLEPVYNELGEKYKDNDSIIVAKMNGTANETPLEEFSWSAFPTI 435
Query: 79 IFFR--NKIPDP----NTLEA 93
+F + + P P T+E
Sbjct: 436 LFVKAGERTPIPYEGERTVEG 456
>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 = 57.8 bits (140), Expect = 6e-11
Identities = 27/89 (30%), Positives = 45/89 (50%), Gaps = 10/89 (11%)
Query: 2 SIIVINSDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRK----YPNAA--- 54
I+ + S + + +LV+V+F A WC Q + P+FE+ + K +P+A
Sbjct: 2 EIVSLTSGNIDDI-LQS--AELVLVNFYADWCRFSQMLHPIFEEAAAKIKEEFPDAGKVV 58
Query: 55 FFKVDVDQNQDLAAAQGVSAMPTFIFFRN 83
+ KVD D+ D+A ++ PT FRN
Sbjct: 59 WGKVDCDKESDIADRYRINKYPTLKLFRN 87
>gnl|CDD|225660 COG3118, COG3118, Thioredoxin domain-containing protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 304
Score = 60.1 bits (146), Expect = 1e-10
Identities = 28/79 (35%), Positives = 46/79 (58%), Gaps = 4/79 (5%)
Query: 8 SDAHFHTEM-NNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFF--KVDVDQNQ 64
++A+F E+ + V+VDF A WCGPC+++ P E+L+ +Y F KV+ D
Sbjct: 29 TEANFEQEVIQSSREVPVLVDFWAPWCGPCKQLTPTLEKLAAEY-KGKFKLAKVNCDAEP 87
Query: 65 DLAAAQGVSAMPTFIFFRN 83
+AA GV ++PT F++
Sbjct: 88 MVAAQFGVQSIPTVYAFKD 106
>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 = 55.8 bits (134), Expect = 1e-10
Identities = 22/65 (33%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 25 VVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDLAAAQ---GVSAMPTFIFF 81
+V F A WC CQ + PV +L+ F VDVD++ L GV +PT + F
Sbjct: 1 LVLFYAPWCPFCQALRPVLAELALLNKGVKFEAVDVDEDPALEKELKRYGVGGVPTLVVF 60
Query: 82 RNKIP 86
I
Sbjct: 61 GPGIG 65
>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 = 60.5 bits (147), Expect = 2e-10
Identities = 28/71 (39%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQ----LSRKYPNAAFFKVDVDQNQDLAAAQGVSAMPT 77
+ V+V+F A WCG C+ +AP +E+ L +K P KVD + +DLA GVS PT
Sbjct: 19 EFVLVEFYAPWCGHCKSLAPEYEKAADELKKKGPPIKLAKVDATEEKDLAQKYGVSGYPT 78
Query: 78 FIFFRNKIPDP 88
FRN
Sbjct: 79 LKIFRNGEDSV 89
Score = 46.2 bits (110), Expect = 8e-06
Identities = 24/65 (36%), Positives = 36/65 (55%), Gaps = 6/65 (9%)
Query: 21 TKLVVVDFTASWCGPCQRIAPVFEQLSRKY----PNAAFFKVDVDQNQDLAAAQGVSAMP 76
TK V+V+F A WCG C+ +AP++E+L+ KY + K+D N D+ + V P
Sbjct: 364 TKDVLVEFYAPWCGHCKNLAPIYEELAEKYKDAESDVVIAKMDATAN-DVPPFE-VEGFP 421
Query: 77 TFIFF 81
T F
Sbjct: 422 TIKFV 426
>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 = 56.0 bits (135), Expect = 2e-10
Identities = 25/85 (29%), Positives = 50/85 (58%), Gaps = 9/85 (10%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAA-FFKVDVDQNQDLAAAQGVSAMPTFIF 80
+L++V +T+ CGPC+ + P+ ++ ++ A F ++D+D++Q++A A G+ PT F
Sbjct: 14 RLILVLYTSPTCGPCRTLKPILNKVIDEFDGAVHFVEIDIDEDQEIAEAAGIMGTPTVQF 73
Query: 81 FRNKIPDPNTLEAKIKQYYGVGEES 105
F++K +K+ GV +S
Sbjct: 74 FKDK--------ELVKEISGVKMKS 90
>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 = 55.7 bits (135), Expect = 3e-10
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 24 VVVDFTASWCGPCQRIAPVFEQLSRKYPNA-AFFKVDVDQNQDLAAAQGVSAMPTFIFF 81
VVVDF A P + + P+ E+L+ +Y KV+ D +A GV A+PT F
Sbjct: 15 VVVDFWAPRSPPSKELLPLLERLAEEYQGQFVLAKVNCDAQPQIAQQFGVQALPTVYLF 73
>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 = 55.3 bits (134), Expect = 4e-10
Identities = 25/75 (33%), Positives = 38/75 (50%), Gaps = 4/75 (5%)
Query: 10 AHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKY---PNAAFFKVDVDQNQDL 66
E+ K V+V+F A WCG C+ +AP++E+L+ K N K+D N D+
Sbjct: 7 GKNFDEVVLDSDKDVLVEFYAPWCGHCKALAPIYEELAEKLKGDDNVVIAKMDATAN-DV 65
Query: 67 AAAQGVSAMPTFIFF 81
+ V PT +FF
Sbjct: 66 PSEFVVDGFPTILFF 80
>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 = 53.9 bits (130), Expect = 4e-09
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 8/84 (9%)
Query: 8 SDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKY--PNAAFFKVDVDQNQD 65
+ E+ +V+F +W C APVF +LS KY N F K+D+ + +
Sbjct: 34 TPKTLEEELERDKRVTWLVEFFTTWSPECVNFAPVFAELSLKYNNNNLKFGKIDIGRFPN 93
Query: 66 LAAAQGVSA------MPTFIFFRN 83
+A VS +PT I F+
Sbjct: 94 VAEKFRVSTSPLSKQLPTIILFQG 117
>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 = 51.7 bits (124), Expect = 1e-08
Identities = 23/91 (25%), Positives = 42/91 (46%), Gaps = 11/91 (12%)
Query: 15 EMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQN---QDLAAAQG 71
+ +LVV++F GP +I P +LSR + F V+ D+N +L +
Sbjct: 9 ALKKAKGRLVVLEFALKHSGPSVKIYPTMVKLSRTCNDVVFLLVNGDENDSTMELCRREK 68
Query: 72 VSAMPTFIFFRNKIPDPNTLEAKIKQYYGVG 102
+ +P F+F+++ KI + G+G
Sbjct: 69 IIEVPHFLFYKDG--------EKIHEEEGIG 91
>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 = 50.3 bits (121), Expect = 3e-08
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 19/81 (23%)
Query: 25 VVDFTASWCGPCQRIAPVFEQLSR---KYPNAAFFKVDV-------DQNQDLAAAQGVSA 74
+V+F ASWCG C+ AP +++L+R K+ V V ++N L GV+
Sbjct: 23 LVEFYASWCGHCRAFAPTWKKLARDLRKWRPV----VRVAAVDCADEENVALCRDFGVTG 78
Query: 75 MPTFIFFRNKIPDPNTLEAKI 95
PT +F P + EA
Sbjct: 79 YPTLRYFP-----PFSKEATD 94
>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 = 48.0 bits (115), Expect = 2e-07
Identities = 19/79 (24%), Positives = 27/79 (34%), Gaps = 14/79 (17%)
Query: 22 KLVVVDFTASWCGPCQRI-------APVFEQLSRKYPNAAFFKVDV----DQNQDLAAAQ 70
K V VDFTA WC C+ V L + + + D + L
Sbjct: 12 KPVFVDFTADWCVTCKVNEKVVFSDPEVQAALKK---DVVLLRADWTKNDPEITALLKRF 68
Query: 71 GVSAMPTFIFFRNKIPDPN 89
GV PT++F+
Sbjct: 69 GVFGPPTYLFYGPGGEPEP 87
>gnl|CDD|239297 cd02999, PDI_a_ERp44_like, PDIa family, endoplasmic reticulum
protein 44 (ERp44)-like subfamily; composed of
uncharacterized PDI-like eukaryotic proteins containing
only one redox active TRX (a) domain with a CXXS motif,
similar to ERp44. CXXS is still a redox active motif;
however, the mixed disulfide formed with the substrate
is more stable than those formed by CXXC motif
proteins. PDI-related proteins are usually involved in
the oxidative protein folding in the ER by acting as
catalysts and folding assistants. ERp44 is involved in
thiol-mediated retention in the ER.
Length = 100
Score = 46.6 bits (111), Expect = 6e-07
Identities = 18/69 (26%), Positives = 25/69 (36%), Gaps = 3/69 (4%)
Query: 15 EMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQ-DLAAAQGVS 73
N V+ F ASWC P F LS +P ++ + L + GV
Sbjct: 14 AFNREDYTAVL--FYASWCPFSASFRPHFNALSSMFPQIRHLAIEESSIKPSLLSRYGVV 71
Query: 74 AMPTFIFFR 82
PT + F
Sbjct: 72 GFPTILLFN 80
>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 = 46.1 bits (110), Expect = 8e-07
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 8/84 (9%)
Query: 9 DAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSR----KYPNAAFFKVDVDQNQ 64
D++F ++ N + +V+F A WCG C+ +AP +++ ++ A VD D +Q
Sbjct: 7 DSNFDKKVLN-SDDVWLVEFYAPWCGHCKNLAPEWKKAAKALKGIVKVGA---VDADVHQ 62
Query: 65 DLAAAQGVSAMPTFIFFRNKIPDP 88
LA GV PT F P
Sbjct: 63 SLAQQYGVRGFPTIKVFGAGKNSP 86
>gnl|CDD|226685 COG4232, COG4232, Thiol:disulfide interchange protein
[Posttranslational modification, protein turnover,
chaperones / Energy production and conversion].
Length = 569
Score = 48.9 bits (117), Expect = 1e-06
Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 7/83 (8%)
Query: 22 KLVVVDFTASWCGPCQRIAP-VF--EQLSRKYPNAAFFKVDV----DQNQDLAAAQGVSA 74
K V++DF A WC C+ F Q+ + + + DV L GV
Sbjct: 475 KPVMLDFYADWCVTCKENEKYTFSDPQVQQALQDVVLLQADVTANDPAITALLKRLGVFG 534
Query: 75 MPTFIFFRNKIPDPNTLEAKIKQ 97
+PT++FF + +P L +
Sbjct: 535 VPTYLFFGPQGSEPEILTGFLTA 557
>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 = 45.0 bits (107), Expect = 3e-06
Identities = 23/83 (27%), Positives = 32/83 (38%), Gaps = 20/83 (24%)
Query: 21 TKLVVVDFTASWCGPCQRIAPVFEQLSRKYPN-------------AAF-------FKVDV 60
K V+V F A+WC C+ +P QL+ YP A F F V
Sbjct: 20 GKPVLVYFWATWCPVCRFTSPTVNQLAADYPVVSVALRSGDDGAVARFMQKKGYGFPVIN 79
Query: 61 DQNQDLAAAQGVSAMPTFIFFRN 83
D + ++A GVS P +
Sbjct: 80 DPDGVISARWGVSVTPAIVIVDP 102
>gnl|CDD|239246 cd02948, TRX_NDPK, TRX domain, TRX and NDP-kinase (NDPK) fusion
protein family; most members of this group are fusion
proteins which contain one redox active TRX domain
containing a CXXC motif and three NDPK domains, and are
characterized as intermediate chains (ICs) of axonemal
outer arm dynein. Dyneins are molecular motors that
generate force against microtubules to produce cellular
movement, and are divided into two classes: axonemal
and cytoplasmic. They are supramolecular complexes
consisting of three protein groups classified according
to size: dynein heavy, intermediate and light chains.
Axonemal dyneins form two structures, the inner and
outer arms, which are attached to doublet microtubules
throughout the cilia and flagella. The human homolog is
the sperm-specific Sptrx-2, presumed to be a component
of the human sperm axoneme architecture. Included in
this group is another human protein, TRX-like protein
2, a smaller fusion protein containing one TRX and one
NDPK domain, which is also associated with microtubular
structures. The other members of this group are
hypothetical insect proteins containing a TRX domain
and outer arm dynein light chains (14 and 16kDa) of
Chlamydomonas reinhardtii. Using standard assays, the
fusion proteins have shown no TRX enzymatic activity.
Length = 102
Score = 43.5 bits (103), Expect = 7e-06
Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 11/86 (12%)
Query: 3 IIVINSDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKY-----PNAAFFK 57
+ IN+ + ++N G L VVD WCGPC+ V + F
Sbjct: 1 QVEINNQEEWEELLSNKG--LTVVDVYQEWCGPCK---AVVSLFKKIKNELGDDLLHFAT 55
Query: 58 VDVDQNQDLAAAQGVSAMPTFIFFRN 83
+ D L +G PTF+F++N
Sbjct: 56 AEADTIDTLKRYRGKCE-PTFLFYKN 80
>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 = 43.5 bits (103), Expect = 7e-06
Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 26 VDFTASWCGPCQRIAPVFE----QLSRKYPNAAFFKVDVDQNQDLAAAQGVSAMPTFIFF 81
V+F A WCG C+ + P + +L AA D D+N+ L GV PT F
Sbjct: 23 VEFYAPWCGHCKNLKPEYAKAAKELDGLVQVAA-VDCDEDKNKPLCGKYGVQGFPTLKVF 81
Query: 82 R 82
R
Sbjct: 82 R 82
>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 = 42.7 bits (101), Expect = 1e-05
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 10/84 (11%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFK---VDVDQNQDLAAAQGVSAMP-T 77
K+V++ F ASWC PC+ P ++L K + V +D++++ + + MP
Sbjct: 2 KVVLLYFWASWCPPCRAFTPELKELYEKL-KKPKVEIVYVSLDRDEE-EWKKYLKKMPKD 59
Query: 78 FIFFRNKIPDPNTLEAKIKQYYGV 101
++ P + ++ + YGV
Sbjct: 60 WLNV----PFGDKERNELLRLYGV 79
>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 = 42.4 bits (100), Expect = 2e-05
Identities = 18/62 (29%), Positives = 27/62 (43%), Gaps = 4/62 (6%)
Query: 26 VDFTASWCGPCQRIAPVFEQ----LSRKYPNAAFFKVDVDQNQDLAAAQGVSAMPTFIFF 81
VDF A WCG C+++ PV+ + L K+D +A+ GV PT
Sbjct: 20 VDFYAPWCGHCKKLEPVWNEVGAELKSSGSPVRVGKLDATAYSSIASEFGVRGYPTIKLL 79
Query: 82 RN 83
+
Sbjct: 80 KG 81
>gnl|CDD|221921 pfam13098, Thioredoxin_2, Thioredoxin-like domain.
Length = 105
Score = 42.4 bits (100), Expect = 2e-05
Identities = 18/77 (23%), Positives = 28/77 (36%), Gaps = 17/77 (22%)
Query: 22 KLVVVDFTASWCGPCQRIAPVF---EQLSRKY-PNAAFFKVDVDQNQ------------- 64
K V+V FT C C+++ + N V+VD ++
Sbjct: 6 KPVLVVFTDPDCPYCKKLHKELLKDPDVQEYLKDNFVVIYVNVDDSKEVTDFDGETLSEK 65
Query: 65 DLAAAQGVSAMPTFIFF 81
+LA GV PT +F
Sbjct: 66 ELARKYGVRGTPTIVFL 82
>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 = 41.6 bits (98), Expect = 6e-05
Identities = 19/63 (30%), Positives = 28/63 (44%), Gaps = 3/63 (4%)
Query: 25 VVDFTASWCGPCQRIAPVFEQLSRKYP---NAAFFKVDVDQNQDLAAAQGVSAMPTFIFF 81
+V+F A WC CQ +AP +L +KY N VD + V +P F+F
Sbjct: 24 LVEFYADWCTVCQEMAPDVAKLKQKYGDQVNFVMLNVDNPKWLPEIDRYRVDGIPHFVFL 83
Query: 82 RNK 84
+
Sbjct: 84 DRE 86
>gnl|CDD|239292 cd02994, PDI_a_TMX, PDIa family, TMX subfamily; composed of
proteins similar to the TRX-related human transmembrane
protein, TMX. TMX is a type I integral membrane
protein; the N-terminal redox active TRX domain is
present in the endoplasmic reticulum (ER) lumen while
the C-terminus is oriented towards the cytoplasm. It is
expressed in many cell types and its active site motif
(CPAC) is unique. In vitro, TMX reduces interchain
disulfides of insulin and renatures inactive RNase
containing incorrect disulfide bonds. The C. elegans
homolog, DPY-11, is expressed only in the hypodermis
and resides in the cytoplasm. It is required for body
and sensory organ morphogeneis. Another uncharacterized
TRX-related transmembrane protein, human TMX4, is
included in the alignment. The active site sequence of
TMX4 is CPSC.
Length = 101
Score = 40.4 bits (95), Expect = 9e-05
Identities = 18/55 (32%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 26 VDFTASWCGPCQRIAPVFEQLSRKYP--NAAFFKVDVDQNQDLAAAQGVSAMPTF 78
++F A WC CQ++ P +E+ + KVDV Q L+ V+A+PT
Sbjct: 21 IEFYAPWCPACQQLQPEWEEFADWSDDLGINVAKVDVTQEPGLSGRFFVTALPTI 75
>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 = 39.5 bits (93), Expect = 3e-04
Identities = 21/82 (25%), Positives = 32/82 (39%), Gaps = 23/82 (28%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRK---------Y---PNAA----------FFKVD 59
K +++ ASWC PC+ PV L+R+ Y P A + V
Sbjct: 26 KPYLLNVWASWCAPCREEHPVLMALARQGRVPIYGINYKDNPENALAWLARHGNPYAAVG 85
Query: 60 VDQNQDLAAAQGVSAMP-TFIF 80
D + + GV +P TF+
Sbjct: 86 FDPDGRVGIDLGVYGVPETFLI 107
>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 = 38.4 bits (90), Expect = 3e-04
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 14/68 (20%)
Query: 22 KLVVVDFTASWCGPCQRIA------PVFEQLSRKYPNAAFFKVDVDQNQD--LAAAQGVS 73
K ++VDF A WC CQ + P + L+ K+ +VDV L QGV
Sbjct: 18 KPLLVDFGADWCPTCQALDRDFLSDPRVKALAEKF---VLLRVDVTTRDPNLLLDGQGV- 73
Query: 74 AMPTFIFF 81
P +F
Sbjct: 74 --PHVVFL 79
>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 = 38.8 bits (91), Expect = 3e-04
Identities = 26/102 (25%), Positives = 36/102 (35%), Gaps = 23/102 (22%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLS------RKYPNAAFFKVDVD-QNQDLAAAQG-VS 73
K V+V F A WCG C+++ P F + + K AA VD D + V
Sbjct: 18 KHVLVMFYAPWCGHCKKMKPEFTKAATELKEDGKGVLAA---VDCTKPEHDALKEEYNVK 74
Query: 74 AMPTFIFFRNKIPDPNTLEAKIKQYYGVGEESGEESGVAGHM 115
PTF +F N K + Y + M
Sbjct: 75 GFPTFKYFEN---------GKFVEKYEGE---RTAEDIIEFM 104
>gnl|CDD|185622 PTZ00443, PTZ00443, Thioredoxin domain-containing protein;
Provisional.
Length = 224
Score = 38.5 bits (89), Expect = 0.002
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 15/86 (17%)
Query: 26 VDFTASWCGPCQRIAPVFEQLSRKYP---NAAFFKVDVDQNQDLAAAQGVSAMPTFIFFR 82
V F A WC C+++AP +E+L++ N A +D + +LA + PT + F
Sbjct: 57 VKFYAPWCSHCRKMAPAWERLAKALKGQVNVA--DLDATRALNLAKRFAIKGYPTLLLFD 114
Query: 83 NKIPDPNTLEAKIKQYYGVGEESGEE 108
+ K+ QY G G+ S E+
Sbjct: 115 ---------KGKMYQYEG-GDRSTEK 130
>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 = 36.8 bits (86), Expect = 0.003
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 4/35 (11%)
Query: 22 KLVVVDFTASWCGPCQRIAP----VFEQLSRKYPN 52
K V + F+ASWC PC+ P +E+L + N
Sbjct: 18 KTVGLYFSASWCPPCRAFTPKLVEFYEKLKEEGKN 52
>gnl|CDD|133998 PHA02125, PHA02125, thioredoxin-like protein.
Length = 75
Score = 34.6 bits (79), Expect = 0.006
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 5/52 (9%)
Query: 28 FTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDLAAAQGVSAMPTFI 79
F A WC C+ + P+ + Y VD D+ +L A + ++PT +
Sbjct: 5 FGAEWCANCKMVKPMLANVEYTY-----VDVDTDEGVELTAKHHIRSLPTLV 51
>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 = 33.8 bits (78), Expect = 0.030
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYPNA 53
K V + F+ASWC PC+ P + K +
Sbjct: 19 KTVGLYFSASWCPPCRAFTPKLVEFYEKLKES 50
>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 = 32.2 bits (74), Expect = 0.045
Identities = 13/78 (16%), Positives = 27/78 (34%), Gaps = 12/78 (15%)
Query: 24 VVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDLAAA----QGVSAMPTFI 79
V V +T C C+ ++ F +VDVD++ + G ++P +
Sbjct: 2 VTV-YTKPDCPYCKATKRFLDER-----GIPFEEVDVDEDPEALEELKKLNGYRSVPVVV 55
Query: 80 FFRNKIPDPNTLEAKIKQ 97
+ K++
Sbjct: 56 IGDEHLSGFR--PDKLRA 71
>gnl|CDD|219888 pfam08534, Redoxin, Redoxin. This family of redoxins includes
peroxiredoxin, thioredoxin and glutaredoxin proteins.
Length = 142
Score = 32.7 bits (75), Expect = 0.072
Identities = 22/121 (18%), Positives = 39/121 (32%), Gaps = 38/121 (31%)
Query: 20 GTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAF------------------------ 55
G K+V+ + ++C C P E+LS+ Y
Sbjct: 27 GKKVVLNFWPGAFCPTCSAEHPYLEKLSKLYKAKGVDVVAVNASNDPFFVMNFWAKEGLK 86
Query: 56 FKVDVDQNQDLAAAQGVS-----AMPTFIFFRNKIPDPNTLEAKIKQYYGVGEESGEESG 110
+ V D++ A G++ P + D + K+ Y VG + G+ S
Sbjct: 87 YPVLADRDGAFTKAYGLTEDAGLRTPRYFLI-----DED---GKVV-YLEVGPDPGDVSD 137
Query: 111 V 111
Sbjct: 138 A 138
>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 = 32.8 bits (75), Expect = 0.086
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSR 48
K V+++ ASWC PC+ P +L++
Sbjct: 64 KPVLLNVWASWCPPCRAEHPYLNELAK 90
>gnl|CDD|239255 cd02957, Phd_like, Phosducin (Phd)-like family; composed of Phd
and Phd-like proteins (PhLP), characterized as
cytosolic regulators of G protein functions. Phd and
PhLPs specifically bind G protein betagamma
(Gbg)-subunits with high affinity, resulting in the
solubilization of Gbg from the plasma membrane and
impeding G protein-mediated signal transduction by
inhibiting the formation of a functional G protein
trimer (G protein alphabetagamma). Phd also inhibits
the GTPase activity of G protein alpha. Phd can be
phosphorylated by protein kinase A and G
protein-coupled receptor kinase 2, leading to its
inactivation. Phd was originally isolated from the
retina, where it is highly expressed and has been
implicated to play an important role in light
adaptation. It is also found in the pineal gland,
liver, spleen, striated muscle and the brain. The
C-terminal domain of Phd adopts a thioredoxin fold, but
it does not contain a CXXC motif. Phd interacts with G
protein beta mostly through the N-terminal helical
domain. Also included in this family is a PhLP
characterized as a viral inhibitor of apoptosis
(IAP)-associated factor, named VIAF, that functions in
caspase activation during apoptosis.
Length = 113
Score = 31.0 bits (71), Expect = 0.20
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 24 VVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDLAAAQGVSAMPTFIFFRN 83
VVV F C+ + E+L+ KYP F K++ + L + +PT + ++N
Sbjct: 27 VVVHFYEPGFPRCKILDSHLEELAAKYPETKFVKINAE-KAFLVNYLDIKVLPTLLVYKN 85
>gnl|CDD|239287 cd02989, Phd_like_TxnDC9, Phosducin (Phd)-like family,
Thioredoxin (TRX) domain containing protein 9 (TxnDC9)
subfamily; composed of predominantly uncharacterized
eukaryotic proteins, containing a TRX-like domain
without the redox active CXXC motif. The gene name for
the human protein is TxnDC9. The two characterized
members are described as Phd-like proteins, PLP1 of
Saccharomyces cerevisiae and PhLP3 of Dictyostelium
discoideum. Gene disruption experiments show that both
PLP1 and PhLP3 are non-essential proteins. Unlike Phd
and most Phd-like proteins, members of this group do
not contain the Phd N-terminal helical domain which is
implicated in binding to the G protein betagamma
subunit.
Length = 113
Score = 31.0 bits (71), Expect = 0.21
Identities = 16/65 (24%), Positives = 29/65 (44%)
Query: 21 TKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDLAAAQGVSAMPTFIF 80
++ VV F C+ + E L++K+ F KV+ ++ L + +PT I
Sbjct: 22 SERVVCHFYHPEFFRCKIMDKHLEILAKKHLETKFIKVNAEKAPFLVEKLNIKVLPTVIL 81
Query: 81 FRNKI 85
F+N
Sbjct: 82 FKNGK 86
>gnl|CDD|179545 PRK03147, PRK03147, thiol-disulfide oxidoreductase; Provisional.
Length = 173
Score = 31.5 bits (72), Expect = 0.24
Identities = 20/83 (24%), Positives = 31/83 (37%), Gaps = 24/83 (28%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKY--------------PNAAF----------FK 57
K V ++F +WC PC++ P +L KY A F
Sbjct: 62 KGVFLNFWGTWCKPCEKEMPYMNELYPKYKEKGVEIIAVNVDETELAVKNFVNRYGLTFP 121
Query: 58 VDVDQNQDLAAAQGVSAMPTFIF 80
V +D+ + + A GV +PT
Sbjct: 122 VAIDKGRQVIDAYGVGPLPTTFL 144
>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 = 30.6 bits (69), Expect = 0.29
Identities = 17/80 (21%), Positives = 35/80 (43%), Gaps = 3/80 (3%)
Query: 4 IVINSDAHFHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFF-KVDVDQ 62
IV F +N ++ V+F + C C +AP + + +++ V+
Sbjct: 3 IVTLDRGDFDAAVN--SGEIWFVNFYSPRCSHCHDLAPTWREFAKEMDGVIRIGAVNCGD 60
Query: 63 NQDLAAAQGVSAMPTFIFFR 82
++ L +QGV++ P+ F
Sbjct: 61 DRMLCRSQGVNSYPSLYVFP 80
>gnl|CDD|215497 PLN02919, PLN02919, haloacid dehalogenase-like hydrolase family
protein.
Length = 1057
Score = 32.1 bits (73), Expect = 0.39
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 5/52 (9%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDV-----DQNQDLAA 68
K+V++DF C C + P E L +KY + F V V D +DL A
Sbjct: 421 KVVILDFWTYCCINCMHVLPDLEFLEKKYKDQPFTVVGVHSAKFDNEKDLEA 472
>gnl|CDD|239310 cd03012, TlpA_like_DipZ_like, TlpA-like family, DipZ-like
subfamily; composed uncharacterized proteins containing
a TlpA-like TRX domain. Some members show domain
architectures similar to that of E. coli DipZ protein
(also known as DsbD). The only eukaryotic members of
the TlpA family belong to this subfamily. TlpA is a
disulfide reductase known to have a crucial role in the
biogenesis of cytochrome aa3.
Length = 126
Score = 30.4 bits (69), Expect = 0.39
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYP 51
K+V++DF C C P L +KY
Sbjct: 24 KVVLLDFWTYCCINCLHTLPYLTDLEQKYK 53
>gnl|CDD|239322 cd03024, DsbA_FrnE, DsbA family, FrnE subfamily; FrnE is a
DsbA-like protein containing a CXXC motif. It is
presumed to be a thiol oxidoreductase involved in
polyketide biosynthesis, specifically in the production
of the aromatic antibiotics frenolicin and nanaomycins.
Length = 201
Score = 31.0 bits (71), Expect = 0.47
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 56 FKVDVDQNQDLAAAQGVSAMPTFIF 80
+ +V ++ A G+S +P F+F
Sbjct: 157 YADEVRADEARARQLGISGVPFFVF 181
>gnl|CDD|239321 cd03023, DsbA_Com1_like, DsbA family, Com1-like subfamily;
composed of proteins similar to Com1, a 27-kDa outer
membrane-associated immunoreactive protein originally
found in both acute and chronic disease strains of the
pathogenic bacteria Coxiella burnetti. It contains a
CXXC motif, assumed to be imbedded in a DsbA-like
structure. Its homology to DsbA suggests that the
protein is a protein disulfide oxidoreductase. The role
of such a protein in pathogenesis is unknown.
Length = 154
Score = 30.6 bits (70), Expect = 0.47
Identities = 10/35 (28%), Positives = 20/35 (57%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFF 56
+ +V+F CG C+++AP E+L ++ P+
Sbjct: 6 DVTIVEFFDYNCGYCKKLAPELEKLLKEDPDVRVV 40
>gnl|CDD|239252 cd02954, DIM1, Dim1 family; Dim1 is also referred to as U5 small
nuclear ribonucleoprotein particle (snRNP)-specific
15kD protein. It is a component of U5 snRNP, which
pre-assembles with U4/U6 snRNPs to form a [U4/U6:U5]
tri-snRNP complex required for pre-mRNA splicing. Dim1
interacts with multiple splicing-associated proteins,
suggesting that it functions at multiple control points
in the splicing of pre-mRNA as part of a large
spliceosomal complex involving many protein-protein
interactions. U5 snRNP contains seven core proteins
(common to all snRNPs) and nine U5-specific proteins,
one of which is Dim1. Dim1 adopts a thioredoxin fold
but does not contain the redox active CXXC motif. It is
essential for G2/M phase transition, as a consequence
to its role in pre-mRNA splicing.
Length = 114
Score = 30.0 bits (68), Expect = 0.47
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 22 KLVVVDFTASWCGPCQRIAPVFEQLSRKYPN-AAFFKVDVDQNQDLAAAQGVSAMPTFIF 80
K+VV+ F W C ++ V +++ N A + VD+D+ D + PT +F
Sbjct: 15 KVVVIRFGRDWDPVCMQMDEVLAKIAEDVSNFAVIYLVDIDEVPDFNKMYELYDPPTVMF 74
Query: 81 F-RNK 84
F RNK
Sbjct: 75 FFRNK 79
>gnl|CDD|236202 PRK08249, PRK08249, cystathionine gamma-synthase; Provisional.
Length = 398
Score = 31.2 bits (71), Expect = 0.57
Identities = 15/62 (24%), Positives = 27/62 (43%), Gaps = 4/62 (6%)
Query: 51 PNAAFFKVDVDQNQDLAAAQGVSAMPTFIFFRNKIPDPNTLEAKIKQYYGVGEESGEESG 110
+ A+ D+D+ D+A + P I+ RN P E K++ G + +G
Sbjct: 33 LSVAYGYDDIDEWYDVA----LGKKPGHIYSRNTNPTVQAFEEKVRILEGAEAATAFSTG 88
Query: 111 VA 112
+A
Sbjct: 89 MA 90
>gnl|CDD|215931 pfam00462, Glutaredoxin, Glutaredoxin.
Length = 60
Score = 28.6 bits (65), Expect = 0.57
Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 9/64 (14%)
Query: 24 VVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDLAAA-QGVSAMPTF--IF 80
VV+ FT C C+R + + L F ++DVD++ ++ + +S PT +F
Sbjct: 1 VVL-FTKPTCPFCKRAKRLLDSL-----GVKFEEIDVDEDPEIREELKELSGWPTVPQVF 54
Query: 81 FRNK 84
+
Sbjct: 55 IDGE 58
>gnl|CDD|234717 PRK00293, dipZ, thiol:disulfide interchange protein precursor;
Provisional.
Length = 571
Score = 31.3 bits (72), Expect = 0.58
Identities = 25/111 (22%), Positives = 40/111 (36%), Gaps = 33/111 (29%)
Query: 22 KLVVVDFTASWCGPCQRI-------APVFEQLSRKYPNAAFFKVDV----DQNQDLAAAQ 70
K V++D A WC C+ V + L+ + + DV ++ L
Sbjct: 475 KPVMLDLYADWCVACKEFEKYTFSDPQVQQALA----DTVLLQADVTANNAEDVALLKHY 530
Query: 71 GVSAMPTFIFFRNKIPDPNTLEAKIKQYYGVGEESGEESGVAGHMDLTSFI 121
V +PT +FF D G+E ++ V G MD +F
Sbjct: 531 NVLGLPTILFF-----DAQ------------GQEI-PDARVTGFMDAAAFA 563
>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 = 31.1 bits (70), Expect = 0.68
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 4/68 (5%)
Query: 25 VVDFTASWCGPCQRIAPVFEQLSRKYPNA----AFFKVDVDQNQDLAAAQGVSAMPTFIF 80
+V A WC CQ + + +L+ K + A F+ D DQ + + + PT +F
Sbjct: 375 LVVLYAPWCPFCQAMEASYLELAEKLAGSGVKVAKFRADGDQKEFAKQELQLGSFPTILF 434
Query: 81 FRNKIPDP 88
F P
Sbjct: 435 FPKHSSRP 442
>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 = 29.3 bits (66), Expect = 0.69
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 4/56 (7%)
Query: 30 ASWCGPCQRIAPVFEQLSRKYPNAAF----FKVDVDQNQDLAAAQGVSAMPTFIFF 81
A WC CQ + +E+L+ K + F D +Q + + + PT +FF
Sbjct: 30 APWCPFCQAMEASYEELAEKLAGSNVKVAKFNADGEQREFAKEELQLKSFPTILFF 85
>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 = 0.77
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 21 TKLVVVDFTASWCGPCQRIAPVFEQL 46
K ++ T+ WC C I PV++++
Sbjct: 24 KKPYLIKITSDWCFSCIHIEPVWKEV 49
>gnl|CDD|239273 cd02975, PfPDO_like_N, Pyrococcus furiosus protein disulfide
oxidoreductase (PfPDO)-like family, N-terminal TRX-fold
subdomain; composed of proteins with similarity to
PfPDO, a redox active thermostable protein believed to
be the archaeal counterpart of bacterial DsbA and
eukaryotic protein disulfide isomerase (PDI), which are
both involved in oxidative protein folding. PfPDO
contains two redox active CXXC motifs in two contiguous
TRX-fold subdomains. The active site in the N-terminal
TRX-fold subdomain is required for isomerase but not for
reductase activity of PfPDO. The exclusive presence of
PfPDO-like proteins in extremophiles may suggest that
they have a special role in adaptation to extreme
conditions.
Length = 113
Score = 29.3 bits (66), Expect = 0.87
Identities = 26/97 (26%), Positives = 41/97 (42%), Gaps = 10/97 (10%)
Query: 12 FHTEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDLAAAQG 71
F EM N +VV + C C+ + E+LS D D++++ A G
Sbjct: 15 FFKEMKN--PVDLVVFSSKEGCQYCEVTKQLLEELSELSDKLKLEIYDFDEDKEKAEKYG 72
Query: 72 VSAMPTFIFFRNKIPDPNTLEAKIKQYYGVGEESGEE 108
V +PT IF ++ D +YYG+ +G E
Sbjct: 73 VERVPTTIFLQDGGKDGGI------RYYGL--PAGYE 101
>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 = 29.4 bits (66), Expect = 1.1
Identities = 25/103 (24%), Positives = 43/103 (41%), Gaps = 17/103 (16%)
Query: 25 VVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDLAAAQGVSAMPTFI--FFR 82
+V F S C C + APV ++ S+++ + +D + A P + FF
Sbjct: 54 LVFFYQSTCPYCHQFAPVLKRFSQQF-GLPVYAFSLDGQGLTGFPDPLPATPEVMQTFFP 112
Query: 83 NKIP---------DPNTLEAKIKQYYGVGEESGEESGVAGHMD 116
N P + NT +A Y V + + +E+ +A MD
Sbjct: 113 NPRPVVTPATFLVNVNTRKA-----YPVLQGAVDEAELANRMD 150
>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 = 29.0 bits (65), Expect = 1.2
Identities = 9/37 (24%), Positives = 17/37 (45%)
Query: 20 GTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFF 56
++ +V + A W Q FEQ+++K + F
Sbjct: 28 DAEVSLVMYYAPWDAQSQAARQEFEQVAQKLSDQVLF 64
>gnl|CDD|239151 cd02750, MopB_Nitrate-R-NarG-like, Respiratory nitrate reductase A
(NarGHI), alpha chain (NarG) and related proteins. Under
anaerobic conditions in the presence of nitrate, E. coli
synthesizes the cytoplasmic membrane-bound
quinol-nitrate oxidoreductase (NarGHI), which reduces
nitrate to nitrite and forms part of a redox loop
generating a proton-motive force. Found in prokaryotes
and some archaea, NarGHI usually functions as a
heterotrimer. The alpha chain contains the molybdenum
cofactor-containing Mo-bisMGD catalytic subunit. Members
of the MopB_Nitrate-R-NarG-like CD belong to the
molybdopterin_binding (MopB) superfamily of proteins.
Length = 461
Score = 30.0 bits (68), Expect = 1.4
Identities = 11/20 (55%), Positives = 12/20 (60%)
Query: 8 SDAHFHTEMNNCGTKLVVVD 27
DAHF TE G K+VVV
Sbjct: 187 PDAHFLTEARYNGAKVVVVS 206
>gnl|CDD|239250 cd02952, TRP14_like, Human TRX-related protein 14 (TRP14)-like
family; composed of proteins similar to TRP14, a 14kD
cytosolic protein that shows disulfide reductase
activity in vitro with a different substrate
specificity compared with another human cytosolic
protein, TRX1. TRP14 catalyzes the reduction of small
disulfide-containing peptides but does not reduce
disulfides of ribonucleotide reductase, peroxiredoxin
and methionine sulfoxide reductase, which are TRX1
substrates. TRP14 also plays a role in tumor necrosis
factor (TNF)-alpha signaling pathways, distinct from
that of TRX1. Its depletion promoted TNF-alpha induced
activation of c-Jun N-terminal kinase and
mitogen-activated protein kinases.
Length = 119
Score = 28.9 bits (65), Expect = 1.5
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 8/57 (14%)
Query: 12 FHTEMNNCGTKLVVVDFTA-------SWCGPCQRIAPVFEQLSRKYP-NAAFFKVDV 60
F + + K + + F SWC C + PV + + P + F DV
Sbjct: 12 FLKLLKSHEGKPIFILFYGDKDPDGQSWCPDCVKAEPVVREALKAAPEDCVFIYCDV 68
>gnl|CDD|215175 PLN02309, PLN02309, 5'-adenylylsulfate reductase.
Length = 457
Score = 29.8 bits (67), Expect = 1.7
Identities = 22/76 (28%), Positives = 33/76 (43%), Gaps = 14/76 (18%)
Query: 14 TEMNNCGTKLVVVDFTASWCGPCQRIAPVFEQLSRKYPNA----AFFKVDVDQ----NQD 65
N LVV+ A WC CQ + +E+L+ K + A F+ D DQ Q+
Sbjct: 360 KLENRKEPWLVVL--YAPWCPFCQAMEASYEELAEKLAGSGVKVAKFRADGDQKEFAKQE 417
Query: 66 LAAAQGVSAMPTFIFF 81
L + + PT + F
Sbjct: 418 LQ----LGSFPTILLF 429
>gnl|CDD|131251 TIGR02196, GlrX_YruB, Glutaredoxin-like protein, YruB-family.
This glutaredoxin-like protein family contains the
conserved CxxC motif and includes the Clostridium
pasteurianum protein YruB which has been cloned from a
rubredoxin operon. Somewhat related to NrdH, it is
unknown whether this protein actually interacts with
glutathione/glutathione reducatase, or, like NrdH, some
other reductant system.
Length = 74
Score = 27.3 bits (61), Expect = 1.9
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 5/39 (12%)
Query: 25 VVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQN 63
V +T WC PC++ AF ++DV+++
Sbjct: 2 VKVYTTPWCPPCKKAKEYLTSK-----GIAFEEIDVEKD 35
>gnl|CDD|239017 cd02066, GRX_family, Glutaredoxin (GRX) family; composed of GRX,
approximately 10 kDa in size, and proteins containing a
GRX or GRX-like domain. GRX is a glutathione (GSH)
dependent reductase, catalyzing the disulfide reduction
of target proteins such as ribonucleotide reductase. It
contains a redox active CXXC motif in a TRX fold and
uses a similar dithiol mechanism employed by TRXs for
intramolecular disulfide bond reduction of protein
substrates. Unlike TRX, GRX has preference for mixed
GSH disulfide substrates, in which it uses a monothiol
mechanism where only the N-terminal cysteine is
required. The flow of reducing equivalents in the GRX
system goes from NADPH -> GSH reductase -> GSH -> GRX
-> protein substrates. By altering the redox state of
target proteins, GRX is involved in many cellular
functions including DNA synthesis, signal transduction
and the defense against oxidative stress. Different
classes are known including human GRX1 and GRX2, as
well as E. coli GRX1 and GRX3, which are members of
this family. E. coli GRX2, however, is a 24-kDa protein
that belongs to the GSH S-transferase (GST) family.
Length = 72
Score = 27.4 bits (62), Expect = 1.9
Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 9/64 (14%)
Query: 24 VVVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVDVDQNQDL-AAAQGVSAMPTF--IF 80
VVV F+ S C C+R + E L F ++D+ ++ +L + +S PT IF
Sbjct: 2 VVV-FSKSTCPYCKRAKRLLESL-----GIEFEEIDILEDGELREELKELSGWPTVPQIF 55
Query: 81 FRNK 84
+
Sbjct: 56 INGE 59
>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 = 27.8 bits (62), Expect = 2.5
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 62 QNQDLAAAQGVSAMPTFIFFRNKIPDP 88
+ LA A GV+ PTF+ K
Sbjct: 71 ADTALARALGVTGTPTFVVNGEKYSGA 97
>gnl|CDD|178324 PLN02723, PLN02723, 3-mercaptopyruvate sulfurtransferase.
Length = 320
Score = 29.0 bits (65), Expect = 2.6
Identities = 21/61 (34%), Positives = 28/61 (45%), Gaps = 12/61 (19%)
Query: 25 VVDFTASWCGPCQRIAPVFEQLSRKYPNAAFFKVD--VDQNQDL--------AAAQGVSA 74
V+D ASW P ++ P+ E P A FF +D D+ DL A A VSA
Sbjct: 40 VLD--ASWYMPDEQRNPIQEYQVAHIPGALFFDLDGISDRTTDLPHMLPSEEAFAAAVSA 97
Query: 75 M 75
+
Sbjct: 98 L 98
>gnl|CDD|180607 PRK06526, PRK06526, transposase; Provisional.
Length = 254
Score = 28.7 bits (64), Expect = 3.3
Identities = 12/50 (24%), Positives = 23/50 (46%)
Query: 204 SVQQIELTEKDLDGTPINLRYVKFQNVQNLQIFVLDNQTEAETTVITHLA 253
+ Q E+ ++ G +R +F ++L+ F D+Q + I HL
Sbjct: 41 ACLQREVAARESHGGEGRIRAARFPARKSLEEFDFDHQRSLKRDTIAHLG 90
>gnl|CDD|238767 cd01490, Ube1_repeat2, Ubiquitin activating enzyme (E1), repeat 2.
E1, a highly conserved small protein present universally
in eukaryotic cells, is part of cascade to attach
ubiquitin (Ub) covalently to substrate proteins. This
cascade consists of activating (E1), conjugating (E2),
and/or ligating (E3) enzymes and then targets them for
degradation by the 26S proteasome. E1 activates
ubiquitin by C-terminal adenylation, and subsequently
forms a highly reactive thioester bond between its
catalytic cysteine and ubiquitin's C-terminus. E1 also
associates with E2 and promotes ubiquitin transfer to
the E2's catalytic cysteine. Ubiquitin-E1 is a
single-chain protein with a weakly conserved two-fold
repeat. This CD represents the second repeat of Ub-E1.
Length = 435
Score = 28.8 bits (65), Expect = 3.6
Identities = 25/88 (28%), Positives = 39/88 (44%), Gaps = 6/88 (6%)
Query: 134 QHPFTNCLNTAETYLE---SDADEQLILSFTFNQSVKIHSLKIKAPKDKGPKTLKLFINQ 190
Q+ F +C+ A E ++ +QL+ +F + + PK + P L+ +N
Sbjct: 196 QYLFEDCVRWARLLFEKYFNNNIKQLLHNFPPDAVTSDGAPFWSGPK-RCPTPLEFDVNN 254
Query: 191 PKTLDFDAATSN--QSVQQIELTEKDLD 216
P LDF A +N V I EKD D
Sbjct: 255 PLHLDFVLAAANLYAEVYGIPGFEKDDD 282
>gnl|CDD|227346 COG5013, NarG, Nitrate reductase alpha subunit [Energy production
and conversion].
Length = 1227
Score = 28.9 bits (65), Expect = 3.7
Identities = 12/18 (66%), Positives = 13/18 (72%)
Query: 9 DAHFHTEMNNCGTKLVVV 26
DAHF TE+ GTK VVV
Sbjct: 265 DAHFFTEVRYKGTKTVVV 282
>gnl|CDD|224565 COG1651, DsbG, Protein-disulfide isomerase [Posttranslational
modification, protein turnover, chaperones].
Length = 244
Score = 28.3 bits (63), Expect = 4.4
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 60 VDQNQDLAAAQGVSAMPTFIFFRNKI---PDPNTLEAKIKQ 97
+ +N LA GV+ PTFI + PD + L+A I +
Sbjct: 201 IAKNYKLAQQLGVNGTPTFIVNGKLVPGLPDLDELKAIIDE 241
>gnl|CDD|236823 PRK11021, PRK11021, putative transporter; Provisional.
Length = 410
Score = 28.3 bits (64), Expect = 5.1
Identities = 10/21 (47%), Positives = 13/21 (61%), Gaps = 3/21 (14%)
Query: 39 IAPVFEQLSRKYPNA---AFF 56
IA VF +L R +P+A A F
Sbjct: 48 IAIVFARLGRHFPHAGGPAHF 68
>gnl|CDD|222744 pfam14424, Toxin-deaminase, The BURPS668_1122 family of deaminases.
A member of the nucleic acid/nucleotide deaminase
superfamily prototyped by Burkholderia BURPS668_1122.
Members of this family are found as toxins in
polymorphic toxin systems in a wide range of bacteria
and in the eukaryote Perkinsus. Members of this family
typically possess a DxE catalytic motif in Helix-2 of
the core fold instead of the more common C[H]xE motif.
The Perkinsus versions are predicted to be inactive.
Length = 133
Score = 27.0 bits (60), Expect = 5.7
Identities = 9/21 (42%), Positives = 11/21 (52%)
Query: 35 PCQRIAPVFEQLSRKYPNAAF 55
PC+ V EQ +KYPN
Sbjct: 110 PCESCGNVIEQFLKKYPNIKV 130
>gnl|CDD|227429 COG5098, COG5098, Chromosome condensation complex Condensin,
subunit D2 [Chromatin structure and dynamics / Cell
division and chromosome partitioning].
Length = 1128
Score = 28.4 bits (63), Expect = 5.8
Identities = 16/58 (27%), Positives = 26/58 (44%), Gaps = 5/58 (8%)
Query: 166 VKIHSLKIKAPKDKGPKTLKLFINQPKTLDFDAATSNQSVQQIELTEKDLDGTPINLR 223
V + +L P GPK + LF+N+ L + ++Q E ++ LD LR
Sbjct: 264 VLLKNLSFNLPDLSGPKDISLFLNKLSEL-----SPGIMLRQYEHFDELLDSESFTLR 316
>gnl|CDD|218901 pfam06110, DUF953, Eukaryotic protein of unknown function
(DUF953). This family consists of several hypothetical
eukaryotic proteins of unknown function.
Length = 119
Score = 26.6 bits (59), Expect = 7.1
Identities = 16/60 (26%), Positives = 25/60 (41%), Gaps = 8/60 (13%)
Query: 9 DAHFHTEMNNCGTKLVVVDFTA-------SWCGPCQRIAPVFEQLSRKYP-NAAFFKVDV 60
+ + + + G+K + FT SWC C R PV + + P + F VDV
Sbjct: 7 EFNKAVKESENGSKPIFALFTGSKDTTGESWCPDCVRAEPVIREALKHAPEDCHFIYVDV 66
>gnl|CDD|239249 cd02951, SoxW, SoxW family; SoxW is a bacterial periplasmic TRX,
containing a redox active CXXC motif, encoded by a
genetic locus (sox operon) involved in thiosulfate
oxidation. Sulfur bacteria oxidize sulfur compounds to
provide reducing equivalents for carbon dioxide
fixation during autotrophic growth and the respiratory
electron transport chain. It is unclear what the role
of SoxW is, since it has been found to be dispensable
in the oxidation of thiosulfate to sulfate. SoxW is
specifically kept in the reduced state by SoxV, which
is essential in thiosulfate oxidation.
Length = 125
Score = 26.5 bits (59), Expect = 7.8
Identities = 8/30 (26%), Positives = 11/30 (36%)
Query: 52 NAAFFKVDVDQNQDLAAAQGVSAMPTFIFF 81
F + ++LA V PT IF
Sbjct: 62 EVTDFDGEALSEKELARKYRVRFTPTVIFL 91
>gnl|CDD|239286 cd02988, Phd_like_VIAF, Phosducin (Phd)-like family, Viral
inhibitor of apoptosis (IAP)-associated factor (VIAF)
subfamily; VIAF is a Phd-like protein that functions in
caspase activation during apoptosis. It was identified
as an IAP binding protein through a screen of a human
B-cell library using a prototype IAP. VIAF lacks a
consensus IAP binding motif and while it does not
function as an IAP antagonist, it still plays a
regulatory role in the complete activation of caspases.
VIAF itself is a substrate for IAP-mediated
ubiquitination, suggesting that it may be a target of
IAPs in the prevention of cell death. The similarity of
VIAF to Phd points to a potential role distinct from
apoptosis regulation. Phd functions as a cytosolic
regulator of G protein by specifically binding to G
protein betagamma (Gbg)-subunits. The C-terminal domain
of Phd adopts a thioredoxin fold, but it does not
contain a CXXC motif. Phd interacts with G protein beta
mostly through the N-terminal helical domain.
Length = 192
Score = 27.2 bits (61), Expect = 7.8
Identities = 12/52 (23%), Positives = 21/52 (40%), Gaps = 1/52 (1%)
Query: 12 FHTEMNNCGTKLVVVDFTASWCGP-CQRIAPVFEQLSRKYPNAAFFKVDVDQ 62
+ E+ VV P C+ + +L+RK+P+ F K+ Q
Sbjct: 92 YVREVTEASKDTWVVVHLYKDGIPLCRLLNQHLSELARKFPDTKFVKIISTQ 143
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.132 0.378
Gapped
Lambda K H
0.267 0.0665 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,458,545
Number of extensions: 1236177
Number of successful extensions: 1119
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1086
Number of HSP's successfully gapped: 97
Length of query: 278
Length of database: 10,937,602
Length adjustment: 96
Effective length of query: 182
Effective length of database: 6,679,618
Effective search space: 1215690476
Effective search space used: 1215690476
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: 58 (26.3 bits)