RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2878
(181 letters)
>gnl|CDD|239313 cd03015, PRX_Typ2cys, Peroxiredoxin (PRX) family, Typical 2-Cys PRX
subfamily; PRXs are thiol-specific antioxidant (TSA)
proteins, which confer a protective role in cells
through its peroxidase activity by reducing hydrogen
peroxide, peroxynitrite, and organic hydroperoxides. The
functional unit of typical 2-cys PRX is a homodimer. A
unique intermolecular redox-active disulfide center is
utilized for its activity. Upon reaction with peroxides,
its peroxidatic cysteine is oxidized into a sulfenic
acid intermediate which is resolved by bonding with the
resolving cysteine from the other subunit of the
homodimer. This intermolecular disulfide bond is then
reduced by thioredoxin, tryparedoxin or AhpF. Typical
2-cys PRXs, like 1-cys PRXs, form decamers which are
stabilized by reduction of the active site cysteine.
Typical 2-cys PRX interacts through beta strands at one
edge of the monomer (B-type interface) to form the
functional homodimer, and uses an A-type interface
(similar to the dimeric interface in atypical 2-cys PRX
and PRX5) at the opposite end of the monomer to form the
stable decameric (pentamer of dimers) structure.
Length = 173
Score = 204 bits (522), Expect = 4e-68
Identities = 73/164 (44%), Positives = 98/164 (59%), Gaps = 8/164 (4%)
Query: 18 PGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAI 77
P F FK I+ S + GKW + +FYP DFTFVCPTEI ++ ++F + NA
Sbjct: 6 PDFKATAVVPNGEFKEISLSDYKGKWVVLFFYPLDFTFVCPTEIIAFSDRYEEFKKLNAE 65
Query: 78 LLGGSSDNEFVKLAWR---RENSNLYKLNHWQFSDTNGSLIDQLGIRHE-TGVALRATFI 133
+LG S+D+ F LAWR R+ L K+N +D + G+ E GVALR TFI
Sbjct: 66 VLGVSTDSHFSHLAWRNTPRKEGGLGKINFPLLADPKKKISRDYGVLDEEEGVALRGTFI 125
Query: 134 FDPQNIIQHITVNNLNVGRNPIETLRILDAIQT----GKLCACN 173
DP+ II+HITVN+L VGR+ ETLR+LDA+Q G++C N
Sbjct: 126 IDPEGIIRHITVNDLPVGRSVDETLRVLDALQFVEEHGEVCPAN 169
>gnl|CDD|223527 COG0450, AhpC, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 194
Score = 179 bits (457), Expect = 5e-58
Identities = 71/189 (37%), Positives = 101/189 (53%), Gaps = 17/189 (8%)
Query: 1 MKTIGQSLSSYRVIGVKPGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTE 60
M IG+ + V G F+ IT S + GKW + +FYP DFTFVCPTE
Sbjct: 2 MSLIGKKAPDFTANAVLGGE---------IFEEITLSDYYGKWVVLFFYPADFTFVCPTE 52
Query: 61 ISEYNKLVKDFNERNAILLGGSSDNEFVKLAWR---RENSNLYKLNHWQFSDTNGSLIDQ 117
I + K ++F +R ++G S+D+ F AW+ RE + K+ +D G +
Sbjct: 53 IIAFAKRYEEFQKRGVEVIGVSTDSVFSHKAWKATIREAGGIGKIKFPMIADPKGEIARA 112
Query: 118 LGIRH-ETGVALRATFIFDPQNIIQHITVNNLNVGRNPIETLRILDAIQT----GKLCAC 172
G+ H E G+ALR TFI DP +I+HI VN L +GRN E LR++DA+Q G++C
Sbjct: 113 YGVLHPEEGLALRGTFIIDPDGVIRHILVNPLTIGRNVDEILRVIDALQFVAKHGEVCPA 172
Query: 173 NRTLNGKTL 181
N KT+
Sbjct: 173 NWKPGDKTI 181
>gnl|CDD|239269 cd02971, PRX_family, Peroxiredoxin (PRX) family; composed of the
different classes of PRXs including many proteins
originally known as bacterioferritin comigratory
proteins (BCP), based on their electrophoretic mobility
before their function was identified. PRXs are
thiol-specific antioxidant (TSA) proteins also known as
TRX peroxidases and alkyl hydroperoxide reductase C22
(AhpC) proteins. They confer a protective antioxidant
role in cells through their peroxidase activity in which
hydrogen peroxide, peroxynitrate, and organic
hydroperoxides are reduced and detoxified using reducing
equivalents derived from either TRX, glutathione,
trypanothione and AhpF. They are distinct from other
peroxidases in that they have no cofactors such as
metals or prosthetic groups. The first step of
catalysis, common to all PRXs, is the nucleophilic
attack by the catalytic cysteine (also known as the
peroxidatic cysteine) on the peroxide leading to
cleavage of the oxygen-oxygen bond and the formation of
a cysteine sulfenic acid intermediate. The second step
of the reaction, the resolution of the intermediate,
distinguishes the different types of PRXs. The presence
or absence of a second cysteine (the resolving cysteine)
classifies PRXs as either belonging to the 2-cys or
1-cys type. The resolving cysteine of 2-cys PRXs is
either on the same chain (atypical) or on the second
chain (typical) of a functional homodimer. Structural
and motif analysis of this growing family supports the
need for a new classification system. The peroxidase
activity of PRXs is regulated in vivo by irreversible
cysteine over-oxidation into a sulfinic acid,
phosphorylation and limited proteolysis.
Length = 140
Score = 135 bits (342), Expect = 3e-41
Identities = 54/146 (36%), Positives = 74/146 (50%), Gaps = 13/146 (8%)
Query: 18 PGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAI 77
P F LP + ++ S F GKW + +FYPKDFT VC TE+ + L ++F + A
Sbjct: 3 PDFTLPATD----GGEVSLSDFKGKWVVLFFYPKDFTPVCTTELCAFRDLAEEFAKGGAE 58
Query: 78 LLGGSSDNEFVKLAWRRENSNL-YKLNHWQFSDTNGSLIDQLGIRHE----TGVALRATF 132
+LG S D+ F AW + L + L SD +G G+ E G+A RATF
Sbjct: 59 VLGVSVDSPFSHKAWAEKEGGLNFPL----LSDPDGEFAKAYGVLIEKSAGGGLAARATF 114
Query: 133 IFDPQNIIQHITVNNLNVGRNPIETL 158
I DP I+++ V L GRN E L
Sbjct: 115 IIDPDGKIRYVEVEPLPTGRNAEELL 140
>gnl|CDD|140280 PTZ00253, PTZ00253, tryparedoxin peroxidase; Provisional.
Length = 199
Score = 126 bits (318), Expect = 4e-37
Identities = 65/160 (40%), Positives = 92/160 (57%), Gaps = 8/160 (5%)
Query: 30 AFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVK 89
+FK I+ SS+ GKW + +FYP DFTFVCPTEI +++ VK FNE N +L S D+E+
Sbjct: 25 SFKKISLSSYKGKWVVLFFYPLDFTFVCPTEIIQFSDSVKRFNELNCEVLACSMDSEYAH 84
Query: 90 LAW---RRENSNLYKLNHWQFSDTNGSLIDQLGI-RHETGVALRATFIFDPQNIIQHITV 145
L W R+ L + +D S+ G+ E GVA R FI DP+ +++ ITV
Sbjct: 85 LQWTLQERKKGGLGTMAIPMLADKTKSIARSYGVLEEEQGVAYRGLFIIDPKGMLRQITV 144
Query: 146 NNLNVGRNPIETLRILDAIQ----TGKLCACNRTLNGKTL 181
N++ VGRN E LR+L+A Q G++C N T+
Sbjct: 145 NDMPVGRNVEEVLRLLEAFQFVEKHGEVCPANWKKGDPTM 184
>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 = 112 bits (283), Expect = 2e-32
Identities = 44/132 (33%), Positives = 69/132 (52%), Gaps = 10/132 (7%)
Query: 14 IGVK-PGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFN 72
+G K P F LP+ + K ++ S + GKW + +FYPKDFT VC TE+ L ++F
Sbjct: 1 VGDKAPDFELPDLD----GKEVSLSDYKGKWVVLFFYPKDFTPVCTTELPALADLYEEFK 56
Query: 73 ERNAILLGGSSDNEFVKLAWRRENSNLYKLNHWQFSDTNGSLIDQLGIRHE-TGVALRAT 131
+ +LG S D+ + + + L SD +G + G+ +E G+ALR T
Sbjct: 57 KLGVEVLGVSVDSPESHKKFAEKLGLPFPL----LSDPDGEVAKAYGVLNEEEGLALRTT 112
Query: 132 FIFDPQNIIQHI 143
F+ DP I++I
Sbjct: 113 FVIDPDGKIRYI 124
>gnl|CDD|211789 TIGR03137, AhpC, peroxiredoxin. This peroxiredoxin (AhpC,
alkylhydroperoxide reductase subunit C) is one subunit
of a two-subunit complex with subunit F(TIGR03140).
Usually these are found as an apparent operon. The gene
has been characterized in Bacteroides fragilis where it
is important in oxidative stress defense. This gene
contains two invariant cysteine residues, one near the
N-terminus and one near the C-terminus, each followed
immediately by a proline residue [Cellular processes,
Detoxification, Cellular processes, Adaptations to
atypical conditions].
Length = 187
Score = 112 bits (283), Expect = 6e-32
Identities = 46/136 (33%), Positives = 72/136 (52%), Gaps = 1/136 (0%)
Query: 31 FKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKL 90
F +T+ GKW +F+FYP DFTFVCPTE+ + + + + S+D FV
Sbjct: 21 FVEVTDEDVKGKWSVFFFYPADFTFVCPTELEDLADNYAELKKLGVEVYSVSTDTHFVHK 80
Query: 91 AWRRENSNLYKLNHWQFSDTNGSLIDQLGI-RHETGVALRATFIFDPQNIIQHITVNNLN 149
AW + + K+ + D G L G+ E G+A R TF+ DP+ +IQ + +++
Sbjct: 81 AWHDTSEAIGKITYPMLGDPTGVLTRNFGVLIEEAGLADRGTFVIDPEGVIQAVEIHDNG 140
Query: 150 VGRNPIETLRILDAIQ 165
+GR+ E LR + A Q
Sbjct: 141 IGRDASELLRKIKAAQ 156
>gnl|CDD|182423 PRK10382, PRK10382, alkyl hydroperoxide reductase subunit C;
Provisional.
Length = 187
Score = 104 bits (260), Expect = 2e-28
Identities = 56/172 (32%), Positives = 84/172 (48%), Gaps = 8/172 (4%)
Query: 16 VKPGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERN 75
+KP N +N F +TE G+W +F+FYP DFTFVCPTE+ + ++ +
Sbjct: 8 IKPFKNQAFKN--GEFIEVTEKDTEGRWSVFFFYPADFTFVCPTELGDVADHYEELQKLG 65
Query: 76 AILLGGSSDNEFVKLAWRRENSNLYKLNHWQFSDTNGSLIDQL-GIRHETGVALRATFIF 134
+ S+D F AW + + K+ + D G+L +R + G+A RATF+
Sbjct: 66 VDVYSVSTDTHFTHKAWHSSSETIAKIKYAMIGDPTGALTRNFDNMREDEGLADRATFVV 125
Query: 135 DPQNIIQHITVNNLNVGRNPIETLRILDAIQ-----TGKLCACNRTLNGKTL 181
DPQ IIQ I V +GR+ + LR + A Q G++C TL
Sbjct: 126 DPQGIIQAIEVTAEGIGRDASDLLRKIKAAQYVASHPGEVCPAKWKEGEATL 177
>gnl|CDD|184962 PRK15000, PRK15000, peroxidase; Provisional.
Length = 200
Score = 100 bits (250), Expect = 7e-27
Identities = 51/138 (36%), Positives = 81/138 (58%), Gaps = 8/138 (5%)
Query: 41 GKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKLAWRR---ENS 97
GK + +F+P DFTFVCP+E+ ++K ++F +R ++G S D+EFV AWR +
Sbjct: 34 GKTTVLFFWPMDFTFVCPSELIAFDKRYEEFQKRGVEVVGVSFDSEFVHNAWRNTPVDKG 93
Query: 98 NLYKLNHWQFSDTNGSLIDQLGIRH-ETGVALRATFIFDPQNIIQHITVNNLNVGRNPIE 156
+ + + +D + GI H + GVALR +F+ D I++H VN+L +GRN E
Sbjct: 94 GIGPVKYAMVADVKREIQKAYGIEHPDEGVALRGSFLIDANGIVRHQVVNDLPLGRNIDE 153
Query: 157 TLRILDAIQ----TGKLC 170
LR++DA+Q G +C
Sbjct: 154 MLRMVDALQFHEEHGDVC 171
>gnl|CDD|173427 PTZ00137, PTZ00137, 2-Cys peroxiredoxin; Provisional.
Length = 261
Score = 92.7 bits (230), Expect = 3e-23
Identities = 48/142 (33%), Positives = 78/142 (54%), Gaps = 7/142 (4%)
Query: 39 FPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKLAWRR---E 95
F + + FYP DFTFVCP+E+ +++ +K+F ER +LG S D+ F AW+
Sbjct: 96 FKDSYGLLVFYPLDFTFVCPSELLGFSERLKEFEERGVKVLGVSVDSPFSHKAWKELDVR 155
Query: 96 NSNLYKLNHWQFSDTNGSLIDQLGIRHETGVALRATFIFDPQNIIQHITVNNLNVGRNPI 155
+ L FSD + + G+ + G + RA+ + D +++H+ V +L +GR+
Sbjct: 156 QGGVSPLKFPLFSDISREVSKSFGLLRDEGFSHRASVLVDKAGVVKHVAVYDLGLGRSVD 215
Query: 156 ETLRILDAIQ----TGKLCACN 173
ETLR+ DA+Q TG +C N
Sbjct: 216 ETLRLFDAVQFAEKTGNVCPVN 237
>gnl|CDD|224146 COG1225, Bcp, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 157
Score = 86.5 bits (215), Expect = 5e-22
Identities = 39/138 (28%), Positives = 68/138 (49%), Gaps = 16/138 (11%)
Query: 14 IGVK-PGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFN 72
+G K P F LP+++ + ++ S GK + YFYPKDFT C TE ++ L+++F
Sbjct: 6 VGDKAPDFELPDQDG----ETVSLSDLRGKPVVLYFYPKDFTPGCTTEACDFRDLLEEFE 61
Query: 73 ERNAILLGGSSDNEFVKLAWRRENSNLYKLNHWQFSDTNGSLIDQLGIRHETG------- 125
+ A++LG S D+ + + + L SD +G + + G+ E
Sbjct: 62 KLGAVVLGISPDSPKSHKKFAEK----HGLTFPLLSDEDGEVAEAYGVWGEKKMYGKEYM 117
Query: 126 VALRATFIFDPQNIIQHI 143
R+TF+ DP I+++
Sbjct: 118 GIERSTFVIDPDGKIRYV 135
>gnl|CDD|239314 cd03016, PRX_1cys, Peroxiredoxin (PRX) family, 1-cys PRX subfamily;
composed of PRXs containing only one conserved cysteine,
which serves as the peroxidatic cysteine. They are
homodimeric thiol-specific antioxidant (TSA) proteins
that confer a protective role in cells by reducing and
detoxifying hydrogen peroxide, peroxynitrite, and
organic hydroperoxides. As with all other PRXs, a
cysteine sulfenic acid intermediate is formed upon
reaction of 1-cys PRX with its substrates. Having no
resolving cysteine, the oxidized enzyme is resolved by
an external small-molecule or protein reductant such as
thioredoxin or glutaredoxin. Similar to typical 2-cys
PRX, 1-cys PRX forms a functional dimeric unit with a
B-type interface, as well as a decameric structure which
is stabilized in the reduced form of the enzyme. Other
oligomeric forms, tetramers and hexamers, have also been
reported. Mammalian 1-cys PRX is localized cellularly in
the cytosol and is expressed at high levels in brain,
eye, testes and lung. The seed-specific plant 1-cys PRXs
protect tissues from reactive oxygen species during
desiccation and are also called rehydrins.
Length = 203
Score = 85.3 bits (212), Expect = 4e-21
Identities = 43/132 (32%), Positives = 64/132 (48%), Gaps = 7/132 (5%)
Query: 42 KWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKLAWRRENSNLYK 101
W I + +P DFT VC TE+ + KL +F +RN L+G S D+ + W E+ Y
Sbjct: 26 SWGILFSHPADFTPVCTTELGAFAKLAPEFKKRNVKLIGLSVDSVESHIKW-IEDIEEYT 84
Query: 102 LNHWQF---SDTNGSLIDQLGIRHE---TGVALRATFIFDPQNIIQHITVNNLNVGRNPI 155
F +D + + LG+ + + +RA FI DP I+ I GRN
Sbjct: 85 GVEIPFPIIADPDREVAKLLGMIDPDAGSTLTVRAVFIIDPDKKIRLILYYPATTGRNFD 144
Query: 156 ETLRILDAIQTG 167
E LR++DA+Q
Sbjct: 145 EILRVVDALQLT 156
>gnl|CDD|237297 PRK13189, PRK13189, peroxiredoxin; Provisional.
Length = 222
Score = 84.3 bits (209), Expect = 2e-20
Identities = 45/133 (33%), Positives = 66/133 (49%), Gaps = 6/133 (4%)
Query: 39 FPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKLAWRR---E 95
+ GKW + + +P DFT VC TE + K +F E N L+G S D F + W E
Sbjct: 33 YKGKWFVLFSHPADFTPVCTTEFVAFQKRYDEFRELNTELIGLSIDQVFSHIKWVEWIKE 92
Query: 96 NSNLYKLNHWQFSDTNGSLIDQLGIRHETG--VALRATFIFDPQNIIQHITVNNLNVGRN 153
+ ++ +D G + +LG+ +RA FI DP+ II+ I VGRN
Sbjct: 93 KLGV-EIEFPIIADDRGEIAKKLGMISPGKGTNTVRAVFIIDPKGIIRAILYYPQEVGRN 151
Query: 154 PIETLRILDAIQT 166
E LR++ A+QT
Sbjct: 152 MDEILRLVKALQT 164
>gnl|CDD|239315 cd03017, PRX_BCP, Peroxiredoxin (PRX) family, Bacterioferritin
comigratory protein (BCP) subfamily; composed of
thioredoxin-dependent thiol peroxidases, widely
expressed in pathogenic bacteria, that protect cells
against toxicity from reactive oxygen species by
reducing and detoxifying hydroperoxides. The protein was
named BCP based on its electrophoretic mobility before
its function was known. BCP shows substrate selectivity
toward fatty acid hydroperoxides rather than hydrogen
peroxide or alkyl hydroperoxides. BCP contains the
peroxidatic cysteine but appears not to possess a
resolving cysteine (some sequences, not all, contain a
second cysteine but its role is still unknown). Unlike
other PRXs, BCP exists as a monomer. The plant homolog
of BCP is PRX Q, which is expressed only in leaves and
is cellularly localized in the chloroplasts and the
guard cells of stomata. Also included in this subfamily
is the fungal nuclear protein, Dot5p (for disrupter of
telomere silencing protein 5), which functions as an
alkyl-hydroperoxide reductase during post-diauxic
growth.
Length = 140
Score = 80.3 bits (199), Expect = 8e-20
Identities = 37/133 (27%), Positives = 59/133 (44%), Gaps = 18/133 (13%)
Query: 18 PGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAI 77
P F LP+++ + ++ S GK + YFYPKD T C E ++ L ++F A+
Sbjct: 4 PDFTLPDQDG----ETVSLSDLRGKPVVLYFYPKDDTPGCTKEACDFRDLYEEFKALGAV 59
Query: 78 LLGGSSDNEFVKLAWRRENSNLYKLNHWQF---SDTNGSLIDQLGIRHE----TGVALRA 130
++G S D+ + + Y L F SD +G L G+ E R+
Sbjct: 60 VIGVSPDSVESHAKFAEK----YGLP---FPLLSDPDGKLAKAYGVWGEKKKKYMGIERS 112
Query: 131 TFIFDPQNIIQHI 143
TF+ DP I +
Sbjct: 113 TFLIDPDGKIVKV 125
>gnl|CDD|239316 cd03018, PRX_AhpE_like, Peroxiredoxin (PRX) family, AhpE-like
subfamily; composed of proteins similar to Mycobacterium
tuberculosis AhpE. AhpE is described as a 1-cys PRX
because of the absence of a resolving cysteine. The
structure and sequence of AhpE, however, show greater
similarity to 2-cys PRXs than 1-cys PRXs. PRXs are
thiol-specific antioxidant (TSA) proteins that confer a
protective role in cells through their peroxidase
activity in which hydrogen peroxide, peroxynitrate, and
organic hydroperoxides are reduced and detoxified using
reducing equivalents derived from either thioredoxin,
glutathione, trypanothione and AhpF. The first step of
catalysis is the nucleophilic attack by the peroxidatic
cysteine on the peroxide leading to the formation of a
cysteine sulfenic acid intermediate. The absence of a
resolving cysteine suggests that functional AhpE is
regenerated by an external reductant. The solution
behavior and crystal structure of AhpE show that it
forms dimers and octamers.
Length = 149
Score = 76.9 bits (190), Expect = 2e-18
Identities = 46/150 (30%), Positives = 68/150 (45%), Gaps = 12/150 (8%)
Query: 18 PGFNLPEENNVSAFKVITESSFPGKWK-IFYFYPKDFTFVCPTEISEYNKLVKDFNERNA 76
P F LP++N + + S F G+ + F+P FT VC E+ ++ F A
Sbjct: 8 PDFELPDQN----GQEVRLSEFRGRKPVVLVFFPLAFTPVCTKELCALRDSLELFEAAGA 63
Query: 77 ILLGGSSDNEFVKLAWRRENSNLYKLNHWQFSDTN--GSLIDQLGIRHET-GVALRATFI 133
+LG S D+ F AW EN + L SD G + G+ E GVA RA F+
Sbjct: 64 EVLGISVDSPFSLRAWAEENGLTFPL----LSDFWPHGEVAKAYGVFDEDLGVAERAVFV 119
Query: 134 FDPQNIIQHITVNNLNVGRNPIETLRILDA 163
D II++ V++ R+ + LDA
Sbjct: 120 IDRDGIIRYAWVSDDGEPRDLPDYDEALDA 149
>gnl|CDD|106544 PRK13599, PRK13599, putative peroxiredoxin; Provisional.
Length = 215
Score = 77.1 bits (189), Expect = 1e-17
Identities = 56/172 (32%), Positives = 83/172 (48%), Gaps = 19/172 (11%)
Query: 1 MKTIGQSLSSYRVIGVKPGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTE 60
MK +G+ S V+ + LPE+ + GKW + + +P DFT VC TE
Sbjct: 1 MKLLGEKFPSMEVVTTQGVKRLPED-------------YAGKWFVLFSHPADFTPVCTTE 47
Query: 61 ISEYNKLVKDFNERNAILLGGSSDNEFVKLAWR---RENSNLYKLNHWQFSDTNGSLIDQ 117
E+ + DF E N L+G S D F + W ++N+N+ + +D G + +Q
Sbjct: 48 FVEFARKANDFKELNTELIGLSVDQVFSHIKWVEWIKDNTNI-AIPFPVIADDLGKVSNQ 106
Query: 118 LGIRH--ETGVALRATFIFDPQNIIQHITVNNLNVGRNPIETLRILDAIQTG 167
LG+ H + +RA FI D + I+ I VGRN E LR L A+QT
Sbjct: 107 LGMIHPGKGTNTVRAVFIVDDKGTIRLIMYYPQEVGRNVDEILRALKALQTA 158
>gnl|CDD|106159 PRK13190, PRK13190, putative peroxiredoxin; Provisional.
Length = 202
Score = 73.0 bits (179), Expect = 2e-16
Identities = 45/154 (29%), Positives = 74/154 (48%), Gaps = 5/154 (3%)
Query: 16 VKPGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERN 75
VK G P+ + I S + GKW + + +P DFT VC TE +++ +DF +
Sbjct: 2 VKLGQKAPDFTVNTTKGPIDLSKYKGKWVLLFSHPADFTPVCTTEFIAFSRRYEDFKKLG 61
Query: 76 AILLGGSSDNEFVKLAWRRENSNLYKLNHWQF---SDTNGSLIDQLGIRHE-TGVALRAT 131
L+G S D+ + +AW R+ + + F +D + L + + E +G +R
Sbjct: 62 VELVGLSVDSIYSHIAWLRDIEERFGIK-IPFPVIADIDKELAREYNLIDENSGATVRGV 120
Query: 132 FIFDPQNIIQHITVNNLNVGRNPIETLRILDAIQ 165
FI DP I++ + GRN E +RI A+Q
Sbjct: 121 FIIDPNQIVRWMIYYPAETGRNIDEIIRITKALQ 154
>gnl|CDD|183885 PRK13191, PRK13191, putative peroxiredoxin; Provisional.
Length = 215
Score = 65.3 bits (159), Expect = 2e-13
Identities = 40/131 (30%), Positives = 69/131 (52%), Gaps = 4/131 (3%)
Query: 39 FPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKLAWRR--EN 96
+ G+W + + +P DFT VC TE + K ++F + N L+G S D+ + W E
Sbjct: 31 YKGRWFVLFSHPGDFTPVCTTEFYSFAKKYEEFKKLNTELIGLSVDSNISHIEWVMWIEK 90
Query: 97 SNLYKLNHWQFSDTNGSLIDQLGIRH-ETGVA-LRATFIFDPQNIIQHITVNNLNVGRNP 154
+ ++ +D G++ +LG+ H E+ A +RA FI D + ++ I + +GRN
Sbjct: 91 NLKVEVPFPIIADPMGNVAKRLGMIHAESSTATVRAVFIVDDKGTVRLILYYPMEIGRNI 150
Query: 155 IETLRILDAIQ 165
E LR + A+Q
Sbjct: 151 DEILRAIRALQ 161
>gnl|CDD|219888 pfam08534, Redoxin, Redoxin. This family of redoxins includes
peroxiredoxin, thioredoxin and glutaredoxin proteins.
Length = 142
Score = 52.7 bits (127), Expect = 3e-09
Identities = 32/143 (22%), Positives = 56/143 (39%), Gaps = 9/143 (6%)
Query: 18 PGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNA- 76
P F LP+ K ++ S F GK + F+P F C E KL K + +
Sbjct: 6 PDFTLPDVA--LDGKTVSLSDFKGKKVVLNFWPGAFCPTCSAEHPYLEKLSKLYKAKGVD 63
Query: 77 -ILLGGSSDNEFVKLAWRRENSNLYKLNHWQFSDTNGSLIDQLGIRHETGVALRATFIFD 135
+ + S+D FV W +E Y + +D +G+ G+ + G+ F+ D
Sbjct: 64 VVAVNASNDPFFVMNFWAKEGLK-YPV----LADRDGAFTKAYGLTEDAGLRTPRYFLID 118
Query: 136 PQNIIQHITVNNLNVGRNPIETL 158
+ ++ V + E +
Sbjct: 119 EDGKVVYLEVGPDPGDVSDAEAV 141
>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 = 39.5 bits (93), Expect = 1e-04
Identities = 27/120 (22%), Positives = 45/120 (37%), Gaps = 24/120 (20%)
Query: 32 KVITESSFPGKWKIFYFY-----PKDFTFVCPTEISEYNKLVKDFNERNAILLG---GSS 83
K ++ S GK + F+ P C E+ E L K++ + ++G
Sbjct: 10 KPVSLSDLKGKVVLVNFWASWCPP------CRAEMPELEALAKEYKDDGVEVVGVNVDDD 63
Query: 84 DNEFVKLAWRRENSNLYKLNHWQFSDTNGSLIDQLGIRHETGVALRATFIFDPQNIIQHI 143
D VK A+ ++ Y + D +G L G+R L TF+ D I+
Sbjct: 64 DPAAVK-AFLKK----YGITFPVLLDPDGELAKAYGVR-----GLPTTFLIDRDGRIRAR 113
>gnl|CDD|181857 PRK09437, bcp, thioredoxin-dependent thiol peroxidase; Reviewed.
Length = 154
Score = 40.3 bits (95), Expect = 1e-04
Identities = 33/134 (24%), Positives = 59/134 (44%), Gaps = 17/134 (12%)
Query: 18 PGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAI 77
P F+LP+++ ++ + F G+ + YFYPK T C + + + + +
Sbjct: 11 PKFSLPDQDGEQ----VSLTDFQGQRVLVYFYPKAMTPGCTVQACGLRDNMDELKKAGVV 66
Query: 78 LLGGSSDNEFVKLAWRRENSNLYKLNHWQFSDTNGSLIDQLGIRHET--------GVALR 129
+LG S+D KL+ E LN SD + + +Q G+ E G+ R
Sbjct: 67 VLGISTDKP-EKLSRFAEKEL---LNFTLLSDEDHQVAEQFGVWGEKKFMGKTYDGIH-R 121
Query: 130 ATFIFDPQNIIQHI 143
+F+ D I+H+
Sbjct: 122 ISFLIDADGKIEHV 135
>gnl|CDD|239266 cd02968, SCO, SCO (an acronym for Synthesis of Cytochrome c
Oxidase) family; composed of proteins similar to Sco1,
a membrane-anchored protein possessing a soluble domain
with a TRX fold. Members of this family are required
for the proper assembly of cytochrome c oxidase (COX).
They contain a metal binding motif, typically CXXXC,
which is located in a flexible loop. COX, the terminal
enzyme in the respiratory chain, is imbedded in the
inner mitochondrial membrane of all eukaryotes and in
the plasma membrane of some prokaryotes. It is composed
of two subunits, COX I and COX II. It has been proposed
that Sco1 specifically delivers copper to the CuA site,
a dinuclear copper center, of the COX II subunit.
Mutations in human Sco1 and Sco2 cause fatal infantile
hepatoencephalomyopathy and cardioencephalomyopathy,
respectively. Both disorders are associated with severe
COX deficiency in affected tissues. More recently, it
has been argued that the redox sensitivity of the
copper binding properties of Sco1 implies that it
participates in signaling events rather than
functioning as a chaperone that transfers copper to COX
II.
Length = 142
Score = 34.5 bits (80), Expect = 0.009
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 10/63 (15%)
Query: 18 PGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTF---VCPTEISEYNKLVKDFNER 74
P F L +++ + +T S GK + YF +T VCPT ++ + +K
Sbjct: 3 PDFTLTDQDG----RPVTLSDLKGKPVLVYFG---YTHCPDVCPTTLANLAQALKQLGAD 55
Query: 75 NAI 77
Sbjct: 56 GGD 58
>gnl|CDD|224988 COG2077, Tpx, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 32.7 bits (75), Expect = 0.049
Identities = 25/120 (20%), Positives = 48/120 (40%), Gaps = 10/120 (8%)
Query: 33 VITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKLAW 92
++ + F GK K+ +P T VC T++ ++N+ N ++L S D F + +
Sbjct: 36 DVSLADFAGKKKVISVFPSIDTPVCATQVRKFNEEAAKLG--NTVVLCISMDLPFAQKRF 93
Query: 93 RREN-----SNLYKLNHWQFSDTNGSLIDQLGIRHETGVALRATFIFDPQNIIQHITVNN 147
L F + G LI++ + G+ RA F+ D + + +
Sbjct: 94 CGAEGIENVITLSDFRDRAFGENYGVLINEGPLA---GLLARAVFVLDENGKVTYSELVP 150
>gnl|CDD|224910 COG1999, COG1999, Uncharacterized protein SCO1/SenC/PrrC, involved
in biogenesis of respiratory and photosynthetic systems
[General function prediction only].
Length = 207
Score = 31.6 bits (72), Expect = 0.16
Identities = 16/73 (21%), Positives = 28/73 (38%), Gaps = 10/73 (13%)
Query: 10 SYRVIGVKPGFNLPEENNVSAFKVITESSFPGKWKIFYFYPKDFTF---VCPTEISEYNK 66
+ + F L +++ K T GK + +F +T VCPT ++E
Sbjct: 40 DAAAVYIGGDFELTDQDG----KPFTLKDLKGKPSLVFF---GYTHCPDVCPTTLAELKA 92
Query: 67 LVKDFNERNAILL 79
L+K E +
Sbjct: 93 LLKKLGEGEGDDV 105
>gnl|CDD|217477 pfam03291, Pox_MCEL, mRNA capping enzyme. This family of enzymes
are related to pfam03919.
Length = 327
Score = 30.4 bits (69), Expect = 0.49
Identities = 11/74 (14%), Positives = 24/74 (32%), Gaps = 3/74 (4%)
Query: 24 EENNVSAFKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSS 83
VS K + P + + +D P + + LV+ E L+ +
Sbjct: 210 SIYYVSFEK---DPPRPPFGIKYVYNLEDMVTDVPEYLVPFETLVELAEEYGLELVDKKT 266
Query: 84 DNEFVKLAWRRENS 97
++ ++ S
Sbjct: 267 FHDIYNEEIKKYRS 280
>gnl|CDD|239312 cd03014, PRX_Atyp2cys, Peroxiredoxin (PRX) family, Atypical 2-cys
PRX subfamily; composed of PRXs containing peroxidatic
and resolving cysteines, similar to the homodimeric
thiol specific antioxidant (TSA) protein also known as
TRX-dependent thiol peroxidase (Tpx). Tpx is a bacterial
periplasmic peroxidase which differs from other PRXs in
that it shows substrate specificity toward alkyl
hydroperoxides over hydrogen peroxide. As with all other
PRXs, the peroxidatic cysteine (N-terminal) of Tpx is
oxidized into a sulfenic acid intermediate upon reaction
with peroxides. Tpx is able to resolve this intermediate
by forming an intramolecular disulfide bond with a
conserved C-terminal cysteine (the resolving cysteine),
which can then be reduced by thioredoxin. This differs
from the typical 2-cys PRX which resolves the oxidized
cysteine by forming an intermolecular disulfide bond
with the resolving cysteine from the other subunit of
the homodimer. Atypical 2-cys PRX homodimers have a
loop-based interface (A-type for alternate), in contrast
with the B-type interface of typical 2-cys and 1-cys
PRXs.
Length = 143
Score = 28.7 bits (65), Expect = 1.1
Identities = 27/120 (22%), Positives = 48/120 (40%), Gaps = 17/120 (14%)
Query: 31 FKVITESSFPGKWKIFYFYPKDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKL 90
++ + F GK K+ +P T VC T+ +NK + N ++L S+D F +
Sbjct: 16 LSEVSLADFAGKVKVISVFPSIDTPVCATQTKRFNKEAAKLD--NTVVLTISADLPFAQK 73
Query: 91 AW-------RRENSNLYKLNHWQFSDTNGSLIDQLGIRHETGVALRATFIFDPQNIIQHI 143
W + ++ + F G LI LG+ RA F+ D + ++
Sbjct: 74 RWCGAEGVDNVTTLSDFRDHS--FGKAYGVLIKDLGL------LARAVFVIDENGKVIYV 125
>gnl|CDD|217076 pfam02511, Thy1, Thymidylate synthase complementing protein.
Thymidylate synthase complementing protein (Thy1)
complements the thymidine growth requirement of the
organisms in which it is found, but shows no homology to
thymidylate synthase.
Length = 189
Score = 27.9 bits (63), Expect = 2.2
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 50 PKDFTFVCPTEISEYNKLVKDFNER 74
K+ F P E+ E ++ K+ E
Sbjct: 85 LKEEEFYVPPELREQDEEAKELLEE 109
>gnl|CDD|116035 pfam07413, Herpes_UL37_2, Betaherpesvirus immediate-early
glycoprotein UL37. This family consists of several
Betaherpesvirus immediate-early glycoprotein UL37
sequences. The human cytomegalovirus (HCMV) UL37
immediate-early regulatory protein is a type I integral
membrane N-glycoprotein which traffics through the ER
and the Golgi network.
Length = 273
Score = 27.5 bits (61), Expect = 3.8
Identities = 9/47 (19%), Positives = 17/47 (36%)
Query: 56 VCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKLAWRRENSNLYKL 102
+CP +L +R + + + FV+ W +N K
Sbjct: 166 ICPRLSRRIYRLKVSRPKRFSTVRNETCVGRFVRNTWTSSWANWTKY 212
>gnl|CDD|225825 COG3287, COG3287, Uncharacterized conserved protein [Function
unknown].
Length = 379
Score = 27.3 bits (61), Expect = 4.2
Identities = 17/77 (22%), Positives = 27/77 (35%), Gaps = 12/77 (15%)
Query: 48 FYPKDFTFVCPTEISEYNKLVKDFNERNAI-----LLGGSSDNEFVKLAW----RRENSN 98
F P D T V + +V + + A ++G + + R+
Sbjct: 206 FVPTDKTGVVTKADGD---VVYEIDGEPAAEEYAEVVGAVEELDPEMFIPNPLGVRDLGP 262
Query: 99 LYKLNHWQFSDTNGSLI 115
LY + QF D G LI
Sbjct: 263 LYYVRAPQFVDEEGGLI 279
>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1,
2, 3, 4 family. These eukaryotic proteins recognize the
poly-A of mRNA and consists of four tandem RNA
recognition domains at the N-terminus (rrm: pfam00076)
followed by a PABP-specific domain (pfam00658) at the
C-terminus. The protein is involved in the transport of
mRNA's from the nucleus to the cytoplasm. There are four
paralogs in Homo sapiens which are expressed in testis
(GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ),
broadly expressed (SP:P11940_PABP1) and of unknown
tissue range (SP:Q15097_PABP2).
Length = 562
Score = 27.5 bits (61), Expect = 4.7
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 5/45 (11%)
Query: 51 KDFTFVCPTEISEYNKLVKDFNERNAILLGGSSDNEFVKLAWRRE 95
+ F FVC + E N+ V + + R +LGG +V LA R+E
Sbjct: 326 RGFGFVCFSNPEEANRAVTEMHGR---MLGGKP--LYVALAQRKE 365
>gnl|CDD|185583 PTZ00375, PTZ00375, dihydroxyacetone kinase-like protein;
Provisional.
Length = 584
Score = 27.5 bits (61), Expect = 5.1
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 1 MKTIGQSLSSYRVIGVKPGFNLPE 24
M++IG SLSS + G P +P
Sbjct: 185 MRSIGVSLSSCSLPGNDPSSTVPP 208
>gnl|CDD|236780 PRK10867, PRK10867, signal recognition particle protein;
Provisional.
Length = 433
Score = 26.6 bits (60), Expect = 7.8
Identities = 6/15 (40%), Positives = 10/15 (66%)
Query: 59 TEISEYNKLVKDFNE 73
T + E N+L+K F +
Sbjct: 403 TTVQEVNRLLKQFEQ 417
>gnl|CDD|205924 pfam13750, Big_3_3, Bacterial Ig-like domain (group 3). This
family consists of bacterial domains with an Ig-like
fold. Members of this family are found in a variety of
bacterial surface proteins.
Length = 157
Score = 26.2 bits (58), Expect = 8.2
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 75 NAILLGGSSDNEFVKLAWRRENSNLYKLNH 104
+I L G ++ V L+W ++Y+L +
Sbjct: 82 TSIQLSGGPASDKVYLSWVSLGKDVYRLEY 111
>gnl|CDD|225410 COG2854, Ttg2D, ABC-type transport system involved in resistance to
organic solvents, auxiliary component [Secondary
metabolites biosynthesis, transport, and catabolism].
Length = 202
Score = 26.2 bits (58), Expect = 8.3
Identities = 15/62 (24%), Positives = 28/62 (45%), Gaps = 16/62 (25%)
Query: 1 MKTIGQSLSSYR--VIGVKPGFNLPEENNVS-AFKVI-------------TESSFPGKWK 44
+T GQ+L Y+ + VKP L + +V ++I +++ GKWK
Sbjct: 104 EQTYGQALLDYKGQTLKVKPSRPLGDGTDVIVRVEIIDPGQKPVKLDFLWRKNNQTGKWK 163
Query: 45 IF 46
++
Sbjct: 164 VY 165
>gnl|CDD|184456 PRK14018, PRK14018, trifunctional thioredoxin/methionine sulfoxide
reductase A/B protein; Provisional.
Length = 521
Score = 26.8 bits (59), Expect = 8.9
Identities = 8/44 (18%), Positives = 15/44 (34%), Gaps = 5/44 (11%)
Query: 109 DTNGSLIDQLGIRHETGVALRATFIFDPQNIIQHITVNNLNVGR 152
D G+L L I + I +Q I +++ +
Sbjct: 126 DNGGTLAQSLNIS-----VYPSWAIIGKDGDVQRIVKGSISEAQ 164
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.320 0.137 0.415
Gapped
Lambda K H
0.267 0.0725 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,166,619
Number of extensions: 830994
Number of successful extensions: 697
Number of sequences better than 10.0: 1
Number of HSP's gapped: 668
Number of HSP's successfully gapped: 43
Length of query: 181
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 90
Effective length of database: 6,901,388
Effective search space: 621124920
Effective search space used: 621124920
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (25.4 bits)