RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy5399
(156 letters)
>gnl|CDD|239311 cd03013, PRX5_like, Peroxiredoxin (PRX) family, PRX5-like
subfamily; members are similar to the human protein,
PRX5, a homodimeric TRX peroxidase, widely expressed in
tissues and found cellularly in mitochondria,
peroxisomes and the cytosol. The cellular location of
PRX5 suggests that it may have an important antioxidant
role in organelles that are major sources of reactive
oxygen species (ROS), as well as a role in the control
of signal transduction. PRX5 has been shown to reduce
hydrogen peroxide, alkyl hydroperoxides and
peroxynitrite. As with all other PRXs, the N-terminal
peroxidatic cysteine of PRX5 is oxidized into a sulfenic
acid intermediate upon reaction with peroxides. Human
PRX5 is able to resolve this intermediate by forming an
intramolecular disulfide bond with its C-terminal
cysteine (the resolving cysteine), which can then be
reduced by TRX, just like an atypical 2-cys PRX. This
resolving cysteine, however, is not conserved in other
members of the subfamily. In such cases, it is assumed
that the oxidized cysteine is directly resolved by an
external small-molecule or protein reductant, typical of
a 1-cys PRX. In the case of the H. influenza PRX5
hybrid, the resolving glutaredoxin domain is on the same
protein chain as PRX. PRX5 homodimers show an A-type
interface, similar to atypical 2-cys PRXs.
Length = 155
Score = 210 bits (538), Expect = 3e-71
Identities = 76/153 (49%), Positives = 102/153 (66%), Gaps = 3/153 (1%)
Query: 5 VGDTLPDALLHENTPQ--TKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDL 62
VGD LP+ L E P + +++ KGKKV+IFGVPGAFTP CS HLPGY+ +L
Sbjct: 1 VGDKLPNVTLFEYVPGPPNPVNLSELFKGKKVVIFGVPGAFTPTCSAQHLPGYVENADEL 60
Query: 63 KAKGIHEIFCIAVNDAFVMEAWCRKNNAEGKIRFLADPNLEFTKKLGVEHEI-PVLGGWR 121
KAKG+ E+ C++VND FVM+AW + A+ KIRFLAD N EFTK LG+ ++ GG R
Sbjct: 61 KAKGVDEVICVSVNDPFVMKAWGKALGAKDKIRFLADGNGEFTKALGLTLDLSAAGGGIR 120
Query: 122 SKRYSMVVDDGKITQLNIEPDGTGLTCSLVDEL 154
SKRY+++VDDGK+ L +E D + S + +
Sbjct: 121 SKRYALIVDDGKVKYLFVEEDPGDVEVSSAENV 153
>gnl|CDD|223750 COG0678, AHP1, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 165
Score = 192 bits (490), Expect = 9e-64
Identities = 73/159 (45%), Positives = 93/159 (58%), Gaps = 7/159 (4%)
Query: 1 MCAQVGDTLPDALLHENT------PQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPG 54
M VG LP + D KGKKV++F +PGAFTP CS +HLPG
Sbjct: 1 MTIMVGKKLPAVTFKTRVGDETADGWVDVTTDDLFKGKKVVLFSLPGAFTPTCSSSHLPG 60
Query: 55 YLAKEKDLKAKGIHEIFCIAVNDAFVMEAWCRKNNAEGKIRFLADPNLEFTKKLGVEHEI 114
YL + KAKG+ EI+C++VNDAFVM AW + EG I+F+ D N EFTK +G+ +
Sbjct: 61 YLELADEFKAKGVDEIYCVSVNDAFVMNAWAKSQGGEGNIKFIPDGNGEFTKAMGMLVDK 120
Query: 115 PVLG-GWRSKRYSMVVDDGKITQLNIEPDGTGLTCSLVD 152
LG G RS RYSMVV++G + +L IEP G T S D
Sbjct: 121 SDLGFGVRSWRYSMVVENGVVEKLFIEPPGDPFTVSSAD 159
>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 = 120 bits (303), Expect = 1e-35
Identities = 45/139 (32%), Positives = 68/139 (48%), Gaps = 7/139 (5%)
Query: 8 TLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKAKGI 67
PD L T ++ ++D KGK V++F P FTP C+ T L + ++ G
Sbjct: 1 KAPDFTL-PATDGGEVSLSD-FKGKWVVLFFYPKDFTPVCT-TELCAFRDLAEEFAKGGA 57
Query: 68 HEIFCIAVNDAFVMEAWCRKNNAEGKIRFLADPNLEFTKKLGVEHEIPVLGGWRSKRYSM 127
E+ ++V+ F +AW K L+DP+ EF K GV E GG + R +
Sbjct: 58 -EVLGVSVDSPFSHKAWAEKEG-GLNFPLLSDPDGEFAKAYGVLIEKSAGGG-LAARATF 114
Query: 128 VVD-DGKITQLNIEPDGTG 145
++D DGKI + +EP TG
Sbjct: 115 IIDPDGKIRYVEVEPLPTG 133
>gnl|CDD|219888 pfam08534, Redoxin, Redoxin. This family of redoxins includes
peroxiredoxin, thioredoxin and glutaredoxin proteins.
Length = 142
Score = 115 bits (291), Expect = 6e-34
Identities = 52/143 (36%), Positives = 69/143 (48%), Gaps = 13/143 (9%)
Query: 5 VGDTLPD-ALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAK-EKDL 62
GD PD L + ++D KGKKV++ PGAF P CS H YL K K
Sbjct: 1 AGDKAPDFTLPDVALDGKTVSLSDF-KGKKVVLNFWPGAFCPTCSAEHP--YLEKLSKLY 57
Query: 63 KAKGIHEIFCIAVNDAF-VMEAWCRKNNAEGKIRFLADPNLEFTKKLGVEHEIPVLGGWR 121
KAKG+ + A ND F VM W ++ K LAD + FTK G+ G R
Sbjct: 58 KAKGVDVVAVNASNDPFFVMNFWAKEGL---KYPVLADRDGAFTKAYGLT----EDAGLR 110
Query: 122 SKRYSMVVDDGKITQLNIEPDGT 144
+ RY ++ +DGK+ L + PD
Sbjct: 111 TPRYFLIDEDGKVVYLEVGPDPG 133
>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 = 69.9 bits (172), Expect = 3e-16
Identities = 40/131 (30%), Positives = 62/131 (47%), Gaps = 11/131 (8%)
Query: 5 VGDTLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKA 64
VGD PD L + ++ ++D KGK V++F P FTP C T LP ++ K
Sbjct: 1 VGDKAPDFEL-PDLDGKEVSLSD-YKGKWVVLFFYPKDFTPVC-TTELPALADLYEEFKK 57
Query: 65 KGIHEIFCIAVNDAFVMEAWCRKNNAEGKIRFLADPNLEFTKKLGVEHEIPVLGGWRSKR 124
G+ E+ ++V+ + + K L+DP+ E K GV +E + R
Sbjct: 58 LGV-EVLGVSVDSPESHKKFAEKLGL--PFPLLSDPDGEVAKAYGVLNE----EEGLALR 110
Query: 125 YSMVVD-DGKI 134
+ V+D DGKI
Sbjct: 111 TTFVIDPDGKI 121
>gnl|CDD|223527 COG0450, AhpC, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 194
Score = 58.8 bits (143), Expect = 2e-11
Identities = 41/155 (26%), Positives = 72/155 (46%), Gaps = 18/155 (11%)
Query: 1 MCAQVGDTLPD----ALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYL 56
M + +G PD A+L +I ++D GK V++F P FT C T + +
Sbjct: 1 MMSLIGKKAPDFTANAVLG-GEIFEEITLSD-YYGKWVVLFFYPADFTFVCP-TEIIAFA 57
Query: 57 AKEKDLKAKGIHEIFCIAVNDAFVMEAW---CRKNNAEGKIRF--LADPNLEFTKKLGVE 111
+ ++ + +G+ E+ ++ + F +AW R+ GKI+F +ADP E + GV
Sbjct: 58 KRYEEFQKRGV-EVIGVSTDSVFSHKAWKATIREAGGIGKIKFPMIADPKGEIARAYGVL 116
Query: 112 HEIPVLGGWRSKRYSMVVD-DGKITQLNIEPDGTG 145
H + R + ++D DG I + + P G
Sbjct: 117 HP----EEGLALRGTFIIDPDGVIRHILVNPLTIG 147
>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 = 55.4 bits (134), Expect = 2e-10
Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 11/133 (8%)
Query: 4 QVGDTLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLK 63
+VGD PD L + ++++++ K V++ P AFTP C+ L + +
Sbjct: 2 EVGDKAPDFEL-PDQNGQEVRLSEFRGRKPVVLVFFPLAFTPVCT-KELCALRDSLELFE 59
Query: 64 AKGIHEIFCIAVNDAFVMEAWCRKNNAEGKIRFLAD--PNLEFTKKLGVEHEIPVLGGWR 121
A G E+ I+V+ F + AW +N L+D P+ E K GV E +
Sbjct: 60 AAGA-EVLGISVDSPFSLRAWAEENGLT--FPLLSDFWPHGEVAKAYGVFDEDLGV---- 112
Query: 122 SKRYSMVVDDGKI 134
++R V+D I
Sbjct: 113 AERAVFVIDRDGI 125
>gnl|CDD|224146 COG1225, Bcp, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 157
Score = 55.3 bits (134), Expect = 2e-10
Identities = 34/134 (25%), Positives = 62/134 (46%), Gaps = 9/134 (6%)
Query: 4 QVGDTLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLK 63
+VGD PD L + + ++D ++GK V+++ P FTPGC+ T + ++ +
Sbjct: 5 KVGDKAPDFELP-DQDGETVSLSD-LRGKPVVLYFYPKDFTPGCT-TEACDFRDLLEEFE 61
Query: 64 AKGIHEIFCIAVNDAFVMEAWCRKNNAEGKIRFLADPNLEFTKKLGVEHEIPVLGGW--R 121
G + I+ + + + K+ L+D + E + GV E + G
Sbjct: 62 KLGA-VVLGISPDSPKSHKKFAEKHGL--TFPLLSDEDGEVAEAYGVWGEKKMYGKEYMG 118
Query: 122 SKRYSMVVD-DGKI 134
+R + V+D DGKI
Sbjct: 119 IERSTFVIDPDGKI 132
>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 = 46.6 bits (111), Expect = 5e-07
Identities = 40/131 (30%), Positives = 62/131 (47%), Gaps = 10/131 (7%)
Query: 29 IKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKAKGIHEIFCIAVNDAFVMEAWCRKN 88
+KGK + F P FT C T L +LK G+ E++ ++ + FV +AW +
Sbjct: 29 VKGKWSVFFFYPADFTFVCP-TELEDLADNYAELKKLGV-EVYSVSTDTHFVHKAWHDTS 86
Query: 89 NAEGKIRF--LADPNLEFTKKLGVEHEIPVLGGWRSKRYSMVVD-DGKITQLNIEPDGTG 145
A GKI + L DP T+ GV E + R + V+D +G I + I +G G
Sbjct: 87 EAIGKITYPMLGDPTGVLTRNFGVLIE----EAGLADRGTFVIDPEGVIQAVEIHDNGIG 142
Query: 146 LTCS-LVDELK 155
S L+ ++K
Sbjct: 143 RDASELLRKIK 153
>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 = 44.8 bits (107), Expect = 1e-06
Identities = 27/119 (22%), Positives = 52/119 (43%), Gaps = 8/119 (6%)
Query: 28 AIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKAKGIHEIFCIAVNDAFVMEAWCRK 87
++GK V+++ P TPGC+ + ++ KA G + ++ + + K
Sbjct: 20 DLRGKPVVLYFYPKDDTPGCT-KEACDFRDLYEEFKALGA-VVIGVSPDSVESHAKFAEK 77
Query: 88 NNAEGKIRFLADPNLEFTKKLGVEHEIPVLGGWRSKRYSMVVD-DGKITQL--NIEPDG 143
L+DP+ + K GV E +R + ++D DGKI ++ ++P G
Sbjct: 78 YGL--PFPLLSDPDGKLAKAYGVWGEKKKKYMG-IERSTFLIDPDGKIVKVWRKVKPKG 133
>gnl|CDD|224988 COG2077, Tpx, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 44.2 bits (105), Expect = 3e-06
Identities = 43/148 (29%), Positives = 64/148 (43%), Gaps = 20/148 (13%)
Query: 4 QVGDTLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGC--SVTHLPGYLAKEKD 61
QVGD PD L + +AD GKK +I P TP C V AK +
Sbjct: 19 QVGDKAPDFTL-VGKDLNDVSLAD-FAGKKKVISVFPSIDTPVCATQVRKFNEEAAKLGN 76
Query: 62 LKAKGIHEIFCIAVNDAFVMEAWCRKNNAEG--KIRFLAD-PNLEFTKKLGVE-HEIPVL 117
+ CI+++ F + +C AEG + L+D + F + GV +E P+
Sbjct: 77 T------VVLCISMDLPFAQKRFCG---AEGIENVITLSDFRDRAFGENYGVLINEGPLA 127
Query: 118 GGWRSKRYSMVVD-DGKITQLNIEPDGT 144
G R V+D +GK+T + P+ T
Sbjct: 128 G--LLARAVFVLDENGKVTYSELVPEIT 153
>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 = 43.3 bits (103), Expect = 6e-06
Identities = 28/90 (31%), Positives = 42/90 (46%), Gaps = 7/90 (7%)
Query: 29 IKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKAKGIHEIFCIAVNDAFVMEAWC--- 85
KGK V++F P FT C T + + + ++ K E+ ++ + F AW
Sbjct: 27 YKGKWVVLFFYPLDFTFVCP-TEIIAFSDRYEEFKKLNA-EVLGVSTDSHFSHLAWRNTP 84
Query: 86 RKNNAEGKIRF--LADPNLEFTKKLGVEHE 113
RK GKI F LADP + ++ GV E
Sbjct: 85 RKEGGLGKINFPLLADPKKKISRDYGVLDE 114
>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 = 39.1 bits (92), Expect = 2e-04
Identities = 40/149 (26%), Positives = 61/149 (40%), Gaps = 23/149 (15%)
Query: 4 QVGDTLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLK 63
+VGD PD L + ++ +AD GK +I P TP C+ K + +
Sbjct: 1 KVGDKAPDFTLVTSDLS-EVSLADF-AGKVKVISVFPSIDTPVCATQ------TKRFNKE 52
Query: 64 AKGIHEI--FCIAVNDAFVMEAWCRKNNAEGKIRFLAD-PNLEFTKKLGVEHEIPVLGGW 120
A + I+ + F + WC + + L+D + F K GV I LG
Sbjct: 53 AAKLDNTVVLTISADLPFAQKRWCGAEGVD-NVTTLSDFRDHSFGKAYGV--LIKDLG-- 107
Query: 121 RSKRYSMVVD-DGKI--TQL--NI--EPD 142
R V+D +GK+ +L I EPD
Sbjct: 108 LLARAVFVIDENGKVIYVELVPEITDEPD 136
>gnl|CDD|183885 PRK13191, PRK13191, putative peroxiredoxin; Provisional.
Length = 215
Score = 39.8 bits (93), Expect = 2e-04
Identities = 34/114 (29%), Positives = 55/114 (48%), Gaps = 12/114 (10%)
Query: 5 VGDTLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKA 64
+G+ P+ + T KI++ D KG+ ++F PG FTP C+ T + K ++ K
Sbjct: 9 IGEKFPE--MEVITTHGKIKLPDDYKGRWFVLFSHPGDFTPVCT-TEFYSFAKKYEEFK- 64
Query: 65 KGIHEIFCIAVND-----AFVMEAWCRKN-NAEGKIRFLADPNLEFTKKLGVEH 112
K E+ ++V+ +VM W KN E +ADP K+LG+ H
Sbjct: 65 KLNTELIGLSVDSNISHIEWVM--WIEKNLKVEVPFPIIADPMGNVAKRLGMIH 116
>gnl|CDD|239268 cd02970, PRX_like2, Peroxiredoxin (PRX)-like 2 family; hypothetical
proteins that show sequence similarity to PRXs. Members
of this group contain a CXXC motif, similar to TRX. The
second cysteine in the motif corresponds to the
peroxidatic cysteine of PRX, however, these proteins do
not contain the other two residues of the catalytic
triad of PRX. PRXs 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 thioredoxin,
glutathione, trypanothione and AhpF. TRXs alter the
redox state of target proteins by catalyzing the
reduction of their disulfide bonds via the CXXC motif
using reducing equivalents derived from either NADPH or
ferredoxins.
Length = 149
Score = 37.7 bits (88), Expect = 6e-04
Identities = 33/146 (22%), Positives = 54/146 (36%), Gaps = 14/146 (9%)
Query: 8 TLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKAKGI 67
T PD L + +T A +G V++F G P C +L +L A G+
Sbjct: 1 TAPDFELPDAGGETVTLSALLGEGPVVVVF-YRGFGCPFCR-EYLRALSKLLPELDALGV 58
Query: 68 HEIFCIAVNDAFVMEAWCRKNNAEGKIRFLADPNLEFTKKLGVEHE--IPVLGGWRSKRY 125
+ + +EA+ + + ADP+ + + LG+ K
Sbjct: 59 ELV-AVGPESPEKLEAFDKGKFLPFPV--YADPDRKLYRALGLVRSLPWSNTPRALWKNA 115
Query: 126 SMVV---DDGKITQLN----IEPDGT 144
++ D+G QL I PDGT
Sbjct: 116 AIGFRGNDEGDGLQLPGVFVIGPDGT 141
>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 = 37.9 bits (89), Expect = 8e-04
Identities = 37/139 (26%), Positives = 61/139 (43%), Gaps = 12/139 (8%)
Query: 6 GDTLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAK-EKDLKA 64
GDT P+ +T I+ D + I+F P FTP C+ T L G AK + K
Sbjct: 2 GDTAPN--FEADTTHGPIKFHDYLGDSWGILFSHPADFTPVCT-TEL-GAFAKLAPEFKK 57
Query: 65 KGIHEIFCIAVNDAFVMEAWCR--KNNAEGKIRF--LADPNLEFTKKLGVEHEIPVLGGW 120
+ + ++ ++V+ W + +I F +ADP+ E K LG+ P G
Sbjct: 58 RNV-KLIGLSVDSVESHIKWIEDIEEYTGVEIPFPIIADPDREVAKLLGMID--PDAGST 114
Query: 121 RSKRYSMVVDDGKITQLNI 139
+ R ++D K +L +
Sbjct: 115 LTVRAVFIIDPDKKIRLIL 133
>gnl|CDD|237297 PRK13189, PRK13189, peroxiredoxin; Provisional.
Length = 222
Score = 37.3 bits (87), Expect = 0.001
Identities = 29/116 (25%), Positives = 48/116 (41%), Gaps = 8/116 (6%)
Query: 1 MCAQVGDTLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEK 60
+GD P+ T I++ D KGK ++F P FTP C+ T + +
Sbjct: 7 RMPLIGDKFPE--FEVKTTHGPIKLPDDYKGKWFVLFSHPADFTPVCT-TEFVAFQKRYD 63
Query: 61 DLKAKGIHEIFCIAVNDAFVMEAWCR--KNNAEGKIRF--LADPNLEFTKKLGVEH 112
+ + E+ ++++ F W K +I F +AD E KKLG+
Sbjct: 64 EFRELNT-ELIGLSIDQVFSHIKWVEWIKEKLGVEIEFPIIADDRGEIAKKLGMIS 118
>gnl|CDD|182423 PRK10382, PRK10382, alkyl hydroperoxide reductase subunit C;
Provisional.
Length = 187
Score = 36.1 bits (83), Expect = 0.003
Identities = 28/120 (23%), Positives = 52/120 (43%), Gaps = 9/120 (7%)
Query: 29 IKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKAKGIHEIFCIAVNDAFVMEAWCRKN 88
+G+ + F P FT C T L ++L+ G+ +++ ++ + F +AW +
Sbjct: 29 TEGRWSVFFFYPADFTFVCP-TELGDVADHYEELQKLGV-DVYSVSTDTHFTHKAWHSSS 86
Query: 89 NAEGKIRF--LADPNLEFTKKLGVEHEIPVLGGWRSKRYSMVVD-DGKITQLNIEPDGTG 145
KI++ + DP T+ E L + R + VVD G I + + +G G
Sbjct: 87 ETIAKIKYAMIGDPTGALTRNFDNMREDEGL----ADRATFVVDPQGIIQAIEVTAEGIG 142
>gnl|CDD|106159 PRK13190, PRK13190, putative peroxiredoxin; Provisional.
Length = 202
Score = 35.2 bits (81), Expect = 0.007
Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 6/83 (7%)
Query: 30 KGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKAKGIHEIFCIAVNDAFVMEAWCR--K 87
KGK V++F P FTP C+ T + + +D K G+ E+ ++V+ + AW R +
Sbjct: 26 KGKWVLLFSHPADFTPVCT-TEFIAFSRRYEDFKKLGV-ELVGLSVDSIYSHIAWLRDIE 83
Query: 88 NNAEGKIRF--LADPNLEFTKKL 108
KI F +AD + E ++
Sbjct: 84 ERFGIKIPFPVIADIDKELAREY 106
>gnl|CDD|181857 PRK09437, bcp, thioredoxin-dependent thiol peroxidase; Reviewed.
Length = 154
Score = 34.5 bits (80), Expect = 0.008
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 4 QVGDTLPD-ALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSV 49
+ GD P +L ++ Q + +G++V+++ P A TPGC+V
Sbjct: 5 KAGDIAPKFSLPDQDGEQVSLTD---FQGQRVLVYFYPKAMTPGCTV 48
>gnl|CDD|106544 PRK13599, PRK13599, putative peroxiredoxin; Provisional.
Length = 215
Score = 33.1 bits (75), Expect = 0.029
Identities = 36/136 (26%), Positives = 56/136 (41%), Gaps = 16/136 (11%)
Query: 13 LLHENTPQTKIQIADAIK-------GKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDLKAK 65
LL E P ++ +K GK ++F P FTP C+ T + K D K
Sbjct: 3 LLGEKFPSMEVVTTQGVKRLPEDYAGKWFVLFSHPADFTPVCT-TEFVEFARKANDFKEL 61
Query: 66 GIHEIFCIAVNDAFVMEAWCR--KNNAEGKIRF--LADPNLEFTKKLGVEHEIPVLGGWR 121
E+ ++V+ F W K+N I F +AD + + +LG+ H G
Sbjct: 62 NT-ELIGLSVDQVFSHIKWVEWIKDNTNIAIPFPVIADDLGKVSNQLGMIHPGK---GTN 117
Query: 122 SKRYSMVVDDGKITQL 137
+ R +VDD +L
Sbjct: 118 TVRAVFIVDDKGTIRL 133
>gnl|CDD|223318 COG0240, GpsA, Glycerol-3-phosphate dehydrogenase [Energy
production and conversion].
Length = 329
Score = 29.1 bits (66), Expect = 0.84
Identities = 17/61 (27%), Positives = 26/61 (42%), Gaps = 4/61 (6%)
Query: 9 LPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAFTPGCSVTHLPGYLAKEKDL--KAKG 66
LP LL N T +A+A+ G +I+ VP + L L K+ + KG
Sbjct: 50 LPGILLPPNLKATT-DLAEALDGADIIVIAVPSQALRE-VLRQLKPLLLKDAIIVSATKG 107
Query: 67 I 67
+
Sbjct: 108 L 108
>gnl|CDD|201664 pfam01210, NAD_Gly3P_dh_N, NAD-dependent glycerol-3-phosphate
dehydrogenase N-terminus. NAD-dependent
glycerol-3-phosphate dehydrogenase (GPDH) catalyzes the
interconversion of dihydroxyacetone phosphate and
L-glycerol-3-phosphate. This family represents the
N-terminal NAD-binding domain.
Length = 157
Score = 28.0 bits (63), Expect = 1.3
Identities = 12/39 (30%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 9 LPDALLHEN-TPQTKIQIADAIKGKKVIIFGVPGAFTPG 46
LP L +N T + +AIKG +I+ VP
Sbjct: 48 LPGIKLPDNLRATT--DLEEAIKGADIIVLAVPSQALRE 84
>gnl|CDD|173865 cd08500, PBP2_NikA_DppA_OppA_like_4, The substrate-binding
component of an uncharacterized ABC-type
nickel/dipeptide/oligopeptide-like import system
contains the type 2 periplasmic binding fold. This CD
represents the substrate-binding domain of an
uncharacterized ATP-binding cassette (ABC) type
nickel/dipeptide/oligopeptide-like transporter. The
oligopeptide-binding protein OppA and the
dipeptide-binding protein DppA show significant sequence
similarity to NikA, the initial nickel receptor. The
DppA binds dipeptides and some tripeptides and is
involved in chemotaxis toward dipeptides, whereas the
OppA binds peptides of a wide range of lengths (2-35
amino acid residues) and plays a role in recycling of
cell wall peptides, which precludes any involvement in
chemotaxis. Most of other periplasmic binding proteins
are comprised of only two globular subdomains
corresponding to domains I and III of the
dipeptide/oligopeptide binding proteins. The structural
topology of these domains is most similar to that of the
type 2 periplasmic binding proteins (PBP2), which are
responsible for the uptake of a variety of substrates
such as phosphate, sulfate, polysaccharides,
lysine/arginine/ornithine, and histidine. The PBP2 bind
their ligand in the cleft between these domains in a
manner resembling a Venus flytrap. After binding their
specific ligand with high affinity, they can interact
with a cognate membrane transport complex comprised of
two integral membrane domains and two cytoplasmically
located ATPase domains. This interaction triggers the
ligand translocation across the cytoplasmic membrane
energized by ATP hydrolysis. Besides transport
proteins, the PBP2 superfamily includes the
ligand-binding domains from ionotropic glutamate
receptors, LysR-type transcriptional regulators, and
unorthodox sensor proteins involved in signal
transduction.
Length = 499
Score = 27.2 bits (61), Expect = 4.6
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 93 KIRF-LADPNLEFTKKLGVEHEIPVLGGWRSKRYS 126
+RF L PN F L +IP LG W+ + Y+
Sbjct: 126 TVRFTLPAPNPLFLAYLAPP-DIPTLGPWKLESYT 159
>gnl|CDD|216310 pfam01123, Stap_Strp_toxin, Staphylococcal/Streptococcal toxin,
OB-fold domain.
Length = 85
Score = 25.7 bits (57), Expect = 4.7
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 25 IADAIKGKKVIIFGVP 40
+A KGKKV IFG+
Sbjct: 48 LAKFFKGKKVDIFGLS 63
>gnl|CDD|214912 smart00919, Malic_M, Malic enzyme, NAD binding domain. Malic
enzymes (malate oxidoreductases) catalyse the oxidative
decarboxylation of malate to form pyruvate.
Length = 231
Score = 26.6 bits (60), Expect = 5.5
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 12 ALLHENTPQTKIQIADAIKGKKVII--FGVPGAFTP 45
+ + + +A+KG V+I G GAFT
Sbjct: 77 PFARKTNERETGTLEEAVKGADVLIGVSGPGGAFTE 112
>gnl|CDD|226557 COG4071, COG4071, Uncharacterized protein conserved in archaea
[Function unknown].
Length = 278
Score = 26.8 bits (59), Expect = 6.0
Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 6/37 (16%)
Query: 27 DAIKGKKVII--FGVPGAFTP----GCSVTHLPGYLA 57
+ +K K+ I+ G+ A P G +T++PG A
Sbjct: 99 ETLKHKQTILEIVGLRHALKPYSEAGVDLTNVPGTYA 135
>gnl|CDD|184317 PRK13774, PRK13774, formimidoylglutamase; Provisional.
Length = 311
Score = 26.7 bits (59), Expect = 6.1
Identities = 15/45 (33%), Positives = 18/45 (40%), Gaps = 5/45 (11%)
Query: 9 LPDALLHENTPQTKIQIADAIKGKKVIIFG-----VPGAFTPGCS 48
D LL +P K I I VI+F + AF PG S
Sbjct: 211 FADELLSHVSPTIKDMIERFIHEHDVIMFTICMDVIDSAFAPGVS 255
>gnl|CDD|201226 pfam00438, S-AdoMet_synt_N, S-adenosylmethionine synthetase,
N-terminal domain. The three domains of
S-adenosylmethionine synthetase have the same
alpha+beta fold.
Length = 100
Score = 25.1 bits (56), Expect = 9.2
Identities = 9/38 (23%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 1 MCAQVGDTLPDALLHENTPQTKIQIADAIKGKKVIIFG 38
+C Q+ D + DA L ++ P +++ + V++ G
Sbjct: 18 ICDQISDAILDAFLAQD-PNSRVACETLVTTGLVVVAG 54
>gnl|CDD|213311 cd05958, ABCL, 2-aminobenzoate-CoA ligase (ABCL). ABCL catalyzes
the initial step in the 2-aminobenzoate aerobic
degradation pathway by activating 2-aminobenzoate to
2-aminobenzoyl-CoA. The reaction is carried out via a
two-step process; the first step is ATP-dependent and
forms a 2-aminobenzoyl-AMP intermediate, and the second
step forms the 2-aminobenzoyl-CoA ester and releases the
AMP. 2-Aminobenzoyl-CoA is further converted to
2-amino-5-oxo-cyclohex-1-ene-1-carbonyl-CoA catalyzed by
2-aminobenzoyl-CoA monooxygenase/reductase. ABCL has
been purified from cells aerobically grown with
2-aminobenzoate as sole carbon, energy, and nitrogen
source, and has been characterized as a monomer.
Length = 487
Score = 26.3 bits (58), Expect = 9.2
Identities = 16/63 (25%), Positives = 29/63 (46%), Gaps = 3/63 (4%)
Query: 2 CAQVGDTLPDALLHENTPQTKIQIADAIKGKKVIIFGVPGAF---TPGCSVTHLPGYLAK 58
C G+TLP + + +T ++I D I +++ + PG + +PGY A+
Sbjct: 266 CVSAGETLPAKVWQDWYERTGLKIIDGIGATEMLHIFISANEENAKPGATGKPVPGYEAR 325
Query: 59 EKD 61
D
Sbjct: 326 IVD 328
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 0.139 0.426
Gapped
Lambda K H
0.267 0.0886 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 8,157,861
Number of extensions: 745976
Number of successful extensions: 660
Number of sequences better than 10.0: 1
Number of HSP's gapped: 640
Number of HSP's successfully gapped: 37
Length of query: 156
Length of database: 10,937,602
Length adjustment: 89
Effective length of query: 67
Effective length of database: 6,990,096
Effective search space: 468336432
Effective search space used: 468336432
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: 55 (24.7 bits)