RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy299
(240 letters)
>gnl|CDD|238207 cd00340, GSH_Peroxidase, Glutathione (GSH) peroxidase family;
tetrameric selenoenzymes that catalyze the reduction of
a variety of hydroperoxides including lipid peroxidases,
using GSH as a specific electron donor substrate. GSH
peroxidase contains one selenocysteine residue per
subunit, which is involved in catalysis. Different
isoenzymes are known in mammals,which are involved in
protection against reactive oxygen species, redox
regulation of many metabolic processes, peroxinitrite
scavenging, and modulation of inflammatory processes.
Length = 152
Score = 246 bits (631), Expect = 5e-84
Identities = 85/153 (55%), Positives = 108/153 (70%), Gaps = 2/153 (1%)
Query: 44 TVYDFTVKNIKGEDVPLSTYKGHVLVIVNVASRCGYTGKHYKELVELDEKFRDRGLRILA 103
++YDF+VK+I GE V LS YKG VL+IVNVAS+CG+T Y+ L L EK++DRGL +L
Sbjct: 1 SIYDFSVKDIDGEPVSLSKYKGKVLLIVNVASKCGFT-PQYEGLEALYEKYKDRGLVVLG 59
Query: 104 FPCNQFGGQEPGDADQICEF-TKKKNVQFDLFEKINVNGDNAHPLWKFLKHKQGGTLVDA 162
FPCNQFGGQEPG ++I EF V F +F KI+VNG+NAHPL+K+LK + G L
Sbjct: 60 FPCNQFGGQEPGSNEEIKEFCETNYGVTFPMFAKIDVNGENAHPLYKYLKEEAPGLLGKD 119
Query: 163 IKWNFTKFIVDKNGVPVERHAANASPASLIPHI 195
IKWNFTKF+VD++G V+R A P L I
Sbjct: 120 IKWNFTKFLVDRDGEVVKRFAPTTDPEELEKDI 152
>gnl|CDD|223463 COG0386, BtuE, Glutathione peroxidase [Posttranslational
modification, protein turnover, chaperones].
Length = 162
Score = 220 bits (563), Expect = 2e-73
Identities = 80/160 (50%), Positives = 109/160 (68%), Gaps = 3/160 (1%)
Query: 41 NAETVYDFTVKNIKGEDVPLSTYKGHVLVIVNVASRCGYTGKHYKELVELDEKFRDRGLR 100
++YDF+VK+I GE V LS YKG VL+IVN AS+CG+T Y+ L L +K++D+G
Sbjct: 1 MMMSIYDFSVKDIDGEPVSLSDYKGKVLLIVNTASKCGFT-PQYEGLEALYKKYKDKGFE 59
Query: 101 ILAFPCNQFGGQEPGDADQICEFTKKK-NVQFDLFEKINVNGDNAHPLWKFLKHKQGGTL 159
+L FPCNQFGGQEPG ++I +F + V F +F KI+VNG NAHPL+K+LK ++ G L
Sbjct: 60 VLGFPCNQFGGQEPGSDEEIAKFCQLNYGVTFPMFSKIDVNGKNAHPLYKYLKEQKPGKL 119
Query: 160 V-DAIKWNFTKFIVDKNGVPVERHAANASPASLIPHIEIL 198
IKWNFTKF+VD++G V+R + P + IE L
Sbjct: 120 GGKDIKWNFTKFLVDRDGNVVKRFSPKTKPEDIELAIEKL 159
>gnl|CDD|166053 PLN02412, PLN02412, probable glutathione peroxidase.
Length = 167
Score = 180 bits (459), Expect = 6e-58
Identities = 86/166 (51%), Positives = 117/166 (70%), Gaps = 4/166 (2%)
Query: 34 MADDSWKNAETVYDFTVKNIKGEDVPLSTYKGHVLVIVNVASRCGYTGKHYKELVELDEK 93
MA++S K ++YDFTVK+I G DV L+ YKG VL+IVNVAS+CG T +YKEL L EK
Sbjct: 1 MAEESPK---SIYDFTVKDIGGNDVSLNQYKGKVLLIVNVASKCGLTDSNYKELNVLYEK 57
Query: 94 FRDRGLRILAFPCNQFGGQEPGDADQICEFTKKK-NVQFDLFEKINVNGDNAHPLWKFLK 152
++++G ILAFPCNQF GQEPG ++I + + +F +F+K++VNG N PL+K+LK
Sbjct: 58 YKEQGFEILAFPCNQFLGQEPGSNEEIQQTVCTRFKAEFPIFDKVDVNGKNTAPLYKYLK 117
Query: 153 HKQGGTLVDAIKWNFTKFIVDKNGVPVERHAANASPASLIPHIEIL 198
++GG DAIKWNFTKF+V K G V+R+A SP + I+ L
Sbjct: 118 AEKGGLFGDAIKWNFTKFLVSKEGKVVQRYAPTTSPLKIEKDIQNL 163
>gnl|CDD|178021 PLN02399, PLN02399, phospholipid hydroperoxide glutathione
peroxidase.
Length = 236
Score = 181 bits (461), Expect = 3e-57
Identities = 82/148 (55%), Positives = 108/148 (72%), Gaps = 3/148 (2%)
Query: 43 ETVYDFTVKNIKGEDVPLSTYKGHVLVIVNVASRCGYTGKHYKELVELDEKFRDRGLRIL 102
++V+DFTVK+I G+DV LS +KG VL+IVNVAS+CG T +Y EL L EK++ +G IL
Sbjct: 77 KSVHDFTVKDIDGKDVALSKFKGKVLLIVNVASKCGLTSSNYSELSHLYEKYKTQGFEIL 136
Query: 103 AFPCNQFGGQEPGDADQICEF--TKKKNVQFDLFEKINVNGDNAHPLWKFLKHKQGGTLV 160
AFPCNQFGGQEPG +I +F T+ K +F +F+K++VNG + P+++FLK GG L
Sbjct: 137 AFPCNQFGGQEPGSNPEIKQFACTRFK-AEFPIFDKVDVNGPSTAPVYQFLKSNAGGFLG 195
Query: 161 DAIKWNFTKFIVDKNGVPVERHAANASP 188
D IKWNF KF+VDKNG VER+ SP
Sbjct: 196 DLIKWNFEKFLVDKNGKVVERYPPTTSP 223
>gnl|CDD|240248 PTZ00056, PTZ00056, glutathione peroxidase; Provisional.
Length = 199
Score = 168 bits (427), Expect = 1e-52
Identities = 71/164 (43%), Positives = 97/164 (59%), Gaps = 8/164 (4%)
Query: 44 TVYDFTVKNIKGEDVPLSTYKGHVLVIVNVASRCGYTGKHYKELVELDEKFRDRGLRILA 103
++YD+TVK ++G VP+S+ K VL+I N AS+CG T KH ++ L F GL ILA
Sbjct: 18 SIYDYTVKTLEGTTVPMSSLKNKVLMITNSASKCGLTKKHVDQMNRLHSVFNPLGLEILA 77
Query: 104 FPCNQFGGQEPGDADQICEFTKKKNVQFDLFEKINVNGDNAHPLWKFLK------HKQGG 157
FP +QF QE + I +F K ++++ FE I VNG+N H L+KFLK H + G
Sbjct: 78 FPTSQFLNQEFPNTKDIRKFNDKNKIKYNFFEPIEVNGENTHELFKFLKANCDSMHDENG 137
Query: 158 TLVDAIKWNFTKFIVDKNGVPVERHAANASPASLIPHI-EILGR 200
TL AI WNF KF+V+K+G V + P L I E+LG
Sbjct: 138 TL-KAIGWNFGKFLVNKSGNVVAYFSPRTEPLELEKKIAELLGV 180
>gnl|CDD|201117 pfam00255, GSHPx, Glutathione peroxidase.
Length = 108
Score = 164 bits (416), Expect = 4e-52
Identities = 65/109 (59%), Positives = 81/109 (74%), Gaps = 2/109 (1%)
Query: 45 VYDFTVKNIKGEDVPLSTYKGHVLVIVNVASRCGYTGKHYKELVELDEKFRDRGLRILAF 104
+YDF+ K+I GE VPL Y+G VL+IVNVAS+CG T + Y EL EL E+++DRGL IL F
Sbjct: 1 IYDFSAKDINGEPVPLDQYRGKVLLIVNVASKCGLTPQ-YTELNELQERYKDRGLVILGF 59
Query: 105 PCNQFGGQEPGDADQICEF-TKKKNVQFDLFEKINVNGDNAHPLWKFLK 152
PCNQFG QEPG ++I F V F +F KI+VNG+NAHPL+KFLK
Sbjct: 60 PCNQFGKQEPGSNEEIKYFRPGGYGVTFPIFSKIDVNGENAHPLYKFLK 108
>gnl|CDD|173495 PTZ00256, PTZ00256, glutathione peroxidase; Provisional.
Length = 183
Score = 164 bits (416), Expect = 4e-51
Identities = 69/175 (39%), Positives = 103/175 (58%), Gaps = 7/175 (4%)
Query: 31 FTSMADDSWKNAETVYDFTVKNIKGEDVPLSTYKGH-VLVIVNVASRCGYTGKHYKELVE 89
F + ++ ++F +I G+ V LS +KG +++VNVA +CG T HY +LVE
Sbjct: 6 FKKGLEQIQPPTKSFFEFEAIDIDGQLVQLSKFKGKKAIIVVNVACKCGLTSDHYTQLVE 65
Query: 90 LDEKFRDRGLRILAFPCNQFGGQEPGDADQICEFTKKK-NVQFDLFEKINVNGDNAHPLW 148
L ++++ +GL ILAFPCNQF QEP D +I E+ +KK NV F LF+KI VNG+N H ++
Sbjct: 66 LYKQYKSQGLEILAFPCNQFMEQEPWDEPEIKEYVQKKFNVDFPLFQKIEVNGENTHEIY 125
Query: 149 KFLK-----HKQGGTLVDAIKWNFTKFIVDKNGVPVERHAANASPASLIPHIEIL 198
K+L+ + I WNF KF++D G V+ + +P +I IE L
Sbjct: 126 KYLRRNSELFQNNTNEARQIPWNFAKFLIDGQGKVVKYFSPKVNPNEMIQDIEKL 180
>gnl|CDD|182585 PRK10606, btuE, putative glutathione peroxidase; Provisional.
Length = 183
Score = 136 bits (343), Expect = 4e-40
Identities = 59/166 (35%), Positives = 89/166 (53%), Gaps = 22/166 (13%)
Query: 44 TVYDFTVKNIKGEDVPLSTYKGHVLVIVNVASRCGYTGKHYKELVELDEKFRDRGLRILA 103
++ V I GE L Y G+VL+IVNVAS+CG T Y++L + + + D+G +L
Sbjct: 4 SILTTVVTTIDGEVTTLEKYAGNVLLIVNVASKCGLT-PQYEQLENIQKAWADQGFVVLG 62
Query: 104 FPCNQFGGQEPGDADQICEFTKKK-NVQFDLFEKINVNGDNAHPLWKFL--------KHK 154
FPCNQF GQEPG ++I + + V F +F KI VNG+ HPL++ L +
Sbjct: 63 FPCNQFLGQEPGSDEEIKTYCRTTWGVTFPMFSKIEVNGEGRHPLYQKLIAAAPTAVAPE 122
Query: 155 QGGTL------------VDAIKWNFTKFIVDKNGVPVERHAANASP 188
+ G D I WNF KF+V ++G ++R + + +P
Sbjct: 123 ESGFYARMVSKGRAPLYPDDILWNFEKFLVGRDGQVIQRFSPDMTP 168
>gnl|CDD|131592 TIGR02540, gpx7, putative glutathione peroxidase Gpx7. This model
represents one of several families of known and probable
glutathione peroxidases. This family is restricted to
animals and designated GPX7.
Length = 153
Score = 122 bits (307), Expect = 4e-35
Identities = 55/154 (35%), Positives = 80/154 (51%), Gaps = 5/154 (3%)
Query: 46 YDFTVKNIKGEDVPLSTYKGHVLVIVNVASRCGYTGKHYKELVELDEKFRDRGLRILAFP 105
Y F VK+ +G V L Y+G V ++VNVAS CG+T ++Y+ L EL + +LAFP
Sbjct: 3 YSFEVKDARGRTVSLEKYRGKVSLVVNVASECGFTDQNYRALQELHRELGPSHFNVLAFP 62
Query: 106 CNQFGGQEPGDADQICEFTKKK-NVQFDLFEKINVNGDNAHPLWKFLKHKQGGTLVDAIK 164
CNQFG EP + +I F ++ V F +F KI + G A P ++FL +
Sbjct: 63 CNQFGESEPDSSKEIESFARRNYGVTFPMFSKIKILGSEAEPAFRFLVDSSK----KEPR 118
Query: 165 WNFTKFIVDKNGVPVERHAANASPASLIPHIEIL 198
WNF K++V+ G V+ + P I L
Sbjct: 119 WNFWKYLVNPEGQVVKFWRPEEPVEEIRPEITAL 152
>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 = 49.5 bits (119), Expect = 6e-08
Identities = 20/89 (22%), Positives = 37/89 (41%), Gaps = 9/89 (10%)
Query: 47 DFTVKNIKGEDVPLSTYKGHVLVIVNVASR-CGYTGKHYKELVELDEKFRDRGLRILAFP 105
DF + ++ G++V LS YKG +V+ L +L E+F+ G+ +L
Sbjct: 7 DFELPDLDGKEVSLSDYKGKWVVLFFYPKDFTPVCTTELPALADLYEEFKKLGVEVLGVS 66
Query: 106 CNQFGGQEPGDADQICEFTKKKNVQFDLF 134
+ + +F +K + F L
Sbjct: 67 VD--------SPESHKKFAEKLGLPFPLL 87
>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 = 47.2 bits (113), Expect = 4e-07
Identities = 35/138 (25%), Positives = 57/138 (41%), Gaps = 24/138 (17%)
Query: 47 DFTVKNIKGEDVPLSTYKGHVLVIVNV-ASRCGYTGKHYKELVELDEKFRDRGLRILAFP 105
DF++ ++ G+ V LS KG V V+VN AS C EL L ++++D G+ ++
Sbjct: 1 DFSLPDLDGKPVSLSDLKGKV-VLVNFWASWCPPCRAEMPELEALAKEYKDDGVEVVGV- 58
Query: 106 CNQFGGQEPGDADQICEFTKKKNVQFDLFEKINVNGDNAHPLWKFLKHKQGGTLVDAIKW 165
+ D + F KK + F + D L K V +
Sbjct: 59 -----NVDDDDPAAVKAFLKKYGITFPVLL------DPDGELAKAYG-------VRGL-- 98
Query: 166 NFTKFIVDKNGVPVERHA 183
T F++D++G RH
Sbjct: 99 -PTTFLIDRDGRIRARHV 115
>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 = 43.9 bits (104), Expect = 9e-06
Identities = 23/94 (24%), Positives = 41/94 (43%), Gaps = 12/94 (12%)
Query: 44 TVYDFTVKNIKGEDVPLSTYKGHVLVIVNVASR---CGYTGKHYKELVELDEKFRDRGLR 100
T DF + + GE V LS G V+V V R C + ++ + L +L + G+
Sbjct: 1 TAPDFELPDAGGETVTLSALLGEGPVVV-VFYRGFGCPFCREYLRALSKLLPELDALGVE 59
Query: 101 ILAFPCNQFGGQEPGDADQICEFTKKKNVQFDLF 134
++A P +++ F K K + F ++
Sbjct: 60 LVAV--------GPESPEKLEAFDKGKFLPFPVY 85
>gnl|CDD|239267 cd02969, PRX_like1, Peroxiredoxin (PRX)-like 1 family; hypothetical
proteins that show sequence similarity to PRXs. Members
of this group contain a conserved cysteine that aligns
to the first cysteine in the CXXC motif of TRX. This
does not correspond to the peroxidatic cysteine found in
PRXs, which aligns to the second cysteine in the CXXC
motif of TRX. In addition, these proteins do not contain
the other two conserved 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.
Length = 171
Score = 36.8 bits (86), Expect = 0.004
Identities = 12/58 (20%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 47 DFTVKNIKGEDVPLSTYKGH-VLVIVNVASRCGYTGKHYKELVELDEKFRDRGLRILA 103
DF++ + G+ L+ + LV++ + + C Y L L +++ +G+ ++A
Sbjct: 6 DFSLPDTDGKTYSLADFADGKALVVMFICNHCPYVKAIEDRLNRLAKEYGAKGVAVVA 63
>gnl|CDD|224146 COG1225, Bcp, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 157
Score = 33.4 bits (77), Expect = 0.046
Identities = 33/164 (20%), Positives = 54/164 (32%), Gaps = 43/164 (26%)
Query: 43 ETVYDFTVKNIKGEDVPLSTYKGHVLVIV----NVASRCGYTGKHYKELVELDEKFRDRG 98
+ DF + + GE V LS +G +V+ + C + +L E+F G
Sbjct: 8 DKAPDFELPDQDGETVSLSDLRGKPVVLYFYPKDFTPGC---TTEACDFRDLLEEFEKLG 64
Query: 99 LRILAFPCNQFGGQEPGDADQICEFTKKKNVQFDL--------FEKINVNGDNAHPLWKF 150
+L G P +F +K + F L E V W
Sbjct: 65 AVVL--------GISPDSPKSHKKFAEKHGLTFPLLSDEDGEVAEAYGV--------WG- 107
Query: 151 LKHKQGGTLVDAIKWNFTKFIVDKNG--------VPVERHAANA 186
K G + + + F++D +G V V+ HA
Sbjct: 108 EKKMYGKEYMGIER---STFVIDPDGKIRYVWRKVKVKGHADEV 148
>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 = 32.9 bits (76), Expect = 0.053
Identities = 35/162 (21%), Positives = 58/162 (35%), Gaps = 50/162 (30%)
Query: 47 DFTVKNIKGEDVPLSTYKGHVLVIVNVASRCGY----------TGKHYKELVELDEKFRD 96
DFT+ + GE V LS +G +V+ Y T K + +L E+F+
Sbjct: 5 DFTLPDQDGETVSLSDLRGKPVVL--------YFYPKDDTPGCT-KEACDFRDLYEEFKA 55
Query: 97 RGLRILAFPCNQFGGQEPGDADQICEFTKKKNVQFDLF----EKINVNGDNAHPLWKFLK 152
G ++ G P + +F +K + F L K+ A+ +W K
Sbjct: 56 LGAVVI--------GVSPDSVESHAKFAEKYGLPFPLLSDPDGKLA----KAYGVWGEKK 103
Query: 153 HKQGGTLVDAIKWNFTKFIVDKNG--------VPVERHAANA 186
K G + F++D +G V + HA
Sbjct: 104 KKYMGI-------ERSTFLIDPDGKIVKVWRKVKPKGHAEEV 138
>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 = 31.5 bits (72), Expect = 0.20
Identities = 19/70 (27%), Positives = 31/70 (44%), Gaps = 10/70 (14%)
Query: 40 KNAETVYDFTVKNIKGEDVPLSTYKGH---VLVIVNVASRCGYTGKHYKELVELDE---K 93
+ + DF + + G++V LS ++G VLV +A +T KEL L +
Sbjct: 2 EVGDKAPDFELPDQNGQEVRLSEFRGRKPVVLVFFPLA----FTPVCTKELCALRDSLEL 57
Query: 94 FRDRGLRILA 103
F G +L
Sbjct: 58 FEAAGAEVLG 67
>gnl|CDD|219888 pfam08534, Redoxin, Redoxin. This family of redoxins includes
peroxiredoxin, thioredoxin and glutaredoxin proteins.
Length = 142
Score = 30.4 bits (69), Expect = 0.47
Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 14/92 (15%)
Query: 55 GEDVPLSTYKGHVLVIVNVASR-CGY-TGKHYKELVELDEKFRDRGLRILA-------FP 105
G+ V LS +KG +V+ C + +H L +L + ++ +G+ ++A F
Sbjct: 17 GKTVSLSDFKGKKVVLNFWPGAFCPTCSAEH-PYLEKLSKLYKAKGVDVVAVNASNDPFF 75
Query: 106 CNQFGGQEPGD----ADQICEFTKKKNVQFDL 133
F +E AD+ FTK + D
Sbjct: 76 VMNFWAKEGLKYPVLADRDGAFTKAYGLTEDA 107
>gnl|CDD|173776 cd01026, TOPRIM_OLD, TOPRIM_OLD: topoisomerase-primase (TOPRIM)
nucleotidyl transferase/hydrolase domain of the type
found in bacterial and archaeal nucleases of the OLD
(overcome lysogenization defect) family. The
bacteriophage P2 OLD protein, which has DNase as well as
RNase activity, consists of an N-terminal ABC-type
ATPase domain and a C-terminal Toprim domain; the
nuclease activity of OLD is stimulated by ATP, though
the ATPase activity is not DNA-dependent. Functional
details on OLD are scant and further experimentation is
required to define the relationship between the ATPase
and Toprim nuclease domains. The TOPRIM domain has two
conserved motifs, one of which centers at a conserved
glutamate and the other one at two conserved aspartates
(DxD). The conserved glutamate may act as a general
acid in strand cleavage by nucleases. The DXD motif may
co-ordinate Mg2+, a cofactor required for full catalytic
function.
Length = 97
Score = 28.4 bits (64), Expect = 1.1
Identities = 18/73 (24%), Positives = 24/73 (32%), Gaps = 12/73 (16%)
Query: 115 GDADQICEFTKKKNVQFDLFEK----INVNGDNAHPLWKFLKHKQGGTLV--------DA 162
GD+++I K + DL E I V G N P K L V +
Sbjct: 11 GDSEEILLPALAKKLGLDLDEAGISIIPVGGKNFKPFIKLLNALGIPVAVLTDLDAKRNE 70
Query: 163 IKWNFTKFIVDKN 175
K + K K
Sbjct: 71 KKDDAGKGRNKKL 83
>gnl|CDD|224885 COG1974, LexA, SOS-response transcriptional repressors
(RecA-mediated autopeptidases) [Transcription / Signal
transduction mechanisms].
Length = 201
Score = 29.1 bits (66), Expect = 1.5
Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 12/87 (13%)
Query: 166 NFTKFIVDKNGVP-----VERHAANASPASLIPHIEILGRTSAIKWNFTKFIV------- 213
+F + ++ + G P + ASP+++ H++ L R I+ + TK
Sbjct: 13 DFIRSLIKETGYPPSIREIGDALGLASPSAIHSHLKALERKGYIRRDPTKARAIRILQLT 72
Query: 214 DKNGAPVERHAANASPASLIPNIEKYL 240
+ G PV A P S I +IE+ +
Sbjct: 73 EITGVPVLGRVAAGGPISAIEDIEEKI 99
>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 = 28.3 bits (64), Expect = 2.2
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 47 DFTVKNIKGEDVPLSTYKGHVLVIV 71
DFT+ G +V LS +KG +V+
Sbjct: 4 DFTLPATDGGEVSLSDFKGKWVVLF 28
>gnl|CDD|236550 PRK09529, PRK09529, bifunctional acetyl-CoA decarbonylase/synthase
complex subunit alpha/beta; Reviewed.
Length = 711
Score = 28.4 bits (64), Expect = 4.0
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 109 FGGQEPGDADQICEFTKKK 127
FGG EPGD +++ ++TK++
Sbjct: 212 FGGVEPGDYEELLDYTKER 230
>gnl|CDD|225531 COG2984, COG2984, ABC-type uncharacterized transport system,
periplasmic component [General function prediction
only].
Length = 322
Score = 28.1 bits (63), Expect = 4.1
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 37 DSWKNAETVYDFTVKNIKGEDVPLSTYKGHVLVI 70
D K + +K K +D+P+S G LVI
Sbjct: 264 DLGKQTGEMVVKILKGKKPKDIPVSVAAGFKLVI 297
>gnl|CDD|180679 PRK06754, mtnB, methylthioribulose-1-phosphate dehydratase;
Reviewed.
Length = 208
Score = 27.3 bits (61), Expect = 5.3
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 172 VDKNGVPVERHAANASPASLIPHIEILGRTSA 203
VD +G PVE S +L+ H I T+A
Sbjct: 62 VDHDGKPVEETELKPSAETLL-HTHIYNNTNA 92
>gnl|CDD|224651 COG1737, RpiR, Transcriptional regulators [Transcription].
Length = 281
Score = 27.6 bits (62), Expect = 6.1
Identities = 13/41 (31%), Positives = 23/41 (56%), Gaps = 7/41 (17%)
Query: 64 KGHVLVIVNVASRCGYTGKHYKELVELDEKFRDRGLRILAF 104
G V++ + S GYT +E+VE E ++RG +++A
Sbjct: 177 PGDVVIAI---SFSGYT----REIVEAAELAKERGAKVIAI 210
>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 = 26.8 bits (60), Expect = 6.8
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 45 VYDFTVKNIKGEDVPLSTYKGHVLVIVNVASRC 77
DFT+ + G V LS KG +++ + C
Sbjct: 2 GPDFTLTDQDGRPVTLSDLKGKPVLVYFGYTHC 34
>gnl|CDD|224988 COG2077, Tpx, Peroxiredoxin [Posttranslational modification,
protein turnover, chaperones].
Length = 158
Score = 26.9 bits (60), Expect = 7.2
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 47 DFTVKNIKGEDVPLSTYKGHVLVIVNVAS 75
DFT+ DV L+ + G VI S
Sbjct: 26 DFTLVGKDLNDVSLADFAGKKKVISVFPS 54
>gnl|CDD|236890 PRK11274, glcF, glycolate oxidase iron-sulfur subunit; Provisional.
Length = 407
Score = 27.5 bits (62), Expect = 7.2
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 70 IVNVASRCGYTGKHYKELVELDEKFRDRGLRILA 103
IV AS CG T K Y L+ D + ++ R+ A
Sbjct: 243 IVMTASGCGATVKEYGHLLRDDPAYAEKAARVSA 276
>gnl|CDD|223550 COG0474, MgtA, Cation transport ATPase [Inorganic ion transport and
metabolism].
Length = 917
Score = 27.3 bits (61), Expect = 9.9
Identities = 13/45 (28%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 64 KGHVLVIVNVASRCG----YTGKHYKELVELDEKFRDRGLRILAF 104
KG VI+ G T + + L E ++ GLR+LA
Sbjct: 471 KGAPEVILERCKSIGELEPLTEEGLRTLEEAVKELASEGLRVLAV 515
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
0.318 0.134 0.411
Gapped
Lambda K H
0.267 0.0709 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,212,095
Number of extensions: 1129567
Number of successful extensions: 1004
Number of sequences better than 10.0: 1
Number of HSP's gapped: 981
Number of HSP's successfully gapped: 43
Length of query: 240
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 146
Effective length of database: 6,768,326
Effective search space: 988175596
Effective search space used: 988175596
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: 57 (25.8 bits)