RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 024105
(272 letters)
>gnl|CDD|240255 PTZ00070, PTZ00070, 40S ribosomal protein S2; Provisional.
Length = 257
Score = 447 bits (1153), Expect = e-161
Identities = 182/252 (72%), Positives = 207/252 (82%), Gaps = 2/252 (0%)
Query: 7 ERGAFGRGFGRGGRGDRGGPRGRRRAGRREEEEKWVPVTKLGRLVREGKIRSLEQIYLHS 66
RG GRGFGR GRG RG RGR R G EE++WVPVTKLGRLV+ GKI SLE+I+L S
Sbjct: 4 ARGGEGRGFGRRGRGGRGRGRGRGR-GGEGEEKEWVPVTKLGRLVKAGKITSLEEIFLFS 62
Query: 67 LPIKEYQIIDTLI-GHKLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDTDGHVGLGVKCS 125
+PIKEYQI+D KLKDEVMKIMPVQKQT AGQRTRFKAFVVVGD +GH+GLG K +
Sbjct: 63 IPIKEYQIVDHFFAESKLKDEVMKIMPVQKQTSAGQRTRFKAFVVVGDGNGHIGLGAKVA 122
Query: 126 KEVATAIRGAIILAKLSVIPVRRGYWGNKIGRPHTVPCKVTGKCGSVTVRMVPAPRGAGI 185
KEVATAIRGAII AKL+++PVRRGYWGNKIG PHTVP KVTGKCGSV VR+VPAPRG GI
Sbjct: 123 KEVATAIRGAIIAAKLNLVPVRRGYWGNKIGEPHTVPMKVTGKCGSVRVRLVPAPRGTGI 182
Query: 186 VAARVPKKVLQFAGIDDVFTSSRGSTKTLGNFVKATFECLLKTYGFLTPDFWRETRFVKS 245
VAA PKK+L+FAG++DVFTSSRG T+T GNF+KATF L KTYGFLTPD W+ET +S
Sbjct: 183 VAAPTPKKILEFAGVEDVFTSSRGKTRTRGNFLKATFYALRKTYGFLTPDLWKETELSRS 242
Query: 246 PYQEYTDLLTPK 257
PY E+++ L K
Sbjct: 243 PYDEHSEFLAEK 254
>gnl|CDD|233235 TIGR01020, rpsE_arch, ribosomal protein S5(archaeal
type)/S2(eukaryote cytosolic type). This model finds
eukaryotic ribosomal protein S2 as well as archaeal
ribosomal protein S5 [Protein synthesis, Ribosomal
proteins: synthesis and modification].
Length = 212
Score = 306 bits (785), Expect = e-106
Identities = 126/210 (60%), Positives = 163/210 (77%), Gaps = 3/210 (1%)
Query: 35 REEEEKWVPVTKLGRLVREGKIRSLEQIYLHSLPIKEYQIIDTLIGHKLKDEVMKIMPVQ 94
+ E E+WVP TKLGRLV+EGKI+S+++I+L +LPIKE +I+D L+ ++EV+ + VQ
Sbjct: 2 KAELEEWVPRTKLGRLVKEGKIKSIDEIFLRNLPIKEPEIVDYLLPDLNEEEVLDVSLVQ 61
Query: 95 KQTRAGQRTRFKAFVVVGDTDGHVGLGVKCSKEVATAIRGAIILAKLSVIPVRR--GYWG 152
+ T +G+RTRF+AFVVVG+ DG+VGLG+ +KEVA AIR AII AKL++IPVRR G W
Sbjct: 62 RMTDSGRRTRFRAFVVVGNRDGYVGLGIGKAKEVAPAIRKAIINAKLNIIPVRRGCGSWE 121
Query: 153 NKIGRPHTVPCKVTGKCGSVTVRMVPAPRGAGIVAARVPKKVLQFAGIDDVFTSSRGSTK 212
GRPH+VP KVTGKCGSV VR++PAPRG G+VA V KKVL+ AGIDDV+T +RG T+
Sbjct: 122 CGCGRPHSVPFKVTGKCGSVRVRLIPAPRGLGLVAGDVAKKVLRLAGIDDVWTQTRGETR 181
Query: 213 TLGNFVKATFECLLKTYGFLTPDFWRETRF 242
T NF KATF+ L KTY ++TPD W E R
Sbjct: 182 TTVNFAKATFDALKKTY-YVTPDLWAEERL 210
>gnl|CDD|235213 PRK04044, rps5p, 30S ribosomal protein S5P; Reviewed.
Length = 211
Score = 257 bits (659), Expect = 6e-87
Identities = 110/210 (52%), Positives = 141/210 (67%), Gaps = 3/210 (1%)
Query: 34 RREEEEKWVPVTKLGRLVREGKIRSLEQIYLHSLPIKEYQIIDTLIGHKLKDEVMKIMPV 93
+ E+W P T+LGRLV+EGKI S+++I+ LPIKE +I+D L+ L+DEV+ I V
Sbjct: 2 MKFNIEEWEPKTRLGRLVKEGKITSIDEIFDSGLPIKEPEIVDVLLP-DLEDEVLDINMV 60
Query: 94 QKQTRAGQRTRFKAFVVVGDTDGHVGLGVKCSKEVATAIRGAIILAKLSVIPVRRG--YW 151
Q+ T +G+R RF+ VVVG+ DG+VG+G +K+V AIR AI AKL++I VRRG W
Sbjct: 61 QRMTDSGRRVRFRVVVVVGNRDGYVGVGQGKAKQVGPAIRKAIRNAKLNIIKVRRGCGSW 120
Query: 152 GNKIGRPHTVPCKVTGKCGSVTVRMVPAPRGAGIVAARVPKKVLQFAGIDDVFTSSRGST 211
G PH+VP KVTGK GSV V + PAPRG G+VA V KKVL+ AGI DV+T + G T
Sbjct: 121 ECGCGEPHSVPFKVTGKAGSVEVTLKPAPRGLGLVAGDVAKKVLELAGIKDVWTRTFGET 180
Query: 212 KTLGNFVKATFECLLKTYGFLTPDFWRETR 241
+T NF KATF L TY TP W E R
Sbjct: 181 RTTVNFAKATFNALKNTYKVRTPPDWAEKR 210
>gnl|CDD|223176 COG0098, RpsE, Ribosomal protein S5 [Translation, ribosomal
structure and biogenesis].
Length = 181
Score = 178 bits (455), Expect = 2e-56
Identities = 80/194 (41%), Positives = 106/194 (54%), Gaps = 19/194 (9%)
Query: 53 EGKIRSLEQIYLHSLPIKEYQIIDTLIGHKLKDEVMKIMPVQKQTRAGQRTRFKAFVVVG 112
EGKI ++E + LPIKE ++ +L ++V+ I V K + G+R RF A VVVG
Sbjct: 2 EGKIATIE--FKSGLPIKEPEV------DELLEKVVDINRVSKVVKGGRRFRFSALVVVG 53
Query: 113 DTDGHVGLGVKCSKEVATAIRGAIILAKLSVIPVRRGYWGNKIGRPHTVPCKVTGKCGSV 172
D +G VG G+ +KEV AIR AI AK ++I V R G HT+P +V GK G+V
Sbjct: 54 DRNGRVGFGIGKAKEVPEAIRKAIEDAKKNIIEVPR-------GNGHTIPHEVIGKHGAV 106
Query: 173 TVRMVPAPRGAGIVAARVPKKVLQFAGIDDVFTSSRGSTKTLGNFVKATFECLLKTYGFL 232
V + PAP G GI+A + VL+ AGI DV S GS N V+ATF+ L K
Sbjct: 107 KVLLKPAPEGTGIIAGGAVRAVLELAGIKDVLAKSLGSR-NPINVVRATFDALKK---LR 162
Query: 233 TPDFWRETRFVKSP 246
TP+ R K
Sbjct: 163 TPEDVAAKRGKKVE 176
>gnl|CDD|144065 pfam00333, Ribosomal_S5, Ribosomal protein S5, N-terminal domain.
Length = 67
Score = 101 bits (254), Expect = 7e-28
Identities = 36/67 (53%), Positives = 47/67 (70%)
Query: 82 KLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDTDGHVGLGVKCSKEVATAIRGAIILAKL 141
L+++V+ I VQK T+ G+R F+A VVVGD +GHVGLG +KEV AIR AI AKL
Sbjct: 1 DLEEKVLVINRVQKVTKGGRRFSFRALVVVGDKNGHVGLGEGKAKEVPGAIRKAIEDAKL 60
Query: 142 SVIPVRR 148
++I V R
Sbjct: 61 NLIEVPR 67
>gnl|CDD|234790 PRK00550, rpsE, 30S ribosomal protein S5; Validated.
Length = 168
Score = 92.9 bits (232), Expect = 2e-23
Identities = 55/147 (37%), Positives = 80/147 (54%), Gaps = 13/147 (8%)
Query: 83 LKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDTDGHVGLGVKCSKEVATAIRGAIILAK-- 140
L+++V+ I V K + G+R F A VVVGD G VG G ++EV AIR A+ AK
Sbjct: 13 LEEKVVAINRVTKVVKGGRRFSFSALVVVGDGKGRVGFGYGKAREVPEAIRKAVEDAKKN 72
Query: 141 LSVIPVRRGYWGNKIGRPHTVPCKVTGKCGSVTVRMVPAPRGAGIVAARVPKKVLQFAGI 200
+ +P+ G T+P +V GK G+ V + PA G G++A + VL+ AG+
Sbjct: 73 MIKVPLVGG----------TIPHEVIGKFGAAKVLLKPASEGTGVIAGGAVRAVLELAGV 122
Query: 201 DDVFTSSRGSTKTLGNFVKATFECLLK 227
DV S GS + N V+ATF+ L +
Sbjct: 123 KDVLAKSLGSNNPI-NVVRATFDALKQ 148
>gnl|CDD|190724 pfam03719, Ribosomal_S5_C, Ribosomal protein S5, C-terminal domain.
Length = 74
Score = 89.4 bits (223), Expect = 4e-23
Identities = 33/67 (49%), Positives = 40/67 (59%), Gaps = 1/67 (1%)
Query: 165 VTGKCGSVTVRMVPAPRGAGIVAARVPKKVLQFAGIDDVFTSSRGSTKTLGNFVKATFEC 224
VTGK G+V V + PAPRG GI+A + VL+ AGI DV S GS + N VKATF+
Sbjct: 1 VTGKFGAVKVLLKPAPRGTGIIAGGAVRAVLELAGIKDVLAKSLGS-RNPINVVKATFDA 59
Query: 225 LLKTYGF 231
L K
Sbjct: 60 LKKLRTP 66
>gnl|CDD|130093 TIGR01021, rpsE_bact, ribosomal protein S5, bacterial/organelle
type. This model finds chloroplast ribosomal protein S5
as well as bacterial ribosomal protein S5. A candidate
mitochondrial form (Saccharomyces cerevisiae YBR251W and
its homolog) differs substantially and is not included
in this model [Protein synthesis, Ribosomal proteins:
synthesis and modification].
Length = 154
Score = 87.0 bits (216), Expect = 3e-21
Identities = 52/148 (35%), Positives = 83/148 (56%), Gaps = 13/148 (8%)
Query: 82 KLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDTDGHVGLGVKCSKEVATAIRGAIILAKL 141
+L++ ++ + V K + G+R F A VVVGD G VG G +KEV AI+ A+ A+
Sbjct: 1 ELEERLIAVNRVSKVVKGGRRFSFSALVVVGDGKGRVGFGFGKAKEVPDAIKKAVEAARK 60
Query: 142 SVI--PVRRGYWGNKIGRPHTVPCKVTGKCGSVTVRMVPAPRGAGIVAARVPKKVLQFAG 199
++I P+ +G T+P +V G+ G+ V + PA G G++A + +L+ AG
Sbjct: 61 NLINVPLTKG----------TIPHEVIGRSGAAKVLLKPASPGTGVIAGGAVRAILELAG 110
Query: 200 IDDVFTSSRGSTKTLGNFVKATFECLLK 227
+ D+ S GS + N V+ATF+ LLK
Sbjct: 111 VKDILAKSLGSNNPI-NVVRATFDALLK 137
>gnl|CDD|177060 CHL00138, rps5, ribosomal protein S5; Validated.
Length = 143
Score = 59.6 bits (145), Expect = 3e-11
Identities = 36/122 (29%), Positives = 72/122 (59%), Gaps = 7/122 (5%)
Query: 82 KLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDTDGHVGLGVKCSKEVATAIRGAIILAKL 141
K ++ V++I V K + G++ F+A VV+G+ +G VG+GV + +V A++ A+ AK
Sbjct: 23 KWEERVIQIKRVSKVVKGGKKLSFRAIVVIGNENGWVGVGVGKADDVQNAVKKAVTDAKK 82
Query: 142 SVIPVRRGYWGNKIGRPHTVPCKVTGKCGSVTVRMVPAPRGAGIVAARVPKKVLQFAGID 201
++I + + + +++P +TG G+ V + P+ G+G++A + VL+ AGI
Sbjct: 83 NLITI-------PLTKSNSIPHNITGIFGAAKVILRPSAPGSGVIAGGSVRIVLELAGIK 135
Query: 202 DV 203
++
Sbjct: 136 NI 137
>gnl|CDD|240291 PTZ00146, PTZ00146, fibrillarin; Provisional.
Length = 293
Score = 37.0 bits (86), Expect = 0.006
Identities = 13/32 (40%), Positives = 13/32 (40%)
Query: 4 RGGERGAFGRGFGRGGRGDRGGPRGRRRAGRR 35
GG G G G GRG G GG G G
Sbjct: 24 GGGRGGGRGGGRGRGRGGGGGGRGGGGGGGPG 55
Score = 37.0 bits (86), Expect = 0.007
Identities = 18/34 (52%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 4 RGGERGAFGRG--FGRGGRGDRGGPRGRRRAGRR 35
RGG RG G G G G G RGG RGR R G
Sbjct: 10 RGGGRGGGGGGGRGGGGRGGGRGGGRGRGRGGGG 43
Score = 33.2 bits (76), Expect = 0.13
Identities = 15/32 (46%), Positives = 15/32 (46%)
Query: 4 RGGERGAFGRGFGRGGRGDRGGPRGRRRAGRR 35
GG RG GRG GRGG RG G G
Sbjct: 18 GGGGRGGGGRGGGRGGGRGRGRGGGGGGRGGG 49
Score = 32.0 bits (73), Expect = 0.30
Identities = 18/39 (46%), Positives = 18/39 (46%), Gaps = 9/39 (23%)
Query: 4 RGGERGAFGRGFGRGG-------RGDRGGPRGRRRAGRR 35
GG G GRG GRGG G RGG RG R R
Sbjct: 3 GGGFGG--GRGGGRGGGGGGGRGGGGRGGGRGGGRGRGR 39
Score = 28.9 bits (65), Expect = 2.6
Identities = 12/28 (42%), Positives = 12/28 (42%)
Query: 8 RGAFGRGFGRGGRGDRGGPRGRRRAGRR 35
G G GRGG GG GR GR
Sbjct: 1 GMGGGFGGGRGGGRGGGGGGGRGGGGRG 28
>gnl|CDD|220565 pfam10095, DUF2333, Uncharacterized protein conserved in bacteria
(DUF2333). Members of this family of hypothetical
bacterial proteins have no known function.
Length = 337
Score = 31.1 bits (71), Expect = 0.58
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 200 IDDVFTSSRGSTKTLGNFVKA 220
IDDVF +RG+ L +F+KA
Sbjct: 243 IDDVFYEARGAAWALLHFLKA 263
>gnl|CDD|236941 PRK11634, PRK11634, ATP-dependent RNA helicase DeaD; Provisional.
Length = 629
Score = 31.0 bits (70), Expect = 0.77
Identities = 13/27 (48%), Positives = 14/27 (51%)
Query: 5 GGERGAFGRGFGRGGRGDRGGPRGRRR 31
GER GRG GR G+R R RR
Sbjct: 590 SGERREGGRGDGRRFSGERREGRAPRR 616
Score = 29.4 bits (66), Expect = 2.2
Identities = 15/37 (40%), Positives = 17/37 (45%)
Query: 4 RGGERGAFGRGFGRGGRGDRGGPRGRRRAGRREEEEK 40
GGER GRGFG R G RR G R + +
Sbjct: 567 TGGERRGGGRGFGGERREGGRNFSGERREGGRGDGRR 603
Score = 28.7 bits (64), Expect = 4.2
Identities = 16/40 (40%), Positives = 18/40 (45%), Gaps = 7/40 (17%)
Query: 5 GGERGAFGRGF-------GRGGRGDRGGPRGRRRAGRREE 37
GGER GR F GRG G R RA RR++
Sbjct: 579 GGERREGGRNFSGERREGGRGDGRRFSGERREGRAPRRDD 618
>gnl|CDD|217398 pfam03166, MH2, MH2 domain. This is the MH2 (MAD homology 2)
domain found at the carboxy terminus of MAD related
proteins such as Smads. This domain is separated from
the MH1 domain by a non-conserved linker region. The MH2
domain mediates interaction with a wide variety of
proteins and provides specificity and selectivity to
Smad function and also is critical for mediating
interactions in Smad oligomers. Unlike MH1, MH2 does not
bind DNA. The well-studied MH2 domain of Smad4 is
composed of five alpha helices and three loops enclosing
a beta sandwich. Smads are involved in the propagation
of TGF-beta signals by direct association with the
TGF-beta receptor kinase which phosphorylates the last
two Ser of a conserved 'SSXS' motif located at the
C-terminus of MH2.
Length = 179
Score = 29.6 bits (67), Expect = 1.2
Identities = 13/62 (20%), Positives = 21/62 (33%), Gaps = 6/62 (9%)
Query: 110 VVGDTDGHVGLGVKCSKEVATAIRGAIILAKLSVIP--VRRGYWGNKIGRPHTVPCKVTG 167
+ T H+G GV+ S + G + + S P V+ Y G K+
Sbjct: 57 AIEKTRRHIGKGVQLSYKA----DGEVWVYNRSDSPIFVQSPYLDYPAGFHPLTVHKIPP 112
Query: 168 KC 169
Sbjct: 113 GA 114
>gnl|CDD|237654 PRK14278, PRK14278, chaperone protein DnaJ; Provisional.
Length = 378
Score = 30.0 bits (68), Expect = 1.2
Identities = 17/42 (40%), Positives = 18/42 (42%), Gaps = 9/42 (21%)
Query: 1 MAERGGERGAFGRGFGR---------GGRGDRGGPRGRRRAG 33
+ GG G FG GFG GG GPRGR R G
Sbjct: 71 LESAGGGGGGFGGGFGGLGDVFEAFFGGGAASRGPRGRVRPG 112
>gnl|CDD|218811 pfam05918, API5, Apoptosis inhibitory protein 5 (API5). This
family consists of apoptosis inhibitory protein 5 (API5)
sequences from several organisms. Apoptosis or
programmed cell death is a physiological form of cell
death that occurs in embryonic development and organ
formation. It is characterized by biochemical and
morphological changes such as DNA fragmentation and cell
volume shrinkage. API5 is an anti apoptosis gene located
in human chromosome 11, whose expression prevents the
programmed cell death that occurs upon the deprivation
of growth factors.
Length = 543
Score = 30.0 bits (67), Expect = 1.3
Identities = 13/27 (48%), Positives = 13/27 (48%), Gaps = 1/27 (3%)
Query: 4 RGGERGAFGRGFGRGGRGDRGGPRGRR 30
G RG RG GRGG G RG R
Sbjct: 516 SYGGRGR-TRGRGRGGGGGRGRGYNRG 541
>gnl|CDD|222425 pfam13865, FoP_duplication, C-terminal duplication domain of
Friend of PRMT1. Fop, or Friend of Prmt1, proteins are
conserved from fungi and plants to vertebrates. There
is little that is actually conserved except for this
C-terminal LDXXLDAYM region where X is any amino acid).
The Fop proteins themselves are nuclear proteins
localised to regions with low levels of DAPI, with a
punctate/speckle-like distribution. Fop is a
chromatin-associated protein and it colocalises with
facultative heterochromatin. It is is critical for
oestrogen-dependent gene activation.
Length = 76
Score = 27.4 bits (61), Expect = 2.4
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 4 RGGERGAFGRGFGRGGRGDRGGPRGRRRAGRREE 37
RGG+ GRG RG R RGG +G+ A + +
Sbjct: 8 RGGKFRPRGRGARRGRRRGRGGRKGKGGAAKPKP 41
Score = 26.3 bits (58), Expect = 5.7
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 1/31 (3%)
Query: 5 GGERGAFGRGFGRGGRGDRGGPRGRRRAGRR 35
GG +G+ G F GRG R G R R R GR+
Sbjct: 2 GGRKGSRGGKFRPRGRGARRG-RRRGRGGRK 31
>gnl|CDD|235307 PRK04537, PRK04537, ATP-dependent RNA helicase RhlB; Provisional.
Length = 572
Score = 29.1 bits (65), Expect = 3.0
Identities = 13/42 (30%), Positives = 16/42 (38%)
Query: 4 RGGERGAFGRGFGRGGRGDRGGPRGRRRAGRREEEEKWVPVT 45
G G+ G G R G G G PR RR+ E +
Sbjct: 441 GGSRSGSVGGGGRRDGAGADGKPRPRRKPRVEGEADAAAAGA 482
>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho;
Provisional.
Length = 672
Score = 28.7 bits (65), Expect = 3.6
Identities = 18/42 (42%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 3 ERGGERGAFGRGFGRGGRGDRGGPRGRRRAGRREEEEKWVPV 44
RGG RG R R RG RGG G R E++ VPV
Sbjct: 257 GRGGRRG--RRFRDRDRRGRRGGDGGNEREPELREDDVLVPV 296
Score = 28.7 bits (65), Expect = 3.9
Identities = 17/58 (29%), Positives = 22/58 (37%), Gaps = 11/58 (18%)
Query: 3 ERGGERGAFGRGFGRGGRGDRGGPRGRRRAGRREEEEKWVPVTKLGRLVREGKIRSLE 60
E G+R G RG R R R R GRR + G RE ++R +
Sbjct: 245 EDRGDRDGDDGEGRGGRRGRRF--RDRDRRGRRGGD---------GGNEREPELREDD 291
Score = 27.6 bits (62), Expect = 8.8
Identities = 16/38 (42%), Positives = 17/38 (44%)
Query: 2 AERGGERGAFGRGFGRGGRGDRGGPRGRRRAGRREEEE 39
+ ERG GR RG GD R RR G R EE
Sbjct: 181 RQAEAERGERGRREERGRDGDDRDRRDRREQGDRREER 218
>gnl|CDD|197770 smart00524, DWB, Domain B in dwarfin family proteins.
Length = 171
Score = 27.7 bits (62), Expect = 4.6
Identities = 15/56 (26%), Positives = 20/56 (35%), Gaps = 7/56 (12%)
Query: 116 GHVGLGVKCSKEVATAIRGAIILAKLSVIP--VRRGYWGNKIGRPHTVPCKVTGKC 169
H+G GV+ S E G + L S P V+ Y GR K+
Sbjct: 58 KHIGKGVQLSYEN-----GDVWLYNRSDSPIFVQSPYLDEPGGRTLDTVHKLPPGY 108
>gnl|CDD|218425 pfam05091, eIF-3_zeta, Eukaryotic translation initiation factor 3
subunit 7 (eIF-3). This family is made up of eukaryotic
translation initiation factor 3 subunit 7 (eIF-3
zeta/eIF3 p66/eIF3d). Eukaryotic initiation factor 3 is
a multi-subunit complex that is required for binding of
mRNA to 40 S ribosomal subunits, stabilisation of
ternary complex binding to 40 S subunits, and
dissociation of 40 and 60 S subunits. These functions
and the complex nature of eIF3 suggest multiple
interactions with many components of the translational
machinery. The gene coding for the protein has been
implicated in cancer in mammals.
Length = 517
Score = 28.0 bits (63), Expect = 6.7
Identities = 12/39 (30%), Positives = 15/39 (38%)
Query: 1 MAERGGERGAFGRGFGRGGRGDRGGPRGRRRAGRREEEE 39
+RG RG R + + G GRR A R E
Sbjct: 113 QGKRGMTSRRAKRGGQRKQKRFQTGRGGRRGARHRRLRE 151
>gnl|CDD|180777 PRK06958, PRK06958, single-stranded DNA-binding protein;
Provisional.
Length = 182
Score = 27.1 bits (60), Expect = 7.1
Identities = 13/31 (41%), Positives = 15/31 (48%)
Query: 5 GGERGAFGRGFGRGGRGDRGGPRGRRRAGRR 35
GG+ G +G G G GG G G R GR
Sbjct: 120 GGDEGGYGGGGGGGGGGYGGESRSGGGGGRA 150
>gnl|CDD|221759 pfam12764, Gly-rich_Ago1, Glycine-rich region of argonaut. This
domain is often found at the very N-terminal of
argonaut-like proteins.
Length = 102
Score = 26.5 bits (58), Expect = 7.2
Identities = 12/30 (40%), Positives = 13/30 (43%)
Query: 4 RGGERGAFGRGFGRGGRGDRGGPRGRRRAG 33
RGG GRG G GGRG R +
Sbjct: 11 RGGPPQQGGRGGGGGGRGGGSTGGPPRPSV 40
>gnl|CDD|178439 PLN02847, PLN02847, triacylglycerol lipase.
Length = 633
Score = 27.9 bits (62), Expect = 7.2
Identities = 11/27 (40%), Positives = 11/27 (40%)
Query: 9 GAFGRGFGRGGRGDRGGPRGRRRAGRR 35
A G GG G GRRR RR
Sbjct: 25 AAEDGEDGGGGGDGSSGRSGRRRIARR 51
>gnl|CDD|218152 pfam04568, IATP, Mitochondrial ATPase inhibitor, IATP. ATP
synthase inhibitor prevents the enzyme from switching
to ATP hydrolysis during collapse of the
electrochemical gradient, for example during oxygen
deprivation ATP synthase inhibitor forms a one to one
complex with the F1 ATPase, possibly by binding at the
alpha-beta interface. It is thought to inhibit ATP
synthesis by preventing the release of ATP. The minimum
inhibitory region for bovine inhibitor is from residues
39 to 72. The inhibitor has two oligomeric states,
dimer (the active state) and tetramer. At low pH, the
inhibitor forms a dimer via antiparallel coiled coil
interactions between the C terminal regions of two
monomers. At high pH, the inhibitor forms tetramers and
higher oligomers by coiled coil interactions involving
the N terminus and inhibitory region, thus preventing
the inhibitory activity.
Length = 90
Score = 25.8 bits (57), Expect = 8.6
Identities = 15/29 (51%), Positives = 18/29 (62%)
Query: 9 GAFGRGFGRGGRGDRGGPRGRRRAGRREE 37
G G G GRGG G+ GG G+R A + EE
Sbjct: 30 GDTGSGAGRGGGGEAGGAFGKREAAQEEE 58
>gnl|CDD|233134 TIGR00802, nico, high-affinity nickel-transporter, HoxN/HupN/NixA
family. This family is found in both Gram-negative and
Gram-positive bacteria. The functionally characterized
members of the family catalyze uptake of either Ni2+ or
Co2+ in a proton motive force-dependent process.
Topological analyses with the HoxN Ni2+ transporter of
Ralstonia eutropha (Alcaligenes eutrophus) suggest that
it possesses 8 TMSs with its N- and C-termini in the
cytoplasm [Transport and binding proteins, Cations and
iron carrying compounds].
Length = 280
Score = 27.0 bits (60), Expect = 9.6
Identities = 11/36 (30%), Positives = 14/36 (38%)
Query: 215 GNFVKATFECLLKTYGFLTPDFWRETRFVKSPYQEY 250
G + +A E LL G LT R V + Y
Sbjct: 111 GIYDEADLEALLGNRGLLTRLLGPLFRLVTKSWHMY 146
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
0.321 0.140 0.423
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,374,440
Number of extensions: 1414026
Number of successful extensions: 1576
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1485
Number of HSP's successfully gapped: 55
Length of query: 272
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 177
Effective length of database: 6,723,972
Effective search space: 1190143044
Effective search space used: 1190143044
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: 58 (26.1 bits)