Query 041141
Match_columns 575
No_of_seqs 262 out of 1666
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 04:09:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041141.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041141hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3732 Staufen and related do 99.9 5.4E-22 1.2E-26 204.7 18.3 153 2-158 40-214 (339)
2 COG0571 Rnc dsRNA-specific rib 99.8 7.5E-19 1.6E-23 175.7 7.7 146 4-156 86-232 (235)
3 PRK12371 ribonuclease III; Rev 99.8 1.7E-18 3.7E-23 172.7 8.7 144 4-156 88-232 (235)
4 PRK14718 ribonuclease III; Pro 99.7 4.1E-18 8.9E-23 182.2 8.2 146 3-155 75-222 (467)
5 PRK12372 ribonuclease III; Rev 99.7 2.1E-17 4.5E-22 175.6 8.9 146 3-155 75-222 (413)
6 PRK00102 rnc ribonuclease III; 99.6 8.4E-16 1.8E-20 150.2 7.7 146 3-155 82-228 (229)
7 PHA02701 ORF020 dsRNA-binding 99.6 6.3E-15 1.4E-19 142.3 9.7 72 84-156 106-178 (183)
8 cd00048 DSRM Double-stranded R 99.6 1.1E-14 2.4E-19 114.5 9.3 67 87-153 1-68 (68)
9 TIGR02191 RNaseIII ribonucleas 99.6 3.3E-15 7.2E-20 144.8 7.1 144 3-153 76-220 (220)
10 smart00358 DSRM Double-strande 99.5 2.7E-14 5.9E-19 112.8 9.1 65 88-153 1-66 (67)
11 PHA03103 double-strand RNA-bin 99.5 2.5E-14 5.5E-19 138.5 9.8 71 85-156 108-178 (183)
12 PF00035 dsrm: Double-stranded 99.5 3.3E-14 7.2E-19 113.0 8.8 66 88-153 1-67 (67)
13 PF14709 DND1_DSRM: double str 99.2 3.8E-11 8.3E-16 102.2 7.6 68 87-154 2-80 (80)
14 smart00358 DSRM Double-strande 99.2 1E-10 2.2E-15 92.4 8.0 65 2-68 1-66 (67)
15 PHA02701 ORF020 dsRNA-binding 99.2 6.2E-11 1.3E-15 114.9 8.1 67 2-70 110-177 (183)
16 KOG3732 Staufen and related do 99.2 5E-11 1.1E-15 124.1 7.7 105 50-157 2-108 (339)
17 cd00048 DSRM Double-stranded R 99.1 1.5E-10 3.3E-15 91.0 8.0 66 2-68 2-68 (68)
18 KOG2777 tRNA-specific adenosin 99.1 7.8E-10 1.7E-14 121.6 13.6 157 18-191 10-186 (542)
19 PF00035 dsrm: Double-stranded 99.1 2.6E-10 5.7E-15 90.6 7.0 66 2-68 1-67 (67)
20 PHA03103 double-strand RNA-bin 99.1 3.2E-10 7E-15 110.2 8.1 68 2-71 111-178 (183)
21 PRK12371 ribonuclease III; Rev 99.0 5.4E-10 1.2E-14 112.0 8.3 68 2-70 163-231 (235)
22 PRK14718 ribonuclease III; Pro 98.9 1.8E-09 4E-14 116.6 7.9 71 2-72 153-224 (467)
23 COG0571 Rnc dsRNA-specific rib 98.9 3.5E-09 7.5E-14 106.7 8.3 69 2-71 163-232 (235)
24 PRK12372 ribonuclease III; Rev 98.9 4.6E-09 1E-13 112.6 8.3 72 2-73 153-225 (413)
25 PF14709 DND1_DSRM: double str 98.9 6E-09 1.3E-13 88.8 7.1 67 2-68 3-79 (80)
26 PRK00102 rnc ribonuclease III; 98.7 2.9E-08 6.3E-13 97.4 8.3 68 2-70 160-228 (229)
27 KOG1817 Ribonuclease [RNA proc 98.7 1.9E-08 4.2E-13 107.8 7.2 141 7-155 356-503 (533)
28 TIGR02191 RNaseIII ribonucleas 98.6 7.3E-08 1.6E-12 93.7 7.8 66 2-68 154-220 (220)
29 KOG4334 Uncharacterized conser 98.3 2.9E-06 6.3E-11 92.4 10.9 150 1-156 376-559 (650)
30 KOG3769 Ribonuclease III domai 97.7 6.3E-05 1.4E-09 78.3 6.7 73 85-157 231-305 (333)
31 KOG4334 Uncharacterized conser 97.4 0.00011 2.5E-09 80.4 4.2 69 87-156 376-444 (650)
32 KOG0921 Dosage compensation co 97.4 0.00021 4.6E-09 83.0 6.1 156 2-159 3-244 (1282)
33 KOG1817 Ribonuclease [RNA proc 96.7 0.005 1.1E-07 67.3 7.9 69 2-71 429-504 (533)
34 KOG3792 Transcription factor N 96.6 0.0017 3.8E-08 73.9 4.2 133 19-156 387-572 (816)
35 KOG2777 tRNA-specific adenosin 96.5 0.0056 1.2E-07 68.6 7.4 65 2-73 92-157 (542)
36 PF03368 Dicer_dimer: Dicer di 96.3 0.015 3.2E-07 50.7 7.4 67 89-159 2-77 (90)
37 KOG3769 Ribonuclease III domai 94.6 0.048 1E-06 57.5 5.0 69 3-72 235-305 (333)
38 KOG0921 Dosage compensation co 93.2 0.16 3.4E-06 60.3 6.4 72 87-159 2-74 (1282)
39 PF14954 LIX1: Limb expression 90.0 0.69 1.5E-05 47.1 6.2 67 85-151 20-93 (252)
40 KOG2334 tRNA-dihydrouridine sy 84.0 0.34 7.4E-06 53.4 0.1 71 86-159 375-446 (477)
41 PF14954 LIX1: Limb expression 75.6 7 0.00015 40.1 6.2 71 4-74 25-102 (252)
42 PF03368 Dicer_dimer: Dicer di 70.6 12 0.00025 32.7 5.7 65 3-72 2-75 (90)
43 KOG2334 tRNA-dihydrouridine sy 66.6 2.3 5E-05 47.1 0.7 67 2-71 377-443 (477)
44 KOG3792 Transcription factor N 53.2 7.3 0.00016 45.7 1.6 49 104-153 386-441 (816)
45 PF14622 Ribonucleas_3_3: Ribo 52.7 0.81 1.8E-05 41.8 -4.9 65 3-70 62-126 (128)
46 KOG0701 dsRNA-specific nucleas 39.2 34 0.00074 43.9 4.5 73 87-159 1515-1602(1606)
47 PF02169 LPP20: LPP20 lipoprot 35.9 45 0.00098 28.0 3.5 30 129-158 14-43 (92)
48 KOG2236 Uncharacterized conser 26.3 3.7E+02 0.0079 30.8 9.2 15 253-267 413-427 (483)
49 TIGR03549 conserved hypothetic 22.5 8.7E+02 0.019 29.4 11.8 65 88-156 161-228 (718)
50 PF14657 Integrase_AP2: AP2-li 22.4 2.5E+02 0.0054 21.4 5.2 19 132-150 21-39 (46)
51 smart00535 RIBOc Ribonuclease 21.3 17 0.00037 32.3 -1.7 65 4-71 61-125 (129)
52 COG1126 GlnQ ABC-type polar am 20.7 80 0.0017 32.9 2.7 47 134-190 106-153 (240)
No 1
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=99.88 E-value=5.4e-22 Score=204.67 Aligned_cols=153 Identities=27% Similarity=0.280 Sum_probs=130.4
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCChhhh--
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPSKVLA-- 78 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps~~~~-- 78 (575)
..+.|||+|.++++. |.|+++ ++|+.|.+.|+++|+|... ++.|.|.+||.|++.||..+|..|....+...+.
T Consensus 40 ~IS~l~E~~~r~~~~-v~fevl~eeGp~H~~~fv~rvtvg~~--~a~GeG~sKK~AKh~AA~~~L~~lk~l~~l~~v~k~ 116 (339)
T KOG3732|consen 40 PISLLQEYGLRRGLT-PVYEVLREEGPPHMPNFVFRVTVGEI--TATGEGKSKKLAKHRAAEALLKELKKLPPLANVRKD 116 (339)
T ss_pred hHHHHHHHHHHhCCC-cceeeeeccCCccCCCeEEEEEEeee--EEecCCCchhHHHHHHHHHHHHHHhcCCCccccccC
Confidence 468999999999875 699998 6999999999999999954 4457999999999999999999998764321110
Q ss_pred -------h-------hcc----cccCchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHH
Q 041141 79 -------A-------RVL----DETGVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKK 139 (575)
Q Consensus 79 -------~-------~i~----de~~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKK 139 (575)
. ... +...|++++|+||||+++|.+|.|+++ +.|++|.++|++.|.|++.+ ..|.|.|||
T Consensus 117 ~~~~~~~~~~~~~~~q~~d~~~~~~~NPI~~L~e~~q~k~~k~P~yelv~E~G~~~~rEFv~q~sv~~~~-~~GkG~sKK 195 (339)
T KOG3732|consen 117 SLKFAKMKSSGVKKDQPGDPEYGQVLNPIGRLQELAQAKKWKLPEYELVQESGVPHRREFVIQCSVENFT-EEGKGPSKK 195 (339)
T ss_pred cccccccccCCccccCCCCcccccccChHHHHHHHHHHhCCCCCceEEEeccCCCccceEEEEEEeccee-eecCCchHH
Confidence 0 000 135799999999999999999999999 89999999999999999996 469999999
Q ss_pred HHHHHHHHHHHHHHHhhhc
Q 041141 140 QAQKNAALAAWSALKKQAK 158 (575)
Q Consensus 140 eAEQ~AAk~ALe~L~~~~~ 158 (575)
.||++||.+||+.|.-...
T Consensus 196 iAKRnAAeamLe~l~~~~~ 214 (339)
T KOG3732|consen 196 IAKRNAAEAMLESLGFVKP 214 (339)
T ss_pred HHHHHHHHHHHHHhccCCC
Confidence 9999999999999986553
No 2
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=99.76 E-value=7.5e-19 Score=175.72 Aligned_cols=146 Identities=25% Similarity=0.289 Sum_probs=126.5
Q ss_pred HHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCChhhhhhccc
Q 041141 4 NQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPSKVLAARVLD 83 (575)
Q Consensus 4 S~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps~~~~~~i~d 83 (575)
..|.+++... ++..|..+..|+.....|. +.+|-++.||+..+|.|+|.+.+.|.+++.+.+......... ..
T Consensus 86 ~~La~ia~~l--~l~~~l~lg~ge~~~gg~~-~~silaD~~EAligAiylD~g~~~~~~~i~~l~~~~~~~~~~----~~ 158 (235)
T COG0571 86 ESLAEIAREL--GLGDYLRLGKGEEKSGGRR-RESILADAFEALIGAIYLDSGLEAARKFILKLFLPRLEEIDA----GD 158 (235)
T ss_pred HHHHHHHHHh--CccchhhccCChhhcCCCC-chhHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhhccc----cc
Confidence 4688999985 5679999888887777766 577888899999999999999999999999998876543221 12
Q ss_pred ccCchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHHHhh
Q 041141 84 ETGVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSALKKQ 156 (575)
Q Consensus 84 e~~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~ 156 (575)
...|||++||||||+.++.+|.|.++ +.||+|++.|++.|.|+|..++.|.|+|||+|||.||+.||+.|...
T Consensus 159 ~~~D~Kt~LQe~~q~~~~~~p~Y~~v~~~g~~h~~~F~v~v~v~~~~~g~G~G~skk~AEq~AA~~al~~l~~~ 232 (235)
T COG0571 159 QFKDPKTRLQELLQAQGLVLPEYRLVKEEGPAHDKEFTVEVAVGGKELGTGKGRSKKEAEQAAAEQALKKLGVK 232 (235)
T ss_pred cccChhHHHHHHHHhcCCCCCeEEEeeccCCCCCceEEEEEEECCeeEEEecccCHHHHHHHHHHHHHHHhccc
Confidence 34799999999999999999999999 67999999999999999999999999999999999999999999765
No 3
>PRK12371 ribonuclease III; Reviewed
Probab=99.75 E-value=1.7e-18 Score=172.71 Aligned_cols=144 Identities=22% Similarity=0.171 Sum_probs=114.9
Q ss_pred HHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCChhhhhhccc
Q 041141 4 NQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPSKVLAARVLD 83 (575)
Q Consensus 4 S~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps~~~~~~i~d 83 (575)
..|.++|.+.| ++.|.....+...... .....+-++.||+..+|.|+|.+.+.|.+++.+.|.+...... .
T Consensus 88 ~~La~ia~~lg--L~~~i~~~~~~~~~~~-~~~~~ilad~~EAliGAiylD~G~~~a~~~i~~~~~~~~~~~~------~ 158 (235)
T PRK12371 88 ETCAAIADEIG--LHDLIRTGSDVKKLTG-KRLLNVRADVVEALIAAIYLDGGLEAARPFIQRYWQKRALETD------A 158 (235)
T ss_pred HHHHHHHHHCC--cHHHhccCcchhhcCC-cccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhccc------c
Confidence 56888998854 5677765333211100 0112456888999999999999999999999988876532111 2
Q ss_pred ccCchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHHHhh
Q 041141 84 ETGVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSALKKQ 156 (575)
Q Consensus 84 e~~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~ 156 (575)
...|||+.||||||+.+...|.|+++ +.||+|.+.|+|+|.|+|..++.|.|+|||+||++||++||+.|...
T Consensus 159 ~~~d~Ks~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~~g~G~sKK~Ae~~AA~~al~~~~~~ 232 (235)
T PRK12371 159 ARRDAKTELQEWAHAQFGVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPETGEGRSKRAAEQVAAEKMLEREGVW 232 (235)
T ss_pred ccCCHHHHHHHHHHhcCCCCCeEEEEEeecCCCCCeEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHhhhh
Confidence 34599999999999999999999998 78999999999999999999999999999999999999999998653
No 4
>PRK14718 ribonuclease III; Provisional
Probab=99.73 E-value=4.1e-18 Score=182.18 Aligned_cols=146 Identities=21% Similarity=0.176 Sum_probs=117.8
Q ss_pred HHHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCChhhhhhcc
Q 041141 3 KNQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPSKVLAARVL 82 (575)
Q Consensus 3 KS~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps~~~~~~i~ 82 (575)
...|.+++.+.|+ ..|.++..|......+. .-.|-++.||+.++++|+|.+.+.+.+++...|.......+. .
T Consensus 75 netLA~IAr~LGL--~d~Lrlg~gE~~sgG~~-~~sILADvFEALIGAIYLDsG~e~a~~fI~~ll~p~i~~~d~----~ 147 (467)
T PRK14718 75 QQSLYEIAQALNI--SDGLRLGEGELRSGGFR-RPSILADAFEAIIGAVFLDGGFEAAQGVIKRLYVPILDHIDP----R 147 (467)
T ss_pred hHHHHHHHHHcCc--hHHHhhCCcccccCCCC-ChhHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhhhcc----c
Confidence 3578899998655 47777665544333333 456778899999999999999999998888888754322111 1
Q ss_pred cccCchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEe-eeecccCCHHHHHHHHHHHHHHHHHh
Q 041141 83 DETGVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVS-FTGEPAKTKKQAQKNAALAAWSALKK 155 (575)
Q Consensus 83 de~~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~-fg~G~G~SKKeAEQ~AAk~ALe~L~~ 155 (575)
....|||+.||||||++++.+|.|.++ +.||+|.+.|++.|.|+|.. ++.|.|.|||+|||+||+.||++|..
T Consensus 148 ~~~kDyKS~LQE~~Qk~~~~~PeY~li~esGPdH~k~F~V~V~v~g~~~~G~G~G~SKKeAEQ~AAk~AL~kL~~ 222 (467)
T PRK14718 148 TLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDIKVSGSGASRRAAEQAAAKKALDEVTA 222 (467)
T ss_pred ccccCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCCeEEEEEEECCeeeEEEEEcCCHHHHHHHHHHHHHHHhcc
Confidence 224699999999999999999999998 78999999999999999964 47899999999999999999999973
No 5
>PRK12372 ribonuclease III; Reviewed
Probab=99.70 E-value=2.1e-17 Score=175.62 Aligned_cols=146 Identities=21% Similarity=0.168 Sum_probs=117.0
Q ss_pred HHHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCChhhhhhcc
Q 041141 3 KNQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPSKVLAARVL 82 (575)
Q Consensus 3 KS~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps~~~~~~i~ 82 (575)
...|.++|.+.|+ ..|.++..|......|. ...|-++.||+.++++|+|.+.+.+..++.+.|......... .
T Consensus 75 n~tLA~IA~~LgL--~~~Lrlg~ge~~sgg~~-~~kILADvfEALIGAIYLDsG~e~a~~fV~~ll~p~l~~~~~----~ 147 (413)
T PRK12372 75 QQSLYEIAQALNI--SEGLRLGEGELRSGGFR-RPSILADAFEAIIGAVFLDGGFEAAQGVIKRLYVPILDHIDP----R 147 (413)
T ss_pred hHHHHHHHHHcCc--hHhhhcCcchhhcCCCC-CccHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhccc----c
Confidence 3578999998654 57776655543333333 456778899999999999999998888888887654322110 1
Q ss_pred cccCchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCE-eeeecccCCHHHHHHHHHHHHHHHHHh
Q 041141 83 DETGVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGV-SFTGEPAKTKKQAQKNAALAAWSALKK 155 (575)
Q Consensus 83 de~~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~-~fg~G~G~SKKeAEQ~AAk~ALe~L~~ 155 (575)
....|||+.||||||++++..|.|.++ +.|++|.+.|+|.|.|+|. .++.|.|.|||+|||+||+.||+.|..
T Consensus 148 ~~~~D~KS~LQE~~Q~~~~~~P~Y~lv~e~Gp~h~~~F~V~V~v~g~~~~g~G~G~SKKeAEQ~AAr~AL~kL~~ 222 (413)
T PRK12372 148 TLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDVKVSGSGASRRAAEQAAAKKALDEVMA 222 (413)
T ss_pred cccCCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCceEEEEEEECCeEEEEEEEeCCHHHHHHHHHHHHHHHHhc
Confidence 224589999999999999999999998 7899999999999999985 457899999999999999999999984
No 6
>PRK00102 rnc ribonuclease III; Reviewed
Probab=99.61 E-value=8.4e-16 Score=150.21 Aligned_cols=146 Identities=27% Similarity=0.343 Sum_probs=113.7
Q ss_pred HHHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCChhhhhhcc
Q 041141 3 KNQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPSKVLAARVL 82 (575)
Q Consensus 3 KS~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps~~~~~~i~ 82 (575)
...|..+|.+.| +..|.....|...... .....+-++.||+..+|.|++.+.+.|.+++...+......... .
T Consensus 82 n~~la~~a~~lg--l~~~i~~~~~~~~~~~-~~~~k~~ad~~EA~iGAiyld~g~~~~~~~i~~~~~~~l~~~~~----~ 154 (229)
T PRK00102 82 EESLAEIARELG--LGEYLLLGKGEEKSGG-RRRPSILADAFEALIGAIYLDQGLEAARKFILRLFEPRIEEIDL----G 154 (229)
T ss_pred HHHHHHHHHHCC--cHHHHccCcHHHHcCC-CCCccHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhcc----c
Confidence 457889998855 4566654333211111 11235567789999999999999998888888777654322211 1
Q ss_pred cccCchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHHHh
Q 041141 83 DETGVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSALKK 155 (575)
Q Consensus 83 de~~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~ 155 (575)
....|||+.|+||||+.++..|.|.++ ++|+.|.+.|+|+|.++|..++.|.|.|||+||++||+.||+.|+.
T Consensus 155 ~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~skk~Ae~~AA~~Al~~l~~ 228 (229)
T PRK00102 155 DLVKDYKTRLQELLQGRGLPLPEYELVKEEGPAHDKEFTVEVTVNGKELGEGTGSSKKEAEQAAAKQALKKLKE 228 (229)
T ss_pred cccCCHHHHHHHHHHHcCCCCCceEEeeccCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHHhh
Confidence 345699999999999999999999987 6899999999999999999999999999999999999999999864
No 7
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=99.58 E-value=6.3e-15 Score=142.31 Aligned_cols=72 Identities=24% Similarity=0.314 Sum_probs=67.1
Q ss_pred ccCchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHHHhh
Q 041141 84 ETGVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSALKKQ 156 (575)
Q Consensus 84 e~~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~ 156 (575)
...|||+.||||||+.+..+ .|.++ +.||+|.+.|++.|.|+|..++.|.|+|||+|||+||+.||+.|...
T Consensus 106 k~~DpKS~LQE~~Q~~~~~l-~Y~li~~~GpdH~~~Ftv~V~V~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~~~ 178 (183)
T PHA02701 106 KTLNPVSAVNEFCMRTHRPL-EFCETRSGGHDHCPLFTCTIVVSGKVVATASGCSKKLARHAACADALTILINN 178 (183)
T ss_pred CCCCccHHHHHHHHhcCCCC-eEEEEEeECCCCCceEEEEEEECCEEEEEEEeCCHHHHHHHHHHHHHHHHHhh
Confidence 45699999999999999888 89887 77999999999999999999999999999999999999999999654
No 8
>cd00048 DSRM Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, RNases H1, and dsRNA dependent adenosine deaminases.
Probab=99.57 E-value=1.1e-14 Score=114.52 Aligned_cols=67 Identities=39% Similarity=0.534 Sum_probs=63.0
Q ss_pred chhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHH
Q 041141 87 VYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSAL 153 (575)
Q Consensus 87 nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L 153 (575)
|||+.|+||||++++..|.|++. ..|+.|.+.|+|.|.|+|..++.|.|.|||+||+.||+.||..|
T Consensus 1 ~p~~~L~e~~~~~~~~~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~sKk~Ak~~AA~~al~~L 68 (68)
T cd00048 1 NPKSLLQELAQKRGKPLPEYELVEEEGPDHAPRFTVEVTVGGKITGEGEGSSKKEAKQNAAEAALRKL 68 (68)
T ss_pred ChHHHHHHHHHHcCCCCCeEEEeeeeCCCCCCeEEEEEEECCEEEEEeecCCHHHHHHHHHHHHHHhC
Confidence 68999999999999999999996 78999999999999999988888999999999999999999875
No 9
>TIGR02191 RNaseIII ribonuclease III, bacterial. This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family.
Probab=99.57 E-value=3.3e-15 Score=144.75 Aligned_cols=144 Identities=26% Similarity=0.335 Sum_probs=111.2
Q ss_pred HHHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCChhhhhhcc
Q 041141 3 KNQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPSKVLAARVL 82 (575)
Q Consensus 3 KS~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps~~~~~~i~ 82 (575)
...|..+|.+.| +..|.....+...... .....+-++.||+..+|.|++.+.+.|.+++...|......... .
T Consensus 76 n~~la~~a~~~g--l~~~i~~~~~~~~~~~-~~~~k~~ad~~eAliGAiyld~g~~~~~~~i~~~~~~~~~~~~~----~ 148 (220)
T TIGR02191 76 EESLAEVARELG--LGKFLLLGKGEEKSGG-RRRESILADAFEALIGAIYLDSGLEAARKFILKLLIPRIDAIEK----E 148 (220)
T ss_pred HHHHHHHHHHCC--cHHHhccCchHhhcCC-cccchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhc----c
Confidence 357889998865 4566554322111101 11234567889999999999999988888888777654322111 1
Q ss_pred cccCchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHH
Q 041141 83 DETGVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSAL 153 (575)
Q Consensus 83 de~~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L 153 (575)
....|||+.|+||||++++..|.|+++ ..|++|.+.|+|.|.++|..++.|.|.|||+||++||+.||+.|
T Consensus 149 ~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~~~~~~~~~g~g~skk~A~~~AA~~Al~~l 220 (220)
T TIGR02191 149 ETLKDYKTALQEWAQARGKPLPEYRLIKEEGPDHDKEFTVEVSVNGEPYGEGKGKSKKEAEQNAAKAALEKL 220 (220)
T ss_pred cccCChHHHHHHHHHHcCCCCceEEEecccCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHhC
Confidence 245699999999999999999999998 67999999999999999999999999999999999999999875
No 10
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=99.54 E-value=2.7e-14 Score=112.77 Aligned_cols=65 Identities=40% Similarity=0.572 Sum_probs=61.5
Q ss_pred hhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHH
Q 041141 88 YKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSAL 153 (575)
Q Consensus 88 yKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L 153 (575)
||+.|+||||++++ .|.|++. ..|+.|.+.|+|.|.|+|..++.|.|.|||+||++||+.||..|
T Consensus 1 p~~~L~e~~~~~~~-~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~sKk~Ak~~AA~~al~~L 66 (67)
T smart00358 1 PKSLLQELAQKRGL-PPEYELVKEEGPDHAPRFTVTVKVGGEYTGEGEGSSKKEAKQRAAEAALRSL 66 (67)
T ss_pred CchHHHHHHHHCCC-CCEEEEEeeeCCCCCCcEEEEEEECCEEEEEeccCCHHHHHHHHHHHHHHhc
Confidence 68999999999999 8999998 58999999999999999998889999999999999999999887
No 11
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=99.53 E-value=2.5e-14 Score=138.49 Aligned_cols=71 Identities=25% Similarity=0.353 Sum_probs=64.5
Q ss_pred cCchhhHHHHHHHHcCCCCCeEEEeecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHHHhh
Q 041141 85 TGVYKNLLQETSHRAGLKLPVYTTVRSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSALKKQ 156 (575)
Q Consensus 85 ~~nyKS~LQE~cQK~gl~lP~Yev~esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~ 156 (575)
..|||+.||||||+.+... .|.+.+.||+|.+.|++.|.|+|..++.|.|+|||+|||+||+.||..|...
T Consensus 108 ~kNpKS~LQE~~Qk~~~~~-y~~i~~~Gp~H~p~F~v~V~I~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~~~ 178 (183)
T PHA03103 108 DKNPCTVINEYCQITSRDW-SINITSSGPSHSPTFTASVIISGIKFKPAIGSTKKEAKNNAAKLAMDKILNY 178 (183)
T ss_pred cCChhHHHHHHHHHhCCCe-EEEEEeeCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHHHhc
Confidence 5689999999999998875 5555588999999999999999999999999999999999999999999653
No 12
>PF00035 dsrm: Double-stranded RNA binding motif; InterPro: IPR001159 The DsRBD domain is found in a variety of RNA-binding proteins with different structures and exhibiting a diversity of functions []. It is involved in localisation of at least five different mRNAs in the early Drosophila embryo and by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA.; GO: 0003725 double-stranded RNA binding, 0005622 intracellular; PDB: 1EKZ_A 1STU_A 1QU6_A 2L2M_A 3ADJ_A 1WHN_A 3LLH_B 2B7V_A 2L3J_A 1UHZ_A ....
Probab=99.53 E-value=3.3e-14 Score=112.97 Aligned_cols=66 Identities=32% Similarity=0.484 Sum_probs=60.2
Q ss_pred hhhHHHHHHHHcCCCCCeEEEeecCCCCC-CeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHH
Q 041141 88 YKNLLQETSHRAGLKLPVYTTVRSGPGHG-PVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSAL 153 (575)
Q Consensus 88 yKS~LQE~cQK~gl~lP~Yev~esGP~H~-p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L 153 (575)
||+.|+|||+++++.+++|.+...|+.|. +.|.|+|.|+|..++.|.|.|||+||+.||+.||+.|
T Consensus 1 ~~~~L~e~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~i~~~~~~~g~g~sKk~Ak~~AA~~al~~L 67 (67)
T PF00035_consen 1 PKSRLNEYCQKNKFPPPYYYIEEEGPSHHRPRFICTVYIDGKEYGEGEGSSKKEAKQQAAKKALQKL 67 (67)
T ss_dssp HHHHHHHHHHHCTSSEEEEEEEEESSSSSSEEEEEEEEETTEEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCCCEEEEEEeCCCCCCceEEEEEEECCEEEeEeccCCHHHHHHHHHHHHHHhC
Confidence 78999999999999888888876666554 8999999999999999999999999999999999987
No 13
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=99.20 E-value=3.8e-11 Score=102.18 Aligned_cols=68 Identities=35% Similarity=0.528 Sum_probs=60.8
Q ss_pred chhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeee---------e-cccCCHHHHHHHHHHHHHHHHH
Q 041141 87 VYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFT---------G-EPAKTKKQAQKNAALAAWSALK 154 (575)
Q Consensus 87 nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg---------~-G~G~SKKeAEQ~AAk~ALe~L~ 154 (575)
++++.|+|+|+|++|..|.|++. +.||+|.+.|++.|.|.+..+. . -...+||+||..||+.||..|+
T Consensus 2 ~a~~~L~elC~k~~W~~P~y~l~~~~Gp~~~~~F~ykV~i~~~~~~~~~~~~~~~p~~~~~~~k~Ak~~AA~~~L~~Lg 80 (80)
T PF14709_consen 2 SAVSLLNELCQKNKWGPPVYELVSESGPDHRKLFLYKVVIPGLEYPFEGSIECFGPTKPSSTKKEAKESAAQQALQALG 80 (80)
T ss_pred CHHHHHHHHHHhcCCCCCeEEEEeccCCCccEEEEEEEEEcCCCCCCcceEEEccCCCcCccHHHHHHHHHHHHHHhcC
Confidence 68999999999999999999998 7899999999999999987762 2 3457899999999999999874
No 14
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=99.17 E-value=1e-10 Score=92.39 Aligned_cols=65 Identities=45% Similarity=0.610 Sum_probs=59.1
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHH
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVL 68 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L 68 (575)
+|+.|+||||++++ .|.|.++ ..|++|.+.|++.|.|+|..+.. |.|.+||.|++.||+.+|..|
T Consensus 1 p~~~L~e~~~~~~~-~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~-g~g~sKk~Ak~~AA~~al~~L 66 (67)
T smart00358 1 PKSLLQELAQKRGL-PPEYELVKEEGPDHAPRFTVTVKVGGEYTGE-GEGSSKKEAKQRAAEAALRSL 66 (67)
T ss_pred CchHHHHHHHHCCC-CCEEEEEeeeCCCCCCcEEEEEEECCEEEEE-eccCCHHHHHHHHHHHHHHhc
Confidence 68999999999999 7899988 47999999999999999987765 579999999999999999876
No 15
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=99.17 E-value=6.2e-11 Score=114.88 Aligned_cols=67 Identities=24% Similarity=0.354 Sum_probs=61.9
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHh
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSK 70 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k 70 (575)
||+.||||||+.+..+ .|.++ ..|++|.+.|++.|.|+|..++. |.|.+||+|+++||+.||..|..
T Consensus 110 pKS~LQE~~Q~~~~~l-~Y~li~~~GpdH~~~Ftv~V~V~g~~~g~-G~G~SKKeAEQ~AAk~AL~~L~~ 177 (183)
T PHA02701 110 PVSAVNEFCMRTHRPL-EFCETRSGGHDHCPLFTCTIVVSGKVVAT-ASGCSKKLARHAACADALTILIN 177 (183)
T ss_pred ccHHHHHHHHhcCCCC-eEEEEEeECCCCCceEEEEEEECCEEEEE-EEeCCHHHHHHHHHHHHHHHHHh
Confidence 7999999999998888 89887 67999999999999999999987 48999999999999999998864
No 16
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=99.16 E-value=5e-11 Score=124.13 Aligned_cols=105 Identities=36% Similarity=0.401 Sum_probs=86.6
Q ss_pred cccccHHHHHHHHHHHHHHHhcCCChhhhhhccccc-CchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECC
Q 041141 50 CSTLRQAEHAAAEVALDVLSKKGPSKVLAARVLDET-GVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAG 127 (575)
Q Consensus 50 G~SKKeAeq~AAk~AL~~L~k~~ps~~~~~~i~de~-~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G 127 (575)
|.+..+|++.||..+|..|........... ..|.. ..+++.|||||.|+++ .|.|++. ++||.|.+.|+++|.|+.
T Consensus 2 g~t~~~a~~daaa~al~~l~~~~~~~~~~~-~~~~g~KS~IS~l~E~~~r~~~-~v~fevl~eeGp~H~~~fv~rvtvg~ 79 (339)
T KOG3732|consen 2 GKTMQQAKHDAAAKALQVLQNGLISEGVML-NADPGAKSPISLLQEYGLRRGL-TPVYEVLREEGPPHMPNFVFRVTVGE 79 (339)
T ss_pred ccchhhhhccccccchhhccCCCcchhccc-ccCcccCChHHHHHHHHHHhCC-CcceeeeeccCCccCCCeEEEEEEee
Confidence 567889999999999999987653322100 01222 6889999999999987 4688988 799999999999999996
Q ss_pred EeeeecccCCHHHHHHHHHHHHHHHHHhhh
Q 041141 128 VSFTGEPAKTKKQAQKNAALAAWSALKKQA 157 (575)
Q Consensus 128 ~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~~ 157 (575)
.. +.|.|+|||.||+.||.++|..|+.+.
T Consensus 80 ~~-a~GeG~sKK~AKh~AA~~~L~~lk~l~ 108 (339)
T KOG3732|consen 80 IT-ATGEGKSKKLAKHRAAEALLKELKKLP 108 (339)
T ss_pred eE-EecCCCchhHHHHHHHHHHHHHHhcCC
Confidence 65 569999999999999999999999986
No 17
>cd00048 DSRM Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III, RNases H1, and dsRNA dependent adenosine deaminases.
Probab=99.15 E-value=1.5e-10 Score=90.98 Aligned_cols=66 Identities=44% Similarity=0.589 Sum_probs=58.9
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHH
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVL 68 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L 68 (575)
+|+.|+||||++++..|.|.+. ..|+.|.+.|++.|.|+|..+.. |.|.+||+|++.||+.+|..|
T Consensus 2 p~~~L~e~~~~~~~~~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~-g~g~sKk~Ak~~AA~~al~~L 68 (68)
T cd00048 2 PKSLLQELAQKRGKPLPEYELVEEEGPDHAPRFTVEVTVGGKITGE-GEGSSKKEAKQNAAEAALRKL 68 (68)
T ss_pred hHHHHHHHHHHcCCCCCeEEEeeeeCCCCCCeEEEEEEECCEEEEE-eecCCHHHHHHHHHHHHHHhC
Confidence 7999999999998888999996 68899999999999999965555 578999999999999999765
No 18
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=99.10 E-value=7.8e-10 Score=121.61 Aligned_cols=157 Identities=29% Similarity=0.373 Sum_probs=122.2
Q ss_pred CceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCCh-----------hh----hhh-
Q 041141 18 PSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPSK-----------VL----AAR- 80 (575)
Q Consensus 18 PeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps~-----------~~----~~~- 80 (575)
++|..+ ..||.|.+.|...|.|+|..|. +|.|+..||+.+++.+.+..+.. +. .+.
T Consensus 10 ~~~~~~~q~~p~~~p~~~~~~~v~~~~~~-------~k~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (542)
T KOG2777|consen 10 LQYNLVSQTGPVHAPLFPFSVEVNGQEFP-------KKKAKQRAAEKALRVFLQFPEAHLSMGGTEGVNEDLTSDQADAF 82 (542)
T ss_pred cccccccccCCCCCCcccceEEecccccc-------cccccchhhhHHHHHHhhcCCcccccCCCCccccccchhhhHHH
Confidence 478776 7899999999999999998765 88999999999999988754321 00 000
Q ss_pred --cccccCchhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHHHhhh
Q 041141 81 --VLDETGVYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSALKKQA 157 (575)
Q Consensus 81 --i~de~~nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~~ 157 (575)
......|+++.|.|+++ -++|++. +.|+.|.+.|.|.|.|+|+.|..| |.|||+||+.||+.||+.|....
T Consensus 83 ~~~~~~~~npv~ll~e~~~-----~~~~~~~~~~~~~~~~~F~~~~~vdg~~~~~~-~~sKk~ak~~aa~~al~~l~~~~ 156 (542)
T KOG2777|consen 83 LSLGKEGKNPVSLLHELAN-----GLFFDFVNESGPQHAPKFVMSVVVDGRWFEGG-GRSKKEAKQEAAMAALQVLFKID 156 (542)
T ss_pred HhhhhccCCchHHHHHHhc-----ccceeeeccCCCCCCceEEEEEEECCEEccCC-CcchHHHHHHHHHHHHHHHHhcc
Confidence 01236799999999999 5678888 889999999999999999999877 99999999999999999999987
Q ss_pred cccCCCCCCCCCCCCCCCChhhHHHHHHHHHhhc
Q 041141 158 KSAFSSSSFSPPSSESGTNDEQDQAIIARYLATL 191 (575)
Q Consensus 158 ~~~~sss~~~~~~~~~~~~~~qeq~~~a~~l~~~ 191 (575)
.+.... ..... -+........+...++..+
T Consensus 157 ~~~~~~--~~~~~--~e~~~~~~~~Ia~lv~~kF 186 (542)
T KOG2777|consen 157 ENPERP--SEALT--LENPSTLGDEIAELVLEKF 186 (542)
T ss_pred CCcccc--ccccc--ccCCChHHHHHHHHHHHHH
Confidence 664432 12222 2244556666777777766
No 19
>PF00035 dsrm: Double-stranded RNA binding motif; InterPro: IPR001159 The DsRBD domain is found in a variety of RNA-binding proteins with different structures and exhibiting a diversity of functions []. It is involved in localisation of at least five different mRNAs in the early Drosophila embryo and by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA.; GO: 0003725 double-stranded RNA binding, 0005622 intracellular; PDB: 1EKZ_A 1STU_A 1QU6_A 2L2M_A 3ADJ_A 1WHN_A 3LLH_B 2B7V_A 2L3J_A 1UHZ_A ....
Probab=99.09 E-value=2.6e-10 Score=90.56 Aligned_cols=66 Identities=35% Similarity=0.523 Sum_probs=56.7
Q ss_pred cHHHHHHHHHHcCCCCCceEEeecCCCCC-CceEEEEEECCeeeecccccccccHHHHHHHHHHHHHH
Q 041141 2 YKNQLQELAQRSCFNLPSYSCIREGPDHA-PRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVL 68 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li~eGP~Ha-p~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L 68 (575)
||+.|+|||++.++.++.|.....|+.|. +.|.+.|.|+|..++. |.|.+||+|++.||+.+|+.|
T Consensus 1 ~~~~L~e~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~i~~~~~~~-g~g~sKk~Ak~~AA~~al~~L 67 (67)
T PF00035_consen 1 PKSRLNEYCQKNKFPPPYYYIEEEGPSHHRPRFICTVYIDGKEYGE-GEGSSKKEAKQQAAKKALQKL 67 (67)
T ss_dssp HHHHHHHHHHHCTSSEEEEEEEEESSSSSSEEEEEEEEETTEEEEE-EEESSHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCCCEEEEEEeCCCCCCceEEEEEEECCEEEeE-eccCCHHHHHHHHHHHHHHhC
Confidence 69999999999998775555556666555 8999999999999976 578999999999999999876
No 20
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=99.07 E-value=3.2e-10 Score=110.18 Aligned_cols=68 Identities=28% Similarity=0.408 Sum_probs=59.9
Q ss_pred cHHHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhc
Q 041141 2 YKNQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKK 71 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~ 71 (575)
||+.||||||+.+..+ .|.+...|++|.+.|++.|.|+|..++. |.|.+||+|++.||+.||..|...
T Consensus 111 pKS~LQE~~Qk~~~~~-y~~i~~~Gp~H~p~F~v~V~I~g~~~g~-G~G~SKKeAEQ~AAk~AL~~L~~~ 178 (183)
T PHA03103 111 PCTVINEYCQITSRDW-SINITSSGPSHSPTFTASVIISGIKFKP-AIGSTKKEAKNNAAKLAMDKILNY 178 (183)
T ss_pred hhHHHHHHHHHhCCCe-EEEEEeeCCCCCceEEEEEEECCEEEEE-eeeCCHHHHHHHHHHHHHHHHHhc
Confidence 6799999999998775 4444478999999999999999999987 489999999999999999998653
No 21
>PRK12371 ribonuclease III; Reviewed
Probab=99.03 E-value=5.4e-10 Score=112.00 Aligned_cols=68 Identities=37% Similarity=0.424 Sum_probs=62.9
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHh
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSK 70 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k 70 (575)
||+.||||||+.+...|.|.++ ..||+|.+.|++.|.|+|..++. |.|.+||+|++.||+.||..+..
T Consensus 163 ~Ks~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~~-g~G~sKK~Ae~~AA~~al~~~~~ 231 (235)
T PRK12371 163 AKTELQEWAHAQFGVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPET-GEGRSKRAAEQVAAEKMLEREGV 231 (235)
T ss_pred HHHHHHHHHHhcCCCCCeEEEEEeecCCCCCeEEEEEEECCEEEEE-eeeCCHHHHHHHHHHHHHHHhhh
Confidence 7999999999988888999988 67999999999999999998876 48999999999999999998864
No 22
>PRK14718 ribonuclease III; Provisional
Probab=98.93 E-value=1.8e-09 Score=116.57 Aligned_cols=71 Identities=28% Similarity=0.364 Sum_probs=63.3
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcC
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKG 72 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ 72 (575)
||+.||||||++++.+|+|.++ ..|++|.+.|++.|+|+|..+...|.|.|||+|++.||+.+|..|....
T Consensus 153 yKS~LQE~~Qk~~~~~PeY~li~esGPdH~k~F~V~V~v~g~~~~G~G~G~SKKeAEQ~AAk~AL~kL~~~~ 224 (467)
T PRK14718 153 AKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDIKVSGSGASRRAAEQAAAKKALDEVTAVA 224 (467)
T ss_pred HHHHHHHHHHhcCCCCCeeEEeeeecCCCCCeEEEEEEECCeeeEEEEEcCCHHHHHHHHHHHHHHHhcccc
Confidence 7999999999999999999998 6899999999999999996543225899999999999999999998543
No 23
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=98.90 E-value=3.5e-09 Score=106.66 Aligned_cols=69 Identities=38% Similarity=0.511 Sum_probs=64.4
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhc
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKK 71 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~ 71 (575)
||+.||||||+.++.+|.|.++ .+|++|++.|++.|.++|..++. |.|.+||+|++.||+.+|..|...
T Consensus 163 ~Kt~LQe~~q~~~~~~p~Y~~v~~~g~~h~~~F~v~v~v~~~~~g~-G~G~skk~AEq~AA~~al~~l~~~ 232 (235)
T COG0571 163 PKTRLQELLQAQGLVLPEYRLVKEEGPAHDKEFTVEVAVGGKELGT-GKGRSKKEAEQAAAEQALKKLGVK 232 (235)
T ss_pred hhHHHHHHHHhcCCCCCeEEEeeccCCCCCceEEEEEEECCeeEEE-ecccCHHHHHHHHHHHHHHHhccc
Confidence 7999999999999999999998 66999999999999999988887 489999999999999999998754
No 24
>PRK12372 ribonuclease III; Reviewed
Probab=98.87 E-value=4.6e-09 Score=112.60 Aligned_cols=72 Identities=29% Similarity=0.382 Sum_probs=63.7
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCC
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGP 73 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~p 73 (575)
||+.||||||++++.+|+|.++ ..|++|.+.|++.|+|+|..+...|.|.+||+|++.||+.+|..|....+
T Consensus 153 ~KS~LQE~~Q~~~~~~P~Y~lv~e~Gp~h~~~F~V~V~v~g~~~~g~G~G~SKKeAEQ~AAr~AL~kL~~~~~ 225 (413)
T PRK12372 153 AKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDVKVSGSGASRRAAEQAAAKKALDEVMAAAP 225 (413)
T ss_pred HHHHHHHHHHhcCCCCCeeEEeeeecCCCCceEEEEEEECCeEEEEEEEeCCHHHHHHHHHHHHHHHHhcccc
Confidence 7999999999999999999988 78999999999999999864432358999999999999999999985443
No 25
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=98.86 E-value=6e-09 Score=88.82 Aligned_cols=67 Identities=31% Similarity=0.444 Sum_probs=58.8
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeee---------cccccccccHHHHHHHHHHHHHH
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFE---------SPTFCSTLRQAEHAAAEVALDVL 68 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fE---------AgG~G~SKKeAeq~AAk~AL~~L 68 (575)
.++.|+|+|+|++|+.|.|.+. ..||+|.+.|.++|.|.+..+. ......++|+|++.||+.+|..|
T Consensus 3 a~~~L~elC~k~~W~~P~y~l~~~~Gp~~~~~F~ykV~i~~~~~~~~~~~~~~~p~~~~~~~k~Ak~~AA~~~L~~L 79 (80)
T PF14709_consen 3 AVSLLNELCQKNKWGPPVYELVSESGPDHRKLFLYKVVIPGLEYPFEGSIECFGPTKPSSTKKEAKESAAQQALQAL 79 (80)
T ss_pred HHHHHHHHHHhcCCCCCeEEEEeccCCCccEEEEEEEEEcCCCCCCcceEEEccCCCcCccHHHHHHHHHHHHHHhc
Confidence 4789999999999999999997 7899999999999999987662 11346789999999999999887
No 26
>PRK00102 rnc ribonuclease III; Reviewed
Probab=98.73 E-value=2.9e-08 Score=97.36 Aligned_cols=68 Identities=40% Similarity=0.593 Sum_probs=62.3
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHh
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSK 70 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k 70 (575)
+|+.|+||||++++..|+|.++ ..|+.|.+.|++.|.++|..++. |.|.+||.|++.||+.||..|..
T Consensus 160 pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~i~~~~~~~-g~g~skk~Ae~~AA~~Al~~l~~ 228 (229)
T PRK00102 160 YKTRLQELLQGRGLPLPEYELVKEEGPAHDKEFTVEVTVNGKELGE-GTGSSKKEAEQAAAKQALKKLKE 228 (229)
T ss_pred HHHHHHHHHHHcCCCCCceEEeeccCCCCCceEEEEEEECCEEEEE-eeeCCHHHHHHHHHHHHHHHHhh
Confidence 6899999999999999999987 57999999999999999998887 48999999999999999998864
No 27
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=98.72 E-value=1.9e-08 Score=107.78 Aligned_cols=141 Identities=15% Similarity=0.126 Sum_probs=106.9
Q ss_pred HHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCChhhhhhcccccC
Q 041141 7 QELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPSKVLAARVLDETG 86 (575)
Q Consensus 7 QElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps~~~~~~i~de~~ 86 (575)
..||...| .++|.+......... .-+.+...++||++++|.+.|.+.+.+.+++-..+.....+... ...-.
T Consensus 356 akva~~lg--f~e~li~n~~~k~~~--~lk~K~~ADlfEAfiGaLyvD~~le~~~qf~~~l~~Prl~~fi~----nq~wn 427 (533)
T KOG1817|consen 356 AKVADDLG--FHEYLITNFDLKDFQ--NLKLKDYADLFEAFIGALYVDKGLEYCRQFLRVLFFPRLKEFIR----NQDWN 427 (533)
T ss_pred HHHHHHhC--CchhhhhCcchhhhh--hhhHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhHHHHHHHH----hhhcc
Confidence 35666644 457776532211100 11244556789999999999999999999988887765432211 12234
Q ss_pred chhhHHHHHHHHcCC------CCCeEEEe-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHHHh
Q 041141 87 VYKNLLQETSHRAGL------KLPVYTTV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSALKK 155 (575)
Q Consensus 87 nyKS~LQE~cQK~gl------~lP~Yev~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~ 155 (575)
|+|+.||.+|..... .+|.|.+. ..||.+.+.|++.|+++|+.++.|.|.|.|+|+..||+.||+.+..
T Consensus 428 dpkskLqq~cl~~rys~~~epdip~y~V~~~~gpa~~r~y~Vavyf~gkrlat~~G~nik~Ae~rAA~~ALe~~~~ 503 (533)
T KOG1817|consen 428 DPKSKLQQCCLTLRYSLGGEPDIPLYKVLGAKGPANDRNYKVAVYFKGKRLATGVGSNIKQAEMRAAMQALENLKM 503 (533)
T ss_pred CcHHHHHHHHHHHhcccCCCCCCceEEEecccCCCCCCceEEEEEECCEEEeeccCchHhHHHHHHHHHHHHHHHh
Confidence 799999999987753 47888888 7899999999999999999999999999999999999999999874
No 28
>TIGR02191 RNaseIII ribonuclease III, bacterial. This family consists of bacterial examples of ribonuclease III. This enzyme cleaves double-stranded rRNA. It is involved in processing ribosomal RNA precursors. It is found even in minimal genones such as Mycoplasma genitalium and Buchnera aphidicola, and in some cases has been shown to be an essential gene. These bacterial proteins contain a double-stranded RNA binding motif (pfam00035) and a ribonuclease III domain (pfam00636). Eukaryotic homologs tend to be much longer proteins with additional domains, localized to the nucleus, and not included in this family.
Probab=98.63 E-value=7.3e-08 Score=93.69 Aligned_cols=66 Identities=42% Similarity=0.611 Sum_probs=60.1
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHH
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVL 68 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L 68 (575)
+|+.|+||||++++..|.|.++ ..|+.|.+.|.+.|.++|+.++.+ .|.+||.|++.||+.|++.|
T Consensus 154 pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~~~~~~~~~g-~g~skk~A~~~AA~~Al~~l 220 (220)
T TIGR02191 154 YKTALQEWAQARGKPLPEYRLIKEEGPDHDKEFTVEVSVNGEPYGEG-KGKSKKEAEQNAAKAALEKL 220 (220)
T ss_pred hHHHHHHHHHHcCCCCceEEEecccCCCCCceEEEEEEECCEEEEEe-eeCCHHHHHHHHHHHHHHhC
Confidence 6899999999998888999988 568999999999999999998874 79999999999999999764
No 29
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=98.32 E-value=2.9e-06 Score=92.40 Aligned_cols=150 Identities=19% Similarity=0.184 Sum_probs=102.1
Q ss_pred CcHHHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCC-hh---
Q 041141 1 MYKNQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPS-KV--- 76 (575)
Q Consensus 1 myKS~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps-~~--- 76 (575)
|....|+||+|+.-..+|.|++.+.- ...-.|.+.|.+++..|++| .|.+||.|+..||+.+|..|...... .+
T Consensus 376 s~vCiLhEy~q~~lk~~pvyef~e~~-n~stpysa~v~~d~~~yGsG-~g~sKK~Ak~~AAR~tLeiLIPd~~~~~~n~~ 453 (650)
T KOG4334|consen 376 SKVCILHEYAQQCLKSLPVYEFAEND-NNSTPYSAGVLPDLFPYGSG-VGASKKTAKLVAARDTLEILIPDLRVSEDNVC 453 (650)
T ss_pred eeeehHHHHHHHHhhhcceeehhhcc-CCCCcccccccccccccccc-cccchHHHHHHHHHHHHHHhcchhhhcccccc
Confidence 45568999999988888999776432 34556999999999999985 89999999999999999998754210 00
Q ss_pred ---------------hhhhcccc------------cCchhhHHHHHHHHc-CCC-CC-eEEEeecCCCCCCeEEEEEEEC
Q 041141 77 ---------------LAARVLDE------------TGVYKNLLQETSHRA-GLK-LP-VYTTVRSGPGHGPVFSCTVELA 126 (575)
Q Consensus 77 ---------------~~~~i~de------------~~nyKS~LQE~cQK~-gl~-lP-~Yev~esGP~H~p~Ftv~V~V~ 126 (575)
+-+.+..+ ...+-+.|.++.+++ ||. +- .++++..| .....|++.|
T Consensus 454 d~k~~~~~k~q~~le~F~~I~Iedprv~e~ctk~~~psPy~iL~~cl~Rn~g~~d~~ik~E~i~~~-nqkse~im~~--- 529 (650)
T KOG4334|consen 454 DGKVEEDGKQQGFLELFKKIKIEDPRVVEMCTKCAIPSPYNILRDCLSRNLGWNDLVIKKEMIGNG-NQKSEVIMIL--- 529 (650)
T ss_pred cccccccccchhHHHHhhcccccCchHHHHhhhcCCCCHHHHHHHHHHhhcCCcceeeeeeccCCC-CccceeEeee---
Confidence 00011111 224566777777765 342 11 22222222 2334565554
Q ss_pred CEeeeecccCCHHHHHHHHHHHHHHHHHhh
Q 041141 127 GVSFTGEPAKTKKQAQKNAALAAWSALKKQ 156 (575)
Q Consensus 127 G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~ 156 (575)
|..-..|.+++|++++|.|.++.|++|.-.
T Consensus 530 Gkht~~~~cknkr~gkQlASQ~ilq~lHPh 559 (650)
T KOG4334|consen 530 GKHTEEAECKNKRQGKQLASQRILQKLHPH 559 (650)
T ss_pred ccceeeeeeechhHHHHHHHHHHHHHhCHH
Confidence 444456999999999999999999998654
No 30
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=97.71 E-value=6.3e-05 Score=78.32 Aligned_cols=73 Identities=23% Similarity=0.234 Sum_probs=66.7
Q ss_pred cCchhhHHHHHHHHcCCCCCeEEEe-ecCC-CCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHHHhhh
Q 041141 85 TGVYKNLLQETSHRAGLKLPVYTTV-RSGP-GHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSALKKQA 157 (575)
Q Consensus 85 ~~nyKS~LQE~cQK~gl~lP~Yev~-esGP-~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~~ 157 (575)
-.+|...|-++|+++++..|+|.+. ++|- ...+.|.|.++-|.+.+|.|.|.|-|.|++.||..||.+|....
T Consensus 231 l~~P~~~L~~lckr~~l~epe~Rll~esGr~S~~PvyvVgiYs~kkllGqG~Gesl~~A~e~AA~dAL~k~y~~t 305 (333)
T KOG3769|consen 231 LQWPRRLLSRLCKRRGLKEPESRLLAESGRNSAEPVYVVGIYSGKKLLGQGQGESLKLAEEQAARDALIKLYDHT 305 (333)
T ss_pred ccchHHHHHHHHHHcCCCCchhHHHHHhccCccCceEEEEeecCchhhccCcchHHHHHHHHHHHHHHHHHHcCC
Confidence 3589999999999999999999998 6664 46789999999999999999999999999999999999998775
No 31
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=97.43 E-value=0.00011 Score=80.41 Aligned_cols=69 Identities=20% Similarity=0.182 Sum_probs=59.4
Q ss_pred chhhHHHHHHHHcCCCCCeEEEeecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHHHhh
Q 041141 87 VYKNLLQETSHRAGLKLPVYTTVRSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSALKKQ 156 (575)
Q Consensus 87 nyKS~LQE~cQK~gl~lP~Yev~esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~ 156 (575)
...-.|.||+|+-...+|.|++.+.. ...--|.+.|.+++.+||.|.|.|||.||..||+++|+.|.-.
T Consensus 376 s~vCiLhEy~q~~lk~~pvyef~e~~-n~stpysa~v~~d~~~yGsG~g~sKK~Ak~~AAR~tLeiLIPd 444 (650)
T KOG4334|consen 376 SKVCILHEYAQQCLKSLPVYEFAEND-NNSTPYSAGVLPDLFPYGSGVGASKKTAKLVAARDTLEILIPD 444 (650)
T ss_pred eeeehHHHHHHHHhhhcceeehhhcc-CCCCcccccccccccccccccccchHHHHHHHHHHHHHHhcch
Confidence 34568999999999999999887432 3455799999999999999999999999999999999999543
No 32
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=97.40 E-value=0.00021 Score=83.01 Aligned_cols=156 Identities=19% Similarity=0.207 Sum_probs=124.3
Q ss_pred cHHHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCCC--hh---
Q 041141 2 YKNQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGPS--KV--- 76 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ps--~~--- 76 (575)
-|..|..||-|+.+. |.|++..+|.+...+|.|.|.+.+..+...+....||.|+.+|++...+.|...+.- .+
T Consensus 3 ~k~fly~~~~k~~~~-p~~d~~~~~~~~rqrf~ce~~~~~~~~~~~~~stnkKda~knac~dfv~ylvr~Gk~n~~d~p~ 81 (1282)
T KOG0921|consen 3 VKEFLYAWLGKNKYG-PTYDIRSEGRKGRQRFLCEVRVEGFGYTAVGNSTNKKDAATNAAQDFCQYLVREGKMQQSDIPT 81 (1282)
T ss_pred HHHHHHHHHhhhccC-cceehhhhcccchhheeeeeeccCCcceeeecccccchhhHHHHHHHHHHhhhhccccccCCcc
Confidence 378899999999887 899999889999999999999999888777788999999999999999988654210 00
Q ss_pred ------------------------------------h-----------------------hhh--------cc-------
Q 041141 77 ------------------------------------L-----------------------AAR--------VL------- 82 (575)
Q Consensus 77 ------------------------------------~-----------------------~~~--------i~------- 82 (575)
. +.+ ..
T Consensus 82 ~~s~s~~~~~~l~~~~~a~~~~~~~~g~~~q~~~qd~p~~~~p~~~d~~~~~~g~~~~~~~qkae~~~e~ea~d~~~~ih 161 (1282)
T KOG0921|consen 82 LTSSSLEASSTWQDSETATMFCGGEDGNSFQESQQPIPQKRFPWSNNAYQRNEGTHEQYITQKAEEIAESETVDLNAEIH 161 (1282)
T ss_pred cccccccCcccccccccccccccccccccCCCCCCCcccccccccccccccCCCCCchhHHHHhhhhhhhhhhccCcccc
Confidence 0 000 00
Q ss_pred --cccCchhhHHHHHHHHcCCCCCeEEEeecCCCCCCeEEEEEEEC-----CEeeeecccCCHHHHHHHHHHHHHHHHHh
Q 041141 83 --DETGVYKNLLQETSHRAGLKLPVYTTVRSGPGHGPVFSCTVELA-----GVSFTGEPAKTKKQAQKNAALAAWSALKK 155 (575)
Q Consensus 83 --de~~nyKS~LQE~cQK~gl~lP~Yev~esGP~H~p~Ftv~V~V~-----G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~ 155 (575)
+...|-|..|+++-|+..+ .-.|+....|++|.+.|+.+..+- -.....+.|.+||.|+...|...+..|.+
T Consensus 162 g~wt~eN~K~~ln~~~q~~~~-~~~y~~~~~g~~~~~s~~~e~si~v~~~~~~~~~~~~gsnkk~~~~~ca~s~vrqm~h 240 (1282)
T KOG0921|consen 162 GNWTMENAKKALNEYLQKMRI-QDNYKYTIVGPEHVRSFEAEASIYVPQLNRNLVAKETGSNKKVAEASCALSLVRQLFH 240 (1282)
T ss_pred CCCCcchhHHHHhHHHhhhhh-ccccceeecCCccccchhhhHHHhhhhhchhhhhhhccccceecCcchHHHHHHHHHH
Confidence 0135889999999999998 667888888999999999887664 22345688999999999999999888877
Q ss_pred hhcc
Q 041141 156 QAKS 159 (575)
Q Consensus 156 ~~~~ 159 (575)
+..-
T Consensus 241 l~~~ 244 (1282)
T KOG0921|consen 241 LNVM 244 (1282)
T ss_pred Hhhh
Confidence 6544
No 33
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=96.67 E-value=0.005 Score=67.28 Aligned_cols=69 Identities=30% Similarity=0.475 Sum_probs=60.3
Q ss_pred cHHHHHHHHHHcCCC------CCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhc
Q 041141 2 YKNQLQELAQRSCFN------LPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKK 71 (575)
Q Consensus 2 yKS~LQElcQK~gl~------LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~ 71 (575)
.|+.||.+|..+... +|.|.+. ..|+.+.+.|++.|+++|..++.+ .|.+.++|+..||+.||+.+...
T Consensus 429 pkskLqq~cl~~rys~~~epdip~y~V~~~~gpa~~r~y~Vavyf~gkrlat~-~G~nik~Ae~rAA~~ALe~~~~d 504 (533)
T KOG1817|consen 429 PKSKLQQCCLTLRYSLGGEPDIPLYKVLGAKGPANDRNYKVAVYFKGKRLATG-VGSNIKQAEMRAAMQALENLKMD 504 (533)
T ss_pred cHHHHHHHHHHHhcccCCCCCCceEEEecccCCCCCCceEEEEEECCEEEeec-cCchHhHHHHHHHHHHHHHHHhh
Confidence 589999999887543 6777777 689999999999999999998874 89999999999999999998863
No 34
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=96.61 E-value=0.0017 Score=73.92 Aligned_cols=133 Identities=22% Similarity=0.179 Sum_probs=93.1
Q ss_pred ceE------Ee-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhc----------C--C------
Q 041141 19 SYS------CI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKK----------G--P------ 73 (575)
Q Consensus 19 eY~------li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~----------~--p------ 73 (575)
+|. ++ ..||.|.++|+.++.+|+..+++ .|.++|.|+-.|+...|...... . +
T Consensus 387 QYk~kv~p~Lvv~t~P~~~~~~t~e~r~~~~~~~a--~gps~~~~~wh~~~k~lq~~~~p~ga~~r~~~~ge~~a~~p~~ 464 (816)
T KOG3792|consen 387 QYKQKVDPDLVVDTKPSHRPRRTMEVRVNGLPAEA--EGPSKKTAKWHAARKRLQNEGRPTGAAQRFGRMGEDPASMPEP 464 (816)
T ss_pred eeccccCCCceeccCCcccchhhhhhhhcCCcccc--CCcccccchHHHHHHHhhccCCCccccccccccCCCcccCCCC
Confidence 677 54 78999999999999999999996 59999999999999988776310 0 0
Q ss_pred ------Chh---hh-------------hhc----ccccCchhhHHHHHHHHcCCCCCeEEEe-ecC-CCCCCeEEEEEEE
Q 041141 74 ------SKV---LA-------------ARV----LDETGVYKNLLQETSHRAGLKLPVYTTV-RSG-PGHGPVFSCTVEL 125 (575)
Q Consensus 74 ------s~~---~~-------------~~i----~de~~nyKS~LQE~cQK~gl~lP~Yev~-esG-P~H~p~Ftv~V~V 125 (575)
+.+ .. .++ .+.+..-|....|++.++. --.|++. +.| -.|.++|...|.+
T Consensus 465 ~~r~~as~ddr~a~~~~a~~~Pt~~~l~nVqr~vs~~~~alK~vsd~L~Ek~r--g~k~El~set~~gs~~~R~v~gV~r 542 (816)
T KOG3792|consen 465 KGRRPASVDDRHANEKHAGIYPTEEELENVQRQVSHLERALKLVSDELAEKRR--GDKYELPSETGTGSHDKRFVKGVMR 542 (816)
T ss_pred CCcccCCCcchhhhccccccCccHHHHHHHHHhhhHHHHhhcchhHHHhhhcc--ccceecccccCCCCCCceeeeeeee
Confidence 000 00 000 0011122223333443332 2358877 665 7899999999999
Q ss_pred CCEeeeecccCCHHHHHHHHHHHHHHHHHhh
Q 041141 126 AGVSFTGEPAKTKKQAQKNAALAAWSALKKQ 156 (575)
Q Consensus 126 ~G~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~ 156 (575)
.|+.+ .|.+.+||-|+..||..|++.+..+
T Consensus 543 vG~~a-kG~~~~gd~a~~~a~Lca~~pt~~l 572 (816)
T KOG3792|consen 543 VGILA-KGLLLNGDRAVELALLCAEKPTSGL 572 (816)
T ss_pred eehhh-ccccccchHHHHHHHHhccCccccc
Confidence 99986 5999999999999999888776443
No 35
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=96.54 E-value=0.0056 Score=68.60 Aligned_cols=65 Identities=34% Similarity=0.442 Sum_probs=56.4
Q ss_pred cHHHHHHHHHHcCCCCCceEEe-ecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcCC
Q 041141 2 YKNQLQELAQRSCFNLPSYSCI-REGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKGP 73 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li-~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~p 73 (575)
+.+.|+|++. + +.|+++ ..|+.|.+.|.+.|.|||..|+. +|.+||+|++.||..+|+.|.....
T Consensus 92 pv~ll~e~~~--~---~~~~~~~~~~~~~~~~F~~~~~vdg~~~~~--~~~sKk~ak~~aa~~al~~l~~~~~ 157 (542)
T KOG2777|consen 92 PVSLLHELAN--G---LFFDFVNESGPQHAPKFVMSVVVDGRWFEG--GGRSKKEAKQEAAMAALQVLFKIDE 157 (542)
T ss_pred chHHHHHHhc--c---cceeeeccCCCCCCceEEEEEEECCEEccC--CCcchHHHHHHHHHHHHHHHHhccC
Confidence 3578999998 2 377877 78999999999999999999985 3999999999999999999987643
No 36
>PF03368 Dicer_dimer: Dicer dimerisation domain; InterPro: IPR005034 This domain is found in members of the Dicer protein family of dsRNA nucleases. This entry represents a dsRNA-binding domain. RNA interference (RNAi) is an ancient gene-silencing process that plays a fundamental role in diverse eukaryotic functions including viral defence, chromatin remodelling, genome rearrangement, developmental timing, brain morphogenesis, and stem cell maintenance. All RNAi pathways require the multidomain ribonuclease Dicer, which initiates RNAi by cleaving double-stranded RNA (dsRNA) substrates into small fragments ~25 nuleotides in length. A typical eukaryotic Dicer consists of a helicase domain (PDOC51192 from PROSITEDOC), a domain of unknown function, and a PAZ domain (PDOC50821 from PROSITEDOC) at the amino (N)-terminus as well as two ribonuclease III domains (PDOC00448 from PROSITEDOC) and a dsRNA-binding domain (dsRBD) (PDOC50137 from PROSITEDOC) at the carboxy (C)-terminus. The domain of unknown function of ~100 amino acids is predicted to adopt the canonical alpha-beta-beta-beta-alpha-fold found in all dsRBDs [, , , ].; GO: 0016891 endoribonuclease activity, producing 5'-phosphomonoesters; PDB: 2KOU_A.
Probab=96.34 E-value=0.015 Score=50.67 Aligned_cols=67 Identities=28% Similarity=0.362 Sum_probs=45.1
Q ss_pred hhHHHHHHHHcCC-----CCCeEEEeecCCCCCCeEEEEEEECCE----eeeecccCCHHHHHHHHHHHHHHHHHhhhcc
Q 041141 89 KNLLQETSHRAGL-----KLPVYTTVRSGPGHGPVFSCTVELAGV----SFTGEPAKTKKQAQKNAALAAWSALKKQAKS 159 (575)
Q Consensus 89 KS~LQE~cQK~gl-----~lP~Yev~esGP~H~p~Ftv~V~V~G~----~fg~G~G~SKKeAEQ~AAk~ALe~L~~~~~~ 159 (575)
++.|+.||++..- ..|.|.+...+. .|.|+|.+-.. .+.+..-.|||.||+.||-.|...|.+.+.-
T Consensus 2 i~lL~~yC~~Lp~d~~~~~~P~~~~~~~~~----~~~c~v~LP~~~pi~~i~g~~~~sk~~AK~sAAf~Ac~~L~~~g~l 77 (90)
T PF03368_consen 2 ISLLNRYCSTLPSDSFTNLKPEFEIEKIGS----GFICTVILPINSPIRSIEGPPMRSKKLAKRSAAFEACKKLHEAGEL 77 (90)
T ss_dssp HHHHHHHHTTSSS-TT--SS-EEEEEE--G-----EEEEEE--TT-SS--EEEE--SSHHHHHHHHHHHHHHHHHHH-S-
T ss_pred HHHHHHHHhcCCCCCCccCCceEEEEEcCC----cEEEEEECCCCCCCCeEEccccccHHHHHHHHHHHHHHHHHHcCCC
Confidence 5689999988642 468899885442 79999998532 2333467999999999999999999998754
No 37
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=94.55 E-value=0.048 Score=57.47 Aligned_cols=69 Identities=20% Similarity=0.239 Sum_probs=60.2
Q ss_pred HHHHHHHHHHcCCCCCceEEe-ecC-CCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhcC
Q 041141 3 KNQLQELAQRSCFNLPSYSCI-REG-PDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKKG 72 (575)
Q Consensus 3 KS~LQElcQK~gl~LPeY~li-~eG-P~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ 72 (575)
...|-++|+++|+.-|++.++ +.| ....+.|.+.++-+.+.++. |.|.+++.|++.||..+|..|...-
T Consensus 235 ~~~L~~lckr~~l~epe~Rll~esGr~S~~PvyvVgiYs~kkllGq-G~Gesl~~A~e~AA~dAL~k~y~~t 305 (333)
T KOG3769|consen 235 RRLLSRLCKRRGLKEPESRLLAESGRNSAEPVYVVGIYSGKKLLGQ-GQGESLKLAEEQAARDALIKLYDHT 305 (333)
T ss_pred HHHHHHHHHHcCCCCchhHHHHHhccCccCceEEEEeecCchhhcc-CcchHHHHHHHHHHHHHHHHHHcCC
Confidence 568999999999999999998 455 35678999999999888887 4899999999999999999988764
No 38
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=93.24 E-value=0.16 Score=60.32 Aligned_cols=72 Identities=25% Similarity=0.296 Sum_probs=63.4
Q ss_pred chhhHHHHHHHHcCCCCCeEEEeecCCCCCCeEEEEEEECCEeee-ecccCCHHHHHHHHHHHHHHHHHhhhcc
Q 041141 87 VYKNLLQETSHRAGLKLPVYTTVRSGPGHGPVFSCTVELAGVSFT-GEPAKTKKQAQKNAALAAWSALKKQAKS 159 (575)
Q Consensus 87 nyKS~LQE~cQK~gl~lP~Yev~esGP~H~p~Ftv~V~V~G~~fg-~G~G~SKKeAEQ~AAk~ALe~L~~~~~~ 159 (575)
|-|..|-.||-|+.+. |.|++..+|+.....|.|.|.+.+..+. .|...+||.|+++||+.-.+.|...++-
T Consensus 2 d~k~fly~~~~k~~~~-p~~d~~~~~~~~rqrf~ce~~~~~~~~~~~~~stnkKda~knac~dfv~ylvr~Gk~ 74 (1282)
T KOG0921|consen 2 DVKEFLYAWLGKNKYG-PTYDIRSEGRKGRQRFLCEVRVEGFGYTAVGNSTNKKDAATNAAQDFCQYLVREGKM 74 (1282)
T ss_pred cHHHHHHHHHhhhccC-cceehhhhcccchhheeeeeeccCCcceeeecccccchhhHHHHHHHHHHhhhhccc
Confidence 5688999999999987 9999998898999999999999988764 4777889999999999999999776554
No 39
>PF14954 LIX1: Limb expression 1
Probab=90.02 E-value=0.69 Score=47.13 Aligned_cols=67 Identities=31% Similarity=0.332 Sum_probs=46.9
Q ss_pred cCchhhHHHHHHHHc---CCCCCeEEEe--ecCCCCCCeEEEEEEECCEe-eee-cccCCHHHHHHHHHHHHHH
Q 041141 85 TGVYKNLLQETSHRA---GLKLPVYTTV--RSGPGHGPVFSCTVELAGVS-FTG-EPAKTKKQAQKNAALAAWS 151 (575)
Q Consensus 85 ~~nyKS~LQE~cQK~---gl~lP~Yev~--esGP~H~p~Ftv~V~V~G~~-fg~-G~G~SKKeAEQ~AAk~ALe 151 (575)
..|-+..||||=|.+ +..++.-.++ +..|...+-|.|-|++-|-. ||. -...||-+|++.||+.||-
T Consensus 20 ~vnvV~~LqeFWq~Kq~r~a~~~~~~lv~YEs~ps~~ppyVcyVTLPGGSCFGnfq~C~tkAEARR~AAKiALm 93 (252)
T PF14954_consen 20 DVNVVEALQEFWQMKQSRGADLKSEALVVYESVPSPSPPYVCYVTLPGGSCFGNFQNCPTKAEARRSAAKIALM 93 (252)
T ss_pred cchHHHHHHHHHHHHHhccccCCCCCeeeeeccCCCCCCeEEEEeCCCCCccCccccCCcHHHHHhhhHHHHHH
Confidence 457889999976543 3333322221 45566678899999996544 443 5689999999999999874
No 40
>KOG2334 consensus tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=83.96 E-value=0.34 Score=53.41 Aligned_cols=71 Identities=23% Similarity=0.267 Sum_probs=60.1
Q ss_pred CchhhHHHHHHHHcCCCCCeEEEeecCCCCCCeEEEEEEECCEeeeeccc-CCHHHHHHHHHHHHHHHHHhhhcc
Q 041141 86 GVYKNLLQETSHRAGLKLPVYTTVRSGPGHGPVFSCTVELAGVSFTGEPA-KTKKQAQKNAALAAWSALKKQAKS 159 (575)
Q Consensus 86 ~nyKS~LQE~cQK~gl~lP~Yev~esGP~H~p~Ftv~V~V~G~~fg~G~G-~SKKeAEQ~AAk~ALe~L~~~~~~ 159 (575)
..+|..|-+||-+.+..-|.|+++.. -++.|...+.++|..|..+.+ ++||.|+|.||..+|........+
T Consensus 375 ~~~k~~l~~~~~~~~~~~~~ye~~~~---~d~lf~si~~~~~~~~~ssi~~~n~k~aeq~aa~~~l~~s~l~e~~ 446 (477)
T KOG2334|consen 375 DTPKMVLADLCVKTKANGPVYETVQR---TDKLFSSIATARGQKYNSSIWSPNKKSAEQDAAIVALRKSNLWEAD 446 (477)
T ss_pred CCHHHHHHHhhhhhcCCCcchhhhhh---hhhhhHHHhhhhhhhhhccccCcchhhHHHHHHHHHHHhcCcchhh
Confidence 46899999999999999999999843 457899999999999987654 899999999999998877655433
No 41
>PF14954 LIX1: Limb expression 1
Probab=75.57 E-value=7 Score=40.13 Aligned_cols=71 Identities=28% Similarity=0.398 Sum_probs=48.8
Q ss_pred HHHHHHHHHc---CCCCCceEEe--ecCCCCCCceEEEEEE-CCeeeecccccccccHHHHHHHHHHH-HHHHhcCCC
Q 041141 4 NQLQELAQRS---CFNLPSYSCI--REGPDHAPRFKAAVNF-NGETFESPTFCSTLRQAEHAAAEVAL-DVLSKKGPS 74 (575)
Q Consensus 4 S~LQElcQK~---gl~LPeY~li--~eGP~Hap~Fta~VtI-nG~~fEAgG~G~SKKeAeq~AAk~AL-~~L~k~~ps 74 (575)
..||||=|.+ |..++.=.++ +..|...+.|.|-|++ +|--|+.+-.+.+|.+|...||++|| +.+..+.|+
T Consensus 25 ~~LqeFWq~Kq~r~a~~~~~~lv~YEs~ps~~ppyVcyVTLPGGSCFGnfq~C~tkAEARR~AAKiALmNSvfNEhPs 102 (252)
T PF14954_consen 25 EALQEFWQMKQSRGADLKSEALVVYESVPSPSPPYVCYVTLPGGSCFGNFQNCPTKAEARRSAAKIALMNSVFNEHPS 102 (252)
T ss_pred HHHHHHHHHHHhccccCCCCCeeeeeccCCCCCCeEEEEeCCCCCccCccccCCcHHHHHhhhHHHHHHHHHHhcCCc
Confidence 4677775543 3333322222 4556677789999998 46678888789999999999999997 445555554
No 42
>PF03368 Dicer_dimer: Dicer dimerisation domain; InterPro: IPR005034 This domain is found in members of the Dicer protein family of dsRNA nucleases. This entry represents a dsRNA-binding domain. RNA interference (RNAi) is an ancient gene-silencing process that plays a fundamental role in diverse eukaryotic functions including viral defence, chromatin remodelling, genome rearrangement, developmental timing, brain morphogenesis, and stem cell maintenance. All RNAi pathways require the multidomain ribonuclease Dicer, which initiates RNAi by cleaving double-stranded RNA (dsRNA) substrates into small fragments ~25 nuleotides in length. A typical eukaryotic Dicer consists of a helicase domain (PDOC51192 from PROSITEDOC), a domain of unknown function, and a PAZ domain (PDOC50821 from PROSITEDOC) at the amino (N)-terminus as well as two ribonuclease III domains (PDOC00448 from PROSITEDOC) and a dsRNA-binding domain (dsRBD) (PDOC50137 from PROSITEDOC) at the carboxy (C)-terminus. The domain of unknown function of ~100 amino acids is predicted to adopt the canonical alpha-beta-beta-beta-alpha-fold found in all dsRBDs [, , , ].; GO: 0016891 endoribonuclease activity, producing 5'-phosphomonoesters; PDB: 2KOU_A.
Probab=70.62 E-value=12 Score=32.73 Aligned_cols=65 Identities=18% Similarity=0.164 Sum_probs=42.1
Q ss_pred HHHHHHHHHHcCCC-----CCceEEeecCCCCCCceEEEEEECCe----eeecccccccccHHHHHHHHHHHHHHHhcC
Q 041141 3 KNQLQELAQRSCFN-----LPSYSCIREGPDHAPRFKAAVNFNGE----TFESPTFCSTLRQAEHAAAEVALDVLSKKG 72 (575)
Q Consensus 3 KS~LQElcQK~gl~-----LPeY~li~eGP~Hap~Fta~VtInG~----~fEAgG~G~SKKeAeq~AAk~AL~~L~k~~ 72 (575)
.+.|+.||++..-+ .|.|.+...+. .|.|+|.+=.. .++. ....+|+.|+..||-.|...|.+.+
T Consensus 2 i~lL~~yC~~Lp~d~~~~~~P~~~~~~~~~----~~~c~v~LP~~~pi~~i~g-~~~~sk~~AK~sAAf~Ac~~L~~~g 75 (90)
T PF03368_consen 2 ISLLNRYCSTLPSDSFTNLKPEFEIEKIGS----GFICTVILPINSPIRSIEG-PPMRSKKLAKRSAAFEACKKLHEAG 75 (90)
T ss_dssp HHHHHHHHTTSSS-TT--SS-EEEEEE--G-----EEEEEE--TT-SS--EEE-E--SSHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHhcCCCCCCccCCceEEEEEcCC----cEEEEEECCCCCCCCeEEc-cccccHHHHHHHHHHHHHHHHHHcC
Confidence 47899999986422 47888775443 79999887431 1332 2468999999999999999998765
No 43
>KOG2334 consensus tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=66.56 E-value=2.3 Score=47.15 Aligned_cols=67 Identities=24% Similarity=0.290 Sum_probs=58.4
Q ss_pred cHHHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhc
Q 041141 2 YKNQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKK 71 (575)
Q Consensus 2 yKS~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~ 71 (575)
.|..|..||-+.+..-|.|+++.. -++.|.+.+++.|..|.+..+-.++|.|++.||..+|......
T Consensus 377 ~k~~l~~~~~~~~~~~~~ye~~~~---~d~lf~si~~~~~~~~~ssi~~~n~k~aeq~aa~~~l~~s~l~ 443 (477)
T KOG2334|consen 377 PKMVLADLCVKTKANGPVYETVQR---TDKLFSSIATARGQKYNSSIWSPNKKSAEQDAAIVALRKSNLW 443 (477)
T ss_pred HHHHHHHhhhhhcCCCcchhhhhh---hhhhhHHHhhhhhhhhhccccCcchhhHHHHHHHHHHHhcCcc
Confidence 588999999999888899998753 4568999999999999998889999999999999999876643
No 44
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=53.17 E-value=7.3 Score=45.72 Aligned_cols=49 Identities=24% Similarity=0.279 Sum_probs=43.9
Q ss_pred CeEE------Ee-ecCCCCCCeEEEEEEECCEeeeecccCCHHHHHHHHHHHHHHHH
Q 041141 104 PVYT------TV-RSGPGHGPVFSCTVELAGVSFTGEPAKTKKQAQKNAALAAWSAL 153 (575)
Q Consensus 104 P~Ye------v~-esGP~H~p~Ftv~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe~L 153 (575)
..|+ ++ ..||.|.++|+++|.++|..+. ..|.+||.|+-.||++-|+..
T Consensus 386 LQYk~kv~p~Lvv~t~P~~~~~~t~e~r~~~~~~~-a~gps~~~~~wh~~~k~lq~~ 441 (816)
T KOG3792|consen 386 LQYKQKVDPDLVVDTKPSHRPRRTMEVRVNGLPAE-AEGPSKKTAKWHAARKRLQNE 441 (816)
T ss_pred ceeccccCCCceeccCCcccchhhhhhhhcCCccc-cCCcccccchHHHHHHHhhcc
Confidence 4677 55 8899999999999999999875 779999999999999998877
No 45
>PF14622 Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_A 2A11_A 3N3W_B.
Probab=52.72 E-value=0.81 Score=41.80 Aligned_cols=65 Identities=14% Similarity=0.096 Sum_probs=41.8
Q ss_pred HHHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHh
Q 041141 3 KNQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSK 70 (575)
Q Consensus 3 KS~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k 70 (575)
+..|.+++++.|+ ..|.....|..+. .....-+|-++.||+..+|.|++.|.+.|.+++.+.|.+
T Consensus 62 ~~~La~~a~~lgL--~~~i~~~~~~~~~-~~~~~~~vlad~feAliGAiyld~G~~~a~~~i~~~i~~ 126 (128)
T PF14622_consen 62 NETLAEIAKQLGL--DKLIRWGPGEEKS-GGSGSDKVLADVFEALIGAIYLDSGFEAARKFIQKLILP 126 (128)
T ss_dssp HHHHHHHHHHTTC--GGC-B--HHHHHT-TGGG-HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH--
T ss_pred hHHHHHHHHHCCH--HHHHHhCccHhhc-CCCCCccHHHhHHHHHHHHHHHHcCHHHHHHHHHHHhcc
Confidence 4678999999665 4666653321111 111123466788999999999999999999999988764
No 46
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=39.18 E-value=34 Score=43.91 Aligned_cols=73 Identities=19% Similarity=0.079 Sum_probs=55.5
Q ss_pred chhhHHHHHHHHcCCCCCeEEEe-ecCCCCCCeEE--------------EEEEECCEeeeecccCCHHHHHHHHHHHHHH
Q 041141 87 VYKNLLQETSHRAGLKLPVYTTV-RSGPGHGPVFS--------------CTVELAGVSFTGEPAKTKKQAQKNAALAAWS 151 (575)
Q Consensus 87 nyKS~LQE~cQK~gl~lP~Yev~-esGP~H~p~Ft--------------v~V~V~G~~fg~G~G~SKKeAEQ~AAk~ALe 151 (575)
..++.+.+.|....+++|-+..+ +.++.|..+|. .+|.+.+.....|.|...+.||..||+.|++
T Consensus 1515 ~dsg~~~~~~~~~~~a~p~~s~~~E~~~~h~~~~~~~~~~k~~d~~~~~~tv~~~~~~~~~~~g~~~~~aK~s~~k~A~~ 1594 (1606)
T KOG0701|consen 1515 LDSGNMMEPCIEKFWALPPRSPIRELLELHPERALFGKCEKVADAGKVRVTVDVFNKEVFAGEGRNYRIAKASAAKAALK 1594 (1606)
T ss_pred cCcccccchHhhcCcCCCCccchhhhccccceeeccchhhhhhhccceEEEEEecccchhhhcchhhhhhhhhHHHHHHH
Confidence 45678899999999999999988 66777766543 2333334444458899999999999999999
Q ss_pred HHHhhhcc
Q 041141 152 ALKKQAKS 159 (575)
Q Consensus 152 ~L~~~~~~ 159 (575)
.|......
T Consensus 1595 ll~~~~~~ 1602 (1606)
T KOG0701|consen 1595 LLKKLGLQ 1602 (1606)
T ss_pred HHHHhhhh
Confidence 99877544
No 47
>PF02169 LPP20: LPP20 lipoprotein; InterPro: IPR002217 A major antigen has been recognised in Helicobacter pylori, a protein with an apparent molecular weight of 20,000 and mass 18,283 kDa []. DNA sequence analysis revealed a 525 bp gene, encoding a 175-amino acid residue product with a typical 21-residue lipoprotein signal peptide and consensus prolipoprotein processing site []. Results of experimental work with Lpp20 are consistent with it being a nonessential lipoprotein []. Prokaryotic membrane lipoproteins are synthesised with precursor signal peptides that are cleaved by specific peptidases (signal peptidase II). The enzyme recognises a conserved sequence, cutting upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [].; GO: 0009279 cell outer membrane
Probab=35.87 E-value=45 Score=28.04 Aligned_cols=30 Identities=10% Similarity=0.100 Sum_probs=24.0
Q ss_pred eeeecccCCHHHHHHHHHHHHHHHHHhhhc
Q 041141 129 SFTGEPAKTKKQAQKNAALAAWSALKKQAK 158 (575)
Q Consensus 129 ~fg~G~G~SKKeAEQ~AAk~ALe~L~~~~~ 158 (575)
.++.|.|.+++.|+++|-..+.+.|...-.
T Consensus 14 l~a~G~~~~~~~A~~~A~~~la~~i~~~v~ 43 (92)
T PF02169_consen 14 LYAVGSGSSREQAKQDALANLAEQISVVVI 43 (92)
T ss_pred EEEEEcccChHHHHHHHHHHHHHheeEEEE
Confidence 467799999999999998888886665543
No 48
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.31 E-value=3.7e+02 Score=30.80 Aligned_cols=15 Identities=27% Similarity=0.166 Sum_probs=8.7
Q ss_pred hhccccceeecccCC
Q 041141 253 VFRQQENLLALSSLP 267 (575)
Q Consensus 253 ~~qqq~~~~~l~~~p 267 (575)
..||||-.+..|..+
T Consensus 413 ~pq~qNyppp~p~f~ 427 (483)
T KOG2236|consen 413 SPQQQNYPPPSPSFP 427 (483)
T ss_pred CcccCCCCCCCCCCC
Confidence 667777555554444
No 49
>TIGR03549 conserved hypothetical protein TIGR03549. This family consists of remarkably well-conserved proteins from gamma and beta Proteobacteria, heavily skewed towards organisms of marine environments. This family has an OsmC-like N-terminal domain. It shares a central domain, modeled by pfam02624 and TIGR00702, with other families of smaller proteins. The function is unknown. Fifteen of the first sixteen members of this family are from selenouridine-positive genomes, but this correlation may be fortuitous.
Probab=22.52 E-value=8.7e+02 Score=29.37 Aligned_cols=65 Identities=20% Similarity=0.103 Sum_probs=41.1
Q ss_pred hhhHHHHHHHHcCCCCCeEEEeecCCCCCCeE-EEEEEECC--EeeeecccCCHHHHHHHHHHHHHHHHHhh
Q 041141 88 YKNLLQETSHRAGLKLPVYTTVRSGPGHGPVF-SCTVELAG--VSFTGEPAKTKKQAQKNAALAAWSALKKQ 156 (575)
Q Consensus 88 yKS~LQE~cQK~gl~lP~Yev~esGP~H~p~F-tv~V~V~G--~~fg~G~G~SKKeAEQ~AAk~ALe~L~~~ 156 (575)
-+.++++.....|+.+- +.++-...+.| .+.+.=.. ..+.-|.|.||++|+-.|-....+.|...
T Consensus 161 TI~~~~~~L~~lg~~i~----~~s~~~~vp~~~Sv~~~d~~~~~~~tnGKGas~~~AlASAlgE~~ERls~n 228 (718)
T TIGR03549 161 TIANMTAILADLGMKIE----IASWRNIVPNVWSLHIRDAASPMCFTNGKGATKESALCSALGEFIERLNCN 228 (718)
T ss_pred HHHHHHHHHHHcCCCeE----EeeccCCCCcEEEEEecccCCCcccCCCCcCCHHHHHHHHHHHHHHHHhhh
Confidence 45677777777776542 23443334433 43333111 12456999999999999999999998443
No 50
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=22.41 E-value=2.5e+02 Score=21.38 Aligned_cols=19 Identities=37% Similarity=0.193 Sum_probs=13.7
Q ss_pred ecccCCHHHHHHHHHHHHH
Q 041141 132 GEPAKTKKQAQKNAALAAW 150 (575)
Q Consensus 132 ~G~G~SKKeAEQ~AAk~AL 150 (575)
..-..||++|+..+++...
T Consensus 21 k~GF~TkkeA~~~~~~~~~ 39 (46)
T PF14657_consen 21 KRGFKTKKEAEKALAKIEA 39 (46)
T ss_pred cCCCCcHHHHHHHHHHHHH
Confidence 3557899999997776433
No 51
>smart00535 RIBOc Ribonuclease III family.
Probab=21.31 E-value=17 Score=32.34 Aligned_cols=65 Identities=18% Similarity=0.190 Sum_probs=43.7
Q ss_pred HHHHHHHHHcCCCCCceEEeecCCCCCCceEEEEEECCeeeecccccccccHHHHHHHHHHHHHHHhc
Q 041141 4 NQLQELAQRSCFNLPSYSCIREGPDHAPRFKAAVNFNGETFESPTFCSTLRQAEHAAAEVALDVLSKK 71 (575)
Q Consensus 4 S~LQElcQK~gl~LPeY~li~eGP~Hap~Fta~VtInG~~fEAgG~G~SKKeAeq~AAk~AL~~L~k~ 71 (575)
..|.+++.+.|+ ..|.....+.... ......++-++.||+..++.+++.+.+.|.+++...+.+.
T Consensus 61 ~~la~~a~~~~l--~~~i~~~~~~~~~-~~~~~~k~~a~~~eAliGAi~ld~g~~~~~~~i~~~~~~~ 125 (129)
T smart00535 61 ETLARLAKKLGL--GEFIRLGRGEAIS-GGRDKPSILADVFEALIGAIYLDSGLEAAREFIRDLLGPR 125 (129)
T ss_pred HHHHHHHHHCCc--HHHHccCchHhhc-CCcccchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 568888988654 4555443221111 1122355667789999999999999999999888887643
No 52
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=20.68 E-value=80 Score=32.93 Aligned_cols=47 Identities=26% Similarity=0.196 Sum_probs=25.7
Q ss_pred ccCCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCCCCCCCCChhhHH-HHHHHHHhh
Q 041141 134 PAKTKKQAQKNAALAAWSALKKQAKSAFSSSSFSPPSSESGTNDEQDQ-AIIARYLAT 190 (575)
Q Consensus 134 ~G~SKKeAEQ~AAk~ALe~L~~~~~~~~sss~~~~~~~~~~~~~~qeq-~~~a~~l~~ 190 (575)
.|.+|++|+. .|++.|...+.......-+. .-+.- |-| +.|||+||=
T Consensus 106 ~~~~k~eA~~----~A~~lL~~VGL~~ka~~yP~-----qLSGG-QqQRVAIARALaM 153 (240)
T COG1126 106 KKLSKAEARE----KALELLEKVGLADKADAYPA-----QLSGG-QQQRVAIARALAM 153 (240)
T ss_pred cCCCHHHHHH----HHHHHHHHcCchhhhhhCcc-----ccCcH-HHHHHHHHHHHcC
Confidence 3555555554 56666766655544332111 11222 555 999999983
Done!