Query 018603
Match_columns 353
No_of_seqs 257 out of 1897
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 02:29:07 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018603.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018603hhsearch_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 1.6E-25 3.4E-30 216.1 19.4 148 42-193 38-214 (339)
2 PRK12371 ribonuclease III; Rev 99.7 9.6E-18 2.1E-22 157.8 7.7 144 45-191 87-232 (235)
3 COG0571 Rnc dsRNA-specific rib 99.7 1.2E-17 2.6E-22 156.9 7.7 148 42-192 82-233 (235)
4 PRK14718 ribonuclease III; Pro 99.7 1.6E-17 3.5E-22 166.6 8.4 147 42-191 72-223 (467)
5 PRK12372 ribonuclease III; Rev 99.7 1.4E-16 3E-21 158.9 8.3 146 42-190 72-222 (413)
6 cd00048 DSRM Double-stranded R 99.6 1.3E-15 2.9E-20 113.8 9.5 67 122-188 1-68 (68)
7 PHA02701 ORF020 dsRNA-binding 99.6 1E-15 2.3E-20 137.7 8.9 72 119-191 106-178 (183)
8 smart00358 DSRM Double-strande 99.6 3.4E-15 7.3E-20 111.8 8.8 66 123-189 1-67 (67)
9 PHA03103 double-strand RNA-bin 99.6 2.8E-15 6.2E-20 135.5 9.2 72 119-191 107-178 (183)
10 PF00035 dsrm: Double-stranded 99.6 4.3E-15 9.4E-20 111.7 8.3 66 123-188 1-67 (67)
11 PRK00102 rnc ribonuclease III; 99.6 5.2E-15 1.1E-19 137.4 7.1 143 45-190 82-228 (229)
12 TIGR02191 RNaseIII ribonucleas 99.5 1.4E-14 3E-19 133.5 7.1 141 45-188 76-220 (220)
13 PHA03103 double-strand RNA-bin 99.5 6.4E-14 1.4E-18 126.7 9.2 92 20-113 86-178 (183)
14 PRK12371 ribonuclease III; Rev 99.5 1.1E-13 2.4E-18 130.4 10.6 99 10-112 131-231 (235)
15 COG0571 Rnc dsRNA-specific rib 99.5 1.6E-13 3.5E-18 129.2 10.3 103 10-113 129-232 (235)
16 PRK14718 ribonuclease III; Pro 99.5 1.6E-13 3.5E-18 138.1 10.4 102 10-113 119-223 (467)
17 PHA02701 ORF020 dsRNA-binding 99.5 1.4E-13 3.1E-18 124.0 7.8 73 39-113 105-178 (183)
18 KOG2777 tRNA-specific adenosin 99.4 1.5E-13 3.1E-18 141.2 8.3 189 60-264 10-234 (542)
19 PRK12372 ribonuclease III; Rev 99.4 4.6E-13 9.9E-18 133.9 10.5 101 10-112 119-222 (413)
20 cd00048 DSRM Double-stranded R 99.4 1E-12 2.2E-17 98.0 8.4 67 43-110 1-68 (68)
21 PF14709 DND1_DSRM: double str 99.4 8.5E-13 1.8E-17 104.8 7.6 69 121-189 1-80 (80)
22 KOG3732 Staufen and related do 99.4 1E-12 2.2E-17 127.7 9.6 148 92-241 2-170 (339)
23 smart00358 DSRM Double-strande 99.4 1.9E-12 4.1E-17 96.8 7.9 66 44-111 1-67 (67)
24 PRK00102 rnc ribonuclease III; 99.4 2.6E-12 5.7E-17 119.3 10.4 102 10-112 126-228 (229)
25 PF00035 dsrm: Double-stranded 99.4 2.2E-12 4.7E-17 96.9 7.6 66 44-110 1-67 (67)
26 TIGR02191 RNaseIII ribonucleas 99.3 8.3E-12 1.8E-16 115.1 10.0 100 10-110 120-220 (220)
27 PF14709 DND1_DSRM: double str 99.2 5.4E-11 1.2E-15 94.5 7.4 70 42-111 1-80 (80)
28 KOG4334 Uncharacterized conser 99.1 1.1E-09 2.4E-14 110.6 11.5 169 19-193 346-561 (650)
29 KOG1817 Ribonuclease [RNA proc 98.7 1.5E-08 3.4E-13 101.4 6.7 141 47-191 354-504 (533)
30 KOG1817 Ribonuclease [RNA proc 98.2 3.6E-06 7.8E-11 84.7 8.7 103 10-113 395-504 (533)
31 KOG3769 Ribonuclease III domai 97.9 2.9E-05 6.2E-10 75.2 6.8 94 18-113 209-304 (333)
32 KOG3769 Ribonuclease III domai 97.9 3.4E-05 7.4E-10 74.7 7.3 83 119-201 230-315 (333)
33 KOG4334 Uncharacterized conser 97.9 9.4E-06 2E-10 82.7 3.5 71 120-191 374-444 (650)
34 KOG0921 Dosage compensation co 97.8 2.8E-05 6E-10 84.4 6.1 146 43-190 2-240 (1282)
35 KOG2777 tRNA-specific adenosin 97.7 6.1E-05 1.3E-09 78.4 7.1 68 40-114 88-156 (542)
36 KOG3792 Transcription factor N 97.2 0.00039 8.5E-09 73.8 5.2 140 42-191 370-572 (816)
37 PF03368 Dicer_dimer: Dicer di 96.4 0.014 3.1E-07 47.2 7.0 65 124-192 2-75 (90)
38 PF14954 LIX1: Limb expression 95.5 0.045 9.8E-07 51.2 7.0 77 119-195 19-103 (252)
39 KOG0921 Dosage compensation co 94.5 0.055 1.2E-06 59.7 5.6 69 122-191 2-71 (1282)
40 PF03368 Dicer_dimer: Dicer di 93.3 0.25 5.3E-06 39.9 5.9 67 45-116 2-77 (90)
41 KOG2334 tRNA-dihydrouridine sy 91.7 0.072 1.6E-06 54.4 1.0 71 119-192 373-444 (477)
42 PF14954 LIX1: Limb expression 87.8 1.9 4.2E-05 40.6 7.0 70 39-108 18-93 (252)
43 KOG2334 tRNA-dihydrouridine sy 86.7 0.28 6E-06 50.2 1.0 68 42-112 375-442 (477)
44 KOG3792 Transcription factor N 81.5 0.63 1.4E-05 50.3 1.0 64 123-189 372-442 (816)
45 cd04518 TBP_archaea archaeal T 74.0 52 0.0011 29.9 11.0 111 72-189 45-172 (174)
46 PF14600 CBM_5_12_2: Cellulose 70.8 3.2 6.8E-05 31.5 1.9 33 315-347 3-59 (62)
47 cd00652 TBP_TLF TATA box bindi 67.5 92 0.002 28.1 11.1 112 72-189 45-173 (174)
48 PRK00394 transcription factor; 64.6 93 0.002 28.3 10.6 114 72-190 44-174 (179)
49 PF01436 NHL: NHL repeat; Int 49.6 6 0.00013 24.8 0.2 18 329-346 2-19 (28)
50 PF08029 HisG_C: HisG, C-termi 47.0 17 0.00037 28.5 2.4 17 332-348 28-45 (75)
51 cd04517 TLF TBP-like factors ( 42.3 2.6E+02 0.0057 25.2 10.5 110 73-188 46-172 (174)
52 PF02169 LPP20: LPP20 lipoprot 39.2 44 0.00095 26.0 3.7 29 163-191 13-41 (92)
53 cd04516 TBP_eukaryotes eukaryo 38.6 3E+02 0.0065 24.9 10.4 111 72-188 45-171 (174)
54 PF14657 Integrase_AP2: AP2-li 33.5 1.5E+02 0.0032 20.5 5.3 19 170-189 24-42 (46)
55 PF09282 Mago-bind: Mago bindi 32.4 16 0.00036 23.3 0.2 21 305-325 5-25 (27)
56 PLN00062 TATA-box-binding prot 27.6 4.7E+02 0.01 23.8 10.0 113 72-190 45-173 (179)
57 PF12098 DUF3574: Protein of u 27.1 38 0.00083 28.4 1.6 16 330-345 34-49 (104)
58 PF10621 FpoO: F420H2 dehydrog 25.3 35 0.00076 29.0 1.0 23 312-334 3-32 (119)
59 cd04516 TBP_eukaryotes eukaryo 22.8 1.9E+02 0.0041 26.2 5.4 39 151-191 45-83 (174)
60 TIGR03455 HisG_C-term ATP phos 20.7 63 0.0014 26.6 1.7 16 333-348 53-69 (100)
61 COG1944 Uncharacterized conser 20.1 4.2E+02 0.0091 27.4 7.7 68 122-192 18-88 (398)
No 1
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=99.94 E-value=1.6e-25 Score=216.08 Aligned_cols=148 Identities=30% Similarity=0.350 Sum_probs=131.2
Q ss_pred CCHHHHHHHHHHHcCCCCCeeee-eecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccC-----
Q 018603 42 HLYKNQLQSYTQKKNLPLPMYSC-EREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKF----- 115 (353)
Q Consensus 42 ~npKS~LqE~~QK~gl~~P~Y~l-~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~----- 115 (353)
+.|++.|||||.++++. |.|++ .++||.|++.|+++|.++. ....|. |.+||.|++.||..+|..|.....
T Consensus 38 KS~IS~l~E~~~r~~~~-v~fevl~eeGp~H~~~fv~rvtvg~-~~a~Ge-G~sKK~AKh~AA~~~L~~lk~l~~l~~v~ 114 (339)
T KOG3732|consen 38 KSPISLLQEYGLRRGLT-PVYEVLREEGPPHMPNFVFRVTVGE-ITATGE-GKSKKLAKHRAAEALLKELKKLPPLANVR 114 (339)
T ss_pred CChHHHHHHHHHHhCCC-cceeeeeccCCccCCCeEEEEEEee-eEEecC-CCchhHHHHHHHHHHHHHHhcCCCccccc
Confidence 99999999999999987 68988 5799999999999999995 445677 599999999999999999986531
Q ss_pred -------C---------------CCcchhHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCEEeeecccCC
Q 018603 116 -------Q---------------QDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKS 172 (353)
Q Consensus 116 -------~---------------~d~~~n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~S 172 (353)
. .+...||+++|+||||+++|..|.|++ .+.|++|.++|+++|.+.+.. ..|.|.|
T Consensus 115 k~~~~~~~~~~~~~~~~q~~d~~~~~~~NPI~~L~e~~q~k~~k~P~yelv~E~G~~~~rEFv~q~sv~~~~-~~GkG~s 193 (339)
T KOG3732|consen 115 KDSLKFAKMKSSGVKKDQPGDPEYGQVLNPIGRLQELAQAKKWKLPEYELVQESGVPHRREFVIQCSVENFT-EEGKGPS 193 (339)
T ss_pred cCcccccccccCCccccCCCCcccccccChHHHHHHHHHHhCCCCCceEEEeccCCCccceEEEEEEeccee-eecCCch
Confidence 0 013789999999999999999999997 689999999999999998866 5799999
Q ss_pred HHHHHHHHHHHHHHHhhCCCC
Q 018603 173 KKQAEMSAAKVAYMRLKEPNP 193 (353)
Q Consensus 173 KK~AKq~AA~~AL~~L~~~~~ 193 (353)
||.||++||..||+.|....+
T Consensus 194 KKiAKRnAAeamLe~l~~~~~ 214 (339)
T KOG3732|consen 194 KKIAKRNAAEAMLESLGFVKP 214 (339)
T ss_pred HHHHHHHHHHHHHHHhccCCC
Confidence 999999999999999997654
No 2
>PRK12371 ribonuclease III; Reviewed
Probab=99.72 E-value=9.6e-18 Score=157.82 Aligned_cols=144 Identities=20% Similarity=0.112 Sum_probs=112.1
Q ss_pred HHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccCC-CCcchhH
Q 018603 45 KNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKFQ-QDDSVLY 123 (353)
Q Consensus 45 KS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~~-~d~~~n~ 123 (353)
...|.++|.+.|+. .|.....+..... -.....+-++.|++..||.+.+.+...|.+++...+.+.... .....||
T Consensus 87 n~~La~ia~~lgL~--~~i~~~~~~~~~~-~~~~~~ilad~~EAliGAiylD~G~~~a~~~i~~~~~~~~~~~~~~~~d~ 163 (235)
T PRK12371 87 AETCAAIADEIGLH--DLIRTGSDVKKLT-GKRLLNVRADVVEALIAAIYLDGGLEAARPFIQRYWQKRALETDAARRDA 163 (235)
T ss_pred hHHHHHHHHHCCcH--HHhccCcchhhcC-CcccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhccccccCCH
Confidence 46788999998865 5554222211100 001124568899999999999999887777777766654321 2346799
Q ss_pred HHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 124 KNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 124 ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
|+.||||||++++..|.|++ .+.||+|.+.|+|+|.|+|..++.|.|+|||+|+|.||+.||+.|...
T Consensus 164 Ks~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~~g~G~sKK~Ae~~AA~~al~~~~~~ 232 (235)
T PRK12371 164 KTELQEWAHAQFGVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPETGEGRSKRAAEQVAAEKMLEREGVW 232 (235)
T ss_pred HHHHHHHHHhcCCCCCeEEEEEeecCCCCCeEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHhhhh
Confidence 99999999999888899997 578999999999999999999999999999999999999999998653
No 3
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=99.71 E-value=1.2e-17 Score=156.95 Aligned_cols=148 Identities=25% Similarity=0.246 Sum_probs=122.0
Q ss_pred CCHHHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccC---CCC
Q 018603 42 HLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKF---QQD 118 (353)
Q Consensus 42 ~npKS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~---~~d 118 (353)
.--...|.++++..++. .|.....|+.+...|. +..|-++.|++..||.+.+.+...|-+++...+..... ...
T Consensus 82 lV~~~~La~ia~~l~l~--~~l~lg~ge~~~gg~~-~~silaD~~EAligAiylD~g~~~~~~~i~~l~~~~~~~~~~~~ 158 (235)
T COG0571 82 LVSEESLAEIARELGLG--DYLRLGKGEEKSGGRR-RESILADAFEALIGAIYLDSGLEAARKFILKLFLPRLEEIDAGD 158 (235)
T ss_pred HHHHHHHHHHHHHhCcc--chhhccCChhhcCCCC-chhHHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHhhccccc
Confidence 33456789999999855 6777777777666555 46778889999999999999966555556555555432 233
Q ss_pred cchhHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCCC
Q 018603 119 DSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN 192 (353)
Q Consensus 119 ~~~n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~~ 192 (353)
...|||++||||||+++...|.|.+ ...||+|++.|++.|.++|..++.|.|+|||+|+|.||+.||+.|....
T Consensus 159 ~~~D~Kt~LQe~~q~~~~~~p~Y~~v~~~g~~h~~~F~v~v~v~~~~~g~G~G~skk~AEq~AA~~al~~l~~~~ 233 (235)
T COG0571 159 QFKDPKTRLQELLQAQGLVLPEYRLVKEEGPAHDKEFTVEVAVGGKELGTGKGRSKKEAEQAAAEQALKKLGVKE 233 (235)
T ss_pred cccChhHHHHHHHHhcCCCCCeEEEeeccCCCCCceEEEEEEECCeeEEEecccCHHHHHHHHHHHHHHHhcccc
Confidence 4599999999999999999999997 5669999999999999999999999999999999999999999998754
No 4
>PRK14718 ribonuclease III; Provisional
Probab=99.71 E-value=1.6e-17 Score=166.63 Aligned_cols=147 Identities=21% Similarity=0.131 Sum_probs=114.1
Q ss_pred CCHHHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccC---CCC
Q 018603 42 HLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKF---QQD 118 (353)
Q Consensus 42 ~npKS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~---~~d 118 (353)
..-...|.++++++++. .|.+...|......+. +-.|.++.|++.+|+.+++.+.+.+.+++...|..... ...
T Consensus 72 LVSnetLA~IAr~LGL~--d~Lrlg~gE~~sgG~~-~~sILADvFEALIGAIYLDsG~e~a~~fI~~ll~p~i~~~d~~~ 148 (467)
T PRK14718 72 LVKQQSLYEIAQALNIS--DGLRLGEGELRSGGFR-RPSILADAFEAIIGAVFLDGGFEAAQGVIKRLYVPILDHIDPRT 148 (467)
T ss_pred HhhhHHHHHHHHHcCch--HHHhhCCcccccCCCC-ChhHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhhhcccc
Confidence 34456789999999876 4554433433222222 34677889999999999999988666665555543321 123
Q ss_pred cchhHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCE-EeeecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 119 DSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGE-VFSGQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 119 ~~~n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~-~~~~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
...|||+.||||||++++..|+|.+ .+.||.|.+.|++.|.|+|. .++.|.|.|||+|+|.||+.||+.|...
T Consensus 149 ~~kDyKS~LQE~~Qk~~~~~PeY~li~esGPdH~k~F~V~V~v~g~~~~G~G~G~SKKeAEQ~AAk~AL~kL~~~ 223 (467)
T PRK14718 149 LGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDIKVSGSGASRRAAEQAAAKKALDEVTAV 223 (467)
T ss_pred cccCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCCeEEEEEEECCeeeEEEEEcCCHHHHHHHHHHHHHHHhccc
Confidence 4679999999999999999999997 57899999999999999996 4578999999999999999999999843
No 5
>PRK12372 ribonuclease III; Reviewed
Probab=99.66 E-value=1.4e-16 Score=158.94 Aligned_cols=146 Identities=22% Similarity=0.135 Sum_probs=112.7
Q ss_pred CCHHHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccC---CCC
Q 018603 42 HLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKF---QQD 118 (353)
Q Consensus 42 ~npKS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~---~~d 118 (353)
..-...|.++|.++++. .|.+...|......|. +-.|.++.|++.+|+.+++.+.+.+..++...|..... ...
T Consensus 72 LVsn~tLA~IA~~LgL~--~~Lrlg~ge~~sgg~~-~~kILADvfEALIGAIYLDsG~e~a~~fV~~ll~p~l~~~~~~~ 148 (413)
T PRK12372 72 LVKQQSLYEIAQALNIS--EGLRLGEGELRSGGFR-RPSILADAFEAIIGAVFLDGGFEAAQGVIKRLYVPILDHIDPRT 148 (413)
T ss_pred HhhhHHHHHHHHHcCch--HhhhcCcchhhcCCCC-CccHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhhccccc
Confidence 44467889999999876 4544333332222232 34677889999999999999988655555555443221 122
Q ss_pred cchhHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCE-EeeecccCCHHHHHHHHHHHHHHHhhC
Q 018603 119 DSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGE-VFSGQGAKSKKQAEMSAAKVAYMRLKE 190 (353)
Q Consensus 119 ~~~n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~-~~~~G~G~SKK~AKq~AA~~AL~~L~~ 190 (353)
...|||+.||||||++++..|+|.+ .+.||.|.+.|++.|.|+|. .++.|.|.|||+|+|.||+.||+.|..
T Consensus 149 ~~~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 149 LGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDVKVSGSGASRRAAEQAAAKKALDEVMA 222 (413)
T ss_pred ccCCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCceEEEEEEECCeEEEEEEEeCCHHHHHHHHHHHHHHHHhc
Confidence 3679999999999999999999997 67899999999999999985 457899999999999999999999985
No 6
>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=99.64 E-value=1.3e-15 Score=113.75 Aligned_cols=67 Identities=42% Similarity=0.586 Sum_probs=63.1
Q ss_pred hHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHh
Q 018603 122 LYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 188 (353)
Q Consensus 122 n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L 188 (353)
|||+.|+||||++++..|.|++ ...|+.|.+.|+|.|.|+|..++.|.|.|||+||+.||+.||+.|
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 7999999999999998999998 678999999999999999988889999999999999999999876
No 7
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=99.62 E-value=1e-15 Score=137.75 Aligned_cols=72 Identities=24% Similarity=0.317 Sum_probs=66.8
Q ss_pred cchhHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 119 DSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 119 ~~~n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
...|||+.||||||+++... .|.+ .+.||+|.+.|++.|.|+|..++.|.|+|||+|||+||+.||..|...
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 46899999999999999887 8986 678999999999999999999999999999999999999999999654
No 8
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=99.61 E-value=3.4e-15 Score=111.79 Aligned_cols=66 Identities=45% Similarity=0.579 Sum_probs=61.4
Q ss_pred HHHHHHHHHHHhcCCCCceEEe-ccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhh
Q 018603 123 YKNVLQELAQKEAYALPVYNTK-QSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 189 (353)
Q Consensus 123 ~ks~LqE~~qk~~~~~P~Y~~~-~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~ 189 (353)
||+.|+||||++++ .|.|++. ..|+.|.+.|+|.|.|+|+.++.|.|.|||+||+.||+.||+.|.
T Consensus 1 p~~~L~e~~~~~~~-~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~sKk~Ak~~AA~~al~~L~ 67 (67)
T smart00358 1 PKSLLQELAQKRGL-PPEYELVKEEGPDHAPRFTVTVKVGGEYTGEGEGSSKKEAKQRAAEAALRSLK 67 (67)
T ss_pred CchHHHHHHHHCCC-CCEEEEEeeeCCCCCCcEEEEEEECCEEEEEeccCCHHHHHHHHHHHHHHhcC
Confidence 68999999999999 7899984 589999999999999999988899999999999999999999873
No 9
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=99.60 E-value=2.8e-15 Score=135.49 Aligned_cols=72 Identities=29% Similarity=0.324 Sum_probs=65.2
Q ss_pred cchhHHHHHHHHHHHhcCCCCceEEeccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 119 DSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 119 ~~~n~ks~LqE~~qk~~~~~P~Y~~~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
...|||++||||||+++... .|.+...||+|.++|++.|.|+|+.++.|.|+|||+|||+||+.||..|...
T Consensus 107 K~kNpKS~LQE~~Qk~~~~~-y~~i~~~Gp~H~p~F~v~V~I~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~~~ 178 (183)
T PHA03103 107 KDKNPCTVINEYCQITSRDW-SINITSSGPSHSPTFTASVIISGIKFKPAIGSTKKEAKNNAAKLAMDKILNY 178 (183)
T ss_pred ccCChhHHHHHHHHHhCCCe-EEEEEeeCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHHHhc
Confidence 35799999999999999875 5556789999999999999999999999999999999999999999998653
No 10
>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=99.59 E-value=4.3e-15 Score=111.69 Aligned_cols=66 Identities=36% Similarity=0.542 Sum_probs=59.2
Q ss_pred HHHHHHHHHHHhcCCCCceEEeccCCCCC-CeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHh
Q 018603 123 YKNVLQELAQKEAYALPVYNTKQSGESHA-PTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 188 (353)
Q Consensus 123 ~ks~LqE~~qk~~~~~P~Y~~~~~Gp~H~-~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L 188 (353)
||+.|+|||+++++.+|.|.+...+++|. ++|.|+|.|+|..++.|.|+|||+||+.||+.||+.|
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 79999999999999876666666666655 8999999999999999999999999999999999987
No 11
>PRK00102 rnc ribonuclease III; Reviewed
Probab=99.56 E-value=5.2e-15 Score=137.44 Aligned_cols=143 Identities=28% Similarity=0.283 Sum_probs=108.0
Q ss_pred HHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccC---CCCcch
Q 018603 45 KNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKF---QQDDSV 121 (353)
Q Consensus 45 KS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~---~~d~~~ 121 (353)
...|..++.+.++. .|.....+..... ......+-++.|++..||.+.+.+...|.+++...+.+... ......
T Consensus 82 n~~la~~a~~lgl~--~~i~~~~~~~~~~-~~~~~k~~ad~~EA~iGAiyld~g~~~~~~~i~~~~~~~l~~~~~~~~~~ 158 (229)
T PRK00102 82 EESLAEIARELGLG--EYLLLGKGEEKSG-GRRRPSILADAFEALIGAIYLDQGLEAARKFILRLFEPRIEEIDLGDLVK 158 (229)
T ss_pred HHHHHHHHHHCCcH--HHHccCcHHHHcC-CCCCccHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhccccccC
Confidence 46788999998865 4443222111000 01123456778999999999998877555555444443321 124578
Q ss_pred hHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhC
Q 018603 122 LYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKE 190 (353)
Q Consensus 122 n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~ 190 (353)
|||+.|+||||++++..|.|.+ ...|+.|.+.|+|+|.++|..++.|.|.|||+||+.||+.||+.|+.
T Consensus 159 ~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~skk~Ae~~AA~~Al~~l~~ 228 (229)
T PRK00102 159 DYKTRLQELLQGRGLPLPEYELVKEEGPAHDKEFTVEVTVNGKELGEGTGSSKKEAEQAAAKQALKKLKE 228 (229)
T ss_pred CHHHHHHHHHHHcCCCCCceEEeeccCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999997 67899999999999999999999999999999999999999999864
No 12
>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=99.53 E-value=1.4e-14 Score=133.52 Aligned_cols=141 Identities=28% Similarity=0.295 Sum_probs=106.4
Q ss_pred HHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccC---CCCcch
Q 018603 45 KNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKF---QQDDSV 121 (353)
Q Consensus 45 KS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~---~~d~~~ 121 (353)
...|..++.+.++. .|.....+..... ....-.+-++.|++..||.+.+.+.+.|.+++...+.+... ......
T Consensus 76 n~~la~~a~~~gl~--~~i~~~~~~~~~~-~~~~~k~~ad~~eAliGAiyld~g~~~~~~~i~~~~~~~~~~~~~~~~~~ 152 (220)
T TIGR02191 76 EESLAEVARELGLG--KFLLLGKGEEKSG-GRRRESILADAFEALIGAIYLDSGLEAARKFILKLLIPRIDAIEKEETLK 152 (220)
T ss_pred HHHHHHHHHHCCcH--HHhccCchHhhcC-CcccchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhcccccC
Confidence 56788999998864 4443221111110 01113456778999999999999977665555555444321 233678
Q ss_pred hHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHh
Q 018603 122 LYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 188 (353)
Q Consensus 122 n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L 188 (353)
|||+.|+||||++++..|.|++ ...|++|.+.|.|.|.++|..++.|.|.|||+||+.||+.||+.|
T Consensus 153 ~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~~~~~~~~~g~g~skk~A~~~AA~~Al~~l 220 (220)
T TIGR02191 153 DYKTALQEWAQARGKPLPEYRLIKEEGPDHDKEFTVEVSVNGEPYGEGKGKSKKEAEQNAAKAALEKL 220 (220)
T ss_pred ChHHHHHHHHHHcCCCCceEEEecccCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHhC
Confidence 9999999999999998899997 467999999999999999999999999999999999999999875
No 13
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=99.50 E-value=6.4e-14 Score=126.72 Aligned_cols=92 Identities=22% Similarity=0.203 Sum_probs=78.2
Q ss_pred HHHHHHHhhhcccccccc-cccCCCHHHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchh
Q 018603 20 RTTQVNATISTVNDVHKS-RDMQHLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEA 98 (353)
Q Consensus 20 ~~~~v~~li~~~~~~~~l-~~~~~npKS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~A 98 (353)
..-+++++|.+.+....+ +-..+|||+.||||||+.+... .|.+...||.|.+.|++.|.|+|..++.|. |.|||+|
T Consensus 86 ~~~~~~~l~~~~i~~~k~~d~K~kNpKS~LQE~~Qk~~~~~-y~~i~~~Gp~H~p~F~v~V~I~g~~~g~G~-G~SKKeA 163 (183)
T PHA03103 86 SMREDNKSFSDTIPYKKIISWKDKNPCTVINEYCQITSRDW-SINITSSGPSHSPTFTASVIISGIKFKPAI-GSTKKEA 163 (183)
T ss_pred hHHHHHHHhhhhcchhhhhccccCChhHHHHHHHHHhCCCe-EEEEEeeCCCCCceEEEEEEECCEEEEEee-eCCHHHH
Confidence 455678888887765443 4567899999999999999874 555567899999999999999999999998 5999999
Q ss_pred HHHHHHHHHHHhhcc
Q 018603 99 EHEAAKVALMSLSLD 113 (353)
Q Consensus 99 kq~AAk~AL~~L~~~ 113 (353)
||.||+.||..|...
T Consensus 164 EQ~AAk~AL~~L~~~ 178 (183)
T PHA03103 164 KNNAAKLAMDKILNY 178 (183)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999999999764
No 14
>PRK12371 ribonuclease III; Reviewed
Probab=99.49 E-value=1.1e-13 Score=130.35 Aligned_cols=99 Identities=22% Similarity=0.262 Sum_probs=80.7
Q ss_pred hhhhcc-hhhHHHHHHHHhhhcccccccccccCCCHHHHHHHHHHHcCCCCCeeee-eecCCCCCccEEEEEEEccEeee
Q 018603 10 AVQVNA-RETDRTTQVNATISTVNDVHKSRDMQHLYKNQLQSYTQKKNLPLPMYSC-EREGPPHASRFKCKVTIDGQTYE 87 (353)
Q Consensus 10 ~~~~~~-~e~~~~~~v~~li~~~~~~~~l~~~~~npKS~LqE~~QK~gl~~P~Y~l-~~~Gp~h~~~F~~~V~I~g~~~~ 87 (353)
|+|+++ .+.+..|+ .+++.++++... ....|||+.||||||+.+...|.|.+ .+.||.|.+.|++.|+++|..++
T Consensus 131 AiylD~G~~~a~~~i-~~~~~~~~~~~~--~~~~d~Ks~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~ 207 (235)
T PRK12371 131 AIYLDGGLEAARPFI-QRYWQKRALETD--AARRDAKTELQEWAHAQFGVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPE 207 (235)
T ss_pred HHHHcCCHHHHHHHH-HHHHHHHHhccc--cccCCHHHHHHHHHHhcCCCCCeEEEEEeecCCCCCeEEEEEEECCEEEE
Confidence 677765 56666655 455555554322 24579999999999999888899998 47899999999999999999999
Q ss_pred cccccCCcchhHHHHHHHHHHHhhc
Q 018603 88 SHQFFPTLKEAEHEAAKVALMSLSL 112 (353)
Q Consensus 88 ag~Gg~SKK~Akq~AAk~AL~~L~~ 112 (353)
.|. |.|||+|++.||+.||+.|..
T Consensus 208 ~g~-G~sKK~Ae~~AA~~al~~~~~ 231 (235)
T PRK12371 208 TGE-GRSKRAAEQVAAEKMLEREGV 231 (235)
T ss_pred Eee-eCCHHHHHHHHHHHHHHHhhh
Confidence 898 599999999999999998754
No 15
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=99.48 E-value=1.6e-13 Score=129.17 Aligned_cols=103 Identities=25% Similarity=0.297 Sum_probs=90.3
Q ss_pred hhhhcchhhHHHHHHHHhhhcccccccccccCCCHHHHHHHHHHHcCCCCCeeeee-ecCCCCCccEEEEEEEccEeeec
Q 018603 10 AVQVNARETDRTTQVNATISTVNDVHKSRDMQHLYKNQLQSYTQKKNLPLPMYSCE-REGPPHASRFKCKVTIDGQTYES 88 (353)
Q Consensus 10 ~~~~~~~e~~~~~~v~~li~~~~~~~~l~~~~~npKS~LqE~~QK~gl~~P~Y~l~-~~Gp~h~~~F~~~V~I~g~~~~a 88 (353)
|+|++.-..+...++.+++.+.++........+|||+.||||||..++.+|.|.+. ..||+|++.|++.|.++|..++.
T Consensus 129 AiylD~g~~~~~~~i~~l~~~~~~~~~~~~~~~D~Kt~LQe~~q~~~~~~p~Y~~v~~~g~~h~~~F~v~v~v~~~~~g~ 208 (235)
T COG0571 129 AIYLDSGLEAARKFILKLFLPRLEEIDAGDQFKDPKTRLQELLQAQGLVLPEYRLVKEEGPAHDKEFTVEVAVGGKELGT 208 (235)
T ss_pred HHHHhCChHHHHHHHHHHHHHHHhhccccccccChhHHHHHHHHhcCCCCCeEEEeeccCCCCCceEEEEEEECCeeEEE
Confidence 78888886777777888888888755554556999999999999999999999984 66999999999999999999999
Q ss_pred ccccCCcchhHHHHHHHHHHHhhcc
Q 018603 89 HQFFPTLKEAEHEAAKVALMSLSLD 113 (353)
Q Consensus 89 g~Gg~SKK~Akq~AAk~AL~~L~~~ 113 (353)
|. |.|||+|+|.||+.||..|...
T Consensus 209 G~-G~skk~AEq~AA~~al~~l~~~ 232 (235)
T COG0571 209 GK-GRSKKEAEQAAAEQALKKLGVK 232 (235)
T ss_pred ec-ccCHHHHHHHHHHHHHHHhccc
Confidence 98 5999999999999999988753
No 16
>PRK14718 ribonuclease III; Provisional
Probab=99.47 E-value=1.6e-13 Score=138.05 Aligned_cols=102 Identities=25% Similarity=0.292 Sum_probs=83.7
Q ss_pred hhhhcc-hhhHHHHHHHHhhhcccccccccccCCCHHHHHHHHHHHcCCCCCeeee-eecCCCCCccEEEEEEEccEe-e
Q 018603 10 AVQVNA-RETDRTTQVNATISTVNDVHKSRDMQHLYKNQLQSYTQKKNLPLPMYSC-EREGPPHASRFKCKVTIDGQT-Y 86 (353)
Q Consensus 10 ~~~~~~-~e~~~~~~v~~li~~~~~~~~l~~~~~npKS~LqE~~QK~gl~~P~Y~l-~~~Gp~h~~~F~~~V~I~g~~-~ 86 (353)
|+|+++ ++.+.. ++.++|.++++........+|||+.||||||++++.+|.|.+ .+.||.|.+.|++.|+|+|.. +
T Consensus 119 AIYLDsG~e~a~~-fI~~ll~p~i~~~d~~~~~kDyKS~LQE~~Qk~~~~~PeY~li~esGPdH~k~F~V~V~v~g~~~~ 197 (467)
T PRK14718 119 AVFLDGGFEAAQG-VIKRLYVPILDHIDPRTLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDIK 197 (467)
T ss_pred HHHHccCHHHHHH-HHHHHHHHHHhhhcccccccCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCCeEEEEEEECCeeeE
Confidence 778775 555555 556777777765444345789999999999999999999998 478999999999999999854 4
Q ss_pred ecccccCCcchhHHHHHHHHHHHhhcc
Q 018603 87 ESHQFFPTLKEAEHEAAKVALMSLSLD 113 (353)
Q Consensus 87 ~ag~Gg~SKK~Akq~AAk~AL~~L~~~ 113 (353)
+.|. |.|||+|+|.||+.||+.|...
T Consensus 198 G~G~-G~SKKeAEQ~AAk~AL~kL~~~ 223 (467)
T PRK14718 198 VSGS-GASRRAAEQAAAKKALDEVTAV 223 (467)
T ss_pred EEEE-cCCHHHHHHHHHHHHHHHhccc
Confidence 6787 5999999999999999999743
No 17
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=99.45 E-value=1.4e-13 Score=123.98 Aligned_cols=73 Identities=19% Similarity=0.244 Sum_probs=66.4
Q ss_pred ccCCCHHHHHHHHHHHcCCCCCeeee-eecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcc
Q 018603 39 DMQHLYKNQLQSYTQKKNLPLPMYSC-EREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLD 113 (353)
Q Consensus 39 ~~~~npKS~LqE~~QK~gl~~P~Y~l-~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~ 113 (353)
....|||+.||||||+.+..+ .|.+ ...||.|.+.|++.|.|+|..++.|. |.|||+|||+||+.||..|...
T Consensus 105 ~k~~DpKS~LQE~~Q~~~~~l-~Y~li~~~GpdH~~~Ftv~V~V~g~~~g~G~-G~SKKeAEQ~AAk~AL~~L~~~ 178 (183)
T PHA02701 105 LKTLNPVSAVNEFCMRTHRPL-EFCETRSGGHDHCPLFTCTIVVSGKVVATAS-GCSKKLARHAACADALTILINN 178 (183)
T ss_pred CCCCCccHHHHHHHHhcCCCC-eEEEEEeECCCCCceEEEEEEECCEEEEEEE-eCCHHHHHHHHHHHHHHHHHhh
Confidence 456899999999999999887 7977 56799999999999999999999998 5999999999999999998764
No 18
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=99.45 E-value=1.5e-13 Score=141.22 Aligned_cols=189 Identities=25% Similarity=0.272 Sum_probs=139.3
Q ss_pred Ceeee-eecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccC---------------C-------
Q 018603 60 PMYSC-EREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKF---------------Q------- 116 (353)
Q Consensus 60 P~Y~l-~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~---------------~------- 116 (353)
+.|.. .+.||.|.+.|...|.|+|..+. ||.|+..||+.+++.+..... .
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 45665 58899999999999999997765 899999999999998875421 0
Q ss_pred ---CCcchhHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCCC
Q 018603 117 ---QDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN 192 (353)
Q Consensus 117 ---~d~~~n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~~ 192 (353)
.....||++.|+|+++ -+.|.. .+.||.|.+.|.|.|.|||++|..| |.|||+||++||+.||+.|....
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 1137899999999998 468886 7899999999999999999999878 99999999999999999998765
Q ss_pred CCCC----CCccCCCccccccccccc--cccccccccccccCCCceeeeCCCCCchh-hHHHhh--hccccccccccccC
Q 018603 193 PSQG----PALVSPDIQAQADYSSSS--LQSNVTADLHHNIQTAGRLVFNPNSMPKV-QAEEIR--ELTTVNTEVAGYDL 263 (353)
Q Consensus 193 ~~~~----~~~~~~~~~~~~~~~~~~--~~~~l~~~~q~~~~~~~~~~~~~~~~~~~-~~e~~~--~~~~~~~~v~~~~~ 263 (353)
.... .........+.+.|+..- .|..|+.+.+--.....+| .-++... +.|+.+ .++|++-||.|+-+
T Consensus 157 ~~~~~~~~~~~~e~~~~~~~~Ia~lv~~kF~~L~k~~kp~~~~~tvL---Agvv~~~~~~~~~~VVslgTGtKcv~g~~l 233 (542)
T KOG2777|consen 157 ENPERPSEALTLENPSTLGDEIAELVLEKFDELTKNGKPIPREWTVL---AGVVMTKRDGEDKKVVSLGTGTKCVSGDKL 233 (542)
T ss_pred CCcccccccccccCCChHHHHHHHHHHHHHHHHHhcCCCccchhhhh---hhhhhcccccccceEEEeeccCcccCccee
Confidence 4322 233444455556665433 4566666555444333333 2223333 445555 78888888886655
Q ss_pred c
Q 018603 264 S 264 (353)
Q Consensus 264 ~ 264 (353)
+
T Consensus 234 s 234 (542)
T KOG2777|consen 234 S 234 (542)
T ss_pred C
Confidence 3
No 19
>PRK12372 ribonuclease III; Reviewed
Probab=99.43 E-value=4.6e-13 Score=133.92 Aligned_cols=101 Identities=25% Similarity=0.295 Sum_probs=83.1
Q ss_pred hhhhcc-hhhHHHHHHHHhhhcccccccccccCCCHHHHHHHHHHHcCCCCCeeee-eecCCCCCccEEEEEEEccE-ee
Q 018603 10 AVQVNA-RETDRTTQVNATISTVNDVHKSRDMQHLYKNQLQSYTQKKNLPLPMYSC-EREGPPHASRFKCKVTIDGQ-TY 86 (353)
Q Consensus 10 ~~~~~~-~e~~~~~~v~~li~~~~~~~~l~~~~~npKS~LqE~~QK~gl~~P~Y~l-~~~Gp~h~~~F~~~V~I~g~-~~ 86 (353)
|+|+++ .+.+. .++.++|.++++........+|||+.||||||++++..|.|.+ ...|+.|.+.|++.|+|+|. .+
T Consensus 119 AIYLDsG~e~a~-~fV~~ll~p~l~~~~~~~~~~D~KS~LQE~~Q~~~~~~P~Y~lv~e~Gp~h~~~F~V~V~v~g~~~~ 197 (413)
T PRK12372 119 AVFLDGGFEAAQ-GVIKRLYVPILDHIDPRTLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDVK 197 (413)
T ss_pred HHHHhCCHHHHH-HHHHHHHHHHHhhcccccccCCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCceEEEEEEECCeEEE
Confidence 677775 45555 4566777777765443345789999999999999999999998 57899999999999999985 44
Q ss_pred ecccccCCcchhHHHHHHHHHHHhhc
Q 018603 87 ESHQFFPTLKEAEHEAAKVALMSLSL 112 (353)
Q Consensus 87 ~ag~Gg~SKK~Akq~AAk~AL~~L~~ 112 (353)
+.|. |.|||+|+|.||+.||+.|..
T Consensus 198 g~G~-G~SKKeAEQ~AAr~AL~kL~~ 222 (413)
T PRK12372 198 VSGS-GASRRAAEQAAAKKALDEVMA 222 (413)
T ss_pred EEEE-eCCHHHHHHHHHHHHHHHHhc
Confidence 6777 599999999999999999984
No 20
>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=99.41 E-value=1e-12 Score=98.03 Aligned_cols=67 Identities=42% Similarity=0.567 Sum_probs=61.0
Q ss_pred CHHHHHHHHHHHcCCCCCeeee-eecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHh
Q 018603 43 LYKNQLQSYTQKKNLPLPMYSC-EREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 110 (353)
Q Consensus 43 npKS~LqE~~QK~gl~~P~Y~l-~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L 110 (353)
|||+.|+||||++++..|.|.+ ...|+.|.+.|.+.|.|+|..+..|. |.+||+|++.||+.||..|
T Consensus 1 ~p~~~L~e~~~~~~~~~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~-g~sKk~Ak~~AA~~al~~L 68 (68)
T cd00048 1 NPKSLLQELAQKRGKPLPEYELVEEEGPDHAPRFTVEVTVGGKITGEGE-GSSKKEAKQNAAEAALRKL 68 (68)
T ss_pred ChHHHHHHHHHHcCCCCCeEEEeeeeCCCCCCeEEEEEEECCEEEEEee-cCCHHHHHHHHHHHHHHhC
Confidence 7999999999999888899998 67889999999999999998888888 4899999999999999865
No 21
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=99.40 E-value=8.5e-13 Score=104.80 Aligned_cols=69 Identities=32% Similarity=0.428 Sum_probs=61.2
Q ss_pred hhHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCEEee----------ecccCCHHHHHHHHHHHHHHHhh
Q 018603 121 VLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFS----------GQGAKSKKQAEMSAAKVAYMRLK 189 (353)
Q Consensus 121 ~n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~----------~G~G~SKK~AKq~AA~~AL~~L~ 189 (353)
+++++.|+|+|++++|..|.|++ .+.||+|.+.|++.|.|.+..+. .-...+||+||..||+.||+.|+
T Consensus 1 k~a~~~L~elC~k~~W~~P~y~l~~~~Gp~~~~~F~ykV~i~~~~~~~~~~~~~~~p~~~~~~~k~Ak~~AA~~~L~~Lg 80 (80)
T PF14709_consen 1 KSAVSLLNELCQKNKWGPPVYELVSESGPDHRKLFLYKVVIPGLEYPFEGSIECFGPTKPSSTKKEAKESAAQQALQALG 80 (80)
T ss_pred CCHHHHHHHHHHhcCCCCCeEEEEeccCCCccEEEEEEEEEcCCCCCCcceEEEccCCCcCccHHHHHHHHHHHHHHhcC
Confidence 47899999999999999999998 68899999999999999887662 12348999999999999999884
No 22
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=99.39 E-value=1e-12 Score=127.70 Aligned_cols=148 Identities=24% Similarity=0.214 Sum_probs=110.2
Q ss_pred cCCcchhHHHHHHHHHHHhhcccC------CCCcc-hhHHHHHHHHHHHhcCCCCceEE-eccCCCCCCeEEEEEEECCE
Q 018603 92 FPTLKEAEHEAAKVALMSLSLDKF------QQDDS-VLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGE 163 (353)
Q Consensus 92 g~SKK~Akq~AAk~AL~~L~~~~~------~~d~~-~n~ks~LqE~~qk~~~~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~ 163 (353)
|.....|+|.||..+|+.|..... ..+.. +.+++.|||||.+++.. |.|++ .+.||+|.+.|+++|.|+.
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 GKTMQQAKHDAAAKALQVLQNGLISEGVMLNADPGAKSPISLLQEYGLRRGLT-PVYEVLREEGPPHMPNFVFRVTVGE- 79 (339)
T ss_pred ccchhhhhccccccchhhccCCCcchhcccccCcccCChHHHHHHHHHHhCCC-cceeeeeccCCccCCCeEEEEEEee-
Confidence 367789999999999999987543 12343 89999999999999997 59998 6799999999999999974
Q ss_pred EeeecccCCHHHHHHHHHHHHHHHhhCCCCCCC---------CCccCCCccccc----cccccccccccccccccccCCC
Q 018603 164 VFSGQGAKSKKQAEMSAAKVAYMRLKEPNPSQG---------PALVSPDIQAQA----DYSSSSLQSNVTADLHHNIQTA 230 (353)
Q Consensus 164 ~~~~G~G~SKK~AKq~AA~~AL~~L~~~~~~~~---------~~~~~~~~~~~~----~~~~~~~~~~l~~~~q~~~~~~ 230 (353)
..+.|.|+|||.||++||..+|..|+...+... ++..+.....++ +-..+|.+..|++|.|+.--.-
T Consensus 80 ~~a~GeG~sKK~AKh~AA~~~L~~lk~l~~l~~v~k~~~~~~~~~~~~~~~~q~~d~~~~~~~NPI~~L~e~~q~k~~k~ 159 (339)
T KOG3732|consen 80 ITATGEGKSKKLAKHRAAEALLKELKKLPPLANVRKDSLKFAKMKSSGVKKDQPGDPEYGQVLNPIGRLQELAQAKKWKL 159 (339)
T ss_pred eEEecCCCchhHHHHHHHHHHHHHHhcCCCccccccCcccccccccCCccccCCCCcccccccChHHHHHHHHHHhCCCC
Confidence 446799999999999999999999998764221 111011110011 0123467889999998877777
Q ss_pred ceeeeCCCCCc
Q 018603 231 GRLVFNPNSMP 241 (353)
Q Consensus 231 ~~~~~~~~~~~ 241 (353)
..+.+.-+.+.
T Consensus 160 P~yelv~E~G~ 170 (339)
T KOG3732|consen 160 PEYELVQESGV 170 (339)
T ss_pred CceEEEeccCC
Confidence 77777655543
No 23
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=99.37 E-value=1.9e-12 Score=96.81 Aligned_cols=66 Identities=39% Similarity=0.509 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHcCCCCCeeeee-ecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhh
Q 018603 44 YKNQLQSYTQKKNLPLPMYSCE-REGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLS 111 (353)
Q Consensus 44 pKS~LqE~~QK~gl~~P~Y~l~-~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~ 111 (353)
||+.|+||||++++ .|.|.+. ..|+.|.+.|++.|.|+|..+..|. |.+||+|++.||+.||..|.
T Consensus 1 p~~~L~e~~~~~~~-~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~-g~sKk~Ak~~AA~~al~~L~ 67 (67)
T smart00358 1 PKSLLQELAQKRGL-PPEYELVKEEGPDHAPRFTVTVKVGGEYTGEGE-GSSKKEAKQRAAEAALRSLK 67 (67)
T ss_pred CchHHHHHHHHCCC-CCEEEEEeeeCCCCCCcEEEEEEECCEEEEEec-cCCHHHHHHHHHHHHHHhcC
Confidence 68999999999999 6899985 4799999999999999998888887 59999999999999998773
No 24
>PRK00102 rnc ribonuclease III; Reviewed
Probab=99.37 E-value=2.6e-12 Score=119.32 Aligned_cols=102 Identities=29% Similarity=0.385 Sum_probs=82.4
Q ss_pred hhhhcchhhHHHHHHHHhhhcccccccccccCCCHHHHHHHHHHHcCCCCCeeee-eecCCCCCccEEEEEEEccEeeec
Q 018603 10 AVQVNARETDRTTQVNATISTVNDVHKSRDMQHLYKNQLQSYTQKKNLPLPMYSC-EREGPPHASRFKCKVTIDGQTYES 88 (353)
Q Consensus 10 ~~~~~~~e~~~~~~v~~li~~~~~~~~l~~~~~npKS~LqE~~QK~gl~~P~Y~l-~~~Gp~h~~~F~~~V~I~g~~~~a 88 (353)
|++++.-...-.-++.+++.|+++.........|||+.|+||||+.++..|.|.+ ...|+.|.+.|++.|+++|..++.
T Consensus 126 Aiyld~g~~~~~~~i~~~~~~~l~~~~~~~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~i~~~~~~~ 205 (229)
T PRK00102 126 AIYLDQGLEAARKFILRLFEPRIEEIDLGDLVKDYKTRLQELLQGRGLPLPEYELVKEEGPAHDKEFTVEVTVNGKELGE 205 (229)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHhhccccccCCHHHHHHHHHHHcCCCCCceEEeeccCCCCCceEEEEEEECCEEEEE
Confidence 5666543333334455566677665444456789999999999999998899987 467999999999999999999999
Q ss_pred ccccCCcchhHHHHHHHHHHHhhc
Q 018603 89 HQFFPTLKEAEHEAAKVALMSLSL 112 (353)
Q Consensus 89 g~Gg~SKK~Akq~AAk~AL~~L~~ 112 (353)
|. |.+||+|++.||+.||+.|..
T Consensus 206 g~-g~skk~Ae~~AA~~Al~~l~~ 228 (229)
T PRK00102 206 GT-GSSKKEAEQAAAKQALKKLKE 228 (229)
T ss_pred ee-eCCHHHHHHHHHHHHHHHHhh
Confidence 98 599999999999999999864
No 25
>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=99.36 E-value=2.2e-12 Score=96.93 Aligned_cols=66 Identities=45% Similarity=0.708 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHcCCCCCeeeeeecCCCCC-ccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHh
Q 018603 44 YKNQLQSYTQKKNLPLPMYSCEREGPPHA-SRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSL 110 (353)
Q Consensus 44 pKS~LqE~~QK~gl~~P~Y~l~~~Gp~h~-~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L 110 (353)
||+.|+|||+++++.+++|.....++.|. +.|.+.|.|+|..++.|. |.+||+|++.||+.||+.|
T Consensus 1 ~~~~L~e~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~i~~~~~~~g~-g~sKk~Ak~~AA~~al~~L 67 (67)
T PF00035_consen 1 PKSRLNEYCQKNKFPPPYYYIEEEGPSHHRPRFICTVYIDGKEYGEGE-GSSKKEAKQQAAKKALQKL 67 (67)
T ss_dssp HHHHHHHHHHHCTSSEEEEEEEEESSSSSSEEEEEEEEETTEEEEEEE-ESSHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHcCCCCCEEEEEEeCCCCCCceEEEEEEECCEEEeEec-cCCHHHHHHHHHHHHHHhC
Confidence 79999999999998877776666666665 899999999999999888 5899999999999999886
No 26
>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=99.31 E-value=8.3e-12 Score=115.07 Aligned_cols=100 Identities=29% Similarity=0.425 Sum_probs=81.2
Q ss_pred hhhhcchhhHHHHHHHHhhhcccccccccccCCCHHHHHHHHHHHcCCCCCeeeee-ecCCCCCccEEEEEEEccEeeec
Q 018603 10 AVQVNARETDRTTQVNATISTVNDVHKSRDMQHLYKNQLQSYTQKKNLPLPMYSCE-REGPPHASRFKCKVTIDGQTYES 88 (353)
Q Consensus 10 ~~~~~~~e~~~~~~v~~li~~~~~~~~l~~~~~npKS~LqE~~QK~gl~~P~Y~l~-~~Gp~h~~~F~~~V~I~g~~~~a 88 (353)
|++++.....-.-++.+++.|.++.........|||+.|+||||+.++..|.|++. ..|+.|.+.|.+.|.++|+.++.
T Consensus 120 Aiyld~g~~~~~~~i~~~~~~~~~~~~~~~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~~~~~~~~~ 199 (220)
T TIGR02191 120 AIYLDSGLEAARKFILKLLIPRIDAIEKEETLKDYKTALQEWAQARGKPLPEYRLIKEEGPDHDKEFTVEVSVNGEPYGE 199 (220)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHhhhcccccCChHHHHHHHHHHcCCCCceEEEecccCCCCCceEEEEEEECCEEEEE
Confidence 66666554444555666677776543333467999999999999998888999984 66899999999999999999999
Q ss_pred ccccCCcchhHHHHHHHHHHHh
Q 018603 89 HQFFPTLKEAEHEAAKVALMSL 110 (353)
Q Consensus 89 g~Gg~SKK~Akq~AAk~AL~~L 110 (353)
|. |.+||+|++.||+.||+.|
T Consensus 200 g~-g~skk~A~~~AA~~Al~~l 220 (220)
T TIGR02191 200 GK-GKSKKEAEQNAAKAALEKL 220 (220)
T ss_pred ee-eCCHHHHHHHHHHHHHHhC
Confidence 98 5999999999999999865
No 27
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=99.19 E-value=5.4e-11 Score=94.51 Aligned_cols=70 Identities=33% Similarity=0.399 Sum_probs=61.6
Q ss_pred CCHHHHHHHHHHHcCCCCCeeee-eecCCCCCccEEEEEEEccEeee---------cccccCCcchhHHHHHHHHHHHhh
Q 018603 42 HLYKNQLQSYTQKKNLPLPMYSC-EREGPPHASRFKCKVTIDGQTYE---------SHQFFPTLKEAEHEAAKVALMSLS 111 (353)
Q Consensus 42 ~npKS~LqE~~QK~gl~~P~Y~l-~~~Gp~h~~~F~~~V~I~g~~~~---------ag~Gg~SKK~Akq~AAk~AL~~L~ 111 (353)
+++++.|+|+|+|++|..|.|.+ .+.||+|.+.|.++|.|.+..+. ......+||+|+..||+.+|..|.
T Consensus 1 k~a~~~L~elC~k~~W~~P~y~l~~~~Gp~~~~~F~ykV~i~~~~~~~~~~~~~~~p~~~~~~~k~Ak~~AA~~~L~~Lg 80 (80)
T PF14709_consen 1 KSAVSLLNELCQKNKWGPPVYELVSESGPDHRKLFLYKVVIPGLEYPFEGSIECFGPTKPSSTKKEAKESAAQQALQALG 80 (80)
T ss_pred CCHHHHHHHHHHhcCCCCCeEEEEeccCCCccEEEEEEEEEcCCCCCCcceEEEccCCCcCccHHHHHHHHHHHHHHhcC
Confidence 57899999999999999999999 57899999999999999987663 224468899999999999999873
No 28
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=99.05 E-value=1.1e-09 Score=110.58 Aligned_cols=169 Identities=17% Similarity=0.111 Sum_probs=124.3
Q ss_pred HHHHHHHHhhhccccccc------ccccCCCHHHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeeccccc
Q 018603 19 DRTTQVNATISTVNDVHK------SRDMQHLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFF 92 (353)
Q Consensus 19 ~~~~~v~~li~~~~~~~~------l~~~~~npKS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg 92 (353)
.-++.|+++-..+-+... +-...+..+..|+||+|+....+|.|++.+.. .....|...|.+++..|+.|. |
T Consensus 346 li~~~Vq~~a~e~~~~p~~~ke~~~npngks~vCiLhEy~q~~lk~~pvyef~e~~-n~stpysa~v~~d~~~yGsG~-g 423 (650)
T KOG4334|consen 346 LINEFVQRLAKEIEDTPNIHKEYKANPNGKSKVCILHEYAQQCLKSLPVYEFAEND-NNSTPYSAGVLPDLFPYGSGV-G 423 (650)
T ss_pred HHHHHHHHhhcccccCCCccCceeeCCCCceeeehHHHHHHHHhhhcceeehhhcc-CCCCccccccccccccccccc-c
Confidence 356777777665433111 22467888999999999998889999874332 234569999999999999998 5
Q ss_pred CCcchhHHHHHHHHHHHhhcccCC----------------------------CC----------cchhHHHHHHHHHHHh
Q 018603 93 PTLKEAEHEAAKVALMSLSLDKFQ----------------------------QD----------DSVLYKNVLQELAQKE 134 (353)
Q Consensus 93 ~SKK~Akq~AAk~AL~~L~~~~~~----------------------------~d----------~~~n~ks~LqE~~qk~ 134 (353)
.|||.|+..||+.+|+.|++.... .| ..-.|-..|.++.+++
T Consensus 424 ~sKK~Ak~~AAR~tLeiLIPd~~~~~~n~~d~k~~~~~k~q~~le~F~~I~Iedprv~e~ctk~~~psPy~iL~~cl~Rn 503 (650)
T KOG4334|consen 424 ASKKTAKLVAARDTLEILIPDLRVSEDNVCDGKVEEDGKQQGFLELFKKIKIEDPRVVEMCTKCAIPSPYNILRDCLSRN 503 (650)
T ss_pred cchHHHHHHHHHHHHHHhcchhhhcccccccccccccccchhHHHHhhcccccCchHHHHhhhcCCCCHHHHHHHHHHhh
Confidence 999999999999999999875310 00 1345667888888876
Q ss_pred c-CCC--CceEEeccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCCCC
Q 018603 135 A-YAL--PVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPNP 193 (353)
Q Consensus 135 ~-~~~--P~Y~~~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~~~ 193 (353)
. |.- -.+++. .+.....+|++.| |+....+++++|+++||.|.+..|+.|...-.
T Consensus 504 ~g~~d~~ik~E~i-~~~nqkse~im~~---Gkht~~~~cknkr~gkQlASQ~ilq~lHPh~~ 561 (650)
T KOG4334|consen 504 LGWNDLVIKKEMI-GNGNQKSEVIMIL---GKHTEEAECKNKRQGKQLASQRILQKLHPHLL 561 (650)
T ss_pred cCCcceeeeeecc-CCCCccceeEeee---ccceeeeeeechhHHHHHHHHHHHHHhCHHhh
Confidence 4 321 122232 2334556888887 88878899999999999999999999987643
No 29
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=98.74 E-value=1.5e-08 Score=101.38 Aligned_cols=141 Identities=16% Similarity=0.084 Sum_probs=104.0
Q ss_pred HHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccC---CCCcchhH
Q 018603 47 QLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKF---QQDDSVLY 123 (353)
Q Consensus 47 ~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~---~~d~~~n~ 123 (353)
.-..||.-+|+. .|.+....... .-.-+.....+.|++..||.+.+....-+-+++-..+.+... ...++.+|
T Consensus 354 tqakva~~lgf~--e~li~n~~~k~--~~~lk~K~~ADlfEAfiGaLyvD~~le~~~qf~~~l~~Prl~~fi~nq~wndp 429 (533)
T KOG1817|consen 354 TQAKVADDLGFH--EYLITNFDLKD--FQNLKLKDYADLFEAFIGALYVDKGLEYCRQFLRVLFFPRLKEFIRNQDWNDP 429 (533)
T ss_pred HHHHHHHHhCCc--hhhhhCcchhh--hhhhhHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHhhHHHHHHHHhhhccCc
Confidence 344677777643 55542211100 011123445678888888888888887766666555554421 35678999
Q ss_pred HHHHHHHHHHhcC------CCCceEE-eccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 124 KNVLQELAQKEAY------ALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 124 ks~LqE~~qk~~~------~~P~Y~~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
++.||+||..... .+|.|.+ ...||.+.+.|++.|.++|+.+++|+|+|.|+|+..||+.||+.+...
T Consensus 430 kskLqq~cl~~rys~~~epdip~y~V~~~~gpa~~r~y~Vavyf~gkrlat~~G~nik~Ae~rAA~~ALe~~~~d 504 (533)
T KOG1817|consen 430 KSKLQQCCLTLRYSLGGEPDIPLYKVLGAKGPANDRNYKVAVYFKGKRLATGVGSNIKQAEMRAAMQALENLKMD 504 (533)
T ss_pred HHHHHHHHHHHhcccCCCCCCceEEEecccCCCCCCceEEEEEECCEEEeeccCchHhHHHHHHHHHHHHHHHhh
Confidence 9999999988654 3688887 678999999999999999999999999999999999999999999853
No 30
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=98.24 E-value=3.6e-06 Score=84.73 Aligned_cols=103 Identities=20% Similarity=0.214 Sum_probs=83.4
Q ss_pred hhhhcchhhHHHHHHHHhhhcccccccccccCCCHHHHHHHHHHHcCCC------CCeeee-eecCCCCCccEEEEEEEc
Q 018603 10 AVQVNARETDRTTQVNATISTVNDVHKSRDMQHLYKNQLQSYTQKKNLP------LPMYSC-EREGPPHASRFKCKVTID 82 (353)
Q Consensus 10 ~~~~~~~e~~~~~~v~~li~~~~~~~~l~~~~~npKS~LqE~~QK~gl~------~P~Y~l-~~~Gp~h~~~F~~~V~I~ 82 (353)
|-|++.....-..++++++.|.+...-.-..-.+|++.||.+|..+... +|.|.+ ...||.+.+.|++.|+++
T Consensus 395 aLyvD~~le~~~qf~~~l~~Prl~~fi~nq~wndpkskLqq~cl~~rys~~~epdip~y~V~~~~gpa~~r~y~Vavyf~ 474 (533)
T KOG1817|consen 395 ALYVDKGLEYCRQFLRVLFFPRLKEFIRNQDWNDPKSKLQQCCLTLRYSLGGEPDIPLYKVLGAKGPANDRNYKVAVYFK 474 (533)
T ss_pred HHhhcCCcHHHHHHHHHHhhHHHHHHHHhhhccCcHHHHHHHHHHHhcccCCCCCCceEEEecccCCCCCCceEEEEEEC
Confidence 4555555444455688999998875554455688999999999987543 567776 578999999999999999
Q ss_pred cEeeecccccCCcchhHHHHHHHHHHHhhcc
Q 018603 83 GQTYESHQFFPTLKEAEHEAAKVALMSLSLD 113 (353)
Q Consensus 83 g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~ 113 (353)
|+.++.|. |.+.|.|+-.||+.||+.+...
T Consensus 475 gkrlat~~-G~nik~Ae~rAA~~ALe~~~~d 504 (533)
T KOG1817|consen 475 GKRLATGV-GSNIKQAEMRAAMQALENLKMD 504 (533)
T ss_pred CEEEeecc-CchHhHHHHHHHHHHHHHHHhh
Confidence 99999998 5999999999999999998863
No 31
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=97.88 E-value=2.9e-05 Score=75.17 Aligned_cols=94 Identities=18% Similarity=0.091 Sum_probs=78.9
Q ss_pred hHHHHHHHHhhhcccccccccccCCCHHHHHHHHHHHcCCCCCeeeee-ecC-CCCCccEEEEEEEccEeeecccccCCc
Q 018603 18 TDRTTQVNATISTVNDVHKSRDMQHLYKNQLQSYTQKKNLPLPMYSCE-REG-PPHASRFKCKVTIDGQTYESHQFFPTL 95 (353)
Q Consensus 18 ~~~~~~v~~li~~~~~~~~l~~~~~npKS~LqE~~QK~gl~~P~Y~l~-~~G-p~h~~~F~~~V~I~g~~~~ag~Gg~SK 95 (353)
++.+|++..+.+.-++..++ -..-+|...|-++|+++++.-|.+++. +.| ....+.|.+.++-+.+.++.|. |.+.
T Consensus 209 ~v~dFI~~qi~~k~L~~~~m-~ql~~P~~~L~~lckr~~l~epe~Rll~esGr~S~~PvyvVgiYs~kkllGqG~-Gesl 286 (333)
T KOG3769|consen 209 FVRDFINDQILSKDLDPREM-WQLQWPRRLLSRLCKRRGLKEPESRLLAESGRNSAEPVYVVGIYSGKKLLGQGQ-GESL 286 (333)
T ss_pred HHHHHHHHHhhhhccchHhh-ccccchHHHHHHHHHHcCCCCchhHHHHHhccCccCceEEEEeecCchhhccCc-chHH
Confidence 36777777777766665565 567899999999999999999999983 444 3557899999999999999998 5999
Q ss_pred chhHHHHHHHHHHHhhcc
Q 018603 96 KEAEHEAAKVALMSLSLD 113 (353)
Q Consensus 96 K~Akq~AAk~AL~~L~~~ 113 (353)
+.|++.||..||..|-..
T Consensus 287 ~~A~e~AA~dAL~k~y~~ 304 (333)
T KOG3769|consen 287 KLAEEQAARDALIKLYDH 304 (333)
T ss_pred HHHHHHHHHHHHHHHHcC
Confidence 999999999999988765
No 32
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=97.87 E-value=3.4e-05 Score=74.65 Aligned_cols=83 Identities=24% Similarity=0.305 Sum_probs=70.5
Q ss_pred cchhHHHHHHHHHHHhcCCCCceEE-eccC-CCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCCC-CCC
Q 018603 119 DSVLYKNVLQELAQKEAYALPVYNT-KQSG-ESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN-PSQ 195 (353)
Q Consensus 119 ~~~n~ks~LqE~~qk~~~~~P~Y~~-~~~G-p~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~~-~~~ 195 (353)
...+|...|-++|++++...|++.+ .+.| ....|.|.+.+.-|.+.+|.|-|.|-|.|++.||++||..|.... ..+
T Consensus 230 ql~~P~~~L~~lckr~~l~epe~Rll~esGr~S~~PvyvVgiYs~kkllGqG~Gesl~~A~e~AA~dAL~k~y~~tp~~~ 309 (333)
T KOG3769|consen 230 QLQWPRRLLSRLCKRRGLKEPESRLLAESGRNSAEPVYVVGIYSGKKLLGQGQGESLKLAEEQAARDALIKLYDHTPERQ 309 (333)
T ss_pred cccchHHHHHHHHHHcCCCCchhHHHHHhccCccCceEEEEeecCchhhccCcchHHHHHHHHHHHHHHHHHHcCChhhc
Confidence 3678999999999999999999997 4554 467889999999999889999999999999999999999998876 344
Q ss_pred CCCccC
Q 018603 196 GPALVS 201 (353)
Q Consensus 196 ~~~~~~ 201 (353)
.|..++
T Consensus 310 ~p~~~~ 315 (333)
T KOG3769|consen 310 RPPDYS 315 (333)
T ss_pred CCCccc
Confidence 444443
No 33
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=97.87 E-value=9.4e-06 Score=82.69 Aligned_cols=71 Identities=23% Similarity=0.197 Sum_probs=61.5
Q ss_pred chhHHHHHHHHHHHhcCCCCceEEeccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 120 SVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 120 ~~n~ks~LqE~~qk~~~~~P~Y~~~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
.+..+..|+||+|+.....|.|++.+.. .....|...|.+++..||.|.|.|||.||..||+.+|+.|...
T Consensus 374 gks~vCiLhEy~q~~lk~~pvyef~e~~-n~stpysa~v~~d~~~yGsG~g~sKK~Ak~~AAR~tLeiLIPd 444 (650)
T KOG4334|consen 374 GKSKVCILHEYAQQCLKSLPVYEFAEND-NNSTPYSAGVLPDLFPYGSGVGASKKTAKLVAARDTLEILIPD 444 (650)
T ss_pred CceeeehHHHHHHHHhhhcceeehhhcc-CCCCcccccccccccccccccccchHHHHHHHHHHHHHHhcch
Confidence 4556789999999999999999984332 2356799999999999999999999999999999999999865
No 34
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=97.81 E-value=2.8e-05 Score=84.37 Aligned_cols=146 Identities=24% Similarity=0.242 Sum_probs=119.7
Q ss_pred CHHHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccC-------
Q 018603 43 LYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKF------- 115 (353)
Q Consensus 43 npKS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~------- 115 (353)
+-|+.|..||-|+... |.|.+...|+....+|.|.|.+.+..+.....+..||.|+.+||+...+.|...+.
T Consensus 2 d~k~fly~~~~k~~~~-p~~d~~~~~~~~rqrf~ce~~~~~~~~~~~~~stnkKda~knac~dfv~ylvr~Gk~n~~d~p 80 (1282)
T KOG0921|consen 2 DVKEFLYAWLGKNKYG-PTYDIRSEGRKGRQRFLCEVRVEGFGYTAVGNSTNKKDAATNAAQDFCQYLVREGKMQQSDIP 80 (1282)
T ss_pred cHHHHHHHHHhhhccC-cceehhhhcccchhheeeeeeccCCcceeeecccccchhhHHHHHHHHHHhhhhccccccCCc
Confidence 5688999999999988 89999888888888999999999988776555788999999999999998864320
Q ss_pred -------------------------------C------------------------------------------------
Q 018603 116 -------------------------------Q------------------------------------------------ 116 (353)
Q Consensus 116 -------------------------------~------------------------------------------------ 116 (353)
+
T Consensus 81 ~~~s~s~~~~~~l~~~~~a~~~~~~~~g~~~q~~~qd~p~~~~p~~~d~~~~~~g~~~~~~~qkae~~~e~ea~d~~~~i 160 (1282)
T KOG0921|consen 81 TLTSSSLEASSTWQDSETATMFCGGEDGNSFQESQQPIPQKRFPWSNNAYQRNEGTHEQYITQKAEEIAESETVDLNAEI 160 (1282)
T ss_pred ccccccccCcccccccccccccccccccccCCCCCCCcccccccccccccccCCCCCchhHHHHhhhhhhhhhhccCccc
Confidence 0
Q ss_pred --CCcchhHHHHHHHHHHHhcCCCCceEEeccCCCCCCeEEEEEEE-----CCEEeeecccCCHHHHHHHHHHHHHHHhh
Q 018603 117 --QDDSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEV-----GGEVFSGQGAKSKKQAEMSAAKVAYMRLK 189 (353)
Q Consensus 117 --~d~~~n~ks~LqE~~qk~~~~~P~Y~~~~~Gp~H~~~F~~~V~I-----~G~~~~~G~G~SKK~AKq~AA~~AL~~L~ 189 (353)
.....|.|..|+++-|++... -.|+....|+.|.+.|+.+..+ +-.....+.|++||.|....|...++.|.
T Consensus 161 hg~wt~eN~K~~ln~~~q~~~~~-~~y~~~~~g~~~~~s~~~e~si~v~~~~~~~~~~~~gsnkk~~~~~ca~s~vrqm~ 239 (1282)
T KOG0921|consen 161 HGNWTMENAKKALNEYLQKMRIQ-DNYKYTIVGPEHVRSFEAEASIYVPQLNRNLVAKETGSNKKVAEASCALSLVRQLF 239 (1282)
T ss_pred cCCCCcchhHHHHhHHHhhhhhc-cccceeecCCccccchhhhHHHhhhhhchhhhhhhccccceecCcchHHHHHHHHH
Confidence 002578899999999999985 4899888999999999988765 22234557789999999999999988775
Q ss_pred C
Q 018603 190 E 190 (353)
Q Consensus 190 ~ 190 (353)
+
T Consensus 240 h 240 (1282)
T KOG0921|consen 240 H 240 (1282)
T ss_pred H
Confidence 4
No 35
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=97.74 E-value=6.1e-05 Score=78.39 Aligned_cols=68 Identities=28% Similarity=0.332 Sum_probs=59.8
Q ss_pred cCCCHHHHHHHHHHHcCCCCCeeee-eecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhccc
Q 018603 40 MQHLYKNQLQSYTQKKNLPLPMYSC-EREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDK 114 (353)
Q Consensus 40 ~~~npKS~LqE~~QK~gl~~P~Y~l-~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~ 114 (353)
.++||++.|+|+++ + +.|.. ...|+.|.+.|.+.|.|+|..|+.+ |.+||+|++.||..||+.|....
T Consensus 88 ~~~npv~ll~e~~~--~---~~~~~~~~~~~~~~~~F~~~~~vdg~~~~~~--~~sKk~ak~~aa~~al~~l~~~~ 156 (542)
T KOG2777|consen 88 EGKNPVSLLHELAN--G---LFFDFVNESGPQHAPKFVMSVVVDGRWFEGG--GRSKKEAKQEAAMAALQVLFKID 156 (542)
T ss_pred ccCCchHHHHHHhc--c---cceeeeccCCCCCCceEEEEEEECCEEccCC--CcchHHHHHHHHHHHHHHHHhcc
Confidence 37999999999999 3 45665 5789999999999999999999876 59999999999999999998653
No 36
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=97.22 E-value=0.00039 Score=73.82 Aligned_cols=140 Identities=20% Similarity=0.122 Sum_probs=101.3
Q ss_pred CCHHHHHHHHHHHcCCCCCeee------e-eecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcc-
Q 018603 42 HLYKNQLQSYTQKKNLPLPMYS------C-EREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLD- 113 (353)
Q Consensus 42 ~npKS~LqE~~QK~gl~~P~Y~------l-~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~- 113 (353)
.++...++.+-+.++ ...|+ + ...||.|.++|+.++.+++..+++- +.++|.|+-.||+..|+.....
T Consensus 370 ~d~nak~mhl~grRh--rLQYk~kv~p~Lvv~t~P~~~~~~t~e~r~~~~~~~a~--gps~~~~~wh~~~k~lq~~~~p~ 445 (816)
T KOG3792|consen 370 NDPNAKEMHLKGRRH--RLQYKQKVDPDLVVDTKPSHRPRRTMEVRVNGLPAEAE--GPSKKTAKWHAARKRLQNEGRPT 445 (816)
T ss_pred CCcchHHhhhhcccc--cceeccccCCCceeccCCcccchhhhhhhhcCCccccC--CcccccchHHHHHHHhhccCCCc
Confidence 455555655555543 23577 4 6889999999999999999998864 5999999999999999877311
Q ss_pred cC-----------------------CCC------------------------------cchhHHHHHHHHHHHhcCCCCc
Q 018603 114 KF-----------------------QQD------------------------------DSVLYKNVLQELAQKEAYALPV 140 (353)
Q Consensus 114 ~~-----------------------~~d------------------------------~~~n~ks~LqE~~qk~~~~~P~ 140 (353)
+. ..| ..+++...|+|- +.. -.
T Consensus 446 ga~~r~~~~ge~~a~~p~~~~r~~as~ddr~a~~~~a~~~Pt~~~l~nVqr~vs~~~~alK~vsd~L~Ek---~rg--~k 520 (816)
T KOG3792|consen 446 GAAQRFGRMGEDPASMPEPKGRRPASVDDRHANEKHAGIYPTEEELENVQRQVSHLERALKLVSDELAEK---RRG--DK 520 (816)
T ss_pred cccccccccCCCcccCCCCCCcccCCCcchhhhccccccCccHHHHHHHHHhhhHHHHhhcchhHHHhhh---ccc--cc
Confidence 00 000 124444444443 333 26
Q ss_pred eEE-eccC-CCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 141 YNT-KQSG-ESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 141 Y~~-~~~G-p~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
|++ .+.| ..|.++|.+.|.+.|+.+ .|.+.+||-|+..|+.-|++.+...
T Consensus 521 ~El~set~~gs~~~R~v~gV~rvG~~a-kG~~~~gd~a~~~a~Lca~~pt~~l 572 (816)
T KOG3792|consen 521 YELPSETGTGSHDKRFVKGVMRVGILA-KGLLLNGDRAVELALLCAEKPTSGL 572 (816)
T ss_pred eecccccCCCCCCceeeeeeeeeehhh-ccccccchHHHHHHHHhccCccccc
Confidence 886 5555 789999999999999987 4779999999999999888766543
No 37
>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=96.37 E-value=0.014 Score=47.19 Aligned_cols=65 Identities=26% Similarity=0.290 Sum_probs=43.0
Q ss_pred HHHHHHHHHHhcC-----CCCceEEeccCCCCCCeEEEEEEECCE----EeeecccCCHHHHHHHHHHHHHHHhhCCC
Q 018603 124 KNVLQELAQKEAY-----ALPVYNTKQSGESHAPTFVSTVEVGGE----VFSGQGAKSKKQAEMSAAKVAYMRLKEPN 192 (353)
Q Consensus 124 ks~LqE~~qk~~~-----~~P~Y~~~~~Gp~H~~~F~~~V~I~G~----~~~~G~G~SKK~AKq~AA~~AL~~L~~~~ 192 (353)
++.|+.||++.-- ..|.|.+...+. .|.|+|.+-.. .+.+..-.|||.||+.||-.|.+.|....
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----GFICTVILPINSPIRSIEGPPMRSKKLAKRSAAFEACKKLHEAG 75 (90)
T ss_dssp HHHHHHHHTTSSS-TT--SS-EEEEEE--G-----EEEEEE--TT-SS--EEEE--SSHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHhcCCCCCCccCCceEEEEEcCC----cEEEEEECCCCCCCCeEEccccccHHHHHHHHHHHHHHHHHHcC
Confidence 6789999988532 358899865542 79999988421 13233468999999999999999998764
No 38
>PF14954 LIX1: Limb expression 1
Probab=95.46 E-value=0.045 Score=51.19 Aligned_cols=77 Identities=32% Similarity=0.382 Sum_probs=53.7
Q ss_pred cchhHHHHHHHHHHHhc---CCCCce--EEeccCCCCCCeEEEEEEE-CCEEeee-cccCCHHHHHHHHHHHHHHH-hhC
Q 018603 119 DSVLYKNVLQELAQKEA---YALPVY--NTKQSGESHAPTFVSTVEV-GGEVFSG-QGAKSKKQAEMSAAKVAYMR-LKE 190 (353)
Q Consensus 119 ~~~n~ks~LqE~~qk~~---~~~P~Y--~~~~~Gp~H~~~F~~~V~I-~G~~~~~-G~G~SKK~AKq~AA~~AL~~-L~~ 190 (353)
...|-+..|||+=|.+. ...+.= .+.+..|...|.|+|-|.+ +|-.||. ..+.+|-+|++.||+.||.. +.+
T Consensus 19 ~~vnvV~~LqeFWq~Kq~r~a~~~~~~lv~YEs~ps~~ppyVcyVTLPGGSCFGnfq~C~tkAEARR~AAKiALmNSvfN 98 (252)
T PF14954_consen 19 GDVNVVEALQEFWQMKQSRGADLKSEALVVYESVPSPSPPYVCYVTLPGGSCFGNFQNCPTKAEARRSAAKIALMNSVFN 98 (252)
T ss_pred ccchHHHHHHHHHHHHHhccccCCCCCeeeeeccCCCCCCeEEEEeCCCCCccCccccCCcHHHHHhhhHHHHHHHHHHh
Confidence 35788999999775532 222111 1234667778889999999 4556664 56799999999999999975 555
Q ss_pred CCCCC
Q 018603 191 PNPSQ 195 (353)
Q Consensus 191 ~~~~~ 195 (353)
+.+++
T Consensus 99 EhPsR 103 (252)
T PF14954_consen 99 EHPSR 103 (252)
T ss_pred cCCcc
Confidence 55433
No 39
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=94.54 E-value=0.055 Score=59.70 Aligned_cols=69 Identities=25% Similarity=0.314 Sum_probs=61.1
Q ss_pred hHHHHHHHHHHHhcCCCCceEEeccCCCCCCeEEEEEEECCEEee-ecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 122 LYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFS-GQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 122 n~ks~LqE~~qk~~~~~P~Y~~~~~Gp~H~~~F~~~V~I~G~~~~-~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
|-|..|..||-++... |.|.+...|+....+|.|.|.+.+..+. .|...+||.|+..||+.-.+.|...
T Consensus 2 d~k~fly~~~~k~~~~-p~~d~~~~~~~~rqrf~ce~~~~~~~~~~~~~stnkKda~knac~dfv~ylvr~ 71 (1282)
T KOG0921|consen 2 DVKEFLYAWLGKNKYG-PTYDIRSEGRKGRQRFLCEVRVEGFGYTAVGNSTNKKDAATNAAQDFCQYLVRE 71 (1282)
T ss_pred cHHHHHHHHHhhhccC-cceehhhhcccchhheeeeeeccCCcceeeecccccchhhHHHHHHHHHHhhhh
Confidence 5688999999999997 8999998999999999999999887763 4777899999999999999998654
No 40
>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=93.25 E-value=0.25 Score=39.94 Aligned_cols=67 Identities=22% Similarity=0.184 Sum_probs=42.8
Q ss_pred HHHHHHHHHHcCCC-----CCeeeeeecCCCCCccEEEEEEEccE----eeecccccCCcchhHHHHHHHHHHHhhcccC
Q 018603 45 KNQLQSYTQKKNLP-----LPMYSCEREGPPHASRFKCKVTIDGQ----TYESHQFFPTLKEAEHEAAKVALMSLSLDKF 115 (353)
Q Consensus 45 KS~LqE~~QK~gl~-----~P~Y~l~~~Gp~h~~~F~~~V~I~g~----~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~ 115 (353)
++.|+.||+++.-. .|.|.+...+. .|.|+|.+-.. .+... ...+|+.||+.||-.|...|.+.+.
T Consensus 2 i~lL~~yC~~Lp~d~~~~~~P~~~~~~~~~----~~~c~v~LP~~~pi~~i~g~-~~~sk~~AK~sAAf~Ac~~L~~~g~ 76 (90)
T PF03368_consen 2 ISLLNRYCSTLPSDSFTNLKPEFEIEKIGS----GFICTVILPINSPIRSIEGP-PMRSKKLAKRSAAFEACKKLHEAGE 76 (90)
T ss_dssp HHHHHHHHTTSSS-TT--SS-EEEEEE--G-----EEEEEE--TT-SS--EEEE---SSHHHHHHHHHHHHHHHHHHH-S
T ss_pred HHHHHHHHhcCCCCCCccCCceEEEEEcCC----cEEEEEECCCCCCCCeEEcc-ccccHHHHHHHHHHHHHHHHHHcCC
Confidence 57899999997432 47788765443 59998887531 12222 2589999999999999999988764
Q ss_pred C
Q 018603 116 Q 116 (353)
Q Consensus 116 ~ 116 (353)
.
T Consensus 77 l 77 (90)
T PF03368_consen 77 L 77 (90)
T ss_dssp -
T ss_pred C
Confidence 3
No 41
>KOG2334 consensus tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=91.69 E-value=0.072 Score=54.35 Aligned_cols=71 Identities=30% Similarity=0.238 Sum_probs=61.3
Q ss_pred cchhHHHHHHHHHHHhcCCCCceEEeccCCCCCCeEEEEEEECCEEeeecc-cCCHHHHHHHHHHHHHHHhhCCC
Q 018603 119 DSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQG-AKSKKQAEMSAAKVAYMRLKEPN 192 (353)
Q Consensus 119 ~~~n~ks~LqE~~qk~~~~~P~Y~~~~~Gp~H~~~F~~~V~I~G~~~~~G~-G~SKK~AKq~AA~~AL~~L~~~~ 192 (353)
.+..++..|..||.+.+...|.|++.+. -++.|...+.++|+.|..+. -++||.|+|.||..+|+......
T Consensus 373 ~~~~~k~~l~~~~~~~~~~~~~ye~~~~---~d~lf~si~~~~~~~~~ssi~~~n~k~aeq~aa~~~l~~s~l~e 444 (477)
T KOG2334|consen 373 KWDTPKMVLADLCVKTKANGPVYETVQR---TDKLFSSIATARGQKYNSSIWSPNKKSAEQDAAIVALRKSNLWE 444 (477)
T ss_pred CCCCHHHHHHHhhhhhcCCCcchhhhhh---hhhhhHHHhhhhhhhhhccccCcchhhHHHHHHHHHHHhcCcch
Confidence 4678999999999999999999998654 36789999999999997654 49999999999999999887654
No 42
>PF14954 LIX1: Limb expression 1
Probab=87.79 E-value=1.9 Score=40.56 Aligned_cols=70 Identities=30% Similarity=0.331 Sum_probs=48.4
Q ss_pred ccCCCHHHHHHHHHHHc---CCCCCeee--eeecCCCCCccEEEEEEEcc-EeeecccccCCcchhHHHHHHHHHH
Q 018603 39 DMQHLYKNQLQSYTQKK---NLPLPMYS--CEREGPPHASRFKCKVTIDG-QTYESHQFFPTLKEAEHEAAKVALM 108 (353)
Q Consensus 39 ~~~~npKS~LqE~~QK~---gl~~P~Y~--l~~~Gp~h~~~F~~~V~I~g-~~~~ag~Gg~SKK~Akq~AAk~AL~ 108 (353)
....|-+..|||+=|.. +..++.-. +.+..|...+.|.|-|++.| --|+....-.+|.+|++.||+.||-
T Consensus 18 ~~~vnvV~~LqeFWq~Kq~r~a~~~~~~lv~YEs~ps~~ppyVcyVTLPGGSCFGnfq~C~tkAEARR~AAKiALm 93 (252)
T PF14954_consen 18 YGDVNVVEALQEFWQMKQSRGADLKSEALVVYESVPSPSPPYVCYVTLPGGSCFGNFQNCPTKAEARRSAAKIALM 93 (252)
T ss_pred cccchHHHHHHHHHHHHHhccccCCCCCeeeeeccCCCCCCeEEEEeCCCCCccCccccCCcHHHHHhhhHHHHHH
Confidence 46788999999986543 33322211 12455666777999998854 4555555568999999999999974
No 43
>KOG2334 consensus tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=86.71 E-value=0.28 Score=50.25 Aligned_cols=68 Identities=31% Similarity=0.335 Sum_probs=59.7
Q ss_pred CCHHHHHHHHHHHcCCCCCeeeeeecCCCCCccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhc
Q 018603 42 HLYKNQLQSYTQKKNLPLPMYSCEREGPPHASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSL 112 (353)
Q Consensus 42 ~npKS~LqE~~QK~gl~~P~Y~l~~~Gp~h~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~ 112 (353)
..|+..|..||-+.+..-|.|++... .++.|...+.++|+.|.+..+-+++|.|+|.||..+|....-
T Consensus 375 ~~~k~~l~~~~~~~~~~~~~ye~~~~---~d~lf~si~~~~~~~~~ssi~~~n~k~aeq~aa~~~l~~s~l 442 (477)
T KOG2334|consen 375 DTPKMVLADLCVKTKANGPVYETVQR---TDKLFSSIATARGQKYNSSIWSPNKKSAEQDAAIVALRKSNL 442 (477)
T ss_pred CCHHHHHHHhhhhhcCCCcchhhhhh---hhhhhHHHhhhhhhhhhccccCcchhhHHHHHHHHHHHhcCc
Confidence 78999999999999988899998543 356799999999999999998899999999999999887654
No 44
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=81.47 E-value=0.63 Score=50.28 Aligned_cols=64 Identities=22% Similarity=0.139 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHhcCCCCceE------E-eccCCCCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhh
Q 018603 123 YKNVLQELAQKEAYALPVYN------T-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 189 (353)
Q Consensus 123 ~ks~LqE~~qk~~~~~P~Y~------~-~~~Gp~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~ 189 (353)
+-..+.-+-++++. ..|+ + .+.||.|.++|+++|.++|..+. ..|.+||.|+-.||+..|+...
T Consensus 372 ~nak~mhl~grRhr--LQYk~kv~p~Lvv~t~P~~~~~~t~e~r~~~~~~~-a~gps~~~~~wh~~~k~lq~~~ 442 (816)
T KOG3792|consen 372 PNAKEMHLKGRRHR--LQYKQKVDPDLVVDTKPSHRPRRTMEVRVNGLPAE-AEGPSKKTAKWHAARKRLQNEG 442 (816)
T ss_pred cchHHhhhhccccc--ceeccccCCCceeccCCcccchhhhhhhhcCCccc-cCCcccccchHHHHHHHhhccC
Confidence 33333334344333 3687 4 68999999999999999999985 5589999999999999988763
No 45
>cd04518 TBP_archaea archaeal TATA box binding protein (TBP): TBPs are transcription factors present in archaea and eukaryotes, that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=74.03 E-value=52 Score=29.85 Aligned_cols=111 Identities=18% Similarity=0.176 Sum_probs=67.8
Q ss_pred CccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccCCC----C-c--------chhHHHHHHHHHHHhcCCC
Q 018603 72 ASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKFQQ----D-D--------SVLYKNVLQELAQKEAYAL 138 (353)
Q Consensus 72 ~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~~~----d-~--------~~n~ks~LqE~~qk~~~~~ 138 (353)
.+.=++.++-.|+.+..| +.|.++|+. |++.+++.|...+... + . .....=.|.+++.....
T Consensus 45 ~Pk~t~lIF~SGKiv~tG--aks~~~a~~-a~~~~~~~L~~~g~~~~~~~~~~i~NIVas~~l~~~i~L~~la~~~~~-- 119 (174)
T cd04518 45 DPKIAALIFRSGKMVCTG--AKSVEDLHR-AVKEIIKKLKDYGIKVIEKPEIKVQNIVASADLGREVNLDAIAIGLPN-- 119 (174)
T ss_pred CCcEEEEEECCCeEEEEc--cCCHHHHHH-HHHHHHHHHHhcCCCccCCCceEEEEEEEEEEcCCccCHHHHHhhCCC--
Confidence 344566677789888765 589888888 5666667776655311 1 0 12222357777765442
Q ss_pred CceEEec-cCC---CCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhh
Q 018603 139 PVYNTKQ-SGE---SHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 189 (353)
Q Consensus 139 P~Y~~~~-~Gp---~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~ 189 (353)
-+|+=++ .|- -..|.=++.+...|+..-.| ++|..++++ |.+..+..|+
T Consensus 120 ~~YePe~fpglvyR~~~pk~~~lIF~SGKvvitG-aks~~~~~~-a~~~i~~~l~ 172 (174)
T cd04518 120 AEYEPEQFPGLVYRLDEPKVVLLLFSSGKMVITG-AKSEEDAKR-AVEKLLSRLK 172 (174)
T ss_pred CccCcccCceEEEEecCCcEEEEEeCCCEEEEEe-cCCHHHHHH-HHHHHHHHHh
Confidence 2444211 110 11355677777799998877 689999988 5666666665
No 46
>PF14600 CBM_5_12_2: Cellulose-binding domain; PDB: 1AIW_A.
Probab=70.83 E-value=3.2 Score=31.49 Aligned_cols=33 Identities=27% Similarity=0.571 Sum_probs=22.1
Q ss_pred ccccEEEccCCCCccCCCC-----------------------ceeee-cCCcEEEEe
Q 018603 315 TCKIIRVRPNRPNMKFPEG-----------------------SSVLH-RDNQWVAWT 347 (353)
Q Consensus 315 ~~~~~~~~~~~~~~~~~~~-----------------------~~~~~-~~~~~~~~~ 347 (353)
-|..|.|||++|.-++.-| ..-+| +|.-|.-++
T Consensus 3 dc~~in~YPnw~~~DwaGG~p~HA~~GD~mv~~g~~Y~AnWwT~SvPGSD~SWt~~~ 59 (62)
T PF14600_consen 3 DCAGINVYPNWPQKDWAGGNPSHANAGDQMVYQGAVYQANWWTNSVPGSDGSWTLVC 59 (62)
T ss_dssp SSSSS-BTT--SBSSSSSS---BEEBT-EEEETTEEEEESSEE-S-TTSSTTEEEEE
T ss_pred cccccccCCCCcccccCCCCcCcccccCEEEEcCcEEEEeeEeccCCCCcccceeee
Confidence 4889999999999998875 23467 888887665
No 47
>cd00652 TBP_TLF TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA. New members of the TBP family, called TBP-like proteins (TBLP, TLF, TLP) or TBP-related factors (TRF1, TRF2,TRP), are similar to the core domain of TBPs, with identical or chemically similar amino acids at many
Probab=67.45 E-value=92 Score=28.14 Aligned_cols=112 Identities=21% Similarity=0.195 Sum_probs=66.4
Q ss_pred CccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccCCC----C---------cchhHHHHHHHHHHHhcCCC
Q 018603 72 ASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKFQQ----D---------DSVLYKNVLQELAQKEAYAL 138 (353)
Q Consensus 72 ~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~~~----d---------~~~n~ks~LqE~~qk~~~~~ 138 (353)
++.=++.++-.|+.+..| +.|.++|+. |++.+++.|.+.+... + -.....=.|..++...+-.
T Consensus 45 ~P~~t~lIf~sGKivitG--aks~~~~~~-a~~~~~~~L~~~g~~~~~~~~~~v~NIvas~~l~~~i~L~~la~~~~~~- 120 (174)
T cd00652 45 EPKTTALIFSSGKMVITG--AKSEEDAKL-AARKYARILQKLGFPVEKFPEFKVQNIVASCDLGFPIRLEELALKHPEN- 120 (174)
T ss_pred CCcEEEEEECCCEEEEEe--cCCHHHHHH-HHHHHHHHHHHcCCCccccCceEEEEEEEEEECCCcccHHHHHhhhhcc-
Confidence 345666677789888765 588888888 5666667676544311 1 0223334577777665411
Q ss_pred CceEEec-cCC---CCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhh
Q 018603 139 PVYNTKQ-SGE---SHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 189 (353)
Q Consensus 139 P~Y~~~~-~Gp---~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~ 189 (353)
-+|+=+. .|- -..+.=++.+.-.|+..-.| +++..++++ |.+..+..|.
T Consensus 121 ~~YePe~fpgli~r~~~pk~t~lIF~sGkvvitG-aks~~~~~~-a~~~i~~~L~ 173 (174)
T cd00652 121 ASYEPELFPGLIYRMDEPKVVLLIFVSGKIVITG-AKSREDIYE-AVEKIYPILK 173 (174)
T ss_pred cEECCccCceEEEEecCCcEEEEEEcCCEEEEEe-cCCHHHHHH-HHHHHHHHHh
Confidence 1333110 000 01245667777789998777 688899988 5566666654
No 48
>PRK00394 transcription factor; Reviewed
Probab=64.64 E-value=93 Score=28.32 Aligned_cols=114 Identities=18% Similarity=0.176 Sum_probs=68.8
Q ss_pred CccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccCCC----C-c--------chhHHHHHHHHHHHhcCCC
Q 018603 72 ASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKFQQ----D-D--------SVLYKNVLQELAQKEAYAL 138 (353)
Q Consensus 72 ~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~~~----d-~--------~~n~ks~LqE~~qk~~~~~ 138 (353)
.|.=++.++-.|+.+..| +.|.++|+. |++.+++.|...+... + . .....=.|.+++...+..-
T Consensus 44 ~Pk~t~lIf~sGKiv~tG--a~S~~~a~~-a~~~~~~~l~~~g~~~~~~~~~~i~NiVas~~l~~~i~L~~la~~~~~~~ 120 (179)
T PRK00394 44 DPKIAALIFRSGKVVCTG--AKSVEDLHE-AVKIIIKKLKELGIKVIDEPEIKVQNIVASADLGVELNLNAIAIGLGLEN 120 (179)
T ss_pred CCceEEEEEcCCcEEEEc--cCCHHHHHH-HHHHHHHHHHHcCCCccCCCceEEEEEEEEEEcCCeEcHHHHHHhcCcCC
Confidence 444666677789888765 689998888 5666667676554311 1 0 1112224677776653221
Q ss_pred CceEEec-cCC---CCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhC
Q 018603 139 PVYNTKQ-SGE---SHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKE 190 (353)
Q Consensus 139 P~Y~~~~-~Gp---~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~ 190 (353)
-+|+=++ .|- -..|.=++.+...|+.+-.| ++|..++++ |.+..+..|..
T Consensus 121 ~~YePe~fPglvyR~~~pk~~~lIF~SGKvvitG-aks~~~~~~-a~~~i~~~l~~ 174 (179)
T PRK00394 121 IEYEPEQFPGLVYRLDDPKVVVLLFGSGKLVITG-AKSEEDAEK-AVEKILEKLEE 174 (179)
T ss_pred cEECcccCceEEEEecCCcEEEEEEcCCEEEEEe-cCCHHHHHH-HHHHHHHHHHH
Confidence 2444211 110 12456677777799998877 689999988 56667666654
No 49
>PF01436 NHL: NHL repeat; InterPro: IPR001258 The NHL repeat, named after NCL-1, HT2A and Lin-41, is found largely in a large number of eukaryotic and prokaryotic proteins. For example, the repeat is found in a variety of enzymes of the copper type II, ascorbate-dependent monooxygenase family which catalyse the C terminus alpha-amidation of biological peptides []. In many it occurs in tandem arrays, for example in the ringfinger beta-box, coiled-coil (RBCC) eukaryotic growth regulators []. The 'Brain Tumor' protein (Brat) is one such growth regulator that contains a 6-bladed NHL-repeat beta-propeller [, ]. The NHL repeats are also found in serine/threonine protein kinase (STPK) in diverse range of pathogenic bacteria. These STPK are transmembrane receptors with a intracellular N-terminal kinase domain and extracellular C-terminal sensor domain. In the STPK, PknD, from Mycobacterium tuberculosis, the sensor domain forms a rigid, six-bladed b-propeller composed of NHL repeats with a flexible tether to the transmembrane domain.; GO: 0005515 protein binding; PDB: 3FVZ_A 3FW0_A 1RWL_A 1RWI_A 1Q7F_A.
Probab=49.57 E-value=6 Score=24.79 Aligned_cols=18 Identities=33% Similarity=0.486 Sum_probs=15.9
Q ss_pred cCCCCceeeecCCcEEEE
Q 018603 329 KFPEGSSVLHRDNQWVAW 346 (353)
Q Consensus 329 ~~~~~~~~~~~~~~~~~~ 346 (353)
.+|.|++|.+.++-|||=
T Consensus 2 ~~P~gvav~~~g~i~VaD 19 (28)
T PF01436_consen 2 NYPHGVAVDSDGNIYVAD 19 (28)
T ss_dssp SSEEEEEEETTSEEEEEE
T ss_pred cCCcEEEEeCCCCEEEEE
Confidence 589999999999999984
No 50
>PF08029 HisG_C: HisG, C-terminal domain; InterPro: IPR013115 ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions []. ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides. This entry represents the C-terminal portion of ATP phosphoribosyltransferase. The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates [, ]. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. This domain is not directly involved in catalysis but appears to be responsible for the formation of hexamers induced by the binding of inhibitors to the enzyme, thus regulating activity.; GO: 0000287 magnesium ion binding, 0003879 ATP phosphoribosyltransferase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm; PDB: 1Q1K_A 1H3D_A 2VD3_B 1NH7_A 1NH8_A.
Probab=47.01 E-value=17 Score=28.50 Aligned_cols=17 Identities=29% Similarity=0.519 Sum_probs=14.1
Q ss_pred CCceeee-cCCcEEEEec
Q 018603 332 EGSSVLH-RDNQWVAWTD 348 (353)
Q Consensus 332 ~~~~~~~-~~~~~~~~~~ 348 (353)
+|=||.| .|+.||||..
T Consensus 28 ~~PTVs~L~~~~w~AV~~ 45 (75)
T PF08029_consen 28 KSPTVSPLADEDWVAVHA 45 (75)
T ss_dssp SS-EEEE-SSTTEEEEEE
T ss_pred CCCceeecCCCCEEEEEE
Confidence 6779999 9999999964
No 51
>cd04517 TLF TBP-like factors (TLF; also called TLP, TRF, TRP), which are found in most metazoans. TLFs and TBPs have well-conserved core domains; however, they only share about 60% similarity. TLFs, like TBPs, interact with TFIIA and TFIIB, which are part of the basal transcription machinery. Yet, in contrast to TBPs, TLFs seem not to interact with the TATA-box and even have a negative effect on the transcription of TATA-containing promoters. Recent results indicate that TLFs are involved in the transcription via TATA-less promoters.
Probab=42.25 E-value=2.6e+02 Score=25.24 Aligned_cols=110 Identities=22% Similarity=0.194 Sum_probs=63.4
Q ss_pred ccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccCCC----C---------cchhHHHHHHHHHHHhcCCCC
Q 018603 73 SRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKFQQ----D---------DSVLYKNVLQELAQKEAYALP 139 (353)
Q Consensus 73 ~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~~~----d---------~~~n~ks~LqE~~qk~~~~~P 139 (353)
+.=++.++-.|+.+..| +.+.++|+.. ++.+++.|...+... + -.....=.|.+++...... -
T Consensus 46 Pk~t~lIF~sGKiviTG--aks~~~~~~a-~~~~~~~l~~~g~~~~~~~~f~v~nIvat~~~~~~i~L~~la~~~~~~-~ 121 (174)
T cd04517 46 PRATASVWSSGKITITG--ATSEEEAKQA-ARRAARLLQKLGFKVVRFSNFRVVNVLATCSMPFPIRLDELAAKNRSS-A 121 (174)
T ss_pred CcEEEEEECCCeEEEEc--cCCHHHHHHH-HHHHHHHHHHcCCCcccCCceEEEEEEEEEeCCCcccHHHHHHhchhh-c
Confidence 44556667789887764 5898888884 666666665543211 1 0122333477777653221 1
Q ss_pred ceEEec-cCC---CCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHh
Q 018603 140 VYNTKQ-SGE---SHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 188 (353)
Q Consensus 140 ~Y~~~~-~Gp---~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L 188 (353)
+|+=+. .|- -..+.=++.+...|+..-.| +++..++++ |.+..+..|
T Consensus 122 ~YePE~fPgliyr~~~p~~t~lIF~sGkivitG-aks~~~~~~-a~~~i~pil 172 (174)
T cd04517 122 SYEPELHPGVVYRITGPRATLSIFSTGSVTVTG-ARSMEDVRE-AVEKIYPIV 172 (174)
T ss_pred EeCCccCCEEEEEECCCcEEEEEeCCCEEEEEe-cCCHHHHHH-HHHHHHHHH
Confidence 232110 000 01245677777789998777 688899888 455555544
No 52
>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=39.20 E-value=44 Score=26.00 Aligned_cols=29 Identities=14% Similarity=0.092 Sum_probs=23.6
Q ss_pred EEeeecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 163 EVFSGQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 163 ~~~~~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
..++.|.|.+++.|+++|-..+.+.|...
T Consensus 13 ~l~a~G~~~~~~~A~~~A~~~la~~i~~~ 41 (92)
T PF02169_consen 13 YLYAVGSGSSREQAKQDALANLAEQISVV 41 (92)
T ss_pred EEEEEEcccChHHHHHHHHHHHHHheeEE
Confidence 35677999999999999888888877654
No 53
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=38.62 E-value=3e+02 Score=24.90 Aligned_cols=111 Identities=19% Similarity=0.182 Sum_probs=63.7
Q ss_pred CccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccCCC---C---------cchhHHHHHHHHHHHhcCCCC
Q 018603 72 ASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKFQQ---D---------DSVLYKNVLQELAQKEAYALP 139 (353)
Q Consensus 72 ~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~~~---d---------~~~n~ks~LqE~~qk~~~~~P 139 (353)
++.-++.++-.|+.+..| +.|.++|+. |++..++.|.+.++.. + -.....=.|.+++..+. ..-
T Consensus 45 ~Pk~t~lIF~SGKiviTG--aks~e~a~~-a~~~i~~~L~~~g~~~~~~~~~v~Nivat~~l~~~i~L~~la~~~~-~~~ 120 (174)
T cd04516 45 EPKTTALIFSSGKMVCTG--AKSEDDSKL-AARKYARIIQKLGFPAKFTDFKIQNIVGSCDVKFPIRLEGLAHAHK-QFS 120 (174)
T ss_pred CCcEEEEEECCCeEEEEe--cCCHHHHHH-HHHHHHHHHHHcCCCCCCCceEEEEEEEEEECCCcccHHHHHHhCh-hcc
Confidence 455677788889988765 588888887 4566666676554321 1 02223335777776332 112
Q ss_pred ceEEe-ccCC---CCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHh
Q 018603 140 VYNTK-QSGE---SHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 188 (353)
Q Consensus 140 ~Y~~~-~~Gp---~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L 188 (353)
+|+-+ -.|- -..+.=++.+...|+.+-.| +++..++++ |-...+..|
T Consensus 121 ~YePE~fPgliyr~~~pk~~~liF~sGkvvitG-aks~~~~~~-a~~~i~p~L 171 (174)
T cd04516 121 SYEPELFPGLIYRMVKPKIVLLIFVSGKIVLTG-AKSREEIYQ-AFENIYPIL 171 (174)
T ss_pred EeCCccCceEEEEecCCcEEEEEeCCCEEEEEe-cCCHHHHHH-HHHHHHHHH
Confidence 34421 1110 01244566777789998777 578777776 344444444
No 54
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=33.53 E-value=1.5e+02 Score=20.54 Aligned_cols=19 Identities=42% Similarity=0.387 Sum_probs=13.4
Q ss_pred cCCHHHHHHHHHHHHHHHhh
Q 018603 170 AKSKKQAEMSAAKVAYMRLK 189 (353)
Q Consensus 170 G~SKK~AKq~AA~~AL~~L~ 189 (353)
..+|++|+..+++ ++..|.
T Consensus 24 F~TkkeA~~~~~~-~~~~~~ 42 (46)
T PF14657_consen 24 FKTKKEAEKALAK-IEAELE 42 (46)
T ss_pred CCcHHHHHHHHHH-HHHHHH
Confidence 6999999996665 444443
No 55
>PF09282 Mago-bind: Mago binding; InterPro: IPR015362 Members of this family adopt a structure consisting of a small globular all-beta-domain, with a three-stranded beta-sheet and a contiguous beta-hairpin. They bind to Mago alpha-helices via extensive electrostatic interactions and at a beta2-beta3 loop via hydrophobic interactions []. ; GO: 0005515 protein binding; PDB: 1RK8_C.
Probab=32.40 E-value=16 Score=23.30 Aligned_cols=21 Identities=52% Similarity=0.615 Sum_probs=10.2
Q ss_pred hHHhhhhcccccccEEEccCC
Q 018603 305 IAQSVRADGRTCKIIRVRPNR 325 (353)
Q Consensus 305 i~~~~~~~~~~~~~~~~~~~~ 325 (353)
|.-..|.+|++++-|||+|-|
T Consensus 5 I~~s~RpDGt~RK~irvr~GY 25 (27)
T PF09282_consen 5 IPASQRPDGTWRKEIRVRPGY 25 (27)
T ss_dssp E--EE-TTS-EE--EE--TT-
T ss_pred cCcccCCCCCcccceeccCCc
Confidence 344678999999999999876
No 56
>PLN00062 TATA-box-binding protein; Provisional
Probab=27.59 E-value=4.7e+02 Score=23.79 Aligned_cols=113 Identities=19% Similarity=0.186 Sum_probs=63.7
Q ss_pred CccEEEEEEEccEeeecccccCCcchhHHHHHHHHHHHhhcccCCC---C---------cchhHHHHHHHHHHHhcCCCC
Q 018603 72 ASRFKCKVTIDGQTYESHQFFPTLKEAEHEAAKVALMSLSLDKFQQ---D---------DSVLYKNVLQELAQKEAYALP 139 (353)
Q Consensus 72 ~~~F~~~V~I~g~~~~ag~Gg~SKK~Akq~AAk~AL~~L~~~~~~~---d---------~~~n~ks~LqE~~qk~~~~~P 139 (353)
++.=++.++-.|+.+..| +.|..+|+. |++..++.|.+.++.. + -.....=.|..++..+.- .-
T Consensus 45 ~Pk~t~lIF~SGKiviTG--aks~e~a~~-a~~~~~~~L~~lg~~~~~~~f~v~NIvas~~l~~~i~L~~la~~~~~-~~ 120 (179)
T PLN00062 45 EPKTTALIFASGKMVCTG--AKSEHDSKL-AARKYARIIQKLGFPAKFKDFKIQNIVGSCDVKFPIRLEGLAYAHGA-FS 120 (179)
T ss_pred CCcEEEEEECCCeEEEEe--cCCHHHHHH-HHHHHHHHHHHcCCCcCCCccEEEEEEEEEECCCcccHHHHHHhchh-hc
Confidence 444566677789887765 578888877 5566666676554311 1 012223346666653221 11
Q ss_pred ceEEec-cCC---CCCCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhC
Q 018603 140 VYNTKQ-SGE---SHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKE 190 (353)
Q Consensus 140 ~Y~~~~-~Gp---~H~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~ 190 (353)
+|+=+. .|- -..+.-++.+...|+..-.| +++..+++. |-...+..|..
T Consensus 121 ~YePE~fPgliyr~~~pk~~~liF~sGkvvitG-aks~~~~~~-ai~~i~p~L~~ 173 (179)
T PLN00062 121 SYEPELFPGLIYRMKQPKIVLLIFVSGKIVITG-AKVREEIYT-AFENIYPVLTE 173 (179)
T ss_pred ccCcccCceEEEEeCCCcEEEEEeCCCEEEEEe-cCCHHHHHH-HHHHHHHHHHH
Confidence 333110 000 01245667777799998777 678888877 45666666644
No 57
>PF12098 DUF3574: Protein of unknown function (DUF3574); InterPro: IPR021957 This family of proteins is functionally uncharacterised. This protein is found in bacteria and viruses. Proteins in this family are typically between 144 to 163 amino acids in length. This protein has a conserved TPRF sequence motif.
Probab=27.13 E-value=38 Score=28.37 Aligned_cols=16 Identities=44% Similarity=0.889 Sum_probs=14.7
Q ss_pred CCCCceeeecCCcEEE
Q 018603 330 FPEGSSVLHRDNQWVA 345 (353)
Q Consensus 330 ~~~~~~~~~~~~~~~~ 345 (353)
||.|.||+-..++|..
T Consensus 34 FpdGlTv~Da~GqW~~ 49 (104)
T PF12098_consen 34 FPDGLTVLDAYGQWRD 49 (104)
T ss_pred CCCCceEEeccceEec
Confidence 6789999999999987
No 58
>PF10621 FpoO: F420H2 dehydrogenase subunit FpoO ; InterPro: IPR018288 This entry represents the FpoO subunit of membrane-bound multi-subunit F420H2 dehydrogenase, which oxidises the reduced coenzyme F420H2 to coenzyme F420 and feeds the electrons via an FeS cluster into an energy-conserving electron transport chain [, ]. This enzyme plays a role in the methanogenic pathway in methanogenic archaea. Reduced coenzyme F420H2 is the major cytoplasmic electron carrier of methanogens and a reversible hydride donor, much like NADH []. F420H2 + COB-S-S-CoM = F420 + CoM-SH + CoB-SH Where CoB-S-S-CoM (the heterosulphide of 2-mercaptoethanesulphonate and 7-mercaptoheptanoylthreonine phosphate) is the terminal electron acceptor of the methanogenic pathway, and is reduced with the concomitant generation of a transmembrane proton potential and ATP synthesis. The FpoO subunit of F420H2 dehydrogenase probably participates in the reduction of methanophenazine, where it acts as a special mechanism for the reduction of the methanogenic cofactor [].
Probab=25.29 E-value=35 Score=28.99 Aligned_cols=23 Identities=35% Similarity=0.634 Sum_probs=17.7
Q ss_pred ccccccc-------EEEccCCCCccCCCCc
Q 018603 312 DGRTCKI-------IRVRPNRPNMKFPEGS 334 (353)
Q Consensus 312 ~~~~~~~-------~~~~~~~~~~~~~~~~ 334 (353)
++-||++ |||+.-.=+++||+|+
T Consensus 3 DCdLCg~~~Pt~~PvrV~~Pr~~~~yPeGv 32 (119)
T PF10621_consen 3 DCDLCGRAIPTVCPVRVFAPRLTLAYPEGV 32 (119)
T ss_pred ccchhcCcCCceeEEEeecchhhccCcchH
Confidence 4556654 7888777899999996
No 59
>cd04516 TBP_eukaryotes eukaryotic TATA box binding protein (TBP): Present in archaea and eukaryotes, TBPs are transcription factors that recognize promoters and initiate transcription. TBP has been shown to be an essential component of three different transcription initiation complexes: SL1, TFIID and TFIIIB, directing transcription by RNA polymerases I, II and III, respectively. TBP binds directly to the TATA box promoter element, where it nucleates polymerase assembly, thus defining the transcription start site. TBP's binding in the minor groove induces a dramatic DNA bending while its own structure barely changes. The conserved core domain of TBP, which binds to the TATA box, has a bipartite structure, with intramolecular symmetry generating a saddle-shaped structure that sits astride the DNA.
Probab=22.79 E-value=1.9e+02 Score=26.20 Aligned_cols=39 Identities=18% Similarity=0.236 Sum_probs=30.5
Q ss_pred CCeEEEEEEECCEEeeecccCCHHHHHHHHHHHHHHHhhCC
Q 018603 151 APTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEP 191 (353)
Q Consensus 151 ~~~F~~~V~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~ 191 (353)
.|.-++.+.-.|+..-+| ++|..+|+. |++..++.|+..
T Consensus 45 ~Pk~t~lIF~SGKiviTG-aks~e~a~~-a~~~i~~~L~~~ 83 (174)
T cd04516 45 EPKTTALIFSSGKMVCTG-AKSEDDSKL-AARKYARIIQKL 83 (174)
T ss_pred CCcEEEEEECCCeEEEEe-cCCHHHHHH-HHHHHHHHHHHc
Confidence 566778888899998777 699999998 567776777654
No 60
>TIGR03455 HisG_C-term ATP phosphoribosyltransferase, C-terminal domain. This domain corresponds to the C-terminal third of the HisG protein. It is absent in many lineages.
Probab=20.74 E-value=63 Score=26.62 Aligned_cols=16 Identities=38% Similarity=0.615 Sum_probs=12.9
Q ss_pred Cceeee-cCCcEEEEec
Q 018603 333 GSSVLH-RDNQWVAWTD 348 (353)
Q Consensus 333 ~~~~~~-~~~~~~~~~~ 348 (353)
|=||.| .|+.||||..
T Consensus 53 ~PTVs~l~~~~w~AV~~ 69 (100)
T TIGR03455 53 GPTVSPLADEGWVAVHA 69 (100)
T ss_pred CCCcCcCCCCCeEEEEE
Confidence 558888 7788999974
No 61
>COG1944 Uncharacterized conserved protein [Function unknown]
Probab=20.06 E-value=4.2e+02 Score=27.39 Aligned_cols=68 Identities=18% Similarity=0.035 Sum_probs=44.4
Q ss_pred hHHHHHHHHHHHhcCCCCceEEeccCCC--CCCeEEEEE-EECCEEeeecccCCHHHHHHHHHHHHHHHhhCCC
Q 018603 122 LYKNVLQELAQKEAYALPVYNTKQSGES--HAPTFVSTV-EVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN 192 (353)
Q Consensus 122 n~ks~LqE~~qk~~~~~P~Y~~~~~Gp~--H~~~F~~~V-~I~G~~~~~G~G~SKK~AKq~AA~~AL~~L~~~~ 192 (353)
+-...||.++++.|+.. ..++. +-+ .-|.|.... .--+..+..|.|.||++|+-.|...+++.+..+.
T Consensus 18 et~~~~q~~l~~~gitr-I~~~t--~Ld~~gIPv~~a~rp~~~~~~~~~GKGat~~~A~vSAimE~~Er~sAe~ 88 (398)
T COG1944 18 ETLAAFQPLLAALGITR-IEDIT--WLDRLGIPVVWAVRPRALGLSVSQGKGATKAAARVSALMEALERLSAEY 88 (398)
T ss_pred HHHHHHHHHHHhcCcee-eeeee--ccccCCCceEEEeeeccccceeecCCCCCHHHHHHHHHHHHHHHhhccc
Confidence 35667888888887752 12222 222 133333222 1125566779999999999999999999988765
Done!