Query 021849
Match_columns 306
No_of_seqs 117 out of 310
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 06:08:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021849.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021849hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00048 DSRM Double-stranded R 99.4 2E-12 4.4E-17 90.0 7.3 54 2-55 14-68 (68)
2 smart00358 DSRM Double-strande 99.4 3E-12 6.4E-17 89.7 7.5 51 5-55 15-66 (67)
3 PHA02701 ORF020 dsRNA-binding 99.3 2.9E-12 6.3E-17 114.2 7.2 52 7-58 126-178 (183)
4 PHA03103 double-strand RNA-bin 99.3 4.7E-12 1E-16 112.6 7.0 52 7-58 126-178 (183)
5 PRK12371 ribonuclease III; Rev 99.3 7E-12 1.5E-16 112.8 7.4 55 3-57 176-231 (235)
6 COG0571 Rnc dsRNA-specific rib 99.3 8.8E-12 1.9E-16 113.6 7.6 57 2-58 175-232 (235)
7 PF00035 dsrm: Double-stranded 99.2 2.1E-11 4.5E-16 86.2 6.6 52 4-55 15-67 (67)
8 PRK14718 ribonuclease III; Pro 99.0 2.9E-10 6.3E-15 112.8 7.0 55 2-56 165-221 (467)
9 PRK12372 ribonuclease III; Rev 99.0 5.9E-10 1.3E-14 109.3 8.0 57 2-58 165-223 (413)
10 PF14709 DND1_DSRM: double str 98.4 7.3E-07 1.6E-11 69.2 6.4 55 1-55 14-79 (80)
11 KOG3732 Staufen and related do 98.2 2.3E-06 5E-11 82.8 6.4 55 4-59 53-108 (339)
12 KOG1817 Ribonuclease [RNA proc 98.1 5.9E-06 1.3E-10 83.0 7.1 55 4-58 449-504 (533)
13 KOG3732 Staufen and related do 97.8 5.7E-05 1.2E-09 73.3 6.6 57 3-60 157-214 (339)
14 KOG2777 tRNA-specific adenosin 97.6 0.00015 3.1E-09 74.1 6.5 55 5-60 102-157 (542)
15 KOG3769 Ribonuclease III domai 96.4 0.0031 6.7E-08 61.3 3.6 59 2-60 246-306 (333)
16 KOG4334 Uncharacterized conser 96.1 0.0051 1.1E-07 63.3 3.6 55 3-58 390-444 (650)
17 PF03368 Dicer_dimer: Dicer di 86.7 1.7 3.7E-05 34.3 5.2 52 4-60 20-76 (90)
18 KOG2777 tRNA-specific adenosin 81.5 1 2.2E-05 46.8 2.5 49 6-60 10-59 (542)
19 PF14954 LIX1: Limb expression 71.2 7.2 0.00016 37.3 4.8 63 4-84 45-109 (252)
20 KOG2334 tRNA-dihydrouridine sy 51.7 3.8 8.1E-05 42.2 -0.8 50 4-56 391-441 (477)
21 KOG0921 Dosage compensation co 50.8 16 0.00034 41.3 3.6 52 5-56 17-69 (1282)
22 PF02169 LPP20: LPP20 lipoprot 46.5 24 0.00052 26.5 3.1 29 30-58 13-41 (92)
23 PF14657 Integrase_AP2: AP2-li 45.2 64 0.0014 22.4 4.8 19 31-49 18-36 (46)
24 KOG3792 Transcription factor N 35.7 32 0.00069 37.7 3.0 45 10-55 397-441 (816)
25 PF10195 Phospho_p8: DNA-bindi 31.9 28 0.00061 26.9 1.4 13 33-45 23-35 (60)
26 PF07771 TSGP1: Tick salivary 24.2 61 0.0013 27.7 2.3 11 98-108 104-114 (120)
27 PRK13683 hypothetical protein; 22.3 1E+02 0.0023 25.6 3.2 34 44-83 21-54 (87)
28 TIGR01021 rpsE_bact ribosomal 20.9 97 0.0021 27.4 2.9 37 20-56 23-63 (154)
29 KOG3792 Transcription factor N 20.8 76 0.0016 35.0 2.7 48 7-55 520-569 (816)
No 1
>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=99.37 E-value=2e-12 Score=89.98 Aligned_cols=54 Identities=26% Similarity=0.370 Sum_probs=49.7
Q ss_pred CCCCceEEe-eccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHH
Q 021849 2 NYAIPLYQC-RKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAI 55 (306)
Q Consensus 2 nL~lP~Y~i-~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL 55 (306)
++..|.|.+ ...||+|.+.|+|.|.|+|+.++.|.|+|||+|++.||+.||..|
T Consensus 14 ~~~~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~sKk~Ak~~AA~~al~~L 68 (68)
T cd00048 14 GKPLPEYELVEEEGPDHAPRFTVEVTVGGKITGEGEGSSKKEAKQNAAEAALRKL 68 (68)
T ss_pred CCCCCeEEEeeeeCCCCCCeEEEEEEECCEEEEEeecCCHHHHHHHHHHHHHHhC
Confidence 467899986 668999999999999999999999999999999999999999865
No 2
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=99.36 E-value=3e-12 Score=89.73 Aligned_cols=51 Identities=31% Similarity=0.411 Sum_probs=47.9
Q ss_pred CceEEeec-cCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHH
Q 021849 5 IPLYQCRK-DEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAI 55 (306)
Q Consensus 5 lP~Y~i~k-sGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL 55 (306)
.|.|.+.. .||+|.+.|+|+|.|+|+.++.|.|+|||+|++.||+.||..|
T Consensus 15 ~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~sKk~Ak~~AA~~al~~L 66 (67)
T smart00358 15 PPEYELVKEEGPDHAPRFTVTVKVGGEYTGEGEGSSKKEAKQRAAEAALRSL 66 (67)
T ss_pred CCEEEEEeeeCCCCCCcEEEEEEECCEEEEEeccCCHHHHHHHHHHHHHHhc
Confidence 79998655 7999999999999999999999999999999999999999876
No 3
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=99.32 E-value=2.9e-12 Score=114.21 Aligned_cols=52 Identities=19% Similarity=0.192 Sum_probs=48.1
Q ss_pred eEE-eeccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhh
Q 021849 7 LYQ-CRKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSS 58 (306)
Q Consensus 7 ~Y~-i~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~ 58 (306)
.|. +..+||+|.++|+++|+|+|+.|+.|.|+|||+|||+||+.||..|..+
T Consensus 126 ~Y~li~~~GpdH~~~Ftv~V~V~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~~~ 178 (183)
T PHA02701 126 EFCETRSGGHDHCPLFTCTIVVSGKVVATASGCSKKLARHAACADALTILINN 178 (183)
T ss_pred eEEEEEeECCCCCceEEEEEEECCEEEEEEEeCCHHHHHHHHHHHHHHHHHhh
Confidence 896 5567999999999999999999999999999999999999999998644
No 4
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=99.30 E-value=4.7e-12 Score=112.62 Aligned_cols=52 Identities=27% Similarity=0.275 Sum_probs=47.6
Q ss_pred eE-EeeccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhh
Q 021849 7 LY-QCRKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSS 58 (306)
Q Consensus 7 ~Y-~i~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~ 58 (306)
.| .+...||+|.++|+++|+|+|+.|+.|.|+|||+|||+||+.||..|...
T Consensus 126 ~y~~i~~~Gp~H~p~F~v~V~I~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~~~ 178 (183)
T PHA03103 126 WSINITSSGPSHSPTFTASVIISGIKFKPAIGSTKKEAKNNAAKLAMDKILNY 178 (183)
T ss_pred eEEEEEeeCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHHHhc
Confidence 46 56678999999999999999999999999999999999999999998543
No 5
>PRK12371 ribonuclease III; Reviewed
Probab=99.28 E-value=7e-12 Score=112.79 Aligned_cols=55 Identities=22% Similarity=0.287 Sum_probs=50.4
Q ss_pred CCCceEEe-eccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhh
Q 021849 3 YAIPLYQC-RKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQS 57 (306)
Q Consensus 3 L~lP~Y~i-~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~ 57 (306)
...|.|.+ ..+||+|.++|+|+|+|+|+.+|.|.|+|||+|||.||+.||..|..
T Consensus 176 ~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~~g~G~sKK~Ae~~AA~~al~~~~~ 231 (235)
T PRK12371 176 GVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPETGEGRSKRAAEQVAAEKMLEREGV 231 (235)
T ss_pred CCCCeEEEEEeecCCCCCeEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHhhh
Confidence 46799975 46799999999999999999999999999999999999999999854
No 6
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=99.27 E-value=8.8e-12 Score=113.56 Aligned_cols=57 Identities=26% Similarity=0.390 Sum_probs=51.7
Q ss_pred CCCCceEEee-ccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhh
Q 021849 2 NYAIPLYQCR-KDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSS 58 (306)
Q Consensus 2 nL~lP~Y~i~-ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~ 58 (306)
.+.+|.|++. .+||+|++.|+++|+|+|..+|.|.|+|||+|||.||+.||..|...
T Consensus 175 ~~~~p~Y~~v~~~g~~h~~~F~v~v~v~~~~~g~G~G~skk~AEq~AA~~al~~l~~~ 232 (235)
T COG0571 175 GLVLPEYRLVKEEGPAHDKEFTVEVAVGGKELGTGKGRSKKEAEQAAAEQALKKLGVK 232 (235)
T ss_pred CCCCCeEEEeeccCCCCCceEEEEEEECCeeEEEecccCHHHHHHHHHHHHHHHhccc
Confidence 3678999754 56999999999999999999999999999999999999999998643
No 7
>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=99.24 E-value=2.1e-11 Score=86.21 Aligned_cols=52 Identities=35% Similarity=0.493 Sum_probs=44.9
Q ss_pred CCceEEeeccCCCCC-ceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHH
Q 021849 4 AIPLYQCRKDEASGK-VQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAI 55 (306)
Q Consensus 4 ~lP~Y~i~ksGPdHd-k~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL 55 (306)
.+|.|.+...+|+|. +.|.|+|+|+|..|+.|.|.|||+|++.||+.||..|
T Consensus 15 ~~~~~~~~~~~~~~~~~~f~~~~~i~~~~~~~g~g~sKk~Ak~~AA~~al~~L 67 (67)
T PF00035_consen 15 PPPYYYIEEEGPSHHRPRFICTVYIDGKEYGEGEGSSKKEAKQQAAKKALQKL 67 (67)
T ss_dssp SEEEEEEEEESSSSSSEEEEEEEEETTEEEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred CCCEEEEEEeCCCCCCceEEEEEEECCEEEeEeccCCHHHHHHHHHHHHHHhC
Confidence 344445666777776 8999999999999999999999999999999999876
No 8
>PRK14718 ribonuclease III; Provisional
Probab=99.05 E-value=2.9e-10 Score=112.77 Aligned_cols=55 Identities=24% Similarity=0.395 Sum_probs=49.9
Q ss_pred CCCCceEEe-eccCCCCCceEEEEEEECCE-EeeCCCCCCHHHHHHHHHHHHHHHHh
Q 021849 2 NYAIPLYQC-RKDEASGKVQFSCTVEIGDI-RYIGGAAKTKKEAEIKAARTALLAIQ 56 (306)
Q Consensus 2 nL~lP~Y~i-~ksGPdHdk~FtAeV~IgGk-~yG~G~GrSKKEAEQaAAK~AL~aL~ 56 (306)
.+.+|+|.+ ..+||+|++.|+++|+|+|. .+|.|+|+|||+|||.||+.||..|.
T Consensus 165 ~~~~PeY~li~esGPdH~k~F~V~V~v~g~~~~G~G~G~SKKeAEQ~AAk~AL~kL~ 221 (467)
T PRK14718 165 KIALPTYTVVATHGAAHNQQFEVECTVPKLDIKVSGSGASRRAAEQAAAKKALDEVT 221 (467)
T ss_pred CCCCCeeEEeeeecCCCCCeEEEEEEECCeeeEEEEEcCCHHHHHHHHHHHHHHHhc
Confidence 357899974 56799999999999999995 56999999999999999999999998
No 9
>PRK12372 ribonuclease III; Reviewed
Probab=99.02 E-value=5.9e-10 Score=109.30 Aligned_cols=57 Identities=23% Similarity=0.352 Sum_probs=50.7
Q ss_pred CCCCceEE-eeccCCCCCceEEEEEEECC-EEeeCCCCCCHHHHHHHHHHHHHHHHhhh
Q 021849 2 NYAIPLYQ-CRKDEASGKVQFSCTVEIGD-IRYIGGAAKTKKEAEIKAARTALLAIQSS 58 (306)
Q Consensus 2 nL~lP~Y~-i~ksGPdHdk~FtAeV~IgG-k~yG~G~GrSKKEAEQaAAK~AL~aL~~~ 58 (306)
.+.+|+|. +...||+|++.|+++|+|+| ..++.|.|+|||+|||.||+.||..|...
T Consensus 165 ~~~~P~Y~lv~e~Gp~h~~~F~V~V~v~g~~~~g~G~G~SKKeAEQ~AAr~AL~kL~~~ 223 (413)
T PRK12372 165 KIALPTYTVVATHGAAHNQQFEVECTVPKLDVKVSGSGASRRAAEQAAAKKALDEVMAA 223 (413)
T ss_pred CCCCCeeEEeeeecCCCCceEEEEEEECCeEEEEEEEeCCHHHHHHHHHHHHHHHHhcc
Confidence 35789997 45679999999999999999 56789999999999999999999999843
No 10
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=98.41 E-value=7.3e-07 Score=69.25 Aligned_cols=55 Identities=29% Similarity=0.368 Sum_probs=47.0
Q ss_pred CCCCCceEEee-ccCCCCCceEEEEEEECCEEee---------CCC-CCCHHHHHHHHHHHHHHHH
Q 021849 1 MNYAIPLYQCR-KDEASGKVQFSCTVEIGDIRYI---------GGA-AKTKKEAEIKAARTALLAI 55 (306)
Q Consensus 1 MnL~lP~Y~i~-ksGPdHdk~FtAeV~IgGk~yG---------~G~-GrSKKEAEQaAAK~AL~aL 55 (306)
+.++.|.|.+. ..||+|.+.|+..|.|.+..+- .+. -.+||+|...||+.||..|
T Consensus 14 ~~W~~P~y~l~~~~Gp~~~~~F~ykV~i~~~~~~~~~~~~~~~p~~~~~~~k~Ak~~AA~~~L~~L 79 (80)
T PF14709_consen 14 NKWGPPVYELVSESGPDHRKLFLYKVVIPGLEYPFEGSIECFGPTKPSSTKKEAKESAAQQALQAL 79 (80)
T ss_pred cCCCCCeEEEEeccCCCccEEEEEEEEEcCCCCCCcceEEEccCCCcCccHHHHHHHHHHHHHHhc
Confidence 35789999865 5799999999999999998773 334 4899999999999999887
No 11
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=98.21 E-value=2.3e-06 Score=82.75 Aligned_cols=55 Identities=24% Similarity=0.329 Sum_probs=49.1
Q ss_pred CCceEEeec-cCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhhc
Q 021849 4 AIPLYQCRK-DEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSSA 59 (306)
Q Consensus 4 ~lP~Y~i~k-sGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~s 59 (306)
..|.|++.+ +||.|++.|++.|.|+ ..-+.|.|+|||.|.+.||.++|..|+...
T Consensus 53 ~~v~fevl~eeGp~H~~~fv~rvtvg-~~~a~GeG~sKK~AKh~AA~~~L~~lk~l~ 108 (339)
T KOG3732|consen 53 LTPVYEVLREEGPPHMPNFVFRVTVG-EITATGEGKSKKLAKHRAAEALLKELKKLP 108 (339)
T ss_pred CCcceeeeeccCCccCCCeEEEEEEe-eeEEecCCCchhHHHHHHHHHHHHHHhcCC
Confidence 457898665 8999999999999998 778999999999999999999999997554
No 12
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=98.11 E-value=5.9e-06 Score=82.97 Aligned_cols=55 Identities=25% Similarity=0.372 Sum_probs=50.1
Q ss_pred CCceEE-eeccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhh
Q 021849 4 AIPLYQ-CRKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSS 58 (306)
Q Consensus 4 ~lP~Y~-i~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~ 58 (306)
.+|.|. +...||.+++.|++.|+++|+.+|.|+|++.|.||..||.+||+.+...
T Consensus 449 dip~y~V~~~~gpa~~r~y~Vavyf~gkrlat~~G~nik~Ae~rAA~~ALe~~~~d 504 (533)
T KOG1817|consen 449 DIPLYKVLGAKGPANDRNYKVAVYFKGKRLATGVGSNIKQAEMRAAMQALENLKMD 504 (533)
T ss_pred CCceEEEecccCCCCCCceEEEEEECCEEEeeccCchHhHHHHHHHHHHHHHHHhh
Confidence 478886 4558999999999999999999999999999999999999999998754
No 13
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=97.75 E-value=5.7e-05 Score=73.33 Aligned_cols=57 Identities=18% Similarity=0.286 Sum_probs=49.5
Q ss_pred CCCceEE-eeccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhhcc
Q 021849 3 YAIPLYQ-CRKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSSAS 60 (306)
Q Consensus 3 L~lP~Y~-i~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~s~ 60 (306)
+.+|+|+ +.+.|++|.+.|+++|.|.+. ...|.|.|||.|.++||..-|+.|.....
T Consensus 157 ~k~P~yelv~E~G~~~~rEFv~q~sv~~~-~~~GkG~sKKiAKRnAAeamLe~l~~~~~ 214 (339)
T KOG3732|consen 157 WKLPEYELVQESGVPHRREFVIQCSVENF-TEEGKGPSKKIAKRNAAEAMLESLGFVKP 214 (339)
T ss_pred CCCCceEEEeccCCCccceEEEEEEecce-eeecCCchHHHHHHHHHHHHHHHhccCCC
Confidence 5789997 556799999999999999875 67899999999999999999999864433
No 14
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=97.55 E-value=0.00015 Score=74.07 Aligned_cols=55 Identities=22% Similarity=0.295 Sum_probs=48.9
Q ss_pred CceEE-eeccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhhcc
Q 021849 5 IPLYQ-CRKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSSAS 60 (306)
Q Consensus 5 lP~Y~-i~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~s~ 60 (306)
-|.|. +...||.|.+.|.+.|.|||+.|-.| |+|||+|.+.||..||..|.....
T Consensus 102 ~~~~~~~~~~~~~~~~~F~~~~~vdg~~~~~~-~~sKk~ak~~aa~~al~~l~~~~~ 157 (542)
T KOG2777|consen 102 GLFFDFVNESGPQHAPKFVMSVVVDGRWFEGG-GRSKKEAKQEAAMAALQVLFKIDE 157 (542)
T ss_pred ccceeeeccCCCCCCceEEEEEEECCEEccCC-CcchHHHHHHHHHHHHHHHHhccC
Confidence 36776 55689999999999999999999999 999999999999999999875544
No 15
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=96.36 E-value=0.0031 Score=61.32 Aligned_cols=59 Identities=20% Similarity=0.171 Sum_probs=50.1
Q ss_pred CCCCceEEeec-cC-CCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhhcc
Q 021849 2 NYAIPLYQCRK-DE-ASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSSAS 60 (306)
Q Consensus 2 nL~lP~Y~i~k-sG-PdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~s~ 60 (306)
++..|+|++.. +| -.-.+.|.|-++-|-+.+|.|.|.|-|.||+.||++||.+|=.-.+
T Consensus 246 ~l~epe~Rll~esGr~S~~PvyvVgiYs~kkllGqG~Gesl~~A~e~AA~dAL~k~y~~tp 306 (333)
T KOG3769|consen 246 GLKEPESRLLAESGRNSAEPVYVVGIYSGKKLLGQGQGESLKLAEEQAARDALIKLYDHTP 306 (333)
T ss_pred CCCCchhHHHHHhccCccCceEEEEeecCchhhccCcchHHHHHHHHHHHHHHHHHHcCCh
Confidence 46789997554 45 4556799999999999999999999999999999999999876554
No 16
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=96.07 E-value=0.0051 Score=63.33 Aligned_cols=55 Identities=24% Similarity=0.382 Sum_probs=45.3
Q ss_pred CCCceEEeeccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhh
Q 021849 3 YAIPLYQCRKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSS 58 (306)
Q Consensus 3 L~lP~Y~i~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~ 58 (306)
..+|+|.+..-. ...-.|.+.|.+++-.||.|.|.|||.|...|||++|+.|-..
T Consensus 390 k~~pvyef~e~~-n~stpysa~v~~d~~~yGsG~g~sKK~Ak~~AAR~tLeiLIPd 444 (650)
T KOG4334|consen 390 KSLPVYEFAEND-NNSTPYSAGVLPDLFPYGSGVGASKKTAKLVAARDTLEILIPD 444 (650)
T ss_pred hhcceeehhhcc-CCCCcccccccccccccccccccchHHHHHHHHHHHHHHhcch
Confidence 367999655421 2234899999999999999999999999999999999998644
No 17
>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=86.65 E-value=1.7 Score=34.30 Aligned_cols=52 Identities=23% Similarity=0.157 Sum_probs=34.3
Q ss_pred CCceEEeeccCCCCCceEEEEEEECCE-----EeeCCCCCCHHHHHHHHHHHHHHHHhhhcc
Q 021849 4 AIPLYQCRKDEASGKVQFSCTVEIGDI-----RYIGGAAKTKKEAEIKAARTALLAIQSSAS 60 (306)
Q Consensus 4 ~lP~Y~i~ksGPdHdk~FtAeV~IgGk-----~yG~G~GrSKKEAEQaAAK~AL~aL~~~s~ 60 (306)
..|.|.+...+. .|.|+|.+-.. ..|. .-+|||.|.+.||=.|+..|.....
T Consensus 20 ~~P~~~~~~~~~----~~~c~v~LP~~~pi~~i~g~-~~~sk~~AK~sAAf~Ac~~L~~~g~ 76 (90)
T PF03368_consen 20 LKPEFEIEKIGS----GFICTVILPINSPIRSIEGP-PMRSKKLAKRSAAFEACKKLHEAGE 76 (90)
T ss_dssp SS-EEEEEE--G-----EEEEEE--TT-SS--EEEE---SSHHHHHHHHHHHHHHHHHHH-S
T ss_pred CCceEEEEEcCC----cEEEEEECCCCCCCCeEEcc-ccccHHHHHHHHHHHHHHHHHHcCC
Confidence 358998776543 89999988652 3444 6799999999999999999986643
No 18
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=81.54 E-value=1 Score=46.81 Aligned_cols=49 Identities=22% Similarity=0.259 Sum_probs=42.4
Q ss_pred ceEE-eeccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHHhhhcc
Q 021849 6 PLYQ-CRKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAIQSSAS 60 (306)
Q Consensus 6 P~Y~-i~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL~~~s~ 60 (306)
+.|. +...||.|.++|.++|.|+|..+- ||.|-+.||..|+..+..-.+
T Consensus 10 ~~~~~~~q~~p~~~p~~~~~~~v~~~~~~------~k~~~~~~a~~~~~~~~~~~~ 59 (542)
T KOG2777|consen 10 LQYNLVSQTGPVHAPLFPFSVEVNGQEFP------KKKAKQRAAEKALRVFLQFPE 59 (542)
T ss_pred cccccccccCCCCCCcccceEEecccccc------cccccchhhhHHHHHHhhcCC
Confidence 6785 666899999999999999998766 999999999999998875544
No 19
>PF14954 LIX1: Limb expression 1
Probab=71.25 E-value=7.2 Score=37.28 Aligned_cols=63 Identities=27% Similarity=0.318 Sum_probs=45.6
Q ss_pred CCceEEeeccCCCCCceEEEEEEECC-EEeeCCC-CCCHHHHHHHHHHHHHHHHhhhcccccCCCCCCcceeeecCCcCC
Q 021849 4 AIPLYQCRKDEASGKVQFSCTVEIGD-IRYIGGA-AKTKKEAEIKAARTALLAIQSSASELSGNSAGNTQLTVLPSRKRG 81 (306)
Q Consensus 4 ~lP~Y~i~ksGPdHdk~FtAeV~IgG-k~yG~G~-GrSKKEAEQaAAK~AL~aL~~~s~e~~~~~~G~~~l~vlP~~k~~ 81 (306)
.++.|+ +.|...+.|.|-|.+-| -.||.=+ =.||-||.+.|||.||.-= - .-..|++|-+
T Consensus 45 ~lv~YE---s~ps~~ppyVcyVTLPGGSCFGnfq~C~tkAEARR~AAKiALmNS--v-------------fNEhPsRrIt 106 (252)
T PF14954_consen 45 ALVVYE---SVPSPSPPYVCYVTLPGGSCFGNFQNCPTKAEARRSAAKIALMNS--V-------------FNEHPSRRIT 106 (252)
T ss_pred Ceeeee---ccCCCCCCeEEEEeCCCCCccCccccCCcHHHHHhhhHHHHHHHH--H-------------HhcCCccccc
Confidence 456675 33666678999999865 5566655 4899999999999998641 1 2346888887
Q ss_pred CCc
Q 021849 82 PEV 84 (306)
Q Consensus 82 ~e~ 84 (306)
+|-
T Consensus 107 ~eF 109 (252)
T PF14954_consen 107 DEF 109 (252)
T ss_pred HHH
Confidence 775
No 20
>KOG2334 consensus tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=51.71 E-value=3.8 Score=42.20 Aligned_cols=50 Identities=26% Similarity=0.230 Sum_probs=40.4
Q ss_pred CCceEEeeccCCCCCceEEEEEEECCEEeeCCCC-CCHHHHHHHHHHHHHHHHh
Q 021849 4 AIPLYQCRKDEASGKVQFSCTVEIGDIRYIGGAA-KTKKEAEIKAARTALLAIQ 56 (306)
Q Consensus 4 ~lP~Y~i~ksGPdHdk~FtAeV~IgGk~yG~G~G-rSKKEAEQaAAK~AL~aL~ 56 (306)
.-|.|++..- -++.|.+.+.++|+.|-.+.+ +++|-|||.||..||....
T Consensus 391 ~~~~ye~~~~---~d~lf~si~~~~~~~~~ssi~~~n~k~aeq~aa~~~l~~s~ 441 (477)
T KOG2334|consen 391 NGPVYETVQR---TDKLFSSIATARGQKYNSSIWSPNKKSAEQDAAIVALRKSN 441 (477)
T ss_pred CCcchhhhhh---hhhhhHHHhhhhhhhhhccccCcchhhHHHHHHHHHHHhcC
Confidence 3466754332 467999999999999999885 9999999999999988755
No 21
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=50.82 E-value=16 Score=41.33 Aligned_cols=52 Identities=25% Similarity=0.393 Sum_probs=45.6
Q ss_pred CceEEeeccCCCCCceEEEEEEECCEE-eeCCCCCCHHHHHHHHHHHHHHHHh
Q 021849 5 IPLYQCRKDEASGKVQFSCTVEIGDIR-YIGGAAKTKKEAEIKAARTALLAIQ 56 (306)
Q Consensus 5 lP~Y~i~ksGPdHdk~FtAeV~IgGk~-yG~G~GrSKKEAEQaAAK~AL~aL~ 56 (306)
-|.|.+..+|++...+|.|+|.+.+.. .+.|....||.|+..||++=..-|.
T Consensus 17 ~p~~d~~~~~~~~rqrf~ce~~~~~~~~~~~~~stnkKda~knac~dfv~ylv 69 (1282)
T KOG0921|consen 17 GPTYDIRSEGRKGRQRFLCEVRVEGFGYTAVGNSTNKKDAATNAAQDFCQYLV 69 (1282)
T ss_pred CcceehhhhcccchhheeeeeeccCCcceeeecccccchhhHHHHHHHHHHhh
Confidence 399999999999999999999999965 4567778899999999998877765
No 22
>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=46.47 E-value=24 Score=26.48 Aligned_cols=29 Identities=17% Similarity=0.189 Sum_probs=22.5
Q ss_pred EEeeCCCCCCHHHHHHHHHHHHHHHHhhh
Q 021849 30 IRYIGGAAKTKKEAEIKAARTALLAIQSS 58 (306)
Q Consensus 30 k~yG~G~GrSKKEAEQaAAK~AL~aL~~~ 58 (306)
.++|.|.|.+.+.|++.|-+.....|...
T Consensus 13 ~l~a~G~~~~~~~A~~~A~~~la~~i~~~ 41 (92)
T PF02169_consen 13 YLYAVGSGSSREQAKQDALANLAEQISVV 41 (92)
T ss_pred EEEEEEcccChHHHHHHHHHHHHHheeEE
Confidence 37899999999888888877766666533
No 23
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=45.21 E-value=64 Score=22.43 Aligned_cols=19 Identities=42% Similarity=0.317 Sum_probs=14.2
Q ss_pred EeeCCCCCCHHHHHHHHHH
Q 021849 31 RYIGGAAKTKKEAEIKAAR 49 (306)
Q Consensus 31 ~yG~G~GrSKKEAEQaAAK 49 (306)
..-..-.+||+||+..+++
T Consensus 18 ~~~k~GF~TkkeA~~~~~~ 36 (46)
T PF14657_consen 18 QKTKRGFKTKKEAEKALAK 36 (46)
T ss_pred EEEcCCCCcHHHHHHHHHH
Confidence 3445557999999997776
No 24
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=35.69 E-value=32 Score=37.69 Aligned_cols=45 Identities=20% Similarity=0.193 Sum_probs=37.3
Q ss_pred eeccCCCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHH
Q 021849 10 CRKDEASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAI 55 (306)
Q Consensus 10 i~ksGPdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL 55 (306)
+...+|-|.++|+.+|.++|..+ ...|+|||-|--.||+.-|...
T Consensus 397 vv~t~P~~~~~~t~e~r~~~~~~-~a~gps~~~~~wh~~~k~lq~~ 441 (816)
T KOG3792|consen 397 VVDTKPSHRPRRTMEVRVNGLPA-EAEGPSKKTAKWHAARKRLQNE 441 (816)
T ss_pred eeccCCcccchhhhhhhhcCCcc-ccCCcccccchHHHHHHHhhcc
Confidence 34479999999999999999765 4559999999999998665554
No 25
>PF10195 Phospho_p8: DNA-binding nuclear phosphoprotein p8; InterPro: IPR018792 P8 is a short 80-82 amino acid protein that is conserved from nematodes to humans. It carries at least one protein kinase C domain suggesting a possible role in signal transduction and it is thought to be a phosphoprotein, but the sites of phosphorylation and the kinases involved remain to be determined [].
Probab=31.89 E-value=28 Score=26.93 Aligned_cols=13 Identities=46% Similarity=0.450 Sum_probs=11.0
Q ss_pred eCCCCCCHHHHHH
Q 021849 33 IGGAAKTKKEAEI 45 (306)
Q Consensus 33 G~G~GrSKKEAEQ 45 (306)
|.|.|||||||+.
T Consensus 23 GsgKgRTK~E~~~ 35 (60)
T PF10195_consen 23 GSGKGRTKKEAAE 35 (60)
T ss_pred CCCCCccHHHHHH
Confidence 4788999999976
No 26
>PF07771 TSGP1: Tick salivary peptide group 1; InterPro: IPR011694 This entry contains a group of peptides derived from a salivary gland cDNA library of the tick Ixodes scapularis (Black-legged tick) []. Also present are peptides from a related tick species, Ixodes ricinus (Sheep tick). They are characterised by a putative signal peptide, indicative of secretion, and conserved cysteine residues.
Probab=24.23 E-value=61 Score=27.72 Aligned_cols=11 Identities=45% Similarity=0.196 Sum_probs=4.2
Q ss_pred ccchhhhhhhh
Q 021849 98 KKGRFKKKILK 108 (306)
Q Consensus 98 kK~~fkkK~~k 108 (306)
||.++|.|..|
T Consensus 104 kKk~~k~kk~k 114 (120)
T PF07771_consen 104 KKKPKKTKKPK 114 (120)
T ss_pred cCCCCcccCCc
Confidence 33333333333
No 27
>PRK13683 hypothetical protein; Provisional
Probab=22.29 E-value=1e+02 Score=25.64 Aligned_cols=34 Identities=24% Similarity=0.290 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHhhhcccccCCCCCCcceeeecCCcCCCC
Q 021849 44 EIKAARTALLAIQSSASELSGNSAGNTQLTVLPSRKRGPE 83 (306)
Q Consensus 44 EQaAAK~AL~aL~~~s~e~~~~~~G~~~l~vlP~~k~~~e 83 (306)
|..+|+..|..+...-. .|+.+++.+-|+|..+.
T Consensus 21 e~edA~alYq~I~~am~------sg~P~llELtCek~~~K 54 (87)
T PRK13683 21 EAEDAEALYQQIRQAMR------SGNPRLLELTCEKVEDK 54 (87)
T ss_pred cHHHHHHHHHHHHHHHh------cCCCcEEEEEecCcCCc
Confidence 55678888888875533 58999999999997654
No 28
>TIGR01021 rpsE_bact ribosomal protein S5, bacterial/organelle type. This model finds chloroplast ribosomal protein S5 as well as bacterial ribosomal protein S5. A candidate mitochondrial form (Saccharomyces cerevisiae YBR251W and its homolog) differs substantially and is not included in this model.
Probab=20.95 E-value=97 Score=27.39 Aligned_cols=37 Identities=32% Similarity=0.263 Sum_probs=29.8
Q ss_pred eEEEEEEECCE----EeeCCCCCCHHHHHHHHHHHHHHHHh
Q 021849 20 QFSCTVEIGDI----RYIGGAAKTKKEAEIKAARTALLAIQ 56 (306)
Q Consensus 20 ~FtAeV~IgGk----~yG~G~GrSKKEAEQaAAK~AL~aL~ 56 (306)
.|.+-|.|++. -||.|.++.-..|-+.|...|...|-
T Consensus 23 sf~alvvvGn~~G~vG~G~GKa~ev~~Ai~kA~~~Ak~nl~ 63 (154)
T TIGR01021 23 SFSALVVVGDGKGRVGFGFGKAKEVPDAIKKAVEKARKNLI 63 (154)
T ss_pred EEEEEEEEECCCCeEeeeeeecchHHHHHHHHHHHHHhCeE
Confidence 89999999875 37777777888888999888877764
No 29
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=20.82 E-value=76 Score=34.98 Aligned_cols=48 Identities=19% Similarity=0.002 Sum_probs=37.7
Q ss_pred eEE-eeccC-CCCCceEEEEEEECCEEeeCCCCCCHHHHHHHHHHHHHHHH
Q 021849 7 LYQ-CRKDE-ASGKVQFSCTVEIGDIRYIGGAAKTKKEAEIKAARTALLAI 55 (306)
Q Consensus 7 ~Y~-i~ksG-PdHdk~FtAeV~IgGk~yG~G~GrSKKEAEQaAAK~AL~aL 55 (306)
.|+ +.+.| -.|+++|...|.+.|+ +..|.+..+|-|-..|+-.|++.+
T Consensus 520 k~El~set~~gs~~~R~v~gV~rvG~-~akG~~~~gd~a~~~a~Lca~~pt 569 (816)
T KOG3792|consen 520 KYELPSETGTGSHDKRFVKGVMRVGI-LAKGLLLNGDRAVELALLCAEKPT 569 (816)
T ss_pred ceecccccCCCCCCceeeeeeeeeeh-hhccccccchHHHHHHHHhccCcc
Confidence 575 44555 7999999999999998 568899999988877776665544
Done!