Query 024945
Match_columns 260
No_of_seqs 153 out of 1050
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 08:42:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024945.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024945hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0571 Rnc dsRNA-specific rib 99.8 4.4E-18 9.6E-23 153.9 12.1 98 2-99 135-233 (235)
2 PRK12371 ribonuclease III; Rev 99.8 5.3E-18 1.1E-22 152.7 12.3 94 3-98 138-232 (235)
3 PRK14718 ribonuclease III; Pro 99.7 3E-17 6.4E-22 159.7 11.9 95 2-96 125-221 (467)
4 PHA03103 double-strand RNA-bin 99.7 4.6E-17 1E-21 142.6 10.5 89 8-97 88-177 (183)
5 cd00048 DSRM Double-stranded R 99.7 1.1E-16 2.3E-21 113.6 9.5 67 29-95 1-68 (68)
6 PHA02701 ORF020 dsRNA-binding 99.7 4.5E-17 9.8E-22 142.5 9.0 74 23-97 103-177 (183)
7 PRK12372 ribonuclease III; Rev 99.7 1.4E-16 3E-21 153.7 12.0 95 3-97 126-222 (413)
8 smart00358 DSRM Double-strande 99.7 3.1E-16 6.7E-21 111.6 9.0 66 30-96 1-67 (67)
9 PRK00102 rnc ribonuclease III; 99.7 8E-16 1.7E-20 135.2 11.9 95 3-97 133-228 (229)
10 PF00035 dsrm: Double-stranded 99.6 6.5E-16 1.4E-20 110.7 8.1 66 30-95 1-67 (67)
11 TIGR02191 RNaseIII ribonucleas 99.6 1.4E-15 3.1E-20 132.5 11.6 93 3-95 127-220 (220)
12 PF14709 DND1_DSRM: double str 99.5 1.4E-13 3.1E-18 105.6 7.9 69 28-96 1-80 (80)
13 KOG3732 Staufen and related do 99.3 3.2E-12 6.9E-17 120.6 9.0 74 25-99 139-213 (339)
14 KOG1817 Ribonuclease [RNA proc 99.1 2E-10 4.4E-15 111.8 10.2 95 3-97 402-503 (533)
15 KOG3732 Staufen and related do 99.1 4.7E-10 1E-14 106.1 8.4 77 20-98 29-107 (339)
16 KOG2777 tRNA-specific adenosin 98.4 6.1E-07 1.3E-11 89.9 8.3 70 26-101 88-158 (542)
17 KOG3769 Ribonuclease III domai 98.3 1.7E-06 3.6E-11 81.5 7.6 86 25-119 229-316 (333)
18 KOG4334 Uncharacterized conser 98.1 2.6E-06 5.6E-11 84.6 4.2 74 22-96 369-442 (650)
19 KOG2777 tRNA-specific adenosin 96.6 0.0012 2.5E-08 66.8 2.8 113 46-166 10-154 (542)
20 PF03368 Dicer_dimer: Dicer di 96.2 0.015 3.2E-07 45.4 6.0 65 31-99 2-75 (90)
21 KOG0921 Dosage compensation co 95.5 0.02 4.4E-07 61.3 5.4 69 29-98 2-71 (1282)
22 PF14954 LIX1: Limb expression 94.7 0.1 2.3E-06 47.8 6.9 69 25-93 18-93 (252)
23 KOG2334 tRNA-dihydrouridine sy 93.7 0.028 6E-07 55.8 1.2 73 26-101 373-446 (477)
24 KOG3792 Transcription factor N 82.9 1.3 2.7E-05 46.8 3.7 65 29-96 371-442 (816)
25 KOG4334 Uncharacterized conser 72.3 11 0.00024 38.7 6.6 67 27-96 489-557 (650)
26 KOG3792 Transcription factor N 70.7 5 0.00011 42.5 4.0 65 25-95 503-569 (816)
27 PF08029 HisG_C: HisG, C-termi 64.1 6.2 0.00013 30.2 2.4 19 236-254 23-44 (75)
28 cd00048 DSRM Double-stranded R 63.6 5.1 0.00011 27.5 1.8 50 113-162 16-66 (68)
29 smart00358 DSRM Double-strande 60.0 5.5 0.00012 27.5 1.4 50 114-163 15-65 (67)
30 PF14657 Integrase_AP2: AP2-li 57.3 42 0.00091 22.7 5.4 19 73-91 20-38 (46)
31 KOG0921 Dosage compensation co 52.0 6.5 0.00014 43.1 1.0 78 25-103 164-246 (1282)
32 PF02169 LPP20: LPP20 lipoprot 40.6 40 0.00087 25.1 3.5 27 71-97 14-40 (92)
33 PF14600 CBM_5_12_2: Cellulose 40.4 15 0.00032 27.6 1.1 20 221-240 2-21 (62)
34 PHA03103 double-strand RNA-bin 35.7 16 0.00034 32.7 0.7 45 122-166 133-177 (183)
35 KOG0701 dsRNA-specific nucleas 35.0 37 0.00081 39.3 3.6 74 25-98 1511-1599(1606)
36 PF01436 NHL: NHL repeat; Int 32.1 16 0.00035 22.3 0.1 18 236-253 2-19 (28)
37 TIGR03455 HisG_C-term ATP phos 30.2 34 0.00074 27.3 1.7 15 240-254 53-68 (100)
38 COG1944 Uncharacterized conser 28.3 2.3E+02 0.005 28.3 7.4 65 31-99 20-88 (398)
39 PF06463 Mob_synth_C: Molybden 24.3 43 0.00094 27.6 1.4 19 214-232 65-84 (128)
40 PF12098 DUF3574: Protein of u 24.3 46 0.001 27.1 1.5 16 237-252 34-49 (104)
41 PHA02701 ORF020 dsRNA-binding 23.8 27 0.00059 31.3 0.1 23 144-166 155-177 (183)
42 PRK12371 ribonuclease III; Rev 21.3 45 0.00098 30.3 1.0 52 112-163 176-228 (235)
No 1
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=99.76 E-value=4.4e-18 Score=153.92 Aligned_cols=98 Identities=31% Similarity=0.328 Sum_probs=92.3
Q ss_pred chhhhHHHHHHhhHHhhhccccCCCCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCH
Q 024945 2 NFLLVVIYLLSYSHILLINIFFQDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSK 80 (260)
Q Consensus 2 ~~~~~~~~vl~~~~~li~~~~~~~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSK 80 (260)
++-.||.+|++|+.+.++++......+|||++||||||++++.+|.|.+ ..+||+|.+.|++.|.++|..++.|.|+||
T Consensus 135 g~~~~~~~i~~l~~~~~~~~~~~~~~~D~Kt~LQe~~q~~~~~~p~Y~~v~~~g~~h~~~F~v~v~v~~~~~g~G~G~sk 214 (235)
T COG0571 135 GLEAARKFILKLFLPRLEEIDAGDQFKDPKTRLQELLQAQGLVLPEYRLVKEEGPAHDKEFTVEVAVGGKELGTGKGRSK 214 (235)
T ss_pred ChHHHHHHHHHHHHHHHhhccccccccChhHHHHHHHHhcCCCCCeEEEeeccCCCCCceEEEEEEECCeeEEEecccCH
Confidence 4668999999999999999999899999999999999999999999998 567999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhCCC
Q 024945 81 KQAEMSAAKVAYMRLKEPN 99 (260)
Q Consensus 81 KeAEq~AAk~AL~~L~~~~ 99 (260)
|+|||.||+.||+.+....
T Consensus 215 k~AEq~AA~~al~~l~~~~ 233 (235)
T COG0571 215 KEAEQAAAEQALKKLGVKE 233 (235)
T ss_pred HHHHHHHHHHHHHHhcccc
Confidence 9999999999999998654
No 2
>PRK12371 ribonuclease III; Reviewed
Probab=99.76 E-value=5.3e-18 Score=152.69 Aligned_cols=94 Identities=27% Similarity=0.225 Sum_probs=84.2
Q ss_pred hhhhHHHHHHhhHHhhhccccCCCCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCHH
Q 024945 3 FLLVVIYLLSYSHILLINIFFQDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKK 81 (260)
Q Consensus 3 ~~~~~~~vl~~~~~li~~~~~~~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKK 81 (260)
+-.++.+|..++.+.+.... ....|||+.||||||+.++..|.|++ ..+||+|.+.|+|+|.|+|..++.|.|+|||
T Consensus 138 ~~~a~~~i~~~~~~~~~~~~--~~~~d~Ks~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~~g~G~sKK 215 (235)
T PRK12371 138 LEAARPFIQRYWQKRALETD--AARRDAKTELQEWAHAQFGVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPETGEGRSKR 215 (235)
T ss_pred HHHHHHHHHHHHHHHHhccc--cccCCHHHHHHHHHHhcCCCCCeEEEEEeecCCCCCeEEEEEEECCEEEEEeeeCCHH
Confidence 45688999999988887653 35679999999999999888999998 5789999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhCC
Q 024945 82 QAEMSAAKVAYMRLKEP 98 (260)
Q Consensus 82 eAEq~AAk~AL~~L~~~ 98 (260)
+|||.||+.||+.|...
T Consensus 216 ~Ae~~AA~~al~~~~~~ 232 (235)
T PRK12371 216 AAEQVAAEKMLEREGVW 232 (235)
T ss_pred HHHHHHHHHHHHHhhhh
Confidence 99999999999998754
No 3
>PRK14718 ribonuclease III; Provisional
Probab=99.72 E-value=3e-17 Score=159.67 Aligned_cols=95 Identities=24% Similarity=0.166 Sum_probs=86.2
Q ss_pred chhhhHHHHHHhhHHhhhccccCCCCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEE-eecccCCC
Q 024945 2 NFLLVVIYLLSYSHILLINIFFQDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEV-FSGQGAKS 79 (260)
Q Consensus 2 ~~~~~~~~vl~~~~~li~~~~~~~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~-~g~G~GsS 79 (260)
+|-.++.||..++.+.|+.+......+|||++||||||++++.+|.|.+ .++||+|.+.|++.|.|+|.. ++.|.|.|
T Consensus 125 G~e~a~~fI~~ll~p~i~~~d~~~~~kDyKS~LQE~~Qk~~~~~PeY~li~esGPdH~k~F~V~V~v~g~~~~G~G~G~S 204 (467)
T PRK14718 125 GFEAAQGVIKRLYVPILDHIDPRTLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDIKVSGSGAS 204 (467)
T ss_pred CHHHHHHHHHHHHHHHHhhhcccccccCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCCeEEEEEEECCeeeEEEEEcCC
Confidence 3557889999999999988866666789999999999999999999998 578999999999999999964 47899999
Q ss_pred HHHHHHHHHHHHHHHhh
Q 024945 80 KKQAEMSAAKVAYMRLK 96 (260)
Q Consensus 80 KKeAEq~AAk~AL~~L~ 96 (260)
||+|||.||+.||+.|.
T Consensus 205 KKeAEQ~AAk~AL~kL~ 221 (467)
T PRK14718 205 RRAAEQAAAKKALDEVT 221 (467)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 99999999999999997
No 4
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=99.71 E-value=4.6e-17 Score=142.61 Aligned_cols=89 Identities=24% Similarity=0.153 Sum_probs=72.7
Q ss_pred HHHHHhhHHhhhccc-cCCCCCChHHHHHHHHHHcCCCCCcEEEeeeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHH
Q 024945 8 IYLLSYSHILLINIF-FQDDSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMS 86 (260)
Q Consensus 8 ~~vl~~~~~li~~~~-~~~~~~n~KS~LQElcQK~~~~lP~Y~v~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~ 86 (260)
.++.+++.+.|.... .+-..+|||++||||||++++.. .|.+..+||+|.+.|++.|.|+|..++.|.|+|||+|||.
T Consensus 88 ~~~~~l~~~~i~~~k~~d~K~kNpKS~LQE~~Qk~~~~~-y~~i~~~Gp~H~p~F~v~V~I~g~~~g~G~G~SKKeAEQ~ 166 (183)
T PHA03103 88 REDNKSFSDTIPYKKIISWKDKNPCTVINEYCQITSRDW-SINITSSGPSHSPTFTASVIISGIKFKPAIGSTKKEAKNN 166 (183)
T ss_pred HHHHHHhhhhcchhhhhccccCChhHHHHHHHHHhCCCe-EEEEEeeCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHH
Confidence 346666666664332 23345688899999999999775 4445678999999999999999999999999999999999
Q ss_pred HHHHHHHHhhC
Q 024945 87 AAKVAYMRLKE 97 (260)
Q Consensus 87 AAk~AL~~L~~ 97 (260)
||+.||..|..
T Consensus 167 AAk~AL~~L~~ 177 (183)
T PHA03103 167 AAKLAMDKILN 177 (183)
T ss_pred HHHHHHHHHHh
Confidence 99999998853
No 5
>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=99.70 E-value=1.1e-16 Score=113.59 Aligned_cols=67 Identities=42% Similarity=0.586 Sum_probs=63.0
Q ss_pred ChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHh
Q 024945 29 LYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 95 (260)
Q Consensus 29 n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L 95 (260)
|||+.|+||||++++..|.|++ ...|+.|.+.|++.|.|+|..++.|.|.|||+||+.||+.||..|
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 7999999999999999999998 678999999999999999988888999999999999999999865
No 6
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=99.70 E-value=4.5e-17 Score=142.46 Aligned_cols=74 Identities=23% Similarity=0.308 Sum_probs=67.6
Q ss_pred cCCCCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhC
Q 024945 23 FQDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKE 97 (260)
Q Consensus 23 ~~~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~~ 97 (260)
......|||+.||||||+++..+ .|.+ ..+||+|.+.|++.|.|+|..++.|.|+|||+|||+||+.||+.|..
T Consensus 103 ~~~k~~DpKS~LQE~~Q~~~~~l-~Y~li~~~GpdH~~~Ftv~V~V~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~~ 177 (183)
T PHA02701 103 MRLKTLNPVSAVNEFCMRTHRPL-EFCETRSGGHDHCPLFTCTIVVSGKVVATASGCSKKLARHAACADALTILIN 177 (183)
T ss_pred hcCCCCCccHHHHHHHHhcCCCC-eEEEEEeECCCCCceEEEEEEECCEEEEEEEeCCHHHHHHHHHHHHHHHHHh
Confidence 33566899999999999999888 8987 57899999999999999999999999999999999999999998853
No 7
>PRK12372 ribonuclease III; Reviewed
Probab=99.69 E-value=1.4e-16 Score=153.72 Aligned_cols=95 Identities=24% Similarity=0.159 Sum_probs=85.5
Q ss_pred hhhhHHHHHHhhHHhhhccccCCCCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEE-eecccCCCH
Q 024945 3 FLLVVIYLLSYSHILLINIFFQDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEV-FSGQGAKSK 80 (260)
Q Consensus 3 ~~~~~~~vl~~~~~li~~~~~~~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~-~g~G~GsSK 80 (260)
|-.++.+|..++.+.|+.+......+|||+.||||||++++..|.|.+ ..+||+|.+.|++.|.|+|.. ++.|.|.||
T Consensus 126 ~e~a~~fV~~ll~p~l~~~~~~~~~~D~KS~LQE~~Q~~~~~~P~Y~lv~e~Gp~h~~~F~V~V~v~g~~~~g~G~G~SK 205 (413)
T PRK12372 126 FEAAQGVIKRLYVPILDHIDPRTLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDVKVSGSGASR 205 (413)
T ss_pred HHHHHHHHHHHHHHHHhhcccccccCCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCceEEEEEEECCeEEEEEEEeCCH
Confidence 556889999999999988765556789999999999999999999998 678999999999999999854 578999999
Q ss_pred HHHHHHHHHHHHHHhhC
Q 024945 81 KQAEMSAAKVAYMRLKE 97 (260)
Q Consensus 81 KeAEq~AAk~AL~~L~~ 97 (260)
|+|||.||+.||+.|..
T Consensus 206 KeAEQ~AAr~AL~kL~~ 222 (413)
T PRK12372 206 RAAEQAAAKKALDEVMA 222 (413)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 99999999999999983
No 8
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=99.67 E-value=3.1e-16 Score=111.64 Aligned_cols=66 Identities=45% Similarity=0.579 Sum_probs=61.3
Q ss_pred hHHHHHHHHHHcCCCCCcEEEe-eeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhh
Q 024945 30 YKNVLQELAQKEAYALPVYNTK-QSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 96 (260)
Q Consensus 30 ~KS~LQElcQK~~~~lP~Y~v~-~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~ 96 (260)
||+.|+||||++++ .|.|++. ..|+.|.+.|++.|.|+|..++.|.|.|||+||+.||+.||..|.
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 7999984 589999999999999999988899999999999999999998763
No 9
>PRK00102 rnc ribonuclease III; Reviewed
Probab=99.66 E-value=8e-16 Score=135.24 Aligned_cols=95 Identities=34% Similarity=0.388 Sum_probs=86.8
Q ss_pred hhhhHHHHHHhhHHhhhccccCCCCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCHH
Q 024945 3 FLLVVIYLLSYSHILLINIFFQDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKK 81 (260)
Q Consensus 3 ~~~~~~~vl~~~~~li~~~~~~~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKK 81 (260)
+-.++.++..++.+.+.++.......|||+.|+||||++++..|.|++ ..+|+.|.+.|+++|.++|..++.|.|.|||
T Consensus 133 ~~~~~~~i~~~~~~~l~~~~~~~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~skk 212 (229)
T PRK00102 133 LEAARKFILRLFEPRIEEIDLGDLVKDYKTRLQELLQGRGLPLPEYELVKEEGPAHDKEFTVEVTVNGKELGEGTGSSKK 212 (229)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccCCHHHHHHHHHHHcCCCCCceEEeeccCCCCCceEEEEEEECCEEEEEeeeCCHH
Confidence 446788999999999999876677889999999999999999999998 5789999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhC
Q 024945 82 QAEMSAAKVAYMRLKE 97 (260)
Q Consensus 82 eAEq~AAk~AL~~L~~ 97 (260)
+||+.||+.||+.|+.
T Consensus 213 ~Ae~~AA~~Al~~l~~ 228 (229)
T PRK00102 213 EAEQAAAKQALKKLKE 228 (229)
T ss_pred HHHHHHHHHHHHHHhh
Confidence 9999999999998863
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=99.64 E-value=6.5e-16 Score=110.65 Aligned_cols=66 Identities=36% Similarity=0.542 Sum_probs=58.8
Q ss_pred hHHHHHHHHHHcCCCCCcEEEeeeCCCCC-CcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHh
Q 024945 30 YKNVLQELAQKEAYALPVYNTKQSGESHA-PTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 95 (260)
Q Consensus 30 ~KS~LQElcQK~~~~lP~Y~v~~sGP~H~-~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L 95 (260)
||+.|+||||+.++.+|.|.+...|+.|. +.|.++|.|+|..++.|.|+|||+||+.||+.||+.|
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 79999999999998776666666666555 8999999999999999999999999999999999876
No 11
>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=99.64 E-value=1.4e-15 Score=132.45 Aligned_cols=93 Identities=33% Similarity=0.383 Sum_probs=85.2
Q ss_pred hhhhHHHHHHhhHHhhhccccCCCCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCHH
Q 024945 3 FLLVVIYLLSYSHILLINIFFQDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKK 81 (260)
Q Consensus 3 ~~~~~~~vl~~~~~li~~~~~~~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKK 81 (260)
+-.++.+|..++.+.+.++.......|||+.|+||||++++..|.|++ ...|+.|.+.|.+.|.++|..++.|.|.|||
T Consensus 127 ~~~~~~~i~~~~~~~~~~~~~~~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~~~~~~~~~g~g~skk 206 (220)
T TIGR02191 127 LEAARKFILKLLIPRIDAIEKEETLKDYKTALQEWAQARGKPLPEYRLIKEEGPDHDKEFTVEVSVNGEPYGEGKGKSKK 206 (220)
T ss_pred HHHHHHHHHHHHHHHHHhhhcccccCChHHHHHHHHHHcCCCCceEEEecccCCCCCceEEEEEEECCEEEEEeeeCCHH
Confidence 346889999999999999877778899999999999999988899998 4679999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHh
Q 024945 82 QAEMSAAKVAYMRL 95 (260)
Q Consensus 82 eAEq~AAk~AL~~L 95 (260)
+||+.||+.||+.|
T Consensus 207 ~A~~~AA~~Al~~l 220 (220)
T TIGR02191 207 EAEQNAAKAALEKL 220 (220)
T ss_pred HHHHHHHHHHHHhC
Confidence 99999999999875
No 12
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=99.47 E-value=1.4e-13 Score=105.63 Aligned_cols=69 Identities=32% Similarity=0.425 Sum_probs=61.4
Q ss_pred CChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEee---------c-ccCCCHHHHHHHHHHHHHHHhh
Q 024945 28 VLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFS---------G-QGAKSKKQAEMSAAKVAYMRLK 96 (260)
Q Consensus 28 ~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g---------~-G~GsSKKeAEq~AAk~AL~~L~ 96 (260)
++++++|+|+|++++|+.|.|++ .+.||+|.+.|.++|.|++..+. . ....+||+|+..||+.||+.|+
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 47899999999999999999999 57899999999999999988763 2 3348899999999999999874
No 13
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=99.34 E-value=3.2e-12 Score=120.65 Aligned_cols=74 Identities=30% Similarity=0.287 Sum_probs=68.0
Q ss_pred CCCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhCCC
Q 024945 25 DDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN 99 (260)
Q Consensus 25 ~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~~~~ 99 (260)
+...||+++||||||+++|.+|.|++ .+.|+.|.+.|++.|.|.+.. ..|.|.|||.|+++||..+|+.|+...
T Consensus 139 ~~~~NPI~~L~e~~q~k~~k~P~yelv~E~G~~~~rEFv~q~sv~~~~-~~GkG~sKKiAKRnAAeamLe~l~~~~ 213 (339)
T KOG3732|consen 139 GQVLNPIGRLQELAQAKKWKLPEYELVQESGVPHRREFVIQCSVENFT-EEGKGPSKKIAKRNAAEAMLESLGFVK 213 (339)
T ss_pred ccccChHHHHHHHHHHhCCCCCceEEEeccCCCccceEEEEEEeccee-eecCCchHHHHHHHHHHHHHHHhccCC
Confidence 46789999999999999999999998 688999999999999998874 568999999999999999999998654
No 14
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=99.14 E-value=2e-10 Score=111.84 Aligned_cols=95 Identities=23% Similarity=0.205 Sum_probs=86.8
Q ss_pred hhhhHHHHHHhhHHhhhccccCCCCCChHHHHHHHHHHcCC------CCCcEEE-eeeCCCCCCcEEEEEEECCEEeecc
Q 024945 3 FLLVVIYLLSYSHILLINIFFQDDSVLYKNVLQELAQKEAY------ALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQ 75 (260)
Q Consensus 3 ~~~~~~~vl~~~~~li~~~~~~~~~~n~KS~LQElcQK~~~------~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G 75 (260)
..-++-|+...+-|.|++++.++.+.|+|++||++|...+. .+|.|.+ ...||.+.++|++.|+++|+.++.|
T Consensus 402 le~~~qf~~~l~~Prl~~fi~nq~wndpkskLqq~cl~~rys~~~epdip~y~V~~~~gpa~~r~y~Vavyf~gkrlat~ 481 (533)
T KOG1817|consen 402 LEYCRQFLRVLFFPRLKEFIRNQDWNDPKSKLQQCCLTLRYSLGGEPDIPLYKVLGAKGPANDRNYKVAVYFKGKRLATG 481 (533)
T ss_pred cHHHHHHHHHHhhHHHHHHHHhhhccCcHHHHHHHHHHHhcccCCCCCCceEEEecccCCCCCCceEEEEEECCEEEeec
Confidence 34578999999999999999999999999999999988653 4688888 6789999999999999999999999
Q ss_pred cCCCHHHHHHHHHHHHHHHhhC
Q 024945 76 GAKSKKQAEMSAAKVAYMRLKE 97 (260)
Q Consensus 76 ~GsSKKeAEq~AAk~AL~~L~~ 97 (260)
.|++.|+||..||+.||+.+..
T Consensus 482 ~G~nik~Ae~rAA~~ALe~~~~ 503 (533)
T KOG1817|consen 482 VGSNIKQAEMRAAMQALENLKM 503 (533)
T ss_pred cCchHhHHHHHHHHHHHHHHHh
Confidence 9999999999999999998874
No 15
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=99.06 E-value=4.7e-10 Score=106.12 Aligned_cols=77 Identities=31% Similarity=0.394 Sum_probs=65.5
Q ss_pred ccccCCCC-CChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhC
Q 024945 20 NIFFQDDS-VLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKE 97 (260)
Q Consensus 20 ~~~~~~~~-~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~~ 97 (260)
.+...+.. +.+++.|||+|.+++.. |.|++ .++||.|.+.|+++|.|+.. -..|.|+|||.|++.||..+|..|+.
T Consensus 29 ~~~~~~~g~KS~IS~l~E~~~r~~~~-v~fevl~eeGp~H~~~fv~rvtvg~~-~a~GeG~sKK~AKh~AA~~~L~~lk~ 106 (339)
T KOG3732|consen 29 VMLNADPGAKSPISLLQEYGLRRGLT-PVYEVLREEGPPHMPNFVFRVTVGEI-TATGEGKSKKLAKHRAAEALLKELKK 106 (339)
T ss_pred cccccCcccCChHHHHHHHHHHhCCC-cceeeeeccCCccCCCeEEEEEEeee-EEecCCCchhHHHHHHHHHHHHHHhc
Confidence 33344444 89999999999999975 69998 67999999999999999843 46689999999999999999999985
Q ss_pred C
Q 024945 98 P 98 (260)
Q Consensus 98 ~ 98 (260)
.
T Consensus 107 l 107 (339)
T KOG3732|consen 107 L 107 (339)
T ss_pred C
Confidence 4
No 16
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=98.43 E-value=6.1e-07 Score=89.86 Aligned_cols=70 Identities=34% Similarity=0.437 Sum_probs=63.0
Q ss_pred CCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhCCCCC
Q 024945 26 DSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPNPS 101 (260)
Q Consensus 26 ~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~~~~~~ 101 (260)
..+||.+.|.|+++ -+.|++ ...||.|.+.|.+.|.|||..|.+| |+|||+|++.||+.||+.|.....+
T Consensus 88 ~~~npv~ll~e~~~-----~~~~~~~~~~~~~~~~~F~~~~~vdg~~~~~~-~~sKk~ak~~aa~~al~~l~~~~~~ 158 (542)
T KOG2777|consen 88 EGKNPVSLLHELAN-----GLFFDFVNESGPQHAPKFVMSVVVDGRWFEGG-GRSKKEAKQEAAMAALQVLFKIDEN 158 (542)
T ss_pred ccCCchHHHHHHhc-----ccceeeeccCCCCCCceEEEEEEECCEEccCC-CcchHHHHHHHHHHHHHHHHhccCC
Confidence 37899999999998 357887 6889999999999999999999888 9999999999999999999876544
No 17
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=98.31 E-value=1.7e-06 Score=81.51 Aligned_cols=86 Identities=26% Similarity=0.348 Sum_probs=73.1
Q ss_pred CCCCChHHHHHHHHHHcCCCCCcEEE-eeeC-CCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhCCCCCC
Q 024945 25 DDSVLYKNVLQELAQKEAYALPVYNT-KQSG-ESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPNPSQ 102 (260)
Q Consensus 25 ~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sG-P~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~~~~~~~ 102 (260)
-+..+|..+|-++|++++...|+|++ .++| ....|.|.|.++-|.+.+|.|.|.|-|.||+.||++||..+..-.
T Consensus 229 ~ql~~P~~~L~~lckr~~l~epe~Rll~esGr~S~~PvyvVgiYs~kkllGqG~Gesl~~A~e~AA~dAL~k~y~~t--- 305 (333)
T KOG3769|consen 229 WQLQWPRRLLSRLCKRRGLKEPESRLLAESGRNSAEPVYVVGIYSGKKLLGQGQGESLKLAEEQAARDALIKLYDHT--- 305 (333)
T ss_pred ccccchHHHHHHHHHHcCCCCchhHHHHHhccCccCceEEEEeecCchhhccCcchHHHHHHHHHHHHHHHHHHcCC---
Confidence 45678999999999999999999998 4555 477899999999999999999999999999999999999988654
Q ss_pred CCCccCCCcccCCcccc
Q 024945 103 GPALVSPDIQAQADYSS 119 (260)
Q Consensus 103 ~~~~l~~~~~~~p~~t~ 119 (260)
+.++.+|+|+-
T Consensus 306 ------p~~~~p~~~~~ 316 (333)
T KOG3769|consen 306 ------PERQRPPDYSE 316 (333)
T ss_pred ------hhhcCCCcccc
Confidence 14455677764
No 18
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=98.09 E-value=2.6e-06 Score=84.65 Aligned_cols=74 Identities=22% Similarity=0.191 Sum_probs=64.0
Q ss_pred ccCCCCCChHHHHHHHHHHcCCCCCcEEEeeeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhh
Q 024945 22 FFQDDSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 96 (260)
Q Consensus 22 ~~~~~~~n~KS~LQElcQK~~~~lP~Y~v~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~ 96 (260)
..+..++.....|+||+|+-...+|.|++.+- ....-.|...|.+|+..||.|.|.|||.|+..|||.+|+.|.
T Consensus 369 ~~npngks~vCiLhEy~q~~lk~~pvyef~e~-~n~stpysa~v~~d~~~yGsG~g~sKK~Ak~~AAR~tLeiLI 442 (650)
T KOG4334|consen 369 KANPNGKSKVCILHEYAQQCLKSLPVYEFAEN-DNNSTPYSAGVLPDLFPYGSGVGASKKTAKLVAARDTLEILI 442 (650)
T ss_pred eeCCCCceeeehHHHHHHHHhhhcceeehhhc-cCCCCcccccccccccccccccccchHHHHHHHHHHHHHHhc
Confidence 34456778889999999999999999988432 245678999999999999999999999999999999999885
No 19
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=96.65 E-value=0.0012 Score=66.81 Aligned_cols=113 Identities=22% Similarity=0.234 Sum_probs=77.7
Q ss_pred CcEEE-eeeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhCCCCCCCCCccCCCcccCCccccccccc
Q 024945 46 PVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPNPSQGPALVSPDIQAQADYSSSSLQS 124 (260)
Q Consensus 46 P~Y~v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~~~~~~~~~~~l~~~~~~~p~~t~~~~~~ 124 (260)
+.|.. .+.||.|.+.|.+.|.|+|..+- ||.|+++||..|+..+.+-.+. +..+..+...+++|+.+....
T Consensus 10 ~~~~~~~q~~p~~~p~~~~~~~v~~~~~~------~k~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 81 (542)
T KOG2777|consen 10 LQYNLVSQTGPVHAPLFPFSVEVNGQEFP------KKKAKQRAAEKALRVFLQFPEA--HLSMGGTEGVNEDLTSDQADA 81 (542)
T ss_pred cccccccccCCCCCCcccceEEecccccc------cccccchhhhHHHHHHhhcCCc--ccccCCCCccccccchhhhHH
Confidence 67886 68999999999999999998764 9999999999999988865433 444555555555555442110
Q ss_pred cc------------------ccccc--------ccccccceeecCCCCCC-----cchHHHhhhhcccccccc
Q 024945 125 NV------------------TADLH--------HNIQTAGRLVFNPNSMP-----KVQAEEIRELTTVNTEVA 166 (260)
Q Consensus 125 ~~------------------t~~~~--------~~~~~~~~~~~~~~~~~-----kK~aee~~a~~~v~~~~~ 166 (260)
-+ ..++. ++.-....+++||..++ ||+|.+.||.++...+..
T Consensus 82 ~~~~~~~~~npv~ll~e~~~~~~~~~~~~~~~~~~~~F~~~~~vdg~~~~~~~~sKk~ak~~aa~~al~~l~~ 154 (542)
T KOG2777|consen 82 FLSLGKEGKNPVSLLHELANGLFFDFVNESGPQHAPKFVMSVVVDGRWFEGGGRSKKEAKQEAAMAALQVLFK 154 (542)
T ss_pred HHhhhhccCCchHHHHHHhcccceeeeccCCCCCCceEEEEEEECCEEccCCCcchHHHHHHHHHHHHHHHHh
Confidence 00 11111 11112344566887776 899999999998887655
No 20
>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=96.20 E-value=0.015 Score=45.42 Aligned_cols=65 Identities=26% Similarity=0.290 Sum_probs=43.0
Q ss_pred HHHHHHHHHHcCC-----CCCcEEEeeeCCCCCCcEEEEEEECCE----EeecccCCCHHHHHHHHHHHHHHHhhCCC
Q 024945 31 KNVLQELAQKEAY-----ALPVYNTKQSGESHAPTFVSTVEVGGE----VFSGQGAKSKKQAEMSAAKVAYMRLKEPN 99 (260)
Q Consensus 31 KS~LQElcQK~~~-----~lP~Y~v~~sGP~H~~~Ftv~V~I~g~----~~g~G~GsSKKeAEq~AAk~AL~~L~~~~ 99 (260)
.+.|+.||++... ..|.|.+...+. .|.++|.+-.. .+.+..-.+||.|++.||-+|+..|...+
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 5789999998532 348898855432 89999888532 24444669999999999999999998654
No 21
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=95.49 E-value=0.02 Score=61.33 Aligned_cols=69 Identities=25% Similarity=0.332 Sum_probs=61.2
Q ss_pred ChHHHHHHHHHHcCCCCCcEEEeeeCCCCCCcEEEEEEECCEEeec-ccCCCHHHHHHHHHHHHHHHhhCC
Q 024945 29 LYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSG-QGAKSKKQAEMSAAKVAYMRLKEP 98 (260)
Q Consensus 29 n~KS~LQElcQK~~~~lP~Y~v~~sGP~H~~~Ftv~V~I~g~~~g~-G~GsSKKeAEq~AAk~AL~~L~~~ 98 (260)
|-|..|..||-|++.. |.|++..+|+..+.+|.|.|.+.+..+.. |...+||.|+..||+.-.+.|...
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 5688999999999987 89999888999999999999999988754 667789999999999999988643
No 22
>PF14954 LIX1: Limb expression 1
Probab=94.72 E-value=0.1 Score=47.83 Aligned_cols=69 Identities=32% Similarity=0.319 Sum_probs=50.4
Q ss_pred CCCCChHHHHHHHHHHc---CCCCCcEE--EeeeCCCCCCcEEEEEEECCEE-eec-ccCCCHHHHHHHHHHHHHH
Q 024945 25 DDSVLYKNVLQELAQKE---AYALPVYN--TKQSGESHAPTFVSTVEVGGEV-FSG-QGAKSKKQAEMSAAKVAYM 93 (260)
Q Consensus 25 ~~~~n~KS~LQElcQK~---~~~lP~Y~--v~~sGP~H~~~Ftv~V~I~g~~-~g~-G~GsSKKeAEq~AAk~AL~ 93 (260)
....|-+..|||+=|.. +-.++.=. +.++.|...+-|.|-|++-|.. ||. ..+.||-+|++.|||.||.
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 44568889999966542 33333222 2466788889999999996654 554 5689999999999999985
No 23
>KOG2334 consensus tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=93.71 E-value=0.028 Score=55.77 Aligned_cols=73 Identities=29% Similarity=0.235 Sum_probs=61.7
Q ss_pred CCCChHHHHHHHHHHcCCCCCcEEEeeeCCCCCCcEEEEEEECCEEeeccc-CCCHHHHHHHHHHHHHHHhhCCCCC
Q 024945 26 DSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQG-AKSKKQAEMSAAKVAYMRLKEPNPS 101 (260)
Q Consensus 26 ~~~n~KS~LQElcQK~~~~lP~Y~v~~sGP~H~~~Ftv~V~I~g~~~g~G~-GsSKKeAEq~AAk~AL~~L~~~~~~ 101 (260)
.+..+|..|..||-+.+..-|.|++... -++.|.+.+.++|..|..+. -.+||.|||.||..+|......+.+
T Consensus 373 ~~~~~k~~l~~~~~~~~~~~~~ye~~~~---~d~lf~si~~~~~~~~~ssi~~~n~k~aeq~aa~~~l~~s~l~e~~ 446 (477)
T KOG2334|consen 373 KWDTPKMVLADLCVKTKANGPVYETVQR---TDKLFSSIATARGQKYNSSIWSPNKKSAEQDAAIVALRKSNLWEAD 446 (477)
T ss_pred CCCCHHHHHHHhhhhhcCCCcchhhhhh---hhhhhHHHhhhhhhhhhccccCcchhhHHHHHHHHHHHhcCcchhh
Confidence 3467999999999999999999998542 46899999999999997654 4899999999999999988765544
No 24
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=82.88 E-value=1.3 Score=46.82 Aligned_cols=65 Identities=22% Similarity=0.118 Sum_probs=50.1
Q ss_pred ChHHHHHHHHHHcCCCCCcEE------E-eeeCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhh
Q 024945 29 LYKNVLQELAQKEAYALPVYN------T-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 96 (260)
Q Consensus 29 n~KS~LQElcQK~~~~lP~Y~------v-~~sGP~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~ 96 (260)
|+...+.-+=|++. -.+|+ + ...||.|+++|++++.+||..+.. .|.+||.|+-.||+.-|+...
T Consensus 371 d~nak~mhl~grRh--rLQYk~kv~p~Lvv~t~P~~~~~~t~e~r~~~~~~~a-~gps~~~~~wh~~~k~lq~~~ 442 (816)
T KOG3792|consen 371 DPNAKEMHLKGRRH--RLQYKQKVDPDLVVDTKPSHRPRRTMEVRVNGLPAEA-EGPSKKTAKWHAARKRLQNEG 442 (816)
T ss_pred CcchHHhhhhcccc--cceeccccCCCceeccCCcccchhhhhhhhcCCcccc-CCcccccchHHHHHHHhhccC
Confidence 34444444433332 23787 5 688999999999999999998755 589999999999999998773
No 25
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=72.30 E-value=11 Score=38.75 Aligned_cols=67 Identities=15% Similarity=0.193 Sum_probs=41.1
Q ss_pred CCChHHHHHHHHHHcC-CCCCcEEEeeeCC-CCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhh
Q 024945 27 SVLYKNVLQELAQKEA-YALPVYNTKQSGE-SHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 96 (260)
Q Consensus 27 ~~n~KS~LQElcQK~~-~~lP~Y~v~~sGP-~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~ 96 (260)
...|-..|.+..+++. |.--....+.-|. .+...|++.| |+.-..+.+.+||+++|.|.+..|+.|.
T Consensus 489 ~psPy~iL~~cl~Rn~g~~d~~ik~E~i~~~nqkse~im~~---Gkht~~~~cknkr~gkQlASQ~ilq~lH 557 (650)
T KOG4334|consen 489 IPSPYNILRDCLSRNLGWNDLVIKKEMIGNGNQKSEVIMIL---GKHTEEAECKNKRQGKQLASQRILQKLH 557 (650)
T ss_pred CCCHHHHHHHHHHhhcCCcceeeeeeccCCCCccceeEeee---ccceeeeeeechhHHHHHHHHHHHHHhC
Confidence 3445566666666643 4221222222232 3333566554 5555678899999999999999998875
No 26
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=70.74 E-value=5 Score=42.52 Aligned_cols=65 Identities=22% Similarity=0.079 Sum_probs=48.8
Q ss_pred CCCCChHHHHHHHHHHcCCCCCcEEE-eeeC-CCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHh
Q 024945 25 DDSVLYKNVLQELAQKEAYALPVYNT-KQSG-ESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 95 (260)
Q Consensus 25 ~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sG-P~H~~~Ftv~V~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L 95 (260)
...+++...|.|- ++ .+ .|++ .++| -.|.++|...|.+.|..+ .|.+..|+-|+..|+--|++.+
T Consensus 503 ~alK~vsd~L~Ek---~r-g~-k~El~set~~gs~~~R~v~gV~rvG~~a-kG~~~~gd~a~~~a~Lca~~pt 569 (816)
T KOG3792|consen 503 RALKLVSDELAEK---RR-GD-KYELPSETGTGSHDKRFVKGVMRVGILA-KGLLLNGDRAVELALLCAEKPT 569 (816)
T ss_pred HhhcchhHHHhhh---cc-cc-ceecccccCCCCCCceeeeeeeeeehhh-ccccccchHHHHHHHHhccCcc
Confidence 3456677777664 22 23 7887 5555 699999999999999976 4578999999999988877544
No 27
>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=64.10 E-value=6.2 Score=30.19 Aligned_cols=19 Identities=32% Similarity=0.601 Sum_probs=14.9
Q ss_pred ccC--CCceeee-cCCcEEEEe
Q 024945 236 KFP--EGSSVLH-RDNQWVAWT 254 (260)
Q Consensus 236 ~~p--~g~tvl~-~d~~wva~~ 254 (260)
.+| +|=||.| .|+.||||+
T Consensus 23 ilPg~~~PTVs~L~~~~w~AV~ 44 (75)
T PF08029_consen 23 ILPGLKSPTVSPLADEDWVAVH 44 (75)
T ss_dssp HS--SSS-EEEE-SSTTEEEEE
T ss_pred hCCCCCCCceeecCCCCEEEEE
Confidence 356 7889999 999999996
No 28
>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=63.55 E-value=5.1 Score=27.51 Aligned_cols=50 Identities=8% Similarity=0.139 Sum_probs=28.4
Q ss_pred cCCccccccc-cccccccccccccccceeecCCCCCCcchHHHhhhhcccc
Q 024945 113 AQADYSSSSL-QSNVTADLHHNIQTAGRLVFNPNSMPKVQAEEIRELTTVN 162 (260)
Q Consensus 113 ~~p~~t~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~kK~aee~~a~~~v~ 162 (260)
..|.|..... ..+....+.+.....+..+..+..-+||+|++.||..++.
T Consensus 16 ~~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~sKk~Ak~~AA~~al~ 66 (68)
T cd00048 16 PLPEYELVEEEGPDHAPRFTVEVTVGGKITGEGEGSSKKEAKQNAAEAALR 66 (68)
T ss_pred CCCeEEEeeeeCCCCCCeEEEEEEECCEEEEEeecCCHHHHHHHHHHHHHH
Confidence 3466666332 2222334444444434444445444699999999988765
No 29
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=59.96 E-value=5.5 Score=27.52 Aligned_cols=50 Identities=8% Similarity=0.131 Sum_probs=27.3
Q ss_pred CCccccccc-cccccccccccccccceeecCCCCCCcchHHHhhhhccccc
Q 024945 114 QADYSSSSL-QSNVTADLHHNIQTAGRLVFNPNSMPKVQAEEIRELTTVNT 163 (260)
Q Consensus 114 ~p~~t~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~kK~aee~~a~~~v~~ 163 (260)
.|.|..... ..+....+.+.....+..+..+..-.||+|++.||+.++..
T Consensus 15 ~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~sKk~Ak~~AA~~al~~ 65 (67)
T smart00358 15 PPEYELVKEEGPDHAPRFTVTVKVGGEYTGEGEGSSKKEAKQRAAEAALRS 65 (67)
T ss_pred CCEEEEEeeeCCCCCCcEEEEEEECCEEEEEeccCCHHHHHHHHHHHHHHh
Confidence 355655432 22222334444444333334444445999999999988763
No 30
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=57.28 E-value=42 Score=22.71 Aligned_cols=19 Identities=42% Similarity=0.566 Sum_probs=13.7
Q ss_pred ecccCCCHHHHHHHHHHHH
Q 024945 73 SGQGAKSKKQAEMSAAKVA 91 (260)
Q Consensus 73 g~G~GsSKKeAEq~AAk~A 91 (260)
......||++|+..+++.-
T Consensus 20 ~k~GF~TkkeA~~~~~~~~ 38 (46)
T PF14657_consen 20 TKRGFKTKKEAEKALAKIE 38 (46)
T ss_pred EcCCCCcHHHHHHHHHHHH
Confidence 3455699999999776643
No 31
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=51.97 E-value=6.5 Score=43.09 Aligned_cols=78 Identities=22% Similarity=0.154 Sum_probs=59.9
Q ss_pred CCCCChHHHHHHHHHHcCCCCCcEEEeeeCCCCCCcEEEEEEE-----CCEEeecccCCCHHHHHHHHHHHHHHHhhCCC
Q 024945 25 DDSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEV-----GGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN 99 (260)
Q Consensus 25 ~~~~n~KS~LQElcQK~~~~lP~Y~v~~sGP~H~~~Ftv~V~I-----~g~~~g~G~GsSKKeAEq~AAk~AL~~L~~~~ 99 (260)
-..-|.|..|+++-|++.... .|+...-||.|.+.|+.+..+ +-.....+.|++||.|+...|...+..|..-+
T Consensus 164 wt~eN~K~~ln~~~q~~~~~~-~y~~~~~g~~~~~s~~~e~si~v~~~~~~~~~~~~gsnkk~~~~~ca~s~vrqm~hl~ 242 (1282)
T KOG0921|consen 164 WTMENAKKALNEYLQKMRIQD-NYKYTIVGPEHVRSFEAEASIYVPQLNRNLVAKETGSNKKVAEASCALSLVRQLFHLN 242 (1282)
T ss_pred CCcchhHHHHhHHHhhhhhcc-ccceeecCCccccchhhhHHHhhhhhchhhhhhhccccceecCcchHHHHHHHHHHHh
Confidence 455689999999999999844 888777799999999987654 22334567899999999999998887765444
Q ss_pred CCCC
Q 024945 100 PSQG 103 (260)
Q Consensus 100 ~~~~ 103 (260)
.-++
T Consensus 243 ~~~~ 246 (1282)
T KOG0921|consen 243 VMES 246 (1282)
T ss_pred hhhh
Confidence 3333
No 32
>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=40.63 E-value=40 Score=25.09 Aligned_cols=27 Identities=15% Similarity=0.154 Sum_probs=22.1
Q ss_pred EeecccCCCHHHHHHHHHHHHHHHhhC
Q 024945 71 VFSGQGAKSKKQAEMSAAKVAYMRLKE 97 (260)
Q Consensus 71 ~~g~G~GsSKKeAEq~AAk~AL~~L~~ 97 (260)
.++.|.|.+++.|+++|-..+.+.|..
T Consensus 14 l~a~G~~~~~~~A~~~A~~~la~~i~~ 40 (92)
T PF02169_consen 14 LYAVGSGSSREQAKQDALANLAEQISV 40 (92)
T ss_pred EEEEEcccChHHHHHHHHHHHHHheeE
Confidence 467789999999999998888886653
No 33
>PF14600 CBM_5_12_2: Cellulose-binding domain; PDB: 1AIW_A.
Probab=40.44 E-value=15 Score=27.56 Aligned_cols=20 Identities=35% Similarity=0.620 Sum_probs=12.8
Q ss_pred cccceEEEecCCCCcccCCC
Q 024945 221 RTCKIIRVRPNRPNMKFPEG 240 (260)
Q Consensus 221 ~~c~~~~v~~~~~~~~~p~g 240 (260)
+.|.-|.|||+.|.-...-|
T Consensus 2 ~dc~~in~YPnw~~~DwaGG 21 (62)
T PF14600_consen 2 CDCAGINVYPNWPQKDWAGG 21 (62)
T ss_dssp -SSSSS-BTT--SBSSSSSS
T ss_pred ccccccccCCCCcccccCCC
Confidence 45788999999998777754
No 34
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=35.72 E-value=16 Score=32.69 Aligned_cols=45 Identities=7% Similarity=0.005 Sum_probs=28.0
Q ss_pred ccccccccccccccccceeecCCCCCCcchHHHhhhhcccccccc
Q 024945 122 LQSNVTADLHHNIQTAGRLVFNPNSMPKVQAEEIRELTTVNTEVA 166 (260)
Q Consensus 122 ~~~~~t~~~~~~~~~~~~~~~~~~~~~kK~aee~~a~~~v~~~~~ 166 (260)
...++.+.|.......+..+-.|...+||+||+.||..++..+.+
T Consensus 133 ~Gp~H~p~F~v~V~I~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~~ 177 (183)
T PHA03103 133 SGPSHSPTFTASVIISGIKFKPAIGSTKKEAKNNAAKLAMDKILN 177 (183)
T ss_pred eCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHHHh
Confidence 344455555444444333333444445999999999999987655
No 35
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=35.02 E-value=37 Score=39.27 Aligned_cols=74 Identities=24% Similarity=0.174 Sum_probs=54.6
Q ss_pred CCCCChHHHHHHHHHHcCCCCCcEEE-eeeCCCCCCcEEE--------------EEEECCEEeecccCCCHHHHHHHHHH
Q 024945 25 DDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVS--------------TVEVGGEVFSGQGAKSKKQAEMSAAK 89 (260)
Q Consensus 25 ~~~~n~KS~LQElcQK~~~~lP~Y~v-~~sGP~H~~~Ftv--------------~V~I~g~~~g~G~GsSKKeAEq~AAk 89 (260)
+..+..++.+.+-|-...|..|-+.. .+.++.|..+|.. +|.+.+.....|.|..++.|+..||+
T Consensus 1511 gai~~dsg~~~~~~~~~~~a~p~~s~~~E~~~~h~~~~~~~~~~k~~d~~~~~~tv~~~~~~~~~~~g~~~~~aK~s~~k 1590 (1606)
T KOG0701|consen 1511 GAIKLDSGNMMEPCIEKFWALPPRSPIRELLELHPERALFGKCEKVADAGKVRVTVDVFNKEVFAGEGRNYRIAKASAAK 1590 (1606)
T ss_pred ceeecCcccccchHhhcCcCCCCccchhhhccccceeeccchhhhhhhccceEEEEEecccchhhhcchhhhhhhhhHHH
Confidence 45566677899999999999999987 5677877776543 33334444445678888889999988
Q ss_pred HHHHHhhCC
Q 024945 90 VAYMRLKEP 98 (260)
Q Consensus 90 ~AL~~L~~~ 98 (260)
.|++.+...
T Consensus 1591 ~A~~ll~~~ 1599 (1606)
T KOG0701|consen 1591 AALKLLKKL 1599 (1606)
T ss_pred HHHHHHHHh
Confidence 888877643
No 36
>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=32.12 E-value=16 Score=22.31 Aligned_cols=18 Identities=33% Similarity=0.486 Sum_probs=15.5
Q ss_pred ccCCCceeeecCCcEEEE
Q 024945 236 KFPEGSSVLHRDNQWVAW 253 (260)
Q Consensus 236 ~~p~g~tvl~~d~~wva~ 253 (260)
..|-|++|-+.++-|||=
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 468999999999999984
No 37
>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=30.20 E-value=34 Score=27.35 Aligned_cols=15 Identities=40% Similarity=0.663 Sum_probs=12.9
Q ss_pred Cceeee-cCCcEEEEe
Q 024945 240 GSSVLH-RDNQWVAWT 254 (260)
Q Consensus 240 g~tvl~-~d~~wva~~ 254 (260)
|=||.| .|+.||||.
T Consensus 53 ~PTVs~l~~~~w~AV~ 68 (100)
T TIGR03455 53 GPTVSPLADEGWVAVH 68 (100)
T ss_pred CCCcCcCCCCCeEEEE
Confidence 668999 788899997
No 38
>COG1944 Uncharacterized conserved protein [Function unknown]
Probab=28.34 E-value=2.3e+02 Score=28.32 Aligned_cols=65 Identities=18% Similarity=0.048 Sum_probs=43.1
Q ss_pred HHHHHHHHHHcCCCCCcEEE-eeeCCC--CCCcEEEEE-EECCEEeecccCCCHHHHHHHHHHHHHHHhhCCC
Q 024945 31 KNVLQELAQKEAYALPVYNT-KQSGES--HAPTFVSTV-EVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN 99 (260)
Q Consensus 31 KS~LQElcQK~~~~lP~Y~v-~~sGP~--H~~~Ftv~V-~I~g~~~g~G~GsSKKeAEq~AAk~AL~~L~~~~ 99 (260)
-..+|.++++.|... + ..+|-+ .-|.|...- .--+..+..|.|.||++|...|..++++.+....
T Consensus 20 ~~~~q~~l~~~gitr----I~~~t~Ld~~gIPv~~a~rp~~~~~~~~~GKGat~~~A~vSAimE~~Er~sAe~ 88 (398)
T COG1944 20 LAAFQPLLAALGITR----IEDITWLDRLGIPVVWAVRPRALGLSVSQGKGATKAAARVSALMEALERLSAEY 88 (398)
T ss_pred HHHHHHHHHhcCcee----eeeeeccccCCCceEEEeeeccccceeecCCCCCHHHHHHHHHHHHHHHhhccc
Confidence 456788888877642 3 234444 234333322 1124556779999999999999999999887654
No 39
>PF06463 Mob_synth_C: Molybdenum Cofactor Synthesis C; InterPro: IPR010505 The majority of molybdenum-containing enzymes utilise a molybdenum cofactor (MoCF or Moco) consisting of a Mo atom coordinated via a cis-dithiolene moiety to molybdopterin (MPT). MoCF is ubiquitous in nature, and the pathway for MoCF biosynthesis is conserved in all three domains of life. MoCF-containing enzymes function as oxidoreductases in carbon, nitrogen, and sulphur metabolism [, ]. In Escherichia coli, biosynthesis of MoCF is a three stage process. It begins with the MoaA and MoaC conversion of GTP to the meta-stable pterin intermediate precursor Z. The second stage involves MPT synthase (MoaD and MoaE), which converts precursor Z to MPT; MoeB is involved in the recycling of MPT synthase. The final step in MoCF synthesis is the attachment of mononuclear Mo to MPT, a process that requires MoeA and which is enhanced by MogA in an Mg2 ATP-dependent manner []. MoCF is the active co-factor in eukaryotic and some prokaryotic molybdo-enzymes, but the majority of bacterial enzymes requiring MoCF, need a modification of MTP for it to be active; MobA is involved in the attachment of a nucleotide monophosphate to MPT resulting in the MGD co-factor, the active co-factor for most prokaryotic molybdo-enzymes. Bacterial two-hybrid studies have revealed the close interactions between MoeA, MogA, and MobA in the synthesis of MoCF []. Moreover the close functional association of MoeA and MogA in the synthesis of MoCF is supported by fact that the known eukaryotic homologues to MoeA and MogA exist as fusion proteins: CNX1 (Q39054 from SWISSPROT) of Arabidopsis thaliana (Mouse-ear cress), mammalian Gephryin (e.g. Q9NQX3 from SWISSPROT) and Drosophila melanogaster (Fruit fly) Cinnamon (P39205 from SWISSPROT) []. This entry represents MoaA, which belongs to a family of enzymes involved in the synthesis of metallo-cofactors (IPR000385 from INTERPRO). Each subunit of the MoaA dimer is comprised of an N-terminal SAM domain (IPR007197 from INTERPRO) that contains the [4Fe-4S] cluster typical for this family of enzymes, as well as an additional [4Fe-4S] cluster in the C-terminal domain that is unique to MoaA proteins []. The unique Fe site of the C-terminal [4Fe-4S] cluster is thought to be involved in the binding and activation of 5'-GTP. Mutations in the human MoCF biosynthesis proteins MOCS1, MOCS2 or GEPH cause MoCF Deficiency type A (MOCOD), causing the loss of activity of MoCF-containing enzymes, resulting in neurological abnormalities and death [].; GO: 0051539 4 iron, 4 sulfur cluster binding, 0006777 Mo-molybdopterin cofactor biosynthetic process, 0019008 molybdopterin synthase complex; PDB: 2FB2_A 2FB3_A 1TV8_B 1TV7_A.
Probab=24.31 E-value=43 Score=27.57 Aligned_cols=19 Identities=21% Similarity=0.364 Sum_probs=9.9
Q ss_pred cccc-ccCcccceEEEecCC
Q 024945 214 QSVR-ADGRTCKIIRVRPNR 232 (260)
Q Consensus 214 ~~~~-~~~~~c~~~~v~~~~ 232 (260)
++++ +.|.+||||||-+.+
T Consensus 65 ~~~s~~FC~~CNRiRlTsdG 84 (128)
T PF06463_consen 65 SPVSNPFCSSCNRIRLTSDG 84 (128)
T ss_dssp -TTTS--GGG--EEEE-TTS
T ss_pred eCCCCCCCCcCCEEEEccCc
Confidence 4555 577799999998765
No 40
>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=24.30 E-value=46 Score=27.14 Aligned_cols=16 Identities=44% Similarity=0.889 Sum_probs=14.4
Q ss_pred cCCCceeeecCCcEEE
Q 024945 237 FPEGSSVLHRDNQWVA 252 (260)
Q Consensus 237 ~p~g~tvl~~d~~wva 252 (260)
||+|-||+-..++|..
T Consensus 34 FpdGlTv~Da~GqW~~ 49 (104)
T PF12098_consen 34 FPDGLTVLDAYGQWRD 49 (104)
T ss_pred CCCCceEEeccceEec
Confidence 6789999999999976
No 41
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=23.77 E-value=27 Score=31.26 Aligned_cols=23 Identities=9% Similarity=0.016 Sum_probs=17.2
Q ss_pred CCCCCcchHHHhhhhcccccccc
Q 024945 144 PNSMPKVQAEEIRELTTVNTEVA 166 (260)
Q Consensus 144 ~~~~~kK~aee~~a~~~v~~~~~ 166 (260)
|.--+||+||+.||+.++.-+..
T Consensus 155 G~G~SKKeAEQ~AAk~AL~~L~~ 177 (183)
T PHA02701 155 ASGCSKKLARHAACADALTILIN 177 (183)
T ss_pred EEeCCHHHHHHHHHHHHHHHHHh
Confidence 33334999999999999975433
No 42
>PRK12371 ribonuclease III; Reviewed
Probab=21.35 E-value=45 Score=30.28 Aligned_cols=52 Identities=12% Similarity=0.093 Sum_probs=29.7
Q ss_pred ccCCcccccc-ccccccccccccccccceeecCCCCCCcchHHHhhhhccccc
Q 024945 112 QAQADYSSSS-LQSNVTADLHHNIQTAGRLVFNPNSMPKVQAEEIRELTTVNT 163 (260)
Q Consensus 112 ~~~p~~t~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~~kK~aee~~a~~~v~~ 163 (260)
...|.|.... ...+....|...+...+..+--|...+||+||+.||..+++.
T Consensus 176 ~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~~g~G~sKK~Ae~~AA~~al~~ 228 (235)
T PRK12371 176 GVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPETGEGRSKRAAEQVAAEKMLER 228 (235)
T ss_pred CCCCeEEEEEeecCCCCCeEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHH
Confidence 3447887653 333444445443333333322233334999999999999874
Done!