Query 024888
Match_columns 261
No_of_seqs 155 out of 1080
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 08:12:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024888.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024888hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK12371 ribonuclease III; Rev 99.9 1.3E-21 2.8E-26 176.3 11.6 99 1-99 133-232 (235)
2 COG0571 Rnc dsRNA-specific rib 99.8 1.4E-20 3E-25 170.2 11.4 100 1-100 131-233 (235)
3 PRK14718 ribonuclease III; Pro 99.8 1.1E-19 2.3E-24 176.5 11.2 97 1-97 121-221 (467)
4 PRK12372 ribonuclease III; Rev 99.8 2.8E-19 6E-24 172.1 11.2 98 1-98 121-222 (413)
5 PRK00102 rnc ribonuclease III; 99.8 3.2E-18 7E-23 150.8 11.3 98 1-98 128-228 (229)
6 TIGR02191 RNaseIII ribonucleas 99.7 1.2E-17 2.5E-22 146.0 11.1 96 1-96 122-220 (220)
7 PHA03103 double-strand RNA-bin 99.7 2.5E-17 5.5E-22 144.1 10.6 91 7-98 84-177 (183)
8 PHA02701 ORF020 dsRNA-binding 99.7 2E-17 4.3E-22 144.5 9.1 71 27-98 106-177 (183)
9 cd00048 DSRM Double-stranded R 99.7 8.1E-17 1.8E-21 114.5 9.2 67 30-96 1-68 (68)
10 smart00358 DSRM Double-strande 99.7 2.5E-16 5.5E-21 112.3 8.7 66 31-97 1-67 (67)
11 PF00035 dsrm: Double-stranded 99.6 5.7E-16 1.2E-20 111.2 7.8 66 31-96 1-67 (67)
12 KOG1817 Ribonuclease [RNA proc 99.4 3.7E-13 8E-18 130.4 10.1 98 1-98 397-503 (533)
13 PF14709 DND1_DSRM: double str 99.4 4.2E-13 9.1E-18 103.0 7.8 69 29-97 1-80 (80)
14 KOG3732 Staufen and related do 99.3 1.2E-11 2.6E-16 116.7 8.8 73 28-101 141-214 (339)
15 KOG3732 Staufen and related do 99.2 1.1E-10 2.5E-15 110.1 11.0 70 29-100 38-108 (339)
16 KOG3769 Ribonuclease III domai 98.6 1.9E-07 4.2E-12 87.6 8.0 108 3-119 204-315 (333)
17 KOG2777 tRNA-specific adenosin 98.5 3.4E-07 7.4E-12 91.6 8.3 69 28-102 89-158 (542)
18 KOG4334 Uncharacterized conser 98.0 8.5E-06 1.8E-10 80.9 6.0 71 27-98 373-443 (650)
19 KOG2777 tRNA-specific adenosin 96.9 0.00054 1.2E-08 69.0 2.7 113 47-167 10-154 (542)
20 KOG0921 Dosage compensation co 96.0 0.01 2.2E-07 63.4 5.4 68 30-98 2-70 (1282)
21 PF03368 Dicer_dimer: Dicer di 95.7 0.04 8.7E-07 42.9 6.5 65 32-100 2-75 (90)
22 KOG2334 tRNA-dihydrouridine sy 93.4 0.036 7.9E-07 54.9 1.4 72 28-102 374-446 (477)
23 PF14954 LIX1: Limb expression 91.1 0.69 1.5E-05 42.5 6.6 68 27-94 19-93 (252)
24 KOG3792 Transcription factor N 83.7 0.54 1.2E-05 49.3 1.5 67 28-97 369-442 (816)
25 KOG3792 Transcription factor N 73.5 4.2 9E-05 43.0 4.2 68 24-97 501-570 (816)
26 cd00048 DSRM Double-stranded R 73.3 2.3 5E-05 29.3 1.7 49 115-163 17-66 (68)
27 smart00358 DSRM Double-strande 71.0 2.8 6E-05 29.1 1.7 50 115-164 15-65 (67)
28 PF08029 HisG_C: HisG, C-termi 65.2 5.7 0.00012 30.3 2.4 19 237-255 23-44 (75)
29 KOG0701 dsRNA-specific nucleas 53.0 17 0.00036 41.9 4.3 76 24-99 1509-1599(1606)
30 PF14657 Integrase_AP2: AP2-li 52.7 55 0.0012 22.1 5.4 20 74-93 20-39 (46)
31 PHA03103 double-strand RNA-bin 52.0 6.6 0.00014 35.0 0.9 45 123-167 133-177 (183)
32 PF02169 LPP20: LPP20 lipoprot 48.4 26 0.00056 26.2 3.5 28 71-98 13-40 (92)
33 KOG0921 Dosage compensation co 43.7 9.4 0.0002 41.9 0.6 72 28-100 166-242 (1282)
34 PF14600 CBM_5_12_2: Cellulose 40.7 14 0.0003 27.6 0.9 20 222-241 2-21 (62)
35 PHA02701 ORF020 dsRNA-binding 34.2 16 0.00034 32.7 0.4 42 125-166 135-176 (183)
36 COG1944 Uncharacterized conser 33.2 1.5E+02 0.0031 29.6 6.9 67 31-100 19-88 (398)
37 PF01436 NHL: NHL repeat; Int 32.6 16 0.00034 22.3 0.1 18 237-254 2-19 (28)
38 PRK12371 ribonuclease III; Rev 32.2 24 0.00052 32.1 1.3 52 114-165 177-229 (235)
39 TIGR03455 HisG_C-term ATP phos 31.2 32 0.0007 27.5 1.7 15 241-255 53-68 (100)
40 KOG4334 Uncharacterized conser 25.8 2E+02 0.0043 29.9 6.5 67 29-98 490-558 (650)
41 PF06463 Mob_synth_C: Molybden 24.5 43 0.00093 27.6 1.4 19 215-233 65-84 (128)
42 PF12098 DUF3574: Protein of u 23.0 51 0.0011 26.8 1.5 16 238-253 34-49 (104)
No 1
>PRK12371 ribonuclease III; Reviewed
Probab=99.86 E-value=1.3e-21 Score=176.28 Aligned_cols=99 Identities=27% Similarity=0.250 Sum_probs=91.0
Q ss_pred CchhcHHHHHHHHHHHHhhhhccccCCCCChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEEeecccCC
Q 024888 1 MLEKQIELLRSMQRSQLSMMFTNQEDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAK 79 (261)
Q Consensus 1 ~LD~Gle~ar~fV~kll~~~l~~~~~~~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g~G~G~ 79 (261)
|||+|++.|++||.++|.+.+........|||+.||||||+.++..|.|++ ...||+|.+.|+|.|.|+|..++.|.|+
T Consensus 133 ylD~G~~~a~~~i~~~~~~~~~~~~~~~~d~Ks~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~~g~G~ 212 (235)
T PRK12371 133 YLDGGLEAARPFIQRYWQKRALETDAARRDAKTELQEWAHAQFGVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPETGEGR 212 (235)
T ss_pred HHcCCHHHHHHHHHHHHHHHHhccccccCCHHHHHHHHHHhcCCCCCeEEEEEeecCCCCCeEEEEEEECCEEEEEeeeC
Confidence 689999999999999999877665455679999999999999898999998 5789999999999999999999999999
Q ss_pred CHHHHHHHHHHHHHHHhhCC
Q 024888 80 SKKQAEMSAAKVAYMRLKEP 99 (261)
Q Consensus 80 SKKeAEq~AAk~AL~~L~~~ 99 (261)
|||+|||+||+.||+.|...
T Consensus 213 sKK~Ae~~AA~~al~~~~~~ 232 (235)
T PRK12371 213 SKRAAEQVAAEKMLEREGVW 232 (235)
T ss_pred CHHHHHHHHHHHHHHHhhhh
Confidence 99999999999999998753
No 2
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=99.84 E-value=1.4e-20 Score=170.20 Aligned_cols=100 Identities=29% Similarity=0.350 Sum_probs=92.6
Q ss_pred CchhcHHHHHHHHHHHHhhhhccccCC--CCChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEEeeccc
Q 024888 1 MLEKQIELLRSMQRSQLSMMFTNQEDD--SVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQG 77 (261)
Q Consensus 1 ~LD~Gle~ar~fV~kll~~~l~~~~~~--~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g~G~ 77 (261)
|||+|++++|+||.++|.+.+..+... ..|||+.||||+|+.++.+|.|.+ ..+||+|++.|++.|.++|..++.|.
T Consensus 131 ylD~g~~~~~~~i~~l~~~~~~~~~~~~~~~D~Kt~LQe~~q~~~~~~p~Y~~v~~~g~~h~~~F~v~v~v~~~~~g~G~ 210 (235)
T COG0571 131 YLDSGLEAARKFILKLFLPRLEEIDAGDQFKDPKTRLQELLQAQGLVLPEYRLVKEEGPAHDKEFTVEVAVGGKELGTGK 210 (235)
T ss_pred HHhCChHHHHHHHHHHHHHHHhhccccccccChhHHHHHHHHhcCCCCCeEEEeeccCCCCCceEEEEEEECCeeEEEec
Confidence 689999999999999999998876543 499999999999999999999998 56699999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHhhCCC
Q 024888 78 AKSKKQAEMSAAKVAYMRLKEPN 100 (261)
Q Consensus 78 G~SKKeAEq~AAk~AL~~L~~~~ 100 (261)
|+|||+|||.||+.||..|....
T Consensus 211 G~skk~AEq~AA~~al~~l~~~~ 233 (235)
T COG0571 211 GRSKKEAEQAAAEQALKKLGVKE 233 (235)
T ss_pred ccCHHHHHHHHHHHHHHHhcccc
Confidence 99999999999999999998653
No 3
>PRK14718 ribonuclease III; Provisional
Probab=99.81 E-value=1.1e-19 Score=176.48 Aligned_cols=97 Identities=23% Similarity=0.239 Sum_probs=88.6
Q ss_pred CchhcHHHHHHHHHHHHhhhhcccc--CCCCChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEE-eecc
Q 024888 1 MLEKQIELLRSMQRSQLSMMFTNQE--DDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEV-FSGQ 76 (261)
Q Consensus 1 ~LD~Gle~ar~fV~kll~~~l~~~~--~~~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~-~g~G 76 (261)
|||+||+.+++||.++|.+.++.+. ....|||+.||||||++++.+|+|.+ ..+||+|.+.|++.|+|+|.. ++.|
T Consensus 121 YLDsG~e~a~~fI~~ll~p~i~~~d~~~~~kDyKS~LQE~~Qk~~~~~PeY~li~esGPdH~k~F~V~V~v~g~~~~G~G 200 (467)
T PRK14718 121 FLDGGFEAAQGVIKRLYVPILDHIDPRTLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDIKVSG 200 (467)
T ss_pred HHccCHHHHHHHHHHHHHHHHhhhcccccccCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCCeEEEEEEECCeeeEEEE
Confidence 7999999999999999998877643 34689999999999999999999998 578999999999999999964 5889
Q ss_pred cCCCHHHHHHHHHHHHHHHhh
Q 024888 77 GAKSKKQAEMSAAKVAYMRLK 97 (261)
Q Consensus 77 ~G~SKKeAEq~AAk~AL~~L~ 97 (261)
.|.|||+|||.||+.||+.|.
T Consensus 201 ~G~SKKeAEQ~AAk~AL~kL~ 221 (467)
T PRK14718 201 SGASRRAAEQAAAKKALDEVT 221 (467)
T ss_pred EcCCHHHHHHHHHHHHHHHhc
Confidence 999999999999999999997
No 4
>PRK12372 ribonuclease III; Reviewed
Probab=99.80 E-value=2.8e-19 Score=172.14 Aligned_cols=98 Identities=23% Similarity=0.252 Sum_probs=89.2
Q ss_pred CchhcHHHHHHHHHHHHhhhhcccc--CCCCChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCE-Eeecc
Q 024888 1 MLEKQIELLRSMQRSQLSMMFTNQE--DDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGE-VFSGQ 76 (261)
Q Consensus 1 ~LD~Gle~ar~fV~kll~~~l~~~~--~~~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~-~~g~G 76 (261)
|||+|++.++.||.++|.+.++.+. ....|||+.||||||++++..|+|.+ ...||+|.+.|+|.|+|+|. .++.|
T Consensus 121 YLDsG~e~a~~fV~~ll~p~l~~~~~~~~~~D~KS~LQE~~Q~~~~~~P~Y~lv~e~Gp~h~~~F~V~V~v~g~~~~g~G 200 (413)
T PRK12372 121 FLDGGFEAAQGVIKRLYVPILDHIDPRTLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDVKVSG 200 (413)
T ss_pred HHhCCHHHHHHHHHHHHHHHHhhcccccccCCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCceEEEEEEECCeEEEEEE
Confidence 7999999999999999998887643 34689999999999999999999998 67899999999999999985 45789
Q ss_pred cCCCHHHHHHHHHHHHHHHhhC
Q 024888 77 GAKSKKQAEMSAAKVAYMRLKE 98 (261)
Q Consensus 77 ~G~SKKeAEq~AAk~AL~~L~~ 98 (261)
.|.|||+|||.||+.||+.|..
T Consensus 201 ~G~SKKeAEQ~AAr~AL~kL~~ 222 (413)
T PRK12372 201 SGASRRAAEQAAAKKALDEVMA 222 (413)
T ss_pred EeCCHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999984
No 5
>PRK00102 rnc ribonuclease III; Reviewed
Probab=99.76 E-value=3.2e-18 Score=150.83 Aligned_cols=98 Identities=34% Similarity=0.417 Sum_probs=90.3
Q ss_pred CchhcHHHHHHHHHHHHhhhhcccc--CCCCChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEEeeccc
Q 024888 1 MLEKQIELLRSMQRSQLSMMFTNQE--DDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQG 77 (261)
Q Consensus 1 ~LD~Gle~ar~fV~kll~~~l~~~~--~~~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g~G~ 77 (261)
|+|.|++.|++|+.+++.+.+..+. ....|||+.|+||||++++..|.|++ ..+|+.|.+.|+|.|.++|..++.|.
T Consensus 128 yld~g~~~~~~~i~~~~~~~l~~~~~~~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~ 207 (229)
T PRK00102 128 YLDQGLEAARKFILRLFEPRIEEIDLGDLVKDYKTRLQELLQGRGLPLPEYELVKEEGPAHDKEFTVEVTVNGKELGEGT 207 (229)
T ss_pred HHhCCHHHHHHHHHHHHHHHHHhhccccccCCHHHHHHHHHHHcCCCCCceEEeeccCCCCCceEEEEEEECCEEEEEee
Confidence 5899999999999999999877754 45789999999999999999999998 57899999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHhhC
Q 024888 78 AKSKKQAEMSAAKVAYMRLKE 98 (261)
Q Consensus 78 G~SKKeAEq~AAk~AL~~L~~ 98 (261)
|.|||+||+.||+.||+.|..
T Consensus 208 g~skk~Ae~~AA~~Al~~l~~ 228 (229)
T PRK00102 208 GSSKKEAEQAAAKQALKKLKE 228 (229)
T ss_pred eCCHHHHHHHHHHHHHHHHhh
Confidence 999999999999999999863
No 6
>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=99.74 E-value=1.2e-17 Score=146.03 Aligned_cols=96 Identities=34% Similarity=0.411 Sum_probs=87.5
Q ss_pred CchhcHHHHHHHHHHHHhhhhccc--cCCCCChHHHHHHHHHHcCCCCCcEEec-ccCCCCCCcEEEEEEECCEEeeccc
Q 024888 1 MLEKQIELLRSMQRSQLSMMFTNQ--EDDSVLYKNVLQELAQKEAYALPVYNTK-QSGESHAPTFVSTVEVGGEVFSGQG 77 (261)
Q Consensus 1 ~LD~Gle~ar~fV~kll~~~l~~~--~~~~~n~KS~LQEl~Qk~~~~~P~Y~~~-~sGp~H~~~Ftv~V~V~g~~~g~G~ 77 (261)
|+|+|++.|++|+.+++.+.+... .....|||+.|+||||++++..|.|++. ..|++|.+.|.|.|.++|..++.|.
T Consensus 122 yld~g~~~~~~~i~~~~~~~~~~~~~~~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~~~~~~~~~g~ 201 (220)
T TIGR02191 122 YLDSGLEAARKFILKLLIPRIDAIEKEETLKDYKTALQEWAQARGKPLPEYRLIKEEGPDHDKEFTVEVSVNGEPYGEGK 201 (220)
T ss_pred HHhCCHHHHHHHHHHHHHHHHHhhhcccccCChHHHHHHHHHHcCCCCceEEEecccCCCCCceEEEEEEECCEEEEEee
Confidence 589999999999999999887753 2367899999999999999989999984 6799999999999999999999999
Q ss_pred CCCHHHHHHHHHHHHHHHh
Q 024888 78 AKSKKQAEMSAAKVAYMRL 96 (261)
Q Consensus 78 G~SKKeAEq~AAk~AL~~L 96 (261)
|.|||+||+.||+.||+.|
T Consensus 202 g~skk~A~~~AA~~Al~~l 220 (220)
T TIGR02191 202 GKSKKEAEQNAAKAALEKL 220 (220)
T ss_pred eCCHHHHHHHHHHHHHHhC
Confidence 9999999999999999875
No 7
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=99.72 E-value=2.5e-17 Score=144.10 Aligned_cols=91 Identities=25% Similarity=0.233 Sum_probs=75.9
Q ss_pred HHHHHHHHHHHhhhhcc---ccCCCCChHHHHHHHHHHcCCCCCcEEecccCCCCCCcEEEEEEECCEEeecccCCCHHH
Q 024888 7 ELLRSMQRSQLSMMFTN---QEDDSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQ 83 (261)
Q Consensus 7 e~ar~fV~kll~~~l~~---~~~~~~n~KS~LQEl~Qk~~~~~P~Y~~~~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKe 83 (261)
+.--.++++++.+.+.. +.-...|||+.||||||++++.. .|.+...||+|.+.|++.|.|+|..|+.|.|+|||+
T Consensus 84 ~~~~~~~~~l~~~~i~~~k~~d~K~kNpKS~LQE~~Qk~~~~~-y~~i~~~Gp~H~p~F~v~V~I~g~~~g~G~G~SKKe 162 (183)
T PHA03103 84 EKSMREDNKSFSDTIPYKKIISWKDKNPCTVINEYCQITSRDW-SINITSSGPSHSPTFTASVIISGIKFKPAIGSTKKE 162 (183)
T ss_pred chhHHHHHHHhhhhcchhhhhccccCChhHHHHHHHHHhCCCe-EEEEEeeCCCCCceEEEEEEECCEEEEEeeeCCHHH
Confidence 34456777777776643 23345799999999999998875 444567899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhC
Q 024888 84 AEMSAAKVAYMRLKE 98 (261)
Q Consensus 84 AEq~AAk~AL~~L~~ 98 (261)
|||+||+.||..|..
T Consensus 163 AEQ~AAk~AL~~L~~ 177 (183)
T PHA03103 163 AKNNAAKLAMDKILN 177 (183)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999999864
No 8
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=99.72 E-value=2e-17 Score=144.50 Aligned_cols=71 Identities=24% Similarity=0.325 Sum_probs=66.3
Q ss_pred CCCChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhC
Q 024888 27 DSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKE 98 (261)
Q Consensus 27 ~~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~~ 98 (261)
...|||+.||||||+.++.+ .|.+ ..+||+|.+.|++.|.|+|..++.|.|+|||+|||+||+.||+.|..
T Consensus 106 k~~DpKS~LQE~~Q~~~~~l-~Y~li~~~GpdH~~~Ftv~V~V~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~~ 177 (183)
T PHA02701 106 KTLNPVSAVNEFCMRTHRPL-EFCETRSGGHDHCPLFTCTIVVSGKVVATASGCSKKLARHAACADALTILIN 177 (183)
T ss_pred CCCCccHHHHHHHHhcCCCC-eEEEEEeECCCCCceEEEEEEECCEEEEEEEeCCHHHHHHHHHHHHHHHHHh
Confidence 46799999999999999888 8987 57799999999999999999999999999999999999999999854
No 9
>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=8.1e-17 Score=114.50 Aligned_cols=67 Identities=42% Similarity=0.586 Sum_probs=63.3
Q ss_pred ChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHh
Q 024888 30 LYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 96 (261)
Q Consensus 30 n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L 96 (261)
|||+.|+||||++++..|.|++ ...|+.|.+.|++.|.|+|..++.|.|.|||+||+.||+.||+.|
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 7999999999999899999998 678999999999999999988899999999999999999999875
No 10
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=99.67 E-value=2.5e-16 Score=112.34 Aligned_cols=66 Identities=45% Similarity=0.579 Sum_probs=61.7
Q ss_pred hHHHHHHHHHHcCCCCCcEEec-ccCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhh
Q 024888 31 YKNVLQELAQKEAYALPVYNTK-QSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 97 (261)
Q Consensus 31 ~KS~LQEl~Qk~~~~~P~Y~~~-~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~ 97 (261)
||+.|+||||++++ .|.|++. ..|++|.+.|+|.|.|+|..++.|.|.|||+||+.||+.||+.|.
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 78999999999999 8999984 589999999999999999989999999999999999999998873
No 11
>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=5.7e-16 Score=111.19 Aligned_cols=66 Identities=36% Similarity=0.542 Sum_probs=59.0
Q ss_pred hHHHHHHHHHHcCCCCCcEEecccCCCCC-CcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHh
Q 024888 31 YKNVLQELAQKEAYALPVYNTKQSGESHA-PTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRL 96 (261)
Q Consensus 31 ~KS~LQEl~Qk~~~~~P~Y~~~~sGp~H~-~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L 96 (261)
||+.|+|||++.++.+|.|.+...|++|. +.|.++|+|+|..++.|.|.|||+||+.||+.||+.|
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 8999999999999999999999999999999999986
No 12
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=99.44 E-value=3.7e-13 Score=130.40 Aligned_cols=98 Identities=24% Similarity=0.268 Sum_probs=89.5
Q ss_pred CchhcHHHHHHHHHHHHhhhhccc--cCCCCChHHHHHHHHHHcCCC------CCcEEe-cccCCCCCCcEEEEEEECCE
Q 024888 1 MLEKQIELLRSMQRSQLSMMFTNQ--EDDSVLYKNVLQELAQKEAYA------LPVYNT-KQSGESHAPTFVSTVEVGGE 71 (261)
Q Consensus 1 ~LD~Gle~ar~fV~kll~~~l~~~--~~~~~n~KS~LQEl~Qk~~~~------~P~Y~~-~~sGp~H~~~Ftv~V~V~g~ 71 (261)
|+|+|++.||+|+..++.|.+..+ ...+.|||++||++|...... +|.|.+ ...||.+.++|+|.|+++|+
T Consensus 397 yvD~~le~~~qf~~~l~~Prl~~fi~nq~wndpkskLqq~cl~~rys~~~epdip~y~V~~~~gpa~~r~y~Vavyf~gk 476 (533)
T KOG1817|consen 397 YVDKGLEYCRQFLRVLFFPRLKEFIRNQDWNDPKSKLQQCCLTLRYSLGGEPDIPLYKVLGAKGPANDRNYKVAVYFKGK 476 (533)
T ss_pred hhcCCcHHHHHHHHHHhhHHHHHHHHhhhccCcHHHHHHHHHHHhcccCCCCCCceEEEecccCCCCCCceEEEEEECCE
Confidence 689999999999999999998874 457899999999999987553 688888 68899999999999999999
Q ss_pred EeecccCCCHHHHHHHHHHHHHHHhhC
Q 024888 72 VFSGQGAKSKKQAEMSAAKVAYMRLKE 98 (261)
Q Consensus 72 ~~g~G~G~SKKeAEq~AAk~AL~~L~~ 98 (261)
.++.|.|++.|+||..||+.||+.+..
T Consensus 477 rlat~~G~nik~Ae~rAA~~ALe~~~~ 503 (533)
T KOG1817|consen 477 RLATGVGSNIKQAEMRAAMQALENLKM 503 (533)
T ss_pred EEeeccCchHhHHHHHHHHHHHHHHHh
Confidence 999999999999999999999998874
No 13
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=99.43 E-value=4.2e-13 Score=103.00 Aligned_cols=69 Identities=32% Similarity=0.425 Sum_probs=61.5
Q ss_pred CChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEEee---------c-ccCCCHHHHHHHHHHHHHHHhh
Q 024888 29 VLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFS---------G-QGAKSKKQAEMSAAKVAYMRLK 97 (261)
Q Consensus 29 ~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g---------~-G~G~SKKeAEq~AAk~AL~~L~ 97 (261)
+++++.|+|+|++++|+.|.|++ ...||+|.+.|++.|.|.+..+. . -...+||+|+..||+.||+.|+
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 57899999999999999988773 2 2347899999999999999884
No 14
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=99.27 E-value=1.2e-11 Score=116.68 Aligned_cols=73 Identities=32% Similarity=0.321 Sum_probs=66.7
Q ss_pred CCChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhCCCC
Q 024888 28 SVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPNP 101 (261)
Q Consensus 28 ~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~~~~~ 101 (261)
..||+++||||||+++|.+|.|++ .+.|+.|.+.|++.|.|.+.. ..|.|.|||.|+++||..+|+.|.....
T Consensus 141 ~~NPI~~L~e~~q~k~~k~P~yelv~E~G~~~~rEFv~q~sv~~~~-~~GkG~sKKiAKRnAAeamLe~l~~~~~ 214 (339)
T KOG3732|consen 141 VLNPIGRLQELAQAKKWKLPEYELVQESGVPHRREFVIQCSVENFT-EEGKGPSKKIAKRNAAEAMLESLGFVKP 214 (339)
T ss_pred ccChHHHHHHHHHHhCCCCCceEEEeccCCCccceEEEEEEeccee-eecCCchHHHHHHHHHHHHHHHhccCCC
Confidence 579999999999999999999998 688999999999999999864 5689999999999999999999986543
No 15
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=99.19 E-value=1.1e-10 Score=110.14 Aligned_cols=70 Identities=33% Similarity=0.431 Sum_probs=63.0
Q ss_pred CChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhCCC
Q 024888 29 VLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN 100 (261)
Q Consensus 29 ~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~~~~ 100 (261)
+.+++.|||+|.+.+. .|.|++ .++||.|.+.|+++|.|+. .-+.|.|+|||.|++.||..+|..|....
T Consensus 38 KS~IS~l~E~~~r~~~-~v~fevl~eeGp~H~~~fv~rvtvg~-~~a~GeG~sKK~AKh~AA~~~L~~lk~l~ 108 (339)
T KOG3732|consen 38 KSPISLLQEYGLRRGL-TPVYEVLREEGPPHMPNFVFRVTVGE-ITATGEGKSKKLAKHRAAEALLKELKKLP 108 (339)
T ss_pred CChHHHHHHHHHHhCC-CcceeeeeccCCccCCCeEEEEEEee-eEEecCCCchhHHHHHHHHHHHHHHhcCC
Confidence 8999999999999988 569998 6799999999999999984 44678999999999999999999998643
No 16
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=98.56 E-value=1.9e-07 Score=87.56 Aligned_cols=108 Identities=27% Similarity=0.363 Sum_probs=81.3
Q ss_pred hhcHHHHHHHHHHH-Hhhhhcccc-CCCCChHHHHHHHHHHcCCCCCcEEe-cccC-CCCCCcEEEEEEECCEEeecccC
Q 024888 3 EKQIELLRSMQRSQ-LSMMFTNQE-DDSVLYKNVLQELAQKEAYALPVYNT-KQSG-ESHAPTFVSTVEVGGEVFSGQGA 78 (261)
Q Consensus 3 D~Gle~ar~fV~kl-l~~~l~~~~-~~~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sG-p~H~~~Ftv~V~V~g~~~g~G~G 78 (261)
++|+..+++||... +...++.-+ -...+|...|-++|+++|...|+|++ .+.| -...|.|.|.++-|.+.+|.|.|
T Consensus 204 ek~~~~v~dFI~~qi~~k~L~~~~m~ql~~P~~~L~~lckr~~l~epe~Rll~esGr~S~~PvyvVgiYs~kkllGqG~G 283 (333)
T KOG3769|consen 204 EKGFNFVRDFINDQILSKDLDPREMWQLQWPRRLLSRLCKRRGLKEPESRLLAESGRNSAEPVYVVGIYSGKKLLGQGQG 283 (333)
T ss_pred HHHHHHHHHHHHHHhhhhccchHhhccccchHHHHHHHHHHcCCCCchhHHHHHhccCccCceEEEEeecCchhhccCcc
Confidence 44555555555332 222222111 13579999999999999999999998 4555 46778999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHhhCCCCCCCCCccCCCcccCcccc
Q 024888 79 KSKKQAEMSAAKVAYMRLKEPNPSQGPALVSPDIQAQADYS 119 (261)
Q Consensus 79 ~SKKeAEq~AAk~AL~~L~~~~~~~~~~~~~~~~~~~p~ft 119 (261)
.|-|.|++.||++||..+-.-.+ ..+.+|||+
T Consensus 284 esl~~A~e~AA~dAL~k~y~~tp---------~~~~p~~~~ 315 (333)
T KOG3769|consen 284 ESLKLAEEQAARDALIKLYDHTP---------ERQRPPDYS 315 (333)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCh---------hhcCCCccc
Confidence 99999999999999999986542 345567777
No 17
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=98.49 E-value=3.4e-07 Score=91.58 Aligned_cols=69 Identities=35% Similarity=0.431 Sum_probs=63.0
Q ss_pred CCChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhCCCCC
Q 024888 28 SVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPNPS 102 (261)
Q Consensus 28 ~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~~~~~~ 102 (261)
.+||.+.|.|+++ -+.|++ ...||.|.+.|.+.|.|+|..|.+| |+|||+|++.||+.||+.|.....+
T Consensus 89 ~~npv~ll~e~~~-----~~~~~~~~~~~~~~~~~F~~~~~vdg~~~~~~-~~sKk~ak~~aa~~al~~l~~~~~~ 158 (542)
T KOG2777|consen 89 GKNPVSLLHELAN-----GLFFDFVNESGPQHAPKFVMSVVVDGRWFEGG-GRSKKEAKQEAAMAALQVLFKIDEN 158 (542)
T ss_pred cCCchHHHHHHhc-----ccceeeeccCCCCCCceEEEEEEECCEEccCC-CcchHHHHHHHHHHHHHHHHhccCC
Confidence 7899999999999 457887 6889999999999999999999888 9999999999999999999876554
No 18
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=98.01 E-value=8.5e-06 Score=80.91 Aligned_cols=71 Identities=23% Similarity=0.223 Sum_probs=61.5
Q ss_pred CCCChHHHHHHHHHHcCCCCCcEEecccCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhC
Q 024888 27 DSVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKE 98 (261)
Q Consensus 27 ~~~n~KS~LQEl~Qk~~~~~P~Y~~~~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~~ 98 (261)
.++...-.|.||+|+-.+.+|.|++.+- ....-.|...|.+++..||.|.|.|||.|+..||+.+|+.|..
T Consensus 373 ngks~vCiLhEy~q~~lk~~pvyef~e~-~n~stpysa~v~~d~~~yGsG~g~sKK~Ak~~AAR~tLeiLIP 443 (650)
T KOG4334|consen 373 NGKSKVCILHEYAQQCLKSLPVYEFAEN-DNNSTPYSAGVLPDLFPYGSGVGASKKTAKLVAARDTLEILIP 443 (650)
T ss_pred CCceeeehHHHHHHHHhhhcceeehhhc-cCCCCcccccccccccccccccccchHHHHHHHHHHHHHHhcc
Confidence 4567778999999999999999998431 2445679999999999999999999999999999999999864
No 19
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=96.90 E-value=0.00054 Score=69.05 Aligned_cols=113 Identities=23% Similarity=0.240 Sum_probs=77.2
Q ss_pred CcEEe-cccCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhCCCCCCCCCccCCCcccCccccccccC-
Q 024888 47 PVYNT-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPNPSQGPALVSPDIQAQADYSSSSLQ- 124 (261)
Q Consensus 47 P~Y~~-~~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~~~~~~~~~~~~~~~~~~~p~ft~~~~~- 124 (261)
+.|.. .+.||.|.|.|.+.|.|+|..|- ||.|++.||..|++.+.+-..- +..|..+....+||+.+...
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 68886 68999999999999999998765 9999999999999988863322 44555555555555444221
Q ss_pred --------cCc---------ccccc--------ccccccceeecCCCCCC-----cchHHHHhhhcccccccc
Q 024888 125 --------SNV---------TADLH--------HNIQTAGRLVFNPNSMP-----KVQAEEIRELTTVNTEVA 167 (261)
Q Consensus 125 --------~~~---------t~~~~--------~~~~~~~~~~~~~~~~~-----kk~aee~~a~~~~~~~~~ 167 (261)
++. .+++. ++.-....+++||..++ ||+|.+.||.++...+..
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 000 11111 11112345566877766 999999999999887655
No 20
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=95.96 E-value=0.01 Score=63.36 Aligned_cols=68 Identities=25% Similarity=0.319 Sum_probs=61.5
Q ss_pred ChHHHHHHHHHHcCCCCCcEEecccCCCCCCcEEEEEEECCEEe-ecccCCCHHHHHHHHHHHHHHHhhC
Q 024888 30 LYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVF-SGQGAKSKKQAEMSAAKVAYMRLKE 98 (261)
Q Consensus 30 n~KS~LQEl~Qk~~~~~P~Y~~~~sGp~H~~~Ftv~V~V~g~~~-g~G~G~SKKeAEq~AAk~AL~~L~~ 98 (261)
|-|..|..||-++... |.|++..+|+....+|.|.|.+.+..+ +.|...+||+|+.+||+...+.|..
T Consensus 2 d~k~fly~~~~k~~~~-p~~d~~~~~~~~rqrf~ce~~~~~~~~~~~~~stnkKda~knac~dfv~ylvr 70 (1282)
T KOG0921|consen 2 DVKEFLYAWLGKNKYG-PTYDIRSEGRKGRQRFLCEVRVEGFGYTAVGNSTNKKDAATNAAQDFCQYLVR 70 (1282)
T ss_pred cHHHHHHHHHhhhccC-cceehhhhcccchhheeeeeeccCCcceeeecccccchhhHHHHHHHHHHhhh
Confidence 6789999999999986 899999999999999999999999887 4577788999999999999998864
No 21
>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=95.70 E-value=0.04 Score=42.93 Aligned_cols=65 Identities=26% Similarity=0.290 Sum_probs=42.7
Q ss_pred HHHHHHHHHHcCC-----CCCcEEecccCCCCCCcEEEEEEECCE----EeecccCCCHHHHHHHHHHHHHHHhhCCC
Q 024888 32 KNVLQELAQKEAY-----ALPVYNTKQSGESHAPTFVSTVEVGGE----VFSGQGAKSKKQAEMSAAKVAYMRLKEPN 100 (261)
Q Consensus 32 KS~LQEl~Qk~~~-----~~P~Y~~~~sGp~H~~~Ftv~V~V~g~----~~g~G~G~SKKeAEq~AAk~AL~~L~~~~ 100 (261)
.+.|+.||++... ..|.|.+...+. .|.++|.+=.. .+.+..-.|||.|++.||-.|+..|.+.+
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 458999865432 89998887632 23334679999999999999999997643
No 22
>KOG2334 consensus tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=93.39 E-value=0.036 Score=54.87 Aligned_cols=72 Identities=29% Similarity=0.214 Sum_probs=62.5
Q ss_pred CCChHHHHHHHHHHcCCCCCcEEecccCCCCCCcEEEEEEECCEEeecccC-CCHHHHHHHHHHHHHHHhhCCCCC
Q 024888 28 SVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVGGEVFSGQGA-KSKKQAEMSAAKVAYMRLKEPNPS 102 (261)
Q Consensus 28 ~~n~KS~LQEl~Qk~~~~~P~Y~~~~sGp~H~~~Ftv~V~V~g~~~g~G~G-~SKKeAEq~AAk~AL~~L~~~~~~ 102 (261)
+..+|..|..||.+.+..-|.|++... -++.|...+.++|..|..+.+ .++|.|||.||..+|......+..
T Consensus 374 ~~~~k~~l~~~~~~~~~~~~~ye~~~~---~d~lf~si~~~~~~~~~ssi~~~n~k~aeq~aa~~~l~~s~l~e~~ 446 (477)
T KOG2334|consen 374 WDTPKMVLADLCVKTKANGPVYETVQR---TDKLFSSIATARGQKYNSSIWSPNKKSAEQDAAIVALRKSNLWEAD 446 (477)
T ss_pred CCCHHHHHHHhhhhhcCCCcchhhhhh---hhhhhHHHhhhhhhhhhccccCcchhhHHHHHHHHHHHhcCcchhh
Confidence 478999999999999999999998543 468899999999999977654 899999999999999998876544
No 23
>PF14954 LIX1: Limb expression 1
Probab=91.13 E-value=0.69 Score=42.49 Aligned_cols=68 Identities=32% Similarity=0.331 Sum_probs=48.7
Q ss_pred CCCChHHHHHHHHHHc---CCCCCcEEe--cccCCCCCCcEEEEEEECCEE-eec-ccCCCHHHHHHHHHHHHHH
Q 024888 27 DSVLYKNVLQELAQKE---AYALPVYNT--KQSGESHAPTFVSTVEVGGEV-FSG-QGAKSKKQAEMSAAKVAYM 94 (261)
Q Consensus 27 ~~~n~KS~LQEl~Qk~---~~~~P~Y~~--~~sGp~H~~~Ftv~V~V~g~~-~g~-G~G~SKKeAEq~AAk~AL~ 94 (261)
...|-...|||+=|.+ |..+|.=.+ -++.|...|-|.|-|++-|-. ||. ....||-+|++.|||.||-
T Consensus 19 ~~vnvV~~LqeFWq~Kq~r~a~~~~~~lv~YEs~ps~~ppyVcyVTLPGGSCFGnfq~C~tkAEARR~AAKiALm 93 (252)
T PF14954_consen 19 GDVNVVEALQEFWQMKQSRGADLKSEALVVYESVPSPSPPYVCYVTLPGGSCFGNFQNCPTKAEARRSAAKIALM 93 (252)
T ss_pred ccchHHHHHHHHHHHHHhccccCCCCCeeeeeccCCCCCCeEEEEeCCCCCccCccccCCcHHHHHhhhHHHHHH
Confidence 4579999999966543 222222111 245677789999999998765 454 4679999999999999984
No 24
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=83.75 E-value=0.54 Score=49.33 Aligned_cols=67 Identities=21% Similarity=0.092 Sum_probs=53.5
Q ss_pred CCChHHHHHHHHHHcCCCCCcEE------e-cccCCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhh
Q 024888 28 SVLYKNVLQELAQKEAYALPVYN------T-KQSGESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 97 (261)
Q Consensus 28 ~~n~KS~LQEl~Qk~~~~~P~Y~------~-~~sGp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~ 97 (261)
..|+.+++.-+-|++.. ..|+ + ...||.|.++|+++|.++|..+.. .|.|||.|+-.||++-|+...
T Consensus 369 f~d~nak~mhl~grRhr--LQYk~kv~p~Lvv~t~P~~~~~~t~e~r~~~~~~~a-~gps~~~~~wh~~~k~lq~~~ 442 (816)
T KOG3792|consen 369 FNDPNAKEMHLKGRRHR--LQYKQKVDPDLVVDTKPSHRPRRTMEVRVNGLPAEA-EGPSKKTAKWHAARKRLQNEG 442 (816)
T ss_pred CCCcchHHhhhhccccc--ceeccccCCCceeccCCcccchhhhhhhhcCCcccc-CCcccccchHHHHHHHhhccC
Confidence 35666666666555433 3788 5 678999999999999999988754 599999999999999998873
No 25
>KOG3792 consensus Transcription factor NFAT, subunit NF90 [General function prediction only]
Probab=73.46 E-value=4.2 Score=43.01 Aligned_cols=68 Identities=22% Similarity=0.102 Sum_probs=51.3
Q ss_pred ccCCCCChHHHHHHHHHHcCCCCCcEEe-cccC-CCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhh
Q 024888 24 QEDDSVLYKNVLQELAQKEAYALPVYNT-KQSG-ESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLK 97 (261)
Q Consensus 24 ~~~~~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sG-p~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~ 97 (261)
++...+++...|.|- +.+ . .|++ .+.| -.|.++|...|.+.|+.+ .|.+..++-|..-|+-.|++.+.
T Consensus 501 ~~~alK~vsd~L~Ek--~rg--~-k~El~set~~gs~~~R~v~gV~rvG~~a-kG~~~~gd~a~~~a~Lca~~pt~ 570 (816)
T KOG3792|consen 501 LERALKLVSDELAEK--RRG--D-KYELPSETGTGSHDKRFVKGVMRVGILA-KGLLLNGDRAVELALLCAEKPTS 570 (816)
T ss_pred HHHhhcchhHHHhhh--ccc--c-ceecccccCCCCCCceeeeeeeeeehhh-ccccccchHHHHHHHHhccCccc
Confidence 444567777777776 222 3 7887 4544 799999999999999876 46889999999988888776543
No 26
>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=73.33 E-value=2.3 Score=29.35 Aligned_cols=49 Identities=8% Similarity=0.140 Sum_probs=28.9
Q ss_pred Ccccccccc-CcCccccccccccccceeecCCCCCCcchHHHHhhhcccc
Q 024888 115 QADYSSSSL-QSNVTADLHHNIQTAGRLVFNPNSMPKVQAEEIRELTTVN 163 (261)
Q Consensus 115 ~p~ft~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~kk~aee~~a~~~~~ 163 (261)
.|.|..... ..+....+.+........+..+..-+||+|++.||..++.
T Consensus 17 ~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~sKk~Ak~~AA~~al~ 66 (68)
T cd00048 17 LPEYELVEEEGPDHAPRFTVEVTVGGKITGEGEGSSKKEAKQNAAEAALR 66 (68)
T ss_pred CCeEEEeeeeCCCCCCeEEEEEEECCEEEEEeecCCHHHHHHHHHHHHHH
Confidence 466665432 2222344544444444444445444699999999998875
No 27
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=71.05 E-value=2.8 Score=29.08 Aligned_cols=50 Identities=8% Similarity=0.131 Sum_probs=28.4
Q ss_pred Ccccccccc-CcCccccccccccccceeecCCCCCCcchHHHHhhhccccc
Q 024888 115 QADYSSSSL-QSNVTADLHHNIQTAGRLVFNPNSMPKVQAEEIRELTTVNT 164 (261)
Q Consensus 115 ~p~ft~~~~-~~~~t~~~~~~~~~~~~~~~~~~~~~kk~aee~~a~~~~~~ 164 (261)
.|.|..... ..+....+.+........+..+..-+||+|++.||+.++..
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 356655432 22222344444444343444455555999999999988763
No 28
>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=65.15 E-value=5.7 Score=30.29 Aligned_cols=19 Identities=32% Similarity=0.601 Sum_probs=14.9
Q ss_pred ccC--CCceeee-cCCcEEEEe
Q 024888 237 KFP--EGSSVLH-RDNQWVAWT 255 (261)
Q Consensus 237 ~~p--~g~tvl~-~~~~wva~~ 255 (261)
.+| +|=||.| .|+.||||+
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 29
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=53.05 E-value=17 Score=41.92 Aligned_cols=76 Identities=24% Similarity=0.161 Sum_probs=56.2
Q ss_pred ccCCCCChHHHHHHHHHHcCCCCCcEEe-cccCCCCCCcEEE--------------EEEECCEEeecccCCCHHHHHHHH
Q 024888 24 QEDDSVLYKNVLQELAQKEAYALPVYNT-KQSGESHAPTFVS--------------TVEVGGEVFSGQGAKSKKQAEMSA 88 (261)
Q Consensus 24 ~~~~~~n~KS~LQEl~Qk~~~~~P~Y~~-~~sGp~H~~~Ftv--------------~V~V~g~~~g~G~G~SKKeAEq~A 88 (261)
+....+..++.+.+-|-..++.+|-+.. .+.++.|..+|.. +|.+.+.....|.|...+.|+..|
T Consensus 1509 iagai~~dsg~~~~~~~~~~~a~p~~s~~~E~~~~h~~~~~~~~~~k~~d~~~~~~tv~~~~~~~~~~~g~~~~~aK~s~ 1588 (1606)
T KOG0701|consen 1509 IAGAIKLDSGNMMEPCIEKFWALPPRSPIRELLELHPERALFGKCEKVADAGKVRVTVDVFNKEVFAGEGRNYRIAKASA 1588 (1606)
T ss_pred ccceeecCcccccchHhhcCcCCCCccchhhhccccceeeccchhhhhhhccceEEEEEecccchhhhcchhhhhhhhhH
Confidence 3344567777999999999999999997 6778888766432 333334444457789999999999
Q ss_pred HHHHHHHhhCC
Q 024888 89 AKVAYMRLKEP 99 (261)
Q Consensus 89 Ak~AL~~L~~~ 99 (261)
|+.|++.|...
T Consensus 1589 ~k~A~~ll~~~ 1599 (1606)
T KOG0701|consen 1589 AKAALKLLKKL 1599 (1606)
T ss_pred HHHHHHHHHHh
Confidence 99998887653
No 30
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=52.69 E-value=55 Score=22.08 Aligned_cols=20 Identities=40% Similarity=0.501 Sum_probs=14.4
Q ss_pred ecccCCCHHHHHHHHHHHHH
Q 024888 74 SGQGAKSKKQAEMSAAKVAY 93 (261)
Q Consensus 74 g~G~G~SKKeAEq~AAk~AL 93 (261)
..+...||++|+..+++.-.
T Consensus 20 ~k~GF~TkkeA~~~~~~~~~ 39 (46)
T PF14657_consen 20 TKRGFKTKKEAEKALAKIEA 39 (46)
T ss_pred EcCCCCcHHHHHHHHHHHHH
Confidence 44557999999997766433
No 31
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=51.98 E-value=6.6 Score=34.98 Aligned_cols=45 Identities=7% Similarity=0.005 Sum_probs=29.3
Q ss_pred cCcCccccccccccccceeecCCCCCCcchHHHHhhhcccccccc
Q 024888 123 LQSNVTADLHHNIQTAGRLVFNPNSMPKVQAEEIRELTTVNTEVA 167 (261)
Q Consensus 123 ~~~~~t~~~~~~~~~~~~~~~~~~~~~kk~aee~~a~~~~~~~~~ 167 (261)
...++.+.|...+...+..+-.|...+||+||+.||..++..+++
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 344555555444444444444455556999999999999987655
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=48.38 E-value=26 Score=26.18 Aligned_cols=28 Identities=14% Similarity=0.117 Sum_probs=22.7
Q ss_pred EEeecccCCCHHHHHHHHHHHHHHHhhC
Q 024888 71 EVFSGQGAKSKKQAEMSAAKVAYMRLKE 98 (261)
Q Consensus 71 ~~~g~G~G~SKKeAEq~AAk~AL~~L~~ 98 (261)
..++.|.|.+++.|+++|-..+.+.|..
T Consensus 13 ~l~a~G~~~~~~~A~~~A~~~la~~i~~ 40 (92)
T PF02169_consen 13 YLYAVGSGSSREQAKQDALANLAEQISV 40 (92)
T ss_pred EEEEEEcccChHHHHHHHHHHHHHheeE
Confidence 4568899999999999888888876653
No 33
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=43.69 E-value=9.4 Score=41.86 Aligned_cols=72 Identities=24% Similarity=0.184 Sum_probs=57.8
Q ss_pred CCChHHHHHHHHHHcCCCCCcEEecccCCCCCCcEEEEEEEC-----CEEeecccCCCHHHHHHHHHHHHHHHhhCCC
Q 024888 28 SVLYKNVLQELAQKEAYALPVYNTKQSGESHAPTFVSTVEVG-----GEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN 100 (261)
Q Consensus 28 ~~n~KS~LQEl~Qk~~~~~P~Y~~~~sGp~H~~~Ftv~V~V~-----g~~~g~G~G~SKKeAEq~AAk~AL~~L~~~~ 100 (261)
..|-|..|+++-|++.. .-.|+-..-||.|.+.|+.+..+- -...+.+.|+.||.|+...|....+.|..-+
T Consensus 166 ~eN~K~~ln~~~q~~~~-~~~y~~~~~g~~~~~s~~~e~si~v~~~~~~~~~~~~gsnkk~~~~~ca~s~vrqm~hl~ 242 (1282)
T KOG0921|consen 166 MENAKKALNEYLQKMRI-QDNYKYTIVGPEHVRSFEAEASIYVPQLNRNLVAKETGSNKKVAEASCALSLVRQLFHLN 242 (1282)
T ss_pred cchhHHHHhHHHhhhhh-ccccceeecCCccccchhhhHHHhhhhhchhhhhhhccccceecCcchHHHHHHHHHHHh
Confidence 46999999999999988 448888788999999999876543 2223567899999999999998887765433
No 34
>PF14600 CBM_5_12_2: Cellulose-binding domain; PDB: 1AIW_A.
Probab=40.70 E-value=14 Score=27.62 Aligned_cols=20 Identities=35% Similarity=0.620 Sum_probs=12.7
Q ss_pred cceeeEEEecCCCCcccCCC
Q 024888 222 RTCKIIRVRPNRPNMKFPEG 241 (261)
Q Consensus 222 ~~~~~~~~~~~~~~~~~p~g 241 (261)
+.|.-|.|||+.|.-...-|
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 45778999999998777754
No 35
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=34.19 E-value=16 Score=32.69 Aligned_cols=42 Identities=12% Similarity=0.115 Sum_probs=24.5
Q ss_pred cCccccccccccccceeecCCCCCCcchHHHHhhhccccccc
Q 024888 125 SNVTADLHHNIQTAGRLVFNPNSMPKVQAEEIRELTTVNTEV 166 (261)
Q Consensus 125 ~~~t~~~~~~~~~~~~~~~~~~~~~kk~aee~~a~~~~~~~~ 166 (261)
.++.+.|...+-..+.++-.|...+||+||+.||+.++.-+.
T Consensus 135 pdH~~~Ftv~V~V~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~ 176 (183)
T PHA02701 135 HDHCPLFTCTIVVSGKVVATASGCSKKLARHAACADALTILI 176 (183)
T ss_pred CCCCceEEEEEEECCEEEEEEEeCCHHHHHHHHHHHHHHHHH
Confidence 344444433333333333334444599999999999997553
No 36
>COG1944 Uncharacterized conserved protein [Function unknown]
Probab=33.18 E-value=1.5e+02 Score=29.64 Aligned_cols=67 Identities=18% Similarity=0.043 Sum_probs=43.1
Q ss_pred hHHHHHHHHHHcCCCCCcEEecccCCC--CCCcEEEE-EEECCEEeecccCCCHHHHHHHHHHHHHHHhhCCC
Q 024888 31 YKNVLQELAQKEAYALPVYNTKQSGES--HAPTFVST-VEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKEPN 100 (261)
Q Consensus 31 ~KS~LQEl~Qk~~~~~P~Y~~~~sGp~--H~~~Ftv~-V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~~~~ 100 (261)
--..+|.++++.|..- +- ..+|-+ .-|.|... -.--+..+..|.|.||+.|...|..++++.+....
T Consensus 19 t~~~~q~~l~~~gitr-I~--~~t~Ld~~gIPv~~a~rp~~~~~~~~~GKGat~~~A~vSAimE~~Er~sAe~ 88 (398)
T COG1944 19 TLAAFQPLLAALGITR-IE--DITWLDRLGIPVVWAVRPRALGLSVSQGKGATKAAARVSALMEALERLSAEY 88 (398)
T ss_pred HHHHHHHHHHhcCcee-ee--eeeccccCCCceEEEeeeccccceeecCCCCCHHHHHHHHHHHHHHHhhccc
Confidence 4456777777777532 11 233434 33443322 22224567789999999999999999999886543
No 37
>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=32.64 E-value=16 Score=22.31 Aligned_cols=18 Identities=33% Similarity=0.486 Sum_probs=15.5
Q ss_pred ccCCCceeeecCCcEEEE
Q 024888 237 KFPEGSSVLHRDNQWVAW 254 (261)
Q Consensus 237 ~~p~g~tvl~~~~~wva~ 254 (261)
..|-|++|.+.++-|||=
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 478999999999999984
No 38
>PRK12371 ribonuclease III; Reviewed
Probab=32.15 E-value=24 Score=32.07 Aligned_cols=52 Identities=13% Similarity=0.122 Sum_probs=30.4
Q ss_pred cCccccccc-cCcCccccccccccccceeecCCCCCCcchHHHHhhhcccccc
Q 024888 114 AQADYSSSS-LQSNVTADLHHNIQTAGRLVFNPNSMPKVQAEEIRELTTVNTE 165 (261)
Q Consensus 114 ~~p~ft~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~~kk~aee~~a~~~~~~~ 165 (261)
..|.|.+.. ...++...|...+-..+...--|...+||+||+.||+.+++.+
T Consensus 177 ~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~~g~G~sKK~Ae~~AA~~al~~~ 229 (235)
T PRK12371 177 VTPVYRVDSRSGPDHDPRFTVEVEVKGFAPETGEGRSKRAAEQVAAEKMLERE 229 (235)
T ss_pred CCCeEEEEEeecCCCCCeEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHHh
Confidence 347886552 3334445554444333333223344459999999999998743
No 39
>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=31.20 E-value=32 Score=27.45 Aligned_cols=15 Identities=40% Similarity=0.663 Sum_probs=12.8
Q ss_pred Cceeee-cCCcEEEEe
Q 024888 241 GSSVLH-RDNQWVAWT 255 (261)
Q Consensus 241 g~tvl~-~~~~wva~~ 255 (261)
|=||.| .|+.||||.
T Consensus 53 ~PTVs~l~~~~w~AV~ 68 (100)
T TIGR03455 53 GPTVSPLADEGWVAVH 68 (100)
T ss_pred CCCcCcCCCCCeEEEE
Confidence 668999 788899997
No 40
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=25.85 E-value=2e+02 Score=29.93 Aligned_cols=67 Identities=13% Similarity=0.169 Sum_probs=40.0
Q ss_pred CChHHHHHHHHHHc-CCCCCcEEeccc-CCCCCCcEEEEEEECCEEeecccCCCHHHHHHHHHHHHHHHhhC
Q 024888 29 VLYKNVLQELAQKE-AYALPVYNTKQS-GESHAPTFVSTVEVGGEVFSGQGAKSKKQAEMSAAKVAYMRLKE 98 (261)
Q Consensus 29 ~n~KS~LQEl~Qk~-~~~~P~Y~~~~s-Gp~H~~~Ftv~V~V~g~~~g~G~G~SKKeAEq~AAk~AL~~L~~ 98 (261)
..|-+.|.+..+++ ||.--....+.- +-.....|++.| |.--..+...+||+++|.|.+..|+.|-.
T Consensus 490 psPy~iL~~cl~Rn~g~~d~~ik~E~i~~~nqkse~im~~---Gkht~~~~cknkr~gkQlASQ~ilq~lHP 558 (650)
T KOG4334|consen 490 PSPYNILRDCLSRNLGWNDLVIKKEMIGNGNQKSEVIMIL---GKHTEEAECKNKRQGKQLASQRILQKLHP 558 (650)
T ss_pred CCHHHHHHHHHHhhcCCcceeeeeeccCCCCccceeEeee---ccceeeeeeechhHHHHHHHHHHHHHhCH
Confidence 35556666666664 332212222222 223344565443 44445678999999999999999988753
No 41
>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=24.52 E-value=43 Score=27.58 Aligned_cols=19 Identities=21% Similarity=0.364 Sum_probs=9.9
Q ss_pred cccc-ccCcceeeEEEecCC
Q 024888 215 QSVR-ADGRTCKIIRVRPNR 233 (261)
Q Consensus 215 ~~~~-~~~~~~~~~~~~~~~ 233 (261)
++++ +.|.+||||||-+.+
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 42
>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=23.03 E-value=51 Score=26.84 Aligned_cols=16 Identities=44% Similarity=0.889 Sum_probs=14.4
Q ss_pred cCCCceeeecCCcEEE
Q 024888 238 FPEGSSVLHRDNQWVA 253 (261)
Q Consensus 238 ~p~g~tvl~~~~~wva 253 (261)
||+|-||+-..++|..
T Consensus 34 FpdGlTv~Da~GqW~~ 49 (104)
T PF12098_consen 34 FPDGLTVLDAYGQWRD 49 (104)
T ss_pred CCCCceEEeccceEec
Confidence 6789999999999976
Done!