Query 021448
Match_columns 312
No_of_seqs 219 out of 1388
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 03:02:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021448.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021448hhsearch_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 100.0 2.6E-51 5.6E-56 362.2 22.3 219 33-272 5-234 (235)
2 PRK12371 ribonuclease III; Rev 100.0 5.5E-50 1.2E-54 356.8 24.3 215 34-270 10-232 (235)
3 PRK14718 ribonuclease III; Pro 100.0 2.1E-49 4.6E-54 370.7 22.8 218 36-275 3-228 (467)
4 PRK12372 ribonuclease III; Rev 100.0 3.3E-49 7.2E-54 367.8 23.1 218 36-275 3-228 (413)
5 PRK00102 rnc ribonuclease III; 100.0 2.4E-46 5.3E-51 333.9 23.2 215 34-269 3-228 (229)
6 TIGR02191 RNaseIII ribonucleas 100.0 3.1E-44 6.7E-49 318.3 22.4 208 39-267 1-220 (220)
7 KOG1817 Ribonuclease [RNA proc 100.0 3.4E-38 7.4E-43 290.3 18.1 216 35-272 274-506 (533)
8 PF14622 Ribonucleas_3_3: Ribo 100.0 1.5E-30 3.2E-35 211.8 6.1 124 49-194 1-126 (128)
9 smart00535 RIBOc Ribonuclease 100.0 5.9E-28 1.3E-32 196.4 11.8 126 51-197 1-127 (129)
10 cd00593 RIBOc RIBOc. Ribonucle 99.9 1.5E-27 3.3E-32 194.8 11.5 127 51-198 1-130 (133)
11 PF00636 Ribonuclease_3: Ribon 99.9 6.5E-25 1.4E-29 174.8 5.4 110 69-178 1-114 (114)
12 KOG3769 Ribonuclease III domai 99.9 3.5E-22 7.5E-27 177.3 14.9 217 34-273 63-307 (333)
13 KOG0701 dsRNA-specific nucleas 99.7 2E-17 4.4E-22 175.8 5.4 228 35-275 1370-1604(1606)
14 KOG1817 Ribonuclease [RNA proc 99.6 1.1E-15 2.5E-20 141.9 10.1 133 32-183 39-228 (533)
15 KOG0701 dsRNA-specific nucleas 99.6 1.4E-15 3.1E-20 161.9 11.1 149 34-182 979-1171(1606)
16 KOG3732 Staufen and related do 99.5 7.9E-14 1.7E-18 126.8 10.3 107 205-312 38-163 (339)
17 PHA02701 ORF020 dsRNA-binding 99.4 7.6E-13 1.7E-17 111.3 9.9 71 204-274 107-182 (183)
18 PHA03103 double-strand RNA-bin 99.4 1.8E-12 3.8E-17 109.9 11.6 88 186-273 88-181 (183)
19 PF00035 dsrm: Double-stranded 99.3 1E-11 2.2E-16 88.9 9.4 61 207-267 1-67 (67)
20 smart00358 DSRM Double-strande 99.3 1.5E-11 3.2E-16 87.9 8.9 61 207-267 1-66 (67)
21 cd00048 DSRM Double-stranded R 99.3 2.9E-11 6.4E-16 86.3 9.3 62 206-267 1-68 (68)
22 KOG3732 Staufen and related do 98.5 5.6E-07 1.2E-11 82.5 8.1 68 204-272 141-214 (339)
23 COG1939 Ribonuclease III famil 98.3 7.4E-06 1.6E-10 65.0 9.4 107 69-191 16-126 (132)
24 PF14709 DND1_DSRM: double str 98.2 3.1E-06 6.8E-11 62.9 6.5 64 205-268 1-80 (80)
25 KOG4334 Uncharacterized conser 97.5 9.3E-05 2E-09 70.8 4.2 61 208-268 378-442 (650)
26 KOG2777 tRNA-specific adenosin 97.1 0.0011 2.5E-08 65.1 6.9 62 204-270 89-155 (542)
27 PF03368 Dicer_dimer: Dicer di 95.8 0.091 2E-06 39.8 8.6 67 208-275 2-79 (90)
28 PF11469 Ribonucleas_3_2: Ribo 92.5 0.99 2.1E-05 34.8 7.7 88 71-194 3-90 (120)
29 PF14954 LIX1: Limb expression 90.8 0.66 1.4E-05 40.5 5.9 63 204-266 20-94 (252)
30 PRK14718 ribonuclease III; Pro 73.5 1.9 4.2E-05 41.9 1.7 22 291-312 151-172 (467)
31 PRK12371 ribonuclease III; Rev 72.0 2 4.3E-05 38.4 1.4 23 290-312 160-182 (235)
32 PRK12372 ribonuclease III; Rev 68.4 2.9 6.4E-05 40.3 1.7 21 292-312 152-172 (413)
33 PRK00102 rnc ribonuclease III; 65.1 3.8 8.3E-05 36.1 1.7 23 290-312 157-179 (229)
34 TIGR02191 RNaseIII ribonucleas 60.8 4.8 0.00011 35.1 1.5 23 290-312 151-173 (220)
35 KOG2334 tRNA-dihydrouridine sy 59.9 3.2 7E-05 40.0 0.2 73 204-276 374-449 (477)
36 COG0571 Rnc dsRNA-specific rib 56.0 6.1 0.00013 35.4 1.3 22 291-312 161-182 (235)
37 PF02169 LPP20: LPP20 lipoprot 55.0 21 0.00045 26.3 4.0 29 241-269 12-40 (92)
38 KOG0921 Dosage compensation co 54.1 22 0.00048 37.9 5.1 64 206-269 2-70 (1282)
39 PF00333 Ribosomal_S5: Ribosom 53.3 29 0.00063 24.6 4.2 37 232-268 23-63 (67)
40 PF08248 Tryp_FSAP: Tryptophyl 44.8 13 0.00029 17.0 0.9 9 303-311 2-10 (12)
41 COG3422 Uncharacterized conser 44.6 1E+02 0.0022 21.3 6.2 43 229-275 11-54 (59)
42 PHA02701 ORF020 dsRNA-binding 42.4 11 0.00023 32.4 0.7 21 291-312 108-128 (183)
43 KOG4334 Uncharacterized conser 40.5 94 0.002 30.9 6.7 64 204-268 489-557 (650)
44 PF06754 PhnG: Phosphonate met 37.4 1.9E+02 0.0042 23.8 7.4 36 233-268 65-102 (146)
45 PF01418 HTH_6: Helix-turn-hel 36.0 32 0.0007 24.7 2.3 42 82-125 20-64 (77)
46 PF12174 RST: RCD1-SRO-TAF4 (R 35.2 1.1E+02 0.0024 21.9 4.9 26 8-33 3-28 (70)
47 PF08383 Maf_N: Maf N-terminal 34.5 19 0.0004 22.1 0.7 11 162-172 25-35 (35)
48 TIGR01021 rpsE_bact ribosomal 33.6 86 0.0019 26.1 4.7 40 232-271 23-66 (154)
49 CHL00138 rps5 ribosomal protei 31.3 95 0.0021 25.6 4.6 40 232-271 45-88 (143)
50 PF14657 Integrase_AP2: AP2-li 30.9 1.3E+02 0.0028 19.3 4.3 22 245-267 20-41 (46)
51 PRK00550 rpsE 30S ribosomal pr 29.7 92 0.002 26.4 4.3 40 232-271 34-77 (168)
52 COG1944 Uncharacterized conser 29.6 1.8E+02 0.0039 28.2 6.7 64 209-272 21-89 (398)
53 PRK14741 spoVM stage V sporula 29.5 57 0.0012 18.3 2.0 18 156-173 6-23 (26)
54 PF13936 HTH_38: Helix-turn-he 27.7 67 0.0014 20.4 2.5 34 91-124 2-35 (44)
55 COG3624 PhnG Uncharacterized e 23.8 92 0.002 25.6 3.1 35 234-268 69-107 (151)
56 PF08727 P3A: Poliovirus 3A pr 22.1 47 0.001 22.8 1.0 15 296-310 31-45 (57)
57 TIGR03549 conserved hypothetic 21.8 2.5E+02 0.0053 29.5 6.4 64 207-270 161-228 (718)
58 PF07411 DUF1508: Domain of un 20.0 2.7E+02 0.0058 18.2 4.6 38 231-272 4-42 (49)
No 1
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=100.00 E-value=2.6e-51 Score=362.22 Aligned_cols=219 Identities=34% Similarity=0.495 Sum_probs=193.1
Q ss_pred HHHHHHHHHHcCcccCChhHHHHHHcCCCCCC----CCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCC
Q 021448 33 EDAVFYVENIINYNFKNKRLLEEALTHSSYTD----STSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANIS 108 (312)
Q Consensus 33 ~~~~~~le~~lgy~f~~~~Ll~~AlTh~S~~~----~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvs 108 (312)
...+..|++.+||+|+|++||.+||||+|+.+ ..||||||||||+||+++|+++||++||+.+||+||.+|+.+||
T Consensus 5 ~~~~~~l~~~lg~~f~~~~lL~~AltH~S~~~e~~~~~~nERLEFLGDavL~l~vae~Lf~~yP~~~EG~Ls~~ra~lV~ 84 (235)
T COG0571 5 IKKLEALEKKLGYTFKDKELLEQALTHRSYANEHKAVENNERLEFLGDAVLGLVVAEYLFKKYPNLPEGELSKLRAALVS 84 (235)
T ss_pred hHHHHHHHHHhCCCcCCHHHHHHHhcCcchhccccCCcchHHHHhhHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
Confidence 34678899999999999999999999999986 35899999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHcCchHHHhhcchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHH
Q 021448 109 TEKLARVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIF 188 (312)
Q Consensus 109 n~~La~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v 188 (312)
+++|+.+|+.+||++|++.+.... ..|+ ...+++++|+|||+|||||+|+|++ .+++|+
T Consensus 85 ~~~La~ia~~l~l~~~l~lg~ge~------------------~~gg-~~~~silaD~~EAligAiylD~g~~--~~~~~i 143 (235)
T COG0571 85 EESLAEIARELGLGDYLRLGKGEE------------------KSGG-RRRESILADAFEALIGAIYLDSGLE--AARKFI 143 (235)
T ss_pred HHHHHHHHHHhCccchhhccCChh------------------hcCC-CCchhHHHHHHHHHHHHHHHhCChH--HHHHHH
Confidence 999999999999999999986531 2344 6689999999999999999999976 455899
Q ss_pred HHhhhhhcChhhhh-cCCchhHHHHHHHHhcCCcee-eEEee-----eCCeEEEEEEECCEEEEEeeccCHHHHHHHHHH
Q 021448 189 RGLLEPIVTLEELQ-QQPQPVTLLFKLCQKNGKQVD-IKHWR-----KNRKNIASVYVDGSFVASASSEQKEIAKLNAAR 261 (312)
Q Consensus 189 ~~ll~p~i~~~~l~-~~~~p~~~L~e~~q~~~~~~~-~~~~~-----~g~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~ 261 (312)
.+++.|.+...+.. ...||++.||+|+|++++..+ |+... +.+.|++.|.++|..+|+|.|+|||+||+.||+
T Consensus 144 ~~l~~~~~~~~~~~~~~~D~Kt~LQe~~q~~~~~~p~Y~~v~~~g~~h~~~F~v~v~v~~~~~g~G~G~skk~AEq~AA~ 223 (235)
T COG0571 144 LKLFLPRLEEIDAGDQFKDPKTRLQELLQAQGLVLPEYRLVKEEGPAHDKEFTVEVAVGGKELGTGKGRSKKEAEQAAAE 223 (235)
T ss_pred HHHHHHHHhhccccccccChhHHHHHHHHhcCCCCCeEEEeeccCCCCCceEEEEEEECCeeEEEecccCHHHHHHHHHH
Confidence 99999988643332 236999999999999998654 77543 347899999999999999999999999999999
Q ss_pred HHHHHHhhcCC
Q 021448 262 EALEKLAQSMP 272 (312)
Q Consensus 262 ~AL~~L~~~~~ 272 (312)
.||+.|....+
T Consensus 224 ~al~~l~~~~~ 234 (235)
T COG0571 224 QALKKLGVKEP 234 (235)
T ss_pred HHHHHhccccC
Confidence 99999986543
No 2
>PRK12371 ribonuclease III; Reviewed
Probab=100.00 E-value=5.5e-50 Score=356.81 Aligned_cols=215 Identities=26% Similarity=0.303 Sum_probs=185.6
Q ss_pred HHHHHHHHHcCcccCChhHHHHHHcCCCCCC--CCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHH
Q 021448 34 DAVFYVENIINYNFKNKRLLEEALTHSSYTD--STSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEK 111 (312)
Q Consensus 34 ~~~~~le~~lgy~f~~~~Ll~~AlTh~S~~~--~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~ 111 (312)
+.+..||+++||+|+|++||.+||||+|+.. ..||||||||||+||+++|+++||.+||++++|+|+.+|+.+|||++
T Consensus 10 ~~~~~le~~lgy~F~~~~Ll~~AlTH~S~~~~~~~~~eRLEFLGDavL~l~vs~~Lf~~~p~~~eG~Lt~~rs~lV~n~~ 89 (235)
T PRK12371 10 ATASILEERTGHRFANKERLERALTHSSARASKQGNYERLEFLGDRVLGLCVAEMLFEAFPDASEGELSVRLNQLVNAET 89 (235)
T ss_pred HHHHHHHHHHCCCCCCHHHHHHHHcCcCcccCCccchHhHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhChHH
Confidence 3678899999999999999999999999975 46899999999999999999999999999999999999999999999
Q ss_pred HHHHHHHcCchHHHhhcchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHHh
Q 021448 112 LARVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRGL 191 (312)
Q Consensus 112 La~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~l 191 (312)
|+.+|.++||++||+.++... ..++ ...++++||+|||+|||||+|+|++. +++|+..+
T Consensus 90 La~ia~~lgL~~~i~~~~~~~------------------~~~~-~~~~~ilad~~EAliGAiylD~G~~~--a~~~i~~~ 148 (235)
T PRK12371 90 CAAIADEIGLHDLIRTGSDVK------------------KLTG-KRLLNVRADVVEALIAAIYLDGGLEA--ARPFIQRY 148 (235)
T ss_pred HHHHHHHCCcHHHhccCcchh------------------hcCC-cccchHHHHHHHHHHHHHHHcCCHHH--HHHHHHHH
Confidence 999999999999999875320 0111 34578999999999999999999875 45889999
Q ss_pred hhhhcChhhhhcCCchhHHHHHHHHhcCC-ceeeEEee-eC----CeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHH
Q 021448 192 LEPIVTLEELQQQPQPVTLLFKLCQKNGK-QVDIKHWR-KN----RKNIASVYVDGSFVASASSEQKEIAKLNAAREALE 265 (312)
Q Consensus 192 l~p~i~~~~l~~~~~p~~~L~e~~q~~~~-~~~~~~~~-~g----~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~ 265 (312)
+.|.+..... ...|||+.||||||+.+. .+.|.+.. .| +.|+|+|+++|..+|+|.|.|||+||++||+.||+
T Consensus 149 ~~~~~~~~~~-~~~d~Ks~LqE~~q~~~~~~p~Y~~~~~~Gp~h~~~F~v~v~v~~~~~~~g~G~sKK~Ae~~AA~~al~ 227 (235)
T PRK12371 149 WQKRALETDA-ARRDAKTELQEWAHAQFGVTPVYRVDSRSGPDHDPRFTVEVEVKGFAPETGEGRSKRAAEQVAAEKMLE 227 (235)
T ss_pred HHHHHhcccc-ccCCHHHHHHHHHHhcCCCCCeEEEEEeecCCCCCeEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHH
Confidence 8887643221 245999999999998765 45687653 23 68999999999999999999999999999999999
Q ss_pred HHhhc
Q 021448 266 KLAQS 270 (312)
Q Consensus 266 ~L~~~ 270 (312)
+++..
T Consensus 228 ~~~~~ 232 (235)
T PRK12371 228 REGVW 232 (235)
T ss_pred Hhhhh
Confidence 98753
No 3
>PRK14718 ribonuclease III; Provisional
Probab=100.00 E-value=2.1e-49 Score=370.68 Aligned_cols=218 Identities=27% Similarity=0.386 Sum_probs=188.4
Q ss_pred HHHHHHHcCcccCChhHHHHHHcCCCCCCCCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHHHH
Q 021448 36 VFYVENIINYNFKNKRLLEEALTHSSYTDSTSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLARV 115 (312)
Q Consensus 36 ~~~le~~lgy~f~~~~Ll~~AlTh~S~~~~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La~i 115 (312)
+..||++|||+|+|++||.+||||+||.. .+|||||||||+||+++|+++||.+||++++|.||.+|+.+|||++|+.+
T Consensus 3 l~~LEkrLGY~Fkn~~LL~eALTH~Sys~-e~NERLEFLGDAVL~liVse~Lf~~fPdl~EGeLT~LRS~LVSnetLA~I 81 (467)
T PRK14718 3 LSQLESRLRYEFRNAELLRQALTHRSHSA-THNERLEFLGDSVLNCAVAALLFQRFGKLDEGDLSRVRANLVKQQSLYEI 81 (467)
T ss_pred HHHHHHHhCCCcCCHHHHHHHHhccCcCc-ccHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHhhhHHHHHH
Confidence 46799999999999999999999999975 79999999999999999999999999999999999999999999999999
Q ss_pred HHHcCchHHHhhcchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHHhhhhh
Q 021448 116 AVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRGLLEPI 195 (312)
Q Consensus 116 a~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~ll~p~ 195 (312)
|..+||.+||+.+.... ..++ ...+++++|+|||||||||+|+|++ .+++||..+|.|.
T Consensus 82 Ar~LGL~d~Lrlg~gE~------------------~sgG-~~~~sILADvFEALIGAIYLDsG~e--~a~~fI~~ll~p~ 140 (467)
T PRK14718 82 AQALNISDGLRLGEGEL------------------RSGG-FRRPSILADAFEAIIGAVFLDGGFE--AAQGVIKRLYVPI 140 (467)
T ss_pred HHHcCchHHHhhCCccc------------------ccCC-CCChhHHHHHHHHHHHHHHHccCHH--HHHHHHHHHHHHH
Confidence 99999999999875321 1233 4578999999999999999999987 5678999999988
Q ss_pred cChhhh-hcCCchhHHHHHHHHhcCCce-eeEEee-eC----CeEEEEEEECCE-EEEEeeccCHHHHHHHHHHHHHHHH
Q 021448 196 VTLEEL-QQQPQPVTLLFKLCQKNGKQV-DIKHWR-KN----RKNIASVYVDGS-FVASASSEQKEIAKLNAAREALEKL 267 (312)
Q Consensus 196 i~~~~l-~~~~~p~~~L~e~~q~~~~~~-~~~~~~-~g----~~f~~~V~v~g~-~~~~g~g~skk~Ae~~AA~~AL~~L 267 (312)
++..+. ....|||+.||||||++++.. .|.+.. .| +.|+|.|+++|. ..|+|.|.|||+||+.||+.||++|
T Consensus 141 i~~~d~~~~~kDyKS~LQE~~Qk~~~~~PeY~li~esGPdH~k~F~V~V~v~g~~~~G~G~G~SKKeAEQ~AAk~AL~kL 220 (467)
T PRK14718 141 LDHIDPRTLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDIKVSGSGASRRAAEQAAAKKALDEV 220 (467)
T ss_pred HhhhcccccccCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCCeEEEEEEECCeeeEEEEEcCCHHHHHHHHHHHHHHHh
Confidence 754322 124599999999999999865 577643 33 789999999995 5589999999999999999999999
Q ss_pred hhcCCCcc
Q 021448 268 AQSMPVNC 275 (312)
Q Consensus 268 ~~~~~~~~ 275 (312)
....|...
T Consensus 221 ~~~~~~~~ 228 (467)
T PRK14718 221 TAVAPMLA 228 (467)
T ss_pred cccchhhh
Confidence 86555443
No 4
>PRK12372 ribonuclease III; Reviewed
Probab=100.00 E-value=3.3e-49 Score=367.78 Aligned_cols=218 Identities=27% Similarity=0.390 Sum_probs=187.8
Q ss_pred HHHHHHHcCcccCChhHHHHHHcCCCCCCCCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHHHH
Q 021448 36 VFYVENIINYNFKNKRLLEEALTHSSYTDSTSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLARV 115 (312)
Q Consensus 36 ~~~le~~lgy~f~~~~Ll~~AlTh~S~~~~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La~i 115 (312)
+..||++|||+|+|++||.+||||+||.. .+|||||||||+||+++|+++||.+||++++|.||.+|+.+|||++|+.+
T Consensus 3 l~~LEk~LGY~Fkn~~LL~eALTH~Sy~~-~~NERLEFLGDAVL~liVse~Lf~~fP~~~EG~LT~lRS~LVsn~tLA~I 81 (413)
T PRK12372 3 LSQLESRLRYEFRNAELLRQALTHRSHSA-THNERLEFLGDSVLNCAVAALLFQRFGKLDEGDLSRVRANLVKQQSLYEI 81 (413)
T ss_pred HHHHHHHhCCCcCCHHHHHHHHhcccccc-ccHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhhhHHHHHH
Confidence 46799999999999999999999999975 68999999999999999999999999999999999999999999999999
Q ss_pred HHHcCchHHHhhcchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHHhhhhh
Q 021448 116 AVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRGLLEPI 195 (312)
Q Consensus 116 a~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~ll~p~ 195 (312)
|..+||.+|++.+.... ..++ ...+++++|+|||+|||||+|+|++ .++.|+..+|.|.
T Consensus 82 A~~LgL~~~Lrlg~ge~------------------~sgg-~~~~kILADvfEALIGAIYLDsG~e--~a~~fV~~ll~p~ 140 (413)
T PRK12372 82 AQALNISEGLRLGEGEL------------------RSGG-FRRPSILADAFEAIIGAVFLDGGFE--AAQGVIKRLYVPI 140 (413)
T ss_pred HHHcCchHhhhcCcchh------------------hcCC-CCCccHHHHHHHHHHHHHHHhCCHH--HHHHHHHHHHHHH
Confidence 99999999999875321 1222 4578999999999999999999987 5668999999988
Q ss_pred cChhhhh-cCCchhHHHHHHHHhcCCce-eeEEee-eC----CeEEEEEEECCE-EEEEeeccCHHHHHHHHHHHHHHHH
Q 021448 196 VTLEELQ-QQPQPVTLLFKLCQKNGKQV-DIKHWR-KN----RKNIASVYVDGS-FVASASSEQKEIAKLNAAREALEKL 267 (312)
Q Consensus 196 i~~~~l~-~~~~p~~~L~e~~q~~~~~~-~~~~~~-~g----~~f~~~V~v~g~-~~~~g~g~skk~Ae~~AA~~AL~~L 267 (312)
++..... ...|||+.||||||+++... .|++.. .| +.|+|.|+++|. ..++|.|.|||+||+.||+.||++|
T Consensus 141 l~~~~~~~~~~D~KS~LQE~~Q~~~~~~P~Y~lv~e~Gp~h~~~F~V~V~v~g~~~~g~G~G~SKKeAEQ~AAr~AL~kL 220 (413)
T PRK12372 141 LDHIDPRTLGKDAKTLLQEYLQGHKIALPTYTVVATHGAAHNQQFEVECTVPKLDVKVSGSGASRRAAEQAAAKKALDEV 220 (413)
T ss_pred HhhcccccccCCHHHHHHHHHHhcCCCCCeeEEeeeecCCCCceEEEEEEECCeEEEEEEEeCCHHHHHHHHHHHHHHHH
Confidence 7543221 24599999999999998864 577543 33 689999999985 5589999999999999999999999
Q ss_pred hhcCCCcc
Q 021448 268 AQSMPVNC 275 (312)
Q Consensus 268 ~~~~~~~~ 275 (312)
....|...
T Consensus 221 ~~~~~~~~ 228 (413)
T PRK12372 221 MAAAPMLA 228 (413)
T ss_pred hcccchhc
Confidence 96555544
No 5
>PRK00102 rnc ribonuclease III; Reviewed
Probab=100.00 E-value=2.4e-46 Score=333.85 Aligned_cols=215 Identities=32% Similarity=0.477 Sum_probs=187.8
Q ss_pred HHHHHHHHHcCcccCChhHHHHHHcCCCCCC----CCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCCh
Q 021448 34 DAVFYVENIINYNFKNKRLLEEALTHSSYTD----STSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANIST 109 (312)
Q Consensus 34 ~~~~~le~~lgy~f~~~~Ll~~AlTh~S~~~----~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn 109 (312)
+.+.+||++|||+|+|++|+.+||||+|+.. ..+|||||||||+||+++++.+||.+||+.++|.|+.+|+.+|||
T Consensus 3 ~~~~~l~~~lg~~f~~~~ll~~Alth~S~~~~~~~~~~nerLefLGDavl~~~v~~~l~~~~p~~~~g~l~~~~~~lvsn 82 (229)
T PRK00102 3 KDLEELQKKLGYTFKDPELLIQALTHRSYANENKGLKHNERLEFLGDAVLELVVSEYLFKRFPDLDEGDLSKLRAALVRE 82 (229)
T ss_pred hhHHHHHHHhCCCCCCHHHHHHHhCccchhccCCCcccchhHHHHHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhCH
Confidence 4678899999999999999999999999953 679999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHcCchHHHhhcchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHH
Q 021448 110 EKLARVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFR 189 (312)
Q Consensus 110 ~~La~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~ 189 (312)
++|+.+|.++||++|+++++... ..++ ...+++++|+|||+|||||+|+|++ .+++|+.
T Consensus 83 ~~la~~a~~lgl~~~i~~~~~~~------------------~~~~-~~~~k~~ad~~EA~iGAiyld~g~~--~~~~~i~ 141 (229)
T PRK00102 83 ESLAEIARELGLGEYLLLGKGEE------------------KSGG-RRRPSILADAFEALIGAIYLDQGLE--AARKFIL 141 (229)
T ss_pred HHHHHHHHHCCcHHHHccCcHHH------------------HcCC-CCCccHHHHHHHHHHHHHHHhCCHH--HHHHHHH
Confidence 99999999999999999875310 0111 3467999999999999999999976 5678999
Q ss_pred HhhhhhcChhhh-hcCCchhHHHHHHHHhcCCc-eeeEEee-eC----CeEEEEEEECCEEEEEeeccCHHHHHHHHHHH
Q 021448 190 GLLEPIVTLEEL-QQQPQPVTLLFKLCQKNGKQ-VDIKHWR-KN----RKNIASVYVDGSFVASASSEQKEIAKLNAARE 262 (312)
Q Consensus 190 ~ll~p~i~~~~l-~~~~~p~~~L~e~~q~~~~~-~~~~~~~-~g----~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~ 262 (312)
.++.|.+..... ....||++.|+++||+.+.. +.|++.. .| +.|+|+|+++|..+|+|.|.||++||++||+.
T Consensus 142 ~~~~~~l~~~~~~~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~skk~Ae~~AA~~ 221 (229)
T PRK00102 142 RLFEPRIEEIDLGDLVKDYKTRLQELLQGRGLPLPEYELVKEEGPAHDKEFTVEVTVNGKELGEGTGSSKKEAEQAAAKQ 221 (229)
T ss_pred HHHHHHHHhhccccccCCHHHHHHHHHHHcCCCCCceEEeeccCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHH
Confidence 999998765432 23569999999999999875 5687543 23 68999999999999999999999999999999
Q ss_pred HHHHHhh
Q 021448 263 ALEKLAQ 269 (312)
Q Consensus 263 AL~~L~~ 269 (312)
||+.|+.
T Consensus 222 Al~~l~~ 228 (229)
T PRK00102 222 ALKKLKE 228 (229)
T ss_pred HHHHHhh
Confidence 9999874
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=100.00 E-value=3.1e-44 Score=318.32 Aligned_cols=208 Identities=38% Similarity=0.537 Sum_probs=180.3
Q ss_pred HHHHcCcccCChhHHHHHHcCCCCCC-----CCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHH
Q 021448 39 VENIINYNFKNKRLLEEALTHSSYTD-----STSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLA 113 (312)
Q Consensus 39 le~~lgy~f~~~~Ll~~AlTh~S~~~-----~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La 113 (312)
||++|||+|+|++|+.+||||+|+.. ..+|||||||||+||+++++++++.+||+.++|.++.+|+.+|||.+|+
T Consensus 1 ~e~~lgy~F~~~~ll~~Alth~S~~~~~~~~~~~nerLe~lGd~vl~~~~~~~l~~~~p~~~~~~l~~~~~~lvsn~~la 80 (220)
T TIGR02191 1 LEKRLGYKFKNKELLEQALTHSSYANEHHKGVKNNERLEFLGDAVLGLVVAEYLFKNFPDLSEGELSKLRAALVSEESLA 80 (220)
T ss_pred ChHHhCCCcCCHHHHHHHhcCcccccccccCccchHHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCHHHHH
Confidence 58999999999999999999999874 3599999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCchHHHhhcchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHHhhh
Q 021448 114 RVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRGLLE 193 (312)
Q Consensus 114 ~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~ll~ 193 (312)
.+|.++||++++++++... . .++ ...+++++|+|||+|||||+|+|++ .+++|+..++.
T Consensus 81 ~~a~~~gl~~~i~~~~~~~--------------~----~~~-~~~~k~~ad~~eAliGAiyld~g~~--~~~~~i~~~~~ 139 (220)
T TIGR02191 81 EVARELGLGKFLLLGKGEE--------------K----SGG-RRRESILADAFEALIGAIYLDSGLE--AARKFILKLLI 139 (220)
T ss_pred HHHHHCCcHHHhccCchHh--------------h----cCC-cccchHHHHHHHHHHHHHHHhCCHH--HHHHHHHHHHH
Confidence 9999999999999875321 0 111 3468999999999999999999965 56789999999
Q ss_pred hhcChhh-hhcCCchhHHHHHHHHhcCC-ceeeEEee-----eCCeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHH
Q 021448 194 PIVTLEE-LQQQPQPVTLLFKLCQKNGK-QVDIKHWR-----KNRKNIASVYVDGSFVASASSEQKEIAKLNAAREALEK 266 (312)
Q Consensus 194 p~i~~~~-l~~~~~p~~~L~e~~q~~~~-~~~~~~~~-----~g~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~ 266 (312)
|.+.... .....||++.|+++||+.+. .+.|+... +.+.|+|+|+++|+.+|+|.|.||++||++||++||++
T Consensus 140 ~~~~~~~~~~~~~~pk~~L~e~~~~~~~~~p~y~~~~~~g~~~~~~f~~~v~~~~~~~~~g~g~skk~A~~~AA~~Al~~ 219 (220)
T TIGR02191 140 PRIDAIEKEETLKDYKTALQEWAQARGKPLPEYRLIKEEGPDHDKEFTVEVSVNGEPYGEGKGKSKKEAEQNAAKAALEK 219 (220)
T ss_pred HHHHhhhcccccCChHHHHHHHHHHcCCCCceEEEecccCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHHHHHHHHh
Confidence 8875421 22356999999999998876 46787542 23689999999999999999999999999999999987
Q ss_pred H
Q 021448 267 L 267 (312)
Q Consensus 267 L 267 (312)
|
T Consensus 220 l 220 (220)
T TIGR02191 220 L 220 (220)
T ss_pred C
Confidence 5
No 7
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=100.00 E-value=3.4e-38 Score=290.29 Aligned_cols=216 Identities=28% Similarity=0.353 Sum_probs=184.8
Q ss_pred HHHHHHHHcCcccCChhHHHHHHcCCCCCC----CCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChH
Q 021448 35 AVFYVENIINYNFKNKRLLEEALTHSSYTD----STSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTE 110 (312)
Q Consensus 35 ~~~~le~~lgy~f~~~~Ll~~AlTh~S~~~----~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~ 110 (312)
.+.++|+++|..|.++.++.+|||.+|... ..+|||||||||+||+++++++||.+||+.+||+|+.+|+.+|||+
T Consensus 274 p~~~~e~~~g~vF~Hirlla~aft~rs~~~n~Lt~gHNqRLEFLGDSilqlv~T~ily~kFPdhhEGhLSlLRssLVsNe 353 (533)
T KOG1817|consen 274 PLTQFEEIIGIVFIHIRLLARAFTLRSIPFNHLTLGHNQRLEFLGDSILQLVMTEILYRKFPDHHEGHLSLLRSSLVSNE 353 (533)
T ss_pred chhhHHHHHHHHHHHHHHHHHHhhccCCCchhhhhhhhHHHHHhHHHHHHHHHHHHHHHhCCccccchHHHHHHHHhccH
Confidence 346789999999999999999999999884 7899999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHcCchHHHhhcchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHH
Q 021448 111 KLARVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRG 190 (312)
Q Consensus 111 ~La~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~ 190 (312)
+.+++|+.+|+++++..+...-+ . . ....|..||+|||+|||+|+|.|.+ .|++|++.
T Consensus 354 tqakva~~lgf~e~li~n~~~k~------------~-----~---~lk~K~~ADlfEAfiGaLyvD~~le--~~~qf~~~ 411 (533)
T KOG1817|consen 354 TQAKVADDLGFHEYLITNFDLKD------------F-----Q---NLKLKDYADLFEAFIGALYVDKGLE--YCRQFLRV 411 (533)
T ss_pred HHHHHHHHhCCchhhhhCcchhh------------h-----h---hhhHHHHHHHHHHHHHHHhhcCCcH--HHHHHHHH
Confidence 99999999999999987753200 0 0 3457999999999999999999887 45688999
Q ss_pred hhhhhcChhhhh-cCCchhHHHHHHHHhcCC------ceeeE-Ee-----eeCCeEEEEEEECCEEEEEeeccCHHHHHH
Q 021448 191 LLEPIVTLEELQ-QQPQPVTLLFKLCQKNGK------QVDIK-HW-----RKNRKNIASVYVDGSFVASASSEQKEIAKL 257 (312)
Q Consensus 191 ll~p~i~~~~l~-~~~~p~~~L~e~~q~~~~------~~~~~-~~-----~~g~~f~~~V~v~g~~~~~g~g~skk~Ae~ 257 (312)
++.|.+...... .+.+|++.|+++|-...- .++|+ +. .+++.|+|.|+++|+.+|+|.|+|.+.|+-
T Consensus 412 l~~Prl~~fi~nq~wndpkskLqq~cl~~rys~~~epdip~y~V~~~~gpa~~r~y~Vavyf~gkrlat~~G~nik~Ae~ 491 (533)
T KOG1817|consen 412 LFFPRLKEFIRNQDWNDPKSKLQQCCLTLRYSLGGEPDIPLYKVLGAKGPANDRNYKVAVYFKGKRLATGVGSNIKQAEM 491 (533)
T ss_pred HhhHHHHHHHHhhhccCcHHHHHHHHHHHhcccCCCCCCceEEEecccCCCCCCceEEEEEECCEEEeeccCchHhHHHH
Confidence 999988644332 467999999999975422 34544 32 245789999999999999999999999999
Q ss_pred HHHHHHHHHHhhcCC
Q 021448 258 NAAREALEKLAQSMP 272 (312)
Q Consensus 258 ~AA~~AL~~L~~~~~ 272 (312)
+||+.||+.+....+
T Consensus 492 rAA~~ALe~~~~dF~ 506 (533)
T KOG1817|consen 492 RAAMQALENLKMDFS 506 (533)
T ss_pred HHHHHHHHHHHhhhH
Confidence 999999999987444
No 8
>PF14622 Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_A 2A11_A 3N3W_B.
Probab=99.96 E-value=1.5e-30 Score=211.75 Aligned_cols=124 Identities=40% Similarity=0.672 Sum_probs=99.6
Q ss_pred ChhHHHHHHcCCCCCC--CCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHHHHHHHcCchHHHh
Q 021448 49 NKRLLEEALTHSSYTD--STSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLARVAVKHGFYKFVR 126 (312)
Q Consensus 49 ~~~Ll~~AlTh~S~~~--~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~l~ 126 (312)
|++|+.+||||+||.+ ..+|||||||||+||+++|++|+|+++| .++|.++.+|+.+|++++|+.+|..+||+++++
T Consensus 1 ~~~Ll~~alTH~S~~~~~~~~nerLefLGd~vL~~~vs~~l~~~~~-~~~g~l~~~~~~lv~~~~La~~a~~lgL~~~i~ 79 (128)
T PF14622_consen 1 DDELLLQALTHKSYAHERKPNNERLEFLGDAVLGLVVSEYLFQRPP-ADEGELTRLRSNLVSNETLAEIAKQLGLDKLIR 79 (128)
T ss_dssp SHHHHHHHTB-HHHHHHTCB-SHHHHHHHHHHHHHHHHHHHHHHTT-TSCHHHHHHHHHHHSHHHHHHHHHHTTCGGC-B
T ss_pred CHHHHHHHhcCccccccccCccHHHHHHHHHHHHHHHHHHHHhCcC-ccchHHHHHHHHHhChHHHHHHHHHCCHHHHHH
Confidence 6899999999999974 6899999999999999999999999955 489999999999999999999999999999999
Q ss_pred hcchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHHhhhh
Q 021448 127 HSAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRGLLEP 194 (312)
Q Consensus 127 ~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~ll~p 194 (312)
+++... . .+. ...+++++|+|||+|||||+|+|++.++ +|+...+.|
T Consensus 80 ~~~~~~------------~------~~~-~~~~~vlad~feAliGAiyld~G~~~a~--~~i~~~i~~ 126 (128)
T PF14622_consen 80 WGPGEE------------K------SGG-SGSDKVLADVFEALIGAIYLDSGFEAAR--KFIQKLILP 126 (128)
T ss_dssp --HHHH------------H------TTG-GG-HHHHHHHHHHHHHHHHHHH-HHHHH--HHHHHHH--
T ss_pred hCccHh------------h------cCC-CCCccHHHhHHHHHHHHHHHHcCHHHHH--HHHHHHhcc
Confidence 864310 0 111 3467899999999999999999998554 778776654
No 9
>smart00535 RIBOc Ribonuclease III family.
Probab=99.95 E-value=5.9e-28 Score=196.43 Aligned_cols=126 Identities=40% Similarity=0.649 Sum_probs=110.1
Q ss_pred hHHHHHHcCCCCCCC-CCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHHHHHHHcCchHHHhhcc
Q 021448 51 RLLEEALTHSSYTDS-TSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLARVAVKHGFYKFVRHSA 129 (312)
Q Consensus 51 ~Ll~~AlTh~S~~~~-~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~l~~~~ 129 (312)
.||.+||||||+... .+|||||||||+||+++++.+++.+||+.++|.|+.+++.++||++|+.+|.++||+++++.++
T Consensus 1 ~ll~~alth~s~~~~~~~~e~Le~lGd~vl~~~v~~~l~~~~p~~~~~~l~~~~~~lvsn~~la~~a~~~~l~~~i~~~~ 80 (129)
T smart00535 1 SLLLRALTHASYSNEHEHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVSNETLARLAKKLGLGEFIRLGR 80 (129)
T ss_pred CHHHHHhhcccccccCcchHHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHCHHHHHHHHHHCCcHHHHccCc
Confidence 378999999999874 4999999999999999999999999999999999999999999999999999999999999875
Q ss_pred hhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHHhhhhhcC
Q 021448 130 AALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRGLLEPIVT 197 (312)
Q Consensus 130 ~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~ll~p~i~ 197 (312)
.... ..+ ...+++++|+|||+|||||+|+|++ ++++|+..++.|.++
T Consensus 81 ~~~~-----------------~~~--~~~~k~~a~~~eAliGAi~ld~g~~--~~~~~i~~~~~~~~~ 127 (129)
T smart00535 81 GEAI-----------------SGG--RDKPSILADVFEALIGAIYLDSGLE--AAREFIRDLLGPRLE 127 (129)
T ss_pred hHhh-----------------cCC--cccchHHHHHHHHHHHHHHHhCCHH--HHHHHHHHHHHHHhc
Confidence 4210 011 3568999999999999999999965 666889988887654
No 10
>cd00593 RIBOc RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-transcriptional control of mRNA stability and translational efficiency. It is involved in the processing of ribosomal RNA precursors. Prokaryotic RNAse III also plays a role in the maturation of tRNA precursors and in the processing of phage and plasmid transcripts. Eukaryotic RNase III's participate (through direct cleavage) in rRNA processing, in processing of small nucleolar RNAs (snoRNAs) and snRNA's (components of the spliceosome). In eukaryotes RNase III or RNaseIII like enzymes such as Dicer are involved in RNAi (RNA interference) and miRNA (micro-RNA) gene silencing.
Probab=99.95 E-value=1.5e-27 Score=194.76 Aligned_cols=127 Identities=40% Similarity=0.655 Sum_probs=111.8
Q ss_pred hHHHHHHcCCCCCCC---CCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHHHHHHHcCchHHHhh
Q 021448 51 RLLEEALTHSSYTDS---TSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLARVAVKHGFYKFVRH 127 (312)
Q Consensus 51 ~Ll~~AlTh~S~~~~---~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~l~~ 127 (312)
.|+.+||||+|+... .+|||||||||+||+++++.+++..+|+.++|.++.+++.++||++|+.+|.++||++++++
T Consensus 1 ~ll~~alth~s~~~~~~~~~~e~Le~lGdavl~~~~~~~l~~~~~~~~~~~l~~~~~~~v~n~~l~~~a~~~gl~~~i~~ 80 (133)
T cd00593 1 SLLLEALTHPSYANEHGRFNNERLEFLGDAVLELVVTEYLFKKFPDLSEGDLTRLRSALVSNETLARLARELGLGKYLRL 80 (133)
T ss_pred CHHHHhhcCccccccCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHCHHHHHHHHHHcCcHHHhcc
Confidence 378999999999873 89999999999999999999999999999999999999999999999999999999999998
Q ss_pred cchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHHhhhhhcCh
Q 021448 128 SAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRGLLEPIVTL 198 (312)
Q Consensus 128 ~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~ll~p~i~~ 198 (312)
.+.... ......+++++|+|||+|||||+|+|.+ .+++|+.+++.|.++.
T Consensus 81 ~~~~~~-------------------~~~~~~~k~~ad~~eAliGAiyld~g~~--~~~~~i~~~~~~~~~~ 130 (133)
T cd00593 81 GKGEEK-------------------SGGRLRPKILADVFEALIGAIYLDGGFE--AARKFLLRLLGPLIEE 130 (133)
T ss_pred CchHhh-------------------cCCcccccHHHHHHHHHHHHHHHhCCHH--HHHHHHHHHHHHHHhh
Confidence 864310 0014578999999999999999999984 6778999988877643
No 11
>PF00636 Ribonuclease_3: Ribonuclease III domain; InterPro: IPR000999 Prokaryotic ribonuclease III (3.1.26.3 from EC) (gene rnc) [] is an enzyme that digests double-stranded RNA. It is involved in the processing of ribosomal RNA precursors and of some mRNAs. RNase III is evolutionary related to a number of proteins including []: Saccharomyces cerevisiae (Baker's yeast) protein pac1, a ribonuclease that probably inhibits mating and meiosis by degrading a specific mRNA required for sexual development yeast ribonuclease III (gene RNT1), a dsRNA-specific nuclease that cleaves eukaryotic preribosomal RNA at various sites Caenorhabditis elegans hypothetical protein F26E4.13 Paramecium bursaria Chlorella virus 1 (PBCV-1) 1 protein A464R Synechocystis sp. (strain PCC 6803) hypothetical protein slr0346 yeast hypothetical protein SpAC8A4.08c, a protein with a N-terminal helicase domain and a C-terminal RNase III domain C. elegans hypothetical protein K12H4.8, a protein with the same structure as SpAC8A4.08c ; GO: 0003723 RNA binding, 0004525 ribonuclease III activity, 0006396 RNA processing; PDB: 2GSL_A 2NUE_B 1YYO_A 2NUF_A 1YZ9_A 1JFZ_A 1YYW_C 1RC5_B 1YYK_B 1RC7_A ....
Probab=99.91 E-value=6.5e-25 Score=174.83 Aligned_cols=110 Identities=43% Similarity=0.720 Sum_probs=87.2
Q ss_pred chhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHHHHHHHcCchHHHhhcchhhhHHHHHHHHHhhcccc
Q 021448 69 QRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLARVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDN 148 (312)
Q Consensus 69 erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~ 148 (312)
||||||||+||+++|+.+||.+||+.++|.|+.+|+.+|||++|+.+|.++||++|++..+.....+..++.+.+.....
T Consensus 1 ErLefLGDavL~~~v~~~l~~~~p~~~~~~L~~~r~~~vsn~~L~~~a~~~gl~~~l~~~~~~~~~~~~~~~~~~~~~~~ 80 (114)
T PF00636_consen 1 ERLEFLGDAVLKLLVSEYLFEKYPNLNEGQLTKLRSALVSNKFLARLAVKLGLHKYLRQEPFEIQRWIKPFNEDLNNGDS 80 (114)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTTSSHHHHHHHHHHHHSHHHHHHHHHHTTHGCTCBHHHHHHHHHHHCHHCC------
T ss_pred CcHhHhHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhCHHHHHHHHHHhCchHhhhccchhHHHHHHHHHHHHHhccc
Confidence 79999999999999999999999999999999999999999999999999999999998777665555442111111000
Q ss_pred --ccccC--CccCCchhHHHHHHHHHHHHhhcCC
Q 021448 149 --TAVYG--GSIKAPKVLADIVESIAAAIYVDID 178 (312)
Q Consensus 149 --~~~~~--~~~~~~k~lad~fEAliGAiylD~G 178 (312)
+.... .....+|++||+|||+|||||+|+|
T Consensus 81 ~~~~~~~~~~~~~~~k~laD~~EAliGAiyld~G 114 (114)
T PF00636_consen 81 ESSISYDPKNQVLPPKVLADVFEALIGAIYLDSG 114 (114)
T ss_dssp -C-SSS--SSSSHHHHHHHHHHHHHHHHHHHHTT
T ss_pred ccccCCCccccCCccHHHHHHHHHHHHHHHHhcC
Confidence 00000 1134689999999999999999998
No 12
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=3.5e-22 Score=177.26 Aligned_cols=217 Identities=20% Similarity=0.279 Sum_probs=176.4
Q ss_pred HHHHHHHHHcC-cccCChhHHHHHHcCCCCCC-------------------CCCcchhhhhhHHhhHHHHHHHHHHHCCC
Q 021448 34 DAVFYVENIIN-YNFKNKRLLEEALTHSSYTD-------------------STSYQRLEFIGDAALGLALSNYVFLAYPQ 93 (312)
Q Consensus 34 ~~~~~le~~lg-y~f~~~~Ll~~AlTh~S~~~-------------------~~~~erLEfLGDavL~~~v~~~l~~~~p~ 93 (312)
+.+.+|+++|+ ..| ..+.+.+|||.+|+.. ..+|+-|--.|..+++++|..||-++||+
T Consensus 63 sel~afg~RL~~~~i-s~~~l~ka~t~~s~~~~~kv~~~~lg~~~~~~~~~~~~N~~L~~~Gk~~~~~~v~~~l~~kyPr 141 (333)
T KOG3769|consen 63 SELSAFGKRLQSEEI-SLSYLLKALTNLSFSYPEKVLRQQLGAETVAQVNPQYSNEELVEIGKQFLSFYVTEYLKCKYPR 141 (333)
T ss_pred HHHHHHHHHhccccc-cHHHHHHHHhCccccchHHHhhhhhcchhhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 57999999999 555 6789999999999874 46899999999999999999999999999
Q ss_pred CCccchhHHHHHcCChHHHHHHHHHcCchHHHhhcchhhhHHHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHH
Q 021448 94 LDPGQLSLLRAANISTEKLARVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAI 173 (312)
Q Consensus 94 ~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAi 173 (312)
++++.+..+-+.+++.+.||.+|..+|+.++++..+... .+. ....+...+++-|++|++
T Consensus 142 lP~E~l~ai~n~ll~ee~LahiAt~lGie~l~~seeFp~-------------------~~e-isq~ess~~aI~Al~~~~ 201 (333)
T KOG3769|consen 142 LPEEGLHAIVNGLLGEEVLAHIATHLGIEELGLSEEFPK-------------------VGE-ISQDESSRRAIGALLGSV 201 (333)
T ss_pred CcHHHHHHHHHHhhhHHHHHHHHHHhhHHHHhhcccCCC-------------------chh-hhHHHHHHHHHHHHHhcc
Confidence 999999999999999999999999999999988654310 000 112266778888888888
Q ss_pred hhcCCcChHHHHHHHHH-hhhhhcChhhhhcCCchhHHHHHHHHhcCCc-eeeEEee-eC-----CeEEEEEEECCEEEE
Q 021448 174 YVDIDFDLQKLWMIFRG-LLEPIVTLEELQQQPQPVTLLFKLCQKNGKQ-VDIKHWR-KN-----RKNIASVYVDGSFVA 245 (312)
Q Consensus 174 ylD~G~~~~~~~~~v~~-ll~p~i~~~~l~~~~~p~~~L~e~~q~~~~~-~~~~~~~-~g-----~~f~~~V~v~g~~~~ 245 (312)
+...|++. +++|+.+ ++...+++.++....+|...|.++|++++.. ++++... .| |.|.|++|.|.+.+|
T Consensus 202 ~~ek~~~~--v~dFI~~qi~~k~L~~~~m~ql~~P~~~L~~lckr~~l~epe~Rll~esGr~S~~PvyvVgiYs~kkllG 279 (333)
T KOG3769|consen 202 GLEKGFNF--VRDFINDQILSKDLDPREMWQLQWPRRLLSRLCKRRGLKEPESRLLAESGRNSAEPVYVVGIYSGKKLLG 279 (333)
T ss_pred cHHHHHHH--HHHHHHHHhhhhccchHhhccccchHHHHHHHHHHcCCCCchhHHHHHhccCccCceEEEEeecCchhhc
Confidence 88877653 2344432 3333344445666779999999999999974 5566443 22 789999999999999
Q ss_pred EeeccCHHHHHHHHHHHHHHHHhhcCCC
Q 021448 246 SASSEQKEIAKLNAAREALEKLAQSMPV 273 (312)
Q Consensus 246 ~g~g~skk~Ae~~AA~~AL~~L~~~~~~ 273 (312)
.|.|.|-+.|++.||.+||.++.+..|.
T Consensus 280 qG~Gesl~~A~e~AA~dAL~k~y~~tp~ 307 (333)
T KOG3769|consen 280 QGQGESLKLAEEQAARDALIKLYDHTPE 307 (333)
T ss_pred cCcchHHHHHHHHHHHHHHHHHHcCChh
Confidence 9999999999999999999999988753
No 13
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=99.68 E-value=2e-17 Score=175.77 Aligned_cols=228 Identities=30% Similarity=0.360 Sum_probs=170.3
Q ss_pred HHHHHHHHcCcccCChhHHHHHHcCCCCCC---CCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHH
Q 021448 35 AVFYVENIINYNFKNKRLLEEALTHSSYTD---STSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEK 111 (312)
Q Consensus 35 ~~~~le~~lgy~f~~~~Ll~~AlTh~S~~~---~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~ 111 (312)
.+..++..++|.|.+..++.+|+||-|+.. ..+|+|||||||+|+++.++.+++...+..++|.++.+|++.|+|..
T Consensus 1370 ~~~~~e~~l~y~f~~~~~l~~a~th~s~~~~~~~~C~qrleflgd~vld~~it~hl~~~~~~~sp~~~td~rsa~vnn~~ 1449 (1606)
T KOG0701|consen 1370 SFGKFEEKLNYRFKLKPYLTQATTHASYIYNRITDCYQRLEFLGDAVLDYLITKHLYEDPRQHSPGVLTDLRSALVNNTI 1449 (1606)
T ss_pred HHHhhhcccchhhhhhhcccccccccccccCccchhhhhHHHhHHhhhhhhhhhcccccccccCchhhhhhhhHhhcccc
Confidence 578889999999999999999999999976 78999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHcCchHHHhhcchhhhHHHHHHHHHhhccc--cccccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHH
Q 021448 112 LARVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQED--NTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFR 189 (312)
Q Consensus 112 La~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~--~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~ 189 (312)
.|.+|.+.++++++....+.+...+.+|........ ......+....||.++|++|++.||||+|+|..... ..
T Consensus 1450 ~a~~av~~~~~K~~~~~~~~l~~~I~~~v~~~~q~~~~~~~~~~edievpKa~gdi~esiagai~~dsg~~~~~----~~ 1525 (1606)
T KOG0701|consen 1450 FASLAVKADLHKFIIAASPGLIHNIDRFVSFQLQSNLDSLFGWEEDIEVPKALGDIFESIAGAIKLDSGNMMEP----CI 1525 (1606)
T ss_pred chhhHHhhcchhHHHhhccccccchHHHHHHHHhhccccCCCchhhcccchhhhhhhhcccceeecCcccccch----Hh
Confidence 999999999999999998888888888765443311 111011125679999999999999999999944322 11
Q ss_pred HhhhhhcChhhhh--cCCchhHHHHHHHHhcCCceeeEEeeeCCeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHH
Q 021448 190 GLLEPIVTLEELQ--QQPQPVTLLFKLCQKNGKQVDIKHWRKNRKNIASVYVDGSFVASASSEQKEIAKLNAAREALEKL 267 (312)
Q Consensus 190 ~ll~p~i~~~~l~--~~~~p~~~L~e~~q~~~~~~~~~~~~~g~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L 267 (312)
....+........ ...+|++.+-..+.+ +..++.-+++|.+.+.....|.|...+.||..|++.|++.+
T Consensus 1526 ~~~~a~p~~s~~~E~~~~h~~~~~~~~~~k---------~~d~~~~~~tv~~~~~~~~~~~g~~~~~aK~s~~k~A~~ll 1596 (1606)
T KOG0701|consen 1526 EKFWALPPRSPIRELLELHPERALFGKCEK---------VADAGKVRVTVDVFNKEVFAGEGRNYRIAKASAAKAALKLL 1596 (1606)
T ss_pred hcCcCCCCccchhhhccccceeeccchhhh---------hhhccceEEEEEecccchhhhcchhhhhhhhhHHHHHHHHH
Confidence 1111111110000 012333333222221 12334446677777777778888889999999999999999
Q ss_pred hhcCCCcc
Q 021448 268 AQSMPVNC 275 (312)
Q Consensus 268 ~~~~~~~~ 275 (312)
...+....
T Consensus 1597 ~~~~~~~~ 1604 (1606)
T KOG0701|consen 1597 KKLGLQKS 1604 (1606)
T ss_pred HHhhhhhc
Confidence 88776543
No 14
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=99.63 E-value=1.1e-15 Score=141.88 Aligned_cols=133 Identities=28% Similarity=0.400 Sum_probs=113.4
Q ss_pred hHHHHHHHHHHcCcccCChhHHHHHHcCCCCCC-----------------------------------------------
Q 021448 32 MEDAVFYVENIINYNFKNKRLLEEALTHSSYTD----------------------------------------------- 64 (312)
Q Consensus 32 ~~~~~~~le~~lgy~f~~~~Ll~~AlTh~S~~~----------------------------------------------- 64 (312)
.+..+.-||+.|||+|+|.-|+..||||||+..
T Consensus 39 ~~~~l~~~e~~i~y~f~~r~~~~lal~h~s~~~~~Gt~~dh~kns~tncg~r~~~yg~~~~~~~~kr~~gin~li~imk~ 118 (533)
T KOG1817|consen 39 YHQSLDHLEELIGYTFQDRCLLQLALTHPSHKLNYGTNPDHAKNSLTNCGIRQPKYGDRKEHIMTKRKLGINTLINIMKR 118 (533)
T ss_pred HHHhHHHHHHHhCeeecchHHHHHHhcCchHHhhCCCCchhhhccccccCcCCcccchhHHHHHHHHHhhhhHHHHHHhh
Confidence 457899999999999999999999999999852
Q ss_pred ----------CCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHHHHHHHcCchHHHhhcchhhhH
Q 021448 65 ----------STSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLARVAVKHGFYKFVRHSAAALDD 134 (312)
Q Consensus 65 ----------~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~l~~~~~~~~~ 134 (312)
..+|||||||||++.+++++.++|..+|...+|.|...|+++|.|..++.+|.++.++.++......--.
T Consensus 119 l~~~~~~~s~i~hnErle~lgdavve~~ss~hl~~~~~r~~eggLatyrta~vqnr~la~lakklrkd~fl~yahg~dl~ 198 (533)
T KOG1817|consen 119 LGVIQPTHSVIKHNERLEFLGDAVVELLSSNHLYFMFPRLEEGGLATYRTAIVQNRHLAKLAKKLRKDEFLLYAHGYDLC 198 (533)
T ss_pred ccCCCCchhHhHHHHHHHHHhhccHHHHHHHHHHHccccccccchhHHHHHHHHhHHHHHHHHHHHHHHHHHHhcCcchh
Confidence 1367999999999999999999999999999999999999999999999999999999999765421000
Q ss_pred HHHHHHHHhhccccccccCCccCCchhHHHHHHHHHHHHhhcCCcChHH
Q 021448 135 KVKEFAEAVSQEDNTAVYGGSIKAPKVLADIVESIAAAIYVDIDFDLQK 183 (312)
Q Consensus 135 ~~~~~~~~~~~e~~~~~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~ 183 (312)
.. ......++++|||++||+|+|.|...+.
T Consensus 199 ---------~~----------~E~Kha~an~feavi~a~~l~g~~~~~e 228 (533)
T KOG1817|consen 199 ---------FE----------TELKHAMANCFEAVIGAKYLDGGLVVAE 228 (533)
T ss_pred ---------hH----------HHHHHHHHHHHHHHhHHHHHhcchHHHH
Confidence 00 1223689999999999999999887544
No 15
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=99.62 E-value=1.4e-15 Score=161.93 Aligned_cols=149 Identities=47% Similarity=0.681 Sum_probs=121.3
Q ss_pred HHHHHHHHHcC--cccCCh--------hHHHHHHcCCCCCCCCCcchhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHH
Q 021448 34 DAVFYVENIIN--YNFKNK--------RLLEEALTHSSYTDSTSYQRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLR 103 (312)
Q Consensus 34 ~~~~~le~~lg--y~f~~~--------~Ll~~AlTh~S~~~~~~~erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r 103 (312)
...+.++..++ |.|.+. .+|.+|||+.++....++||||+|||++|++.++.+|+.+||+..||+++.+|
T Consensus 979 ~~~E~~e~i~n~~~~Fs~~~~~i~~~~s~LLEAlT~~~~~~s~s~Erle~Lgds~Lk~avsr~l~L~ypd~~Egqls~lr 1058 (1606)
T KOG0701|consen 979 SDWEAVEKILNFRYVFSISLASIALSTSLLLEALTTSSCQDSFSLERLELLGDSLLKLAVSRHLFLTYPDLDEGQLSRLR 1058 (1606)
T ss_pred ccccccccccccceeccccccccccchhHHHHHhhcCccccchhHHHHHhhHHHHHHHHHHHHHHHhCCcccchhHHHHH
Confidence 35678888988 999999 99999999999999999999999999999999999999999999999999999
Q ss_pred HHcCChHHHHHHHHHcCchHHHhhcchhhh-------------------------------HHHHHHHHHhhcccc-ccc
Q 021448 104 AANISTEKLARVAVKHGFYKFVRHSAAALD-------------------------------DKVKEFAEAVSQEDN-TAV 151 (312)
Q Consensus 104 ~~lvsn~~La~ia~~~gL~~~l~~~~~~~~-------------------------------~~~~~~~~~~~~e~~-~~~ 151 (312)
+..++++.++.+|...||..+++.+..... ..+..|.+.....+. ...
T Consensus 1059 ~~~~~~~nl~~la~~~gl~~~~~~~~fep~~~~~p~~~~~~~~~~k~~~~~~~~~~~~e~~e~~~df~e~~~~~~~~~~~ 1138 (1606)
T KOG0701|consen 1059 DVNVSNDNLARLAVKKGLYSYLRHEGFEPSRWWVPGQLDVNNVDCKDLSGDQNYILYKELDEKIKDFQEAMEKEDGDSRS 1138 (1606)
T ss_pred HhcccccchhhhhhcccchhhcccccccccccccccccccccccccccccccccccccchhhhhhHHHHhhhccCCcccc
Confidence 999999999999999999999998732221 122233322211111 111
Q ss_pred cCC--ccCCchhHHHHHHHHHHHHhhcCCcChH
Q 021448 152 YGG--SIKAPKVLADIVESIAAAIYVDIDFDLQ 182 (312)
Q Consensus 152 ~~~--~~~~~k~lad~fEAliGAiylD~G~~~~ 182 (312)
.++ ....+|.++|++||++||+|+|+|....
T Consensus 1139 ~~~~~~~~~~ks~adl~eaLlga~~vD~~~~~~ 1171 (1606)
T KOG0701|consen 1139 KGGDHDWLAPKSPADLLEALLGAIYVDGGLLET 1171 (1606)
T ss_pred cccccceecCCCHHHHHHHHHHhhhhhccchhh
Confidence 121 2567899999999999999999998754
No 16
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=99.51 E-value=7.9e-14 Score=126.82 Aligned_cols=107 Identities=22% Similarity=0.280 Sum_probs=87.8
Q ss_pred CchhHHHHHHHHhcCCceeeEEee-----eCCeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHHhhcCCCcccccC
Q 021448 205 PQPVTLLFKLCQKNGKQVDIKHWR-----KNRKNIASVYVDGSFVASASSEQKEIAKLNAAREALEKLAQSMPVNCDVCE 279 (312)
Q Consensus 205 ~~p~~~L~e~~q~~~~~~~~~~~~-----~g~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L~~~~~~~~~~~~ 279 (312)
+.|++.|||++.+.+..+.|++.+ |.+.|+++|.|+ ...++|.|.|||.|+++||..+|+.|+..++......+
T Consensus 38 KS~IS~l~E~~~r~~~~v~fevl~eeGp~H~~~fv~rvtvg-~~~a~GeG~sKK~AKh~AA~~~L~~lk~l~~l~~v~k~ 116 (339)
T KOG3732|consen 38 KSPISLLQEYGLRRGLTPVYEVLREEGPPHMPNFVFRVTVG-EITATGEGKSKKLAKHRAAEALLKELKKLPPLANVRKD 116 (339)
T ss_pred CChHHHHHHHHHHhCCCcceeeeeccCCccCCCeEEEEEEe-eeEEecCCCchhHHHHHHHHHHHHHHhcCCCccccccC
Confidence 689999999999999999998765 337899999996 77799999999999999999999999999987765321
Q ss_pred ---cCC---CCc---hh-----HhhHHHHHHHHHHHhcCCCCCCCCC
Q 021448 280 ---IFD---DID---EK-----FEIEAAKQKLHELCGKKKWPKPSYK 312 (312)
Q Consensus 280 ---~~~---~~~---~~-----~~~~~~~~~l~~~~~~~~~~~p~y~ 312 (312)
+.. ... .+ ....+|++.|+|||++++|+.|+||
T Consensus 117 ~~~~~~~~~~~~~~~q~~d~~~~~~~NPI~~L~e~~q~k~~k~P~ye 163 (339)
T KOG3732|consen 117 SLKFAKMKSSGVKKDQPGDPEYGQVLNPIGRLQELAQAKKWKLPEYE 163 (339)
T ss_pred cccccccccCCccccCCCCcccccccChHHHHHHHHHHhCCCCCceE
Confidence 111 110 11 2344999999999999999999996
No 17
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=99.43 E-value=7.6e-13 Score=111.35 Aligned_cols=71 Identities=23% Similarity=0.345 Sum_probs=62.1
Q ss_pred CCchhHHHHHHHHhcCCceeeEEee-eC----CeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHHhhcCCCc
Q 021448 204 QPQPVTLLFKLCQKNGKQVDIKHWR-KN----RKNIASVYVDGSFVASASSEQKEIAKLNAAREALEKLAQSMPVN 274 (312)
Q Consensus 204 ~~~p~~~L~e~~q~~~~~~~~~~~~-~g----~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L~~~~~~~ 274 (312)
..|||+.||||+|+.+..+.|.... .| +.|++.|.++|..+|+|.|.|||+||++||+.||..|.....+.
T Consensus 107 ~~DpKS~LQE~~Q~~~~~l~Y~li~~~GpdH~~~Ftv~V~V~g~~~g~G~G~SKKeAEQ~AAk~AL~~L~~~~~i~ 182 (183)
T PHA02701 107 TLNPVSAVNEFCMRTHRPLEFCETRSGGHDHCPLFTCTIVVSGKVVATASGCSKKLARHAACADALTILINNCGIS 182 (183)
T ss_pred CCCccHHHHHHHHhcCCCCeEEEEEeECCCCCceEEEEEEECCEEEEEEEeCCHHHHHHHHHHHHHHHHHhhcccc
Confidence 4599999999999998877886543 33 79999999999999999999999999999999999998766553
No 18
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=99.42 E-value=1.8e-12 Score=109.86 Aligned_cols=88 Identities=20% Similarity=0.232 Sum_probs=69.1
Q ss_pred HHHHHhhhhhcChhhhh--cCCchhHHHHHHHHhcCCceeeEEeee----CCeEEEEEEECCEEEEEeeccCHHHHHHHH
Q 021448 186 MIFRGLLEPIVTLEELQ--QQPQPVTLLFKLCQKNGKQVDIKHWRK----NRKNIASVYVDGSFVASASSEQKEIAKLNA 259 (312)
Q Consensus 186 ~~v~~ll~p~i~~~~l~--~~~~p~~~L~e~~q~~~~~~~~~~~~~----g~~f~~~V~v~g~~~~~g~g~skk~Ae~~A 259 (312)
+++.+++.+.+....+. ...||++.||||||+++....|..... .+.|++.|.++|..+++|.|.|||+||++|
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~A 167 (183)
T PHA03103 88 REDNKSFSDTIPYKKIISWKDKNPCTVINEYCQITSRDWSINITSSGPSHSPTFTASVIISGIKFKPAIGSTKKEAKNNA 167 (183)
T ss_pred HHHHHHhhhhcchhhhhccccCChhHHHHHHHHHhCCCeEEEEEeeCCCCCceEEEEEEECCEEEEEeeeCCHHHHHHHH
Confidence 56777777766543332 245999999999999988763333333 379999999999999999999999999999
Q ss_pred HHHHHHHHhhcCCC
Q 021448 260 AREALEKLAQSMPV 273 (312)
Q Consensus 260 A~~AL~~L~~~~~~ 273 (312)
|+.||..|.....+
T Consensus 168 Ak~AL~~L~~~~~i 181 (183)
T PHA03103 168 AKLAMDKILNYVII 181 (183)
T ss_pred HHHHHHHHHhcccc
Confidence 99999999765443
No 19
>PF00035 dsrm: Double-stranded RNA binding motif; InterPro: IPR001159 The DsRBD domain is found in a variety of RNA-binding proteins with different structures and exhibiting a diversity of functions []. It is involved in localisation of at least five different mRNAs in the early Drosophila embryo and by interferon-induced protein kinase in humans, which is part of the cellular response to dsRNA.; GO: 0003725 double-stranded RNA binding, 0005622 intracellular; PDB: 1EKZ_A 1STU_A 1QU6_A 2L2M_A 3ADJ_A 1WHN_A 3LLH_B 2B7V_A 2L3J_A 1UHZ_A ....
Probab=99.34 E-value=1e-11 Score=88.92 Aligned_cols=61 Identities=33% Similarity=0.409 Sum_probs=54.3
Q ss_pred hhHHHHHHHHhcCCceeeEEee-eC-----CeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHH
Q 021448 207 PVTLLFKLCQKNGKQVDIKHWR-KN-----RKNIASVYVDGSFVASASSEQKEIAKLNAAREALEKL 267 (312)
Q Consensus 207 p~~~L~e~~q~~~~~~~~~~~~-~g-----~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L 267 (312)
|++.|+|+|++.+..++|+... .+ +.|+|+|+++|..++.|.|.|||+|++.||+.||+.|
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 7899999999999988876432 22 4899999999999999999999999999999999986
No 20
>smart00358 DSRM Double-stranded RNA binding motif.
Probab=99.31 E-value=1.5e-11 Score=87.85 Aligned_cols=61 Identities=30% Similarity=0.389 Sum_probs=54.8
Q ss_pred hhHHHHHHHHhcCCceeeEEee-eC----CeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHH
Q 021448 207 PVTLLFKLCQKNGKQVDIKHWR-KN----RKNIASVYVDGSFVASASSEQKEIAKLNAAREALEKL 267 (312)
Q Consensus 207 p~~~L~e~~q~~~~~~~~~~~~-~g----~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L 267 (312)
|++.|+|+|++++..+.|.... .| +.|+|.|+++|..+++|.|.||++|++.||+.||+.|
T Consensus 1 p~~~L~e~~~~~~~~~~y~~~~~~g~~~~~~f~~~v~i~~~~~~~g~g~sKk~Ak~~AA~~al~~L 66 (67)
T smart00358 1 PKSLLQELAQKRGLPPEYELVKEEGPDHAPRFTVTVKVGGEYTGEGEGSSKKEAKQRAAEAALRSL 66 (67)
T ss_pred CchHHHHHHHHCCCCCEEEEEeeeCCCCCCcEEEEEEECCEEEEEeccCCHHHHHHHHHHHHHHhc
Confidence 7899999999999977887653 23 5899999999999999999999999999999999876
No 21
>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=99.28 E-value=2.9e-11 Score=86.32 Aligned_cols=62 Identities=34% Similarity=0.402 Sum_probs=53.8
Q ss_pred chhHHHHHHHHhcCC-ceeeEEe-eeC----CeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHH
Q 021448 206 QPVTLLFKLCQKNGK-QVDIKHW-RKN----RKNIASVYVDGSFVASASSEQKEIAKLNAAREALEKL 267 (312)
Q Consensus 206 ~p~~~L~e~~q~~~~-~~~~~~~-~~g----~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L 267 (312)
||++.|+|+|++++. .+.|... ..| +.|+|.|.++|..+++|.|.||++|++.||+.||+.|
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 699999999999954 6678763 233 6899999999999999999999999999999999865
No 22
>KOG3732 consensus Staufen and related double-stranded-RNA-binding proteins [Intracellular trafficking, secretion, and vesicular transport; Transcription]
Probab=98.46 E-value=5.6e-07 Score=82.49 Aligned_cols=68 Identities=25% Similarity=0.269 Sum_probs=58.4
Q ss_pred CCchhHHHHHHHHhcCCcee-eEEeee-C----CeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHHhhcCC
Q 021448 204 QPQPVTLLFKLCQKNGKQVD-IKHWRK-N----RKNIASVYVDGSFVASASSEQKEIAKLNAAREALEKLAQSMP 272 (312)
Q Consensus 204 ~~~p~~~L~e~~q~~~~~~~-~~~~~~-g----~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L~~~~~ 272 (312)
..||++.|+|+||+++++.| |.+..+ | +.|++.|.+.+. ..+|+|.|||.||++||+..|..|..-.+
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 VLNPIGRLQELAQAKKWKLPEYELVQESGVPHRREFVIQCSVENF-TEEGKGPSKKIAKRNAAEAMLESLGFVKP 214 (339)
T ss_pred ccChHHHHHHHHHHhCCCCCceEEEeccCCCccceEEEEEEecce-eeecCCchHHHHHHHHHHHHHHHhccCCC
Confidence 45999999999999998765 776553 3 689999999764 59999999999999999999999996665
No 23
>COG1939 Ribonuclease III family protein [Replication, recombination, and repair]
Probab=98.28 E-value=7.4e-06 Score=65.00 Aligned_cols=107 Identities=19% Similarity=0.259 Sum_probs=68.1
Q ss_pred chhhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHHHHHHHcCchHHHhhcchhhhHHHHHHHHHhhcccc
Q 021448 69 QRLEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLARVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDN 148 (312)
Q Consensus 69 erLEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~ 148 (312)
=-|+|+||||++++|..|+...+-. .++.|+..-...||.+.-|.+-..+ .+++... ..+.++.-.+
T Consensus 16 laLAy~GDAV~e~yVR~~~l~~g~~-k~~~lH~~a~~~VsAk~QA~il~~~--~~~Lte~----------E~~I~KRgRN 82 (132)
T COG1939 16 LALAYLGDAVYELYVREYLLLKGKT-KPNDLHKRATAYVSAKAQALILKAL--LEFLTEE----------EEEIVKRGRN 82 (132)
T ss_pred HHHHHhhhHHHHHHHHHHHHhcccC-ChHHHHHHHHHHhhHHHHHHHHHHH--HHHhhHH----------HHHHHHHhcc
Confidence 3689999999999999999987533 7999999999999999988776443 2222111 0111111111
Q ss_pred ccccCCcc----CCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHHh
Q 021448 149 TAVYGGSI----KAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRGL 191 (312)
Q Consensus 149 ~~~~~~~~----~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~l 191 (312)
+ ..+... ...--.|..|||+||.+|+....+ +..+++...
T Consensus 83 a-ks~T~~kn~dv~tYr~sTgfEAliGyLyL~~~~e--RL~ell~~~ 126 (132)
T COG1939 83 A-KSGTKPKNTDVETYRMSTGFEALIGYLYLTKQEE--RLEELLNKV 126 (132)
T ss_pred c-ccCCCCCCCChHHHHHhhhHHHHHHHHHHcccHH--HHHHHHHHH
Confidence 0 011101 112247899999999999987553 444444443
No 24
>PF14709 DND1_DSRM: double strand RNA binding domain from DEAD END PROTEIN 1
Probab=98.25 E-value=3.1e-06 Score=62.86 Aligned_cols=64 Identities=30% Similarity=0.296 Sum_probs=49.6
Q ss_pred CchhHHHHHHHHhcCCcee-eEEee-eC----CeEEEEEEECCEEEE----------EeeccCHHHHHHHHHHHHHHHHh
Q 021448 205 PQPVTLLFKLCQKNGKQVD-IKHWR-KN----RKNIASVYVDGSFVA----------SASSEQKEIAKLNAAREALEKLA 268 (312)
Q Consensus 205 ~~p~~~L~e~~q~~~~~~~-~~~~~-~g----~~f~~~V~v~g~~~~----------~g~g~skk~Ae~~AA~~AL~~L~ 268 (312)
.+|++.|+++|+++++..| |.... .| ..|++.|.|.+.... .-...++++|+..||+.||..|+
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 3799999999999998654 76543 34 479999999875441 12247899999999999999874
No 25
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=97.51 E-value=9.3e-05 Score=70.82 Aligned_cols=61 Identities=30% Similarity=0.227 Sum_probs=50.5
Q ss_pred hHHHHHHHHhcCCcee-eEEee--e-CCeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHHh
Q 021448 208 VTLLFKLCQKNGKQVD-IKHWR--K-NRKNIASVYVDGSFVASASSEQKEIAKLNAAREALEKLA 268 (312)
Q Consensus 208 ~~~L~e~~q~~~~~~~-~~~~~--~-g~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L~ 268 (312)
+..|+|++|+.-...+ |.... + .-.|..+|.+|+..+|+|+|.|||.|+..||+++|+.|-
T Consensus 378 vCiLhEy~q~~lk~~pvyef~e~~n~stpysa~v~~d~~~yGsG~g~sKK~Ak~~AAR~tLeiLI 442 (650)
T KOG4334|consen 378 VCILHEYAQQCLKSLPVYEFAENDNNSTPYSAGVLPDLFPYGSGVGASKKTAKLVAARDTLEILI 442 (650)
T ss_pred eehHHHHHHHHhhhcceeehhhccCCCCcccccccccccccccccccchHHHHHHHHHHHHHHhc
Confidence 4689999998876554 54332 2 247899999999999999999999999999999999964
No 26
>KOG2777 consensus tRNA-specific adenosine deaminase 1 [RNA processing and modification]
Probab=97.11 E-value=0.0011 Score=65.08 Aligned_cols=62 Identities=31% Similarity=0.352 Sum_probs=51.2
Q ss_pred CCchhHHHHHHHHhcCCceeeEEee-----eCCeEEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHHhhc
Q 021448 204 QPQPVTLLFKLCQKNGKQVDIKHWR-----KNRKNIASVYVDGSFVASASSEQKEIAKLNAAREALEKLAQS 270 (312)
Q Consensus 204 ~~~p~~~L~e~~q~~~~~~~~~~~~-----~g~~f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L~~~ 270 (312)
..+|++.|+|+.+ .+.|.... +++.|.+.|.|||...-.| |.|||+|++.||+.||+.|...
T Consensus 89 ~~npv~ll~e~~~----~~~~~~~~~~~~~~~~~F~~~~~vdg~~~~~~-~~sKk~ak~~aa~~al~~l~~~ 155 (542)
T KOG2777|consen 89 GKNPVSLLHELAN----GLFFDFVNESGPQHAPKFVMSVVVDGRWFEGG-GRSKKEAKQEAAMAALQVLFKI 155 (542)
T ss_pred cCCchHHHHHHhc----ccceeeeccCCCCCCceEEEEEEECCEEccCC-CcchHHHHHHHHHHHHHHHHhc
Confidence 4599999999998 33444322 3478999999999987777 9999999999999999998764
No 27
>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=95.77 E-value=0.091 Score=39.76 Aligned_cols=67 Identities=21% Similarity=0.225 Sum_probs=42.9
Q ss_pred hHHHHHHHHhcCC------ceeeEEeeeCCeEEEEEEECCE-----EEEEeeccCHHHHHHHHHHHHHHHHhhcCCCcc
Q 021448 208 VTLLFKLCQKNGK------QVDIKHWRKNRKNIASVYVDGS-----FVASASSEQKEIAKLNAAREALEKLAQSMPVNC 275 (312)
Q Consensus 208 ~~~L~e~~q~~~~------~~~~~~~~~g~~f~~~V~v~g~-----~~~~g~g~skk~Ae~~AA~~AL~~L~~~~~~~~ 275 (312)
++.|+.+|++-.. .+.|.....+..|+|+|.+-.. ..|. .-.||+.||+.||-.|...|...+-...
T Consensus 2 i~lL~~yC~~Lp~d~~~~~~P~~~~~~~~~~~~c~v~LP~~~pi~~i~g~-~~~sk~~AK~sAAf~Ac~~L~~~g~ldd 79 (90)
T PF03368_consen 2 ISLLNRYCSTLPSDSFTNLKPEFEIEKIGSGFICTVILPINSPIRSIEGP-PMRSKKLAKRSAAFEACKKLHEAGELDD 79 (90)
T ss_dssp HHHHHHHHTTSSS-TT--SS-EEEEEE--G-EEEEEE--TT-SS--EEEE---SSHHHHHHHHHHHHHHHHHHH-S-TT
T ss_pred HHHHHHHHhcCCCCCCccCCceEEEEEcCCcEEEEEECCCCCCCCeEEcc-ccccHHHHHHHHHHHHHHHHHHcCCCcc
Confidence 4678899987533 3456666666789999997431 2333 4689999999999999999998775544
No 28
>PF11469 Ribonucleas_3_2: Ribonuclease III; InterPro: IPR021568 This archaeal family of proteins has no known function. ; PDB: 1ZTD_A.
Probab=92.46 E-value=0.99 Score=34.77 Aligned_cols=88 Identities=16% Similarity=0.187 Sum_probs=57.6
Q ss_pred hhhhhHHhhHHHHHHHHHHHCCCCCccchhHHHHHcCChHHHHHHHHHcCchHHHhhcchhhhHHHHHHHHHhhcccccc
Q 021448 71 LEFIGDAALGLALSNYVFLAYPQLDPGQLSLLRAANISTEKLARVAVKHGFYKFVRHSAAALDDKVKEFAEAVSQEDNTA 150 (312)
Q Consensus 71 LEfLGDavL~~~v~~~l~~~~p~~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~l~~~~~~~~~~~~~~~~~~~~e~~~~ 150 (312)
|.-+||++++++++--|.+-. ..+.|. -|-|.+|+..-...||.+.+.-.
T Consensus 3 Lak~GDSLvNfl~SlALse~l-G~Ptg~-------rVPnaSLaiAl~~a~L~~~~~PR---------------------- 52 (120)
T PF11469_consen 3 LAKFGDSLVNFLFSLALSEYL-GRPTGD-------RVPNASLAIALELAGLSHLLPPR---------------------- 52 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-TS--------------HHHHHHHHHHTTGGGCS--C----------------------
T ss_pred HHHHhHHHHHHHHHHHHHHHh-CCCCCC-------CCCChHHHHHHHHHhhhhhCccc----------------------
Confidence 678999999999998885432 222232 47788888877788887766421
Q ss_pred ccCCccCCchhHHHHHHHHHHHHhhcCCcChHHHHHHHHHhhhh
Q 021448 151 VYGGSIKAPKVLADIVESIAAAIYVDIDFDLQKLWMIFRGLLEP 194 (312)
Q Consensus 151 ~~~~~~~~~k~lad~fEAliGAiylD~G~~~~~~~~~v~~ll~p 194 (312)
....--+|..||+|+--|+.+-+......++++.=+.+
T Consensus 53 ------~dkh~kGd~aEA~iAyAWLeg~it~eEaveil~~nl~~ 90 (120)
T PF11469_consen 53 ------TDKHGKGDIAEALIAYAWLEGKITIEEAVEILKANLTE 90 (120)
T ss_dssp ------GGCCGHHHHHHHHHHHHHHTTSS-HHHHHHHHHCT--G
T ss_pred ------ccccCccHHHHHHHHHHHHhccccHHHHHHHHHhcCch
Confidence 11246799999999999999988877666666654433
No 29
>PF14954 LIX1: Limb expression 1
Probab=90.79 E-value=0.66 Score=40.50 Aligned_cols=63 Identities=22% Similarity=0.183 Sum_probs=43.7
Q ss_pred CCchhHHHHHHHHhc---CCc------eeeEE-eeeCCeEEEEEEECC-EEEEE-eeccCHHHHHHHHHHHHHHH
Q 021448 204 QPQPVTLLFKLCQKN---GKQ------VDIKH-WRKNRKNIASVYVDG-SFVAS-ASSEQKEIAKLNAAREALEK 266 (312)
Q Consensus 204 ~~~p~~~L~e~~q~~---~~~------~~~~~-~~~g~~f~~~V~v~g-~~~~~-g~g~skk~Ae~~AA~~AL~~ 266 (312)
..|-+..|||+=+.. +.. +.|+- ...++.|+|-|++-| -..|. -...||.+|++.||+.||.+
T Consensus 20 ~vnvV~~LqeFWq~Kq~r~a~~~~~~lv~YEs~ps~~ppyVcyVTLPGGSCFGnfq~C~tkAEARR~AAKiALmN 94 (252)
T PF14954_consen 20 DVNVVEALQEFWQMKQSRGADLKSEALVVYESVPSPSPPYVCYVTLPGGSCFGNFQNCPTKAEARRSAAKIALMN 94 (252)
T ss_pred cchHHHHHHHHHHHHHhccccCCCCCeeeeeccCCCCCCeEEEEeCCCCCccCccccCCcHHHHHhhhHHHHHHH
Confidence 347788888876532 221 22332 245788999999864 45554 33689999999999999987
No 30
>PRK14718 ribonuclease III; Provisional
Probab=73.53 E-value=1.9 Score=41.93 Aligned_cols=22 Identities=32% Similarity=0.407 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHhcCCCCCCCCC
Q 021448 291 EAAKQKLHELCGKKKWPKPSYK 312 (312)
Q Consensus 291 ~~~~~~l~~~~~~~~~~~p~y~ 312 (312)
.++|..|||+|++++|.+|+|+
T Consensus 151 kDyKS~LQE~~Qk~~~~~PeY~ 172 (467)
T PRK14718 151 KDAKTLLQEYLQGHKIALPTYT 172 (467)
T ss_pred cCHHHHHHHHHHhcCCCCCeeE
Confidence 3899999999999999999994
No 31
>PRK12371 ribonuclease III; Reviewed
Probab=71.99 E-value=2 Score=38.45 Aligned_cols=23 Identities=26% Similarity=0.304 Sum_probs=20.7
Q ss_pred hHHHHHHHHHHHhcCCCCCCCCC
Q 021448 290 IEAAKQKLHELCGKKKWPKPSYK 312 (312)
Q Consensus 290 ~~~~~~~l~~~~~~~~~~~p~y~ 312 (312)
..+||..|||+|+++.+..|.|+
T Consensus 160 ~~d~Ks~LqE~~q~~~~~~p~Y~ 182 (235)
T PRK12371 160 RRDAKTELQEWAHAQFGVTPVYR 182 (235)
T ss_pred cCCHHHHHHHHHHhcCCCCCeEE
Confidence 44999999999999999999984
No 32
>PRK12372 ribonuclease III; Reviewed
Probab=68.38 E-value=2.9 Score=40.29 Aligned_cols=21 Identities=33% Similarity=0.407 Sum_probs=19.9
Q ss_pred HHHHHHHHHHhcCCCCCCCCC
Q 021448 292 AAKQKLHELCGKKKWPKPSYK 312 (312)
Q Consensus 292 ~~~~~l~~~~~~~~~~~p~y~ 312 (312)
++|..|||+|+++.+.+|+|+
T Consensus 152 D~KS~LQE~~Q~~~~~~P~Y~ 172 (413)
T PRK12372 152 DAKTLLQEYLQGHKIALPTYT 172 (413)
T ss_pred CHHHHHHHHHHhcCCCCCeeE
Confidence 799999999999999999994
No 33
>PRK00102 rnc ribonuclease III; Reviewed
Probab=65.09 E-value=3.8 Score=36.10 Aligned_cols=23 Identities=30% Similarity=0.582 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHhcCCCCCCCCC
Q 021448 290 IEAAKQKLHELCGKKKWPKPSYK 312 (312)
Q Consensus 290 ~~~~~~~l~~~~~~~~~~~p~y~ 312 (312)
..+|+..|+|+|.+++|.+|.|+
T Consensus 157 ~~~pk~~L~e~~~~~~~~~p~y~ 179 (229)
T PRK00102 157 VKDYKTRLQELLQGRGLPLPEYE 179 (229)
T ss_pred cCCHHHHHHHHHHHcCCCCCceE
Confidence 44899999999999999999984
No 34
>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=60.76 E-value=4.8 Score=35.13 Aligned_cols=23 Identities=26% Similarity=0.485 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHhcCCCCCCCCC
Q 021448 290 IEAAKQKLHELCGKKKWPKPSYK 312 (312)
Q Consensus 290 ~~~~~~~l~~~~~~~~~~~p~y~ 312 (312)
..+|+..|+|+|++++++.|.|+
T Consensus 151 ~~~pk~~L~e~~~~~~~~~p~y~ 173 (220)
T TIGR02191 151 LKDYKTALQEWAQARGKPLPEYR 173 (220)
T ss_pred cCChHHHHHHHHHHcCCCCceEE
Confidence 44899999999999999999984
No 35
>KOG2334 consensus tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]
Probab=59.90 E-value=3.2 Score=40.02 Aligned_cols=73 Identities=21% Similarity=0.088 Sum_probs=56.6
Q ss_pred CCchhHHHHHHHHhcCCce-eeEEee-eCCeEEEEEEECCEEEEEee-ccCHHHHHHHHHHHHHHHHhhcCCCccc
Q 021448 204 QPQPVTLLFKLCQKNGKQV-DIKHWR-KNRKNIASVYVDGSFVASAS-SEQKEIAKLNAAREALEKLAQSMPVNCD 276 (312)
Q Consensus 204 ~~~p~~~L~e~~q~~~~~~-~~~~~~-~g~~f~~~V~v~g~~~~~g~-g~skk~Ae~~AA~~AL~~L~~~~~~~~~ 276 (312)
+..|+..|..||-+.+... .|++.+ .+..|...+..+|+.+-++. ..+++.|+|.||..+|.....+......
T Consensus 374 ~~~~k~~l~~~~~~~~~~~~~ye~~~~~d~lf~si~~~~~~~~~ssi~~~n~k~aeq~aa~~~l~~s~l~e~~V~~ 449 (477)
T KOG2334|consen 374 WDTPKMVLADLCVKTKANGPVYETVQRTDKLFSSIATARGQKYNSSIWSPNKKSAEQDAAIVALRKSNLWEADVGS 449 (477)
T ss_pred CCCHHHHHHHhhhhhcCCCcchhhhhhhhhhhHHHhhhhhhhhhccccCcchhhHHHHHHHHHHHhcCcchhhhcc
Confidence 4589999999999888744 465544 56678888888898877766 4899999999999999987766544443
No 36
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=56.03 E-value=6.1 Score=35.38 Aligned_cols=22 Identities=27% Similarity=0.472 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHhcCCCCCCCCC
Q 021448 291 EAAKQKLHELCGKKKWPKPSYK 312 (312)
Q Consensus 291 ~~~~~~l~~~~~~~~~~~p~y~ 312 (312)
.+|+..|||+|++...++|+|+
T Consensus 161 ~D~Kt~LQe~~q~~~~~~p~Y~ 182 (235)
T COG0571 161 KDPKTRLQELLQAQGLVLPEYR 182 (235)
T ss_pred cChhHHHHHHHHhcCCCCCeEE
Confidence 5899999999999999999994
No 37
>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=54.99 E-value=21 Score=26.31 Aligned_cols=29 Identities=24% Similarity=0.233 Sum_probs=23.1
Q ss_pred CEEEEEeeccCHHHHHHHHHHHHHHHHhh
Q 021448 241 GSFVASASSEQKEIAKLNAAREALEKLAQ 269 (312)
Q Consensus 241 g~~~~~g~g~skk~Ae~~AA~~AL~~L~~ 269 (312)
...+|.|.|.+.+.|+.+|-.+..+++..
T Consensus 12 ~~l~a~G~~~~~~~A~~~A~~~la~~i~~ 40 (92)
T PF02169_consen 12 QYLYAVGSGSSREQAKQDALANLAEQISV 40 (92)
T ss_pred cEEEEEEcccChHHHHHHHHHHHHHheeE
Confidence 34679999999998988888888776654
No 38
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=54.07 E-value=22 Score=37.88 Aligned_cols=64 Identities=22% Similarity=0.239 Sum_probs=50.4
Q ss_pred chhHHHHHHHHhcCCceeeEEeeeC----CeEEEEEEECCE-EEEEeeccCHHHHHHHHHHHHHHHHhh
Q 021448 206 QPVTLLFKLCQKNGKQVDIKHWRKN----RKNIASVYVDGS-FVASASSEQKEIAKLNAAREALEKLAQ 269 (312)
Q Consensus 206 ~p~~~L~e~~q~~~~~~~~~~~~~g----~~f~~~V~v~g~-~~~~g~g~skk~Ae~~AA~~AL~~L~~ 269 (312)
+-+.-|-.||.++...+.|.+...+ ..|.|.|.+.+. ..+.|.+.+||.|++.||++-.+.|--
T Consensus 2 d~k~fly~~~~k~~~~p~~d~~~~~~~~rqrf~ce~~~~~~~~~~~~~stnkKda~knac~dfv~ylvr 70 (1282)
T KOG0921|consen 2 DVKEFLYAWLGKNKYGPTYDIRSEGRKGRQRFLCEVRVEGFGYTAVGNSTNKKDAATNAAQDFCQYLVR 70 (1282)
T ss_pred cHHHHHHHHHhhhccCcceehhhhcccchhheeeeeeccCCcceeeecccccchhhHHHHHHHHHHhhh
Confidence 4567788999998887777765443 468899998765 457888999999999999999887643
No 39
>PF00333 Ribosomal_S5: Ribosomal protein S5, N-terminal domain; InterPro: IPR013810 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S5 is one of the proteins from the small ribosomal subunit, and is a protein of 166 to 254 amino-acid residues. In Escherichia coli, S5 is known to be important in the assembly and function of the 30S ribosomal subunit. Mutations in S5 have been shown to increase translational error frequencies. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities [, ], groups bacterial, cyanelle, red algal chloroplast, archaeal and fungal mitochondrial S5; mammalian, Caenorhabditis elegans, Drosophila and plant S2; and yeast S4 (SUP44). This entry represents the N-terminal domain of ribosomal protein S5, which has an alpha-beta(3)-alpha structure that folds into two layers, alpha/beta.; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2ZKQ_e 2XZN_E 2XZM_E 3O30_B 1S1H_E 3IZB_E 3U5C_C 3U5G_C 3O2Z_B 3BBN_E ....
Probab=53.25 E-value=29 Score=24.62 Aligned_cols=37 Identities=22% Similarity=0.041 Sum_probs=27.3
Q ss_pred eEEEEEEECC---E-EEEEeeccCHHHHHHHHHHHHHHHHh
Q 021448 232 KNIASVYVDG---S-FVASASSEQKEIAKLNAAREALEKLA 268 (312)
Q Consensus 232 ~f~~~V~v~g---~-~~~~g~g~skk~Ae~~AA~~AL~~L~ 268 (312)
.|.+-|.+++ . -+|.|.+.....|-+.|-..|.++|.
T Consensus 23 ~~~alvvvGn~~G~vG~G~gKa~~~~~Ai~kA~~~A~knl~ 63 (67)
T PF00333_consen 23 SFRALVVVGNGNGLVGFGVGKAKEVPDAIRKAKRKAKKNLI 63 (67)
T ss_dssp EEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHHHCSEE
T ss_pred EEEEEEEEecCCCcEecCcccchhHHHHHHHHHHHHHhCCE
Confidence 4566666643 2 36777788899999999999987764
No 40
>PF08248 Tryp_FSAP: Tryptophyllin-3 skin active peptide; InterPro: IPR013266 PdT-3 or Tryptophyllin-3 peptide is a subfamily of the family Tryptophyllin and of the superfamily FSAP (Frog Skin Active Peptide). Originally identified in skin extracts of Neotropical leaf frogs, Phyllomedusa sp. This subfamily has an average length of 13 amino acids. The pharmacological activity of the tryptophyllins remains to be established [] but it seems that these peptides possess an action on liver protein synthesis and body weight []. It is thought to possesses insulin-releasing activity [].
Probab=44.76 E-value=13 Score=16.95 Aligned_cols=9 Identities=56% Similarity=1.261 Sum_probs=7.1
Q ss_pred cCCCCCCCC
Q 021448 303 KKKWPKPSY 311 (312)
Q Consensus 303 ~~~~~~p~y 311 (312)
|--||.|+|
T Consensus 2 kpfw~ppiy 10 (12)
T PF08248_consen 2 KPFWPPPIY 10 (12)
T ss_pred CccCCCCcc
Confidence 446999998
No 41
>COG3422 Uncharacterized conserved protein [Function unknown]
Probab=44.64 E-value=1e+02 Score=21.25 Aligned_cols=43 Identities=9% Similarity=0.171 Sum_probs=33.4
Q ss_pred eCCeEEEEEEE-CCEEEEEeeccCHHHHHHHHHHHHHHHHhhcCCCcc
Q 021448 229 KNRKNIASVYV-DGSFVASASSEQKEIAKLNAAREALEKLAQSMPVNC 275 (312)
Q Consensus 229 ~g~~f~~~V~v-~g~~~~~g~g~skk~Ae~~AA~~AL~~L~~~~~~~~ 275 (312)
.++.|...+.- ||+.+.++.|.. -+..|..|++.+++.+|...
T Consensus 11 k~Ge~rfrlkA~N~eiI~~sEgY~----skasa~ngI~svk~Nsp~a~ 54 (59)
T COG3422 11 KAGEYRFRLKAANGEIILTSEGYK----SKASAENGIASVKSNSPAAP 54 (59)
T ss_pred CCCcEEEEEEccCccEEEeecccc----hhHHHHHHHHHHhhcCCCCc
Confidence 45778888777 899999988863 35678899999998887654
No 42
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=42.39 E-value=11 Score=32.37 Aligned_cols=21 Identities=14% Similarity=0.346 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHhcCCCCCCCCC
Q 021448 291 EAAKQKLHELCGKKKWPKPSYK 312 (312)
Q Consensus 291 ~~~~~~l~~~~~~~~~~~p~y~ 312 (312)
.+||..|||+|++...++ .|+
T Consensus 108 ~DpKS~LQE~~Q~~~~~l-~Y~ 128 (183)
T PHA02701 108 LNPVSAVNEFCMRTHRPL-EFC 128 (183)
T ss_pred CCccHHHHHHHHhcCCCC-eEE
Confidence 499999999999998888 673
No 43
>KOG4334 consensus Uncharacterized conserved protein, contains double-stranded RNA-binding motif and WW domain [General function prediction only]
Probab=40.50 E-value=94 Score=30.87 Aligned_cols=64 Identities=19% Similarity=0.203 Sum_probs=41.5
Q ss_pred CCchhHHHHHHHHhcC-C-cee--eEEeeeCCe-EEEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHHh
Q 021448 204 QPQPVTLLFKLCQKNG-K-QVD--IKHWRKNRK-NIASVYVDGSFVASASSEQKEIAKLNAAREALEKLA 268 (312)
Q Consensus 204 ~~~p~~~L~e~~q~~~-~-~~~--~~~~~~g~~-f~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L~ 268 (312)
...|-..|.+..+++. + .+. .+....+.. -.+...+ |+.-..|...+|++++|.|++..|+.|.
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 4577788888777653 3 222 233333321 1223333 5666889999999999999999998864
No 44
>PF06754 PhnG: Phosphonate metabolism protein PhnG; InterPro: IPR009609 This family consists of several bacterial phosphonate metabolism protein PhnG sequences. In Escherichia coli, the phn operon encodes proteins responsible for the uptake and breakdown of phosphonates. The exact function of PhnG is unknown, however it is thought likely that along with six other proteins PhnG makes up the the C-P (carbon-phosphorus) lyase [].; GO: 0015716 phosphonate transport, 0019634 phosphonate metabolic process
Probab=37.41 E-value=1.9e+02 Score=23.75 Aligned_cols=36 Identities=22% Similarity=0.206 Sum_probs=27.3
Q ss_pred EEEEEEECCEEEEEee--ccCHHHHHHHHHHHHHHHHh
Q 021448 233 NIASVYVDGSFVASAS--SEQKEIAKLNAAREALEKLA 268 (312)
Q Consensus 233 f~~~V~v~g~~~~~g~--g~skk~Ae~~AA~~AL~~L~ 268 (312)
..|.|.+++-..|.|. |.++..|+..|--+|+-...
T Consensus 65 Tr~~V~l~~g~~G~~~v~G~d~~~A~~~Av~DAllq~~ 102 (146)
T PF06754_consen 65 TRCAVRLEDGTVGYGYVLGRDKRHAELAAVIDALLQAP 102 (146)
T ss_pred EEEEEEeCCCCEEEEEEcCCCHHHHHHHHHHHHHhCCC
Confidence 4678888743345555 99999999999999987644
No 45
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=35.97 E-value=32 Score=24.75 Aligned_cols=42 Identities=21% Similarity=0.381 Sum_probs=27.5
Q ss_pred HHHHHHHHHC---CCCCccchhHHHHHcCChHHHHHHHHHcCchHHH
Q 021448 82 ALSNYVFLAY---PQLDPGQLSLLRAANISTEKLARVAVKHGFYKFV 125 (312)
Q Consensus 82 ~v~~~l~~~~---p~~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~l 125 (312)
-+++|+..+. +..+..++ .+..-||..++.++|.++|+..|-
T Consensus 20 ~Ia~yil~~~~~~~~~si~el--A~~~~vS~sti~Rf~kkLG~~gf~ 64 (77)
T PF01418_consen 20 KIADYILENPDEIAFMSISEL--AEKAGVSPSTIVRFCKKLGFSGFK 64 (77)
T ss_dssp HHHHHHHH-HHHHCT--HHHH--HHHCTS-HHHHHHHHHHCTTTCHH
T ss_pred HHHHHHHhCHHHHHHccHHHH--HHHcCCCHHHHHHHHHHhCCCCHH
Confidence 3555665543 33444444 467799999999999999998875
No 46
>PF12174 RST: RCD1-SRO-TAF4 (RST) plant domain; InterPro: IPR022003 This domain is found in many plant proteins including SROs and RCD1s; it is required for interaction with multiple plant transcription factors.
Probab=35.20 E-value=1.1e+02 Score=21.88 Aligned_cols=26 Identities=23% Similarity=0.437 Sum_probs=22.2
Q ss_pred cccccccchhhhHHHHhcCCCChhhH
Q 021448 8 LPRATVTDYRLLKEAMLTSLPSPEME 33 (312)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 33 (312)
-|..+|.+|+.|-..+-.++|..++.
T Consensus 3 ~P~sp~~~F~~L~~~l~~~l~~~~~~ 28 (70)
T PF12174_consen 3 RPTSPWMPFPMLFSALSKHLPPSKMD 28 (70)
T ss_pred CCCCCcccHHHHHHHHHHHCCHHHHH
Confidence 37789999999999999999977765
No 47
>PF08383 Maf_N: Maf N-terminal region; InterPro: IPR013592 This region is found in various leucine zipper transcription factors of the Maf family. These are implicated in the regulation of insulin gene expression [], in erythroid differentiation [], and in differentiation of the neuroretina [].
Probab=34.53 E-value=19 Score=22.08 Aligned_cols=11 Identities=27% Similarity=0.362 Sum_probs=9.2
Q ss_pred HHHHHHHHHHH
Q 021448 162 LADIVESIAAA 172 (312)
Q Consensus 162 lad~fEAliGA 172 (312)
-.|++||+||+
T Consensus 25 pEDAvEaLi~~ 35 (35)
T PF08383_consen 25 PEDAVEALIGN 35 (35)
T ss_pred HHHHHHHHhcC
Confidence 47999999984
No 48
>TIGR01021 rpsE_bact ribosomal protein S5, bacterial/organelle type. This model finds chloroplast ribosomal protein S5 as well as bacterial ribosomal protein S5. A candidate mitochondrial form (Saccharomyces cerevisiae YBR251W and its homolog) differs substantially and is not included in this model.
Probab=33.63 E-value=86 Score=26.14 Aligned_cols=40 Identities=18% Similarity=-0.007 Sum_probs=29.1
Q ss_pred eEEEEEEECCE----EEEEeeccCHHHHHHHHHHHHHHHHhhcC
Q 021448 232 KNIASVYVDGS----FVASASSEQKEIAKLNAAREALEKLAQSM 271 (312)
Q Consensus 232 ~f~~~V~v~g~----~~~~g~g~skk~Ae~~AA~~AL~~L~~~~ 271 (312)
.|.+-|.+++. -+|.|.+..-..|.+.|...|.++|-.-.
T Consensus 23 sf~alvvvGn~~G~vG~G~GKa~ev~~Ai~kA~~~Ak~nl~~V~ 66 (154)
T TIGR01021 23 SFSALVVVGDGKGRVGFGFGKAKEVPDAIKKAVEKARKNLINVP 66 (154)
T ss_pred EEEEEEEEECCCCeEeeeeeecchHHHHHHHHHHHHHhCeEEEe
Confidence 46666666532 35666677788999999999999976544
No 49
>CHL00138 rps5 ribosomal protein S5; Validated
Probab=31.27 E-value=95 Score=25.56 Aligned_cols=40 Identities=18% Similarity=0.062 Sum_probs=29.1
Q ss_pred eEEEEEEECCE----EEEEeeccCHHHHHHHHHHHHHHHHhhcC
Q 021448 232 KNIASVYVDGS----FVASASSEQKEIAKLNAAREALEKLAQSM 271 (312)
Q Consensus 232 ~f~~~V~v~g~----~~~~g~g~skk~Ae~~AA~~AL~~L~~~~ 271 (312)
.|.+-|.+++. -+|.|.+.....|-+.|...|.++|-.-+
T Consensus 45 ~f~alvvvGn~~G~vG~G~GKa~ev~~Ai~KA~~~Akknl~~V~ 88 (143)
T CHL00138 45 SFRAIVVIGNENGWVGVGVGKADDVQNAVKKAVTDAKKNLITIP 88 (143)
T ss_pred EEEEEEEEECCCCeEEEeeEecchHHHHHHHHHHHHHhCeEEEE
Confidence 46666666532 35666677788999999999999987544
No 50
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=30.85 E-value=1.3e+02 Score=19.25 Aligned_cols=22 Identities=18% Similarity=0.113 Sum_probs=14.0
Q ss_pred EEeeccCHHHHHHHHHHHHHHHH
Q 021448 245 ASASSEQKEIAKLNAAREALEKL 267 (312)
Q Consensus 245 ~~g~g~skk~Ae~~AA~~AL~~L 267 (312)
..+...++++|+..+++ ++..+
T Consensus 20 ~k~GF~TkkeA~~~~~~-~~~~~ 41 (46)
T PF14657_consen 20 TKRGFKTKKEAEKALAK-IEAEL 41 (46)
T ss_pred EcCCCCcHHHHHHHHHH-HHHHH
Confidence 33446899999877666 44333
No 51
>PRK00550 rpsE 30S ribosomal protein S5; Validated
Probab=29.66 E-value=92 Score=26.37 Aligned_cols=40 Identities=15% Similarity=0.012 Sum_probs=29.4
Q ss_pred eEEEEEEECCE----EEEEeeccCHHHHHHHHHHHHHHHHhhcC
Q 021448 232 KNIASVYVDGS----FVASASSEQKEIAKLNAAREALEKLAQSM 271 (312)
Q Consensus 232 ~f~~~V~v~g~----~~~~g~g~skk~Ae~~AA~~AL~~L~~~~ 271 (312)
.|.+-|.+++. -+|.|.+.....|.+.|...|.++|-.-.
T Consensus 34 ~f~alvvvGn~~G~vG~G~gKa~ev~~Ai~kA~~~A~~nl~~V~ 77 (168)
T PRK00550 34 SFSALVVVGDGKGRVGFGYGKAREVPEAIRKAVEDAKKNMIKVP 77 (168)
T ss_pred EEEEEEEEECCCCeEeeeeeecchHHHHHHHHHHHHHhCEEEEe
Confidence 46677777542 35666677888999999999999976544
No 52
>COG1944 Uncharacterized conserved protein [Function unknown]
Probab=29.57 E-value=1.8e+02 Score=28.22 Aligned_cols=64 Identities=20% Similarity=0.186 Sum_probs=42.5
Q ss_pred HHHHHHHHhcCCc-eeeEEeee--C-CeE-EEEEEECCEEEEEeeccCHHHHHHHHHHHHHHHHhhcCC
Q 021448 209 TLLFKLCQKNGKQ-VDIKHWRK--N-RKN-IASVYVDGSFVASASSEQKEIAKLNAAREALEKLAQSMP 272 (312)
Q Consensus 209 ~~L~e~~q~~~~~-~~~~~~~~--g-~~f-~~~V~v~g~~~~~g~g~skk~Ae~~AA~~AL~~L~~~~~ 272 (312)
..+|.+++..|.. +.--..-+ | |.| -++...-+..+..|.|.|++.|+-.|.+++++.+.....
T Consensus 21 ~~~q~~l~~~gitrI~~~t~Ld~~gIPv~~a~rp~~~~~~~~~GKGat~~~A~vSAimE~~Er~sAe~~ 89 (398)
T COG1944 21 AAFQPLLAALGITRIEDITWLDRLGIPVVWAVRPRALGLSVSQGKGATKAAARVSALMEALERLSAEYF 89 (398)
T ss_pred HHHHHHHHhcCceeeeeeeccccCCCceEEEeeeccccceeecCCCCCHHHHHHHHHHHHHHHhhcccc
Confidence 4566666666654 22112222 3 332 233333456778899999999999999999999988774
No 53
>PRK14741 spoVM stage V sporulation protein M; Provisional
Probab=29.52 E-value=57 Score=18.32 Aligned_cols=18 Identities=39% Similarity=0.636 Sum_probs=15.5
Q ss_pred cCCchhHHHHHHHHHHHH
Q 021448 156 IKAPKVLADIVESIAAAI 173 (312)
Q Consensus 156 ~~~~k~lad~fEAliGAi 173 (312)
..-||.++.++.|++||.
T Consensus 6 iklpkflgg~vra~l~~f 23 (26)
T PRK14741 6 IKLPKFLGGIVRAMLGSF 23 (26)
T ss_pred EeccHHHHHHHHHHHHHh
Confidence 456899999999999985
No 54
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=27.69 E-value=67 Score=20.45 Aligned_cols=34 Identities=18% Similarity=0.222 Sum_probs=16.1
Q ss_pred CCCCCccchhHHHHHcCChHHHHHHHHHcCchHH
Q 021448 91 YPQLDPGQLSLLRAANISTEKLARVAVKHGFYKF 124 (312)
Q Consensus 91 ~p~~~~g~Lt~~r~~lvsn~~La~ia~~~gL~~~ 124 (312)
|+.++..+...+...+-.+.+...+|..+|.+.-
T Consensus 2 ~~~Lt~~eR~~I~~l~~~G~s~~~IA~~lg~s~s 35 (44)
T PF13936_consen 2 YKHLTPEERNQIEALLEQGMSIREIAKRLGRSRS 35 (44)
T ss_dssp ----------HHHHHHCS---HHHHHHHTT--HH
T ss_pred ccchhhhHHHHHHHHHHcCCCHHHHHHHHCcCcH
Confidence 5667778877788888888999999999988664
No 55
>COG3624 PhnG Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=23.84 E-value=92 Score=25.56 Aligned_cols=35 Identities=26% Similarity=0.229 Sum_probs=26.0
Q ss_pred EEEEEECC--EEEEEee--ccCHHHHHHHHHHHHHHHHh
Q 021448 234 IASVYVDG--SFVASAS--SEQKEIAKLNAAREALEKLA 268 (312)
Q Consensus 234 ~~~V~v~g--~~~~~g~--g~skk~Ae~~AA~~AL~~L~ 268 (312)
.+.|.+.+ ..+|.|+ |.+|+.|+..|--+||-+-.
T Consensus 69 Ra~VrL~~~~~~vGh~yv~Grdk~~AelaAi~DALlQ~~ 107 (151)
T COG3624 69 RATVRLEDGTGTVGHGYVLGRDKRHAELAALIDALLQQP 107 (151)
T ss_pred EEEEEccCCCcccceeeeecCChhHhHHHHHHHHHhcCh
Confidence 45565543 3567766 99999999999999987643
No 56
>PF08727 P3A: Poliovirus 3A protein like; InterPro: IPR014838 The 3A protein is found in positive-strand RNA viruses. It is a critical component of the poliovirus replication complex, and is also an inhibitor of host cell ER to Golgi transport. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0017111 nucleoside-triphosphatase activity; PDB: 1NG7_A.
Probab=22.11 E-value=47 Score=22.78 Aligned_cols=15 Identities=27% Similarity=0.838 Sum_probs=11.0
Q ss_pred HHHHHHhcCCCCCCC
Q 021448 296 KLHELCGKKKWPKPS 310 (312)
Q Consensus 296 ~l~~~~~~~~~~~p~ 310 (312)
++.+||.+.+|=.|.
T Consensus 31 eV~~YC~~~GWIip~ 45 (57)
T PF08727_consen 31 EVREYCEEQGWIIPA 45 (57)
T ss_dssp HHHHHHHHHT--TT-
T ss_pred HHHHHHHHCCccccC
Confidence 689999999998885
No 57
>TIGR03549 conserved hypothetical protein TIGR03549. This family consists of remarkably well-conserved proteins from gamma and beta Proteobacteria, heavily skewed towards organisms of marine environments. This family has an OsmC-like N-terminal domain. It shares a central domain, modeled by pfam02624 and TIGR00702, with other families of smaller proteins. The function is unknown. Fifteen of the first sixteen members of this family are from selenouridine-positive genomes, but this correlation may be fortuitous.
Probab=21.82 E-value=2.5e+02 Score=29.50 Aligned_cols=64 Identities=17% Similarity=0.223 Sum_probs=43.8
Q ss_pred hhHHHHHHHHhcCCceeeEEeeeC--CeEEEEEEE-CCE-EEEEeeccCHHHHHHHHHHHHHHHHhhc
Q 021448 207 PVTLLFKLCQKNGKQVDIKHWRKN--RKNIASVYV-DGS-FVASASSEQKEIAKLNAAREALEKLAQS 270 (312)
Q Consensus 207 p~~~L~e~~q~~~~~~~~~~~~~g--~~f~~~V~v-~g~-~~~~g~g~skk~Ae~~AA~~AL~~L~~~ 270 (312)
-+..++...+..|+.+....+.++ ..|.+.+.- +.. ....|.|.|++.|+.-|-.+..++|...
T Consensus 161 TI~~~~~~L~~lg~~i~~~s~~~~vp~~~Sv~~~d~~~~~~~tnGKGas~~~AlASAlgE~~ERls~n 228 (718)
T TIGR03549 161 TIANMTAILADLGMKIEIASWRNIVPNVWSLHIRDAASPMCFTNGKGATKESALCSALGEFIERLNCN 228 (718)
T ss_pred HHHHHHHHHHHcCCCeEEeeccCCCCcEEEEEecccCCCcccCCCCcCCHHHHHHHHHHHHHHHHhhh
Confidence 456777777788877775555544 244544441 222 1245999999999999999999998543
No 58
>PF07411 DUF1508: Domain of unknown function (DUF1508); InterPro: IPR010879 This domain is found in a family of proteins, which have no known function. Members of this family are often found as tandem repeats and in some cases represent the whole protein.; PDB: 3BID_H 2K49_A 2K8E_A 2K7I_A.
Probab=20.05 E-value=2.7e+02 Score=18.20 Aligned_cols=38 Identities=16% Similarity=0.242 Sum_probs=21.8
Q ss_pred CeEEEEEEE-CCEEEEEeeccCHHHHHHHHHHHHHHHHhhcCC
Q 021448 231 RKNIASVYV-DGSFVASASSEQKEIAKLNAAREALEKLAQSMP 272 (312)
Q Consensus 231 ~~f~~~V~v-~g~~~~~g~g~skk~Ae~~AA~~AL~~L~~~~~ 272 (312)
+.|...+.- ||++++++.+.+- ..+|+.+++.++...+
T Consensus 4 g~~~f~L~a~ng~viasse~Y~s----k~~a~~~I~~Vk~~a~ 42 (49)
T PF07411_consen 4 GQFRFRLKAGNGEVIASSEGYSS----KADAEKGIESVKKNAP 42 (49)
T ss_dssp SEEEEEEE-TTS-EEEEBEEBSS----HHHHHHHHHHHHHHTT
T ss_pred CCEEEEEEcCCCCEEEecCCcCC----HHHHHHHHHHHHHhCC
Confidence 445545543 6899998888533 3445666666665544
Done!