Query 029991
Match_columns 184
No_of_seqs 172 out of 1132
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 06:49:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029991.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029991hhsearch_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 9.4E-40 2E-44 270.9 15.4 142 38-181 4-154 (235)
2 PRK12371 ribonuclease III; Rev 100.0 6.9E-39 1.5E-43 266.4 16.1 144 35-180 5-155 (235)
3 PRK12372 ribonuclease III; Rev 100.0 2.6E-38 5.5E-43 277.5 15.1 138 42-181 3-144 (413)
4 PRK14718 ribonuclease III; Pro 100.0 3E-38 6.4E-43 278.9 15.3 137 42-180 3-143 (467)
5 PRK00102 rnc ribonuclease III; 100.0 6.1E-36 1.3E-40 246.2 14.5 141 39-181 2-151 (229)
6 TIGR02191 RNaseIII ribonucleas 100.0 5.4E-35 1.2E-39 238.9 13.3 134 45-180 1-144 (220)
7 PF14622 Ribonucleas_3_3: Ribo 100.0 3.7E-35 8.1E-40 223.0 7.0 121 55-178 1-128 (128)
8 smart00535 RIBOc Ribonuclease 100.0 1.4E-31 3E-36 201.8 12.4 121 58-180 2-128 (129)
9 cd00593 RIBOc RIBOc. Ribonucle 100.0 1.4E-30 3.1E-35 196.5 12.5 123 58-182 2-132 (133)
10 KOG1817 Ribonuclease [RNA proc 100.0 3.2E-29 6.9E-34 219.4 9.6 145 36-182 269-421 (533)
11 PF00636 Ribonuclease_3: Ribon 99.9 6.3E-25 1.4E-29 162.4 8.0 87 74-161 1-114 (114)
12 KOG1817 Ribonuclease [RNA proc 99.7 2.5E-17 5.4E-22 145.0 9.0 134 38-173 39-234 (533)
13 KOG0701 dsRNA-specific nucleas 99.6 9.1E-15 2E-19 145.4 9.5 139 40-180 979-1185(1606)
14 KOG3769 Ribonuclease III domai 99.3 2.3E-11 5E-16 103.2 12.3 133 39-174 62-218 (333)
15 KOG0701 dsRNA-specific nucleas 99.3 1E-12 2.2E-17 131.1 2.4 121 41-162 1370-1519(1606)
16 COG1939 Ribonuclease III famil 98.3 1.2E-05 2.6E-10 60.9 9.7 98 74-176 16-129 (132)
17 PF11469 Ribonucleas_3_2: Ribo 90.7 3 6.4E-05 30.8 8.3 86 75-176 2-90 (120)
18 PF01418 HTH_6: Helix-turn-hel 48.4 11 0.00024 25.5 1.4 41 88-131 21-64 (77)
19 PRK02287 hypothetical protein; 47.5 23 0.0005 28.3 3.2 28 145-173 106-133 (171)
20 COG2042 Uncharacterized conser 41.0 32 0.00069 27.6 3.1 28 145-173 114-141 (179)
21 PF04034 DUF367: Domain of unk 40.3 32 0.00069 26.2 2.9 27 145-172 65-91 (127)
22 PF07125 DUF1378: Protein of u 35.3 73 0.0016 20.8 3.5 31 148-178 10-40 (59)
23 PF08383 Maf_N: Maf N-terminal 34.9 17 0.00038 21.4 0.6 11 145-155 25-35 (35)
24 PF13176 TPR_7: Tetratricopept 34.0 65 0.0014 18.1 3.0 22 152-173 4-25 (36)
25 PF13374 TPR_10: Tetratricopep 32.8 73 0.0016 17.6 3.1 25 151-175 6-30 (42)
26 PF13936 HTH_38: Helix-turn-he 31.0 46 0.00099 20.0 2.1 33 96-129 2-34 (44)
27 PF03672 UPF0154: Uncharacteri 27.8 1.9E+02 0.0042 19.3 5.2 37 76-112 5-45 (64)
28 TIGR02193 heptsyl_trn_I lipopo 27.8 44 0.00095 28.2 2.1 26 75-100 6-31 (319)
29 PRK10964 ADP-heptose:LPS hepto 27.7 42 0.00091 28.4 2.0 26 75-100 7-32 (322)
30 PF07172 GRP: Glycine rich pro 26.3 26 0.00057 25.2 0.4 21 1-21 1-21 (95)
31 PRK01844 hypothetical protein; 24.5 2.4E+02 0.0052 19.3 5.2 37 76-112 12-52 (72)
32 PF13428 TPR_14: Tetratricopep 24.4 1.2E+02 0.0027 17.6 3.2 24 152-175 6-29 (44)
33 TIGR02195 heptsyl_trn_II lipop 23.8 66 0.0014 27.3 2.5 26 75-100 6-31 (334)
34 COG0859 RfaF ADP-heptose:LPS h 23.5 59 0.0013 28.0 2.1 26 75-100 8-33 (334)
35 PF07719 TPR_2: Tetratricopept 23.5 1.3E+02 0.0028 15.8 3.1 24 152-175 6-29 (34)
36 PF00273 Serum_albumin: Serum 23.0 1.9E+02 0.0042 22.7 4.9 39 74-112 6-44 (178)
37 PF07721 TPR_4: Tetratricopept 22.8 1.2E+02 0.0025 15.8 2.5 21 151-171 5-25 (26)
38 COG2361 Uncharacterized conser 22.0 1.3E+02 0.0028 22.6 3.4 36 75-112 45-80 (117)
39 KOG3769 Ribonuclease III domai 21.7 1.3E+02 0.0029 26.4 3.9 31 147-178 188-218 (333)
40 smart00103 ALBUMIN serum album 21.2 1.9E+02 0.0041 23.0 4.5 38 74-111 14-51 (187)
41 PRK00523 hypothetical protein; 21.0 2.9E+02 0.0062 19.0 5.2 37 76-112 13-53 (72)
42 PRK15482 transcriptional regul 21.0 72 0.0016 26.7 2.1 43 87-130 20-63 (285)
43 PF02796 HTH_7: Helix-turn-hel 20.6 1.2E+02 0.0026 18.1 2.5 32 97-129 4-35 (45)
44 PF10273 WGG: Pre-rRNA-process 20.4 2.1E+02 0.0045 19.7 4.0 61 45-111 2-62 (82)
45 KOG2783 Phenylalanyl-tRNA synt 20.4 42 0.0009 30.4 0.6 28 63-90 257-287 (436)
46 PRK10916 ADP-heptose:LPS hepto 20.4 65 0.0014 27.7 1.8 26 75-100 7-32 (348)
No 1
>COG0571 Rnc dsRNA-specific ribonuclease [Transcription]
Probab=100.00 E-value=9.4e-40 Score=270.92 Aligned_cols=142 Identities=30% Similarity=0.458 Sum_probs=134.2
Q ss_pred hHHHHHHHHHHhCCCCCCHHHHHHHHcCCCCCCC-----cchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhc
Q 029991 38 FATALETLQKQIGYTFKSIGLLRRAMTHSSFSEE-----NNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETS 112 (184)
Q Consensus 38 ~~~~l~~le~~lgy~F~~~~LL~~AlTh~S~~~~-----~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lv 112 (184)
..+.+..+++.+||+|+|++||.+||||+||.++ ||||||||||+||+++|+++||++||+.++|+||.+|+.+|
T Consensus 4 ~~~~~~~l~~~lg~~f~~~~lL~~AltH~S~~~e~~~~~~nERLEFLGDavL~l~vae~Lf~~yP~~~EG~Ls~~ra~lV 83 (235)
T COG0571 4 MIKKLEALEKKLGYTFKDKELLEQALTHRSYANEHKAVENNERLEFLGDAVLGLVVAEYLFKKYPNLPEGELSKLRAALV 83 (235)
T ss_pred chHHHHHHHHHhCCCcCCHHHHHHHhcCcchhccccCCcchHHHHhhHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Confidence 3456889999999999999999999999999875 69999999999999999999999999999999999999999
Q ss_pred ccchhHHHHHHhhCccchhhcCCCCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhccc
Q 029991 113 NVEISCAVDGMHLGLQKVVRVSPKTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKA 181 (184)
Q Consensus 113 s~n~~La~ia~~lgL~~~i~~~~~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~~ 181 (184)
| +.+|+.+|+.+||++++++++++. +..++++||+|||+|||||+|+| ++.+++|+.++|.+.+..+
T Consensus 84 ~-~~~La~ia~~l~l~~~l~lg~ge~~~gg~~~~silaD~~EAligAiylD~g-~~~~~~~i~~l~~~~~~~~ 154 (235)
T COG0571 84 S-EESLAEIARELGLGDYLRLGKGEEKSGGRRRESILADAFEALIGAIYLDSG-LEAARKFILKLFLPRLEEI 154 (235)
T ss_pred H-HHHHHHHHHHhCccchhhccCChhhcCCCCchhHHHHHHHHHHHHHHHhCC-hHHHHHHHHHHHHHHHhhc
Confidence 9 999999999999999999999864 56789999999999999999999 9999999999999998754
No 2
>PRK12371 ribonuclease III; Reviewed
Probab=100.00 E-value=6.9e-39 Score=266.36 Aligned_cols=144 Identities=25% Similarity=0.308 Sum_probs=132.2
Q ss_pred CCchHHHHHHHHHHhCCCCCCHHHHHHHHcCCCCCC---CcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhh
Q 029991 35 SSPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSE---ENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSET 111 (184)
Q Consensus 35 ~~~~~~~l~~le~~lgy~F~~~~LL~~AlTh~S~~~---~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~l 111 (184)
..+.+..+..+++++||+|+|++||.+||||+|+.. .||||||||||+||+++|+++||.+||+.++|+|+.+|+.+
T Consensus 5 ~~~~~~~~~~le~~lgy~F~~~~Ll~~AlTH~S~~~~~~~~~eRLEFLGDavL~l~vs~~Lf~~~p~~~eG~Lt~~rs~l 84 (235)
T PRK12371 5 MVLAAATASILEERTGHRFANKERLERALTHSSARASKQGNYERLEFLGDRVLGLCVAEMLFEAFPDASEGELSVRLNQL 84 (235)
T ss_pred CCCCHHHHHHHHHHHCCCCCCHHHHHHHHcCcCcccCCccchHhHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 345567789999999999999999999999999875 38999999999999999999999999999999999999999
Q ss_pred cccchhHHHHHHhhCccchhhcCCCCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhcc
Q 029991 112 SNVEISCAVDGMHLGLQKVVRVSPKTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGK 180 (184)
Q Consensus 112 vs~n~~La~ia~~lgL~~~i~~~~~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~ 180 (184)
|| |++|+.+|.++||+++|+.+++.. +..++++||+|||+|||||+|+| ++.|++|+.++|.+.+..
T Consensus 85 V~-n~~La~ia~~lgL~~~i~~~~~~~~~~~~~~~~ilad~~EAliGAiylD~G-~~~a~~~i~~~~~~~~~~ 155 (235)
T PRK12371 85 VN-AETCAAIADEIGLHDLIRTGSDVKKLTGKRLLNVRADVVEALIAAIYLDGG-LEAARPFIQRYWQKRALE 155 (235)
T ss_pred hC-hHHHHHHHHHCCcHHHhccCcchhhcCCcccchHHHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHHHHhc
Confidence 99 999999999999999999887643 33468999999999999999999 899999999999987754
No 3
>PRK12372 ribonuclease III; Reviewed
Probab=100.00 E-value=2.6e-38 Score=277.53 Aligned_cols=138 Identities=27% Similarity=0.383 Sum_probs=130.0
Q ss_pred HHHHHHHhCCCCCCHHHHHHHHcCCCCCCCcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhHHHH
Q 029991 42 LETLQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVD 121 (184)
Q Consensus 42 l~~le~~lgy~F~~~~LL~~AlTh~S~~~~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~La~i 121 (184)
++.||++|||+|+|++||.+||||+||..++|||||||||+||+++|+++||.+||++++|.||.+|+.+|| |.+|+.+
T Consensus 3 l~~LEk~LGY~Fkn~~LL~eALTH~Sy~~~~NERLEFLGDAVL~liVse~Lf~~fP~~~EG~LT~lRS~LVs-n~tLA~I 81 (413)
T PRK12372 3 LSQLESRLRYEFRNAELLRQALTHRSHSATHNERLEFLGDSVLNCAVAALLFQRFGKLDEGDLSRVRANLVK-QQSLYEI 81 (413)
T ss_pred HHHHHHHhCCCcCCHHHHHHHHhccccccccHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhh-hHHHHHH
Confidence 457999999999999999999999999988999999999999999999999999999999999999999999 9999999
Q ss_pred HHhhCccchhhcCCCCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhccc
Q 029991 122 GMHLGLQKVVRVSPKTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKA 181 (184)
Q Consensus 122 a~~lgL~~~i~~~~~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~~ 181 (184)
|+++||.++++++.++. ...+++++|+|||+|||||+|+| ++.++.||.++|.+.+.+.
T Consensus 82 A~~LgL~~~Lrlg~ge~~sgg~~~~kILADvfEALIGAIYLDsG-~e~a~~fV~~ll~p~l~~~ 144 (413)
T PRK12372 82 AQALNISEGLRLGEGELRSGGFRRPSILADAFEAIIGAVFLDGG-FEAAQGVIKRLYVPILDHI 144 (413)
T ss_pred HHHcCchHhhhcCcchhhcCCCCCccHHHHHHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHhhc
Confidence 99999999999987653 45689999999999999999999 8999999999999887653
No 4
>PRK14718 ribonuclease III; Provisional
Probab=100.00 E-value=3e-38 Score=278.90 Aligned_cols=137 Identities=27% Similarity=0.386 Sum_probs=129.7
Q ss_pred HHHHHHHhCCCCCCHHHHHHHHcCCCCCCCcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhHHHH
Q 029991 42 LETLQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVD 121 (184)
Q Consensus 42 l~~le~~lgy~F~~~~LL~~AlTh~S~~~~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~La~i 121 (184)
++.|+++|||+|+|+.||.+||||+||..++|||||||||+||+++|+++||.+||++++|.||.+|+.+|| |.+|+.+
T Consensus 3 l~~LEkrLGY~Fkn~~LL~eALTH~Sys~e~NERLEFLGDAVL~liVse~Lf~~fPdl~EGeLT~LRS~LVS-netLA~I 81 (467)
T PRK14718 3 LSQLESRLRYEFRNAELLRQALTHRSHSATHNERLEFLGDSVLNCAVAALLFQRFGKLDEGDLSRVRANLVK-QQSLYEI 81 (467)
T ss_pred HHHHHHHhCCCcCCHHHHHHHHhccCcCcccHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHhh-hHHHHHH
Confidence 567999999999999999999999999989999999999999999999999999999999999999999999 9999999
Q ss_pred HHhhCccchhhcCCCCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhcc
Q 029991 122 GMHLGLQKVVRVSPKTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGK 180 (184)
Q Consensus 122 a~~lgL~~~i~~~~~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~ 180 (184)
++++||+++|++++++. ...+++++|+|||||||||+|+| ++.+++||.++|.+.+.+
T Consensus 82 Ar~LGL~d~Lrlg~gE~~sgG~~~~sILADvFEALIGAIYLDsG-~e~a~~fI~~ll~p~i~~ 143 (467)
T PRK14718 82 AQALNISDGLRLGEGELRSGGFRRPSILADAFEAIIGAVFLDGG-FEAAQGVIKRLYVPILDH 143 (467)
T ss_pred HHHcCchHHHhhCCcccccCCCCChhHHHHHHHHHHHHHHHccC-HHHHHHHHHHHHHHHHhh
Confidence 99999999999987653 35789999999999999999999 899999999999988765
No 5
>PRK00102 rnc ribonuclease III; Reviewed
Probab=100.00 E-value=6.1e-36 Score=246.23 Aligned_cols=141 Identities=32% Similarity=0.467 Sum_probs=130.1
Q ss_pred HHHHHHHHHHhCCCCCCHHHHHHHHcCCCCCC-----CcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcc
Q 029991 39 ATALETLQKQIGYTFKSIGLLRRAMTHSSFSE-----ENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSN 113 (184)
Q Consensus 39 ~~~l~~le~~lgy~F~~~~LL~~AlTh~S~~~-----~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs 113 (184)
..++++|+++|||+|+|+.|+.+||||||+.. .+|||||||||+||++++++++|.+||+.++|.++.+|+.++|
T Consensus 2 ~~~~~~l~~~lg~~f~~~~ll~~Alth~S~~~~~~~~~~nerLefLGDavl~~~v~~~l~~~~p~~~~g~l~~~~~~lvs 81 (229)
T PRK00102 2 KKDLEELQKKLGYTFKDPELLIQALTHRSYANENKGLKHNERLEFLGDAVLELVVSEYLFKRFPDLDEGDLSKLRAALVR 81 (229)
T ss_pred chhHHHHHHHhCCCCCCHHHHHHHhCccchhccCCCcccchhHHHHHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhC
Confidence 35688999999999999999999999999953 3899999999999999999999999999999999999999999
Q ss_pred cchhHHHHHHhhCccchhhcCCCCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhccc
Q 029991 114 VEISCAVDGMHLGLQKVVRVSPKTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKA 181 (184)
Q Consensus 114 ~n~~La~ia~~lgL~~~i~~~~~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~~ 181 (184)
|++|+.+|.++||++++++++++. ...++++||+|||+|||||+|+| ++.+++|+.+++.|.+...
T Consensus 82 -n~~la~~a~~lgl~~~i~~~~~~~~~~~~~~~k~~ad~~EA~iGAiyld~g-~~~~~~~i~~~~~~~l~~~ 151 (229)
T PRK00102 82 -EESLAEIARELGLGEYLLLGKGEEKSGGRRRPSILADAFEALIGAIYLDQG-LEAARKFILRLFEPRIEEI 151 (229)
T ss_pred -HHHHHHHHHHCCcHHHHccCcHHHHcCCCCCccHHHHHHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHHhh
Confidence 999999999999999999887532 35679999999999999999999 8999999999999887653
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=5.4e-35 Score=238.91 Aligned_cols=134 Identities=31% Similarity=0.460 Sum_probs=124.9
Q ss_pred HHHHhCCCCCCHHHHHHHHcCCCCCCC------cchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhH
Q 029991 45 LQKQIGYTFKSIGLLRRAMTHSSFSEE------NNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISC 118 (184)
Q Consensus 45 le~~lgy~F~~~~LL~~AlTh~S~~~~------~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~L 118 (184)
||++|||+|+|++|+.+||||||+... +|||||||||+||++++++++|.+||+.++|.++.+|+.++| |++|
T Consensus 1 ~e~~lgy~F~~~~ll~~Alth~S~~~~~~~~~~~nerLe~lGd~vl~~~~~~~l~~~~p~~~~~~l~~~~~~lvs-n~~l 79 (220)
T TIGR02191 1 LEKRLGYKFKNKELLEQALTHSSYANEHHKGVKNNERLEFLGDAVLGLVVAEYLFKNFPDLSEGELSKLRAALVS-EESL 79 (220)
T ss_pred ChHHhCCCcCCHHHHHHHhcCcccccccccCccchHHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHhC-HHHH
Confidence 589999999999999999999998642 899999999999999999999999999999999999999999 9999
Q ss_pred HHHHHhhCccchhhcCCCCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhcc
Q 029991 119 AVDGMHLGLQKVVRVSPKTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGK 180 (184)
Q Consensus 119 a~ia~~lgL~~~i~~~~~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~ 180 (184)
+.+|.++||+++++++++.. ...++++||+|||+|||||+|+| ++.|++|+.+++.|.+..
T Consensus 80 a~~a~~~gl~~~i~~~~~~~~~~~~~~~k~~ad~~eAliGAiyld~g-~~~~~~~i~~~~~~~~~~ 144 (220)
T TIGR02191 80 AEVARELGLGKFLLLGKGEEKSGGRRRESILADAFEALIGAIYLDSG-LEAARKFILKLLIPRIDA 144 (220)
T ss_pred HHHHHHCCcHHHhccCchHhhcCCcccchHHHHHHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHHh
Confidence 99999999999999886532 34689999999999999999999 999999999999998764
No 7
>PF14622 Ribonucleas_3_3: Ribonuclease-III-like; PDB: 1O0W_A 2A11_A 3N3W_B.
Probab=100.00 E-value=3.7e-35 Score=222.97 Aligned_cols=121 Identities=29% Similarity=0.388 Sum_probs=101.6
Q ss_pred CHHHHHHHHcCCCCCC---CcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhHHHHHHhhCccchh
Q 029991 55 SIGLLRRAMTHSSFSE---ENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVV 131 (184)
Q Consensus 55 ~~~LL~~AlTh~S~~~---~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~~i 131 (184)
|++|+.+||||+||.+ ++|||||||||+||++++++|+|+++|. ++|.+++.|+.+|| +++|+.+|+++||++++
T Consensus 1 ~~~Ll~~alTH~S~~~~~~~~nerLefLGd~vL~~~vs~~l~~~~~~-~~g~l~~~~~~lv~-~~~La~~a~~lgL~~~i 78 (128)
T PF14622_consen 1 DDELLLQALTHKSYAHERKPNNERLEFLGDAVLGLVVSEYLFQRPPA-DEGELTRLRSNLVS-NETLAEIAKQLGLDKLI 78 (128)
T ss_dssp SHHHHHHHTB-HHHHHHTCB-SHHHHHHHHHHHHHHHHHHHHHHTTT-SCHHHHHHHHHHHS-HHHHHHHHHHTTCGGC-
T ss_pred CHHHHHHHhcCccccccccCccHHHHHHHHHHHHHHHHHHHHhCcCc-cchHHHHHHHHHhC-hHHHHHHHHHCCHHHHH
Confidence 6799999999999963 4999999999999999999999999655 88999999999999 99999999999999999
Q ss_pred hcCCCC----CCCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhh
Q 029991 132 RVSPKT----NSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEV 178 (184)
Q Consensus 132 ~~~~~~----~~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l 178 (184)
+++++. .+..++++||+|||+|||||+|+| +++|++|+.+++.|.|
T Consensus 79 ~~~~~~~~~~~~~~~~vlad~feAliGAiyld~G-~~~a~~~i~~~i~~~l 128 (128)
T PF14622_consen 79 RWGPGEEKSGGSGSDKVLADVFEALIGAIYLDSG-FEAARKFIQKLILPRL 128 (128)
T ss_dssp B--HHHHHTTGGG-HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH----
T ss_pred HhCccHhhcCCCCCccHHHhHHHHHHHHHHHHcC-HHHHHHHHHHHhcccC
Confidence 997632 256789999999999999999999 8999999999998865
No 8
>smart00535 RIBOc Ribonuclease III family.
Probab=99.97 E-value=1.4e-31 Score=201.75 Aligned_cols=121 Identities=31% Similarity=0.437 Sum_probs=113.1
Q ss_pred HHHHHHcCCCCCCC--cchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhHHHHHHhhCccchhhcCC
Q 029991 58 LLRRAMTHSSFSEE--NNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSP 135 (184)
Q Consensus 58 LL~~AlTh~S~~~~--~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~~i~~~~ 135 (184)
++.+||||||+... +|||||||||+||+++++++++.++|+.+++.++.+++.++| |++|+.+|.++|+++++++++
T Consensus 2 ll~~alth~s~~~~~~~~e~Le~lGd~vl~~~v~~~l~~~~p~~~~~~l~~~~~~lvs-n~~la~~a~~~~l~~~i~~~~ 80 (129)
T smart00535 2 LLLRALTHASYSNEHEHNERLEFLGDAVLELVVTEYLYKKYPDLSEGDLSRLRSALVS-NETLARLAKKLGLGEFIRLGR 80 (129)
T ss_pred HHHHHhhcccccccCcchHHHHHHHHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHC-HHHHHHHHHHCCcHHHHccCc
Confidence 78999999999775 899999999999999999999999999999999999999999 999999999999999999886
Q ss_pred CCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhcc
Q 029991 136 KTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGK 180 (184)
Q Consensus 136 ~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~ 180 (184)
... +..++++||+|||+|||||+|+| ++.|++|+.+++.|.++.
T Consensus 81 ~~~~~~~~~~~k~~a~~~eAliGAi~ld~g-~~~~~~~i~~~~~~~~~~ 128 (129)
T smart00535 81 GEAISGGRDKPSILADVFEALIGAIYLDSG-LEAAREFIRDLLGPRLEE 128 (129)
T ss_pred hHhhcCCcccchHHHHHHHHHHHHHHHhCC-HHHHHHHHHHHHHHHhcc
Confidence 542 35789999999999999999999 899999999999998764
No 9
>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=99.97 E-value=1.4e-30 Score=196.49 Aligned_cols=123 Identities=31% Similarity=0.402 Sum_probs=114.3
Q ss_pred HHHHHHcCCCCCC----CcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhHHHHHHhhCccchhhc
Q 029991 58 LLRRAMTHSSFSE----ENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRV 133 (184)
Q Consensus 58 LL~~AlTh~S~~~----~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~~i~~ 133 (184)
++.+||||+|+.. .+|||||||||+||+++++++++.++|+.++|.++.+++.++| |++|+.++.++|++++++.
T Consensus 2 ll~~alth~s~~~~~~~~~~e~Le~lGdavl~~~~~~~l~~~~~~~~~~~l~~~~~~~v~-n~~l~~~a~~~gl~~~i~~ 80 (133)
T cd00593 2 LLLEALTHPSYANEHGRFNNERLEFLGDAVLELVVTEYLFKKFPDLSEGDLTRLRSALVS-NETLARLARELGLGKYLRL 80 (133)
T ss_pred HHHHhhcCccccccCCCcchHHHHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHC-HHHHHHHHHHcCcHHHhcc
Confidence 7899999999975 4899999999999999999999999999999999999999999 9999999999999999998
Q ss_pred CCCCC----CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhcccC
Q 029991 134 SPKTN----STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKAL 182 (184)
Q Consensus 134 ~~~~~----~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~~~ 182 (184)
++... ...++++||+|||+|||||+|+| .+.|.+|+.+++.+.+....
T Consensus 81 ~~~~~~~~~~~~~k~~ad~~eAliGAiyld~g-~~~~~~~i~~~~~~~~~~~~ 132 (133)
T cd00593 81 GKGEEKSGGRLRPKILADVFEALIGAIYLDGG-FEAARKFLLRLLGPLIEEIS 132 (133)
T ss_pred CchHhhcCCcccccHHHHHHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHhhhc
Confidence 87543 46899999999999999999999 79999999999999887543
No 10
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=99.96 E-value=3.2e-29 Score=219.36 Aligned_cols=145 Identities=21% Similarity=0.210 Sum_probs=132.5
Q ss_pred CchHHHHHHHHHHhCCCCCCHHHHHHHHcCCCCCCC-----cchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHh
Q 029991 36 SPFATALETLQKQIGYTFKSIGLLRRAMTHSSFSEE-----NNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSE 110 (184)
Q Consensus 36 ~~~~~~l~~le~~lgy~F~~~~LL~~AlTh~S~~~~-----~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~ 110 (184)
.|....+-++|+++|..|.+..++.+|+|.+|.... +|||||||||+||.+++++++|.+||+.++|+||.+|+.
T Consensus 269 ~Ppllp~~~~e~~~g~vF~Hirlla~aft~rs~~~n~Lt~gHNqRLEFLGDSilqlv~T~ily~kFPdhhEGhLSlLRss 348 (533)
T KOG1817|consen 269 YPPLLPLTQFEEIIGIVFIHIRLLARAFTLRSIPFNHLTLGHNQRLEFLGDSILQLVMTEILYRKFPDHHEGHLSLLRSS 348 (533)
T ss_pred CCCCCchhhHHHHHHHHHHHHHHHHHHhhccCCCchhhhhhhhHHHHHhHHHHHHHHHHHHHHHhCCccccchHHHHHHH
Confidence 344455788999999999999999999999998732 899999999999999999999999999999999999999
Q ss_pred hcccchhHHHHHHhhCccchhhcCCCC---CCCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhcccC
Q 029991 111 TSNVEISCAVDGMHLGLQKVVRVSPKT---NSTVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGKAL 182 (184)
Q Consensus 111 lvs~n~~La~ia~~lgL~~~i~~~~~~---~~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~~~ 182 (184)
+|| |++-+.+|..+|+++++..+... .....|..||+|||+|||+|+|.| ++.|++|++.++.|+|..++
T Consensus 349 LVs-Netqakva~~lgf~e~li~n~~~k~~~~lk~K~~ADlfEAfiGaLyvD~~-le~~~qf~~~l~~Prl~~fi 421 (533)
T KOG1817|consen 349 LVS-NETQAKVADDLGFHEYLITNFDLKDFQNLKLKDYADLFEAFIGALYVDKG-LEYCRQFLRVLFFPRLKEFI 421 (533)
T ss_pred Hhc-cHHHHHHHHHhCCchhhhhCcchhhhhhhhHHHHHHHHHHHHHHHhhcCC-cHHHHHHHHHHhhHHHHHHH
Confidence 999 99999999999999999987643 256789999999999999999999 99999999999999997654
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=6.3e-25 Score=162.40 Aligned_cols=87 Identities=30% Similarity=0.387 Sum_probs=78.6
Q ss_pred hHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhHHHHHHhhCccchhhcCCC-----------------
Q 029991 74 RALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPK----------------- 136 (184)
Q Consensus 74 erLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~~i~~~~~----------------- 136 (184)
||||||||+||++++++++|.+||+.+++.|+.+|+.+|| |++|+.+|.++||+++++..+.
T Consensus 1 ErLefLGDavL~~~v~~~l~~~~p~~~~~~L~~~r~~~vs-n~~L~~~a~~~gl~~~l~~~~~~~~~~~~~~~~~~~~~~ 79 (114)
T PF00636_consen 1 ERLEFLGDAVLKLLVSEYLFEKYPNLNEGQLTKLRSALVS-NKFLARLAVKLGLHKYLRQEPFEIQRWIKPFNEDLNNGD 79 (114)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTTSSHHHHHHHHHHHHS-HHHHHHHHHHTTHGCTCBHHHHHHHHHHHCHHCC-----
T ss_pred CcHhHhHHHHHHHHHHHHHHHHCCCCChhHHHHHHHHHhC-HHHHHHHHHHhCchHhhhccchhHHHHHHHHHHHHHhcc
Confidence 7999999999999999999999999999999999999999 9999999999999999984210
Q ss_pred ----------CCCCCcchHHhHHHHHHHHHhHhCC
Q 029991 137 ----------TNSTVPAVVCGAFRAIFGAIAVDTG 161 (184)
Q Consensus 137 ----------~~~~~~kvlad~fEAliGAIylD~G 161 (184)
.....+|++||+|||+|||+|+|+|
T Consensus 80 ~~~~~~~~~~~~~~~~k~laD~~EAliGAiyld~G 114 (114)
T PF00636_consen 80 SESSISYDPKNQVLPPKVLADVFEALIGAIYLDSG 114 (114)
T ss_dssp --C-SSS--SSSSHHHHHHHHHHHHHHHHHHHHTT
T ss_pred cccccCCCccccCCccHHHHHHHHHHHHHHHHhcC
Confidence 0012579999999999999999998
No 12
>KOG1817 consensus Ribonuclease [RNA processing and modification]
Probab=99.71 E-value=2.5e-17 Score=144.98 Aligned_cols=134 Identities=24% Similarity=0.291 Sum_probs=117.5
Q ss_pred hHHHHHHHHHHhCCCCCCHHHHHHHHcCCCCCC-----------------------------------------------
Q 029991 38 FATALETLQKQIGYTFKSIGLLRRAMTHSSFSE----------------------------------------------- 70 (184)
Q Consensus 38 ~~~~l~~le~~lgy~F~~~~LL~~AlTh~S~~~----------------------------------------------- 70 (184)
....+..+++.|||+|+|.-+++-|+||||+..
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 456799999999999999999999999999731
Q ss_pred -----------CcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhHHHHHHhhCccchhhcCCCCC-
Q 029991 71 -----------ENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTN- 138 (184)
Q Consensus 71 -----------~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~~i~~~~~~~- 138 (184)
.+||||||+||++.+++.+.++|..+|..++|.|...|+.+|. |..++..++++.++.++....+.+
T Consensus 119 l~~~~~~~s~i~hnErle~lgdavve~~ss~hl~~~~~r~~eggLatyrta~vq-nr~la~lakklrkd~fl~yahg~dl 197 (533)
T KOG1817|consen 119 LGVIQPTHSVIKHNERLEFLGDAVVELLSSNHLYFMFPRLEEGGLATYRTAIVQ-NRHLAKLAKKLRKDEFLLYAHGYDL 197 (533)
T ss_pred ccCCCCchhHhHHHHHHHHHhhccHHHHHHHHHHHccccccccchhHHHHHHHH-hHHHHHHHHHHHHHHHHHHhcCcch
Confidence 0599999999999999999999999999999999999999999 999999999999999998765432
Q ss_pred ---CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHh
Q 029991 139 ---STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRV 173 (184)
Q Consensus 139 ---~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~ 173 (184)
......++++|||++||+|.|.| ...+...+.+.
T Consensus 198 ~~~~E~Kha~an~feavi~a~~l~g~-~~~~e~lfs~~ 234 (533)
T KOG1817|consen 198 CFETELKHAMANCFEAVIGAKYLDGG-LVVAEKLFSRA 234 (533)
T ss_pred hhHHHHHHHHHHHHHHHhHHHHHhcc-hHHHHHHHHHH
Confidence 34556799999999999999999 66666665543
No 13
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=99.56 E-value=9.1e-15 Score=145.40 Aligned_cols=139 Identities=23% Similarity=0.244 Sum_probs=115.4
Q ss_pred HHHHHHHHHhC--CCCCCH--------HHHHHHHcCCCCCCC-cchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHH
Q 029991 40 TALETLQKQIG--YTFKSI--------GLLRRAMTHSSFSEE-NNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRV 108 (184)
Q Consensus 40 ~~l~~le~~lg--y~F~~~--------~LL~~AlTh~S~~~~-~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r 108 (184)
-..+.+++.++ |.|.+. .++.+|||++++... ++||||+|||++|++.++.+++.+||+..+|+++.+|
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 45778888988 999988 999999999997643 8999999999999999999999999999999999999
Q ss_pred HhhcccchhHHHHHHhhCccchhhcC---CC-------------------------------CC----------------
Q 029991 109 SETSNVEISCAVDGMHLGLQKVVRVS---PK-------------------------------TN---------------- 138 (184)
Q Consensus 109 ~~lvs~n~~La~ia~~lgL~~~i~~~---~~-------------------------------~~---------------- 138 (184)
+..++ ++.++.++...|+..+++.+ +. +.
T Consensus 1059 ~~~~~-~~nl~~la~~~gl~~~~~~~~fep~~~~~p~~~~~~~~~~k~~~~~~~~~~~~e~~e~~~df~e~~~~~~~~~~ 1137 (1606)
T KOG0701|consen 1059 DVNVS-NDNLARLAVKKGLYSYLRHEGFEPSRWWVPGQLDVNNVDCKDLSGDQNYILYKELDEKIKDFQEAMEKEDGDSR 1137 (1606)
T ss_pred Hhccc-ccchhhhhhcccchhhcccccccccccccccccccccccccccccccccccccchhhhhhHHHHhhhccCCccc
Confidence 99999 99999999999999998865 00 00
Q ss_pred -------CCCcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhhhhcc
Q 029991 139 -------STVPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEVGK 180 (184)
Q Consensus 139 -------~~~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~~l~~ 180 (184)
...+|..+|++||++||+|+|+| +..+...+-..+....+.
T Consensus 1138 ~~~~~~~~~~~ks~adl~eaLlga~~vD~~-~~~~~~~~~~~~lk~~~~ 1185 (1606)
T KOG0701|consen 1138 SKGGDHDWLAPKSPADLLEALLGAIYVDGG-LLETFETIGDSFLKWSIT 1185 (1606)
T ss_pred ccccccceecCCCHHHHHHHHHHhhhhhcc-chhhhhHHHHHHHhhhhh
Confidence 13578999999999999999999 455553333333224443
No 14
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=99.32 E-value=2.3e-11 Score=103.23 Aligned_cols=133 Identities=20% Similarity=0.197 Sum_probs=108.6
Q ss_pred HHHHHHHHHHhC-CCCCCHHHHHHHHcCCCCCCC--------------------cchHHHHhhHHHHHHHHHHHHHhhCC
Q 029991 39 ATALETLQKQIG-YTFKSIGLLRRAMTHSSFSEE--------------------NNRALGILGGYVIDTSVSLRLLNKDI 97 (184)
Q Consensus 39 ~~~l~~le~~lg-y~F~~~~LL~~AlTh~S~~~~--------------------~nerLefLGDaVL~l~vs~~l~~~~p 97 (184)
...+.+|.++|| ..| ..+.+.+|||.+|+... +|+-|--.|..++++.|..|+-.+||
T Consensus 62 ~sel~afg~RL~~~~i-s~~~l~ka~t~~s~~~~~kv~~~~lg~~~~~~~~~~~~N~~L~~~Gk~~~~~~v~~~l~~kyP 140 (333)
T KOG3769|consen 62 NSELSAFGKRLQSEEI-SLSYLLKALTNLSFSYPEKVLRQQLGAETVAQVNPQYSNEELVEIGKQFLSFYVTEYLKCKYP 140 (333)
T ss_pred hHHHHHHHHHhccccc-cHHHHHHHHhCccccchHHHhhhhhcchhhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 467999999999 667 56899999999998541 79999999999999999999999999
Q ss_pred CCChhHHHHHHHhhcccchhHHHHHHhhCccchhhcCCCCCC--C-CcchHHhHHHHHHHHHhHhCCChHHHHHHHHHhh
Q 029991 98 DISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTNS--T-VPAVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVH 174 (184)
Q Consensus 98 ~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~~i~~~~~~~~--~-~~kvlad~fEAliGAIylD~G~~~~a~~~v~~~~ 174 (184)
++++..+..+-+.+++ .+.|+.+|..+|++++++...-... . ..+...+++-|++|+++...| +..+++||...+
T Consensus 141 rlP~E~l~ai~n~ll~-ee~LahiAt~lGie~l~~seeFp~~~eisq~ess~~aI~Al~~~~~~ek~-~~~v~dFI~~qi 218 (333)
T KOG3769|consen 141 RLPEEGLHAIVNGLLG-EEVLAHIATHLGIEELGLSEEFPKVGEISQDESSRRAIGALLGSVGLEKG-FNFVRDFINDQI 218 (333)
T ss_pred CCcHHHHHHHHHHhhh-HHHHHHHHHHhhHHHHhhcccCCCchhhhHHHHHHHHHHHHHhcccHHHH-HHHHHHHHHHHh
Confidence 9999999999999999 9999999999999999986532211 1 225566677777777777777 677777765543
No 15
>KOG0701 consensus dsRNA-specific nuclease Dicer and related ribonucleases [RNA processing and modification]
Probab=99.29 E-value=1e-12 Score=131.11 Aligned_cols=121 Identities=26% Similarity=0.358 Sum_probs=109.5
Q ss_pred HHHHHHHHhCCCCCCHHHHHHHHcCCCCCCC----cchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccch
Q 029991 41 ALETLQKQIGYTFKSIGLLRRAMTHSSFSEE----NNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEI 116 (184)
Q Consensus 41 ~l~~le~~lgy~F~~~~LL~~AlTh~S~~~~----~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~ 116 (184)
++..++..+||.|.+..++.+|+||-+|..+ +|+||||+||+|+++.+++++|...+..++|.++.+|++.++ |.
T Consensus 1370 ~~~~~e~~l~y~f~~~~~l~~a~th~s~~~~~~~~C~qrleflgd~vld~~it~hl~~~~~~~sp~~~td~rsa~vn-n~ 1448 (1606)
T KOG0701|consen 1370 SFGKFEEKLNYRFKLKPYLTQATTHASYIYNRITDCYQRLEFLGDAVLDYLITKHLYEDPRQHSPGVLTDLRSALVN-NT 1448 (1606)
T ss_pred HHHhhhcccchhhhhhhcccccccccccccCccchhhhhHHHhHHhhhhhhhhhcccccccccCchhhhhhhhHhhc-cc
Confidence 3677888899999999999999999999765 899999999999999999999999999999999999999999 99
Q ss_pred hHHHHHHhhCccchhhcCCCC-------------------------CCCCcchHHhHHHHHHHHHhHhCCC
Q 029991 117 SCAVDGMHLGLQKVVRVSPKT-------------------------NSTVPAVVCGAFRAIFGAIAVDTGK 162 (184)
Q Consensus 117 ~La~ia~~lgL~~~i~~~~~~-------------------------~~~~~kvlad~fEAliGAIylD~G~ 162 (184)
-.+.++.+.++++++...... ...-+|.++|++|++.||||.|+|.
T Consensus 1449 ~~a~~av~~~~~K~~~~~~~~l~~~I~~~v~~~~q~~~~~~~~~~edievpKa~gdi~esiagai~~dsg~ 1519 (1606)
T KOG0701|consen 1449 IFASLAVKADLHKFIIAASPGLIHNIDRFVSFQLQSNLDSLFGWEEDIEVPKALGDIFESIAGAIKLDSGN 1519 (1606)
T ss_pred cchhhHHhhcchhHHHhhccccccchHHHHHHHHhhccccCCCchhhcccchhhhhhhhcccceeecCccc
Confidence 999999999999998753321 1356899999999999999999995
No 16
>COG1939 Ribonuclease III family protein [Replication, recombination, and repair]
Probab=98.25 E-value=1.2e-05 Score=60.91 Aligned_cols=98 Identities=21% Similarity=0.226 Sum_probs=70.0
Q ss_pred hHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhcccchhHHHHHHhhCccchhh--------cCCCCC-CCCc--
Q 029991 74 RALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVR--------VSPKTN-STVP-- 142 (184)
Q Consensus 74 erLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~~i~--------~~~~~~-~~~~-- 142 (184)
=-|+|+||||.++.|-.|+...+.. .++.+++.-...|| -+.-+.+-..+ ..++. -+.+.. ...+
T Consensus 16 laLAy~GDAV~e~yVR~~~l~~g~~-k~~~lH~~a~~~Vs-Ak~QA~il~~~--~~~Lte~E~~I~KRgRNaks~T~~kn 91 (132)
T COG1939 16 LALAYLGDAVYELYVREYLLLKGKT-KPNDLHKRATAYVS-AKAQALILKAL--LEFLTEEEEEIVKRGRNAKSGTKPKN 91 (132)
T ss_pred HHHHHhhhHHHHHHHHHHHHhcccC-ChHHHHHHHHHHhh-HHHHHHHHHHH--HHHhhHHHHHHHHHhcccccCCCCCC
Confidence 4699999999999999998887643 68899999888998 67766665432 12221 111111 1112
Q ss_pred -----chHHhHHHHHHHHHhHhCCChHHHHHHHHHhhhh
Q 029991 143 -----AVVCGAFRAIFGAIAVDTGKCDDAGDVFLRVHSG 176 (184)
Q Consensus 143 -----kvlad~fEAliGAIylD~G~~~~a~~~v~~~~~~ 176 (184)
--.|.-|||+||.+|+..- .|...+++...+..
T Consensus 92 ~dv~tYr~sTgfEAliGyLyL~~~-~eRL~ell~~~i~~ 129 (132)
T COG1939 92 TDVETYRMSTGFEALIGYLYLTKQ-EERLEELLNKVIEI 129 (132)
T ss_pred CChHHHHHhhhHHHHHHHHHHccc-HHHHHHHHHHHHhh
Confidence 2478999999999999988 78888888776543
No 17
>PF11469 Ribonucleas_3_2: Ribonuclease III; InterPro: IPR021568 This archaeal family of proteins has no known function. ; PDB: 1ZTD_A.
Probab=90.68 E-value=3 Score=30.85 Aligned_cols=86 Identities=16% Similarity=0.120 Sum_probs=57.4
Q ss_pred HHHHhhHHHHHHHHHHHHHh--hCCCCChhHHHHHHHhhcccchhHHHHHHhhCccchhhcCCCCCCCCcchHHhHHHHH
Q 029991 75 ALGILGGYVIDTSVSLRLLN--KDIDISPKDLNRRVSETSNVEISCAVDGMHLGLQKVVRVSPKTNSTVPAVVCGAFRAI 152 (184)
Q Consensus 75 rLefLGDaVL~l~vs~~l~~--~~p~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~~i~~~~~~~~~~~kvlad~fEAl 152 (184)
.|+-+||++++++.|--|.+ -+|. |. -|- |.+|+.--..-||.+.+. | +....--+|..||+
T Consensus 2 ~Lak~GDSLvNfl~SlALse~lG~Pt---g~-------rVP-naSLaiAl~~a~L~~~~~--P---R~dkh~kGd~aEA~ 65 (120)
T PF11469_consen 2 GLAKFGDSLVNFLFSLALSEYLGRPT---GD-------RVP-NASLAIALELAGLSHLLP--P---RTDKHGKGDIAEAL 65 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTS------------------HHHHHHHHHHTTGGGCS-------CGGCCGHHHHHHHH
T ss_pred cHHHHhHHHHHHHHHHHHHHHhCCCC---CC-------CCC-ChHHHHHHHHHhhhhhCc--c---cccccCccHHHHHH
Confidence 47889999999999877654 2342 21 244 677777777778888775 1 22234579999999
Q ss_pred HHHHhHhCCC-hHHHHHHHHHhhhh
Q 029991 153 FGAIAVDTGK-CDDAGDVFLRVHSG 176 (184)
Q Consensus 153 iGAIylD~G~-~~~a~~~v~~~~~~ 176 (184)
|.=-|+.+-- .+++-+++.+-+.+
T Consensus 66 iAyAWLeg~it~eEaveil~~nl~~ 90 (120)
T PF11469_consen 66 IAYAWLEGKITIEEAVEILKANLTE 90 (120)
T ss_dssp HHHHHHTTSS-HHHHHHHHHCT--G
T ss_pred HHHHHHhccccHHHHHHHHHhcCch
Confidence 9999999764 77777888776644
No 18
>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=48.41 E-value=11 Score=25.53 Aligned_cols=41 Identities=12% Similarity=0.023 Sum_probs=24.6
Q ss_pred HHHHHHhhCC---CCChhHHHHHHHhhcccchhHHHHHHhhCccchh
Q 029991 88 VSLRLLNKDI---DISPKDLNRRVSETSNVEISCAVDGMHLGLQKVV 131 (184)
Q Consensus 88 vs~~l~~~~p---~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~~i 131 (184)
+++|+..+.. ..+..++. +..-|| ..++.+.++++|...|-
T Consensus 21 Ia~yil~~~~~~~~~si~elA--~~~~vS-~sti~Rf~kkLG~~gf~ 64 (77)
T PF01418_consen 21 IADYILENPDEIAFMSISELA--EKAGVS-PSTIVRFCKKLGFSGFK 64 (77)
T ss_dssp HHHHHHH-HHHHCT--HHHHH--HHCTS--HHHHHHHHHHCTTTCHH
T ss_pred HHHHHHhCHHHHHHccHHHHH--HHcCCC-HHHHHHHHHHhCCCCHH
Confidence 4455554432 33333332 456788 89999999999998873
No 19
>PRK02287 hypothetical protein; Provisional
Probab=47.45 E-value=23 Score=28.32 Aligned_cols=28 Identities=11% Similarity=0.103 Sum_probs=22.7
Q ss_pred HHhHHHHHHHHHhHhCCChHHHHHHHHHh
Q 029991 145 VCGAFRAIFGAIAVDTGKCDDAGDVFLRV 173 (184)
Q Consensus 145 lad~fEAliGAIylD~G~~~~a~~~v~~~ 173 (184)
.=.++||+.+|+|+-+. -+.|.+.+..+
T Consensus 106 kLs~vEAlAaaLyI~G~-~~~A~~ll~~F 133 (171)
T PRK02287 106 KLSSVEALAAALYILGF-KEEAEKILSKF 133 (171)
T ss_pred cccHHHHHHHHHHHcCC-HHHHHHHHhhC
Confidence 34689999999999987 68888887653
No 20
>COG2042 Uncharacterized conserved protein [Function unknown]
Probab=41.01 E-value=32 Score=27.61 Aligned_cols=28 Identities=14% Similarity=0.137 Sum_probs=22.9
Q ss_pred HHhHHHHHHHHHhHhCCChHHHHHHHHHh
Q 029991 145 VCGAFRAIFGAIAVDTGKCDDAGDVFLRV 173 (184)
Q Consensus 145 lad~fEAliGAIylD~G~~~~a~~~v~~~ 173 (184)
.=++.||+++|+|+-+- .+.|.+++.++
T Consensus 114 kLss~EAlaAaLYI~G~-~deA~~lls~F 141 (179)
T COG2042 114 KLSSAEALAAALYIVGF-KDEASELLSKF 141 (179)
T ss_pred hhchHHHHHHHHHHhCc-HHHHHHHHhhC
Confidence 44688999999999866 79998887653
No 21
>PF04034 DUF367: Domain of unknown function (DUF367); InterPro: IPR007177 This domain is found in a family of proteins of unknown function. It appears to be found in eukaryotes and archaebacteria, and occurs associated with a potential metal-binding region in RNase L inhibitor, RLI (IPR007209 from INTERPRO).
Probab=40.27 E-value=32 Score=26.20 Aligned_cols=27 Identities=11% Similarity=0.087 Sum_probs=21.9
Q ss_pred HHhHHHHHHHHHhHhCCChHHHHHHHHH
Q 029991 145 VCGAFRAIFGAIAVDTGKCDDAGDVFLR 172 (184)
Q Consensus 145 lad~fEAliGAIylD~G~~~~a~~~v~~ 172 (184)
.=.+.||+.+|.|+-+- .+.|.+++.+
T Consensus 65 kLscvEAlAAaLyI~G~-~~~A~~lL~~ 91 (127)
T PF04034_consen 65 KLSCVEALAAALYILGF-KEQAEELLSK 91 (127)
T ss_pred cccHHHHHHHHHHHcCC-HHHHHHHHhc
Confidence 34689999999999866 7888887754
No 22
>PF07125 DUF1378: Protein of unknown function (DUF1378); InterPro: IPR009808 This entry is represented by Bacteriophage 933W, Orf25. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of hypothetical bacterial and phage proteins of around 59 residues in length. Bacterial members of this family seem to be specific to Enterobacteria. The function of this family is unknown.
Probab=35.25 E-value=73 Score=20.79 Aligned_cols=31 Identities=16% Similarity=0.174 Sum_probs=24.6
Q ss_pred HHHHHHHHHhHhCCChHHHHHHHHHhhhhhh
Q 029991 148 AFRAIFGAIAVDTGKCDDAGDVFLRVHSGEV 178 (184)
Q Consensus 148 ~fEAliGAIylD~G~~~~a~~~v~~~~~~~l 178 (184)
-|-.++-|+|+-+|++...|.++++-+....
T Consensus 10 yFctvVcaLYLvsGGyk~IRnY~r~Kid~aA 40 (59)
T PF07125_consen 10 YFCTVVCALYLVSGGYKVIRNYFRRKIDDAA 40 (59)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHHH
Confidence 3667889999999878888888888776544
No 23
>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=34.88 E-value=17 Score=21.39 Aligned_cols=11 Identities=27% Similarity=0.326 Sum_probs=8.9
Q ss_pred HHhHHHHHHHH
Q 029991 145 VCGAFRAIFGA 155 (184)
Q Consensus 145 lad~fEAliGA 155 (184)
-.|.+||+||+
T Consensus 25 pEDAvEaLi~~ 35 (35)
T PF08383_consen 25 PEDAVEALIGN 35 (35)
T ss_pred HHHHHHHHhcC
Confidence 46999999984
No 24
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=33.98 E-value=65 Score=18.09 Aligned_cols=22 Identities=18% Similarity=0.291 Sum_probs=18.2
Q ss_pred HHHHHhHhCCChHHHHHHHHHh
Q 029991 152 IFGAIAVDTGKCDDAGDVFLRV 173 (184)
Q Consensus 152 liGAIylD~G~~~~a~~~v~~~ 173 (184)
-+|-+|.+.|.++.|.++..+.
T Consensus 4 ~Lg~~~~~~g~~~~Ai~~y~~a 25 (36)
T PF13176_consen 4 NLGRIYRQQGDYEKAIEYYEQA 25 (36)
T ss_dssp HHHHHHHHCT-HHHHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHH
Confidence 4799999999999999998883
No 25
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=32.81 E-value=73 Score=17.55 Aligned_cols=25 Identities=8% Similarity=0.116 Sum_probs=18.9
Q ss_pred HHHHHHhHhCCChHHHHHHHHHhhh
Q 029991 151 AIFGAIAVDTGKCDDAGDVFLRVHS 175 (184)
Q Consensus 151 AliGAIylD~G~~~~a~~~v~~~~~ 175 (184)
.-+|.+|.+.|.++.|.++..+.+.
T Consensus 6 ~~la~~~~~~g~~~~A~~~~~~al~ 30 (42)
T PF13374_consen 6 NNLANAYRAQGRYEEALELLEEALE 30 (42)
T ss_dssp HHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHhhhhcchhhHHHHHHHH
Confidence 3478889999888999998877554
No 26
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=31.01 E-value=46 Score=20.05 Aligned_cols=33 Identities=15% Similarity=0.159 Sum_probs=13.4
Q ss_pred CCCCChhHHHHHHHhhcccchhHHHHHHhhCccc
Q 029991 96 DIDISPKDLNRRVSETSNVEISCAVDGMHLGLQK 129 (184)
Q Consensus 96 ~p~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~ 129 (184)
|+.++..+-..+...+-. +.+..+||..+|.+.
T Consensus 2 ~~~Lt~~eR~~I~~l~~~-G~s~~~IA~~lg~s~ 34 (44)
T PF13936_consen 2 YKHLTPEERNQIEALLEQ-GMSIREIAKRLGRSR 34 (44)
T ss_dssp ----------HHHHHHCS----HHHHHHHTT--H
T ss_pred ccchhhhHHHHHHHHHHc-CCCHHHHHHHHCcCc
Confidence 445555555555555556 788999999998765
No 27
>PF03672 UPF0154: Uncharacterised protein family (UPF0154); InterPro: IPR005359 The proteins in this entry are functionally uncharacterised.
Probab=27.81 E-value=1.9e+02 Score=19.34 Aligned_cols=37 Identities=19% Similarity=0.272 Sum_probs=26.9
Q ss_pred HHHhhHHHHHHHHHHHHHhhC----CCCChhHHHHHHHhhc
Q 029991 76 LGILGGYVIDTSVSLRLLNKD----IDISPKDLNRRVSETS 112 (184)
Q Consensus 76 LefLGDaVL~l~vs~~l~~~~----p~~~~g~ls~~r~~lv 112 (184)
+.+++..+++++++.+.++++ |..++..+..+-...-
T Consensus 5 lali~G~~~Gff~ar~~~~k~l~~NPpine~mir~M~~QMG 45 (64)
T PF03672_consen 5 LALIVGAVIGFFIARKYMEKQLKENPPINEKMIRAMMMQMG 45 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhC
Confidence 678999999999999888764 5566666655544443
No 28
>TIGR02193 heptsyl_trn_I lipopolysaccharide heptosyltransferase I. This family consists of examples of ADP-heptose:LPS heptosyltransferase I, an enzyme of LPS inner core region biosynthesis. LPS, composed of lipid A, a core region, and O antigen, is found in the outer membrane of Gram-negative bacteria.
Probab=27.80 E-value=44 Score=28.17 Aligned_cols=26 Identities=12% Similarity=0.065 Sum_probs=22.9
Q ss_pred HHHHhhHHHHHHHHHHHHHhhCCCCC
Q 029991 75 ALGILGGYVIDTSVSLRLLNKDIDIS 100 (184)
Q Consensus 75 rLefLGDaVL~l~vs~~l~~~~p~~~ 100 (184)
|+..+||.|+..-+...|.++||+..
T Consensus 6 r~~~iGD~vl~~p~l~~Lr~~~P~a~ 31 (319)
T TIGR02193 6 KTSSLGDVIHTLPALTDIKRALPDVE 31 (319)
T ss_pred ecccHHHHHHHHHHHHHHHHhCCCCE
Confidence 46789999999999999999999654
No 29
>PRK10964 ADP-heptose:LPS heptosyl transferase I; Provisional
Probab=27.68 E-value=42 Score=28.45 Aligned_cols=26 Identities=8% Similarity=-0.051 Sum_probs=23.0
Q ss_pred HHHHhhHHHHHHHHHHHHHhhCCCCC
Q 029991 75 ALGILGGYVIDTSVSLRLLNKDIDIS 100 (184)
Q Consensus 75 rLefLGDaVL~l~vs~~l~~~~p~~~ 100 (184)
|+..+||.|+..-+...+.++||+..
T Consensus 7 ~~~~iGD~v~~~p~~~~lk~~~P~a~ 32 (322)
T PRK10964 7 KTSSMGDVLHTLPALTDAQQAIPGIQ 32 (322)
T ss_pred eccchHHHHhHHHHHHHHHHhCCCCE
Confidence 46779999999999999999999754
No 30
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=26.32 E-value=26 Score=25.19 Aligned_cols=21 Identities=29% Similarity=0.311 Sum_probs=12.7
Q ss_pred CCCcchHHHHHHHHHHHHhcc
Q 029991 1 MKLRPFTLYLLPVLVIAISSS 21 (184)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~ 21 (184)
|.-+.|.|..|.+.++|.+||
T Consensus 1 MaSK~~llL~l~LA~lLlisS 21 (95)
T PF07172_consen 1 MASKAFLLLGLLLAALLLISS 21 (95)
T ss_pred CchhHHHHHHHHHHHHHHHHh
Confidence 444556666666657677763
No 31
>PRK01844 hypothetical protein; Provisional
Probab=24.54 E-value=2.4e+02 Score=19.35 Aligned_cols=37 Identities=8% Similarity=0.154 Sum_probs=27.2
Q ss_pred HHHhhHHHHHHHHHHHHHhhC----CCCChhHHHHHHHhhc
Q 029991 76 LGILGGYVIDTSVSLRLLNKD----IDISPKDLNRRVSETS 112 (184)
Q Consensus 76 LefLGDaVL~l~vs~~l~~~~----p~~~~g~ls~~r~~lv 112 (184)
+.+++..+++++++...++++ |..++..+..+-.+.-
T Consensus 12 ~~li~G~~~Gff~ark~~~k~lk~NPpine~mir~Mm~QMG 52 (72)
T PRK01844 12 VALVAGVALGFFIARKYMMNYLQKNPPINEQMLKMMMMQMG 52 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHhC
Confidence 568899999999998887764 6677776665554443
No 32
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=24.41 E-value=1.2e+02 Score=17.57 Aligned_cols=24 Identities=17% Similarity=0.194 Sum_probs=20.0
Q ss_pred HHHHHhHhCCChHHHHHHHHHhhh
Q 029991 152 IFGAIAVDTGKCDDAGDVFLRVHS 175 (184)
Q Consensus 152 liGAIylD~G~~~~a~~~v~~~~~ 175 (184)
..|-.|.+.|.++.|.+++++.+.
T Consensus 6 ~la~~~~~~G~~~~A~~~~~~~l~ 29 (44)
T PF13428_consen 6 ALARAYRRLGQPDEAERLLRRALA 29 (44)
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHH
Confidence 357788999989999999988765
No 33
>TIGR02195 heptsyl_trn_II lipopolysaccharide heptosyltransferase II. This family consists of examples of ADP-heptose:LPS heptosyltransferase II, an enzyme of LPS inner core region biosynthesis. LPS, composed of lipid A, a core region, and O antigen, is found in the outer membrane of Gram-negative bacteria.
Probab=23.80 E-value=66 Score=27.29 Aligned_cols=26 Identities=15% Similarity=0.098 Sum_probs=22.9
Q ss_pred HHHHhhHHHHHHHHHHHHHhhCCCCC
Q 029991 75 ALGILGGYVIDTSVSLRLLNKDIDIS 100 (184)
Q Consensus 75 rLefLGDaVL~l~vs~~l~~~~p~~~ 100 (184)
|+..|||.|+..-+...+.+.||+..
T Consensus 6 ~~~~iGD~i~~~p~l~~Lk~~~P~a~ 31 (334)
T TIGR02195 6 GPSWVGDMVMAQSLYRLLKKRYPQAV 31 (334)
T ss_pred ccchhHHHHHHHHHHHHHHHHCCCCE
Confidence 46679999999999999999999754
No 34
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=23.52 E-value=59 Score=28.04 Aligned_cols=26 Identities=19% Similarity=0.160 Sum_probs=23.5
Q ss_pred HHHHhhHHHHHHHHHHHHHhhCCCCC
Q 029991 75 ALGILGGYVIDTSVSLRLLNKDIDIS 100 (184)
Q Consensus 75 rLefLGDaVL~l~vs~~l~~~~p~~~ 100 (184)
|+..|||.|+..-+-..+-+.||+..
T Consensus 8 r~~~iGD~vlt~p~~~~lk~~~P~a~ 33 (334)
T COG0859 8 RLSKLGDVVLTLPLLRTLKKAYPNAK 33 (334)
T ss_pred eccchhHHHhHHHHHHHHHHHCCCCE
Confidence 56789999999999999999999865
No 35
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=23.46 E-value=1.3e+02 Score=15.80 Aligned_cols=24 Identities=17% Similarity=0.284 Sum_probs=18.6
Q ss_pred HHHHHhHhCCChHHHHHHHHHhhh
Q 029991 152 IFGAIAVDTGKCDDAGDVFLRVHS 175 (184)
Q Consensus 152 liGAIylD~G~~~~a~~~v~~~~~ 175 (184)
-+|-+|...|.++.|.+.+.+.+.
T Consensus 6 ~lg~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF07719_consen 6 YLGQAYYQLGNYEEAIEYFEKALE 29 (34)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHH
Confidence 478889999888999988887653
No 36
>PF00273 Serum_albumin: Serum albumin family; InterPro: IPR014760 A number of serum transport proteins are known to be evolutionarily related, including albumin, alpha-fetoprotein, vitamin D-binding protein and afamin [, , ]. Albumin is the main protein of plasma; it binds water, cations (such as Ca2+, Na+ and K+), fatty acids, hormones, bilirubin and drugs - its main function is to regulate the colloidal osmotic pressure of blood. Alphafeto- protein (alpha-fetoglobulin) is a foetal plasma protein that binds various cations, fatty acids and bilirubin. Vitamin D-binding protein binds to vitamin D and its metabolites, as well as to fatty acids. The biological role of afamin (alpha-albumin) has not yet been characterised. The 3D structure of human serum albumin has been determined by X-ray crystallography to a resolution of 2.8A []. It comprises three homologous domains that assemble to form a heart-shaped molecule []. Each domain is a product of two subdomains that possess common structural motifs []. The principal regions of ligand binding to human serum albumin are located in hydrophobic cavities in subdomains IIA and IIIA, which exhibit similar chemistry. Structurally, the serum albumins are similar, each domain containing five or six internal disulphide bonds, as shown schematically below: +---+ +----+ +-----+ | | | | | | xxCxxxxxxxxxxxxxxxxCCxxCxxxxCxxxxxCCxxxCxxxxxxxxxCxxxxxxxxxxxxxxCCxxxxCxxxx | | | | | | +-----------------+ +-----+ +---------------+ ; GO: 0005615 extracellular space; PDB: 3V09_A 3V03_B 3MRK_P 1MA9_A 1KW2_A 1KXP_D 1J7E_A 1J78_A 1LOT_A 2BXL_A ....
Probab=23.00 E-value=1.9e+02 Score=22.67 Aligned_cols=39 Identities=21% Similarity=0.152 Sum_probs=32.0
Q ss_pred hHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhc
Q 029991 74 RALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETS 112 (184)
Q Consensus 74 erLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lv 112 (184)
.++.-+|+..+...+...+-+++|+.+-.++..+-..++
T Consensus 6 ~~~~~~G~~~f~~~~lv~~sQk~P~asfeel~~l~~~~~ 44 (178)
T PF00273_consen 6 DILQKLGEEKFKALKLVRYSQKFPQASFEELSKLVEDIT 44 (178)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHSTTS-HHHHHHHHHHHH
T ss_pred HHHHHhHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHH
Confidence 467889999999999999999999999888877755554
No 37
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=22.78 E-value=1.2e+02 Score=15.79 Aligned_cols=21 Identities=14% Similarity=0.219 Sum_probs=16.9
Q ss_pred HHHHHHhHhCCChHHHHHHHH
Q 029991 151 AIFGAIAVDTGKCDDAGDVFL 171 (184)
Q Consensus 151 AliGAIylD~G~~~~a~~~v~ 171 (184)
...|-++...|..+.|+++++
T Consensus 5 ~~la~~~~~~G~~~eA~~~l~ 25 (26)
T PF07721_consen 5 LALARALLAQGDPDEAERLLR 25 (26)
T ss_pred HHHHHHHHHcCCHHHHHHHHh
Confidence 456888999998888888765
No 38
>COG2361 Uncharacterized conserved protein [Function unknown]
Probab=22.03 E-value=1.3e+02 Score=22.60 Aligned_cols=36 Identities=14% Similarity=0.133 Sum_probs=31.0
Q ss_pred HHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhhc
Q 029991 75 ALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSETS 112 (184)
Q Consensus 75 rLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~lv 112 (184)
.|+.+|.++=+ +...+.++||+.+=.+|..+|..++
T Consensus 45 ~L~iIGEa~k~--ip~~~re~~p~vPW~~magmRd~li 80 (117)
T COG2361 45 NLEIIGEATKR--IPKSFREKYPEVPWKEMAGMRDKLI 80 (117)
T ss_pred HHHHHHHHHhh--cCHHHHHHCCCCCHHHHHHHHHHHH
Confidence 49999999887 6777889999999899999988775
No 39
>KOG3769 consensus Ribonuclease III domain proteins [Translation, ribosomal structure and biogenesis]
Probab=21.69 E-value=1.3e+02 Score=26.35 Aligned_cols=31 Identities=13% Similarity=0.183 Sum_probs=28.7
Q ss_pred hHHHHHHHHHhHhCCChHHHHHHHHHhhhhhh
Q 029991 147 GAFRAIFGAIAVDTGKCDDAGDVFLRVHSGEV 178 (184)
Q Consensus 147 d~fEAliGAIylD~G~~~~a~~~v~~~~~~~l 178 (184)
..+-+.|||+.-..| .+.+..++.+|+.+.+
T Consensus 188 ess~~aI~Al~~~~~-~ek~~~~v~dFI~~qi 218 (333)
T KOG3769|consen 188 ESSRRAIGALLGSVG-LEKGFNFVRDFINDQI 218 (333)
T ss_pred HHHHHHHHHHHhccc-HHHHHHHHHHHHHHHh
Confidence 788899999999999 8999999999999876
No 40
>smart00103 ALBUMIN serum albumin.
Probab=21.22 E-value=1.9e+02 Score=22.96 Aligned_cols=38 Identities=18% Similarity=0.175 Sum_probs=32.2
Q ss_pred hHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhh
Q 029991 74 RALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSET 111 (184)
Q Consensus 74 erLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~l 111 (184)
.+|.-+|+..+...+...+.+++|+.+-.+++.+-..+
T Consensus 14 ~~~~~~Ge~~f~~~~li~~sqk~p~asfeev~~l~~~~ 51 (187)
T smart00103 14 DSLQKLGERNFKALLLIRYSQKVPQASFEEVVKLVKDV 51 (187)
T ss_pred HHHHHhCHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence 67888999999999999999999999988887775444
No 41
>PRK00523 hypothetical protein; Provisional
Probab=21.03 E-value=2.9e+02 Score=18.96 Aligned_cols=37 Identities=16% Similarity=0.145 Sum_probs=27.2
Q ss_pred HHHhhHHHHHHHHHHHHHhhC----CCCChhHHHHHHHhhc
Q 029991 76 LGILGGYVIDTSVSLRLLNKD----IDISPKDLNRRVSETS 112 (184)
Q Consensus 76 LefLGDaVL~l~vs~~l~~~~----p~~~~g~ls~~r~~lv 112 (184)
+.+++..++.++++...++++ |..++..+..+-.+.-
T Consensus 13 ~~li~G~~~Gffiark~~~k~l~~NPpine~mir~M~~QMG 53 (72)
T PRK00523 13 PLLIVGGIIGYFVSKKMFKKQIRENPPITENMIRAMYMQMG 53 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHhC
Confidence 567889999999998887764 6677777666655443
No 42
>PRK15482 transcriptional regulator MurR; Provisional
Probab=20.99 E-value=72 Score=26.70 Aligned_cols=43 Identities=12% Similarity=-0.009 Sum_probs=27.8
Q ss_pred HHHHHHHhhCCCCChhHHHHH-HHhhcccchhHHHHHHhhCccch
Q 029991 87 SVSLRLLNKDIDISPKDLNRR-VSETSNVEISCAVDGMHLGLQKV 130 (184)
Q Consensus 87 ~vs~~l~~~~p~~~~g~ls~~-r~~lvs~n~~La~ia~~lgL~~~ 130 (184)
-+++|+.++......-.++.+ +..-|| ..+..+.|+++|+..|
T Consensus 20 ~Ia~yIl~n~~~v~~~si~elA~~~~vS-~aTv~Rf~kkLGf~Gf 63 (285)
T PRK15482 20 KIADFLRANVSELKSVSSRKMAKQLGIS-QSSIVKFAQKLGAQGF 63 (285)
T ss_pred HHHHHHHhCHHHHHhcCHHHHHHHhCCC-HHHHHHHHHHhCCCCH
Confidence 355666665333222222222 566788 8999999999999987
No 43
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=20.56 E-value=1.2e+02 Score=18.14 Aligned_cols=32 Identities=13% Similarity=0.158 Sum_probs=21.8
Q ss_pred CCCChhHHHHHHHhhcccchhHHHHHHhhCccc
Q 029991 97 IDISPKDLNRRVSETSNVEISCAVDGMHLGLQK 129 (184)
Q Consensus 97 p~~~~g~ls~~r~~lvs~n~~La~ia~~lgL~~ 129 (184)
|..++.++..++..+-+ ..+..+||+.+|+..
T Consensus 4 ~~~~~~~~~~i~~l~~~-G~si~~IA~~~gvsr 35 (45)
T PF02796_consen 4 PKLSKEQIEEIKELYAE-GMSIAEIAKQFGVSR 35 (45)
T ss_dssp SSSSHCCHHHHHHHHHT-T--HHHHHHHTTS-H
T ss_pred CCCCHHHHHHHHHHHHC-CCCHHHHHHHHCcCH
Confidence 45566667777777777 788899999998864
No 44
>PF10273 WGG: Pre-rRNA-processing protein TSR2; InterPro: IPR019398 The pre-rRNA-processing protein TSR2 is required for 20S pre-rRNA processing []. This family contains a distinctive WGG motif.
Probab=20.42 E-value=2.1e+02 Score=19.74 Aligned_cols=61 Identities=11% Similarity=0.151 Sum_probs=43.2
Q ss_pred HHHHhCCCCCCHHHHHHHHcCCCCCCCcchHHHHhhHHHHHHHHHHHHHhhCCCCChhHHHHHHHhh
Q 029991 45 LQKQIGYTFKSIGLLRRAMTHSSFSEENNRALGILGGYVIDTSVSLRLLNKDIDISPKDLNRRVSET 111 (184)
Q Consensus 45 le~~lgy~F~~~~LL~~AlTh~S~~~~~nerLefLGDaVL~l~vs~~l~~~~p~~~~g~ls~~r~~l 111 (184)
|++.++.-|.+..-|+.|..|..-...+.++-++|.+.|++++.. -+......+...-..+
T Consensus 2 F~~~V~~vl~~WtaL~lAVen~wGG~~s~~K~~~l~~~i~~~f~~------~~~~~~~~le~~L~~~ 62 (82)
T PF10273_consen 2 FEEGVRLVLNRWTALQLAVENGWGGPDSQEKADWLAEVIVDWFTE------NKDPDADDLEDFLEDI 62 (82)
T ss_pred HHHHHHHHHhcCHHHHHHHHhccCCccHHHHHHHHHHHHHHHHhc------CCCCCHHHHHHHHHHH
Confidence 455566678888899999999976667888889998888776555 2234466666554433
No 45
>KOG2783 consensus Phenylalanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=20.40 E-value=42 Score=30.43 Aligned_cols=28 Identities=29% Similarity=0.349 Sum_probs=22.9
Q ss_pred HcCCCCCCC---cchHHHHhhHHHHHHHHHH
Q 029991 63 MTHSSFSEE---NNRALGILGGYVIDTSVSL 90 (184)
Q Consensus 63 lTh~S~~~~---~nerLefLGDaVL~l~vs~ 90 (184)
+||||+.-+ .++-||.+|+-|++-.+..
T Consensus 257 ft~ps~eleI~~~~~wlevlgcgvi~~~il~ 287 (436)
T KOG2783|consen 257 FTHPSWELEIYFKGEWLEVLGCGVMRQRLLK 287 (436)
T ss_pred cCCCCeEEEEEecCCcHhhhccchhHHHHHh
Confidence 678888665 7899999999999877653
No 46
>PRK10916 ADP-heptose:LPS heptosyltransferase II; Provisional
Probab=20.39 E-value=65 Score=27.66 Aligned_cols=26 Identities=12% Similarity=0.087 Sum_probs=22.8
Q ss_pred HHHHhhHHHHHHHHHHHHHhhCCCCC
Q 029991 75 ALGILGGYVIDTSVSLRLLNKDIDIS 100 (184)
Q Consensus 75 rLefLGDaVL~l~vs~~l~~~~p~~~ 100 (184)
|+..|||.|+..-+...|.++||+..
T Consensus 7 ~~~~iGD~il~tP~l~~Lk~~~P~a~ 32 (348)
T PRK10916 7 GPSWVGDMMMSQSLYRTLKARYPQAI 32 (348)
T ss_pred ccCcccHHHhHHHHHHHHHHHCCCCe
Confidence 45679999999999999999999754
Done!