Query psy9170
Match_columns 94
No_of_seqs 110 out of 213
Neff 5.8
Searched_HMMs 46136
Date Fri Aug 16 20:40:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9170.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9170hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1190|consensus 99.9 5.3E-29 1.1E-33 197.6 3.1 89 3-91 61-183 (492)
2 KOG1456|consensus 99.9 5.2E-28 1.1E-32 190.9 5.3 89 4-92 65-155 (494)
3 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.7 3.8E-16 8.2E-21 125.1 10.7 88 4-91 36-128 (481)
4 KOG1190|consensus 98.5 1.9E-07 4.2E-12 75.3 6.2 87 6-92 188-331 (492)
5 PF13893 RRM_5: RNA recognitio 98.4 1.2E-06 2.6E-11 50.8 5.1 36 6-43 21-56 (56)
6 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.2 1.4E-05 3E-10 64.4 9.1 80 5-88 312-423 (481)
7 TIGR01628 PABP-1234 polyadenyl 98.0 4.6E-05 9.9E-10 61.8 8.5 78 5-89 41-118 (562)
8 TIGR01648 hnRNP-R-Q heterogene 97.9 9.8E-05 2.1E-09 61.7 9.4 84 5-90 181-266 (578)
9 TIGR01659 sex-lethal sex-letha 97.9 7.8E-05 1.7E-09 58.5 8.2 78 5-91 148-225 (346)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.7 0.00038 8.1E-09 52.7 8.9 78 5-91 44-121 (352)
11 TIGR01622 SF-CC1 splicing fact 97.6 0.00036 7.7E-09 54.9 8.5 83 4-91 129-218 (457)
12 TIGR01642 U2AF_lg U2 snRNP aux 97.6 0.00044 9.6E-09 55.0 8.4 83 4-91 221-327 (509)
13 TIGR01628 PABP-1234 polyadenyl 97.5 0.00082 1.8E-08 54.6 8.8 83 4-91 127-210 (562)
14 TIGR01642 U2AF_lg U2 snRNP aux 97.3 0.0012 2.6E-08 52.5 8.1 82 5-90 336-450 (509)
15 KOG0131|consensus 97.3 0.00047 1E-08 50.9 4.7 74 5-86 50-123 (203)
16 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.2 0.0035 7.5E-08 47.5 8.9 42 5-46 130-171 (352)
17 TIGR01645 half-pint poly-U bin 97.2 0.0022 4.8E-08 54.1 8.3 84 4-90 147-235 (612)
18 PF14259 RRM_6: RNA recognitio 97.0 0.0015 3.3E-08 38.6 4.1 32 6-39 39-70 (70)
19 PLN03134 glycine-rich RNA-bind 96.2 0.014 3.1E-07 40.4 5.4 41 4-46 74-114 (144)
20 KOG0148|consensus 96.2 0.037 8E-07 43.3 8.0 84 4-90 102-195 (321)
21 KOG4206|consensus 96.2 0.022 4.7E-07 42.9 6.4 83 3-89 49-177 (221)
22 KOG0110|consensus 96.1 0.026 5.5E-07 48.5 7.4 78 7-89 561-643 (725)
23 smart00362 RRM_2 RNA recogniti 95.7 0.035 7.5E-07 31.1 4.6 33 6-40 39-71 (72)
24 smart00360 RRM RNA recognition 95.6 0.032 6.9E-07 31.1 4.3 33 6-40 38-70 (71)
25 PF00076 RRM_1: RNA recognitio 95.3 0.039 8.5E-07 31.7 4.0 33 4-38 37-69 (70)
26 smart00361 RRM_1 RNA recogniti 95.0 0.077 1.7E-06 31.9 4.7 35 4-40 35-69 (70)
27 cd00590 RRM RRM (RNA recogniti 94.8 0.093 2E-06 29.4 4.6 35 6-42 40-74 (74)
28 KOG0117|consensus 94.5 0.099 2.2E-06 43.2 5.6 83 5-89 207-289 (506)
29 KOG0123|consensus 94.0 0.24 5.2E-06 39.4 6.7 71 7-91 38-108 (369)
30 KOG0107|consensus 93.2 0.099 2.2E-06 38.5 3.1 38 7-46 48-85 (195)
31 TIGR01622 SF-CC1 splicing fact 92.6 0.28 6E-06 38.6 5.1 39 4-44 226-264 (457)
32 KOG0123|consensus 92.5 0.34 7.4E-06 38.5 5.5 84 6-92 116-200 (369)
33 COG0724 RNA-binding proteins ( 91.6 0.45 9.9E-06 32.5 4.7 83 4-88 155-254 (306)
34 TIGR01659 sex-lethal sex-letha 90.6 0.52 1.1E-05 37.1 4.7 41 6-46 235-275 (346)
35 TIGR01648 hnRNP-R-Q heterogene 90.4 0.61 1.3E-05 39.4 5.2 78 6-86 269-368 (578)
36 KOG1456|consensus 90.2 0.54 1.2E-05 38.5 4.5 49 2-50 155-203 (494)
37 KOG0111|consensus 88.9 0.61 1.3E-05 35.9 3.7 46 4-51 50-95 (298)
38 TIGR01645 half-pint poly-U bin 88.1 1.2 2.6E-05 38.0 5.3 40 4-45 244-283 (612)
39 KOG0109|consensus 87.4 1 2.3E-05 35.6 4.3 71 5-86 35-105 (346)
40 KOG0121|consensus 84.6 0.93 2E-05 32.2 2.5 30 63-92 40-70 (153)
41 KOG4208|consensus 81.3 2.2 4.8E-05 32.0 3.5 36 5-42 91-126 (214)
42 KOG0113|consensus 79.6 4.4 9.5E-05 32.2 4.8 45 4-50 141-185 (335)
43 KOG0108|consensus 77.7 3.3 7.2E-05 33.9 3.8 40 4-45 58-97 (435)
44 KOG0415|consensus 77.3 2.5 5.5E-05 34.5 3.0 36 8-45 283-318 (479)
45 PF00076 RRM_1: RNA recognitio 76.1 5.8 0.00013 22.3 3.6 29 63-91 2-30 (70)
46 KOG2202|consensus 75.6 1.7 3.7E-05 33.5 1.5 42 6-49 110-151 (260)
47 KOG0130|consensus 74.0 3.2 6.9E-05 29.8 2.5 39 5-45 113-153 (170)
48 PLN03120 nucleic acid binding 73.7 8.6 0.00019 29.6 4.9 38 6-46 43-80 (260)
49 KOG0116|consensus 72.3 4.6 9.9E-05 33.0 3.3 32 7-41 331-362 (419)
50 KOG0148|consensus 71.0 9 0.0002 30.2 4.5 41 4-46 198-238 (321)
51 KOG0149|consensus 70.9 4.3 9.2E-05 31.1 2.7 39 4-45 52-90 (247)
52 KOG0124|consensus 70.2 14 0.0003 30.5 5.6 78 4-88 153-239 (544)
53 PF08777 RRM_3: RNA binding mo 69.5 6.8 0.00015 25.7 3.2 39 2-40 33-74 (105)
54 KOG0109|consensus 69.5 5.3 0.00012 31.8 3.0 43 6-50 112-154 (346)
55 KOG4207|consensus 67.9 3.2 6.9E-05 31.6 1.4 28 60-87 14-41 (256)
56 KOG0415|consensus 67.0 4.4 9.5E-05 33.1 2.2 30 55-87 237-267 (479)
57 PF08777 RRM_3: RNA binding mo 62.5 12 0.00027 24.5 3.3 31 61-91 3-33 (105)
58 TIGR02861 SASP_H small acid-so 59.5 14 0.0003 22.3 2.9 27 15-41 2-28 (58)
59 PRK03174 sspH acid-soluble spo 58.6 14 0.00031 22.4 2.8 28 15-42 2-29 (59)
60 PF08141 SspH: Small acid-solu 58.2 14 0.00031 22.2 2.8 27 15-41 2-28 (58)
61 PRK01625 sspH acid-soluble spo 58.0 15 0.00032 22.3 2.9 28 15-42 2-29 (59)
62 PLN03121 nucleic acid binding 55.1 14 0.00031 28.3 3.0 28 62-89 8-35 (243)
63 PF15023 DUF4523: Protein of u 54.7 15 0.00033 26.5 2.9 27 5-31 124-150 (166)
64 KOG0147|consensus 52.7 15 0.00032 31.2 3.0 82 4-90 219-309 (549)
65 KOG0153|consensus 52.2 23 0.0005 28.7 3.8 39 6-45 264-302 (377)
66 KOG0114|consensus 52.1 27 0.00058 24.0 3.7 32 56-89 17-48 (124)
67 KOG4212|consensus 51.4 23 0.00051 29.8 3.9 36 4-41 84-119 (608)
68 KOG4207|consensus 50.4 16 0.00035 27.9 2.6 38 6-45 55-92 (256)
69 KOG0117|consensus 49.8 32 0.00069 28.8 4.4 39 4-44 123-162 (506)
70 PLN03121 nucleic acid binding 49.8 57 0.0012 25.0 5.5 40 6-48 44-83 (243)
71 PF08675 RNA_bind: RNA binding 49.5 12 0.00025 24.5 1.5 29 54-88 6-37 (87)
72 PLN03120 nucleic acid binding 48.1 28 0.0006 26.9 3.6 29 62-90 7-35 (260)
73 KOG0127|consensus 47.9 29 0.00063 29.9 3.9 36 7-44 159-194 (678)
74 KOG0105|consensus 47.4 18 0.00038 27.3 2.4 37 7-45 46-82 (241)
75 KOG4206|consensus 46.4 31 0.00067 26.1 3.6 39 3-43 180-219 (221)
76 KOG0125|consensus 46.2 35 0.00076 27.6 4.0 39 6-46 136-174 (376)
77 PLN03213 repressor of silencin 46.0 34 0.00074 29.4 4.1 43 5-49 47-91 (759)
78 PF11608 Limkain-b1: Limkain b 45.5 35 0.00076 22.4 3.3 38 6-45 39-76 (90)
79 KOG4574|consensus 45.2 14 0.0003 33.2 1.7 46 3-48 331-376 (1007)
80 PLN03134 glycine-rich RNA-bind 43.3 39 0.00085 23.1 3.5 29 63-91 38-66 (144)
81 PLN03213 repressor of silencin 41.2 32 0.00069 29.6 3.2 33 60-92 11-43 (759)
82 TIGR03504 FimV_Cterm FimV C-te 39.8 6.3 0.00014 22.3 -0.8 19 8-26 7-25 (44)
83 KOG3896|consensus 39.5 13 0.00029 30.2 0.7 21 56-77 311-331 (449)
84 KOG0147|consensus 39.4 46 0.00099 28.4 3.8 36 4-41 318-353 (549)
85 KOG0115|consensus 38.9 43 0.00094 26.1 3.4 46 31-90 17-63 (275)
86 KOG0114|consensus 38.0 71 0.0015 22.0 4.0 39 5-45 56-94 (124)
87 KOG1457|consensus 36.4 22 0.00047 27.5 1.4 25 7-31 249-273 (284)
88 PRK09993 C-lysozyme inhibitor; 36.3 17 0.00036 26.1 0.8 40 1-40 94-136 (153)
89 PF12631 GTPase_Cys_C: Catalyt 35.6 21 0.00046 21.7 1.1 13 71-83 60-72 (73)
90 COG5470 Uncharacterized conser 35.3 40 0.00087 22.4 2.4 20 6-25 53-72 (96)
91 KOG0127|consensus 34.6 78 0.0017 27.4 4.5 40 4-43 332-375 (678)
92 PF07045 DUF1330: Protein of u 34.0 48 0.001 19.5 2.4 20 6-25 39-58 (65)
93 KOG0120|consensus 31.0 85 0.0018 26.5 4.2 37 7-45 455-491 (500)
94 PF02343 TRA-1_regulated: TRA- 30.5 63 0.0014 21.9 2.9 38 46-86 49-86 (131)
95 PF07576 BRAP2: BRCA1-associat 29.9 76 0.0017 21.1 3.1 26 5-30 53-78 (110)
96 KOG4660|consensus 29.8 31 0.00066 29.4 1.4 25 63-87 79-103 (549)
97 PF14605 Nup35_RRM_2: Nup53/35 29.1 72 0.0016 18.2 2.6 20 3-22 33-52 (53)
98 COG0724 RNA-binding proteins ( 25.6 95 0.0021 20.9 3.1 30 62-91 118-147 (306)
99 KOG0129|consensus 25.2 4.3E+02 0.0094 22.5 8.4 77 8-91 308-403 (520)
100 TIGR02490 flgF flagellar basal 23.1 56 0.0012 20.4 1.5 22 6-27 62-83 (89)
101 KOG0106|consensus 22.5 47 0.001 24.9 1.2 34 5-40 132-165 (216)
102 COG4075 Uncharacterized conser 22.5 62 0.0013 21.9 1.6 31 4-34 41-71 (110)
103 KOG4586|consensus 21.4 74 0.0016 22.7 1.9 30 21-50 111-144 (156)
104 KOG0145|consensus 21.0 4.4E+02 0.0094 21.0 7.8 41 6-46 169-209 (360)
105 KOG1996|consensus 21.0 1E+02 0.0022 24.8 2.7 39 9-49 332-370 (378)
No 1
>KOG1190|consensus
Probab=99.95 E-value=5.3e-29 Score=197.63 Aligned_cols=89 Identities=39% Similarity=0.541 Sum_probs=82.7
Q ss_pred CCCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCC-----------------------------
Q psy9170 3 DYDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQT----------------------------- 53 (94)
Q Consensus 3 ~~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s----------------------------- 53 (94)
.++|||||+||+|+++|.+||+||+..||.+||+++|+|||+|.+|++++.
T Consensus 61 lkGknQAflem~d~~sAvtmv~~y~~~~p~lr~~~~yiq~sn~~~lkt~s~p~q~r~~~vy~~~s~~q~~~~~~s~~~~~ 140 (492)
T KOG1190|consen 61 LKGKNQAFLEMADEESAVTMVNYYTSVTPVLRGQPIYIQYSNHSELKTDSQPNQIRGQAVYQAVSSVQEIVLPLSASAVV 140 (492)
T ss_pred eccchhhhhhhcchhhhhheeecccccCccccCcceeehhhhHHHHhccCchhhhhhhhHHhhhhccccccccccccccc
Confidence 578999999999999999999999999999999999999999999998631
Q ss_pred ----CCCCcEEEEEEcccCCceeHhHHHhhhcccc-ceEEEEE
Q psy9170 54 ----HSNALLLHLTIGIILRPATHYQVHLIRSACQ-VYLIVCV 91 (94)
Q Consensus 54 ----~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g-~~~~v~~ 91 (94)
+.||.||+..|+|+.||||+||||+|||+|| +.||++|
T Consensus 141 ~G~~~~~n~vLr~iie~m~ypVslDVLHqvFS~fG~VlKIiTF 183 (492)
T KOG1190|consen 141 VGNEDGPNPVLRTIIENMFYPVSLDVLHQVFSKFGFVLKIITF 183 (492)
T ss_pred ccccCCCceeEEEEeccceeeeEHHHHHHHHhhcceeEEEEEE
Confidence 1468999999999999999999999999999 7888887
No 2
>KOG1456|consensus
Probab=99.94 E-value=5.2e-28 Score=190.94 Aligned_cols=89 Identities=17% Similarity=0.156 Sum_probs=84.0
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeecc--CCCCCCcEEEEEEcccCCceeHhHHHhhhc
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD--QTHSNALLLHLTIGIILRPATHYQVHLIRS 81 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~--~s~~~n~ILL~TI~n~~ypItvdvlh~i~s 81 (94)
++|+|||+||+|++.|+++|+|.+.+++++.|++.+++||+++.|+++ ++..||+|||+||.||+||||+||||+||+
T Consensus 65 P~~r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~NyStsq~i~R~g~es~~pN~VLl~TIlNp~YpItvDVly~Icn 144 (494)
T KOG1456|consen 65 PHKRQALVEFEDIEGAKNCVNFAADNQIYIAGQQALFNYSTSQCIERPGDESATPNKVLLFTILNPQYPITVDVLYTICN 144 (494)
T ss_pred cccceeeeeeccccchhhheehhccCcccccCchhhcccchhhhhccCCCCCCCCCeEEEEEeecCccccchhhhhhhcC
Confidence 578899999999999999999999999999999999999999999985 678899999999999999999999999999
Q ss_pred cccceEEEEEE
Q psy9170 82 ACQVYLIVCVL 92 (94)
Q Consensus 82 ~~g~~~~v~~~ 92 (94)
++|.++++.+.
T Consensus 145 p~GkVlRIvIf 155 (494)
T KOG1456|consen 145 PQGKVLRIVIF 155 (494)
T ss_pred CCCceEEEEEE
Confidence 99988877654
No 3
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.67 E-value=3.8e-16 Score=125.06 Aligned_cols=88 Identities=22% Similarity=0.289 Sum_probs=79.3
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccC-----CCCCCcEEEEEEcccCCceeHhHHHh
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQ-----THSNALLLHLTIGIILRPATHYQVHL 78 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~-----s~~~n~ILL~TI~n~~ypItvdvlh~ 78 (94)
+.|++|||||++.|+|.++++++..++..++|++++++||++++++++. +..++++|.+.|.|+.|+||.|.|++
T Consensus 36 ~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~ 115 (481)
T TIGR01649 36 PGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIKRDGNSDFDSAGPNKVLRVIVENPMYPITLDVLYQ 115 (481)
T ss_pred CCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccccCCCCcccCCCCCceEEEEEcCCCCCCCHHHHHH
Confidence 5789999999999999999999988899999999999999999988764 33568999999999999999999999
Q ss_pred hhccccceEEEEE
Q psy9170 79 IRSACQVYLIVCV 91 (94)
Q Consensus 79 i~s~~g~~~~v~~ 91 (94)
+|++||.+..|-+
T Consensus 116 ~F~~~G~V~~v~i 128 (481)
T TIGR01649 116 IFNPYGKVLRIVT 128 (481)
T ss_pred HHhccCCEEEEEE
Confidence 9999997766643
No 4
>KOG1190|consensus
Probab=98.53 E-value=1.9e-07 Score=75.29 Aligned_cols=87 Identities=14% Similarity=0.078 Sum_probs=69.4
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeecc----CC----------C-----------------
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD----QT----------H----------------- 54 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~----~s----------~----------------- 54 (94)
-.|||++|.|.++|..+....+...++=.-+++.|+||++..|... +| .
T Consensus 188 ~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sklt~LnvKynndkSRDyTnp~LP~gd~~p~l~~~~~aa~~~~ 267 (492)
T KOG1190|consen 188 GFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSKLTDLNVKYNNDKSRDYTNPDLPVGDGQPSLDQLMAAAFGSV 267 (492)
T ss_pred chhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhhcccceeeccccccccccCCCCCCCccccccchhhhcccccc
Confidence 4699999999999999999988665554455999999999888641 10 0
Q ss_pred -------------------------CCC-cEEEEEEcccCCceeHhHHHhhhccccceEEEEEE
Q psy9170 55 -------------------------SNA-LLLHLTIGIILRPATHYQVHLIRSACQVYLIVCVL 92 (94)
Q Consensus 55 -------------------------~~n-~ILL~TI~n~~ypItvdvlh~i~s~~g~~~~v~~~ 92 (94)
.+. +++|..+.+..|-||.|+||++|+.||.+-+|..|
T Consensus 268 ~~~~g~p~aip~~~~~a~~a~~~~~~~~~n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil 331 (492)
T KOG1190|consen 268 PAVHGAPLAIPSGAAGANAADGKIESPSANVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKIL 331 (492)
T ss_pred ccccCCcccCCccchhhcccccccccCCCceEEEEecCchhccchhHHHHHHhhhcceEEEEee
Confidence 111 57777889999999999999999999988887765
No 5
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=98.36 E-value=1.2e-06 Score=50.85 Aligned_cols=36 Identities=25% Similarity=0.335 Sum_probs=33.0
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEec
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFS 43 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS 43 (94)
+++|||||++.++|..+++.+... .+.|+++.++||
T Consensus 21 ~~~a~V~f~~~~~A~~a~~~l~~~--~~~g~~l~V~~a 56 (56)
T PF13893_consen 21 RGFAFVEFASVEDAQKAIEQLNGR--QFNGRPLKVSYA 56 (56)
T ss_dssp TTEEEEEESSHHHHHHHHHHHTTS--EETTEEEEEEEE
T ss_pred CCEEEEEECCHHHHHHHHHHhCCC--EECCcEEEEEEC
Confidence 499999999999999999998765 589999999997
No 6
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.17 E-value=1.4e-05 Score=64.38 Aligned_cols=80 Identities=19% Similarity=0.224 Sum_probs=62.7
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCC-------------------------------
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQT------------------------------- 53 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s------------------------------- 53 (94)
+|..|||||+|.++|..+++..... .+.|+++++.+|+++.+..+..
T Consensus 312 ~~g~afV~f~~~~~A~~Ai~~lng~--~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~ 389 (481)
T TIGR01649 312 KKETALIEMADPYQAQLALTHLNGV--KLFGKPLRVCPSKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNN 389 (481)
T ss_pred CCCEEEEEECCHHHHHHHHHHhCCC--EECCceEEEEEcccccccCCCCCcCcCCCcccccccCCccccCCCcccccccc
Confidence 4689999999999999999998866 7799999999998765422100
Q ss_pred -CCCCcEEEEEEcccCCceeHhHHHhhhccccceEE
Q psy9170 54 -HSNALLLHLTIGIILRPATHYQVHLIRSACQVYLI 88 (94)
Q Consensus 54 -~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g~~~~ 88 (94)
..|++.|. |.|.-..+|-|-|-.+|+.||...+
T Consensus 390 ~~~ps~~L~--v~NLp~~~tee~L~~lF~~~G~~~i 423 (481)
T TIGR01649 390 IQPPSATLH--LSNIPLSVSEEDLKELFAENGVHKV 423 (481)
T ss_pred cCCCCcEEE--EecCCCCCCHHHHHHHHHhcCCccc
Confidence 02345554 7788888999999999999997333
No 7
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=97.97 E-value=4.6e-05 Score=61.85 Aligned_cols=78 Identities=8% Similarity=0.049 Sum_probs=60.6
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhcccc
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQ 84 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g 84 (94)
.+..|||+|.+.++|..+++..... .+.|+++.+.+|....-.+. ...++ +-|.|.-..+|-+-|+.+|++||
T Consensus 41 s~G~afV~F~~~~~A~~Al~~ln~~--~i~gk~i~i~~s~~~~~~~~--~~~~~---vfV~nLp~~~~~~~L~~~F~~~G 113 (562)
T TIGR01628 41 SLGYGYVNFQNPADAERALETMNFK--RLGGKPIRIMWSQRDPSLRR--SGVGN---IFVKNLDKSVDNKALFDTFSKFG 113 (562)
T ss_pred cceEEEEEECCHHHHHHHHHHhCCC--EECCeeEEeecccccccccc--cCCCc---eEEcCCCccCCHHHHHHHHHhcC
Confidence 4568999999999999999876543 68999999999975432222 12233 35789999999999999999999
Q ss_pred ceEEE
Q psy9170 85 VYLIV 89 (94)
Q Consensus 85 ~~~~v 89 (94)
.++-+
T Consensus 114 ~i~~~ 118 (562)
T TIGR01628 114 NILSC 118 (562)
T ss_pred Cccee
Confidence 76543
No 8
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=97.90 E-value=9.8e-05 Score=61.71 Aligned_cols=84 Identities=17% Similarity=0.114 Sum_probs=65.4
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhccc-
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSAC- 83 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~- 83 (94)
.+.-|||||++.++|..++.-.......+.|+.+.+.++..++-...+...+.++|. |.|.-+.+|-|-|.+.|++|
T Consensus 181 nRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~~d~~~~~~~k~Lf--VgNL~~~~tee~L~~~F~~f~ 258 (578)
T TIGR01648 181 NRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEEVDEDVMAKVKILY--VRNLMTTTTEEIIEKSFSEFK 258 (578)
T ss_pred cCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeecccccccccccccccEEE--EeCCCCCCCHHHHHHHHHhcC
Confidence 466899999999999999887776677889999999998865432222233445555 55999999999999999999
Q ss_pred -cceEEEE
Q psy9170 84 -QVYLIVC 90 (94)
Q Consensus 84 -g~~~~v~ 90 (94)
|.+..|-
T Consensus 259 ~G~I~rV~ 266 (578)
T TIGR01648 259 PGKVERVK 266 (578)
T ss_pred CCceEEEE
Confidence 8766653
No 9
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=97.88 E-value=7.8e-05 Score=58.51 Aligned_cols=78 Identities=13% Similarity=0.138 Sum_probs=59.5
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhcccc
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQ 84 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g 84 (94)
.|.-|||||+|+++|..++.-... ..+.|+++.+.+++...- .....+ +-|.|.-+.+|-|-|-.+|++||
T Consensus 148 srGyaFVeF~~~e~A~~Ai~~LnG--~~l~gr~i~V~~a~p~~~----~~~~~~---lfV~nLp~~vtee~L~~~F~~fG 218 (346)
T TIGR01659 148 SFGYAFVDFGSEADSQRAIKNLNG--ITVRNKRLKVSYARPGGE----SIKDTN---LYVTNLPRTITDDQLDTIFGKYG 218 (346)
T ss_pred cCcEEEEEEccHHHHHHHHHHcCC--CccCCceeeeeccccccc----ccccce---eEEeCCCCcccHHHHHHHHHhcC
Confidence 356799999999999999987654 477899999999864321 111122 34689999999999999999999
Q ss_pred ceEEEEE
Q psy9170 85 VYLIVCV 91 (94)
Q Consensus 85 ~~~~v~~ 91 (94)
.+.-|.+
T Consensus 219 ~V~~v~i 225 (346)
T TIGR01659 219 QIVQKNI 225 (346)
T ss_pred CEEEEEE
Confidence 7765544
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.68 E-value=0.00038 Score=52.73 Aligned_cols=78 Identities=13% Similarity=0.114 Sum_probs=59.9
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhcccc
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQ 84 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g 84 (94)
.|.-|||||++.++|..+++.... ..+.|+++.+.|++.++= .....+ +-|.|.-+.+|-+-|..+|++||
T Consensus 44 s~g~afV~f~~~~~A~~Ai~~l~g--~~l~g~~i~v~~a~~~~~----~~~~~~---l~v~~l~~~~~~~~l~~~f~~~G 114 (352)
T TIGR01661 44 SLGYGFVNYVRPEDAEKAVNSLNG--LRLQNKTIKVSYARPSSD----SIKGAN---LYVSGLPKTMTQHELESIFSPFG 114 (352)
T ss_pred cceEEEEEECcHHHHHHHHhhccc--EEECCeeEEEEeeccccc----ccccce---EEECCccccCCHHHHHHHHhccC
Confidence 356799999999999999988765 478999999999864321 111122 45779999999999999999999
Q ss_pred ceEEEEE
Q psy9170 85 VYLIVCV 91 (94)
Q Consensus 85 ~~~~v~~ 91 (94)
.+.-+-+
T Consensus 115 ~i~~~~~ 121 (352)
T TIGR01661 115 QIITSRI 121 (352)
T ss_pred CEEEEEE
Confidence 7654433
No 11
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=97.64 E-value=0.00036 Score=54.90 Aligned_cols=83 Identities=18% Similarity=0.093 Sum_probs=60.5
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeecc------CCCCC-CcEEEEEEcccCCceeHhHH
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD------QTHSN-ALLLHLTIGIILRPATHYQV 76 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~------~s~~~-n~ILL~TI~n~~ypItvdvl 76 (94)
+.|..|||||.+.++|..++.. +-..+.|+++.++++....-... ....| .+. +-|.|.-+.+|-+-|
T Consensus 129 ~skg~afVeF~~~e~A~~Al~l---~g~~~~g~~i~v~~~~~~~~~~~~~~~~~~~~~p~~~~--l~v~nl~~~~te~~l 203 (457)
T TIGR01622 129 RSKGVAYVEFYDVESVIKALAL---TGQMLLGRPIIVQSSQAEKNRAAKAATHQPGDIPNFLK--LYVGNLHFNITEQEL 203 (457)
T ss_pred CcceEEEEEECCHHHHHHHHHh---CCCEECCeeeEEeecchhhhhhhhcccccCCCCCCCCE--EEEcCCCCCCCHHHH
Confidence 3478999999999999999963 34578999999998865322111 01112 233 356898899999999
Q ss_pred HhhhccccceEEEEE
Q psy9170 77 HLIRSACQVYLIVCV 91 (94)
Q Consensus 77 h~i~s~~g~~~~v~~ 91 (94)
..+|++||.+.-|-+
T Consensus 204 ~~~f~~~G~i~~v~~ 218 (457)
T TIGR01622 204 RQIFEPFGDIEDVQL 218 (457)
T ss_pred HHHHHhcCCeEEEEE
Confidence 999999998765543
No 12
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=97.59 E-value=0.00044 Score=54.99 Aligned_cols=83 Identities=10% Similarity=-0.013 Sum_probs=57.0
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEecccee----ee----c-------cC---------CCCCCcE
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKE----LK----T-------DQ---------THSNALL 59 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~e----L~----~-------~~---------s~~~n~I 59 (94)
+.|+.|||||++.|+|..++. . +-..+.|+++.++-.+... .. . .. ...+.+-
T Consensus 221 ~~kg~afVeF~~~e~A~~Al~-l--~g~~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 297 (509)
T TIGR01642 221 KEKNFAFLEFRTVEEATFAMA-L--DSIIYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDR 297 (509)
T ss_pred CCCCEEEEEeCCHHHHhhhhc-C--CCeEeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCE
Confidence 568899999999999999985 2 3347888888886332111 00 0 00 0011222
Q ss_pred EEEEEcccCCceeHhHHHhhhccccceEEEEE
Q psy9170 60 LHLTIGIILRPATHYQVHLIRSACQVYLIVCV 91 (94)
Q Consensus 60 LL~TI~n~~ypItvdvlh~i~s~~g~~~~v~~ 91 (94)
| -|.|.-+.+|-|-|..+|+.||.+.-+.+
T Consensus 298 l--~v~nlp~~~~~~~l~~~f~~~G~i~~~~~ 327 (509)
T TIGR01642 298 I--YIGNLPLYLGEDQIKELLESFGDLKAFNL 327 (509)
T ss_pred E--EEeCCCCCCCHHHHHHHHHhcCCeeEEEE
Confidence 2 37899999999999999999998766544
No 13
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=97.48 E-value=0.00082 Score=54.59 Aligned_cols=83 Identities=12% Similarity=0.049 Sum_probs=59.8
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeecc-CCCCCCcEEEEEEcccCCceeHhHHHhhhcc
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD-QTHSNALLLHLTIGIILRPATHYQVHLIRSA 82 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~-~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~ 82 (94)
+.|+-|||||++.|+|..++...... .+.|+++++.....+.-... ......+ +-|.|.-+.+|-|-|..+|++
T Consensus 127 ~skg~afV~F~~~e~A~~Ai~~lng~--~~~~~~i~v~~~~~~~~~~~~~~~~~~~---l~V~nl~~~~tee~L~~~F~~ 201 (562)
T TIGR01628 127 KSRGYGFVHFEKEESAKAAIQKVNGM--LLNDKEVYVGRFIKKHEREAAPLKKFTN---LYVKNLDPSVNEDKLRELFAK 201 (562)
T ss_pred CcccEEEEEECCHHHHHHHHHHhccc--EecCceEEEeccccccccccccccCCCe---EEEeCCCCcCCHHHHHHHHHh
Confidence 35788999999999999999876544 78999999975543222111 1111122 346899999999999999999
Q ss_pred ccceEEEEE
Q psy9170 83 CQVYLIVCV 91 (94)
Q Consensus 83 ~g~~~~v~~ 91 (94)
||.+.-+-+
T Consensus 202 fG~i~~~~i 210 (562)
T TIGR01628 202 FGEITSAAV 210 (562)
T ss_pred cCCEEEEEE
Confidence 997655433
No 14
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=97.35 E-value=0.0012 Score=52.49 Aligned_cols=82 Identities=11% Similarity=0.023 Sum_probs=57.3
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeecc----C-------------------CCCCCcEEE
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD----Q-------------------THSNALLLH 61 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~----~-------------------s~~~n~ILL 61 (94)
.|+.|||||++.++|..++..+... .+.|+++.+.++....-... + ...|+++|.
T Consensus 336 ~~g~afv~f~~~~~a~~A~~~l~g~--~~~~~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~ 413 (509)
T TIGR01642 336 SKGYAFCEYKDPSVTDVAIAALNGK--DTGDNKLHVQRACVGANQATIDTSNGMAPVTLLAKALSQSILQIGGKPTKVVQ 413 (509)
T ss_pred cCeEEEEEECCHHHHHHHHHHcCCC--EECCeEEEEEECccCCCCCCccccccccccccccccchhhhccccCCCceEEE
Confidence 4788999999999999999877655 68999999999764321110 0 012456665
Q ss_pred EEEcccCCc----------eeHhHHHhhhccccceEEEE
Q psy9170 62 LTIGIILRP----------ATHYQVHLIRSACQVYLIVC 90 (94)
Q Consensus 62 ~TI~n~~yp----------Itvdvlh~i~s~~g~~~~v~ 90 (94)
+ .|+.++ -+.+-|...|++||.++-|-
T Consensus 414 l--~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~ 450 (509)
T TIGR01642 414 L--TNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIV 450 (509)
T ss_pred e--ccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEE
Confidence 3 466543 33467899999999876654
No 15
>KOG0131|consensus
Probab=97.28 E-value=0.00047 Score=50.85 Aligned_cols=74 Identities=19% Similarity=0.156 Sum_probs=55.8
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhcccc
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQ 84 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g 84 (94)
.+.-||+||.++|+|.-+++-.. .+.+.|||++++-+. ..+.+ .....+ +-|.|.---|.-++||.+||+||
T Consensus 50 ~qGygF~Ef~~eedadYAikiln--~VkLYgrpIrv~kas--~~~~n-l~vgan---lfvgNLd~~vDe~~L~dtFsafG 121 (203)
T KOG0131|consen 50 HQGYGFAEFRTEEDADYAIKILN--MVKLYGRPIRVNKAS--AHQKN-LDVGAN---LFVGNLDPEVDEKLLYDTFSAFG 121 (203)
T ss_pred ccceeEEEEechhhhHHHHHHHH--HHHhcCceeEEEecc--ccccc-cccccc---ccccccCcchhHHHHHHHHHhcc
Confidence 34568999999999999988887 568899999998776 11111 111111 23788888899999999999999
Q ss_pred ce
Q psy9170 85 VY 86 (94)
Q Consensus 85 ~~ 86 (94)
+.
T Consensus 122 ~l 123 (203)
T KOG0131|consen 122 VL 123 (203)
T ss_pred cc
Confidence 65
No 16
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.20 E-value=0.0035 Score=47.47 Aligned_cols=42 Identities=12% Similarity=0.174 Sum_probs=33.8
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK 46 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~ 46 (94)
.|..|||||++.++|..+++-+......-+++++.+.+++..
T Consensus 130 ~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~ 171 (352)
T TIGR01661 130 SKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFANNP 171 (352)
T ss_pred cCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCCC
Confidence 467899999999999999998877655445678889887643
No 17
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=97.19 E-value=0.0022 Score=54.11 Aligned_cols=84 Identities=13% Similarity=0.065 Sum_probs=59.5
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeecc-----CCCCCCcEEEEEEcccCCceeHhHHHh
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD-----QTHSNALLLHLTIGIILRPATHYQVHL 78 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~-----~s~~~n~ILL~TI~n~~ypItvdvlh~ 78 (94)
+.|..|||||++.++|..++..... ..+.||++.++.+....-..+ .... ...--+=|.|.-..++-|-|..
T Consensus 147 kskGfAFVeF~s~e~A~~Ai~~lnG--~~i~GR~IkV~rp~~~p~a~~~~~~~~~~~-~~~~rLfVgnLp~~vteedLk~ 223 (612)
T TIGR01645 147 KHKGFAFVEYEVPEAAQLALEQMNG--QMLGGRNIKVGRPSNMPQAQPIIDMVQEEA-KKFNRIYVASVHPDLSETDIKS 223 (612)
T ss_pred CcCCeEEEEeCcHHHHHHHHHhcCC--eEEecceeeecccccccccccccccccccc-cccceEEeecCCCCCCHHHHHH
Confidence 4688999999999999999988754 478999999986543211000 0000 1111244678888899999999
Q ss_pred hhccccceEEEE
Q psy9170 79 IRSACQVYLIVC 90 (94)
Q Consensus 79 i~s~~g~~~~v~ 90 (94)
+|++||.+.-+-
T Consensus 224 lFs~FG~I~svr 235 (612)
T TIGR01645 224 VFEAFGEIVKCQ 235 (612)
T ss_pred HHhhcCCeeEEE
Confidence 999999876543
No 18
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=96.98 E-value=0.0015 Score=38.59 Aligned_cols=32 Identities=22% Similarity=0.302 Sum_probs=28.4
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEE
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVY 39 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vy 39 (94)
++.|||||.+.++|.++.+.+. ...++|++|+
T Consensus 39 ~~~a~v~f~~~~~a~~al~~~~--~~~~~g~~l~ 70 (70)
T PF14259_consen 39 RGFAFVEFSSEEDAKRALELLN--GKEIDGRKLR 70 (70)
T ss_dssp EEEEEEEESSHHHHHHHHHHHT--TEEETTEEEE
T ss_pred CCEEEEEeCCHHHHHHHHHHCC--CcEECCEEcC
Confidence 6899999999999999999975 5689999875
No 19
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=96.20 E-value=0.014 Score=40.37 Aligned_cols=41 Identities=24% Similarity=0.340 Sum_probs=34.7
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK 46 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~ 46 (94)
+.|.-|||||++.|+|..+++.+... .|.|+++.+.+.+.+
T Consensus 74 ~~kGfaFV~F~~~e~A~~Al~~lng~--~i~Gr~l~V~~a~~~ 114 (144)
T PLN03134 74 RSRGFGFVNFNDEGAATAAISEMDGK--ELNGRHIRVNPANDR 114 (144)
T ss_pred CcceEEEEEECCHHHHHHHHHHcCCC--EECCEEEEEEeCCcC
Confidence 34778999999999999999876544 899999999988753
No 20
>KOG0148|consensus
Probab=96.20 E-value=0.037 Score=43.26 Aligned_cols=84 Identities=14% Similarity=0.073 Sum_probs=62.8
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeec-------c---CCCCCCcEEEEEEcccCCceeH
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKT-------D---QTHSNALLLHLTIGIILRPATH 73 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~-------~---~s~~~n~ILL~TI~n~~ypItv 73 (94)
|.|..+||.|...++|.+++....-. .|.+|.|.-+.+++|--.. + +.++|.+-- |=+.|.---+|=
T Consensus 102 KsKGYgFVSf~~k~dAEnAI~~MnGq--WlG~R~IRTNWATRKp~e~n~~~ltfdeV~NQssp~Nts-VY~G~I~~~lte 178 (321)
T KOG0148|consen 102 KSKGYGFVSFPNKEDAENAIQQMNGQ--WLGRRTIRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTS-VYVGNIASGLTE 178 (321)
T ss_pred cccceeEEeccchHHHHHHHHHhCCe--eeccceeeccccccCccccCCCCccHHHHhccCCCCCce-EEeCCcCccccH
Confidence 67899999999999999999986644 9999999999999875222 1 122333321 234566557999
Q ss_pred hHHHhhhccccceEEEE
Q psy9170 74 YQVHLIRSACQVYLIVC 90 (94)
Q Consensus 74 dvlh~i~s~~g~~~~v~ 90 (94)
|.||+-||+||++-=|=
T Consensus 179 ~~mr~~Fs~fG~I~EVR 195 (321)
T KOG0148|consen 179 DLMRQTFSPFGPIQEVR 195 (321)
T ss_pred HHHHHhcccCCcceEEE
Confidence 99999999999765543
No 21
>KOG4206|consensus
Probab=96.15 E-value=0.022 Score=42.87 Aligned_cols=83 Identities=17% Similarity=0.143 Sum_probs=60.7
Q ss_pred CCCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce-e-eecc-----------------------------
Q psy9170 3 DYDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK-E-LKTD----------------------------- 51 (94)
Q Consensus 3 ~~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~-e-L~~~----------------------------- 51 (94)
+|.++||||-|.+.++|+.+......- -.-|+++.+||++.+ . +++.
T Consensus 49 ~KmRGQA~VvFk~~~~As~A~r~l~gf--pFygK~mriqyA~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~ 126 (221)
T KOG4206|consen 49 PKMRGQAFVVFKETEAASAALRALQGF--PFYGKPMRIQYAKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHF 126 (221)
T ss_pred CCccCceEEEecChhHHHHHHHHhcCC--cccCchhheecccCccchhhccCceeccccCccccccccccCCcccccccc
Confidence 567899999999999999999865544 346999999999863 2 2220
Q ss_pred --------------CCCCCCcEEEEEEcccCCceeHhHHHhhhccc-cceEEE
Q psy9170 52 --------------QTHSNALLLHLTIGIILRPATHYQVHLIRSAC-QVYLIV 89 (94)
Q Consensus 52 --------------~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~-g~~~~v 89 (94)
....||+||++| |.---.+-++|-.+|..| |-..|.
T Consensus 127 ~~~~~~~~p~p~~~~~~ppn~ilf~~--niP~es~~e~l~~lf~qf~g~keir 177 (221)
T KOG4206|consen 127 YNMNRMNLPPPFLAQMAPPNNILFLT--NIPSESESEMLSDLFEQFPGFKEIR 177 (221)
T ss_pred cccccccCCCCccccCCCCceEEEEe--cCCcchhHHHHHHHHhhCcccceeE
Confidence 013568888864 666668899999999998 444433
No 22
>KOG0110|consensus
Probab=96.13 E-value=0.026 Score=48.46 Aligned_cols=78 Identities=19% Similarity=0.194 Sum_probs=58.3
Q ss_pred ceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEecccee---eeccCCC-C-CCcEEEEEEcccCCceeHhHHHhhhc
Q psy9170 7 IQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKE---LKTDQTH-S-NALLLHLTIGIILRPATHYQVHLIRS 81 (94)
Q Consensus 7 nQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~e---L~~~~s~-~-~n~ILL~TI~n~~ypItvdvlh~i~s 81 (94)
.-|||||.+.|+|.++....+-. .|.|+.+++++|-.+. .....+. . -++|| |-|.-|--|.--+-++|+
T Consensus 561 GfgFVEF~~~e~A~~a~k~lqgt--vldGH~l~lk~S~~k~~~~~gK~~~~kk~~tKIl---VRNipFeAt~rEVr~LF~ 635 (725)
T KOG0110|consen 561 GFGFVEFAKPESAQAALKALQGT--VLDGHKLELKISENKPASTVGKKKSKKKKGTKIL---VRNIPFEATKREVRKLFT 635 (725)
T ss_pred ceeEEEecCHHHHHHHHHHhcCc--eecCceEEEEeccCccccccccccccccccceee---eeccchHHHHHHHHHHHh
Confidence 67999999999999988876633 7899999999998110 0001111 1 14555 478889999999999999
Q ss_pred cccceEEE
Q psy9170 82 ACQVYLIV 89 (94)
Q Consensus 82 ~~g~~~~v 89 (94)
+||-.+-|
T Consensus 636 aFGqlksv 643 (725)
T KOG0110|consen 636 AFGQLKSV 643 (725)
T ss_pred cccceeee
Confidence 99977655
No 23
>smart00362 RRM_2 RNA recognition motif.
Probab=95.68 E-value=0.035 Score=31.10 Aligned_cols=33 Identities=27% Similarity=0.361 Sum_probs=27.4
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEE
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYV 40 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyi 40 (94)
++.||+||.+.++|..+++.+.. ..+.|+++.+
T Consensus 39 ~~~~~v~f~~~~~a~~a~~~~~~--~~~~~~~i~v 71 (72)
T smart00362 39 KGFAFVEFESEEDAEKAIEALNG--TKLGGRPLRV 71 (72)
T ss_pred CceEEEEeCCHHHHHHHHHHhCC--cEECCEEEee
Confidence 58999999999999999887654 4678888765
No 24
>smart00360 RRM RNA recognition motif.
Probab=95.64 E-value=0.032 Score=31.07 Aligned_cols=33 Identities=27% Similarity=0.344 Sum_probs=26.7
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEE
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYV 40 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyi 40 (94)
+..||++|.+.++|..+++-+.. ..+.|+++.+
T Consensus 38 ~~~a~v~f~~~~~a~~a~~~~~~--~~~~~~~~~v 70 (71)
T smart00360 38 KGFAFVEFESEEDAEKALEALNG--KELDGRPLKV 70 (71)
T ss_pred CceEEEEeCCHHHHHHHHHHcCC--CeeCCcEEEe
Confidence 56999999999999999886663 3567887765
No 25
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=95.30 E-value=0.039 Score=31.71 Aligned_cols=33 Identities=21% Similarity=0.292 Sum_probs=27.4
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEE
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAV 38 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~v 38 (94)
+.+.-|||+|++.++|..+++.+... .+.|+++
T Consensus 37 ~~~~~a~V~F~~~~~a~~a~~~l~g~--~~~~~~i 69 (70)
T PF00076_consen 37 KSKGYAFVEFESEEDAEKALEELNGK--KINGRKI 69 (70)
T ss_dssp SEEEEEEEEESSHHHHHHHHHHHTTE--EETTEEE
T ss_pred cccceEEEEEcCHHHHHHHHHHcCCC--EECccCc
Confidence 34678999999999999999987764 7777765
No 26
>smart00361 RRM_1 RNA recognition motif.
Probab=94.97 E-value=0.077 Score=31.90 Aligned_cols=35 Identities=11% Similarity=0.158 Sum_probs=28.9
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEE
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYV 40 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyi 40 (94)
+.|.-|||+|++.++|..++...... .+.|+++.+
T Consensus 35 ~~rG~~fV~f~~~~dA~~A~~~l~g~--~~~gr~l~~ 69 (70)
T smart00361 35 HKRGNVYITFERSEDAARAIVDLNGR--YFDGRTVKA 69 (70)
T ss_pred CCcEEEEEEECCHHHHHHHHHHhCCC--EECCEEEEe
Confidence 45677999999999999999987655 788888754
No 27
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=94.80 E-value=0.093 Score=29.42 Aligned_cols=35 Identities=31% Similarity=0.420 Sum_probs=29.5
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEe
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQF 42 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqy 42 (94)
+..|+++|.+.++|..+++..... .+.|+++.+++
T Consensus 40 ~~~~~v~f~s~~~a~~a~~~~~~~--~~~~~~~~v~~ 74 (74)
T cd00590 40 KGFAFVEFEDEEDAEKALEALNGK--ELGGRPLRVEF 74 (74)
T ss_pred ceEEEEEECCHHHHHHHHHHhCCC--eECCeEEEEeC
Confidence 678999999999999999987765 47888887764
No 28
>KOG0117|consensus
Probab=94.50 E-value=0.099 Score=43.16 Aligned_cols=83 Identities=17% Similarity=0.143 Sum_probs=66.0
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhcccc
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQ 84 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g 84 (94)
++.=||||++|-.+|.....-.......+-|..+.|..-.+++=-..++- ++|-.+=|-|..-.+|-|.|-..|+.||
T Consensus 207 NRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~tVdWAep~~e~ded~m--s~VKvLYVRNL~~~tTeE~lk~~F~~~G 284 (506)
T KOG0117|consen 207 NRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAITVDWAEPEEEPDEDTM--SKVKVLYVRNLMESTTEETLKKLFNEFG 284 (506)
T ss_pred ccceEEEEeecchhHHHHHhhccCCceeecCCcceeeccCcccCCChhhh--hheeeeeeeccchhhhHHHHHHHHHhcc
Confidence 34458999999999988888888777888899999998877654333323 4455556789999999999999999999
Q ss_pred ceEEE
Q psy9170 85 VYLIV 89 (94)
Q Consensus 85 ~~~~v 89 (94)
.+.+|
T Consensus 285 ~veRV 289 (506)
T KOG0117|consen 285 KVERV 289 (506)
T ss_pred ceEEe
Confidence 76665
No 29
>KOG0123|consensus
Probab=93.97 E-value=0.24 Score=39.43 Aligned_cols=71 Identities=13% Similarity=0.074 Sum_probs=57.8
Q ss_pred ceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhccccce
Q psy9170 7 IQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQVY 86 (94)
Q Consensus 7 nQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g~~ 86 (94)
..|++.|.+.++|.+++.-+... .+.|+++.+-.|.+.--. +=|-|--=.||.+.||-.||.||.+
T Consensus 38 gy~yvnf~~~~da~~A~~~~n~~--~~~~~~~rim~s~rd~~~------------~~i~nl~~~~~~~~~~d~f~~~g~i 103 (369)
T KOG0123|consen 38 GYAYVNFQQPADAERALDTMNFD--VLKGKPIRIMWSQRDPSL------------VFIKNLDESIDNKSLYDTFSEFGNI 103 (369)
T ss_pred ceEEEecCCHHHHHHHHHHcCCc--ccCCcEEEeehhccCCce------------eeecCCCcccCcHHHHHHHHhhcCe
Confidence 46999999999999999887655 789999999988753221 5667777779999999999999988
Q ss_pred EEEEE
Q psy9170 87 LIVCV 91 (94)
Q Consensus 87 ~~v~~ 91 (94)
+=+=|
T Consensus 104 lS~kv 108 (369)
T KOG0123|consen 104 LSCKV 108 (369)
T ss_pred eEEEE
Confidence 75543
No 30
>KOG0107|consensus
Probab=93.23 E-value=0.099 Score=38.53 Aligned_cols=38 Identities=26% Similarity=0.367 Sum_probs=33.9
Q ss_pred ceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce
Q psy9170 7 IQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK 46 (94)
Q Consensus 7 nQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~ 46 (94)
.-|||||+|.-+|..++.+..-. .|.|..+-|..|+-+
T Consensus 48 GfAFVEFed~RDA~DAvr~LDG~--~~cG~r~rVE~S~G~ 85 (195)
T KOG0107|consen 48 GFAFVEFEDPRDAEDAVRYLDGK--DICGSRIRVELSTGR 85 (195)
T ss_pred CceEEeccCcccHHHHHhhcCCc--cccCceEEEEeecCC
Confidence 35999999999999999999877 788999999999864
No 31
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=92.59 E-value=0.28 Score=38.63 Aligned_cols=39 Identities=18% Similarity=0.303 Sum_probs=33.5
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEecc
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSN 44 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~ 44 (94)
+.|..|||||.+.++|..++..... ..+.|+++.|.|..
T Consensus 226 ~~~g~afV~f~~~e~A~~A~~~l~g--~~i~g~~i~v~~a~ 264 (457)
T TIGR01622 226 RSKGFGFIQFHDAEEAKEALEVMNG--FELAGRPIKVGYAQ 264 (457)
T ss_pred ccceEEEEEECCHHHHHHHHHhcCC--cEECCEEEEEEEcc
Confidence 3467899999999999999987765 58899999999954
No 32
>KOG0123|consensus
Probab=92.52 E-value=0.34 Score=38.55 Aligned_cols=84 Identities=17% Similarity=0.192 Sum_probs=57.4
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce-eeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhcccc
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK-ELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQ 84 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~-eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g 84 (94)
|.- ||||+++++|..+++-+... .+.|+++|+---..+ +...+......+.=.+.+.|-.-.+|-+-|...|+.+|
T Consensus 116 kg~-FV~f~~e~~a~~ai~~~ng~--ll~~kki~vg~~~~~~er~~~~~~~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g 192 (369)
T KOG0123|consen 116 KGY-FVQFESEESAKKAIEKLNGM--LLNGKKIYVGLFERKEEREAPLGEYKKRFTNVYVKNLEEDSTDEELKDLFSAYG 192 (369)
T ss_pred eee-EEEeCCHHHHHHHHHHhcCc--ccCCCeeEEeeccchhhhcccccchhhhhhhhheeccccccchHHHHHhhcccC
Confidence 445 99999999999999966544 899999999654443 32222211112233334444446788889999999999
Q ss_pred ceEEEEEE
Q psy9170 85 VYLIVCVL 92 (94)
Q Consensus 85 ~~~~v~~~ 92 (94)
.+.=+.|.
T Consensus 193 ~i~s~~v~ 200 (369)
T KOG0123|consen 193 SITSVAVM 200 (369)
T ss_pred cceEEEEe
Confidence 88766553
No 33
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=91.62 E-value=0.45 Score=32.55 Aligned_cols=83 Identities=18% Similarity=0.139 Sum_probs=57.4
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc----e-eeec--c----------CCCCCCcEEEEEEcc
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH----K-ELKT--D----------QTHSNALLLHLTIGI 66 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~----~-eL~~--~----------~s~~~n~ILL~TI~n 66 (94)
+.|..|||+|++.++|..++.... ...+.|+++.++.... + +... . .......--...+.|
T Consensus 155 ~~~g~~~v~f~~~~~~~~a~~~~~--~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (306)
T COG0724 155 KSRGFAFVEFESEESAEKAIEELN--GKELEGRPLRVQKAQPASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGN 232 (306)
T ss_pred ccCceEEEEecCHHHHHHHHHHcC--CCeECCceeEeeccccccccccccccccchhhhccccccccccccccceeeccc
Confidence 457899999999999999999987 4589999999999542 1 1110 0 001112233345667
Q ss_pred cCCceeHhHHHhhhccccceEE
Q psy9170 67 ILRPATHYQVHLIRSACQVYLI 88 (94)
Q Consensus 67 ~~ypItvdvlh~i~s~~g~~~~ 88 (94)
.....+.+-+-..|..+|...-
T Consensus 233 ~~~~~~~~~~~~~~~~~~~~~~ 254 (306)
T COG0724 233 LPLKTAEEELADLFKSRGDIVR 254 (306)
T ss_pred cccccchhHHHHhcccccccee
Confidence 7777888888888888886643
No 34
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=90.63 E-value=0.52 Score=37.12 Aligned_cols=41 Identities=10% Similarity=0.198 Sum_probs=33.4
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK 46 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~ 46 (94)
|.-|||||++.++|..+++.+....+.-+++++.+.+...+
T Consensus 235 kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~ 275 (346)
T TIGR01659 235 RGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEH 275 (346)
T ss_pred ceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCcc
Confidence 56899999999999999999886644445688888887753
No 35
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=90.44 E-value=0.61 Score=39.38 Aligned_cols=78 Identities=13% Similarity=0.026 Sum_probs=53.8
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeee------cc-----C-----------CCCCCcEEEEE
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELK------TD-----Q-----------THSNALLLHLT 63 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~------~~-----~-----------s~~~n~ILL~T 63 (94)
|.-|||||++.++|..++...... .+.|+++.+.+++...=+ +. . ..+|. ---.-
T Consensus 269 rgfAFVeF~s~e~A~kAi~~lnG~--~i~Gr~I~V~~Akp~~~~~~~~~~rg~gg~~~~~~~~~~~~g~~~sp~-s~~~~ 345 (578)
T TIGR01648 269 RDYAFVHFEDREDAVKAMDELNGK--ELEGSEIEVTLAKPVDKKSYVRYTRGTGGRGKERQAARQSLGQVYDPA-SRSLA 345 (578)
T ss_pred cCeEEEEeCCHHHHHHHHHHhCCC--EECCEEEEEEEccCCCcccccccccccCCCcccccccccccCcccCcc-ccccc
Confidence 568999999999999999876644 899999999999754222 00 0 00110 11123
Q ss_pred EcccCCceeHhHHHhhhccccce
Q psy9170 64 IGIILRPATHYQVHLIRSACQVY 86 (94)
Q Consensus 64 I~n~~ypItvdvlh~i~s~~g~~ 86 (94)
+.|.-|+-+-|-++..|..+|.+
T Consensus 346 ~g~~~~~~~~~~~~~~f~~~g~~ 368 (578)
T TIGR01648 346 YEDYYYHPPYAPSLHFPRMPGPI 368 (578)
T ss_pred cccccccccccchhhccccCccc
Confidence 44666777888899999988853
No 36
>KOG1456|consensus
Probab=90.23 E-value=0.54 Score=38.48 Aligned_cols=49 Identities=10% Similarity=0.145 Sum_probs=39.7
Q ss_pred CCCCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeec
Q psy9170 2 YDYDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKT 50 (94)
Q Consensus 2 ~~~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~ 50 (94)
|.|+--||+|||++.+.|+++.......-++-.=.++.|.|-+-.+|.-
T Consensus 155 fkkngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rlnV 203 (494)
T KOG1456|consen 155 FKKNGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRLNV 203 (494)
T ss_pred EeccceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcceeee
Confidence 4566679999999999999999887766555556688999998887753
No 37
>KOG0111|consensus
Probab=88.92 E-value=0.61 Score=35.87 Aligned_cols=46 Identities=17% Similarity=0.318 Sum_probs=38.7
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeecc
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD 51 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~ 51 (94)
|.+.=|||||+..|+|.++++-.... .+.||.+.++|.+-.+++-.
T Consensus 50 kHRgFgFVefe~aEDAaaAiDNMnes--EL~GrtirVN~AkP~kikeg 95 (298)
T KOG0111|consen 50 KHRGFGFVEFEEAEDAAAAIDNMNES--ELFGRTIRVNLAKPEKIKEG 95 (298)
T ss_pred cccceeEEEeeccchhHHHhhcCchh--hhcceeEEEeecCCccccCC
Confidence 34566999999999999998876655 88999999999998888764
No 38
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=88.10 E-value=1.2 Score=37.99 Aligned_cols=40 Identities=15% Similarity=0.105 Sum_probs=34.7
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
+.|.-|||||++.++|..+++....- .+.|+.+.+.++..
T Consensus 244 ksKGfGFVeFe~~e~A~kAI~amNg~--elgGr~LrV~kAi~ 283 (612)
T TIGR01645 244 GHKGYGFIEYNNLQSQSEAIASMNLF--DLGGQYLRVGKCVT 283 (612)
T ss_pred CcCCeEEEEECCHHHHHHHHHHhCCC--eeCCeEEEEEecCC
Confidence 35779999999999999999987754 88999999998774
No 39
>KOG0109|consensus
Probab=87.38 E-value=1 Score=35.64 Aligned_cols=71 Identities=18% Similarity=0.211 Sum_probs=52.6
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhcccc
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQ 84 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g 84 (94)
=||-|||-+||...|..++.-..-- .|+|..|-|.=|+.+.-.+.+ .-+.|...--|-+-|-.-|.+||
T Consensus 35 vKNYgFVHiEdktaaedairNLhgY--tLhg~nInVeaSksKsk~stk---------l~vgNis~tctn~ElRa~fe~yg 103 (346)
T KOG0109|consen 35 VKNYGFVHIEDKTAAEDAIRNLHGY--TLHGVNINVEASKSKSKASTK---------LHVGNISPTCTNQELRAKFEKYG 103 (346)
T ss_pred ecccceEEeecccccHHHHhhcccc--eecceEEEEEeccccCCCccc---------cccCCCCccccCHHHhhhhcccC
Confidence 3899999999999998877633332 789999999999887221111 13566677778888999999998
Q ss_pred ce
Q psy9170 85 VY 86 (94)
Q Consensus 85 ~~ 86 (94)
++
T Consensus 104 pv 105 (346)
T KOG0109|consen 104 PV 105 (346)
T ss_pred Cc
Confidence 54
No 40
>KOG0121|consensus
Probab=84.60 E-value=0.93 Score=32.17 Aligned_cols=30 Identities=23% Similarity=0.157 Sum_probs=24.8
Q ss_pred EEcccCCceeHhHHHhhhccccceE-EEEEE
Q psy9170 63 TIGIILRPATHYQVHLIRSACQVYL-IVCVL 92 (94)
Q Consensus 63 TI~n~~ypItvdvlh~i~s~~g~~~-~v~~~ 92 (94)
=|.|..+-.|-|-||.+||+||.++ |||=|
T Consensus 40 yVgNlSfyttEEqiyELFs~cG~irriiMGL 70 (153)
T KOG0121|consen 40 YVGNLSFYTTEEQIYELFSKCGDIRRIIMGL 70 (153)
T ss_pred EEeeeeeeecHHHHHHHHHhccchheeEecc
Confidence 5789999999999999999999654 55533
No 41
>KOG4208|consensus
Probab=81.35 E-value=2.2 Score=32.03 Aligned_cols=36 Identities=17% Similarity=0.118 Sum_probs=22.2
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEe
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQF 42 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqy 42 (94)
.|+-|||||++.|-|.=+-.-... =.+-|+-+.+.|
T Consensus 91 SKgYAFVEFEs~eVA~IaAETMNN--YLl~e~lL~c~v 126 (214)
T KOG4208|consen 91 SKGYAFVEFESEEVAKIAAETMNN--YLLMEHLLECHV 126 (214)
T ss_pred cCceEEEEeccHHHHHHHHHHhhh--hhhhhheeeeEE
Confidence 478999999999987533222211 145555555555
No 42
>KOG0113|consensus
Probab=79.63 E-value=4.4 Score=32.20 Aligned_cols=45 Identities=18% Similarity=0.205 Sum_probs=34.4
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeec
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKT 50 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~ 50 (94)
+.|..||||++++-+-.++..... -..|.|+.|.|.|-.-+..+.
T Consensus 141 kskGYAFIeye~erdm~~AYK~ad--G~~Idgrri~VDvERgRTvkg 185 (335)
T KOG0113|consen 141 KSKGYAFIEYEHERDMKAAYKDAD--GIKIDGRRILVDVERGRTVKG 185 (335)
T ss_pred CccceEEEEeccHHHHHHHHHhcc--CceecCcEEEEEecccccccc
Confidence 458899999999877655544433 569999999999987766553
No 43
>KOG0108|consensus
Probab=77.66 E-value=3.3 Score=33.94 Aligned_cols=40 Identities=20% Similarity=0.346 Sum_probs=33.9
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
+-|.-||.||.|.|+|..++.=.... .+.||++.+.|..-
T Consensus 58 ~~~G~~f~~~~~~~~~~~a~~~lNg~--~~~gr~l~v~~~~~ 97 (435)
T KOG0108|consen 58 KPKGFGFCEFTDEETAERAIRNLNGA--EFNGRKLRVNYASN 97 (435)
T ss_pred CcCceeeEecCchhhHHHHHHhcCCc--ccCCceEEeecccc
Confidence 44778999999999999998876644 88999999999764
No 44
>KOG0415|consensus
Probab=77.34 E-value=2.5 Score=34.51 Aligned_cols=36 Identities=25% Similarity=0.429 Sum_probs=30.0
Q ss_pred eEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 8 QAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
.|||||++.|+-..+ |+.-..+.|..+++.+.||.+
T Consensus 283 yaFiEFen~escE~A--yFKMdNvLIDDrRIHVDFSQS 318 (479)
T KOG0415|consen 283 YAFIEFENKESCEQA--YFKMDNVLIDDRRIHVDFSQS 318 (479)
T ss_pred eeeeeecchhhHHHH--HhhhcceeeccceEEeehhhh
Confidence 599999999987764 455556799999999999986
No 45
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=76.14 E-value=5.8 Score=22.27 Aligned_cols=29 Identities=14% Similarity=-0.009 Sum_probs=24.5
Q ss_pred EEcccCCceeHhHHHhhhccccceEEEEE
Q psy9170 63 TIGIILRPATHYQVHLIRSACQVYLIVCV 91 (94)
Q Consensus 63 TI~n~~ypItvdvlh~i~s~~g~~~~v~~ 91 (94)
-|.|.-..+|-+-|.+.|+.||.+..+-+
T Consensus 2 ~v~nlp~~~t~~~l~~~f~~~g~i~~~~~ 30 (70)
T PF00076_consen 2 YVGNLPPDVTEEELRDFFSQFGKIESIKV 30 (70)
T ss_dssp EEESETTTSSHHHHHHHHHTTSTEEEEEE
T ss_pred EEcCCCCcCCHHHHHHHHHHhhhcccccc
Confidence 47788889999999999999998865544
No 46
>KOG2202|consensus
Probab=75.60 E-value=1.7 Score=33.49 Aligned_cols=42 Identities=12% Similarity=0.218 Sum_probs=35.7
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeee
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELK 49 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~ 49 (94)
+.-+.|+|..+|+|.+|+++.... ++.|+||+..+|.-...+
T Consensus 110 ~GNVYV~f~~Ee~ae~a~~~lnnR--w~~G~pi~ae~~pvT~~r 151 (260)
T KOG2202|consen 110 VGNVYVKFRSEEDAEAALEDLNNR--WYNGRPIHAELSPVTDFR 151 (260)
T ss_pred hhhhhhhcccHHHHHHHHHHHcCc--cccCCcceeeecCcCchh
Confidence 445789999999999999998755 999999999999876543
No 47
>KOG0130|consensus
Probab=73.99 E-value=3.2 Score=29.78 Aligned_cols=39 Identities=23% Similarity=0.194 Sum_probs=28.6
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEE--Eeccc
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYV--QFSNH 45 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyi--qyS~~ 45 (94)
-|..||||.++.+.|.++++.... ..+-|+++-+ -|++.
T Consensus 113 ~KGYaLvEYet~keAq~A~~~~Ng--~~ll~q~v~VDw~Fv~g 153 (170)
T KOG0130|consen 113 VKGYALVEYETLKEAQAAIDALNG--AELLGQNVSVDWCFVKG 153 (170)
T ss_pred ccceeeeehHhHHHHHHHHHhccc--hhhhCCceeEEEEEecC
Confidence 378999999999999999987653 3556665544 45443
No 48
>PLN03120 nucleic acid binding protein; Provisional
Probab=73.75 E-value=8.6 Score=29.63 Aligned_cols=38 Identities=16% Similarity=0.176 Sum_probs=31.3
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK 46 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~ 46 (94)
+.-|||+|+|.++|..++. . +-..+.|+++-|..+..-
T Consensus 43 ~GfAFVtF~d~eaAe~All-L--nG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 43 SQIAYVTFKDPQGAETALL-L--SGATIVDQSVTITPAEDY 80 (260)
T ss_pred CCEEEEEeCcHHHHHHHHH-h--cCCeeCCceEEEEeccCC
Confidence 5679999999999999995 3 345889999999987643
No 49
>KOG0116|consensus
Probab=72.33 E-value=4.6 Score=33.02 Aligned_cols=32 Identities=19% Similarity=0.323 Sum_probs=28.8
Q ss_pred ceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEE
Q psy9170 7 IQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQ 41 (94)
Q Consensus 7 nQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiq 41 (94)
+-|||||++.+++.+.+... |..|.|++++|.
T Consensus 331 ~fgFV~f~~~~~~~~~i~As---p~~ig~~kl~Ve 362 (419)
T KOG0116|consen 331 CFGFVEFENAAAVQNAIEAS---PLEIGGRKLNVE 362 (419)
T ss_pred ceEEEEEeecchhhhhhhcC---ccccCCeeEEEE
Confidence 77999999999998888876 889999999986
No 50
>KOG0148|consensus
Probab=70.96 E-value=9 Score=30.22 Aligned_cols=41 Identities=17% Similarity=0.267 Sum_probs=33.6
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK 46 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~ 46 (94)
|.|.-|||.|++.|+|..++-... --.|.|+.|.+..-+..
T Consensus 198 k~qGYaFVrF~tkEaAahAIv~mN--ntei~G~~VkCsWGKe~ 238 (321)
T KOG0148|consen 198 KDQGYAFVRFETKEAAAHAIVQMN--NTEIGGQLVRCSWGKEG 238 (321)
T ss_pred cccceEEEEecchhhHHHHHHHhc--CceeCceEEEEeccccC
Confidence 678899999999999988777644 44899999999877653
No 51
>KOG0149|consensus
Probab=70.87 E-value=4.3 Score=31.13 Aligned_cols=39 Identities=15% Similarity=0.158 Sum_probs=31.3
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
|.|.-+||-|.|.|+|.++ |..-.+.|.||+.-++.-.-
T Consensus 52 rskGyGfVTf~d~~aa~rA---c~dp~piIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 52 RSKGYGFVTFRDAEAATRA---CKDPNPIIDGRKANCNLASL 90 (247)
T ss_pred cccceeeEEeecHHHHHHH---hcCCCCcccccccccchhhh
Confidence 5688999999999999764 45556789999998886554
No 52
>KOG0124|consensus
Probab=70.22 E-value=14 Score=30.51 Aligned_cols=78 Identities=13% Similarity=0.065 Sum_probs=54.4
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeecc---------CCCCCCcEEEEEEcccCCceeHh
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTD---------QTHSNALLLHLTIGIILRPATHY 74 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~---------~s~~~n~ILL~TI~n~~ypItvd 74 (94)
|.|.=||+|.+-.|.|.-+.+-.. -..+.||.+.+.-- +-+-.. +...=|+|-..+|+- ..+-|
T Consensus 153 kHKgFAFVEYEvPEaAqLAlEqMN--g~mlGGRNiKVgrP--sNmpQAQpiID~vqeeAk~fnRiYVaSvHp---DLSe~ 225 (544)
T KOG0124|consen 153 KHKGFAFVEYEVPEAAQLALEQMN--GQMLGGRNIKVGRP--SNMPQAQPIIDMVQEEAKKFNRIYVASVHP---DLSET 225 (544)
T ss_pred cccceEEEEEeCcHHHHHHHHHhc--cccccCccccccCC--CCCcccchHHHHHHHHHHhhheEEeeecCC---CccHH
Confidence 568889999999999988777654 45889999888711 000000 011238888887763 35667
Q ss_pred HHHhhhccccceEE
Q psy9170 75 QVHLIRSACQVYLI 88 (94)
Q Consensus 75 vlh~i~s~~g~~~~ 88 (94)
=|-.+|.+||.++-
T Consensus 226 DiKSVFEAFG~I~~ 239 (544)
T KOG0124|consen 226 DIKSVFEAFGEIVK 239 (544)
T ss_pred HHHHHHHhhcceee
Confidence 78999999998764
No 53
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=69.52 E-value=6.8 Score=25.74 Aligned_cols=39 Identities=10% Similarity=0.313 Sum_probs=25.3
Q ss_pred CCCCCceEEEEecCHHHHHHHHhhhhcc---CceEeCeEEEE
Q psy9170 2 YDYDEIQAFLEMADECAASTMVTYFTTC---VAQLRGRAVYV 40 (94)
Q Consensus 2 ~~~~KnQAfvEm~d~e~A~~~v~~~~~~---p~~irg~~vyi 40 (94)
|.++-..|+|-|.+.++|+.++...... .+.|.|..+-+
T Consensus 33 ~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~ 74 (105)
T PF08777_consen 33 FSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTL 74 (105)
T ss_dssp --TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEE
T ss_pred ecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEE
Confidence 4566779999999999999999999877 67777665533
No 54
>KOG0109|consensus
Probab=69.46 E-value=5.3 Score=31.75 Aligned_cols=43 Identities=16% Similarity=0.225 Sum_probs=35.5
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeec
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKT 50 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~ 50 (94)
|+-|||.|+-.|+|..++.-.... .+.|+++.+|.|+++--+.
T Consensus 112 kdy~fvh~d~~eda~~air~l~~~--~~~gk~m~vq~stsrlrta 154 (346)
T KOG0109|consen 112 KDYAFVHFDRAEDAVEAIRGLDNT--EFQGKRMHVQLSTSRLRTA 154 (346)
T ss_pred cceeEEEEeeccchHHHHhccccc--ccccceeeeeeeccccccC
Confidence 788999999999998887666554 7889999999999865443
No 55
>KOG4207|consensus
Probab=67.92 E-value=3.2 Score=31.64 Aligned_cols=28 Identities=4% Similarity=-0.095 Sum_probs=24.3
Q ss_pred EEEEEcccCCceeHhHHHhhhccccceE
Q psy9170 60 LHLTIGIILRPATHYQVHLIRSACQVYL 87 (94)
Q Consensus 60 LL~TI~n~~ypItvdvlh~i~s~~g~~~ 87 (94)
.-+.|.|..|--|-|-|..+|.+||.+-
T Consensus 14 ~SLkVdNLTyRTspd~LrrvFekYG~vg 41 (256)
T KOG4207|consen 14 TSLKVDNLTYRTSPDDLRRVFEKYGRVG 41 (256)
T ss_pred eeEEecceeccCCHHHHHHHHHHhCccc
Confidence 3457899999999999999999999653
No 56
>KOG0415|consensus
Probab=67.04 E-value=4.4 Score=33.15 Aligned_cols=30 Identities=13% Similarity=-0.031 Sum_probs=24.8
Q ss_pred CCCcEEEEEEcccCCceeHh-HHHhhhccccceE
Q psy9170 55 SNALLLHLTIGIILRPATHY-QVHLIRSACQVYL 87 (94)
Q Consensus 55 ~~n~ILL~TI~n~~ypItvd-vlh~i~s~~g~~~ 87 (94)
+|.+||.|-=.|| ||+| =|+.|||+||++.
T Consensus 237 PPeNVLFVCKLNP---VTtDeDLeiIFSrFG~i~ 267 (479)
T KOG0415|consen 237 PPENVLFVCKLNP---VTTDEDLEIIFSRFGKIV 267 (479)
T ss_pred CCcceEEEEecCC---cccccchhhHHhhcccce
Confidence 6889999988885 5665 6999999999865
No 57
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=62.53 E-value=12 Score=24.51 Aligned_cols=31 Identities=13% Similarity=-0.013 Sum_probs=19.3
Q ss_pred EEEEcccCCceeHhHHHhhhccccceEEEEE
Q psy9170 61 HLTIGIILRPATHYQVHLIRSACQVYLIVCV 91 (94)
Q Consensus 61 L~TI~n~~ypItvdvlh~i~s~~g~~~~v~~ 91 (94)
++.+.+.-=|++.+.|+..|+.||.+.-|-+
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~ 33 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDF 33 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE-
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEe
Confidence 5567777778999999999999998887765
No 58
>TIGR02861 SASP_H small acid-soluble spore protein, H-type. This model is derived from pfam08141 but has been expanded to include in the seed corresponding proteins from three species of Clostridium. Members of this family should occur only in endospore-forming bacteria, typically with two members per genome, but may be absent from the genomes of some endospore-forming bacteria. SspH (previously designated YfjU) was shown to be expressed specifically in spores of Bacillus subtilis.
Probab=59.55 E-value=14 Score=22.26 Aligned_cols=27 Identities=19% Similarity=0.241 Sum_probs=21.5
Q ss_pred CHHHHHHHHhhhhccCceEeCeEEEEE
Q psy9170 15 DECAASTMVTYFTTCVAQLRGRAVYVQ 41 (94)
Q Consensus 15 d~e~A~~~v~~~~~~p~~irg~~vyiq 41 (94)
|.+-|+.+++.-...+++-.|.|||++
T Consensus 2 d~~RAkeI~~S~~~i~V~Y~G~pV~Ie 28 (58)
T TIGR02861 2 DVQRAKEIAASPEMINVTYKGVPVYIE 28 (58)
T ss_pred cHHHHHHHHcCccceEEEECCEEEEEE
Confidence 455677777776677889999999998
No 59
>PRK03174 sspH acid-soluble spore protein H; Provisional
Probab=58.61 E-value=14 Score=22.37 Aligned_cols=28 Identities=14% Similarity=0.216 Sum_probs=22.2
Q ss_pred CHHHHHHHHhhhhccCceEeCeEEEEEe
Q psy9170 15 DECAASTMVTYFTTCVAQLRGRAVYVQF 42 (94)
Q Consensus 15 d~e~A~~~v~~~~~~p~~irg~~vyiqy 42 (94)
|.+-|+.+++.-...+++-.|.|||++=
T Consensus 2 d~~RAkeI~~Sp~~i~VtY~G~pV~Ie~ 29 (59)
T PRK03174 2 NTQRAQEIAESPDMANVTYNGVPIYIQH 29 (59)
T ss_pred cHHHHHHHHcCccceEEEECCEEEEEEE
Confidence 4556777777777778899999999983
No 60
>PF08141 SspH: Small acid-soluble spore protein H family; InterPro: IPR012610 This family consists of the small acid-soluble spore proteins (SASP) of the H type (sspH). SspH are unique to spores of Bacillus subtilis and are expressed only in the forespore compartment during sporulation of this organism. The sspH genes are monocistronic and are recognised by the forespore-specific sigma factor for RNA polymerase - sigma-G. The specific role of this protein is unclear but is thought to play a role in sporulation under conditions different from that of the common laboratory tests of spore properties [].; GO: 0030436 asexual sporulation, 0042601 endospore-forming forespore
Probab=58.21 E-value=14 Score=22.23 Aligned_cols=27 Identities=15% Similarity=0.163 Sum_probs=21.3
Q ss_pred CHHHHHHHHhhhhccCceEeCeEEEEE
Q psy9170 15 DECAASTMVTYFTTCVAQLRGRAVYVQ 41 (94)
Q Consensus 15 d~e~A~~~v~~~~~~p~~irg~~vyiq 41 (94)
|.+-|+.+++.-....+...|.|||++
T Consensus 2 d~~RAkeI~~S~~~i~V~y~G~pV~Ie 28 (58)
T PF08141_consen 2 DVQRAKEIAESPDMIEVTYNGVPVWIE 28 (58)
T ss_pred cHHHHHHHHcCCceEEEEECCEEEEEE
Confidence 455677777776677888999999998
No 61
>PRK01625 sspH acid-soluble spore protein H; Provisional
Probab=57.97 E-value=15 Score=22.28 Aligned_cols=28 Identities=11% Similarity=0.156 Sum_probs=22.3
Q ss_pred CHHHHHHHHhhhhccCceEeCeEEEEEe
Q psy9170 15 DECAASTMVTYFTTCVAQLRGRAVYVQF 42 (94)
Q Consensus 15 d~e~A~~~v~~~~~~p~~irg~~vyiqy 42 (94)
|.+-|+.+++.-...++.-.|.|||++=
T Consensus 2 d~~RAkeI~~S~~~i~V~Y~G~pV~Iq~ 29 (59)
T PRK01625 2 DVKRVKQILSSSSRIDVTYEGVPVWIES 29 (59)
T ss_pred cHHHHHHHHcCCcceEEEECCEEEEEEE
Confidence 4556777777777788899999999983
No 62
>PLN03121 nucleic acid binding protein; Provisional
Probab=55.06 E-value=14 Score=28.25 Aligned_cols=28 Identities=21% Similarity=0.072 Sum_probs=24.7
Q ss_pred EEEcccCCceeHhHHHhhhccccceEEE
Q psy9170 62 LTIGIILRPATHYQVHLIRSACQVYLIV 89 (94)
Q Consensus 62 ~TI~n~~ypItvdvlh~i~s~~g~~~~v 89 (94)
+-|.|.-+-+|-+-|+..||.||.+.-|
T Consensus 8 V~V~NLS~~tTE~dLrefFS~~G~I~~V 35 (243)
T PLN03121 8 AEVTNLSPKATEKDVYDFFSHCGAIEHV 35 (243)
T ss_pred EEEecCCCCCCHHHHHHHHHhcCCeEEE
Confidence 4688999999999999999999976554
No 63
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=54.74 E-value=15 Score=26.47 Aligned_cols=27 Identities=19% Similarity=0.203 Sum_probs=24.0
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCc
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVA 31 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~ 31 (94)
++-.|.|=|+|..+|..+|+++.+..|
T Consensus 124 GrqsavVvF~d~~SAC~Av~Af~s~~p 150 (166)
T PF15023_consen 124 GRQSAVVVFKDITSACKAVSAFQSRAP 150 (166)
T ss_pred CCceEEEEehhhHHHHHHHHhhcCCCC
Confidence 577899999999999999999997654
No 64
>KOG0147|consensus
Probab=52.73 E-value=15 Score=31.17 Aligned_cols=82 Identities=18% Similarity=0.104 Sum_probs=55.4
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeeeccCC---------CCCCcEEEEEEcccCCceeHh
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELKTDQT---------HSNALLLHLTIGIILRPATHY 74 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~~~~s---------~~~n~ILL~TI~n~~ypItvd 74 (94)
+.|.=|++||.|+++-..++.-. -.-+-|.||.+|-|.-.+....+. ..|.+= +=+.|.-+-||-|
T Consensus 219 rskgi~Yvef~D~~sVp~aiaLs---Gqrllg~pv~vq~sEaeknr~a~~s~a~~~k~~~~p~~r--l~vgnLHfNite~ 293 (549)
T KOG0147|consen 219 RSKGIAYVEFCDEQSVPLAIALS---GQRLLGVPVIVQLSEAEKNRAANASPALQGKGFTGPMRR--LYVGNLHFNITED 293 (549)
T ss_pred hhcceeEEEEecccchhhHhhhc---CCcccCceeEecccHHHHHHHHhccccccccccccchhh--hhhcccccCchHH
Confidence 35677899999999877766332 224668999999776543322111 122221 3467888889999
Q ss_pred HHHhhhccccceEEEE
Q psy9170 75 QVHLIRSACQVYLIVC 90 (94)
Q Consensus 75 vlh~i~s~~g~~~~v~ 90 (94)
.|-.||.|||.+--|.
T Consensus 294 ~lr~ifepfg~Ie~v~ 309 (549)
T KOG0147|consen 294 MLRGIFEPFGKIENVQ 309 (549)
T ss_pred HHhhhccCcccceeee
Confidence 9999999999665544
No 65
>KOG0153|consensus
Probab=52.21 E-value=23 Score=28.69 Aligned_cols=39 Identities=13% Similarity=0.103 Sum_probs=33.1
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
+.=|||+|.+-++|..+..-... -..|.|+++.+..+..
T Consensus 264 ~~CAFv~ftTR~aAE~Aae~~~n-~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 264 KGCAFVTFTTREAAEKAAEKSFN-KLVINGFRLKIKWGRP 302 (377)
T ss_pred cccceeeehhhHHHHHHHHhhcc-eeeecceEEEEEeCCC
Confidence 44699999999999887766555 6789999999999988
No 66
>KOG0114|consensus
Probab=52.08 E-value=27 Score=24.04 Aligned_cols=32 Identities=9% Similarity=-0.111 Sum_probs=26.9
Q ss_pred CCcEEEEEEcccCCceeHhHHHhhhccccceEEE
Q psy9170 56 NALLLHLTIGIILRPATHYQVHLIRSACQVYLIV 89 (94)
Q Consensus 56 ~n~ILL~TI~n~~ypItvdvlh~i~s~~g~~~~v 89 (94)
-|+||- |-|.-|.||.|-.+.+|-+||.++-+
T Consensus 17 vnriLy--irNLp~~ITseemydlFGkyg~IrQI 48 (124)
T KOG0114|consen 17 VNRILY--IRNLPFKITSEEMYDLFGKYGTIRQI 48 (124)
T ss_pred hheeEE--EecCCccccHHHHHHHhhcccceEEE
Confidence 367765 78999999999999999999976543
No 67
>KOG4212|consensus
Probab=51.39 E-value=23 Score=29.83 Aligned_cols=36 Identities=17% Similarity=0.217 Sum_probs=28.5
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEE
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQ 41 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiq 41 (94)
|.|.-|.|||+|.|+++.+++-.... .+.||++-+-
T Consensus 84 K~rGcavVEFk~~E~~qKa~E~lnk~--~~~GR~l~vK 119 (608)
T KOG4212|consen 84 KARGCAVVEFKDPENVQKALEKLNKY--EVNGRELVVK 119 (608)
T ss_pred CcCCceEEEeeCHHHHHHHHHHhhhc--cccCceEEEe
Confidence 45677999999999999999887755 5667776653
No 68
>KOG4207|consensus
Probab=50.36 E-value=16 Score=27.90 Aligned_cols=38 Identities=24% Similarity=0.282 Sum_probs=33.1
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
+.=|||-|.+..+|..+++..+-. .+.|+.+-||+-..
T Consensus 55 RgFaFVrf~~k~daedA~damDG~--~ldgRelrVq~ary 92 (256)
T KOG4207|consen 55 RGFAFVRFHDKRDAEDALDAMDGA--VLDGRELRVQMARY 92 (256)
T ss_pred cceeEEEeeecchHHHHHHhhcce--eeccceeeehhhhc
Confidence 456999999999999999998765 89999999998764
No 69
>KOG0117|consensus
Probab=49.82 E-value=32 Score=28.84 Aligned_cols=39 Identities=18% Similarity=0.224 Sum_probs=31.7
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEe-CeEEEEEecc
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLR-GRAVYVQFSN 44 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~ir-g~~vyiqyS~ 44 (94)
.+|..|||=|.+.+.|+.++.-+.+. .|| |+.+-+.-|-
T Consensus 123 ~nRGYAFVtf~~Ke~Aq~Aik~lnn~--Eir~GK~igvc~Sv 162 (506)
T KOG0117|consen 123 DNRGYAFVTFCTKEEAQEAIKELNNY--EIRPGKLLGVCVSV 162 (506)
T ss_pred CCcceEEEEeecHHHHHHHHHHhhCc--cccCCCEeEEEEee
Confidence 45889999999999999999988866 344 8877777664
No 70
>PLN03121 nucleic acid binding protein; Provisional
Probab=49.80 E-value=57 Score=24.99 Aligned_cols=40 Identities=20% Similarity=0.155 Sum_probs=28.7
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceee
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKEL 48 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL 48 (94)
+.-|||+|+|.++|..++.- +-..|.|++|-|.--..-++
T Consensus 44 ~gfAfVtF~d~~aaetAllL---nGa~l~d~~I~It~~~~y~~ 83 (243)
T PLN03121 44 ACTAYVTFKDAYALETAVLL---SGATIVDQRVCITRWGQYED 83 (243)
T ss_pred ceEEEEEECCHHHHHHHHhc---CCCeeCCceEEEEeCccccc
Confidence 45699999999999888843 23467888887775554444
No 71
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=49.47 E-value=12 Score=24.51 Aligned_cols=29 Identities=24% Similarity=0.226 Sum_probs=19.1
Q ss_pred CCCCcEEEEEEcccCCc---eeHhHHHhhhccccceEE
Q psy9170 54 HSNALLLHLTIGIILRP---ATHYQVHLIRSACQVYLI 88 (94)
Q Consensus 54 ~~~n~ILL~TI~n~~yp---Itvdvlh~i~s~~g~~~~ 88 (94)
++..||+.+| +| =+.| |.++||+||.+-|
T Consensus 6 P~RdHVFhlt-----FPkeWK~~D-I~qlFspfG~I~V 37 (87)
T PF08675_consen 6 PSRDHVFHLT-----FPKEWKTSD-IYQLFSPFGQIYV 37 (87)
T ss_dssp -SGCCEEEEE-------TT--HHH-HHHHCCCCCCEEE
T ss_pred CCcceEEEEe-----CchHhhhhh-HHHHhccCCcEEE
Confidence 4567888887 44 2334 6789999998765
No 72
>PLN03120 nucleic acid binding protein; Provisional
Probab=48.06 E-value=28 Score=26.86 Aligned_cols=29 Identities=14% Similarity=-0.041 Sum_probs=24.9
Q ss_pred EEEcccCCceeHhHHHhhhccccceEEEE
Q psy9170 62 LTIGIILRPATHYQVHLIRSACQVYLIVC 90 (94)
Q Consensus 62 ~TI~n~~ypItvdvlh~i~s~~g~~~~v~ 90 (94)
+-|.|.-+-+|-+-|+..|+.||.+.-|-
T Consensus 7 VfVgNLs~~tTE~dLrefFS~~G~I~~V~ 35 (260)
T PLN03120 7 VKVSNVSLKATERDIKEFFSFSGDIEYVE 35 (260)
T ss_pred EEEeCCCCCCCHHHHHHHHHhcCCeEEEE
Confidence 46889999999999999999999766553
No 73
>KOG0127|consensus
Probab=47.85 E-value=29 Score=29.92 Aligned_cols=36 Identities=22% Similarity=0.416 Sum_probs=31.5
Q ss_pred ceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEecc
Q psy9170 7 IQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSN 44 (94)
Q Consensus 7 nQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~ 44 (94)
.=|||+|.+..+|..+++.+... .|.||||-+.+--
T Consensus 159 GFaFV~fk~~~dA~~Al~~~N~~--~i~gR~VAVDWAV 194 (678)
T KOG0127|consen 159 GFAFVQFKEKKDAEKALEFFNGN--KIDGRPVAVDWAV 194 (678)
T ss_pred ceEEEEEeeHHHHHHHHHhccCc--eecCceeEEeeec
Confidence 45999999999999999998876 8999999888753
No 74
>KOG0105|consensus
Probab=47.41 E-value=18 Score=27.32 Aligned_cols=37 Identities=22% Similarity=0.174 Sum_probs=26.5
Q ss_pred ceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 7 IQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 7 nQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
.-|||||||.-+|..++.--. --...|..+.+.|-..
T Consensus 46 pfafVeFEd~RDAeDAiygRd--GYdydg~rLRVEfprg 82 (241)
T KOG0105|consen 46 PFAFVEFEDPRDAEDAIYGRD--GYDYDGCRLRVEFPRG 82 (241)
T ss_pred CeeEEEecCccchhhhhhccc--ccccCcceEEEEeccC
Confidence 359999999999988774422 2256678888887653
No 75
>KOG4206|consensus
Probab=46.37 E-value=31 Score=26.09 Aligned_cols=39 Identities=15% Similarity=0.186 Sum_probs=28.1
Q ss_pred CCCCceEEEEecCHHHHHHHHhhhhccCceEe-CeEEEEEec
Q psy9170 3 DYDEIQAFLEMADECAASTMVTYFTTCVAQLR-GRAVYVQFS 43 (94)
Q Consensus 3 ~~~KnQAfvEm~d~e~A~~~v~~~~~~p~~ir-g~~vyiqyS 43 (94)
+..+..||+||+++-.|..+.+..+.- .|+ +.++.+.|+
T Consensus 180 ~~~~~iAfve~~~d~~a~~a~~~lq~~--~it~~~~m~i~~a 219 (221)
T KOG4206|consen 180 PPRSGIAFVEFLSDRQASAAQQALQGF--KITKKNTMQITFA 219 (221)
T ss_pred cCCCceeEEecchhhhhHHHhhhhccc--eeccCceEEeccc
Confidence 456889999999999988888877643 233 555555554
No 76
>KOG0125|consensus
Probab=46.20 E-value=35 Score=27.61 Aligned_cols=39 Identities=15% Similarity=0.207 Sum_probs=34.2
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK 46 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~ 46 (94)
|.=+||-|++.++|.++..-.-.. .|.||+|-|+--+-+
T Consensus 136 KGFGFVTmen~~dadRARa~LHgt--~VEGRkIEVn~ATar 174 (376)
T KOG0125|consen 136 KGFGFVTMENPADADRARAELHGT--VVEGRKIEVNNATAR 174 (376)
T ss_pred CccceEEecChhhHHHHHHHhhcc--eeeceEEEEeccchh
Confidence 778999999999999999887766 899999999977755
No 77
>PLN03213 repressor of silencing 3; Provisional
Probab=45.98 E-value=34 Score=29.39 Aligned_cols=43 Identities=9% Similarity=0.304 Sum_probs=34.6
Q ss_pred CCceEEEEecCH--HHHHHHHhhhhccCceEeCeEEEEEeccceeee
Q psy9170 5 DEIQAFLEMADE--CAASTMVTYFTTCVAQLRGRAVYVQFSNHKELK 49 (94)
Q Consensus 5 ~KnQAfvEm~d~--e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~ 49 (94)
+|.=|||||.+. +++..+++.+... ...|+++.++--+..=|.
T Consensus 47 GRGFAFVEMssdddaEeeKAISaLNGA--EWKGR~LKVNKAKP~YLe 91 (759)
T PLN03213 47 GRSFAYIDFSPSSTNSLTKLFSTYNGC--VWKGGRLRLEKAKEHYLA 91 (759)
T ss_pred CCceEEEEecCCcHHHHHHHHHHhcCC--eecCceeEEeeccHHHHH
Confidence 467799999987 7889999988866 889999999977755333
No 78
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=45.50 E-value=35 Score=22.42 Aligned_cols=38 Identities=18% Similarity=0.165 Sum_probs=27.3
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
.+-|.+.|.+.+.|.++-.-...- .+-|.++.++|+..
T Consensus 39 ~~tAilrF~~~~~A~RA~KRmegE--dVfG~kI~v~~~~~ 76 (90)
T PF11608_consen 39 GGTAILRFPNQEFAERAQKRMEGE--DVFGNKISVSFSPK 76 (90)
T ss_dssp TT-EEEEESSHHHHHHHHHHHTT----SSSS--EEESS--
T ss_pred CCEEEEEeCCHHHHHHHHHhhccc--ccccceEEEEEcCC
Confidence 456999999999999988877655 67899999999964
No 79
>KOG4574|consensus
Probab=45.18 E-value=14 Score=33.21 Aligned_cols=46 Identities=13% Similarity=0.077 Sum_probs=40.9
Q ss_pred CCCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceee
Q psy9170 3 DYDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKEL 48 (94)
Q Consensus 3 ~~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL 48 (94)
+++=|.|++|++..|+|..+.+..+..++..-|-|..|.|++--+.
T Consensus 331 lr~~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~~ 376 (1007)
T KOG4574|consen 331 LRDLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLPM 376 (1007)
T ss_pred cccccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecccccc
Confidence 4677899999999999999999999999999999999999875443
No 80
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=43.26 E-value=39 Score=23.08 Aligned_cols=29 Identities=10% Similarity=-0.135 Sum_probs=24.1
Q ss_pred EEcccCCceeHhHHHhhhccccceEEEEE
Q psy9170 63 TIGIILRPATHYQVHLIRSACQVYLIVCV 91 (94)
Q Consensus 63 TI~n~~ypItvdvlh~i~s~~g~~~~v~~ 91 (94)
=|.|.-+.+|-+-|-.+|++||.+..+-+
T Consensus 38 fVgnL~~~~te~~L~~~F~~~G~I~~v~i 66 (144)
T PLN03134 38 FIGGLSWGTDDASLRDAFAHFGDVVDAKV 66 (144)
T ss_pred EEeCCCCCCCHHHHHHHHhcCCCeEEEEE
Confidence 35699999999999999999997665543
No 81
>PLN03213 repressor of silencing 3; Provisional
Probab=41.21 E-value=32 Score=29.56 Aligned_cols=33 Identities=15% Similarity=0.041 Sum_probs=28.7
Q ss_pred EEEEEcccCCceeHhHHHhhhccccceEEEEEE
Q psy9170 60 LHLTIGIILRPATHYQVHLIRSACQVYLIVCVL 92 (94)
Q Consensus 60 LL~TI~n~~ypItvdvlh~i~s~~g~~~~v~~~ 92 (94)
.-+=|.|.-|.||-|=|-.+|++||.++.|-+.
T Consensus 11 MRIYVGNLSydVTEDDLravFSeFGsVkdVEIp 43 (759)
T PLN03213 11 VRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV 43 (759)
T ss_pred eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe
Confidence 344689999999999999999999999888764
No 82
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=39.84 E-value=6.3 Score=22.28 Aligned_cols=19 Identities=26% Similarity=0.415 Sum_probs=15.5
Q ss_pred eEEEEecCHHHHHHHHhhh
Q psy9170 8 QAFLEMADECAASTMVTYF 26 (94)
Q Consensus 8 QAfvEm~d~e~A~~~v~~~ 26 (94)
.|++||.|.++|+...+=-
T Consensus 7 ~ayie~Gd~e~Ar~lL~ev 25 (44)
T TIGR03504 7 RAYIEMGDLEGARELLEEV 25 (44)
T ss_pred HHHHHcCChHHHHHHHHHH
Confidence 4789999999999887643
No 83
>KOG3896|consensus
Probab=39.52 E-value=13 Score=30.24 Aligned_cols=21 Identities=10% Similarity=0.017 Sum_probs=17.7
Q ss_pred CCcEEEEEEcccCCceeHhHHH
Q psy9170 56 NALLLHLTIGIILRPATHYQVH 77 (94)
Q Consensus 56 ~n~ILL~TI~n~~ypItvdvlh 77 (94)
.++||| +++||.|..|.|.|-
T Consensus 311 ~s~vlL-~lTNpv~~~t~~ll~ 331 (449)
T KOG3896|consen 311 TSHVLL-SLTNPVSSSTMDLLI 331 (449)
T ss_pred cceEEE-EecCcchhhhheeee
Confidence 477777 999999999998874
No 84
>KOG0147|consensus
Probab=39.38 E-value=46 Score=28.36 Aligned_cols=36 Identities=17% Similarity=0.236 Sum_probs=29.7
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEE
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQ 41 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiq 41 (94)
..|.++|++|.+.+.|..+..-... ..|.|+++.+.
T Consensus 318 ~skgfGfi~f~~~~~ar~a~e~lng--felAGr~ikV~ 353 (549)
T KOG0147|consen 318 RSKGFGFITFVNKEDARKALEQLNG--FELAGRLIKVS 353 (549)
T ss_pred cccCcceEEEecHHHHHHHHHHhcc--ceecCceEEEE
Confidence 3589999999999999988665554 78999998865
No 85
>KOG0115|consensus
Probab=38.86 E-value=43 Score=26.09 Aligned_cols=46 Identities=20% Similarity=0.185 Sum_probs=34.6
Q ss_pred ceEeCeEEEEEeccceeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhccccc-eEEEE
Q psy9170 31 AQLRGRAVYVQFSNHKELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQV-YLIVC 90 (94)
Q Consensus 31 ~~irg~~vyiqyS~~~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g~-~~~v~ 90 (94)
-..+|+.+.+-|-.|++| +|.|..--+.-|.||+-|+.||+ ..-|+
T Consensus 17 ~~~~~~~lr~rfa~~a~l--------------~V~nl~~~~sndll~~~f~~fg~~e~av~ 63 (275)
T KOG0115|consen 17 RFPKGRSLRVRFAMHAEL--------------YVVNLMQGASNDLLEQAFRRFGPIERAVA 63 (275)
T ss_pred CCCCCCceEEEeeccceE--------------EEEecchhhhhHHHHHhhhhcCccchhee
Confidence 355788888888888666 56666666889999999999994 44443
No 86
>KOG0114|consensus
Probab=38.04 E-value=71 Score=22.00 Aligned_cols=39 Identities=15% Similarity=0.155 Sum_probs=31.1
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
.+.-|||=.+|+.+|+.++.+...- .+.++.+-+-|-++
T Consensus 56 TrGTAFVVYedi~dAk~A~dhlsg~--n~~~ryl~vlyyq~ 94 (124)
T KOG0114|consen 56 TRGTAFVVYEDIFDAKKACDHLSGY--NVDNRYLVVLYYQP 94 (124)
T ss_pred cCceEEEEehHhhhHHHHHHHhccc--ccCCceEEEEecCH
Confidence 3678999999999999999998754 56677777777664
No 87
>KOG1457|consensus
Probab=36.41 E-value=22 Score=27.53 Aligned_cols=25 Identities=12% Similarity=0.109 Sum_probs=21.5
Q ss_pred ceEEEEecCHHHHHHHHhhhhccCc
Q psy9170 7 IQAFLEMADECAASTMVTYFTTCVA 31 (94)
Q Consensus 7 nQAfvEm~d~e~A~~~v~~~~~~p~ 31 (94)
.=||+||+|+|.|..+.++.+.+.+
T Consensus 249 ~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 249 PVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred ceEeecHHHHHHHHHHHHHhhccee
Confidence 3599999999999999999887644
No 88
>PRK09993 C-lysozyme inhibitor; Provisional
Probab=36.31 E-value=17 Score=26.07 Aligned_cols=40 Identities=10% Similarity=0.208 Sum_probs=27.3
Q ss_pred CCCCCCceE---EEEecCHHHHHHHHhhhhccCceEeCeEEEE
Q psy9170 1 MYDYDEIQA---FLEMADECAASTMVTYFTTCVAQLRGRAVYV 40 (94)
Q Consensus 1 ~~~~~KnQA---fvEm~d~e~A~~~v~~~~~~p~~irg~~vyi 40 (94)
+|.++|+|| |++.+|...+..+.=.-...-+.|.||+|.+
T Consensus 94 ~fs~dkk~a~Gvlv~vd~k~~~~~l~WL~~~d~~sidg~tvl~ 136 (153)
T PRK09993 94 LWSEKSNQMTGVFSTIDEKTSQEKLTWLNVNDALSIDGKTVLF 136 (153)
T ss_pred EEcCCCcceEEEEEEcCCCcChhheeeecCCCCcccccceeeH
Confidence 367788886 7777777777554433334556899998865
No 89
>PF12631 GTPase_Cys_C: Catalytic cysteine-containing C-terminus of GTPase, MnmE; PDB: 1XZQ_A 1XZP_A 2GJ8_D 3GEH_A 3GEI_B 3GEE_A.
Probab=35.62 E-value=21 Score=21.68 Aligned_cols=13 Identities=23% Similarity=-0.013 Sum_probs=9.7
Q ss_pred eeHhHHHhhhccc
Q psy9170 71 ATHYQVHLIRSAC 83 (94)
Q Consensus 71 Itvdvlh~i~s~~ 83 (94)
.+=|+|..|||.|
T Consensus 60 ~~ediLd~IFs~F 72 (73)
T PF12631_consen 60 VTEDILDNIFSNF 72 (73)
T ss_dssp --HHHHHHHHCTS
T ss_pred ChHHHHHHHHHhh
Confidence 4678999999987
No 90
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=35.31 E-value=40 Score=22.38 Aligned_cols=20 Identities=15% Similarity=0.046 Sum_probs=16.6
Q ss_pred CceEEEEecCHHHHHHHHhh
Q psy9170 6 EIQAFLEMADECAASTMVTY 25 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~ 25 (94)
-+-.++||+|.+.|.+|.+.
T Consensus 53 tr~vviEFps~~~ar~~y~S 72 (96)
T COG5470 53 TRNVVIEFPSLEAARDCYNS 72 (96)
T ss_pred ccEEEEEcCCHHHHHHHhcC
Confidence 46789999999999887653
No 91
>KOG0127|consensus
Probab=34.55 E-value=78 Score=27.43 Aligned_cols=40 Identities=20% Similarity=0.267 Sum_probs=32.4
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhcc----CceEeCeEEEEEec
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTC----VAQLRGRAVYVQFS 43 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~----p~~irg~~vyiqyS 43 (94)
+.|.-||+.|.+..+|+.|+...+.. ...+.||.+-+.-.
T Consensus 332 ~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~Lkv~~A 375 (678)
T KOG0127|consen 332 HSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRLLKVTLA 375 (678)
T ss_pred CcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccEEeeeec
Confidence 56888999999999999999988421 26788998887743
No 92
>PF07045 DUF1330: Protein of unknown function (DUF1330); InterPro: IPR010753 This family consists of several hypothetical bacterial proteins of around 90 residues in length. The function of this family is unknown.; PDB: 2FIU_B 3HHL_A 3DCA_D 3LO3_I.
Probab=34.00 E-value=48 Score=19.47 Aligned_cols=20 Identities=15% Similarity=0.097 Sum_probs=16.0
Q ss_pred CceEEEEecCHHHHHHHHhh
Q psy9170 6 EIQAFLEMADECAASTMVTY 25 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~ 25 (94)
..-.++||.|.+.|.++.+.
T Consensus 39 ~~~viieFPs~~aa~~~~~s 58 (65)
T PF07045_consen 39 DRVVIIEFPSMEAAKAWYNS 58 (65)
T ss_dssp SEEEEEEESSHHHHHHHHCS
T ss_pred CeEEEEECCCHHHHHHHHCC
Confidence 34579999999999887653
No 93
>KOG0120|consensus
Probab=31.01 E-value=85 Score=26.46 Aligned_cols=37 Identities=19% Similarity=0.292 Sum_probs=29.7
Q ss_pred ceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccc
Q psy9170 7 IQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNH 45 (94)
Q Consensus 7 nQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~ 45 (94)
.-.||||+|.++++.+.....-. ...||.|-..|--.
T Consensus 455 GkVFVefas~ed~qrA~~~L~Gr--KF~nRtVvtsYyde 491 (500)
T KOG0120|consen 455 GKVFVEFADTEDSQRAMEELTGR--KFANRTVVASYYDE 491 (500)
T ss_pred ccEEEEecChHHHHHHHHHccCc--eeCCcEEEEEecCH
Confidence 35799999999999998887766 67788887777543
No 94
>PF02343 TRA-1_regulated: TRA-1 regulated protein R03H10.4; InterPro: IPR003326 This family of proteins represents the protein product of the gene R03H10.4 which is located near a sequence that matches the TRA-1 binding consensus. TRA-1 is a transcription factor which controls sexual differentiation in C.elegans. R03H10.4 shows male-enriched reporter gene expression and acts as a direct target of TRA-1 regulation [].
Probab=30.55 E-value=63 Score=21.89 Aligned_cols=38 Identities=13% Similarity=-0.101 Sum_probs=23.9
Q ss_pred eeeeccCCCCCCcEEEEEEcccCCceeHhHHHhhhccccce
Q psy9170 46 KELKTDQTHSNALLLHLTIGIILRPATHYQVHLIRSACQVY 86 (94)
Q Consensus 46 ~eL~~~~s~~~n~ILL~TI~n~~ypItvdvlh~i~s~~g~~ 86 (94)
.||.++. ..+....+.+.+|..+...+-+ .+||-||.+
T Consensus 49 SEIp~P~--~~~~~~~~~~~~p~~~~~~~~~-d~fs~FGii 86 (131)
T PF02343_consen 49 SEIPRPD--DPDDSDAFDIIPPDSPEPGGGI-DIFSYFGII 86 (131)
T ss_pred ccccCCC--CCCCcceEEecCCCcccccCcc-chhhhcCeE
Confidence 7887763 2334556666677665544332 789999964
No 95
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=29.93 E-value=76 Score=21.12 Aligned_cols=26 Identities=12% Similarity=0.192 Sum_probs=21.6
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccC
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCV 30 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p 30 (94)
++.-+|++|.|.+.|......|...|
T Consensus 53 nrymVLikF~~~~~Ad~Fy~~fNGk~ 78 (110)
T PF07576_consen 53 NRYMVLIKFRDQESADEFYEEFNGKP 78 (110)
T ss_pred ceEEEEEEECCHHHHHHHHHHhCCCc
Confidence 44568999999999999998887554
No 96
>KOG4660|consensus
Probab=29.78 E-value=31 Score=29.37 Aligned_cols=25 Identities=12% Similarity=-0.055 Sum_probs=21.8
Q ss_pred EEcccCCceeHhHHHhhhccccceE
Q psy9170 63 TIGIILRPATHYQVHLIRSACQVYL 87 (94)
Q Consensus 63 TI~n~~ypItvdvlh~i~s~~g~~~ 87 (94)
.|.|.--.|+=|-||.+|+.||.++
T Consensus 79 ~v~nl~~~Vsn~~L~~~f~~yGeir 103 (549)
T KOG4660|consen 79 VVFNLPRSVSNDTLLRIFGAYGEIR 103 (549)
T ss_pred EEEecCCcCCHHHHHHHHHhhcchh
Confidence 4568888899999999999999875
No 97
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=29.15 E-value=72 Score=18.22 Aligned_cols=20 Identities=10% Similarity=0.008 Sum_probs=15.8
Q ss_pred CCCCceEEEEecCHHHHHHH
Q psy9170 3 DYDEIQAFLEMADECAASTM 22 (94)
Q Consensus 3 ~~~KnQAfvEm~d~e~A~~~ 22 (94)
+.+++-+++++++..+|..+
T Consensus 33 ~~~~~~~~l~y~~~~~ae~A 52 (53)
T PF14605_consen 33 PESTNWMYLKYKSRKDAEKA 52 (53)
T ss_pred CCCCcEEEEEECCHHHHHhh
Confidence 44678889999998888765
No 98
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=25.61 E-value=95 Score=20.90 Aligned_cols=30 Identities=13% Similarity=0.009 Sum_probs=25.1
Q ss_pred EEEcccCCceeHhHHHhhhccccceEEEEE
Q psy9170 62 LTIGIILRPATHYQVHLIRSACQVYLIVCV 91 (94)
Q Consensus 62 ~TI~n~~ypItvdvlh~i~s~~g~~~~v~~ 91 (94)
+=|.|.-+.+|=|-|...|+.||.+..+.+
T Consensus 118 l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~ 147 (306)
T COG0724 118 LFVGNLPYDVTEEDLRELFKKFGPVKRVRL 147 (306)
T ss_pred EEEeCCCCCCCHHHHHHHHHhcCceeEEEe
Confidence 346788899999999999999998865544
No 99
>KOG0129|consensus
Probab=25.19 E-value=4.3e+02 Score=22.53 Aligned_cols=77 Identities=19% Similarity=0.275 Sum_probs=53.1
Q ss_pred eEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce----eeec------c-----CCC---CCCcEEEEEEcccCC
Q psy9170 8 QAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK----ELKT------D-----QTH---SNALLLHLTIGIILR 69 (94)
Q Consensus 8 QAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~----eL~~------~-----~s~---~~n~ILL~TI~n~~y 69 (94)
.+|+=|+|+.+-.+++..|.. .+...|+..|... +... + +.. .|-+ -|=|.-.=.
T Consensus 308 YvflvFe~E~sV~~Ll~aC~~-----~~~~~yf~vss~~~k~k~VQIrPW~laDs~fv~d~sq~lDprr--TVFVGgvpr 380 (520)
T KOG0129|consen 308 YVFLVFEDERSVQSLLSACSE-----GEGNYYFKVSSPTIKDKEVQIRPWVLADSDFVLDHNQPIDPRR--TVFVGGLPR 380 (520)
T ss_pred EEEEEecchHHHHHHHHHHhh-----cccceEEEEecCcccccceeEEeeEeccchhhhccCcccCccc--eEEecCCCC
Confidence 899999999999999999986 4557777666542 1111 0 001 1222 233556667
Q ss_pred ceeHhHHHhhhc-cccceEEEEE
Q psy9170 70 PATHYQVHLIRS-ACQVYLIVCV 91 (94)
Q Consensus 70 pItvdvlh~i~s-~~g~~~~v~~ 91 (94)
|.|.+.|+.||+ -||.+.-|..
T Consensus 381 pl~A~eLA~imd~lyGgV~yaGI 403 (520)
T KOG0129|consen 381 PLTAEELAMIMEDLFGGVLYVGI 403 (520)
T ss_pred cchHHHHHHHHHHhcCceEEEEe
Confidence 999999999999 5798876654
No 100
>TIGR02490 flgF flagellar basal-body rod protein FlgF. Members of this protein are FlgF, one of several homologous flagellar basal-body rod proteins in bacteria.
Probab=23.14 E-value=56 Score=20.40 Aligned_cols=22 Identities=32% Similarity=0.398 Sum_probs=18.5
Q ss_pred CceEEEEecCHHHHHHHHhhhh
Q psy9170 6 EIQAFLEMADECAASTMVTYFT 27 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~ 27 (94)
-.|+++|..+.+.+..|++--.
T Consensus 62 v~qG~LE~SNVd~~~Em~~mi~ 83 (89)
T TIGR02490 62 VVQGYLEGSNVNAVSEMVDMIE 83 (89)
T ss_pred EecceEEcCCcCHHHHHHHHHH
Confidence 3589999999999999987654
No 101
>KOG0106|consensus
Probab=22.54 E-value=47 Score=24.90 Aligned_cols=34 Identities=24% Similarity=0.332 Sum_probs=25.9
Q ss_pred CCceEEEEecCHHHHHHHHhhhhccCceEeCeEEEE
Q psy9170 5 DEIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYV 40 (94)
Q Consensus 5 ~KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyi 40 (94)
..|.||+||+..++|+.+.+-.... .+.|+++-+
T Consensus 132 ~~~~~~v~Fs~~~da~ra~~~l~~~--~~~~~~l~~ 165 (216)
T KOG0106|consen 132 RRNFAFVEFSEQEDAKRALEKLDGK--KLNGRRISV 165 (216)
T ss_pred hccccceeehhhhhhhhcchhccch--hhcCceeee
Confidence 3588999999999999988776543 556666655
No 102
>COG4075 Uncharacterized conserved protein, homolog of nitrogen regulatory protein PII [Function unknown]
Probab=22.48 E-value=62 Score=21.85 Aligned_cols=31 Identities=13% Similarity=0.116 Sum_probs=24.5
Q ss_pred CCCceEEEEecCHHHHHHHHhhhhccCceEe
Q psy9170 4 YDEIQAFLEMADECAASTMVTYFTTCVAQLR 34 (94)
Q Consensus 4 ~~KnQAfvEm~d~e~A~~~v~~~~~~p~~ir 34 (94)
++|-|+|--=+|.|+|..+++.++...+.|.
T Consensus 41 Pd~wkgf~~~EDpE~aik~i~D~s~~AVlI~ 71 (110)
T COG4075 41 PDKWKGFSKEEDPESAIKAIRDLSDKAVLIG 71 (110)
T ss_pred hhHhcCcccccCHHHHHHHHHHhhhceEEEE
Confidence 4566777777999999999999887766554
No 103
>KOG4586|consensus
Probab=21.39 E-value=74 Score=22.66 Aligned_cols=30 Identities=23% Similarity=0.574 Sum_probs=24.1
Q ss_pred HHHhhhh--ccCceEe--CeEEEEEeccceeeec
Q psy9170 21 TMVTYFT--TCVAQLR--GRAVYVQFSNHKELKT 50 (94)
Q Consensus 21 ~~v~~~~--~~p~~ir--g~~vyiqyS~~~eL~~ 50 (94)
-++.+|+ .+|+.|| |+=+++-|+...||+.
T Consensus 111 PlI~rfCG~~nPp~Irs~grFlWIkF~sD~ele~ 144 (156)
T KOG4586|consen 111 PLIARFCGDRNPPEIRSVGRFLWIKFRSDSELEY 144 (156)
T ss_pred HHHHHHhccCCChhheecCcEEEEEEcccchhhh
Confidence 3566665 5788888 9999999999988865
No 104
>KOG0145|consensus
Probab=20.99 E-value=4.4e+02 Score=21.03 Aligned_cols=41 Identities=12% Similarity=0.137 Sum_probs=31.9
Q ss_pred CceEEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccce
Q psy9170 6 EIQAFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHK 46 (94)
Q Consensus 6 KnQAfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~ 46 (94)
|.=+|+.|+..++|..++.-.....|.=.-.|+-+-|++-.
T Consensus 169 rGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFannP 209 (360)
T KOG0145|consen 169 RGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFANNP 209 (360)
T ss_pred cceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEecCCc
Confidence 56689999999999999888875555555667788888754
No 105
>KOG1996|consensus
Probab=20.95 E-value=1e+02 Score=24.84 Aligned_cols=39 Identities=23% Similarity=0.261 Sum_probs=31.1
Q ss_pred EEEEecCHHHHHHHHhhhhccCceEeCeEEEEEeccceeee
Q psy9170 9 AFLEMADECAASTMVTYFTTCVAQLRGRAVYVQFSNHKELK 49 (94)
Q Consensus 9 AfvEm~d~e~A~~~v~~~~~~p~~irg~~vyiqyS~~~eL~ 49 (94)
-||||+..++|..++-..... +..||.|---|.+.....
T Consensus 332 iFveF~r~e~aiKA~VdlnGR--yFGGr~v~A~Fyn~ekfs 370 (378)
T KOG1996|consen 332 IFVEFERVESAIKAVVDLNGR--YFGGRVVSACFYNLEKFS 370 (378)
T ss_pred eeeeeccHHHHHHHHHhcCCc--eecceeeeheeccHHhhh
Confidence 599999999998887766555 889999988887765553
Done!