Query 031896
Match_columns 151
No_of_seqs 125 out of 173
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 06:51:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031896.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031896hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4285 Mitotic phosphoprotein 100.0 7.2E-41 1.6E-45 283.1 12.8 139 5-151 196-350 (350)
2 PF05172 Nup35_RRM: Nup53/35/4 100.0 2.7E-36 5.8E-41 220.6 7.3 83 4-86 4-98 (100)
3 PF14605 Nup35_RRM_2: Nup53/35 99.7 1.4E-17 3E-22 108.7 6.0 53 6-59 1-53 (53)
4 PF13893 RRM_5: RNA recognitio 98.4 3E-06 6.5E-11 54.0 7.7 53 22-75 1-54 (56)
5 PF00076 RRM_1: RNA recognitio 98.2 8.1E-06 1.8E-10 52.5 6.2 62 9-70 1-68 (70)
6 PLN03120 nucleic acid binding 98.0 5.4E-05 1.2E-09 63.9 9.8 74 6-80 4-80 (260)
7 cd00590 RRM RRM (RNA recogniti 98.0 0.0001 2.2E-09 46.3 8.8 62 9-70 2-69 (74)
8 smart00362 RRM_2 RNA recogniti 98.0 9.3E-05 2E-09 46.2 8.4 62 9-70 2-68 (72)
9 PF08952 DUF1866: Domain of un 97.8 4.1E-05 8.9E-10 59.7 4.9 62 14-79 45-106 (146)
10 PLN03134 glycine-rich RNA-bind 97.7 0.00053 1.1E-08 52.5 9.6 73 6-79 34-113 (144)
11 PF14259 RRM_6: RNA recognitio 97.7 0.00016 3.5E-09 47.2 5.9 62 9-70 1-68 (70)
12 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.6 0.00064 1.4E-08 57.0 9.5 72 7-79 270-348 (352)
13 smart00360 RRM RNA recognition 97.5 0.00056 1.2E-08 42.4 6.8 59 12-70 2-67 (71)
14 PLN03121 nucleic acid binding 97.4 0.0012 2.6E-08 55.4 9.5 74 5-79 4-80 (243)
15 TIGR01628 PABP-1234 polyadenyl 97.1 0.0039 8.5E-08 56.2 9.4 73 6-79 285-363 (562)
16 TIGR01622 SF-CC1 splicing fact 97.1 0.0025 5.4E-08 55.6 7.9 60 19-79 386-447 (457)
17 TIGR01649 hnRNP-L_PTB hnRNP-L/ 97.0 0.0053 1.2E-07 54.9 9.9 72 6-78 275-349 (481)
18 TIGR01659 sex-lethal sex-letha 97.0 0.0041 9E-08 54.1 8.6 75 6-80 193-275 (346)
19 TIGR01661 ELAV_HUD_SF ELAV/HuD 97.0 0.0061 1.3E-07 51.1 9.3 69 6-75 3-78 (352)
20 TIGR01622 SF-CC1 splicing fact 97.0 0.0069 1.5E-07 52.8 9.9 70 6-76 89-164 (457)
21 TIGR01659 sex-lethal sex-letha 97.0 0.0049 1.1E-07 53.6 8.7 71 4-75 105-182 (346)
22 smart00361 RRM_1 RNA recogniti 96.9 0.0058 1.3E-07 40.7 6.7 50 21-70 4-66 (70)
23 TIGR01648 hnRNP-R-Q heterogene 96.8 0.011 2.4E-07 54.9 9.8 70 7-80 234-307 (578)
24 TIGR01642 U2AF_lg U2 snRNP aux 96.7 0.0078 1.7E-07 53.1 8.1 59 20-79 434-501 (509)
25 KOG0149 Predicted RNA-binding 96.6 0.0053 1.1E-07 51.5 6.1 64 7-70 13-82 (247)
26 TIGR01645 half-pint poly-U bin 96.5 0.017 3.7E-07 54.1 9.0 70 7-77 205-281 (612)
27 KOG0148 Apoptosis-promoting RN 96.5 0.014 3.1E-07 50.1 7.8 72 4-77 162-235 (321)
28 TIGR01645 half-pint poly-U bin 96.4 0.013 2.9E-07 54.8 7.9 65 6-70 107-178 (612)
29 TIGR01628 PABP-1234 polyadenyl 96.3 0.024 5.1E-07 51.2 9.0 69 8-77 2-77 (562)
30 TIGR01649 hnRNP-L_PTB hnRNP-L/ 96.0 0.05 1.1E-06 48.7 9.4 62 7-69 3-68 (481)
31 TIGR01642 U2AF_lg U2 snRNP aux 96.0 0.059 1.3E-06 47.6 9.6 71 6-77 295-372 (509)
32 KOG0121 Nuclear cap-binding pr 95.6 0.023 5E-07 44.2 4.7 58 18-76 49-112 (153)
33 COG0724 RNA-binding proteins ( 95.1 0.24 5.3E-06 37.5 8.9 71 6-77 115-192 (306)
34 COG5175 MOT2 Transcriptional r 94.9 0.065 1.4E-06 47.6 6.0 69 2-70 110-194 (480)
35 KOG0117 Heterogeneous nuclear 94.8 0.1 2.3E-06 47.4 7.1 57 20-80 274-331 (506)
36 TIGR01648 hnRNP-R-Q heterogene 94.6 0.16 3.6E-06 47.3 8.1 69 6-75 58-133 (578)
37 KOG0125 Ataxin 2-binding prote 94.3 0.073 1.6E-06 46.8 4.7 69 8-77 98-171 (376)
38 KOG4207 Predicted splicing fac 92.6 0.22 4.8E-06 41.6 4.8 57 18-76 26-89 (256)
39 KOG4660 Protein Mei2, essentia 91.6 0.24 5.3E-06 45.9 4.2 66 5-70 74-141 (549)
40 KOG0153 Predicted RNA-binding 90.4 0.77 1.7E-05 40.7 6.1 68 11-80 233-303 (377)
41 PF10309 DUF2414: Protein of u 90.4 1.3 2.9E-05 29.8 5.9 54 4-61 3-61 (62)
42 PF08777 RRM_3: RNA binding mo 90.1 1.3 2.8E-05 32.3 6.2 68 8-77 3-77 (105)
43 KOG0147 Transcriptional coacti 89.3 0.78 1.7E-05 42.6 5.4 63 13-76 461-524 (549)
44 KOG0114 Predicted RNA-binding 88.7 4.1 8.9E-05 30.9 8.0 64 13-76 25-92 (124)
45 KOG0123 Polyadenylate-binding 88.6 1.9 4.1E-05 38.1 7.2 68 11-79 81-154 (369)
46 PF11608 Limkain-b1: Limkain b 88.1 4 8.7E-05 29.6 7.3 64 7-75 3-72 (90)
47 KOG0120 Splicing factor U2AF, 86.5 2.5 5.4E-05 39.1 6.9 61 18-79 422-491 (500)
48 KOG0144 RNA-binding protein CU 85.7 2.2 4.9E-05 39.0 6.1 63 18-80 47-117 (510)
49 KOG0122 Translation initiation 84.4 5.6 0.00012 34.0 7.5 74 5-79 188-268 (270)
50 PLN03213 repressor of silencin 83.6 13 0.00028 35.0 10.1 76 4-80 8-88 (759)
51 KOG0123 Polyadenylate-binding 83.3 4.7 0.0001 35.6 7.0 63 11-76 5-71 (369)
52 KOG0130 RNA-binding protein RB 83.1 3.5 7.5E-05 32.6 5.4 71 7-78 72-150 (170)
53 KOG0147 Transcriptional coacti 82.9 2.6 5.7E-05 39.2 5.4 58 19-76 292-356 (549)
54 KOG4206 Spliceosomal protein s 82.7 3.4 7.3E-05 34.5 5.5 47 25-71 33-82 (221)
55 KOG0146 RNA-binding protein ET 82.0 3.2 7E-05 36.1 5.3 63 4-66 283-352 (371)
56 KOG0127 Nucleolar protein fibr 80.5 6.5 0.00014 37.1 7.0 56 20-77 132-193 (678)
57 KOG0117 Heterogeneous nuclear 79.6 8.3 0.00018 35.5 7.3 86 6-91 83-188 (506)
58 KOG2135 Proteins containing th 79.2 1.6 3.6E-05 40.1 2.7 61 17-79 385-445 (526)
59 KOG0113 U1 small nuclear ribon 78.1 8.5 0.00018 33.7 6.6 54 18-71 114-173 (335)
60 KOG0109 RNA-binding protein LA 77.2 4.9 0.00011 35.2 4.9 55 18-76 15-70 (346)
61 KOG4209 Splicing factor RNPS1, 75.7 3.9 8.6E-05 33.9 3.8 68 7-76 104-176 (231)
62 KOG2202 U2 snRNP splicing fact 75.5 1.8 3.8E-05 36.9 1.7 61 19-79 82-149 (260)
63 KOG0107 Alternative splicing f 74.7 14 0.0003 30.2 6.6 74 6-80 10-85 (195)
64 KOG0126 Predicted RNA-binding 73.9 0.75 1.6E-05 37.8 -0.8 72 4-76 33-111 (219)
65 KOG0127 Nucleolar protein fibr 73.9 6.5 0.00014 37.1 5.1 78 6-84 5-89 (678)
66 KOG2314 Translation initiation 70.5 20 0.00044 34.0 7.5 76 6-81 58-145 (698)
67 KOG2591 c-Mpl binding protein, 69.8 6.2 0.00014 37.3 4.0 69 7-77 175-251 (684)
68 KOG0145 RNA-binding protein EL 69.7 8.2 0.00018 33.5 4.5 74 4-77 125-206 (360)
69 KOG4212 RNA-binding protein hn 69.6 10 0.00023 35.0 5.3 68 7-75 537-606 (608)
70 KOG0132 RNA polymerase II C-te 69.3 12 0.00026 36.6 5.9 51 10-61 425-476 (894)
71 KOG0110 RNA-binding protein (R 69.3 16 0.00035 35.2 6.7 60 18-78 528-596 (725)
72 KOG0144 RNA-binding protein CU 67.5 13 0.00028 34.2 5.4 62 18-79 137-205 (510)
73 PF15023 DUF4523: Protein of u 67.2 15 0.00032 29.3 5.1 59 15-76 100-158 (166)
74 KOG0146 RNA-binding protein ET 65.9 22 0.00048 31.1 6.3 62 18-79 32-100 (371)
75 cd04908 ACT_Bt0572_1 N-termina 61.7 39 0.00086 21.5 6.7 51 16-66 12-64 (66)
76 KOG0533 RRM motif-containing p 60.0 40 0.00087 28.4 6.8 73 7-79 84-162 (243)
77 TIGR01160 SUI1_MOF2 translatio 58.3 45 0.00097 24.9 6.1 57 7-65 40-100 (110)
78 KOG0148 Apoptosis-promoting RN 57.9 43 0.00093 29.2 6.6 65 12-77 67-139 (321)
79 KOG0105 Alternative splicing f 57.7 24 0.00053 29.3 4.9 71 5-76 5-79 (241)
80 PRK05387 histidinol-phosphate 56.3 73 0.0016 26.4 7.8 43 20-66 274-318 (353)
81 COG1058 CinA Predicted nucleot 55.2 33 0.00072 29.1 5.5 56 6-61 180-241 (255)
82 cd04904 ACT_AAAH ACT domain of 54.0 61 0.0013 21.5 5.8 29 16-44 11-41 (74)
83 KOG0131 Splicing factor 3b, su 53.4 48 0.001 27.3 5.9 57 5-61 8-70 (203)
84 KOG1995 Conserved Zn-finger pr 51.9 22 0.00047 31.6 4.0 75 4-79 64-153 (351)
85 PF05036 SPOR: Sporulation rel 51.2 9.5 0.00021 24.4 1.4 56 6-61 3-63 (76)
86 PF04847 Calcipressin: Calcipr 50.0 39 0.00084 27.1 4.9 60 14-75 4-66 (184)
87 KOG0109 RNA-binding protein LA 49.9 19 0.00041 31.7 3.3 49 20-71 93-142 (346)
88 KOG0116 RasGAP SH3 binding pro 49.7 56 0.0012 29.6 6.4 54 9-62 291-350 (419)
89 KOG0151 Predicted splicing reg 49.1 24 0.00053 34.4 4.1 59 10-68 178-246 (877)
90 PRK10905 cell division protein 48.4 61 0.0013 28.6 6.2 56 5-61 246-305 (328)
91 PF09106 SelB-wing_2: Elongati 48.2 34 0.00075 21.9 3.7 29 13-47 31-59 (59)
92 KOG4205 RNA-binding protein mu 47.8 35 0.00076 29.7 4.7 72 8-80 99-176 (311)
93 KOG0131 Splicing factor 3b, su 47.7 45 0.00099 27.4 5.0 60 17-77 108-174 (203)
94 PF14111 DUF4283: Domain of un 47.6 14 0.0003 27.2 1.9 34 5-38 103-138 (153)
95 KOG0108 mRNA cleavage and poly 47.2 61 0.0013 29.5 6.3 69 7-76 19-94 (435)
96 cd04882 ACT_Bt0572_2 C-termina 46.3 68 0.0015 19.6 5.9 50 16-65 10-63 (65)
97 PRK07908 hypothetical protein; 45.8 1.4E+02 0.003 24.9 7.9 44 20-66 267-310 (349)
98 cd00474 SUI1_eIF1 The SUI1/eIF 45.3 1E+02 0.0022 21.3 6.2 51 9-66 16-71 (77)
99 KOG0145 RNA-binding protein EL 45.2 74 0.0016 27.8 6.1 67 9-76 44-117 (360)
100 KOG1548 Transcription elongati 45.0 28 0.0006 31.2 3.6 70 5-75 133-216 (382)
101 PRK04781 histidinol-phosphate 43.4 73 0.0016 27.0 5.9 45 20-66 283-327 (364)
102 KOG0106 Alternative splicing f 42.0 21 0.00046 29.6 2.3 51 20-74 114-165 (216)
103 KOG0110 RNA-binding protein (R 41.7 48 0.001 32.1 4.9 57 9-66 387-446 (725)
104 KOG1365 RNA-binding protein Fu 41.7 2.9E+02 0.0062 25.5 9.5 76 5-83 279-365 (508)
105 PF09078 CheY-binding: CheY bi 41.6 28 0.00061 23.7 2.5 30 8-37 2-31 (65)
106 PHA02114 hypothetical protein 41.3 7.3 0.00016 29.3 -0.4 41 7-47 58-101 (127)
107 KOG0105 Alternative splicing f 41.1 97 0.0021 25.8 6.0 73 5-79 114-191 (241)
108 cd04880 ACT_AAAH-PDT-like ACT 39.2 1E+02 0.0022 20.0 4.9 29 16-44 10-40 (75)
109 KOG4211 Splicing factor hnRNP- 38.4 1E+02 0.0022 28.8 6.3 76 3-80 7-86 (510)
110 PRK01533 histidinol-phosphate 38.3 1.1E+02 0.0024 26.1 6.3 39 39-77 298-339 (366)
111 KOG4307 RNA binding protein RB 38.1 24 0.00051 34.5 2.3 82 3-85 308-394 (944)
112 cd00027 BRCT Breast Cancer Sup 37.3 90 0.002 18.5 4.6 59 7-68 2-64 (72)
113 PRK01688 histidinol-phosphate 37.2 1E+02 0.0023 25.9 5.9 45 20-66 276-320 (351)
114 PRK07865 N-succinyldiaminopime 34.7 1.6E+02 0.0035 24.6 6.7 10 21-30 287-296 (364)
115 KOG4211 Splicing factor hnRNP- 34.5 1.3E+02 0.0027 28.2 6.2 73 5-78 102-180 (510)
116 cd04905 ACT_CM-PDT C-terminal 33.9 1.1E+02 0.0024 20.1 4.6 31 15-45 11-43 (80)
117 COG3413 Predicted DNA binding 33.6 2.1E+02 0.0047 22.6 6.9 94 5-100 75-178 (215)
118 KOG4483 Uncharacterized conser 33.6 79 0.0017 29.1 4.7 66 7-84 392-463 (528)
119 PF11767 SET_assoc: Histone ly 33.2 85 0.0018 21.2 3.8 44 21-70 16-62 (66)
120 cd08358 Glo_EDI_BRP_like_21 Th 33.0 41 0.0009 25.0 2.5 57 6-67 48-105 (127)
121 COG4901 Ribosomal protein S25 32.8 22 0.00048 26.5 1.0 35 2-36 53-93 (107)
122 PRK04635 histidinol-phosphate 32.4 2.6E+02 0.0057 23.4 7.6 64 20-88 277-348 (354)
123 PF08675 RNA_bind: RNA binding 31.9 1.8E+02 0.0039 21.0 5.5 54 5-61 7-64 (87)
124 TIGR01714 phage_rep_org_N phag 31.9 14 0.00031 27.8 -0.2 48 10-57 59-107 (119)
125 COG0079 HisC Histidinol-phosph 31.6 1.3E+02 0.0028 26.2 5.7 45 19-66 272-318 (356)
126 PRK14809 histidinol-phosphate 30.9 2.2E+02 0.0047 23.8 6.8 28 39-66 295-322 (357)
127 cd04929 ACT_TPH ACT domain of 29.3 1.8E+02 0.0039 19.5 5.3 31 16-46 11-43 (74)
128 PF12738 PTCB-BRCT: twin BRCT 29.0 1.5E+02 0.0033 18.5 5.9 54 9-65 3-58 (63)
129 PRK10534 L-threonine aldolase; 28.6 3.3E+02 0.0071 22.3 8.3 65 21-89 258-327 (333)
130 PRK06425 histidinol-phosphate 28.4 2.7E+02 0.0058 23.1 6.9 60 20-82 253-322 (332)
131 KOG1996 mRNA splicing factor [ 28.1 1.5E+02 0.0033 26.3 5.4 53 18-70 299-358 (378)
132 KOG1975 mRNA cap methyltransfe 27.4 69 0.0015 28.8 3.2 56 27-88 193-250 (389)
133 KOG4661 Hsp27-ERE-TATA-binding 26.5 1.7E+02 0.0037 28.3 5.8 72 3-77 404-482 (940)
134 KOG1365 RNA-binding protein Fu 26.1 1.3E+02 0.0027 27.7 4.7 79 9-90 164-253 (508)
135 KOG1456 Heterogeneous nuclear 24.5 4.6E+02 0.01 24.1 7.9 68 5-72 286-357 (494)
136 KOG1548 Transcription elongati 24.3 2.1E+02 0.0045 25.8 5.6 53 21-73 292-346 (382)
137 KOG0124 Polypyrimidine tract-b 23.7 1.3E+02 0.0027 27.6 4.2 55 19-73 127-188 (544)
138 KOG2068 MOT2 transcription fac 22.9 50 0.0011 29.1 1.5 67 4-70 75-154 (327)
139 PRK00950 histidinol-phosphate 22.9 3.8E+02 0.0083 22.1 6.9 27 40-66 297-325 (361)
140 PF15513 DUF4651: Domain of un 22.6 69 0.0015 21.7 1.9 18 18-35 7-24 (62)
141 COG4240 Predicted kinase [Gene 21.0 55 0.0012 28.2 1.4 16 64-80 166-181 (300)
142 PF03531 SSrecog: Structure-sp 20.9 59 0.0013 27.0 1.5 39 13-51 3-43 (222)
143 PRK09019 translation initiatio 20.6 3.6E+02 0.0079 20.0 5.7 51 9-66 48-103 (108)
144 PF00627 UBA: UBA/TS-N domain; 20.3 90 0.002 18.0 1.9 14 51-64 15-28 (37)
145 PRK07451 translation initiatio 20.3 3.6E+02 0.0079 20.2 5.5 51 9-66 55-110 (115)
146 KOG0112 Large RNA-binding prot 20.2 1E+02 0.0023 30.8 3.2 55 13-68 462-518 (975)
147 cd06451 AGAT_like Alanine-glyo 20.1 5E+02 0.011 21.3 7.0 16 51-66 303-319 (356)
No 1
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=7.2e-41 Score=283.09 Aligned_cols=139 Identities=40% Similarity=0.665 Sum_probs=110.3
Q ss_pred CCcEEEEecCCCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEECChH-HHH
Q 031896 5 SSFLIVPFRFPPADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPLDPM-QRQ 83 (151)
Q Consensus 5 ~~~wVtVFGfp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~d~~-~~~ 83 (151)
+++|||||||||.+.+.||++|++||+||+|+. ++++|||||+|+++.+|+|||+|||++|+|++|||||||.+. +.+
T Consensus 196 ~D~WVTVfGFppg~~s~vL~~F~~cG~Vvkhv~-~~ngNwMhirYssr~~A~KALskng~ii~g~vmiGVkpCtDksvi~ 274 (350)
T KOG4285|consen 196 ADTWVTVFGFPPGQVSIVLNLFSRCGEVVKHVT-PSNGNWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKPCTDKSVIN 274 (350)
T ss_pred ccceEEEeccCccchhHHHHHHHhhCeeeeeec-CCCCceEEEEecchhHHHHhhhhcCeeeccceEEeeeecCCHHHhc
Confidence 489999999999999999999999999999998 489999999999999999999999999999999999998553 333
Q ss_pred HHhh--------hhccCCcccCCCCCCCCccccccCCCCCC----cccC--CCCCCCCCCCCCccCCCchhHHHHhHhhh
Q 031896 84 ALNE--------RINSQGFMTLPPPSSRTSELNSFRASSRP----YYLQ--NGHTSTGQSGGAIASPAKSMVSKIMDLMF 149 (151)
Q Consensus 84 ~l~~--------~~~~~~~~~~~~p~~~~~~~~~~~~~~rp----~y~~--~~~~~~~~~~~~~~~P~ks~vsk~meyvF 149 (151)
+.+. .....+.+.+++|+ ..+..+|| .|++ +++.+.++..++.++|++|+|+|+|||||
T Consensus 275 ~sn~~~~~~~s~~a~np~a~~l~ppt-------s~~st~rpss~~~y~~a~kas~s~~p~~~dq~tp~gslvskamdlmf 347 (350)
T KOG4285|consen 275 GSNSGIVARSSAAAANPSASMLNPPT-------SENSTLRPSSVFDYNNALKASVSMRPLAADQRTPSGSLVSKAMDLMF 347 (350)
T ss_pred ccccccccchhhhhcCCCcccCCCCC-------CCCcccCccchhhHHhhccccccCccccccccCCCCchHHHHHhhhh
Confidence 3331 11112333333332 23444555 4553 34446788889999999999999999999
Q ss_pred C-C
Q 031896 150 G-I 151 (151)
Q Consensus 150 G-~ 151 (151)
| |
T Consensus 348 g~W 350 (350)
T KOG4285|consen 348 GNW 350 (350)
T ss_pred cCC
Confidence 9 7
No 2
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=100.00 E-value=2.7e-36 Score=220.56 Aligned_cols=83 Identities=49% Similarity=0.824 Sum_probs=71.3
Q ss_pred cCCcEEEEecCCCCCHHHHHHHHhhcCcEEeec------------cCCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEE
Q 031896 4 ISSFLIVPFRFPPADTNLVLREFEKCGVILKHV------------PGPRDANWMHILYQNRSDAQKALSKNGMQINGVLI 71 (151)
Q Consensus 4 ~~~~wVtVFGfp~~~~~~Vl~~F~~~G~I~~~~------------~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~m 71 (151)
.+++||||||||++.++.||+||++||+|++++ +.|+++|||||+|+|+.+|+|||++||++|+|++|
T Consensus 4 ~~~~wVtVFGfp~~~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~m 83 (100)
T PF05172_consen 4 DSETWVTVFGFPPSASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLM 83 (100)
T ss_dssp GGCCEEEEE---GGGHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEE
T ss_pred cCCeEEEEEccCHHHHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEE
Confidence 468999999999999999999999999999997 56789999999999999999999999999999999
Q ss_pred EEEEECChHHHHHHh
Q 031896 72 VGVKPLDPMQRQALN 86 (151)
Q Consensus 72 IGVkp~d~~~~~~l~ 86 (151)
|||+|||+.+++.++
T Consensus 84 vGV~~~~~~~~~~~~ 98 (100)
T PF05172_consen 84 VGVKPCDPADEQLLN 98 (100)
T ss_dssp EEEEE-HHHHCCCH-
T ss_pred EEEEEcHHhHHHHhc
Confidence 999999998877664
No 3
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=99.71 E-value=1.4e-17 Score=108.71 Aligned_cols=53 Identities=40% Similarity=0.611 Sum_probs=50.2
Q ss_pred CcEEEEecCCCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHH
Q 031896 6 SFLIVPFRFPPADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKAL 59 (151)
Q Consensus 6 ~~wVtVFGfp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL 59 (151)
.+||+|+||+++..+.||++|.+||+|+++.. +...|||+|+|.++.+|++||
T Consensus 1 ~~wI~V~Gf~~~~~~~vl~~F~~fGeI~~~~~-~~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 1 STWISVSGFPPDLAEEVLEHFASFGEIVDIYV-PESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred CcEEEEEeECchHHHHHHHHHHhcCCEEEEEc-CCCCcEEEEEECCHHHHHhhC
Confidence 48999999999999999999999999999986 457999999999999999997
No 4
>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=98.37 E-value=3e-06 Score=54.02 Aligned_cols=53 Identities=28% Similarity=0.360 Sum_probs=43.8
Q ss_pred HHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEE
Q 031896 22 VLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVK 75 (151)
Q Consensus 22 Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVk 75 (151)
+.++|++||+|.++...+...+...|+|++..+|++|++ .||..+.|.. |-|.
T Consensus 1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~-l~V~ 54 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRP-LKVS 54 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEE-EEEE
T ss_pred ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcE-EEEE
Confidence 468999999999988644445999999999999999997 6999998865 6554
No 5
>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=98.16 E-value=8.1e-06 Score=52.48 Aligned_cols=62 Identities=24% Similarity=0.318 Sum_probs=51.0
Q ss_pred EEEecCCCCC-HHHHHHHHhhcCcEEeeccCC----CCCCeEEEEcCCHHHHHHHHH-hCCceecCeE
Q 031896 9 IVPFRFPPAD-TNLVLREFEKCGVILKHVPGP----RDANWMHILYQNRSDAQKALS-KNGMQINGVL 70 (151)
Q Consensus 9 VtVFGfp~~~-~~~Vl~~F~~~G~I~~~~~~p----~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~ 70 (151)
|.|-++|++. ...+.+.|++||.|......+ ....|..|+|.++.+|++||. .||..++|..
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ 68 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRK 68 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccC
Confidence 5688999984 457888899999998764322 246899999999999999999 8999998854
No 6
>PLN03120 nucleic acid binding protein; Provisional
Probab=98.00 E-value=5.4e-05 Score=63.94 Aligned_cols=74 Identities=15% Similarity=0.082 Sum_probs=61.7
Q ss_pred CcEEEEecCCCCCH-HHHHHHHhhcCcEEeeccCCC--CCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEECChH
Q 031896 6 SFLIVPFRFPPADT-NLVLREFEKCGVILKHVPGPR--DANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPLDPM 80 (151)
Q Consensus 6 ~~wVtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~~p~--~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~d~~ 80 (151)
.+-|.|=|.|+..+ ..|.++|+.||+|.+++...+ ...+-.|+|.++.+|+.||..||..|.|.. |-|.++++.
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~AllLnG~~l~gr~-V~Vt~a~~~ 80 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALLLSGATIVDQS-VTITPAEDY 80 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHHhcCCeeCCce-EEEEeccCC
Confidence 56789999999854 577778999999999875222 357999999999999999999999998877 899997653
No 7
>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=97.99 E-value=0.0001 Score=46.35 Aligned_cols=62 Identities=21% Similarity=0.300 Sum_probs=49.6
Q ss_pred EEEecCCCCC-HHHHHHHHhhcCcEEeeccCCC----CCCeEEEEcCCHHHHHHHHHh-CCceecCeE
Q 031896 9 IVPFRFPPAD-TNLVLREFEKCGVILKHVPGPR----DANWMHILYQNRSDAQKALSK-NGMQINGVL 70 (151)
Q Consensus 9 VtVFGfp~~~-~~~Vl~~F~~~G~I~~~~~~p~----~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~ 70 (151)
|.|-|+|+.. .+.|.+.|+.+|+|.+...... ......|+|.+..+|+.|+.+ +|..++|.-
T Consensus 2 i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~ 69 (74)
T cd00590 2 LFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRP 69 (74)
T ss_pred EEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeE
Confidence 6788999974 5588899999999987654322 267999999999999999986 666677754
No 8
>smart00362 RRM_2 RNA recognition motif.
Probab=97.98 E-value=9.3e-05 Score=46.25 Aligned_cols=62 Identities=21% Similarity=0.323 Sum_probs=49.2
Q ss_pred EEEecCCCC-CHHHHHHHHhhcCcEEeeccCCC---CCCeEEEEcCCHHHHHHHHHh-CCceecCeE
Q 031896 9 IVPFRFPPA-DTNLVLREFEKCGVILKHVPGPR---DANWMHILYQNRSDAQKALSK-NGMQINGVL 70 (151)
Q Consensus 9 VtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~---~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~ 70 (151)
|.|-|.|+. ....|.+.|+++|.|.+...... ..++..|+|.++.+|++|++. ||..++|.-
T Consensus 2 v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~ 68 (72)
T smart00362 2 LFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRP 68 (72)
T ss_pred EEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEE
Confidence 678899887 44588899999999988754222 248999999999999999986 778887744
No 9
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.77 E-value=4.1e-05 Score=59.72 Aligned_cols=62 Identities=23% Similarity=0.363 Sum_probs=48.9
Q ss_pred CCCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEECCh
Q 031896 14 FPPADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPLDP 79 (151)
Q Consensus 14 fp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~d~ 79 (151)
|++.....+|+.|.+||+++-.+. .+.=|-|+|.+-.+|.+||++||..++|.. |.|++-.|
T Consensus 45 Fdd~l~~~ll~~~~~~GevvLvRf---v~~~mwVTF~dg~sALaals~dg~~v~g~~-l~i~LKtp 106 (146)
T PF08952_consen 45 FDDNLMDELLQKFAQYGEVVLVRF---VGDTMWVTFRDGQSALAALSLDGIQVNGRT-LKIRLKTP 106 (146)
T ss_dssp --HHHHHHHHHHHHCCS-ECEEEE---ETTCEEEEESSCHHHHHHHHGCCSEETTEE-EEEEE---
T ss_pred CCHHHHHHHHHHHHhCCceEEEEE---eCCeEEEEECccHHHHHHHccCCcEECCEE-EEEEeCCc
Confidence 666678899999999999998875 234677899999999999999999998866 99999654
No 10
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=97.67 E-value=0.00053 Score=52.53 Aligned_cols=73 Identities=16% Similarity=0.213 Sum_probs=58.7
Q ss_pred CcEEEEecCCCCCH-HHHHHHHhhcCcEEeeccCC-----CCCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEEECC
Q 031896 6 SFLIVPFRFPPADT-NLVLREFEKCGVILKHVPGP-----RDANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVKPLD 78 (151)
Q Consensus 6 ~~wVtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~~p-----~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVkp~d 78 (151)
.+-|.|-++|...+ ..|.+.|++||+|.+..... .....-.|+|.++.+|++||. .||..|+|.. |=|.+..
T Consensus 34 ~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~-l~V~~a~ 112 (144)
T PLN03134 34 STKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRH-IRVNPAN 112 (144)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEE-EEEEeCC
Confidence 45688999999855 57888999999999875411 235799999999999999997 5999998865 7787765
Q ss_pred h
Q 031896 79 P 79 (151)
Q Consensus 79 ~ 79 (151)
+
T Consensus 113 ~ 113 (144)
T PLN03134 113 D 113 (144)
T ss_pred c
Confidence 4
No 11
>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=97.66 E-value=0.00016 Score=47.18 Aligned_cols=62 Identities=19% Similarity=0.267 Sum_probs=48.3
Q ss_pred EEEecCCCCCH-HHHHHHHhhcCcEEeeccCCC----CCCeEEEEcCCHHHHHHHHHhCC-ceecCeE
Q 031896 9 IVPFRFPPADT-NLVLREFEKCGVILKHVPGPR----DANWMHILYQNRSDAQKALSKNG-MQINGVL 70 (151)
Q Consensus 9 VtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~~p~----~~NWi~i~y~~~~~A~rAL~~nG-~ii~g~~ 70 (151)
|.|-|.|++.. +.|.+.|+.+|.|.+...... ..+-..|+|.++.+|++||..++ ..+.|.-
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~ 68 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRK 68 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEE
Confidence 57889999844 567778899999987764222 35889999999999999999976 8887753
No 12
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=97.56 E-value=0.00064 Score=57.01 Aligned_cols=72 Identities=15% Similarity=0.222 Sum_probs=58.1
Q ss_pred cEEEEecCCCC-CHHHHHHHHhhcCcEEeeccCC-----CCCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEEECCh
Q 031896 7 FLIVPFRFPPA-DTNLVLREFEKCGVILKHVPGP-----RDANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVKPLDP 79 (151)
Q Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p-----~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVkp~d~ 79 (151)
.-|.|...|++ .-+.+.+.|++||.|.+.+... .....-.|.|.+..+|.+|+. .||..|+|.. |-|...++
T Consensus 270 ~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~-i~V~~~~~ 348 (352)
T TIGR01661 270 YCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRV-LQVSFKTN 348 (352)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeE-EEEEEccC
Confidence 36999999998 4567888999999999875311 124688999999999999997 6999998866 88877654
No 13
>smart00360 RRM RNA recognition motif.
Probab=97.53 E-value=0.00056 Score=42.35 Aligned_cols=59 Identities=24% Similarity=0.342 Sum_probs=44.3
Q ss_pred ecCCCC-CHHHHHHHHhhcCcEEeeccCCC-----CCCeEEEEcCCHHHHHHHHHh-CCceecCeE
Q 031896 12 FRFPPA-DTNLVLREFEKCGVILKHVPGPR-----DANWMHILYQNRSDAQKALSK-NGMQINGVL 70 (151)
Q Consensus 12 FGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~-----~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~ 70 (151)
-|+|.. ..+.|.+.|++||.|.+...... ...+..|+|.+..+|.+|+.. ||..++|.-
T Consensus 2 ~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~ 67 (71)
T smart00360 2 GNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRP 67 (71)
T ss_pred CCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcE
Confidence 356665 44578899999999987754221 246999999999999999965 667777654
No 14
>PLN03121 nucleic acid binding protein; Provisional
Probab=97.44 E-value=0.0012 Score=55.35 Aligned_cols=74 Identities=16% Similarity=0.135 Sum_probs=60.3
Q ss_pred CCcEEEEecCCCCCHH-HHHHHHhhcCcEEeeccCCC--CCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEECCh
Q 031896 5 SSFLIVPFRFPPADTN-LVLREFEKCGVILKHVPGPR--DANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPLDP 79 (151)
Q Consensus 5 ~~~wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~~p~--~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~d~ 79 (151)
.++-|.|-+.++..+. .|-++|+.||+|.+++...+ .+..-+|+|.++.+|+.||..||..|.|.- |-|.|..+
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAllLnGa~l~d~~-I~It~~~~ 80 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVLLSGATIVDQR-VCITRWGQ 80 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHhcCCCeeCCce-EEEEeCcc
Confidence 4677899999998665 56667799999998875322 235899999999999999999999998866 88888754
No 15
>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=97.06 E-value=0.0039 Score=56.21 Aligned_cols=73 Identities=15% Similarity=0.186 Sum_probs=57.1
Q ss_pred CcEEEEecCCCCCH-HHHHHHHhhcCcEEeeccCC----CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECCh
Q 031896 6 SFLIVPFRFPPADT-NLVLREFEKCGVILKHVPGP----RDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLDP 79 (151)
Q Consensus 6 ~~wVtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~~p----~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d~ 79 (151)
.+-|.|-++++... +.+.++|++||+|.+..... ....|..|.|++..+|.+||.. ||..++|.- |-|.....
T Consensus 285 ~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~-l~V~~a~~ 363 (562)
T TIGR01628 285 GVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKP-LYVALAQR 363 (562)
T ss_pred CCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCce-eEEEeccC
Confidence 34578889998844 56778889999998765311 2347999999999999999974 999998865 88888654
No 16
>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=97.06 E-value=0.0025 Score=55.59 Aligned_cols=60 Identities=17% Similarity=0.166 Sum_probs=49.9
Q ss_pred HHHHHHHHhhcCcEEeeccC-CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECCh
Q 031896 19 TNLVLREFEKCGVILKHVPG-PRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLDP 79 (151)
Q Consensus 19 ~~~Vl~~F~~~G~I~~~~~~-p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d~ 79 (151)
...|.++|++||+|+++... +.....+.|+|.+..+|++|++. ||+.++|.. |-|..+..
T Consensus 386 ~~dv~~e~~k~G~v~~v~v~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~-i~~~~~~~ 447 (457)
T TIGR01622 386 LDDVKEECSKYGGVVHIYVDTKNSAGKIYLKFSSVDAALAAFQALNGRYFGGKM-ITAAFVVN 447 (457)
T ss_pred HHHHHHHHHhcCCeeEEEEeCCCCceeEEEEECCHHHHHHHHHHhcCcccCCeE-EEEEEEcH
Confidence 35799999999999987642 44567899999999999999987 999999966 77777655
No 17
>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=97.03 E-value=0.0053 Score=54.95 Aligned_cols=72 Identities=17% Similarity=0.131 Sum_probs=59.1
Q ss_pred CcEEEEecCCCC--CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEEECC
Q 031896 6 SFLIVPFRFPPA--DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVKPLD 78 (151)
Q Consensus 6 ~~wVtVFGfp~~--~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVkp~d 78 (151)
.+-|.|.+++++ ..+.+.+.|++||+|+++..-.+...+-.|+|.+..+|++||. .||..|.|.- |-|....
T Consensus 275 ~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~-l~v~~s~ 349 (481)
T TIGR01649 275 GSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGKP-LRVCPSK 349 (481)
T ss_pred CCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCce-EEEEEcc
Confidence 457899999973 5678999999999999886433445799999999999999997 6999998855 7777643
No 18
>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=97.00 E-value=0.0041 Score=54.08 Aligned_cols=75 Identities=19% Similarity=0.185 Sum_probs=57.5
Q ss_pred CcEEEEecCCCCCHH-HHHHHHhhcCcEEeeccCC---CC--CCeEEEEcCCHHHHHHHHHh-CCceecC-eEEEEEEEC
Q 031896 6 SFLIVPFRFPPADTN-LVLREFEKCGVILKHVPGP---RD--ANWMHILYQNRSDAQKALSK-NGMQING-VLIVGVKPL 77 (151)
Q Consensus 6 ~~wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~~p---~~--~NWi~i~y~~~~~A~rAL~~-nG~ii~g-~~mIGVkp~ 77 (151)
.+-|.|-++|...++ .|.++|++||+|+++.... ++ ..+..|+|+++.+|++||.. ||..+.| ..-|-|+..
T Consensus 193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a 272 (346)
T TIGR01659 193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLA 272 (346)
T ss_pred cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEEC
Confidence 456889999998655 6777899999998765311 11 26999999999999999995 9988865 355788877
Q ss_pred ChH
Q 031896 78 DPM 80 (151)
Q Consensus 78 d~~ 80 (151)
+..
T Consensus 273 ~~~ 275 (346)
T TIGR01659 273 EEH 275 (346)
T ss_pred Ccc
Confidence 653
No 19
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=96.98 E-value=0.0061 Score=51.11 Aligned_cols=69 Identities=17% Similarity=0.219 Sum_probs=53.8
Q ss_pred CcEEEEecCCCC-CHHHHHHHHhhcCcEEeeccC--C-C--CCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEE
Q 031896 6 SFLIVPFRFPPA-DTNLVLREFEKCGVILKHVPG--P-R--DANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVK 75 (151)
Q Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~--p-~--~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVk 75 (151)
.+-|.|=+.|+. ..+.+.+.|++||+|.++..- + + ...+-.|+|.++.+|++||. .||..|.|.. |=|.
T Consensus 3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~-i~v~ 78 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKT-IKVS 78 (352)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCee-EEEE
Confidence 456778899887 566888999999999886531 1 1 23699999999999999996 6999998755 5553
No 20
>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=96.97 E-value=0.0069 Score=52.84 Aligned_cols=70 Identities=14% Similarity=0.106 Sum_probs=55.7
Q ss_pred CcEEEEecCCCCC-HHHHHHHHhhcCcEEeeccCC-----CCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEE
Q 031896 6 SFLIVPFRFPPAD-TNLVLREFEKCGVILKHVPGP-----RDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKP 76 (151)
Q Consensus 6 ~~wVtVFGfp~~~-~~~Vl~~F~~~G~I~~~~~~p-----~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp 76 (151)
.+-|.|-+.|... ...|.+.|++||.|.++.... .....-.|.|.+..+|++||..||..+.|.- |-|++
T Consensus 89 ~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~-i~v~~ 164 (457)
T TIGR01622 89 DRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRP-IIVQS 164 (457)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCee-eEEee
Confidence 4568899999884 447888999999998876421 2346899999999999999999999998865 44444
No 21
>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=96.95 E-value=0.0049 Score=53.65 Aligned_cols=71 Identities=17% Similarity=0.193 Sum_probs=53.4
Q ss_pred cCCcEEEEecCCCCCHH-HHHHHHhhcCcEEeeccC---CCC--CCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEE
Q 031896 4 ISSFLIVPFRFPPADTN-LVLREFEKCGVILKHVPG---PRD--ANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVK 75 (151)
Q Consensus 4 ~~~~wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~~---p~~--~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVk 75 (151)
.+.+.|.|-++|++.++ .|.+.|++||.|+++... .++ .....|+|.++.+|++||. .||..+.+.- |=|.
T Consensus 105 ~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~-i~V~ 182 (346)
T TIGR01659 105 NSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKR-LKVS 182 (346)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCce-eeee
Confidence 35678999999998555 666789999999877531 111 2579999999999999996 6998887654 4443
No 22
>smart00361 RRM_1 RNA recognition motif.
Probab=96.88 E-value=0.0058 Score=40.70 Aligned_cols=50 Identities=24% Similarity=0.228 Sum_probs=38.6
Q ss_pred HHHHHHh----hcCcEEeec--cC------CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeE
Q 031896 21 LVLREFE----KCGVILKHV--PG------PRDANWMHILYQNRSDAQKALSK-NGMQINGVL 70 (151)
Q Consensus 21 ~Vl~~F~----~~G~I~~~~--~~------p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~ 70 (151)
.+.++|+ +||+|.+.. .. .....+..|+|.+..+|++|++. ||..+.|..
T Consensus 4 ~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~ 66 (70)
T smart00361 4 DFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRT 66 (70)
T ss_pred hHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence 4556666 899988763 11 12357899999999999999995 999998866
No 23
>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=96.75 E-value=0.011 Score=54.88 Aligned_cols=70 Identities=19% Similarity=0.359 Sum_probs=57.6
Q ss_pred cEEEEecCCCCCH-HHHHHHHhhc--CcEEeeccCCCCCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEEECChH
Q 031896 7 FLIVPFRFPPADT-NLVLREFEKC--GVILKHVPGPRDANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVKPLDPM 80 (151)
Q Consensus 7 ~wVtVFGfp~~~~-~~Vl~~F~~~--G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVkp~d~~ 80 (151)
.-|.|-+++.+.. +.|.++|++| |+|.++.. -..+-.|.|.++.+|++||. .||..|.|.. |=|.+..+.
T Consensus 234 k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~---~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~-I~V~~Akp~ 307 (578)
T TIGR01648 234 KILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKK---IRDYAFVHFEDREDAVKAMDELNGKELEGSE-IEVTLAKPV 307 (578)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEe---ecCeEEEEeCCHHHHHHHHHHhCCCEECCEE-EEEEEccCC
Confidence 4578889998855 4577789999 99998864 24689999999999999997 6999998866 888876553
No 24
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=96.70 E-value=0.0078 Score=53.13 Aligned_cols=59 Identities=25% Similarity=0.313 Sum_probs=47.1
Q ss_pred HHHHHHHhhcCcEEeeccC-C-------CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECCh
Q 031896 20 NLVLREFEKCGVILKHVPG-P-------RDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLDP 79 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~-p-------~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d~ 79 (151)
+.|.++|++||.|+++... + .+...+.|+|.+..+|++|+.. ||..|+|.. |=|..++.
T Consensus 434 edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~-v~~~~~~~ 501 (509)
T TIGR01642 434 EDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRV-VVAAFYGE 501 (509)
T ss_pred HHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeE-EEEEEeCH
Confidence 4678999999999987531 1 1246889999999999999985 999999977 66666665
No 25
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=96.63 E-value=0.0053 Score=51.49 Aligned_cols=64 Identities=19% Similarity=0.191 Sum_probs=50.6
Q ss_pred cEEEEecCCCC-CHHHHHHHHhhcCcEEeeccC----C-CCCCeEEEEcCCHHHHHHHHHhCCceecCeE
Q 031896 7 FLIVPFRFPPA-DTNLVLREFEKCGVILKHVPG----P-RDANWMHILYQNRSDAQKALSKNGMQINGVL 70 (151)
Q Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~----p-~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~ 70 (151)
+-|.|=|.+=+ ..+.+.++|++||+|||-+.. . .-..+--|+|.+..+|.||++----+|+|..
T Consensus 13 TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~ 82 (247)
T KOG0149|consen 13 TKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRK 82 (247)
T ss_pred EEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccc
Confidence 45667788866 677899999999999987531 1 2357889999999999999998777887754
No 26
>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=96.46 E-value=0.017 Score=54.05 Aligned_cols=70 Identities=20% Similarity=0.198 Sum_probs=55.7
Q ss_pred cEEEEecCCCCCHH-HHHHHHhhcCcEEeeccCC-----CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEEC
Q 031896 7 FLIVPFRFPPADTN-LVLREFEKCGVILKHVPGP-----RDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPL 77 (151)
Q Consensus 7 ~wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~~p-----~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~ 77 (151)
+-|.|.|.+++..+ .+.++|++||.|++..... ....+-.|.|.+..+|.+||.. ||..|+|.. |-|..+
T Consensus 205 ~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~-LrV~kA 281 (612)
T TIGR01645 205 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQY-LRVGKC 281 (612)
T ss_pred ceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeE-EEEEec
Confidence 56889999999655 6667899999999875321 1246899999999999999965 999998876 777664
No 27
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=96.45 E-value=0.014 Score=50.12 Aligned_cols=72 Identities=18% Similarity=0.179 Sum_probs=60.1
Q ss_pred cCCcEEEEecCCCCCHH-HHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEEC
Q 031896 4 ISSFLIVPFRFPPADTN-LVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPL 77 (151)
Q Consensus 4 ~~~~wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~ 77 (151)
.+.+.|-|=|+++..++ ++.+.|+.||.|.|++..+ ...+--|+|+++++|-+|+-. ||+-|+|.+ |-|.|-
T Consensus 162 p~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk-~qGYaFVrF~tkEaAahAIv~mNntei~G~~-VkCsWG 235 (321)
T KOG0148|consen 162 PDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFK-DQGYAFVRFETKEAAAHAIVQMNNTEIGGQL-VRCSWG 235 (321)
T ss_pred CCCceEEeCCcCccccHHHHHHhcccCCcceEEEEec-ccceEEEEecchhhHHHHHHHhcCceeCceE-EEEecc
Confidence 46678888899996555 5556799999999998644 667899999999999999755 999999988 999883
No 28
>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=96.39 E-value=0.013 Score=54.76 Aligned_cols=65 Identities=18% Similarity=0.165 Sum_probs=52.5
Q ss_pred CcEEEEecCCCC-CHHHHHHHHhhcCcEEeeccCC-----CCCCeEEEEcCCHHHHHHHHH-hCCceecCeE
Q 031896 6 SFLIVPFRFPPA-DTNLVLREFEKCGVILKHVPGP-----RDANWMHILYQNRSDAQKALS-KNGMQINGVL 70 (151)
Q Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p-----~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~ 70 (151)
.+-|.|-++|.. .-+.+.+.|++||.|.++.... ....+-.|.|.++.+|++|+. .||..|.|..
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~ 178 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRN 178 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecce
Confidence 356888899987 4557788899999998876311 235799999999999999996 6999998865
No 29
>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=96.33 E-value=0.024 Score=51.22 Aligned_cols=69 Identities=17% Similarity=0.170 Sum_probs=51.8
Q ss_pred EEEEecCCCC-CHHHHHHHHhhcCcEEeeccCCC-----CCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEEEC
Q 031896 8 LIVPFRFPPA-DTNLVLREFEKCGVILKHVPGPR-----DANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVKPL 77 (151)
Q Consensus 8 wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~-----~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVkp~ 77 (151)
.|.|=+.|++ ..+.|.+.|++||.|+++....+ ....-.|.|.++.+|++||. .|+..|.|.- |=|.+.
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~-i~i~~s 77 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKP-IRIMWS 77 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCee-EEeecc
Confidence 3667788876 45577788999999998764211 22489999999999999995 5888888765 555553
No 30
>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=96.03 E-value=0.05 Score=48.74 Aligned_cols=62 Identities=8% Similarity=0.049 Sum_probs=50.4
Q ss_pred cEEEEecCCCC-CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh---CCceecCe
Q 031896 7 FLIVPFRFPPA-DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK---NGMQINGV 69 (151)
Q Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~---nG~ii~g~ 69 (151)
.-|.|=+.|.+ ..+.+.+.|++||.|.++... ...+.-.|.|.+..+|++|+.. |+..|.|.
T Consensus 3 ~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~-~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~ 68 (481)
T TIGR01649 3 PVVHVRNLPQDVVEADLVEALIPFGPVSYVMML-PGKRQALVEFEDEESAKACVNFATSVPIYIRGQ 68 (481)
T ss_pred cEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEE-CCCCEEEEEeCchHHHHHHHHHhhcCCceEcCe
Confidence 45788889998 455777789999999988653 3568999999999999999984 78777764
No 31
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=95.99 E-value=0.059 Score=47.59 Aligned_cols=71 Identities=14% Similarity=0.033 Sum_probs=55.1
Q ss_pred CcEEEEecCCCCC-HHHHHHHHhhcCcEEeeccC--C---CCCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEEEC
Q 031896 6 SFLIVPFRFPPAD-TNLVLREFEKCGVILKHVPG--P---RDANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVKPL 77 (151)
Q Consensus 6 ~~wVtVFGfp~~~-~~~Vl~~F~~~G~I~~~~~~--p---~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVkp~ 77 (151)
.+-|.|=++|... .+.|.+.|++||.|...... + ...++..|.|.+..+|.+|+. .||..|.|.. |-|...
T Consensus 295 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~-l~v~~a 372 (509)
T TIGR01642 295 KDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNK-LHVQRA 372 (509)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeE-EEEEEC
Confidence 3568888999874 45677889999999875421 1 135799999999999999996 6999998876 566664
No 32
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=95.62 E-value=0.023 Score=44.25 Aligned_cols=58 Identities=22% Similarity=0.420 Sum_probs=48.1
Q ss_pred CHHHHHHHHhhcCcEEeeccC-----CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEE
Q 031896 18 DTNLVLREFEKCGVILKHVPG-----PRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKP 76 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~~-----p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp 76 (151)
.-++|.+.|++||+|-.+.++ .+...+.-|.|-++.+|..||+. ||..+...+ |-+-+
T Consensus 49 tEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~-ir~D~ 112 (153)
T KOG0121|consen 49 TEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRP-IRIDW 112 (153)
T ss_pred cHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccc-eeeec
Confidence 456899999999999988654 35678999999999999999998 999998766 54433
No 33
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=95.09 E-value=0.24 Score=37.50 Aligned_cols=71 Identities=15% Similarity=0.237 Sum_probs=55.8
Q ss_pred CcEEEEecCCCC-CHHHHHHHHhhcCcEEeeccC-----CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEEC
Q 031896 6 SFLIVPFRFPPA-DTNLVLREFEKCGVILKHVPG-----PRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPL 77 (151)
Q Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~-----p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~ 77 (151)
.+-|.|-+.|.. .-+.+.++|.+||.|...... ..-..+-.|.|.++.+|++|+.. ||..+.|.. |-|.+.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~-~~v~~~ 192 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRP-LRVQKA 192 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCce-eEeecc
Confidence 367888899987 455888999999999665421 13458999999999999999998 568998866 666664
No 34
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=94.95 E-value=0.065 Score=47.61 Aligned_cols=69 Identities=23% Similarity=0.406 Sum_probs=52.8
Q ss_pred cccCCcEEEEecCCCCCHHH----HH---HHHhhcCcEEeeccC---C----CCC-CeEEEEcCCHHHHHHHHHh-CCce
Q 031896 2 TLISSFLIVPFRFPPADTNL----VL---REFEKCGVILKHVPG---P----RDA-NWMHILYQNRSDAQKALSK-NGMQ 65 (151)
Q Consensus 2 ~~~~~~wVtVFGfp~~~~~~----Vl---~~F~~~G~I~~~~~~---p----~~~-NWi~i~y~~~~~A~rAL~~-nG~i 65 (151)
.|+-..-|-|.|.||..++. || ++|.+||.|.++... + +.+ -=++|+|++..+|.||++. +|..
T Consensus 110 RVvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~ 189 (480)
T COG5175 110 RVVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSL 189 (480)
T ss_pred eeeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhcccc
Confidence 46677889999999975543 33 689999999987531 1 122 3479999999999999988 8888
Q ss_pred ecCeE
Q 031896 66 INGVL 70 (151)
Q Consensus 66 i~g~~ 70 (151)
++|.+
T Consensus 190 ~DGr~ 194 (480)
T COG5175 190 LDGRV 194 (480)
T ss_pred ccCce
Confidence 87766
No 35
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=94.80 E-value=0.1 Score=47.45 Aligned_cols=57 Identities=23% Similarity=0.479 Sum_probs=46.7
Q ss_pred HHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECChH
Q 031896 20 NLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLDPM 80 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d~~ 80 (151)
+.+-+.|++||.|.++.. + ..+--|.|.++.+|.+|++. ||+.|+|.. |=|.-..|-
T Consensus 274 E~lk~~F~~~G~veRVkk-~--rDYaFVHf~eR~davkAm~~~ngkeldG~~-iEvtLAKP~ 331 (506)
T KOG0117|consen 274 ETLKKLFNEFGKVERVKK-P--RDYAFVHFAEREDAVKAMKETNGKELDGSP-IEVTLAKPV 331 (506)
T ss_pred HHHHHHHHhccceEEeec-c--cceeEEeecchHHHHHHHHHhcCceecCce-EEEEecCCh
Confidence 345578999999999885 3 34888899999999999998 999999965 887766554
No 36
>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=94.62 E-value=0.16 Score=47.30 Aligned_cols=69 Identities=20% Similarity=0.295 Sum_probs=51.8
Q ss_pred CcEEEEecCCCC-CHHHHHHHHhhcCcEEeeccC--CC--CCCeEEEEcCCHHHHHHHHHh-CCceec-CeEEEEEE
Q 031896 6 SFLIVPFRFPPA-DTNLVLREFEKCGVILKHVPG--PR--DANWMHILYQNRSDAQKALSK-NGMQIN-GVLIVGVK 75 (151)
Q Consensus 6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~--p~--~~NWi~i~y~~~~~A~rAL~~-nG~ii~-g~~mIGVk 75 (151)
.+-|.|=.+|.+ ..+.+.+.|++||.|.+++.- .+ ....-.|+|.++.+|++||.. ||..|. |.. |+|.
T Consensus 58 ~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~-l~V~ 133 (578)
T TIGR01648 58 GCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRL-LGVC 133 (578)
T ss_pred CCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcc-cccc
Confidence 466888899987 556788889999999987531 12 235899999999999999986 777774 433 5554
No 37
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=94.26 E-value=0.073 Score=46.82 Aligned_cols=69 Identities=20% Similarity=0.219 Sum_probs=50.0
Q ss_pred EEEEecCCCCCHH-HHHHHHhhcCcEEeeccC--CCC-CCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEEC
Q 031896 8 LIVPFRFPPADTN-LVLREFEKCGVILKHVPG--PRD-ANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPL 77 (151)
Q Consensus 8 wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~~--p~~-~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~ 77 (151)
-+.|.-.|-.-.+ .+-.-|++||.|++++-. .+| ..+--|+++|+.+|.||-.+ ||.+|.|.. |=|.-.
T Consensus 98 RLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRk-IEVn~A 171 (376)
T KOG0125|consen 98 RLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRK-IEVNNA 171 (376)
T ss_pred eeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceE-EEEecc
Confidence 3455545544222 345569999999988632 223 57888999999999999887 999999977 777553
No 38
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=92.63 E-value=0.22 Score=41.64 Aligned_cols=57 Identities=23% Similarity=0.406 Sum_probs=45.7
Q ss_pred CHHHHHHHHhhcCcEEeeccCC------CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEE
Q 031896 18 DTNLVLREFEKCGVILKHVPGP------RDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKP 76 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~~p------~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp 76 (151)
..+.+-+-|++||.|.++.. | +--.+.-|+|..+.+|++||.. +|.++.|.- |-|.-
T Consensus 26 spd~LrrvFekYG~vgDVyI-Prdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRe-lrVq~ 89 (256)
T KOG4207|consen 26 SPDDLRRVFEKYGRVGDVYI-PRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRE-LRVQM 89 (256)
T ss_pred CHHHHHHHHHHhCcccceec-ccccccccccceeEEEeeecchHHHHHHhhcceeeccce-eeehh
Confidence 45678889999999998763 3 3458899999999999999976 999998865 54444
No 39
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=91.58 E-value=0.24 Score=45.86 Aligned_cols=66 Identities=26% Similarity=0.358 Sum_probs=56.3
Q ss_pred CCcEEEEecCCCCCHH-HHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeE
Q 031896 5 SSFLIVPFRFPPADTN-LVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVL 70 (151)
Q Consensus 5 ~~~wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~ 70 (151)
+...+.||-.|+...+ .+++-|+.+|+|-+++..+.-..=+.|.|-+--+|++||+. |++.|.|..
T Consensus 74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~ 141 (549)
T KOG4660|consen 74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKR 141 (549)
T ss_pred ccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhh
Confidence 5678899999999665 77888999999999887676677788999999999999987 888887765
No 40
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=90.43 E-value=0.77 Score=40.70 Aligned_cols=68 Identities=22% Similarity=0.182 Sum_probs=52.4
Q ss_pred EecCCCC-CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh--CCceecCeEEEEEEECChH
Q 031896 11 PFRFPPA-DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK--NGMQINGVLIVGVKPLDPM 80 (151)
Q Consensus 11 VFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~--nG~ii~g~~mIGVkp~d~~ 80 (151)
|=|.-++ ....|.+||.+||+|-.++.-+ ...+--|+|.++.+|++|--+ |-.+|+| ..|-|+|-.+.
T Consensus 233 Ig~l~d~v~e~dIrdhFyqyGeirsi~~~~-~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G-~Rl~i~Wg~~~ 303 (377)
T KOG0153|consen 233 IGGLNDEVLEQDIRDHFYQYGEIRSIRILP-RKGCAFVTFTTREAAEKAAEKSFNKLVING-FRLKIKWGRPK 303 (377)
T ss_pred ecccccchhHHHHHHHHhhcCCeeeEEeec-ccccceeeehhhHHHHHHHHhhcceeeecc-eEEEEEeCCCc
Confidence 3344334 4457889999999999887543 445899999999999999887 6567777 66999997774
No 41
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=90.36 E-value=1.3 Score=29.80 Aligned_cols=54 Identities=17% Similarity=0.225 Sum_probs=40.4
Q ss_pred cCCcEEEEecCCCCCHHHHHHHHhhcCcEEeeccCCCCCCe-----EEEEcCCHHHHHHHHHh
Q 031896 4 ISSFLIVPFRFPPADTNLVLREFEKCGVILKHVPGPRDANW-----MHILYQNRSDAQKALSK 61 (151)
Q Consensus 4 ~~~~wVtVFGfp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NW-----i~i~y~~~~~A~rAL~~ 61 (151)
+....|.|.|...=.++.|..+|..+-.- ..|..--| ..|.|.+...|++||..
T Consensus 3 ~rpeavhirGvd~lsT~dI~~y~~~y~~~----~~~~~IEWIdDtScNvvf~d~~~A~~AL~~ 61 (62)
T PF10309_consen 3 IRPEAVHIRGVDELSTDDIKAYFSEYFDE----EGPFRIEWIDDTSCNVVFKDEETAARALVA 61 (62)
T ss_pred ceeceEEEEcCCCCCHHHHHHHHHHhccc----CCCceEEEecCCcEEEEECCHHHHHHHHHc
Confidence 34567999999999999999999998111 01222234 47999999999999973
No 42
>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=90.10 E-value=1.3 Score=32.31 Aligned_cols=68 Identities=19% Similarity=0.181 Sum_probs=37.4
Q ss_pred EEEEecCCCC-CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh---C---CceecCeEEEEEEEC
Q 031896 8 LIVPFRFPPA-DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK---N---GMQINGVLIVGVKPL 77 (151)
Q Consensus 8 wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~---n---G~ii~g~~mIGVkp~ 77 (151)
-|.+-|.... ....+-..|+++|.|--+.+ ..|..=-||+|.++.+|++||.+ . +..|.+.. +-+..+
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~-~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~-~~~~vL 77 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDF-SRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKE-VTLEVL 77 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE---TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSS-EEEE--
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEe-cCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCce-EEEEEC
Confidence 3556666655 45677788999998876554 45888899999999999988875 3 44555544 555555
No 43
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=89.35 E-value=0.78 Score=42.60 Aligned_cols=63 Identities=16% Similarity=0.164 Sum_probs=51.2
Q ss_pred cCCCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEE
Q 031896 13 RFPPADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKP 76 (151)
Q Consensus 13 Gfp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp 76 (151)
.|-.+..+.|+++-.++|.|+++..-+.-...++|+|.|...|..|.+. ||.=|+|.+ |-.+-
T Consensus 461 n~d~eI~edV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrWF~gr~-Ita~~ 524 (549)
T KOG0147|consen 461 NWDQEIREDVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRWFAGRM-ITAKY 524 (549)
T ss_pred chhhHHHHHHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhhhccce-eEEEE
Confidence 3456788899999999999999876444448999999999999999986 999998855 55443
No 44
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=88.70 E-value=4.1 Score=30.85 Aligned_cols=64 Identities=20% Similarity=0.282 Sum_probs=48.4
Q ss_pred cCCCC-CHHHHHHHHhhcCcEEeeccCC--CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEE
Q 031896 13 RFPPA-DTNLVLREFEKCGVILKHVPGP--RDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKP 76 (151)
Q Consensus 13 Gfp~~-~~~~Vl~~F~~~G~I~~~~~~p--~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp 76 (151)
-.|-. ..+.+.+.|.++|+|..++-+- .-..=-.+.|++-.+|++|..+ +|--+.+.+.+-..+
T Consensus 25 NLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyy 92 (124)
T KOG0114|consen 25 NLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYY 92 (124)
T ss_pred cCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEec
Confidence 34444 3568999999999999987542 2345567899999999999987 999888887544333
No 45
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=88.56 E-value=1.9 Score=38.06 Aligned_cols=68 Identities=24% Similarity=0.392 Sum_probs=48.4
Q ss_pred EecCCCC-CHHHHHHHHhhcCcEEeeccC--CCC-CCeEEEEcCCHHHHHHHHHh-CCceecC-eEEEEEEECCh
Q 031896 11 PFRFPPA-DTNLVLREFEKCGVILKHVPG--PRD-ANWMHILYQNRSDAQKALSK-NGMQING-VLIVGVKPLDP 79 (151)
Q Consensus 11 VFGfp~~-~~~~Vl~~F~~~G~I~~~~~~--p~~-~NWi~i~y~~~~~A~rAL~~-nG~ii~g-~~mIGVkp~d~ 79 (151)
|==++++ +...+.+.|+.||+||.+.-. ..| ... -+.|+++.+|++|+.+ ||+.++| .+.||......
T Consensus 81 i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~ 154 (369)
T KOG0123|consen 81 IKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKE 154 (369)
T ss_pred ecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchh
Confidence 3334555 445777889999999987531 122 234 8999999999999987 9999975 45577776543
No 46
>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=88.10 E-value=4 Score=29.59 Aligned_cols=64 Identities=19% Similarity=0.281 Sum_probs=36.9
Q ss_pred cEEEEecCCCC-CHHH----HHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEE
Q 031896 7 FLIVPFRFPPA-DTNL----VLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVK 75 (151)
Q Consensus 7 ~wVtVFGfp~~-~~~~----Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVk 75 (151)
+-+.|+..|.. +.+. +-+.+..||-=|-... ++---|+|.+...|.||+++ +|+-+-|+- |-|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~----~~tAilrF~~~~~A~RA~KRmegEdVfG~k-I~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS----GGTAILRFPNQEFAERAQKRMEGEDVFGNK-ISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------TT-EEEEESSHHHHHHHHHHHTT--SSSS---EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----CCEEEEEeCCHHHHHHHHHhhcccccccce-EEEE
Confidence 46788999985 3333 4444557886553332 36788999999999999988 777665544 4443
No 47
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=86.46 E-value=2.5 Score=39.06 Aligned_cols=61 Identities=18% Similarity=0.192 Sum_probs=47.8
Q ss_pred CHHHHHHHHhhcCcEEeeccC-C-------CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECCh
Q 031896 18 DTNLVLREFEKCGVILKHVPG-P-------RDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLDP 79 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~~-p-------~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d~ 79 (151)
..+.|-.++++||.|..++.. | .|..-|.|+|.+..+|++|... +|+.++|.+ |-..-||+
T Consensus 422 IlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRt-VvtsYyde 491 (500)
T KOG0120|consen 422 ILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRT-VVASYYDE 491 (500)
T ss_pred HHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcE-EEEEecCH
Confidence 456777889999999887531 1 3678899999999999999987 999999987 44444544
No 48
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=85.70 E-value=2.2 Score=38.98 Aligned_cols=63 Identities=22% Similarity=0.203 Sum_probs=46.5
Q ss_pred CHHHHHHHHhhcCcEEeeccC-----CCCCCeEEEEcCCHHHHHHHHHh--CCceecC-eEEEEEEECChH
Q 031896 18 DTNLVLREFEKCGVILKHVPG-----PRDANWMHILYQNRSDAQKALSK--NGMQING-VLIVGVKPLDPM 80 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~~-----p~~~NWi~i~y~~~~~A~rAL~~--nG~ii~g-~~mIGVkp~d~~ 80 (151)
.-..+.+.|++||.+.|+.-. -....+.-|+|.++.+|.+|..- |-+.|-| ..-|=|||.|-+
T Consensus 47 sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E 117 (510)
T KOG0144|consen 47 SEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGE 117 (510)
T ss_pred cHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchh
Confidence 456889999999999987421 13457888999999998888765 5555533 344888988765
No 49
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=84.41 E-value=5.6 Score=33.97 Aligned_cols=74 Identities=18% Similarity=0.243 Sum_probs=56.5
Q ss_pred CCcEEEEecCCCCC-HHHHHHHHhhcCcEEeeccC---CC--CCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEEC
Q 031896 5 SSFLIVPFRFPPAD-TNLVLREFEKCGVILKHVPG---PR--DANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPL 77 (151)
Q Consensus 5 ~~~wVtVFGfp~~~-~~~Vl~~F~~~G~I~~~~~~---p~--~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~ 77 (151)
+...|-|--.+.+. -+.+.+.|..||.|.++.-. .+ -..+-.|.|.++.+|+||+.. ||.-. .++++-|-+-
T Consensus 188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gy-d~LILrvEws 266 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGY-DNLILRVEWS 266 (270)
T ss_pred ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCccc-ceEEEEEEec
Confidence 45567777788774 34568889999999987531 12 257899999999999999987 88777 4577888876
Q ss_pred Ch
Q 031896 78 DP 79 (151)
Q Consensus 78 d~ 79 (151)
.|
T Consensus 267 kP 268 (270)
T KOG0122|consen 267 KP 268 (270)
T ss_pred CC
Confidence 65
No 50
>PLN03213 repressor of silencing 3; Provisional
Probab=83.59 E-value=13 Score=35.00 Aligned_cols=76 Identities=12% Similarity=0.053 Sum_probs=60.1
Q ss_pred cCCcEEEEecCCCCCH-HHHHHHHhhcCcEEeecc-CCCCCCeEEEEcCCH--HHHHHHHH-hCCceecCeEEEEEEECC
Q 031896 4 ISSFLIVPFRFPPADT-NLVLREFEKCGVILKHVP-GPRDANWMHILYQNR--SDAQKALS-KNGMQINGVLIVGVKPLD 78 (151)
Q Consensus 4 ~~~~wVtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~-~p~~~NWi~i~y~~~--~~A~rAL~-~nG~ii~g~~mIGVkp~d 78 (151)
..+.-|.|=|.+.+.+ +.+...|++||+|.+... ..+|..+-+|.|.+. .++.+|+. .||....|+- |-|-...
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~-LKVNKAK 86 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGR-LRLEKAK 86 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCce-eEEeecc
Confidence 3455677888888844 578889999999998753 235678999999987 78999998 5999998877 8888876
Q ss_pred hH
Q 031896 79 PM 80 (151)
Q Consensus 79 ~~ 80 (151)
+.
T Consensus 87 P~ 88 (759)
T PLN03213 87 EH 88 (759)
T ss_pred HH
Confidence 64
No 51
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=83.25 E-value=4.7 Score=35.56 Aligned_cols=63 Identities=17% Similarity=0.270 Sum_probs=50.4
Q ss_pred EecCCCCCHHHHHHHHhhcCcEEeecc---CCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEE
Q 031896 11 PFRFPPADTNLVLREFEKCGVILKHVP---GPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKP 76 (151)
Q Consensus 11 VFGfp~~~~~~Vl~~F~~~G~I~~~~~---~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp 76 (151)
..| |.-....+.+.|+..|.++..+- . +.-.+-++.|+++.+|.|||.. |...+.|.- |-+.|
T Consensus 5 ~vg-~~v~e~~l~~~f~~~~~v~s~rvc~d~-tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~-~rim~ 71 (369)
T KOG0123|consen 5 YVG-PDVTEAMLFDKFSPAGPVLSIRVCRDA-TSLGYAYVNFQQPADAERALDTMNFDVLKGKP-IRIMW 71 (369)
T ss_pred ecC-CcCChHHHHHHhcccCCceeEEEeecC-CccceEEEecCCHHHHHHHHHHcCCcccCCcE-EEeeh
Confidence 345 55567788999999999998753 2 3668899999999999999987 888988854 66666
No 52
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=83.08 E-value=3.5 Score=32.62 Aligned_cols=71 Identities=20% Similarity=0.134 Sum_probs=53.1
Q ss_pred cEE-EEecCCCCCH-HHHHHHHhhcCcEEeeccCC---C--CCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECC
Q 031896 7 FLI-VPFRFPPADT-NLVLREFEKCGVILKHVPGP---R--DANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLD 78 (151)
Q Consensus 7 ~wV-tVFGfp~~~~-~~Vl~~F~~~G~I~~~~~~p---~--~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d 78 (151)
-|| .|-|.-++.+ +.|-+.|..||+|-...-.- + -..+.-|.|.+..+||.|+.. ||.-|-|.- |-|-+|-
T Consensus 72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~-v~VDw~F 150 (170)
T KOG0130|consen 72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQN-VSVDWCF 150 (170)
T ss_pred eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCc-eeEEEEE
Confidence 454 5778877654 58889999999998764211 1 257888999999999999975 887776644 7787774
No 53
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=82.94 E-value=2.6 Score=39.20 Aligned_cols=58 Identities=31% Similarity=0.412 Sum_probs=44.7
Q ss_pred HHHHHHHHhhcCcEEeeccCC-----CCCCeEEEEcCCHHHHHHH-HHhCCceecCeEE-EEEEE
Q 031896 19 TNLVLREFEKCGVILKHVPGP-----RDANWMHILYQNRSDAQKA-LSKNGMQINGVLI-VGVKP 76 (151)
Q Consensus 19 ~~~Vl~~F~~~G~I~~~~~~p-----~~~NWi~i~y~~~~~A~rA-L~~nG~ii~g~~m-IGVkp 76 (151)
...+..-|+-||.|..+.-.- ....+-.|+|.+..+|++| ++.||-.|.|..| |+++-
T Consensus 292 e~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~ 356 (549)
T KOG0147|consen 292 EDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVT 356 (549)
T ss_pred HHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEee
Confidence 346677799999998764211 2357888999999999999 6779999999998 55554
No 54
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=82.72 E-value=3.4 Score=34.45 Aligned_cols=47 Identities=21% Similarity=0.338 Sum_probs=35.3
Q ss_pred HHhhcCcEEeeccC--CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEE
Q 031896 25 EFEKCGVILKHVPG--PRDANWMHILYQNRSDAQKALSK-NGMQINGVLI 71 (151)
Q Consensus 25 ~F~~~G~I~~~~~~--p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~m 71 (151)
.|++||+|+++... +--.+=-||.|.+...|..||+. +|-.+=|..|
T Consensus 33 LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~m 82 (221)
T KOG4206|consen 33 LFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPM 82 (221)
T ss_pred HHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchh
Confidence 89999999998752 22235566778898888888875 8888877654
No 55
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=81.99 E-value=3.2 Score=36.12 Aligned_cols=63 Identities=19% Similarity=0.302 Sum_probs=48.9
Q ss_pred cCCcEEEEecCCCCCHH-HHHHHHhhcCcEEeecc----CC-CCCCeEEEEcCCHHHHHHHHHh-CCcee
Q 031896 4 ISSFLIVPFRFPPADTN-LVLREFEKCGVILKHVP----GP-RDANWMHILYQNRSDAQKALSK-NGMQI 66 (151)
Q Consensus 4 ~~~~wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~----~p-~~~NWi~i~y~~~~~A~rAL~~-nG~ii 66 (151)
.++|-+.||=.|.+..+ .+++-|--||.|++-.. .. ....+--+.|+|+.+|+.|+.- ||-+|
T Consensus 283 PeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQI 352 (371)
T KOG0146|consen 283 PEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQI 352 (371)
T ss_pred CCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhh
Confidence 46788999999999554 78899999999997432 11 2356778999999999999976 66544
No 56
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=80.45 E-value=6.5 Score=37.12 Aligned_cols=56 Identities=27% Similarity=0.399 Sum_probs=48.0
Q ss_pred HHHHHHHhhcCcEEeeccCC-----CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEEC
Q 031896 20 NLVLREFEKCGVILKHVPGP-----RDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPL 77 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p-----~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~ 77 (151)
+.+-..|++||.++++.- | .-..+--|+|.+..+|.+||.. ||..|.|.- |.|-|.
T Consensus 132 ~dLk~vFs~~G~V~Ei~I-P~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~-VAVDWA 193 (678)
T KOG0127|consen 132 PDLKNVFSNFGKVVEIVI-PRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRP-VAVDWA 193 (678)
T ss_pred HHHHHHHhhcceEEEEEc-ccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCce-eEEeee
Confidence 477889999999999874 3 1248899999999999999987 999999977 999984
No 57
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=79.62 E-value=8.3 Score=35.48 Aligned_cols=86 Identities=20% Similarity=0.282 Sum_probs=58.0
Q ss_pred CcEEEEecCCCCCH-HHHHHHHhhcCcEEeecc-----CCCCCCeEEEEcCCHHHHHHHHHh-C------Ccee------
Q 031896 6 SFLIVPFRFPPADT-NLVLREFEKCGVILKHVP-----GPRDANWMHILYQNRSDAQKALSK-N------GMQI------ 66 (151)
Q Consensus 6 ~~wVtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~-----~p~~~NWi~i~y~~~~~A~rAL~~-n------G~ii------ 66 (151)
++=|.|=+.|.+.. +.++-.|++.|.|-+.+- .-.+..+--|+|.++.+|++|++. | |+.|
T Consensus 83 G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sv 162 (506)
T KOG0117|consen 83 GCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSV 162 (506)
T ss_pred CceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEee
Confidence 45577778888755 478889999999998752 113567999999999999999986 4 4333
Q ss_pred -cCeEEEEEEECChHHHHHHhhhhcc
Q 031896 67 -NGVLIVGVKPLDPMQRQALNERINS 91 (151)
Q Consensus 67 -~g~~mIGVkp~d~~~~~~l~~~~~~ 91 (151)
+-.+.||=+|=+.+.-+.|.+-.+.
T Consensus 163 an~RLFiG~IPK~k~keeIlee~~kV 188 (506)
T KOG0117|consen 163 ANCRLFIGNIPKTKKKEEILEEMKKV 188 (506)
T ss_pred ecceeEeccCCccccHHHHHHHHHhh
Confidence 3445566666544433344433333
No 58
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=79.17 E-value=1.6 Score=40.13 Aligned_cols=61 Identities=15% Similarity=0.182 Sum_probs=51.0
Q ss_pred CCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEECCh
Q 031896 17 ADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPLDP 79 (151)
Q Consensus 17 ~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~d~ 79 (151)
...+....||.+||+|..+..... .-=--|+|.++.+|-+|-+-.|.+|++.. |=|.|.++
T Consensus 385 nt~a~ln~hfA~fG~i~n~qv~~~-~~~a~vTF~t~aeag~a~~s~~avlnnr~-iKl~whnp 445 (526)
T KOG2135|consen 385 NTIADLNPHFAQFGEIENIQVDYS-SLHAVVTFKTRAEAGEAYASHGAVLNNRF-IKLFWHNP 445 (526)
T ss_pred chHhhhhhhhhhcCccccccccCc-hhhheeeeeccccccchhccccceecCce-eEEEEecC
Confidence 456788999999999999875332 34557899999999999999999999977 88888776
No 59
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=78.13 E-value=8.5 Score=33.75 Aligned_cols=54 Identities=28% Similarity=0.436 Sum_probs=43.2
Q ss_pred CHHHHHHHHhhcCcEEeeccC-----CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEE
Q 031896 18 DTNLVLREFEKCGVILKHVPG-----PRDANWMHILYQNRSDAQKALSK-NGMQINGVLI 71 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~~-----p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~m 71 (151)
.-+.+-++|++||.|-.+..- --...+--|.|.++-+...|-+. +|..|+|..+
T Consensus 114 ~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri 173 (335)
T KOG0113|consen 114 SESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRI 173 (335)
T ss_pred cHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEE
Confidence 456889999999999876421 01357899999999999999988 8999988663
No 60
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=77.17 E-value=4.9 Score=35.22 Aligned_cols=55 Identities=20% Similarity=0.342 Sum_probs=42.8
Q ss_pred CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEEE
Q 031896 18 DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVKP 76 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVkp 76 (151)
..+.+-..|+++|.++|... -.|+--+.-++..+|+.|.+ .||=.|+|.. |-|+-
T Consensus 15 ~~~elr~lFe~ygkVlECDI---vKNYgFVHiEdktaaedairNLhgYtLhg~n-InVea 70 (346)
T KOG0109|consen 15 TEQELRSLFEQYGKVLECDI---VKNYGFVHIEDKTAAEDAIRNLHGYTLHGVN-INVEA 70 (346)
T ss_pred chHHHHHHHHhhCceEeeee---ecccceEEeecccccHHHHhhcccceecceE-EEEEe
Confidence 45677788999999998764 34655555578889999999 8999998844 77765
No 61
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=75.67 E-value=3.9 Score=33.89 Aligned_cols=68 Identities=18% Similarity=0.214 Sum_probs=48.6
Q ss_pred cEEEEecCCCCCHHHHHHHHhhcCcEE--eecc---CCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEE
Q 031896 7 FLIVPFRFPPADTNLVLREFEKCGVIL--KHVP---GPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKP 76 (151)
Q Consensus 7 ~wVtVFGfp~~~~~~Vl~~F~~~G~I~--~~~~---~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp 76 (151)
.||.=-+|--.... +-.||+.||.|- .... .....+..++.|++...++.||+.||..|-|.- |=|.+
T Consensus 104 v~v~nvd~~~t~~~-~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~-i~vt~ 176 (231)
T KOG4209|consen 104 VWVGNVDFLVTLTK-IELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPA-IEVTL 176 (231)
T ss_pred EEEeccccccccch-hhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCccccccc-ceeee
Confidence 45554555555554 889999999994 2221 123568999999999999999999999997755 44433
No 62
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=75.45 E-value=1.8 Score=36.90 Aligned_cols=61 Identities=25% Similarity=0.260 Sum_probs=44.2
Q ss_pred HHHHHHHHh-hcCcEEeeccC----CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEE-EEEEECCh
Q 031896 19 TNLVLREFE-KCGVILKHVPG----PRDANWMHILYQNRSDAQKALSK-NGMQINGVLI-VGVKPLDP 79 (151)
Q Consensus 19 ~~~Vl~~F~-~~G~I~~~~~~----p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~m-IGVkp~d~ 79 (151)
...|..+|+ ++|+|.+.... +.--.=++|+|....+|++|+.. ||.-++|.=+ .=+.|+++
T Consensus 82 yEd~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~ 149 (260)
T KOG2202|consen 82 YEDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTD 149 (260)
T ss_pred HHHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCc
Confidence 467889998 99999987432 12123389999999999999987 8888887543 33455544
No 63
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=74.69 E-value=14 Score=30.23 Aligned_cols=74 Identities=15% Similarity=0.163 Sum_probs=55.0
Q ss_pred CcEEEEecCCCCC-HHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECChH
Q 031896 6 SFLIVPFRFPPAD-TNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLDPM 80 (151)
Q Consensus 6 ~~wVtVFGfp~~~-~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d~~ 80 (151)
.+-|.|=..+... ...+=..|..+|.|-.+-.+-....+--|.|+++-+|..|... ||+.|.| ..|-|--..-.
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG-~r~rVE~S~G~ 85 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICG-SRIRVELSTGR 85 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccC-ceEEEEeecCC
Confidence 4567776777664 4466778999999887644333457889999999999999986 9999988 44777765443
No 64
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=73.95 E-value=0.75 Score=37.83 Aligned_cols=72 Identities=21% Similarity=0.228 Sum_probs=54.6
Q ss_pred cCCcEEEEecCCCCCHH-HHHHHHhhcCcEEeecc---CCC--CCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEEE
Q 031896 4 ISSFLIVPFRFPPADTN-LVLREFEKCGVILKHVP---GPR--DANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVKP 76 (151)
Q Consensus 4 ~~~~wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~---~p~--~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVkp 76 (151)
-+.-||.|=|+|.+.+. .||.-|++||+||++.- -.+ ...+..|.|.+--+-.=|+- .||-.|.|.. |-|-=
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRt-irVDH 111 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRT-IRVDH 111 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceeccee-EEeee
Confidence 35789999999999665 78999999999998742 112 25799999998777655553 5998887755 76654
No 65
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=73.92 E-value=6.5 Score=37.14 Aligned_cols=78 Identities=23% Similarity=0.358 Sum_probs=60.4
Q ss_pred CcEEEEecCCCCCHHHHHHH-HhhcCcEEeecc----CC-CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECC
Q 031896 6 SFLIVPFRFPPADTNLVLRE-FEKCGVILKHVP----GP-RDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLD 78 (151)
Q Consensus 6 ~~wVtVFGfp~~~~~~Vl~~-F~~~G~I~~~~~----~p-~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d 78 (151)
+..+.|-+.|++.++.=|.. |+.+|.|-..+. +. ..-++-.++|+=..+++|||.+ ++..++|.+ |-|.|+.
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~-l~v~~A~ 83 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRI-LNVDPAK 83 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCccccee-ccccccc
Confidence 45678889999988866655 588999986542 11 3458899999999999999998 888898855 9999986
Q ss_pred hHHHHH
Q 031896 79 PMQRQA 84 (151)
Q Consensus 79 ~~~~~~ 84 (151)
+..|..
T Consensus 84 ~R~r~e 89 (678)
T KOG0127|consen 84 KRARSE 89 (678)
T ss_pred ccccch
Confidence 654443
No 66
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=70.53 E-value=20 Score=34.03 Aligned_cols=76 Identities=18% Similarity=0.260 Sum_probs=57.9
Q ss_pred CcEEEEecCCCC-------CHHHHHHHHhhcCcEEeeccCC--CC--CCeEEEEcCCHHHHHHHHHh-CCceecCeEEEE
Q 031896 6 SFLIVPFRFPPA-------DTNLVLREFEKCGVILKHVPGP--RD--ANWMHILYQNRSDAQKALSK-NGMQINGVLIVG 73 (151)
Q Consensus 6 ~~wVtVFGfp~~-------~~~~Vl~~F~~~G~I~~~~~~p--~~--~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIG 73 (151)
++.|.|=|.|.- ....+-.-|+++|.|+...+.+ .| ...+-+.|.+..+|+.|++. ||..|.-+=..-
T Consensus 58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~ 137 (698)
T KOG2314|consen 58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFF 137 (698)
T ss_pred ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccceEE
Confidence 467788888863 2234446789999999987632 22 36888999999999999987 999998777777
Q ss_pred EEECChHH
Q 031896 74 VKPLDPMQ 81 (151)
Q Consensus 74 Vkp~d~~~ 81 (151)
|.-.++.+
T Consensus 138 v~~f~d~e 145 (698)
T KOG2314|consen 138 VRLFKDFE 145 (698)
T ss_pred eehhhhHH
Confidence 87777763
No 67
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=69.75 E-value=6.2 Score=37.27 Aligned_cols=69 Identities=23% Similarity=0.423 Sum_probs=43.6
Q ss_pred cEEEEec-CCCC-CHHHHHHHH--hhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHH---HhCCceec-CeEEEEEEEC
Q 031896 7 FLIVPFR-FPPA-DTNLVLREF--EKCGVILKHVPGPRDANWMHILYQNRSDAQKAL---SKNGMQIN-GVLIVGVKPL 77 (151)
Q Consensus 7 ~wVtVFG-fp~~-~~~~Vl~~F--~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL---~~nG~ii~-g~~mIGVkp~ 77 (151)
++|.|.- +|.. -.+.|-..| ++|-..++.+++ .+.|| +|+|++.+|||+|- ++--+.|- .-||--+|+|
T Consensus 175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa-~N~nW-yITfesd~DAQqAykylreevk~fqgKpImARIKai 251 (684)
T KOG2591|consen 175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFA-HNDNW-YITFESDTDAQQAYKYLREEVKTFQGKPIMARIKAI 251 (684)
T ss_pred eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeee-ecCce-EEEeecchhHHHHHHHHHHHHHhhcCcchhhhhhhh
Confidence 3444443 3443 344566666 458888888874 57899 69999999998774 44444443 3455555654
No 68
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=69.66 E-value=8.2 Score=33.54 Aligned_cols=74 Identities=22% Similarity=0.188 Sum_probs=52.5
Q ss_pred cCCcEEEEecCCCCCHHHHH-HHHhhcCcEEeeccCC-----CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEE-EEEE
Q 031896 4 ISSFLIVPFRFPPADTNLVL-REFEKCGVILKHVPGP-----RDANWMHILYQNRSDAQKALSK-NGMQINGVLI-VGVK 75 (151)
Q Consensus 4 ~~~~wVtVFGfp~~~~~~Vl-~~F~~~G~I~~~~~~p-----~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~m-IGVk 75 (151)
|.+.-.-|.|.|...+..=| +.|+.||.|+.-+.-- -...--.|+|+.+.+|.+|++- ||+.=.|..- |-||
T Consensus 125 Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVK 204 (360)
T KOG0145|consen 125 IKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVK 204 (360)
T ss_pred hcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEE
Confidence 44555779999999877555 4589999998543210 1124456899999999999975 9988876432 6777
Q ss_pred EC
Q 031896 76 PL 77 (151)
Q Consensus 76 p~ 77 (151)
-.
T Consensus 205 Fa 206 (360)
T KOG0145|consen 205 FA 206 (360)
T ss_pred ec
Confidence 65
No 69
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=69.62 E-value=10 Score=35.04 Aligned_cols=68 Identities=19% Similarity=0.170 Sum_probs=47.8
Q ss_pred cEEEEecCCCCCHHH-HHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEE
Q 031896 7 FLIVPFRFPPADTNL-VLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVK 75 (151)
Q Consensus 7 ~wVtVFGfp~~~~~~-Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVk 75 (151)
+-|.|=-.|...+=+ +-+.|..||+++-...-..+..=--|+|.++.+|+||.+. ||..++|.- |-|.
T Consensus 537 ~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~l~Gr~-I~V~ 606 (608)
T KOG4212|consen 537 CQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPEDAERACALMNGSRLDGRN-IKVT 606 (608)
T ss_pred cEEEEecCCccccHHHHHHHHHhccceehhhhhccCCccceEEecCHHHHHHHHHHhccCcccCce-eeee
Confidence 446666777776654 4568999999985432011222228999999999999987 999998854 6653
No 70
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=69.32 E-value=12 Score=36.62 Aligned_cols=51 Identities=31% Similarity=0.257 Sum_probs=39.4
Q ss_pred EEecCCCCCHHHHH-HHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh
Q 031896 10 VPFRFPPADTNLVL-REFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK 61 (151)
Q Consensus 10 tVFGfp~~~~~~Vl-~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~ 61 (151)
-|=|.+-..+...| .-|+.||+|.++...+ .--+-+|+-.++.+|.+||++
T Consensus 425 wvG~i~k~v~e~dL~~~feefGeiqSi~li~-~R~cAfI~M~~RqdA~kalqk 476 (894)
T KOG0132|consen 425 WVGGIPKNVTEQDLANLFEEFGEIQSIILIP-PRGCAFIKMVRRQDAEKALQK 476 (894)
T ss_pred eeccccchhhHHHHHHHHHhcccceeEeecc-CCceeEEEEeehhHHHHHHHH
Confidence 34477777666555 5689999999987643 456788889999999999987
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=69.31 E-value=16 Score=35.16 Aligned_cols=60 Identities=20% Similarity=0.232 Sum_probs=46.8
Q ss_pred CHHHHHHHHhhcCcEEeeccC--CCCC------CeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECC
Q 031896 18 DTNLVLREFEKCGVILKHVPG--PRDA------NWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLD 78 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~~--p~~~------NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d 78 (151)
-...+..+|...|.|+.+... +... .+.-|.|+++.+|++||+. +|++|.|.- |=|+-+.
T Consensus 528 t~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~-l~lk~S~ 596 (725)
T KOG0110|consen 528 TLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHK-LELKISE 596 (725)
T ss_pred chhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCce-EEEEecc
Confidence 345678899999999988431 1222 6788999999999999999 899999866 6666554
No 72
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=67.50 E-value=13 Score=34.20 Aligned_cols=62 Identities=24% Similarity=0.265 Sum_probs=45.8
Q ss_pred CHHHHHHHHhhcCcEEeecc--CC--CCCCeEEEEcCCHHHHHHHHHh-CCce-ecCeE-EEEEEECCh
Q 031896 18 DTNLVLREFEKCGVILKHVP--GP--RDANWMHILYQNRSDAQKALSK-NGMQ-INGVL-IVGVKPLDP 79 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~--~p--~~~NWi~i~y~~~~~A~rAL~~-nG~i-i~g~~-mIGVkp~d~ 79 (151)
..+.|-+-|++||.|.+... .+ .-..+.-|+|.+++.|.-|++. ||.. +.|.- =+-||..|+
T Consensus 137 te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADt 205 (510)
T KOG0144|consen 137 TENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADT 205 (510)
T ss_pred cHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEeccc
Confidence 34588999999999998753 12 2357899999999999999987 7744 34422 277888765
No 73
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=67.19 E-value=15 Score=29.30 Aligned_cols=59 Identities=17% Similarity=0.179 Sum_probs=48.5
Q ss_pred CCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEE
Q 031896 15 PPADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKP 76 (151)
Q Consensus 15 p~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp 76 (151)
|.++...|+++++.||.|..+-. -|..=.-+.|.+-.+|=+|++.=+...-| -|+-|-+
T Consensus 100 ~~edl~sV~~~Ls~fGpI~SVT~--cGrqsavVvF~d~~SAC~Av~Af~s~~pg-tm~qCsW 158 (166)
T PF15023_consen 100 PTEDLKSVIQRLSVFGPIQSVTL--CGRQSAVVVFKDITSACKAVSAFQSRAPG-TMFQCSW 158 (166)
T ss_pred hHHHHHHHHHHHHhcCCcceeee--cCCceEEEEehhhHHHHHHHHhhcCCCCC-ceEEeec
Confidence 44688899999999999999875 57777889999999999999987776655 5666655
No 74
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=65.93 E-value=22 Score=31.08 Aligned_cols=62 Identities=24% Similarity=0.306 Sum_probs=45.8
Q ss_pred CHHHHHHHHhhcCcEEeecc--CCC--CCCeEEEEcCCHHHHHHHHHh-CCcee--cCeEEEEEEECCh
Q 031896 18 DTNLVLREFEKCGVILKHVP--GPR--DANWMHILYQNRSDAQKALSK-NGMQI--NGVLIVGVKPLDP 79 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~--~p~--~~NWi~i~y~~~~~A~rAL~~-nG~ii--~g~~mIGVkp~d~ 79 (151)
..+.|++.|+-||+|.|.-. +|+ ...+--++|.+..+|+.|++- +|.+- +.+.-+-||-.|.
T Consensus 32 ~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADT 100 (371)
T KOG0146|consen 32 SEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADT 100 (371)
T ss_pred cHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccc
Confidence 46789999999999998742 343 357899999999999999875 66443 3333466777643
No 75
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=61.65 E-value=39 Score=21.53 Aligned_cols=51 Identities=16% Similarity=0.313 Sum_probs=37.6
Q ss_pred CCCHHHHHHHHhhcCc-EEeeccC-CCCCCeEEEEcCCHHHHHHHHHhCCcee
Q 031896 16 PADTNLVLREFEKCGV-ILKHVPG-PRDANWMHILYQNRSDAQKALSKNGMQI 66 (151)
Q Consensus 16 ~~~~~~Vl~~F~~~G~-I~~~~~~-p~~~NWi~i~y~~~~~A~rAL~~nG~ii 66 (151)
|..+..|++.|.+.|- |...... ..+..-+++..++...|.++|+++|-.+
T Consensus 12 pG~La~v~~~l~~~~inI~~i~~~~~~~~~~~rl~~~~~~~~~~~L~~~G~~v 64 (66)
T cd04908 12 PGRLAAVTEILSEAGINIRALSIADTSEFGILRLIVSDPDKAKEALKEAGFAV 64 (66)
T ss_pred CChHHHHHHHHHHCCCCEEEEEEEecCCCCEEEEEECCHHHHHHHHHHCCCEE
Confidence 5578899999988774 4433221 1235888999999889999999998554
No 76
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=60.03 E-value=40 Score=28.39 Aligned_cols=73 Identities=16% Similarity=0.187 Sum_probs=51.4
Q ss_pred cEEEEecCCCC-CHHHHHHHHhhcCcEEeecc--CCCC--CCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEECCh
Q 031896 7 FLIVPFRFPPA-DTNLVLREFEKCGVILKHVP--GPRD--ANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPLDP 79 (151)
Q Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~--~p~~--~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~d~ 79 (151)
+-|.|-..+.. ....|.+.|+++|++..+.. .+.| ..--+|.|....+|.+|+++ ||..++|..|=..+-.++
T Consensus 84 ~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~ 162 (243)
T KOG0533|consen 84 TKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSP 162 (243)
T ss_pred ceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCc
Confidence 44666666666 44578888999997776532 2222 35678999999999999987 898888888644444444
No 77
>TIGR01160 SUI1_MOF2 translation initiation factor SUI1, eukaryotic. Alternate name: MOF2. A similar protein family (see TIGRFAMs model TIGR01158) is found in prokaryotes. The human proteins complements a yeast SUI1 mutatation.
Probab=58.26 E-value=45 Score=24.86 Aligned_cols=57 Identities=16% Similarity=0.275 Sum_probs=42.6
Q ss_pred cEEEEecCCCC-CHHHHHHHHhh---cCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCce
Q 031896 7 FLIVPFRFPPA-DTNLVLREFEK---CGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQ 65 (151)
Q Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~---~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~i 65 (151)
+-.+|-||+.. ++..+++.|.+ ||--+... +.++.||.|+=+.+......|.+-|-.
T Consensus 40 ~VTiI~Gl~~~~dlk~l~K~lKkk~~cGGsVk~~--~~~~~~IelQGD~re~v~~~L~~~g~~ 100 (110)
T TIGR01160 40 TLTTVQGLPKEYDLKKIVKALKKEFACNGTVIED--PEMGEVIQLQGDQRKNVCEFLISQGLL 100 (110)
T ss_pred cEEEEeccCChHHHHHHHHHHHHHhCCCceEEeC--CCCCCEEEEeCcHHHHHHHHHHHcCCC
Confidence 34467799843 55678888865 66666443 356789999999999999999998843
No 78
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=57.91 E-value=43 Score=29.24 Aligned_cols=65 Identities=15% Similarity=0.223 Sum_probs=46.1
Q ss_pred ecC-CCC-CHHHHHHHHhhcCcEEeeccC-----CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEEC
Q 031896 12 FRF-PPA-DTNLVLREFEKCGVILKHVPG-----PRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPL 77 (151)
Q Consensus 12 FGf-p~~-~~~~Vl~~F~~~G~I~~~~~~-----p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~ 77 (151)
||+ .++ +...+.+.|..||+|-+.+.. --...+--+.|-++++|++|+.. ||+=|++.- |---|.
T Consensus 67 vgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~-IRTNWA 139 (321)
T KOG0148|consen 67 VGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRT-IRTNWA 139 (321)
T ss_pred ehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccce-eecccc
Confidence 454 444 555677789999999875421 12357888999999999999987 888886554 555444
No 79
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=57.66 E-value=24 Score=29.30 Aligned_cols=71 Identities=20% Similarity=0.222 Sum_probs=53.1
Q ss_pred CCcEEEEecCCCCCH-HHHHHHHhhcCcEEeecc--CCCCCCeEEEEcCCHHHHHHHHH-hCCceecCeEEEEEEE
Q 031896 5 SSFLIVPFRFPPADT-NLVLREFEKCGVILKHVP--GPRDANWMHILYQNRSDAQKALS-KNGMQINGVLIVGVKP 76 (151)
Q Consensus 5 ~~~wVtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~--~p~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~mIGVkp 76 (151)
+++-|.|=-.|++.. ..|-+.|.++|.|++++- .+...-+..+.|+++-+|..|+. +||--+.| +.+-|--
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg-~rLRVEf 79 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDG-CRLRVEF 79 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCc-ceEEEEe
Confidence 456677777787744 478889999999998752 23457899999999999999986 47766655 5455543
No 80
>PRK05387 histidinol-phosphate aminotransferase; Provisional
Probab=56.32 E-value=73 Score=26.38 Aligned_cols=43 Identities=19% Similarity=0.391 Sum_probs=21.6
Q ss_pred HHHHHHHhhcCcEEeeccCCCCCCeEEEEcC--CHHHHHHHHHhCCcee
Q 031896 20 NLVLREFEKCGVILKHVPGPRDANWMHILYQ--NRSDAQKALSKNGMQI 66 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~--~~~~A~rAL~~nG~ii 66 (151)
+.+++.++++|- +.. |.+++++-++.. +..+..++|.+.|-.+
T Consensus 274 ~~l~~~L~~~g~--~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~gi~v 318 (353)
T PRK05387 274 ERLVEELEALGF--EVL--PSKANFVFARHPSHDAAELAAKLRERGIIV 318 (353)
T ss_pred HHHHHHHHHCCC--eEC--CCcCcEEEEECCCCCHHHHHHHHHHCCEEE
Confidence 445555666652 222 345555555554 3445555566666444
No 81
>COG1058 CinA Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]
Probab=55.19 E-value=33 Score=29.07 Aligned_cols=56 Identities=14% Similarity=0.162 Sum_probs=37.5
Q ss_pred CcEEEEecCCCCCHHHHHHHHhhcCcEEeeccCCCCCCe----EEEEc--CCHHHHHHHHHh
Q 031896 6 SFLIVPFRFPPADTNLVLREFEKCGVILKHVPGPRDANW----MHILY--QNRSDAQKALSK 61 (151)
Q Consensus 6 ~~wVtVFGfp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NW----i~i~y--~~~~~A~rAL~~ 61 (151)
.+-|.+||++.+.+...|+.+.+=-+.+.+...|..+.+ +.|+- .+...|.+++++
T Consensus 180 ~~~~~~~gi~ES~la~~L~~i~~~~~~~~i~s~p~~~~~~~~~~~i~~~~~~~~~~~~~~~~ 241 (255)
T COG1058 180 SRVLRVFGIGESSLAPTLKDLQDEQPNVTIASYPKDGEVRLRELVIRAEARDEEEADALLRW 241 (255)
T ss_pred EEEEEEcCCChHHHHHHHHHHHhcCCCCEEEecCCCCceeccceEEEEecCCHHHHHHHHHH
Confidence 467899999999999999999885544444444444444 22443 666777766654
No 82
>cd04904 ACT_AAAH ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=53.97 E-value=61 Score=21.47 Aligned_cols=29 Identities=21% Similarity=0.242 Sum_probs=21.9
Q ss_pred CCCHHHHHHHHhhcCc-EEeeccCCC-CCCe
Q 031896 16 PADTNLVLREFEKCGV-ILKHVPGPR-DANW 44 (151)
Q Consensus 16 ~~~~~~Vl~~F~~~G~-I~~~~~~p~-~~NW 44 (151)
|..+..||..|++.|- +.+.+..|. +..|
T Consensus 11 pG~L~~vL~~f~~~~iNlt~IeSRP~~~~~~ 41 (74)
T cd04904 11 VGALARALKLFEEFGVNLTHIESRPSRRNGS 41 (74)
T ss_pred CcHHHHHHHHHHHCCCcEEEEECCCCCCCCc
Confidence 6789999999999985 556666664 4677
No 83
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=53.42 E-value=48 Score=27.32 Aligned_cols=57 Identities=11% Similarity=0.122 Sum_probs=44.0
Q ss_pred CCcEEEEecCCCCCH-HHHHHHHhhcCcEEeeccCC-----CCCCeEEEEcCCHHHHHHHHHh
Q 031896 5 SSFLIVPFRFPPADT-NLVLREFEKCGVILKHVPGP-----RDANWMHILYQNRSDAQKALSK 61 (151)
Q Consensus 5 ~~~wVtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~~p-----~~~NWi~i~y~~~~~A~rAL~~ 61 (151)
.+..|.|=|.++..+ .++.+.|-++|.+++....- ....+--+.|.++.+|+.|.+-
T Consensus 8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAiki 70 (203)
T KOG0131|consen 8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKI 70 (203)
T ss_pred CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHH
Confidence 345677778888877 56667789999999876411 2457889999999999999764
No 84
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=51.92 E-value=22 Score=31.65 Aligned_cols=75 Identities=20% Similarity=0.247 Sum_probs=54.4
Q ss_pred cCCcEEEEecCCCC-CHHHHHHHHhhcCcEEeeccC--C-----------CCCCeEEEEcCCHHHHHHHHH-hCCceecC
Q 031896 4 ISSFLIVPFRFPPA-DTNLVLREFEKCGVILKHVPG--P-----------RDANWMHILYQNRSDAQKALS-KNGMQING 68 (151)
Q Consensus 4 ~~~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~--p-----------~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g 68 (151)
.....|-|.|.|.. ..+.+.++|.+||.|-..... | ...-=-.|.|.++..|+.|.- .+|+-+.|
T Consensus 64 s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g 143 (351)
T KOG1995|consen 64 SDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG 143 (351)
T ss_pred cccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccC
Confidence 34556889999997 667888899999999865431 1 111224588999999999976 49999988
Q ss_pred eEEEEEEECCh
Q 031896 69 VLIVGVKPLDP 79 (151)
Q Consensus 69 ~~mIGVkp~d~ 79 (151)
+. |.|-+|..
T Consensus 144 n~-ikvs~a~~ 153 (351)
T KOG1995|consen 144 NT-IKVSLAER 153 (351)
T ss_pred CC-chhhhhhh
Confidence 65 77766543
No 85
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=51.19 E-value=9.5 Score=24.39 Aligned_cols=56 Identities=23% Similarity=0.351 Sum_probs=32.3
Q ss_pred CcEEEEec-CCC-CCHHHHHHHHhhcCcEEeeccCCCCCCeEEEE---cCCHHHHHHHHHh
Q 031896 6 SFLIVPFR-FPP-ADTNLVLREFEKCGVILKHVPGPRDANWMHIL---YQNRSDAQKALSK 61 (151)
Q Consensus 6 ~~wVtVFG-fp~-~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~---y~~~~~A~rAL~~ 61 (151)
+.|....| |.. +.++..++++.+-|.-........+.+|.+|. |.++.+|++++++
T Consensus 3 ~~y~vQv~s~~~~~~A~~~~~~l~~~g~~~~~~~~~~~~~~yrV~~G~f~~~~~A~~~~~~ 63 (76)
T PF05036_consen 3 SGYYVQVGSFSSEENAERLLAKLKKKGPDAYVVQVSKGGPWYRVRVGPFSSREEAEAALRK 63 (76)
T ss_dssp -EEEEEEEEES-HHHHHHHHHHHHHHT-----EEEEEETTCEEEEECCECTCCHHHHHHHH
T ss_pred CcEEEEEEEcCCHHHHHHHHHHHHhcCCCcceEEEecCCceEEEEECCCCCHHHHHHHHHH
Confidence 34444444 554 46778899998887653211112366777776 5888888877764
No 86
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=50.02 E-value=39 Score=27.12 Aligned_cols=60 Identities=18% Similarity=0.287 Sum_probs=39.9
Q ss_pred CCCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-C--CceecCeEEEEEE
Q 031896 14 FPPADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-N--GMQINGVLIVGVK 75 (151)
Q Consensus 14 fp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-n--G~ii~g~~mIGVk 75 (151)
|.++..+.+.++|.+++.+++..+-+ .=-=|-|.|.+..+|++|... + |..+.|.. +-|.
T Consensus 4 ~~~~~~~~l~~l~~~~~~~~~~~~L~-sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~-l~~y 66 (184)
T PF04847_consen 4 FQPDNLAELEELFSTYDPPVQFSPLK-SFRRIRVVFESPESAQRARQLLHWDGTSFNGKR-LRVY 66 (184)
T ss_dssp -----HHHHHHHHHTT-SS-EEEEET-TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE--EEE
T ss_pred cChhhHHHHHHHHHhcCCceEEEEcC-CCCEEEEEeCCHHHHHHHHHHhcccccccCCCc-eEEE
Confidence 56788899999999999999876522 335588999999999999877 4 78888855 4443
No 87
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=49.89 E-value=19 Score=31.68 Aligned_cols=49 Identities=16% Similarity=0.322 Sum_probs=40.9
Q ss_pred HHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEE
Q 031896 20 NLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVLI 71 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~m 71 (151)
..+...|+++|.+++..- -.|+..|.|+...+|..|.+. ||+.+.|.-|
T Consensus 93 ~ElRa~fe~ygpviecdi---vkdy~fvh~d~~eda~~air~l~~~~~~gk~m 142 (346)
T KOG0109|consen 93 QELRAKFEKYGPVIECDI---VKDYAFVHFDRAEDAVEAIRGLDNTEFQGKRM 142 (346)
T ss_pred HHHhhhhcccCCceeeee---ecceeEEEEeeccchHHHHhccccccccccee
Confidence 467778999999998763 568999999999999999965 8888877654
No 88
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=49.69 E-value=56 Score=29.61 Aligned_cols=54 Identities=20% Similarity=0.293 Sum_probs=40.3
Q ss_pred EEEecCCCCCHH-HHHHHHhhcCcEEeecc---CCCCC--CeEEEEcCCHHHHHHHHHhC
Q 031896 9 IVPFRFPPADTN-LVLREFEKCGVILKHVP---GPRDA--NWMHILYQNRSDAQKALSKN 62 (151)
Q Consensus 9 VtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~---~p~~~--NWi~i~y~~~~~A~rAL~~n 62 (151)
|.|=..|++.+. .+-+.|.+||.|.+... .+.+. ++-.|.|.+..++++|+..+
T Consensus 291 i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As 350 (419)
T KOG0116|consen 291 IFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS 350 (419)
T ss_pred eEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC
Confidence 778888887555 45566799999998642 12222 55567799999999999999
No 89
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=49.13 E-value=24 Score=34.39 Aligned_cols=59 Identities=27% Similarity=0.441 Sum_probs=46.0
Q ss_pred EEecCCCC-CHHHHHHHHhhcCcEEeecc--------CCCCCCeEEEEcCCHHHHHHHHHh-CCceecC
Q 031896 10 VPFRFPPA-DTNLVLREFEKCGVILKHVP--------GPRDANWMHILYQNRSDAQKALSK-NGMQING 68 (151)
Q Consensus 10 tVFGfp~~-~~~~Vl~~F~~~G~I~~~~~--------~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g 68 (151)
.|--.+|. +-+.+++.|.+||.|....- .-.+.|+--+-|-++.+|++||++ +|.++-+
T Consensus 178 yv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~ 246 (877)
T KOG0151|consen 178 YVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVME 246 (877)
T ss_pred eeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeee
Confidence 34445555 56789999999999987531 125679999999999999999998 8877754
No 90
>PRK10905 cell division protein DamX; Validated
Probab=48.40 E-value=61 Score=28.60 Aligned_cols=56 Identities=13% Similarity=0.153 Sum_probs=33.9
Q ss_pred CCcEEEEecCCCC-CHHHHHHHHhhcCcEEeeccCCCCCCeEEEE---cCCHHHHHHHHHh
Q 031896 5 SSFLIVPFRFPPA-DTNLVLREFEKCGVILKHVPGPRDANWMHIL---YQNRSDAQKALSK 61 (151)
Q Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~---y~~~~~A~rAL~~ 61 (151)
+.+.|-|-+|... .++..+++. .+.....++....|.-|+.|+ |.++.+|++|+++
T Consensus 246 ~~YTLQL~A~Ss~~~l~~fakKl-gL~~y~vy~TtRnGkpWYVV~yG~YaSraeAk~Aiak 305 (328)
T PRK10905 246 SHYTLQLSSSSNYDNLNGWAKKE-NLKNYVVYETTRNGQPWYVLVSGVYASKEEAKRAVST 305 (328)
T ss_pred CceEEEEEecCCHHHHHHHHHHc-CCCceEEEEeccCCceEEEEEecCCCCHHHHHHHHHH
Confidence 3456667777665 233333333 334444333222455599998 7899999999986
No 91
>PF09106 SelB-wing_2: Elongation factor SelB, winged helix ; InterPro: IPR015190 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 2". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2V9V_A 1LVA_A 2PLY_A 2UWM_A.
Probab=48.15 E-value=34 Score=21.87 Aligned_cols=29 Identities=24% Similarity=0.494 Sum_probs=23.8
Q ss_pred cCCCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEE
Q 031896 13 RFPPADTNLVLREFEKCGVILKHVPGPRDANWMHI 47 (151)
Q Consensus 13 Gfp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i 47 (151)
++++...+.+|+.+.+=|.|.... +|+|+
T Consensus 31 ~l~~k~~~~ll~~l~~~g~l~~~g------~~v~L 59 (59)
T PF09106_consen 31 RLPPKLFNALLEALVAEGRLKVEG------DWVRL 59 (59)
T ss_dssp TS-HCCHHHHHHHHHHTTSEEEES------SEEEE
T ss_pred cCCHHHHHHHHHHHHHCCCeeeEC------CEeeC
Confidence 577889999999999999998544 78875
No 92
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=47.82 E-value=35 Score=29.68 Aligned_cols=72 Identities=22% Similarity=0.234 Sum_probs=56.2
Q ss_pred EEEEecCCCCCHH-HHHHHHhhcCcEEeecc-----CCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEECChH
Q 031896 8 LIVPFRFPPADTN-LVLREFEKCGVILKHVP-----GPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPLDPM 80 (151)
Q Consensus 8 wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~-----~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~d~~ 80 (151)
-|.|=|.|+.... ..-++|+++|.|.+... --...++-.+.|+++.+..+++.+....|+| .||=|+-..|.
T Consensus 99 kiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~g-k~vevkrA~pk 176 (311)
T KOG4205|consen 99 KIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNG-KKVEVKRAIPK 176 (311)
T ss_pred EEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccceeeecC-ceeeEeeccch
Confidence 3445589998665 45567899998776542 1134688899999999999999999999998 66999998765
No 93
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=47.72 E-value=45 Score=27.44 Aligned_cols=60 Identities=20% Similarity=0.312 Sum_probs=43.6
Q ss_pred CCHHHHHHHHhhcCcEEeecc---CC---CCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEEC
Q 031896 17 ADTNLVLREFEKCGVILKHVP---GP---RDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKPL 77 (151)
Q Consensus 17 ~~~~~Vl~~F~~~G~I~~~~~---~p---~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp~ 77 (151)
-+..+..+-|+.||.|+..-. -+ ...-+-.|-|++...+.+|+.- ||+.++... |-|--.
T Consensus 108 vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~-itv~ya 174 (203)
T KOG0131|consen 108 VDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRP-ITVSYA 174 (203)
T ss_pred hhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCc-eEEEEE
Confidence 356678889999999997421 11 2345889999999999999976 888886655 555543
No 94
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=47.59 E-value=14 Score=27.18 Aligned_cols=34 Identities=12% Similarity=0.119 Sum_probs=26.0
Q ss_pred CCcEEEEecCCCCCHH-HHHHHH-hhcCcEEeeccC
Q 031896 5 SSFLIVPFRFPPADTN-LVLREF-EKCGVILKHVPG 38 (151)
Q Consensus 5 ~~~wVtVFGfp~~~~~-~Vl~~F-~~~G~I~~~~~~ 38 (151)
...||.++|.|....+ .+++.. +.+|++++....
T Consensus 103 ~~vWVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~ 138 (153)
T PF14111_consen 103 IPVWVRIYGLPLHLWSEEILKAIGSKIGEPIEVDEN 138 (153)
T ss_pred cchhhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcC
Confidence 4679999999998443 455555 779999998753
No 95
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=47.22 E-value=61 Score=29.51 Aligned_cols=69 Identities=17% Similarity=0.224 Sum_probs=52.9
Q ss_pred cEEEEecCCCC-CHHHHHHHHhhcCcEEeeccC---CC--CCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEE
Q 031896 7 FLIVPFRFPPA-DTNLVLREFEKCGVILKHVPG---PR--DANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKP 76 (151)
Q Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~---p~--~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp 76 (151)
+-|.|=+.|.+ ..+.|...|+..|.|+.++.. .+ -..+-.+.|.+.++|++|++. ||.-++|.- +=|-.
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~-l~v~~ 94 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRK-LRVNY 94 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCce-EEeec
Confidence 45666667776 455888999999999988631 12 358999999999999999987 899998865 44444
No 96
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=46.28 E-value=68 Score=19.62 Aligned_cols=50 Identities=14% Similarity=0.207 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHhhcCc-EEee--ccC-CCCCCeEEEEcCCHHHHHHHHHhCCce
Q 031896 16 PADTNLVLREFEKCGV-ILKH--VPG-PRDANWMHILYQNRSDAQKALSKNGMQ 65 (151)
Q Consensus 16 ~~~~~~Vl~~F~~~G~-I~~~--~~~-p~~~NWi~i~y~~~~~A~rAL~~nG~i 65 (151)
|.....++..|.++|- |... ... +.+..=+.++.++...+.++|+++|-.
T Consensus 10 pG~L~~i~~~l~~~~~nI~~i~~~~~~~~~~~~v~~~ve~~~~~~~~L~~~G~~ 63 (65)
T cd04882 10 PGGLHEILQILSEEGINIEYMYAFVEKKGGKALLIFRTEDIEKAIEVLQERGVE 63 (65)
T ss_pred CcHHHHHHHHHHHCCCChhheEEEccCCCCeEEEEEEeCCHHHHHHHHHHCCce
Confidence 5577888999988754 4322 111 124455788888999999999999853
No 97
>PRK07908 hypothetical protein; Provisional
Probab=45.78 E-value=1.4e+02 Score=24.86 Aligned_cols=44 Identities=16% Similarity=0.302 Sum_probs=31.4
Q ss_pred HHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCcee
Q 031896 20 NLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQI 66 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii 66 (151)
+.+++.+.+.| ++.. .|++++++-++..+..+..+.|+++|-.+
T Consensus 267 ~~l~~~L~~~~--~~~~-~p~~g~~~~~~~~~~~~~~~~l~~~gI~v 310 (349)
T PRK07908 267 AEMVAGLRAVG--ARVV-DPAAAPFVLVRVPDAELLRKRLRERGIAV 310 (349)
T ss_pred HHHHHHHHhCC--cEec-cCCCceEEEEECCcHHHHHHHHHhCCEEE
Confidence 45667777775 2333 25789999999888777888888888655
No 98
>cd00474 SUI1_eIF1 The SUI1/eIF1 (eukaryotic initiation factor 1) fold is found in eukaryotes, archaea, and some bacteria and is thought to play an important role in accurate initiator codon recognition during translation initiation. This fold, which includes two antiparallel alpha helices packed against the same side of a five-strand beta sheet, is structurally similar to other RNA-binding domains suggesting that SUI1/eIF1 may bind RNA. Point mutations in the yeast eIF1 implicate the protein in maintaining accurate start-site selection but its mechanism of action is unknown.
Probab=45.30 E-value=1e+02 Score=21.27 Aligned_cols=51 Identities=20% Similarity=0.276 Sum_probs=39.1
Q ss_pred EEEecCCCC--CHHHHHHHHhh---cCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCcee
Q 031896 9 IVPFRFPPA--DTNLVLREFEK---CGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQI 66 (151)
Q Consensus 9 VtVFGfp~~--~~~~Vl~~F~~---~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii 66 (151)
-+|-||+.. +...+++.|++ ||.-+.. .||.|+=+.+..+...|.+.|-.-
T Consensus 16 T~I~Gl~~~~~dlk~l~k~lKk~~~cggtv~~-------~~I~lQGD~r~~v~~~L~~~g~~~ 71 (77)
T cd00474 16 TTVQGLDLEYADLKKLAKELKKKCACGGTVKD-------EVIELQGDQRKKIKEFLIKMGFAK 71 (77)
T ss_pred EEEECCCCchHhHHHHHHHHHHHcCCCcEEec-------CEEEEeCcHHHHHHHHHHHcCCCH
Confidence 357799876 46678888865 4655542 699999999999999999988544
No 99
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=45.20 E-value=74 Score=27.80 Aligned_cols=67 Identities=19% Similarity=0.254 Sum_probs=45.3
Q ss_pred EEEecCCCCCH-HHHHHHHhhcCcEEeecc-----CCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEEE
Q 031896 9 IVPFRFPPADT-NLVLREFEKCGVILKHVP-----GPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVKP 76 (151)
Q Consensus 9 VtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~-----~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVkp 76 (151)
.+|==.|+..+ +.+...|.++|+|.+..- .-+.-.+-.+-|-.+.+|+||+.- ||..+-... |-|.-
T Consensus 44 LIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KT-IKVSy 117 (360)
T KOG0145|consen 44 LIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKT-IKVSY 117 (360)
T ss_pred eeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccce-EEEEe
Confidence 33444455544 577888999999997641 012235677889999999999975 998884433 44443
No 100
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=44.99 E-value=28 Score=31.17 Aligned_cols=70 Identities=16% Similarity=0.216 Sum_probs=44.2
Q ss_pred CCcEEEEecCCCCCH-HHHHHHHhhcCcEEeecc---------CCCCC---CeEEEEcCCHHHHHHHHHh-CCceecCeE
Q 031896 5 SSFLIVPFRFPPADT-NLVLREFEKCGVILKHVP---------GPRDA---NWMHILYQNRSDAQKALSK-NGMQINGVL 70 (151)
Q Consensus 5 ~~~wVtVFGfp~~~~-~~Vl~~F~~~G~I~~~~~---------~p~~~---NWi~i~y~~~~~A~rAL~~-nG~ii~g~~ 70 (151)
-.+.|-|.|.|.+.+ +.+++.|++||-|.+.-. ....+ .=--+.|--+.+..=|+.- |+..+.|.-
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~ 212 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKK 212 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcE
Confidence 356699999999965 589999999999997621 00011 1112345555555555554 777777643
Q ss_pred EEEEE
Q 031896 71 IVGVK 75 (151)
Q Consensus 71 mIGVk 75 (151)
|-|-
T Consensus 213 -~rVe 216 (382)
T KOG1548|consen 213 -LRVE 216 (382)
T ss_pred -EEEe
Confidence 5554
No 101
>PRK04781 histidinol-phosphate aminotransferase; Provisional
Probab=43.35 E-value=73 Score=27.04 Aligned_cols=45 Identities=13% Similarity=0.267 Sum_probs=32.6
Q ss_pred HHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCcee
Q 031896 20 NLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQI 66 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii 66 (151)
+.+.+.+++++.+..+. |+++|++-+++.+..+..++|.+.|-.+
T Consensus 283 ~~l~~~L~~~~~~~~~~--p~~g~f~~~~~~~~~~~~~~l~~~gI~v 327 (364)
T PRK04781 283 ERLHAALAQLPGVRRVY--PSQGNFLLVRFDDAEAAFQALLAAGVVV 327 (364)
T ss_pred HHHHHHHHhCCCCCeEC--CCCCcEEEEEcCCHHHHHHHHHHCCeEE
Confidence 45666777774443333 5789999999988788888888888555
No 102
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=42.03 E-value=21 Score=29.59 Aligned_cols=51 Identities=24% Similarity=0.415 Sum_probs=43.1
Q ss_pred HHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEE
Q 031896 20 NLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGV 74 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGV 74 (151)
+.+=++|..+|.+..+.. .-|---++|....+|.+||.+ +|..++|.. |.|
T Consensus 114 qdl~d~~~~~g~~~~~~~---~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~-l~~ 165 (216)
T KOG0106|consen 114 QDLKDHFRPAGEVTYVDA---RRNFAFVEFSEQEDAKRALEKLDGKKLNGRR-ISV 165 (216)
T ss_pred HHHhhhhcccCCCchhhh---hccccceeehhhhhhhhcchhccchhhcCce-eee
Confidence 678899999999976653 457888999999999999987 999998855 777
No 103
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=41.74 E-value=48 Score=32.12 Aligned_cols=57 Identities=18% Similarity=0.257 Sum_probs=43.5
Q ss_pred EEEec-CCCC-CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCcee
Q 031896 9 IVPFR-FPPA-DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQI 66 (151)
Q Consensus 9 VtVFG-fp~~-~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii 66 (151)
|..+| +|-. ....+-..|..||.|.+... |.+++=..+.|-++.+|++|+++ +...+
T Consensus 387 vil~kNlpa~t~~~elt~~F~~fG~i~rvll-p~~G~~aiv~fl~p~eAr~Afrklaysr~ 446 (725)
T KOG0110|consen 387 VILVKNLPAGTLSEELTEAFLRFGEIGRVLL-PPGGTGAIVEFLNPLEARKAFRKLAYSRF 446 (725)
T ss_pred eeeeccCccccccHHHHHHhhcccccceeec-CcccceeeeeecCccchHHHHHHhchhhh
Confidence 34444 4433 44578889999999999875 67889999999999999999997 44433
No 104
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=41.73 E-value=2.9e+02 Score=25.51 Aligned_cols=76 Identities=14% Similarity=0.103 Sum_probs=55.1
Q ss_pred CCcEEEEecCCCC-CHHHHHHHHhhcCcEEee---------ccCCCCCCeEEEEcCCHHHHHHHHHhCCceec-CeEEEE
Q 031896 5 SSFLIVPFRFPPA-DTNLVLREFEKCGVILKH---------VPGPRDANWMHILYQNRSDAQKALSKNGMQIN-GVLIVG 73 (151)
Q Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~---------~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~-g~~mIG 73 (151)
...+|..=|.|.+ ....||+.|.+|-.-++. +..|+|.-+ |++.|..+|..|..+..+.+. +.+ |-
T Consensus 279 ~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAF--Iqm~nae~a~aaaqk~hk~~mk~RY-iE 355 (508)
T KOG1365|consen 279 SKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAF--IQMRNAERARAAAQKCHKKLMKSRY-IE 355 (508)
T ss_pred CCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhh--hhhhhhHHHHHHHHHHHHhhcccce-EE
Confidence 3567888899987 557899999888766554 223555554 678888888888888776665 556 99
Q ss_pred EEECChHHHH
Q 031896 74 VKPLDPMQRQ 83 (151)
Q Consensus 74 Vkp~d~~~~~ 83 (151)
|.||.-++..
T Consensus 356 vfp~S~eeln 365 (508)
T KOG1365|consen 356 VFPCSVEELN 365 (508)
T ss_pred EeeccHHHHH
Confidence 9999765433
No 105
>PF09078 CheY-binding: CheY binding; InterPro: IPR015162 The CheY binding domain is found in the response regulator histidine kinase CheA. It adopts a secondary structure consisting of an open-face beta/alpha sandwich, with four antiparallel beta-strands and two alpha-helices. It binds to a corresponding domain on CheY, with subsequent phosphorylation of the CheY Asp57 residue, and activation of CheY, which then affects flagellar rotation []. ; PDB: 1FWP_A 1EAY_C 1A0O_D 1FFG_B 1FFS_B 1FFW_D.
Probab=41.56 E-value=28 Score=23.71 Aligned_cols=30 Identities=20% Similarity=0.270 Sum_probs=23.6
Q ss_pred EEEEecCCCCCHHHHHHHHhhcCcEEeecc
Q 031896 8 LIVPFRFPPADTNLVLREFEKCGVILKHVP 37 (151)
Q Consensus 8 wVtVFGfp~~~~~~Vl~~F~~~G~I~~~~~ 37 (151)
-|++-|.++.+...++++...+|+|..+..
T Consensus 2 rI~L~~l~~kd~~lL~eELgnLG~v~~~~~ 31 (65)
T PF09078_consen 2 RITLSGLKEKDVDLLLEELGNLGTVSDQEK 31 (65)
T ss_dssp EEEEES--TTHHHHHHHHHHHHS--EEEEE
T ss_pred eEEecCCCHHHHHHHHHHHhcCccEEEEec
Confidence 378889999999999999999999999885
No 106
>PHA02114 hypothetical protein
Probab=41.34 E-value=7.3 Score=29.27 Aligned_cols=41 Identities=24% Similarity=0.390 Sum_probs=25.2
Q ss_pred cEEEEecCCCCCHH--HHHHHHhhcCcEEeec-cCCCCCCeEEE
Q 031896 7 FLIVPFRFPPADTN--LVLREFEKCGVILKHV-PGPRDANWMHI 47 (151)
Q Consensus 7 ~wVtVFGfp~~~~~--~Vl~~F~~~G~I~~~~-~~p~~~NWi~i 47 (151)
+++++--.-|+.-. .=|-+|.+||+|+-+. +.-+.+-||++
T Consensus 58 ry~i~t~v~patpemf~dl~~fd~~gtivldvn~amsr~pwi~v 101 (127)
T PHA02114 58 RYIISTCVEPATPEMFDDLGAFDQYGTIVLDVNYAMSRAPWIKV 101 (127)
T ss_pred eeEEEEeecCCCHHHHhhhhhHhhcCeEEEEehhhhccCcHHHH
Confidence 34444444444322 2367899999998554 44467889875
No 107
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=41.11 E-value=97 Score=25.83 Aligned_cols=73 Identities=14% Similarity=0.135 Sum_probs=51.9
Q ss_pred CCcEEEEecCCCC-CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCC-cee---cCeEEEEEEECCh
Q 031896 5 SSFLIVPFRFPPA-DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNG-MQI---NGVLIVGVKPLDP 79 (151)
Q Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG-~ii---~g~~mIGVkp~d~ 79 (151)
++.-|.|-|.|++ .-..+-+|..+-|+++--....++ ---+.|-+..+.+.||++-- +.+ +-...|+|++..+
T Consensus 114 Se~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rDg--~GvV~~~r~eDMkYAvr~ld~~~~~seGe~~yirv~~~~~ 191 (241)
T KOG0105|consen 114 SEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRDG--VGVVEYLRKEDMKYAVRKLDDQKFRSEGETAYIRVRGDEN 191 (241)
T ss_pred cceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeeccc--ceeeeeeehhhHHHHHHhhccccccCcCcEeeEEecccCC
Confidence 5678999999998 566788899999999854332223 45678888999999998732 222 2334488887654
No 108
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=39.18 E-value=1e+02 Score=20.00 Aligned_cols=29 Identities=24% Similarity=0.440 Sum_probs=21.2
Q ss_pred CCCHHHHHHHHhhcC-cEEeeccCCCC-CCe
Q 031896 16 PADTNLVLREFEKCG-VILKHVPGPRD-ANW 44 (151)
Q Consensus 16 ~~~~~~Vl~~F~~~G-~I~~~~~~p~~-~NW 44 (151)
|..+..||+.|++.| +|++.+..|.. .+|
T Consensus 10 pG~L~~vL~~f~~~~vni~~I~Srp~~~~~~ 40 (75)
T cd04880 10 PGALAKALKVFAERGINLTKIESRPSRKGLW 40 (75)
T ss_pred CCHHHHHHHHHHHCCCCEEEEEeeecCCCCc
Confidence 567899999999985 66677655543 366
No 109
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=38.36 E-value=1e+02 Score=28.76 Aligned_cols=76 Identities=20% Similarity=0.206 Sum_probs=56.0
Q ss_pred ccCCcEEEEecCCCCCHH-HHHHHHhhcCcEEeecc-CC--CCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEECC
Q 031896 3 LISSFLIVPFRFPPADTN-LVLREFEKCGVILKHVP-GP--RDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPLD 78 (151)
Q Consensus 3 ~~~~~wVtVFGfp~~~~~-~Vl~~F~~~G~I~~~~~-~p--~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~d 78 (151)
..+...|-+=|.|=+++. .|++.|+.|+ |.+... .- ....=-+|.|.|..++++||+||-+.++-.+ |=|-+..
T Consensus 7 ~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RY-IEVf~~~ 84 (510)
T KOG4211|consen 7 GSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRY-IEVFTAG 84 (510)
T ss_pred CCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCce-EEEEccC
Confidence 456678889999998665 7888888886 443321 00 1234468899999999999999999997777 8888864
Q ss_pred hH
Q 031896 79 PM 80 (151)
Q Consensus 79 ~~ 80 (151)
..
T Consensus 85 ~~ 86 (510)
T KOG4211|consen 85 GA 86 (510)
T ss_pred Cc
Confidence 43
No 110
>PRK01533 histidinol-phosphate aminotransferase; Validated
Probab=38.28 E-value=1.1e+02 Score=26.13 Aligned_cols=39 Identities=15% Similarity=0.233 Sum_probs=30.2
Q ss_pred CCCCCeEEEEcCCHHHHHHHHHhCCcee---cCeEEEEEEEC
Q 031896 39 PRDANWMHILYQNRSDAQKALSKNGMQI---NGVLIVGVKPL 77 (151)
Q Consensus 39 p~~~NWi~i~y~~~~~A~rAL~~nG~ii---~g~~mIGVkp~ 77 (151)
+.++|++-+++.+..+..++|.++|-.+ .+.+.|+|...
T Consensus 298 ~~~~nf~~~~~~~~~~~~~~l~~~GI~Vr~~~~~iRis~~~~ 339 (366)
T PRK01533 298 QSQTNFIFLPVENGGEIYEACAHAGFIIRPFPNGVRITVGTR 339 (366)
T ss_pred CCcCcEEEEeCCCHHHHHHHHHHCCcEEccCCCceEEeCCCH
Confidence 4589999999877788889999999777 45566666554
No 111
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=38.10 E-value=24 Score=34.49 Aligned_cols=82 Identities=11% Similarity=0.064 Sum_probs=62.0
Q ss_pred ccCCcEEEEecCCCC-CHHHHHHHHhh----cCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEEC
Q 031896 3 LISSFLIVPFRFPPA-DTNLVLREFEK----CGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPL 77 (151)
Q Consensus 3 ~~~~~wVtVFGfp~~-~~~~Vl~~F~~----~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~ 77 (151)
|.+.++|-+-|.+.. +.+.|-++|.- .-+|.+...++....--+|.|....++++||++|-+.+-..+ |=+.|.
T Consensus 308 v~d~~y~~~~gm~fn~~~nd~rkfF~g~~~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~-~q~~P~ 386 (944)
T KOG4307|consen 308 VSDKYYNNYKGMEFNNDFNDGRKFFPGRNAQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFTRNPSDDVNRP-FQTGPP 386 (944)
T ss_pred cchhheeeecccccccccchhhhhcCcccccccchhhhhcCCCcCCceEEEecCcchHHHHHhcCchhhhhcc-eeecCC
Confidence 578899999999986 77888888842 334444444444455578999999999999999998887777 888888
Q ss_pred ChHHHHHH
Q 031896 78 DPMQRQAL 85 (151)
Q Consensus 78 d~~~~~~l 85 (151)
.+.++..-
T Consensus 387 g~~~~~~a 394 (944)
T KOG4307|consen 387 GNLGRNGA 394 (944)
T ss_pred CccccccC
Confidence 77654443
No 112
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=37.31 E-value=90 Score=18.46 Aligned_cols=59 Identities=12% Similarity=0.026 Sum_probs=39.7
Q ss_pred cEEEEecCC-CCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHH---HHHHHHhCCceecC
Q 031896 7 FLIVPFRFP-PADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSD---AQKALSKNGMQING 68 (151)
Q Consensus 7 ~wVtVFGfp-~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~---A~rAL~~nG~ii~g 68 (151)
..+.+.|+. ......+.+.+.++|--+.... ...--|+-..+... ...|...+-.++.-
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~v~~~~---~~~~thvI~~~~~~~~~~~~~~~~~~~iV~~ 64 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGKVTSSV---SKKTTHVIVGSDAGPKKLLKAIKLGIPIVTP 64 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCEEeccc---cCCceEEEECCCCCchHHHHHHHcCCeEecH
Confidence 467889998 7888899999999998776553 23455666665544 44666555555543
No 113
>PRK01688 histidinol-phosphate aminotransferase; Provisional
Probab=37.17 E-value=1e+02 Score=25.88 Aligned_cols=45 Identities=11% Similarity=0.251 Sum_probs=31.4
Q ss_pred HHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCcee
Q 031896 20 NLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQI 66 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii 66 (151)
+.+.+.+++++.+..+. |+++|++.+++.+..+..++|.+.|-.+
T Consensus 276 ~~l~~~L~~~~~~~~~~--ps~~nfi~~~~~~~~~l~~~L~~~gi~v 320 (351)
T PRK01688 276 QWLIAALKEIPCVEQVF--DSETNYILARFTASSAVFKSLWDQGIIL 320 (351)
T ss_pred HHHHHHHHhCCCCCeEC--CCCCcEEEEEcCCHHHHHHHHHHCCeEE
Confidence 34556666665432232 5789999999987777888888888655
No 114
>PRK07865 N-succinyldiaminopimelate aminotransferase; Reviewed
Probab=34.70 E-value=1.6e+02 Score=24.64 Aligned_cols=10 Identities=20% Similarity=0.428 Sum_probs=4.6
Q ss_pred HHHHHHhhcC
Q 031896 21 LVLREFEKCG 30 (151)
Q Consensus 21 ~Vl~~F~~~G 30 (151)
.+.+.+.++|
T Consensus 287 ~l~~~L~~~g 296 (364)
T PRK07865 287 VLRPALEAAG 296 (364)
T ss_pred HHHHHHHHcC
Confidence 3444444444
No 115
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=34.51 E-value=1.3e+02 Score=28.18 Aligned_cols=73 Identities=15% Similarity=0.072 Sum_probs=47.6
Q ss_pred CCcEEEEecCCCCCHHHHHHHHhhcCcEEee------ccCCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEECC
Q 031896 5 SSFLIVPFRFPPADTNLVLREFEKCGVILKH------VPGPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPLD 78 (151)
Q Consensus 5 ~~~wVtVFGfp~~~~~~Vl~~F~~~G~I~~~------~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~d 78 (151)
+..-|-.=|.|-++++.=|.+|=+==+|+.. .+.-.-+-=-.++|++..+|++||.+|-+.|+-.+ |=|-.+.
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRY-IEvF~Ss 180 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENIGHRY-IEVFRSS 180 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhhccce-EEeehhH
Confidence 3456777899999877555555332223222 11111234457899999999999999999998777 5555443
No 116
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=33.85 E-value=1.1e+02 Score=20.12 Aligned_cols=31 Identities=26% Similarity=0.352 Sum_probs=21.6
Q ss_pred CCCCHHHHHHHHhhcC-cEEeeccCCC-CCCeE
Q 031896 15 PPADTNLVLREFEKCG-VILKHVPGPR-DANWM 45 (151)
Q Consensus 15 p~~~~~~Vl~~F~~~G-~I~~~~~~p~-~~NWi 45 (151)
.+..+..|++.|+++| +|++....|. ..+|.
T Consensus 11 ~~G~L~~il~~f~~~~ini~~i~s~p~~~~~~~ 43 (80)
T cd04905 11 KPGALYDVLGVFAERGINLTKIESRPSKGGLWE 43 (80)
T ss_pred CCCHHHHHHHHHHHCCcCEEEEEEEEcCCCCce
Confidence 4567899999999985 5666655443 45673
No 117
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=33.57 E-value=2.1e+02 Score=22.63 Aligned_cols=94 Identities=16% Similarity=0.082 Sum_probs=59.4
Q ss_pred CCcEEEEecCCCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEE--------
Q 031896 5 SSFLIVPFRFPPADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKP-------- 76 (151)
Q Consensus 5 ~~~wVtVFGfp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp-------- 76 (151)
...++..|.+.......+.+.|..+|.+...... -.+.|.+-..-.+..+...|..-+.+..-.-+..+++
T Consensus 75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-~~~~~~~~~v~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 153 (215)
T COG3413 75 GNSLVIDFSCLSSSSISVIRLLESLGAIVISPTI-VAGGEEKYTVIAPDSLKDELRDLLEILNFEDKEEVIESAFVEIGK 153 (215)
T ss_pred CCceEEEEEEeccCcchHHHHHHhcCCEEeccEE-ecCCEEEEEEeCcHHHHHHHHHHHHHhcccceeeecccccccccc
Confidence 3478888889999999999999999987765421 2455555554444435555555554444333333333
Q ss_pred --CChHHHHHHhhhhccCCcccCCCC
Q 031896 77 --LDPMQRQALNERINSQGFMTLPPP 100 (151)
Q Consensus 77 --~d~~~~~~l~~~~~~~~~~~~~~p 100 (151)
+++.|++.|....+ .|-+..|..
T Consensus 154 ~~LTdrQ~~vL~~A~~-~GYFd~PR~ 178 (215)
T COG3413 154 NDLTDRQLEVLRLAYK-MGYFDYPRR 178 (215)
T ss_pred ccCCHHHHHHHHHHHH-cCCCCCCcc
Confidence 67888888876666 344555544
No 118
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=33.56 E-value=79 Score=29.10 Aligned_cols=66 Identities=20% Similarity=0.357 Sum_probs=48.1
Q ss_pred cEEEEecCCCC-CHHHHHHHHhhcCcEEeeccCCCCCCeEE-----EEcCCHHHHHHHHHhCCceecCeEEEEEEECChH
Q 031896 7 FLIVPFRFPPA-DTNLVLREFEKCGVILKHVPGPRDANWMH-----ILYQNRSDAQKALSKNGMQINGVLIVGVKPLDPM 80 (151)
Q Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~-----i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~d~~ 80 (151)
+-+-|||||++ .+..+|.-|+.|++==- .--||. -.|.+...|..||-. +.-||-++|+...
T Consensus 392 HVlEIydfp~efkteDll~~f~~yq~kgf------dIkWvDdthalaVFss~~~AaeaLt~------kh~~lKiRpLaqa 459 (528)
T KOG4483|consen 392 HVLEIYDFPDEFKTEDLLKAFETYQNKGF------DIKWVDDTHALAVFSSVNRAAEALTL------KHDWLKIRPLAQA 459 (528)
T ss_pred ceeEeccCchhhccHHHHHHHHHhhcCCc------eeEEeecceeEEeecchHHHHHHhhc------cCceEEeeehhhc
Confidence 56889999998 78899999999875211 235664 349999999999976 3345888998655
Q ss_pred HHHH
Q 031896 81 QRQA 84 (151)
Q Consensus 81 ~~~~ 84 (151)
-+++
T Consensus 460 tk~s 463 (528)
T KOG4483|consen 460 TKVS 463 (528)
T ss_pred hhHH
Confidence 4433
No 119
>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes. This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].
Probab=33.23 E-value=85 Score=21.19 Aligned_cols=44 Identities=14% Similarity=0.246 Sum_probs=30.3
Q ss_pred HHHHHHhhc--CcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeE
Q 031896 21 LVLREFEKC--GVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQINGVL 70 (151)
Q Consensus 21 ~Vl~~F~~~--G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~ 70 (151)
.+-+.+.++ =.|+.+..| ++|.|.|..+|+|+... ||+.+.+.-
T Consensus 16 d~K~~Lr~y~~~~I~~d~tG------fYIvF~~~~Ea~rC~~~~~~~~~f~y~ 62 (66)
T PF11767_consen 16 DFKKRLRKYRWDRIRDDRTG------FYIVFNDSKEAERCFRAEDGTLFFTYR 62 (66)
T ss_pred HHHHHHhcCCcceEEecCCE------EEEEECChHHHHHHHHhcCCCEEEEEE
Confidence 344444443 356666643 79999999999999986 777775543
No 120
>cd08358 Glo_EDI_BRP_like_21 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. This protein family belongs to a conserved domain superfamily that is found in a variety of structurally related metalloproteins, including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases. A bound metal ion is required for protein activities for the members of this superfamily. A variety of metal ions have been found in the catalytic centers of these proteins including Fe(II), Mn(II), Zn(II), Ni(II) and Mg(II). The protein superfamily contains members with or without domain swapping.
Probab=33.00 E-value=41 Score=25.02 Aligned_cols=57 Identities=12% Similarity=0.181 Sum_probs=33.9
Q ss_pred CcEEEE-ecCCCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCceec
Q 031896 6 SFLIVP-FRFPPADTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQIN 67 (151)
Q Consensus 6 ~~wVtV-FGfp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~ 67 (151)
+.|..+ .||.+.....+|+.+.+.|. .+.+.+..++||..++. ++.+-|+..|-.+.
T Consensus 48 g~~~~~~l~~~~~~~~~~lEL~~n~~~----~~~~~g~~~~hlav~~~-d~~~~l~~~Gv~~~ 105 (127)
T cd08358 48 GKWSKTMIGYGPEDDHFVVELTYNYGI----GDYELGNDFLGITIHSK-QAVSNAKKHNWPVT 105 (127)
T ss_pred CcEEEEEEecCCCCCccEEEeEecCCC----CCCCCCCCEEEEEEECH-HHHHHHHHCCCcee
Confidence 445433 56655444445555544444 11123456899999999 77788888886553
No 121
>COG4901 Ribosomal protein S25 [Translation, ribosomal structure and biogenesis]
Probab=32.82 E-value=22 Score=26.50 Aligned_cols=35 Identities=20% Similarity=0.340 Sum_probs=30.1
Q ss_pred cccCCcEEEEe------cCCCCCHHHHHHHHhhcCcEEeec
Q 031896 2 TLISSFLIVPF------RFPPADTNLVLREFEKCGVILKHV 36 (151)
Q Consensus 2 ~~~~~~wVtVF------Gfp~~~~~~Vl~~F~~~G~I~~~~ 36 (151)
||...+|||+| |..-+.+.-||+++++-|.|.-+.
T Consensus 53 EV~~~r~VTpy~la~r~gI~~SvAr~vLR~LeeeGvv~lvs 93 (107)
T COG4901 53 EVPRERVVTPYVLASRYGINGSVARIVLRHLEEEGVVQLVS 93 (107)
T ss_pred hcccceeecHHHHHHHhccchHHHHHHHHHHHhCCceeeec
Confidence 57888999985 777888999999999999998654
No 122
>PRK04635 histidinol-phosphate aminotransferase; Provisional
Probab=32.37 E-value=2.6e+02 Score=23.39 Aligned_cols=64 Identities=13% Similarity=0.140 Sum_probs=39.6
Q ss_pred HHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCceec--------CeEEEEEEECChHHHHHHhhh
Q 031896 20 NLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQIN--------GVLIVGVKPLDPMQRQALNER 88 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~--------g~~mIGVkp~d~~~~~~l~~~ 88 (151)
+.+++.+++.|.+ +.. +.++|++-+++.+..+..+.|.+.|-.+. +.+.|++ ..+.+-+.+.+.
T Consensus 277 ~~l~~~L~~~~~~-~~~--~~~g~f~~~~~~~~~~~~~~l~~~gv~v~~~~~~~~~~~lRis~--~~~e~~~~l~~a 348 (354)
T PRK04635 277 ARLQAALSMYGGA-KVL--EGNGNYVLAKFDDVDAVFKALWDAGIVARAYKDPRLANCIRFSF--SNRAETDKLIGL 348 (354)
T ss_pred HHHHHHHHhCCCc-eEC--CCCCcEEEEECCCHHHHHHHHHHCCEEEEECCCCCCCCeEEEEe--CCHHHHHHHHHH
Confidence 5567778887653 233 34678888888777777777888886551 3345554 455544555443
No 123
>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=31.87 E-value=1.8e+02 Score=20.98 Aligned_cols=54 Identities=22% Similarity=0.316 Sum_probs=32.8
Q ss_pred CCcEEEEecCCCC-CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHH---HHHHHh
Q 031896 5 SSFLIVPFRFPPA-DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDA---QKALSK 61 (151)
Q Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A---~rAL~~ 61 (151)
+..-|.=+.||.+ ..+.|++.|+-||.|-=--- .+.+-||-| .++.+| .++|++
T Consensus 7 ~RdHVFhltFPkeWK~~DI~qlFspfG~I~VsWi-~dTSAfV~l--~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 7 SRDHVFHLTFPKEWKTSDIYQLFSPFGQIYVSWI-NDTSAFVAL--HNRDQAKVVMNTLKK 64 (87)
T ss_dssp SGCCEEEEE--TT--HHHHHHHCCCCCCEEEEEE-CTTEEEEEE--CCCHHHHHHHHHHTT
T ss_pred CcceEEEEeCchHhhhhhHHHHhccCCcEEEEEE-cCCcEEEEe--ecHHHHHHHHHHhcc
Confidence 4455677789998 89999999999999972221 134555555 444444 445544
No 124
>TIGR01714 phage_rep_org_N phage replisome organizer, putative, N-terminal region. This model represents the N-terminal domain of a small family of phage proteins. The protein contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The region covered by this model is N-terminal to the low-complexity region.
Probab=31.87 E-value=14 Score=27.80 Aligned_cols=48 Identities=23% Similarity=0.321 Sum_probs=34.1
Q ss_pred EEecCCCCCHHHHHHHHhhcCcEEeeccC-CCCCCeEEEEcCCHHHHHH
Q 031896 10 VPFRFPPADTNLVLREFEKCGVILKHVPG-PRDANWMHILYQNRSDAQK 57 (151)
Q Consensus 10 tVFGfp~~~~~~Vl~~F~~~G~I~~~~~~-p~~~NWi~i~y~~~~~A~r 57 (151)
++|+.+.+.....|..|++||=|.....+ -.-.||-..+=....+|.|
T Consensus 59 ~~~~~~~~~V~~Al~~f~k~glIe~~d~g~i~i~~~~~~~g~es~~a~r 107 (119)
T TIGR01714 59 TMFNRNVGDIRITLQTLESLGLIEKKNNGDIFLENWEKHVGSDSASARR 107 (119)
T ss_pred HHHCCCHHHHHHHHHHHHHCCCEEEecCCcEEehhHHHHcCchhHHHHH
Confidence 56888889999999999999999966521 1125776655555555544
No 125
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=31.57 E-value=1.3e+02 Score=26.20 Aligned_cols=45 Identities=18% Similarity=0.356 Sum_probs=34.0
Q ss_pred HHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCC--HHHHHHHHHhCCcee
Q 031896 19 TNLVLREFEKCGVILKHVPGPRDANWMHILYQN--RSDAQKALSKNGMQI 66 (151)
Q Consensus 19 ~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~--~~~A~rAL~~nG~ii 66 (151)
...+.+.++++| +.... |+.+|++-+++.+ ..+..++|.+.|-++
T Consensus 272 r~rl~~~l~~~~-~~~v~--pS~aNFvlv~~~~~~~~~l~~~L~~~giiv 318 (356)
T COG0079 272 RERLYAALKALG-LFGVF--PSQANFVLVRVPDAEAAALAEALLKKGILV 318 (356)
T ss_pred HHHHHHHHHhCC-CCeec--CCCCcEEEEECCCccHHHHHHHHHHCCEEE
Confidence 345677888888 43344 5779999999976 457899999998766
No 126
>PRK14809 histidinol-phosphate aminotransferase; Provisional
Probab=30.93 E-value=2.2e+02 Score=23.81 Aligned_cols=28 Identities=14% Similarity=0.214 Sum_probs=18.8
Q ss_pred CCCCCeEEEEcCCHHHHHHHHHhCCcee
Q 031896 39 PRDANWMHILYQNRSDAQKALSKNGMQI 66 (151)
Q Consensus 39 p~~~NWi~i~y~~~~~A~rAL~~nG~ii 66 (151)
|.++|++-+++.+..+..++|.++|-.+
T Consensus 295 ~~~g~f~~~~~~~~~~~~~~l~~~gv~v 322 (357)
T PRK14809 295 ESAGNFVLAEVGDASAVAEAAQERGVIV 322 (357)
T ss_pred CCCCCEEEEECCCHHHHHHHHHHCCEEE
Confidence 3567777777766666667777777544
No 127
>cd04929 ACT_TPH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxytryptamine (serotonin) and the first reaction in the synthesis of melatonin. Very little is known about the role of the ACT domain in TPH, which appears to be regulated by phosphorylation but not by its substrate or cofactor. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.26 E-value=1.8e+02 Score=19.54 Aligned_cols=31 Identities=10% Similarity=0.066 Sum_probs=22.1
Q ss_pred CCCHHHHHHHHhhcCcEE-eeccCCC-CCCeEE
Q 031896 16 PADTNLVLREFEKCGVIL-KHVPGPR-DANWMH 46 (151)
Q Consensus 16 ~~~~~~Vl~~F~~~G~I~-~~~~~p~-~~NWi~ 46 (151)
|+.+..||..|+++|--+ +.+..|. +.+|-+
T Consensus 11 ~g~L~~iL~~f~~~~inl~~IeSRP~~~~~~~y 43 (74)
T cd04929 11 VGGLAKALKLFQELGINVVHIESRKSKRRSSEF 43 (74)
T ss_pred CcHHHHHHHHHHHCCCCEEEEEeccCCCCCceE
Confidence 467889999999997544 5555564 567833
No 128
>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A.
Probab=28.97 E-value=1.5e+02 Score=18.51 Aligned_cols=54 Identities=13% Similarity=0.028 Sum_probs=35.5
Q ss_pred EEEecCCCCCHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcC--CHHHHHHHHHhCCce
Q 031896 9 IVPFRFPPADTNLVLREFEKCGVILKHVPGPRDANWMHILYQ--NRSDAQKALSKNGMQ 65 (151)
Q Consensus 9 VtVFGfp~~~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~--~~~~A~rAL~~nG~i 65 (151)
|.+-||++.+...+.+.....|-....... . .--||-.. +..-.++|++.+-.+
T Consensus 3 i~~sg~~~~~~~~l~~~i~~~Gg~~~~~lt-~--~~THLI~~~~~~~K~~~A~~~gi~v 58 (63)
T PF12738_consen 3 ICFSGFSGKERSQLRKLIEALGGKYSKDLT-K--KTTHLICSSPEGKKYRKAKEWGIPV 58 (63)
T ss_dssp EEEEEB-TTTCCHHHHHHHCTT-EEESSSS-T--T-SEEEEES--HHHHHHHHHCTSEE
T ss_pred EEECCCCHHHHHHHHHHHHHCCCEEecccc-C--CceEEEEeCCCcHHHHHHHHCCCcE
Confidence 788999999999999999999999877652 2 33344433 344467777765333
No 129
>PRK10534 L-threonine aldolase; Provisional
Probab=28.64 E-value=3.3e+02 Score=22.30 Aligned_cols=65 Identities=12% Similarity=0.181 Sum_probs=39.9
Q ss_pred HHHHHHhhcCcEEeeccCCCCCCeEEEEcC--CHHHHHHHHHhCCceecCeEEEEEEE---CChHHHHHHhhhh
Q 031896 21 LVLREFEKCGVILKHVPGPRDANWMHILYQ--NRSDAQKALSKNGMQINGVLIVGVKP---LDPMQRQALNERI 89 (151)
Q Consensus 21 ~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~--~~~~A~rAL~~nG~ii~g~~mIGVkp---~d~~~~~~l~~~~ 89 (151)
.+.+.++++|- +.. +.++|.+-+++. +..+..+.|.++|-.+...--+++.- .++.+.+.+.++.
T Consensus 258 ~l~~~L~~~g~--~~~--~~~~nfv~~~~~~~~~~~~~~~l~~~gi~v~~~~~~rl~~~~r~t~e~~~~~~~~l 327 (333)
T PRK10534 258 WLAEQLREAGA--DVM--RQDTNMLFVRVGEEQAAALGEYMRERNVLINASPIVRLVTHLDVSREQLAEVVAHW 327 (333)
T ss_pred HHHHHHHhCCC--ccC--CCCceEEEEECCchhHHHHHHHHHHcCeeecCCceEEEEEEeCCCHHHHHHHHHHH
Confidence 45566666662 222 347999999986 45677899999998875321133333 3665555555443
No 130
>PRK06425 histidinol-phosphate aminotransferase; Validated
Probab=28.40 E-value=2.7e+02 Score=23.14 Aligned_cols=60 Identities=15% Similarity=0.302 Sum_probs=0.0
Q ss_pred HHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCcee----------cCeEEEEEEECChHHH
Q 031896 20 NLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQI----------NGVLIVGVKPLDPMQR 82 (151)
Q Consensus 20 ~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii----------~g~~mIGVkp~d~~~~ 82 (151)
+.+++.+.+.| ++... +.++|++.+++.+..+..++|.++|-.+ .+-+.|++..-+..++
T Consensus 253 ~~l~~~L~~~g--~~~~~-~~~g~f~~~~~~~~~~~~~~l~~~gi~v~~~~~f~~~~~~~iRis~~~~~~~~~ 322 (332)
T PRK06425 253 SYLINNLEAMG--FRAAG-DPSANFITFMIPDAHDFYSYLLKNGILVRLLDDYECLGEQYIRIAIRRRSFNIK 322 (332)
T ss_pred HHHHHHHHHCC--CEECC-CCCceEEEEEcCCHHHHHHHHHHCCeEEEECCCCCCCCCCEEEEEeCCHHHHHH
No 131
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=28.12 E-value=1.5e+02 Score=26.25 Aligned_cols=53 Identities=23% Similarity=0.261 Sum_probs=41.1
Q ss_pred CHHHHHHHHhhcCcEEeecc-----CC-CCCCeEEEEcCCHHHHHHHHH-hCCceecCeE
Q 031896 18 DTNLVLREFEKCGVILKHVP-----GP-RDANWMHILYQNRSDAQKALS-KNGMQINGVL 70 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~~~-----~p-~~~NWi~i~y~~~~~A~rAL~-~nG~ii~g~~ 70 (151)
..+.+-.+-++||.+.++.. .| +..--|.+.|....+|.+||- .||+-|+|..
T Consensus 299 lede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~ 358 (378)
T KOG1996|consen 299 LEDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRV 358 (378)
T ss_pred HHHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceeccee
Confidence 45577888899999886521 12 335678999999999999985 5999999876
No 132
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=27.38 E-value=69 Score=28.79 Aligned_cols=56 Identities=16% Similarity=0.156 Sum_probs=41.5
Q ss_pred hhc-CcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCceec-CeEEEEEEECChHHHHHHhhh
Q 031896 27 EKC-GVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQIN-GVLIVGVKPLDPMQRQALNER 88 (151)
Q Consensus 27 ~~~-G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~-g~~mIGVkp~d~~~~~~l~~~ 88 (151)
.++ =+|++... .+|--|.+..+|.+||+-=-..+. |+++||-.|=.+..+..|...
T Consensus 193 ~dp~fDivScQF------~~HYaFetee~ar~~l~Nva~~LkpGG~FIgTiPdsd~Ii~rlr~~ 250 (389)
T KOG1975|consen 193 KDPRFDIVSCQF------AFHYAFETEESARIALRNVAKCLKPGGVFIGTIPDSDVIIKRLRAG 250 (389)
T ss_pred CCCCcceeeeee------eEeeeeccHHHHHHHHHHHHhhcCCCcEEEEecCcHHHHHHHHHhc
Confidence 444 56666654 589999999999999998766663 779999999766555555433
No 133
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=26.46 E-value=1.7e+02 Score=28.35 Aligned_cols=72 Identities=14% Similarity=0.272 Sum_probs=51.0
Q ss_pred ccCCcEEEEecCCCC-CHHHHHHHHhhcCcEEee--cc---CCCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEEEE
Q 031896 3 LISSFLIVPFRFPPA-DTNLVLREFEKCGVILKH--VP---GPRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVGVK 75 (151)
Q Consensus 3 ~~~~~wVtVFGfp~~-~~~~Vl~~F~~~G~I~~~--~~---~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIGVk 75 (151)
+....|| .|.... .+..+-..|++||.+|-- +. .|..-.+-.|+..+..+|-+++.. +-+-|.| -||.|-
T Consensus 404 ~gRNlWV--SGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHG-rmISVE 480 (940)
T KOG4661|consen 404 LGRNLWV--SGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHG-RMISVE 480 (940)
T ss_pred cccceee--eccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcc-eeeeee
Confidence 3344564 577654 566788899999999843 21 355568889999999999999875 5556666 457776
Q ss_pred EC
Q 031896 76 PL 77 (151)
Q Consensus 76 p~ 77 (151)
..
T Consensus 481 ka 482 (940)
T KOG4661|consen 481 KA 482 (940)
T ss_pred ec
Confidence 64
No 134
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=26.15 E-value=1.3e+02 Score=27.72 Aligned_cols=79 Identities=20% Similarity=0.129 Sum_probs=49.3
Q ss_pred EEEecCCCCCHH-HHHHHHhhcC-------cEEeecc---CCCCCCeEEEEcCCHHHHHHHHHhCCceecCeEEEEEEEC
Q 031896 9 IVPFRFPPADTN-LVLREFEKCG-------VILKHVP---GPRDANWMHILYQNRSDAQKALSKNGMQINGVLIVGVKPL 77 (151)
Q Consensus 9 VtVFGfp~~~~~-~Vl~~F~~~G-------~I~~~~~---~p~~~NWi~i~y~~~~~A~rAL~~nG~ii~g~~mIGVkp~ 77 (151)
|..=|.|-+.+. .|+..|..-. .|+-+.. .|+|. --+.|.++++|+.||+||-+.|+-.+ |-+---
T Consensus 164 vRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGd--AFvlfa~ee~aq~aL~khrq~iGqRY-IElFRS 240 (508)
T KOG1365|consen 164 VRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGD--AFVLFACEEDAQFALRKHRQNIGQRY-IELFRS 240 (508)
T ss_pred EEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccc--eEEEecCHHHHHHHHHHHHHHHhHHH-HHHHHH
Confidence 445688888665 6778875221 2332221 23333 45679999999999999999997666 433333
Q ss_pred ChHHHHHHhhhhc
Q 031896 78 DPMQRQALNERIN 90 (151)
Q Consensus 78 d~~~~~~l~~~~~ 90 (151)
+..+-|++..+..
T Consensus 241 TaaEvqqvlnr~~ 253 (508)
T KOG1365|consen 241 TAAEVQQVLNREV 253 (508)
T ss_pred hHHHHHHHHHhhc
Confidence 4555555555544
No 135
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=24.54 E-value=4.6e+02 Score=24.11 Aligned_cols=68 Identities=10% Similarity=0.164 Sum_probs=50.7
Q ss_pred CCcEEEEecCCCC--CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCcee-cCeEEE
Q 031896 5 SSFLIVPFRFPPA--DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQI-NGVLIV 72 (151)
Q Consensus 5 ~~~wVtVFGfp~~--~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii-~g~~mI 72 (151)
.+.-+-|||.-.. +.+.|...|=.+|+|+++..-.+-..---|.-.+..+.+||+.. |+.-+ ++.+-|
T Consensus 286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v 357 (494)
T KOG1456|consen 286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNV 357 (494)
T ss_pred CCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCccccceEEE
Confidence 4567889999987 56789999999999999864334444556888999999999986 55444 444433
No 136
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=24.27 E-value=2.1e+02 Score=25.82 Aligned_cols=53 Identities=19% Similarity=0.286 Sum_probs=39.5
Q ss_pred HHHHHHhhcCcEEeeccC-CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeEEEE
Q 031896 21 LVLREFEKCGVILKHVPG-PRDANWMHILYQNRSDAQKALSK-NGMQINGVLIVG 73 (151)
Q Consensus 21 ~Vl~~F~~~G~I~~~~~~-p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~mIG 73 (151)
.+.++=++||.+-++... -....=+.|+|.|+.+|..+++. +|+-+.|.-.-.
T Consensus 292 dl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A 346 (382)
T KOG1548|consen 292 DLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTA 346 (382)
T ss_pred HHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEE
Confidence 345667899998776432 12345688999999999999987 999998876333
No 137
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=23.70 E-value=1.3e+02 Score=27.64 Aligned_cols=55 Identities=27% Similarity=0.410 Sum_probs=43.1
Q ss_pred HHHHHHHHhhcCcEEeeccC--C---CCCCeEEEEcCCHHHHHHHHHh-CCceecCeE-EEE
Q 031896 19 TNLVLREFEKCGVILKHVPG--P---RDANWMHILYQNRSDAQKALSK-NGMQINGVL-IVG 73 (151)
Q Consensus 19 ~~~Vl~~F~~~G~I~~~~~~--p---~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~-mIG 73 (151)
-+.|.+.|.-||.|-++.+. | .-..+-.+.|+-+..|+-||.. ||..++|.- -||
T Consensus 127 EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVg 188 (544)
T KOG0124|consen 127 EDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVG 188 (544)
T ss_pred hHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCcccccc
Confidence 45778889999999988652 1 1247889999999999999976 999997743 355
No 138
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=22.92 E-value=50 Score=29.14 Aligned_cols=67 Identities=21% Similarity=0.291 Sum_probs=46.0
Q ss_pred cCCcEEEEecCCCCCHH-HH---HHHHhhcCcEEeeccC--------CCCCCeEEEEcCCHHHHHHHHHh-CCceecCeE
Q 031896 4 ISSFLIVPFRFPPADTN-LV---LREFEKCGVILKHVPG--------PRDANWMHILYQNRSDAQKALSK-NGMQINGVL 70 (151)
Q Consensus 4 ~~~~wVtVFGfp~~~~~-~V---l~~F~~~G~I~~~~~~--------p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g~~ 70 (151)
+-.+-|-|-|+++...+ .+ .++|.+||.|..+... ..+.-=.+|+|....+|.+|+.- +|.+..|..
T Consensus 75 Vqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~ 154 (327)
T KOG2068|consen 75 VQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRA 154 (327)
T ss_pred hhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhh
Confidence 34455667788765333 23 3578888999887531 11223389999999999999987 777777665
No 139
>PRK00950 histidinol-phosphate aminotransferase; Validated
Probab=22.92 E-value=3.8e+02 Score=22.13 Aligned_cols=27 Identities=19% Similarity=0.298 Sum_probs=13.6
Q ss_pred CCCCeEEEEcC--CHHHHHHHHHhCCcee
Q 031896 40 RDANWMHILYQ--NRSDAQKALSKNGMQI 66 (151)
Q Consensus 40 ~~~NWi~i~y~--~~~~A~rAL~~nG~ii 66 (151)
.++|++-++.. +..+..++|.+.|-.+
T Consensus 297 ~~~~~i~~~~~~~~~~~~~~~l~~~gv~v 325 (361)
T PRK00950 297 SEANFVLVDVTPMTAKEFCEELLKRGVIV 325 (361)
T ss_pred CcceEEEEECCCCCHHHHHHHHHHCCEEE
Confidence 45565555543 3444445555556444
No 140
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=22.61 E-value=69 Score=21.67 Aligned_cols=18 Identities=22% Similarity=0.098 Sum_probs=14.4
Q ss_pred CHHHHHHHHhhcCcEEee
Q 031896 18 DTNLVLREFEKCGVILKH 35 (151)
Q Consensus 18 ~~~~Vl~~F~~~G~I~~~ 35 (151)
.+..|.++|+++|+|--.
T Consensus 7 i~~~iR~~fs~lG~I~vL 24 (62)
T PF15513_consen 7 ITAEIRQFFSQLGEIAVL 24 (62)
T ss_pred HHHHHHHHHHhcCcEEEE
Confidence 456788999999999743
No 141
>COG4240 Predicted kinase [General function prediction only]
Probab=20.96 E-value=55 Score=28.24 Aligned_cols=16 Identities=38% Similarity=0.912 Sum_probs=12.8
Q ss_pred ceecCeEEEEEEECChH
Q 031896 64 MQINGVLIVGVKPLDPM 80 (151)
Q Consensus 64 ~ii~g~~mIGVkp~d~~ 80 (151)
-++.| ||||+.|+||.
T Consensus 166 vIlEG-WfvGfrPidp~ 181 (300)
T COG4240 166 VILEG-WFVGFRPIDPE 181 (300)
T ss_pred EEEee-eeeecccCCHH
Confidence 35555 99999999995
No 142
>PF03531 SSrecog: Structure-specific recognition protein (SSRP1); InterPro: IPR000969 Human structure-specific recognition protein, SSRP1, [] binds specifically to DNA modified with the anti-cancer drug cisplatin. An 81kDa protein is predicted, containing several highly-charged domains and a stretch of 75 residues that share 47% identity with a portion of the high mobility group (HMG) protein HMG1. This HMG box probably constitutes the structure recognition element for cisplatin-modified DNA, the probable recognition motif being the local duplex unwinding and bending that occurs on formation of intra-strand cross-links []. SSRP1 is the human homologue of a recently identified mouse protein that binds to recombination signal sequences []. These sequences have been postulated to form stem-loop structures, further implicating local bends and unwinding in DNA as a recognition target for HMG-box proteins. A Drosophila melanogaster cDNA encoding an HMG-box-containing protein has also been isolated [, ]. This protein shares 50% sequence identity with human SSRP1. In vitro binding studies using Drosophila SSRP showed that the protein binds to single-stranded DNA and RNA, with highest affinity for nucleotides G and U. Comparison of the predicted amino acid sequences among SSRP family members reveals 48% identity, with structural conservation in the C terminus of the HMG box, as well as domains of highly charged residues. The most highly conserved regions lie in the poorly understood N terminus, suggesting that this portion of the protein is critical for its function []. This entry contains Pob3 Q04636 from SWISSPROT, which is a subunit of the heterodimeric yeast FACT complex (Spt16p (IPR013953 from INTERPRO)-Pob3p) []. The FACT complex facilitates RNA Polymerase II transcription elongation through nucleosomes by destabilising and then reassembling nucleosome structure [, ].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 3F5R_A 2GCL_B 2GCJ_D.
Probab=20.93 E-value=59 Score=26.99 Aligned_cols=39 Identities=18% Similarity=0.299 Sum_probs=18.9
Q ss_pred cCCCCCHHHHHHHHhh-cCcEEeecc-CCCCCCeEEEEcCC
Q 031896 13 RFPPADTNLVLREFEK-CGVILKHVP-GPRDANWMHILYQN 51 (151)
Q Consensus 13 Gfp~~~~~~Vl~~F~~-~G~I~~~~~-~p~~~NWi~i~y~~ 51 (151)
||..++.+.+-.+|++ |+--+++.. +-.|-||-.+.++.
T Consensus 3 GF~~~D~~~L~~~~k~~y~i~le~~els~kGwNWG~~~~~g 43 (222)
T PF03531_consen 3 GFKEEDFEKLKKFFKKNYDIELEEKELSVKGWNWGKADFEG 43 (222)
T ss_dssp EE-GGGHHHHHHHHHHHH----EE-SSTTTT----------
T ss_pred CCCHHHHHHHHHHHHHHcCCCCcccceecCCEeeceeEEcC
Confidence 8999999999999977 787666543 45789999999884
No 143
>PRK09019 translation initiation factor Sui1; Validated
Probab=20.59 E-value=3.6e+02 Score=19.97 Aligned_cols=51 Identities=20% Similarity=0.287 Sum_probs=38.7
Q ss_pred EEEecCCCC--CHHHHHHHHhh---cCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCcee
Q 031896 9 IVPFRFPPA--DTNLVLREFEK---CGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQI 66 (151)
Q Consensus 9 VtVFGfp~~--~~~~Vl~~F~~---~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii 66 (151)
-+|-||+.. ++..++++|.+ ||--+. ..||.|+=+.+..+...|.+-|-.+
T Consensus 48 TiI~Gl~~~~~dlk~l~K~lKkk~gcGGtvk-------~~~IelQGD~r~~v~~~L~~~Gf~~ 103 (108)
T PRK09019 48 CLITGLDLDDAELKKLAAELKKKCGCGGAVK-------DGVIEIQGDKRDLLKSLLEAKGMKV 103 (108)
T ss_pred EEEeCCcCCHHHHHHHHHHHHHHhcCCCeEE-------cCEEEEcCcHHHHHHHHHHHCCCeE
Confidence 356788744 66788888865 555553 2689999999999999999988655
No 144
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=20.28 E-value=90 Score=17.97 Aligned_cols=14 Identities=29% Similarity=0.304 Sum_probs=10.2
Q ss_pred CHHHHHHHHHhCCc
Q 031896 51 NRSDAQKALSKNGM 64 (151)
Q Consensus 51 ~~~~A~rAL~~nG~ 64 (151)
++.+|++||+.++-
T Consensus 15 ~~~~~~~AL~~~~~ 28 (37)
T PF00627_consen 15 SREQAREALRACNG 28 (37)
T ss_dssp -HHHHHHHHHHTTT
T ss_pred CHHHHHHHHHHcCC
Confidence 35589999998763
No 145
>PRK07451 translation initiation factor Sui1; Validated
Probab=20.26 E-value=3.6e+02 Score=20.19 Aligned_cols=51 Identities=20% Similarity=0.221 Sum_probs=39.0
Q ss_pred EEEecCCCC--CHHHHHHHHhh---cCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHhCCcee
Q 031896 9 IVPFRFPPA--DTNLVLREFEK---CGVILKHVPGPRDANWMHILYQNRSDAQKALSKNGMQI 66 (151)
Q Consensus 9 VtVFGfp~~--~~~~Vl~~F~~---~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~nG~ii 66 (151)
.+|-||+.. ++..++++|.+ ||--+ ..+||.|+=+.+..+...|.+-|-.+
T Consensus 55 TvV~Gl~~~~~dlk~LaK~LK~k~gcGGtv-------kd~~IelQGD~r~~v~~~L~~~Gf~~ 110 (115)
T PRK07451 55 TVITGFQHKPETLAKLLKQLKTQCGSGGTV-------KDNTIEIQGDHRQKILEILIKLGYKA 110 (115)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHHhcCCceE-------cCCEEEEcCcHHHHHHHHHHHCCCeE
Confidence 456789864 67788999955 44443 23589999999999999999988655
No 146
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=20.25 E-value=1e+02 Score=30.82 Aligned_cols=55 Identities=24% Similarity=0.306 Sum_probs=43.8
Q ss_pred cCCCC-CHHHHHHHHhhcCcEEeeccCCCCCCeEEEEcCCHHHHHHHHHh-CCceecC
Q 031896 13 RFPPA-DTNLVLREFEKCGVILKHVPGPRDANWMHILYQNRSDAQKALSK-NGMQING 68 (151)
Q Consensus 13 Gfp~~-~~~~Vl~~F~~~G~I~~~~~~p~~~NWi~i~y~~~~~A~rAL~~-nG~ii~g 68 (151)
|..+. ......+.|..||.|-.+.+ -.+.-|.+|.|++...|+-|..- -|..|+|
T Consensus 462 glg~w~p~~~l~r~fd~fGpir~Idy-~hgq~yayi~yes~~~aq~a~~~~rgap~G~ 518 (975)
T KOG0112|consen 462 GLGPWSPVSRLNREFDRFGPIRIIDY-RHGQPYAYIQYESPPAAQAATHDMRGAPLGG 518 (975)
T ss_pred CCCCCChHHHHHHHhhccCcceeeec-ccCCcceeeecccCccchhhHHHHhcCcCCC
Confidence 44443 56778899999999998876 35889999999999999999865 6667753
No 147
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=20.08 E-value=5e+02 Score=21.34 Aligned_cols=16 Identities=19% Similarity=0.414 Sum_probs=9.5
Q ss_pred CHHHHHHHHHhC-Ccee
Q 031896 51 NRSDAQKALSKN-GMQI 66 (151)
Q Consensus 51 ~~~~A~rAL~~n-G~ii 66 (151)
+..+..++|.++ |-.+
T Consensus 303 ~~~~~~~~L~~~~gI~~ 319 (356)
T cd06451 303 DGDEVVRRLMKRYNIEI 319 (356)
T ss_pred CHHHHHHHHHHhCCEEE
Confidence 345666677666 6544
Done!