Query 031884
Match_columns 151
No_of_seqs 189 out of 1785
Neff 9.3
Searched_HMMs 46136
Date Fri Mar 29 06:42:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031884.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031884hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 99.9 2.1E-21 4.5E-26 132.4 11.4 77 74-150 31-107 (144)
2 PF00076 RRM_1: RNA recognitio 99.8 2.3E-20 5E-25 111.8 8.9 70 80-150 1-70 (70)
3 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 5.7E-20 1.2E-24 141.6 11.3 76 75-150 267-342 (352)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 1.2E-19 2.6E-24 139.9 10.2 75 76-150 2-76 (352)
5 TIGR01659 sex-lethal sex-letha 99.8 2.3E-19 4.9E-24 137.9 10.1 78 73-150 103-180 (346)
6 KOG0121 Nuclear cap-binding pr 99.8 2.9E-19 6.3E-24 116.4 6.2 77 74-150 33-109 (153)
7 KOG0149 Predicted RNA-binding 99.8 5E-19 1.1E-23 126.0 7.4 73 75-148 10-82 (247)
8 TIGR01659 sex-lethal sex-letha 99.8 3.9E-19 8.6E-24 136.6 6.9 97 50-146 144-262 (346)
9 PF14259 RRM_6: RNA recognitio 99.8 3E-18 6.6E-23 102.9 9.0 70 80-150 1-70 (70)
10 TIGR01645 half-pint poly-U bin 99.8 1.6E-18 3.5E-23 140.3 9.8 76 75-150 105-180 (612)
11 KOG0113 U1 small nuclear ribon 99.8 5E-18 1.1E-22 124.5 9.5 77 73-149 97-173 (335)
12 KOG0117 Heterogeneous nuclear 99.8 5.5E-18 1.2E-22 130.0 9.2 86 65-150 71-157 (506)
13 KOG0148 Apoptosis-promoting RN 99.7 3.2E-18 7E-23 124.1 6.8 73 72-150 159-231 (321)
14 TIGR01645 half-pint poly-U bin 99.7 9.8E-18 2.1E-22 135.8 9.9 75 76-150 203-277 (612)
15 TIGR01648 hnRNP-R-Q heterogene 99.7 2.2E-17 4.7E-22 133.5 11.0 78 71-149 52-130 (578)
16 KOG0125 Ataxin 2-binding prote 99.7 1.2E-17 2.6E-22 123.9 8.2 76 72-149 91-166 (376)
17 TIGR01622 SF-CC1 splicing fact 99.7 2.4E-17 5.1E-22 131.2 10.3 75 76-150 185-259 (457)
18 KOG0107 Alternative splicing f 99.7 8.8E-18 1.9E-22 114.9 6.4 71 75-150 8-78 (195)
19 KOG0148 Apoptosis-promoting RN 99.7 1.9E-17 4.1E-22 120.2 8.3 74 77-150 62-135 (321)
20 PLN03120 nucleic acid binding 99.7 4.2E-17 9.2E-22 119.2 9.3 71 76-150 3-73 (260)
21 TIGR01628 PABP-1234 polyadenyl 99.7 5.6E-17 1.2E-21 132.1 9.9 72 79-150 2-73 (562)
22 TIGR01622 SF-CC1 splicing fact 99.7 1.6E-16 3.6E-21 126.4 12.3 76 74-150 86-161 (457)
23 KOG0122 Translation initiation 99.7 4.6E-17 1E-21 116.6 7.8 72 75-146 187-258 (270)
24 PLN03213 repressor of silencin 99.7 5.8E-17 1.3E-21 126.1 8.9 73 74-150 7-81 (759)
25 KOG0126 Predicted RNA-binding 99.7 1.5E-18 3.2E-23 119.4 -0.2 76 75-150 33-108 (219)
26 TIGR01642 U2AF_lg U2 snRNP aux 99.7 1.7E-16 3.8E-21 127.7 11.1 76 75-150 293-368 (509)
27 KOG4207 Predicted splicing fac 99.7 4.8E-17 1E-21 114.1 6.5 78 73-150 9-86 (256)
28 KOG0124 Polypyrimidine tract-b 99.7 2.3E-17 5E-22 124.3 4.8 75 76-150 112-186 (544)
29 smart00362 RRM_2 RNA recogniti 99.7 5.5E-16 1.2E-20 92.1 9.2 70 79-150 1-70 (72)
30 PLN03121 nucleic acid binding 99.7 2.9E-16 6.2E-21 113.3 9.3 72 75-150 3-74 (243)
31 TIGR01628 PABP-1234 polyadenyl 99.7 4.2E-16 9.1E-21 127.1 9.6 75 75-150 283-357 (562)
32 KOG0147 Transcriptional coacti 99.7 6.6E-17 1.4E-21 126.7 4.4 100 51-150 217-351 (549)
33 smart00360 RRM RNA recognition 99.7 9E-16 1.9E-20 90.8 8.1 69 82-150 1-69 (71)
34 COG0724 RNA-binding proteins ( 99.6 8.7E-16 1.9E-20 112.8 9.3 74 77-150 115-188 (306)
35 KOG0111 Cyclophilin-type pepti 99.6 5.8E-17 1.3E-21 114.7 2.8 77 74-150 7-83 (298)
36 KOG0130 RNA-binding protein RB 99.6 6.9E-16 1.5E-20 101.6 5.4 79 71-149 66-144 (170)
37 KOG0144 RNA-binding protein CU 99.6 1.9E-15 4.1E-20 115.8 8.3 71 73-143 30-100 (510)
38 KOG0108 mRNA cleavage and poly 99.6 1.3E-15 2.9E-20 119.2 7.2 73 78-150 19-91 (435)
39 KOG0131 Splicing factor 3b, su 99.6 6.6E-16 1.4E-20 106.3 4.5 76 75-150 7-82 (203)
40 smart00361 RRM_1 RNA recogniti 99.6 5.4E-15 1.2E-19 88.9 7.6 60 91-150 2-68 (70)
41 KOG0114 Predicted RNA-binding 99.6 8.5E-15 1.8E-19 92.3 7.6 73 74-149 15-87 (124)
42 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 2E-14 4.3E-19 115.4 10.8 72 74-150 272-344 (481)
43 cd00590 RRM RRM (RNA recogniti 99.6 3.8E-14 8.3E-19 84.5 9.3 71 79-150 1-71 (74)
44 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 1.6E-14 3.5E-19 115.9 9.1 69 76-150 1-71 (481)
45 KOG0145 RNA-binding protein EL 99.6 1.6E-14 3.5E-19 104.7 8.0 78 73-150 37-114 (360)
46 KOG0145 RNA-binding protein EL 99.5 4.3E-14 9.3E-19 102.5 8.9 77 73-149 274-350 (360)
47 KOG0144 RNA-binding protein CU 99.5 4.9E-15 1.1E-19 113.6 4.1 68 75-143 122-189 (510)
48 KOG0146 RNA-binding protein ET 99.5 1.2E-14 2.5E-19 105.8 5.8 79 72-150 280-358 (371)
49 TIGR01648 hnRNP-R-Q heterogene 99.5 4.4E-14 9.5E-19 114.5 9.5 67 76-150 232-300 (578)
50 KOG0105 Alternative splicing f 99.5 4E-14 8.6E-19 98.0 5.6 74 74-150 3-76 (241)
51 KOG0127 Nucleolar protein fibr 99.5 1.1E-13 2.3E-18 109.1 8.3 75 75-150 115-189 (678)
52 KOG4212 RNA-binding protein hn 99.5 2.2E-13 4.7E-18 105.0 9.0 80 70-150 37-117 (608)
53 KOG0127 Nucleolar protein fibr 99.5 3.4E-13 7.4E-18 106.2 8.7 76 75-150 290-371 (678)
54 KOG0415 Predicted peptidyl pro 99.4 1.7E-13 3.8E-18 103.1 6.4 79 72-150 234-312 (479)
55 KOG0124 Polypyrimidine tract-b 99.4 4.7E-14 1E-18 106.6 2.8 74 77-150 210-283 (544)
56 PF13893 RRM_5: RNA recognitio 99.4 7.5E-13 1.6E-17 76.0 7.0 52 94-150 1-52 (56)
57 KOG0109 RNA-binding protein LA 99.4 1.5E-13 3.2E-18 101.0 4.6 65 78-150 3-67 (346)
58 TIGR01642 U2AF_lg U2 snRNP aux 99.4 1.1E-12 2.3E-17 105.8 9.1 70 74-150 172-253 (509)
59 KOG0146 RNA-binding protein ET 99.4 4.4E-13 9.6E-18 97.7 5.8 70 73-143 15-84 (371)
60 KOG4208 Nucleolar RNA-binding 99.4 1.1E-12 2.5E-17 92.1 7.4 78 72-149 44-122 (214)
61 KOG0117 Heterogeneous nuclear 99.4 7.1E-13 1.5E-17 102.2 6.7 66 76-149 258-323 (506)
62 KOG0131 Splicing factor 3b, su 99.4 5.3E-13 1.2E-17 92.1 4.5 78 73-150 92-170 (203)
63 KOG0132 RNA polymerase II C-te 99.4 3.5E-12 7.6E-17 103.9 9.0 71 74-150 418-488 (894)
64 KOG0123 Polyadenylate-binding 99.4 2.3E-12 5E-17 100.0 7.6 68 79-149 78-145 (369)
65 KOG0533 RRM motif-containing p 99.3 4.6E-12 1E-16 92.4 7.4 76 74-150 80-155 (243)
66 KOG4205 RNA-binding protein mu 99.3 3.2E-12 7E-17 96.5 5.0 72 76-148 5-76 (311)
67 KOG0109 RNA-binding protein LA 99.3 2.8E-12 6.2E-17 94.3 4.5 70 73-150 74-143 (346)
68 KOG4206 Spliceosomal protein s 99.3 1.4E-11 2.9E-16 87.8 7.7 73 75-150 7-83 (221)
69 KOG4205 RNA-binding protein mu 99.3 9.2E-12 2E-16 94.1 6.4 61 77-137 97-157 (311)
70 KOG0123 Polyadenylate-binding 99.2 2.4E-11 5.3E-16 94.3 7.2 67 78-150 2-68 (369)
71 KOG0153 Predicted RNA-binding 99.2 3.5E-11 7.6E-16 90.4 7.0 72 72-149 223-295 (377)
72 KOG0226 RNA-binding proteins [ 99.2 3.4E-11 7.4E-16 87.1 6.0 85 66-150 179-263 (290)
73 KOG4209 Splicing factor RNPS1, 99.2 6.4E-11 1.4E-15 86.4 5.6 78 72-150 96-173 (231)
74 KOG0110 RNA-binding protein (R 99.1 4.4E-11 9.6E-16 96.8 4.9 74 76-149 612-685 (725)
75 KOG4661 Hsp27-ERE-TATA-binding 99.1 1.3E-10 2.8E-15 92.6 6.4 76 74-149 402-477 (940)
76 KOG0110 RNA-binding protein (R 99.1 1.6E-10 3.4E-15 93.7 6.9 71 78-149 516-590 (725)
77 KOG0151 Predicted splicing reg 99.1 4.3E-10 9.3E-15 91.3 8.3 77 74-150 171-250 (877)
78 KOG4212 RNA-binding protein hn 99.1 3.4E-10 7.3E-15 87.7 7.1 73 73-150 532-604 (608)
79 KOG4660 Protein Mei2, essentia 99.1 1.4E-10 3E-15 91.8 4.7 72 74-150 72-143 (549)
80 KOG1548 Transcription elongati 99.0 2.6E-09 5.7E-14 80.4 8.3 77 73-150 130-214 (382)
81 KOG4454 RNA binding protein (R 98.9 4.2E-10 9.1E-15 80.1 2.7 75 74-150 6-80 (267)
82 KOG0116 RasGAP SH3 binding pro 98.9 3.2E-09 7E-14 83.2 7.6 72 76-148 287-358 (419)
83 KOG0106 Alternative splicing f 98.9 1.1E-09 2.4E-14 78.6 3.2 63 78-148 2-64 (216)
84 PF04059 RRM_2: RNA recognitio 98.9 2.5E-08 5.4E-13 63.3 8.6 70 77-146 1-72 (97)
85 KOG1457 RNA binding protein (c 98.7 1.3E-07 2.8E-12 67.7 9.3 72 74-145 31-103 (284)
86 KOG0120 Splicing factor U2AF, 98.7 2.3E-08 5.1E-13 79.6 4.6 78 72-149 284-361 (500)
87 KOG0147 Transcriptional coacti 98.7 1E-08 2.3E-13 81.2 2.4 77 72-149 174-250 (549)
88 KOG4211 Splicing factor hnRNP- 98.6 2.4E-07 5.3E-12 72.8 7.3 68 74-145 7-74 (510)
89 KOG1995 Conserved Zn-finger pr 98.5 1.3E-07 2.8E-12 71.7 4.9 77 74-150 63-147 (351)
90 PF11608 Limkain-b1: Limkain b 98.5 1.1E-06 2.4E-11 53.7 6.6 62 78-149 3-69 (90)
91 KOG1457 RNA binding protein (c 98.4 3.3E-07 7.1E-12 65.7 4.4 66 76-145 209-274 (284)
92 KOG1190 Polypyrimidine tract-b 98.4 1.1E-06 2.4E-11 67.9 7.1 69 77-150 297-366 (492)
93 KOG4210 Nuclear localization s 98.4 2.2E-07 4.8E-12 70.0 2.8 75 75-150 182-257 (285)
94 COG5175 MOT2 Transcriptional r 98.3 1.7E-06 3.7E-11 65.5 5.8 76 75-150 112-196 (480)
95 PF08777 RRM_3: RNA binding mo 98.3 2.9E-06 6.3E-11 54.8 6.0 59 78-142 2-60 (105)
96 KOG4211 Splicing factor hnRNP- 98.3 4.9E-06 1.1E-10 65.6 8.0 69 75-145 101-170 (510)
97 KOG4849 mRNA cleavage factor I 98.2 1E-06 2.2E-11 67.0 3.4 75 74-148 77-153 (498)
98 PF14605 Nup35_RRM_2: Nup53/35 98.2 6.1E-06 1.3E-10 46.6 5.0 52 78-136 2-53 (53)
99 KOG0106 Alternative splicing f 98.1 1.4E-06 3E-11 62.7 2.6 70 73-150 95-164 (216)
100 KOG4206 Spliceosomal protein s 98.1 1.4E-05 3E-10 57.4 7.0 69 72-145 141-209 (221)
101 PF05172 Nup35_RRM: Nup53/35/4 98.1 1.9E-05 4.1E-10 50.4 6.3 72 76-149 5-83 (100)
102 KOG3152 TBP-binding protein, a 98.0 2.6E-06 5.7E-11 62.1 2.3 73 76-148 73-157 (278)
103 KOG2314 Translation initiation 98.0 9.5E-06 2.1E-10 65.1 5.2 70 75-145 56-131 (698)
104 KOG0129 Predicted RNA-binding 97.9 3.8E-05 8.2E-10 61.1 6.9 66 72-137 365-431 (520)
105 KOG1855 Predicted RNA-binding 97.9 2.5E-05 5.5E-10 60.8 5.4 71 70-140 224-307 (484)
106 KOG0120 Splicing factor U2AF, 97.8 5.2E-05 1.1E-09 60.9 6.5 57 93-149 425-484 (500)
107 KOG0128 RNA-binding protein SA 97.8 7.7E-06 1.7E-10 68.3 1.4 94 51-145 705-803 (881)
108 KOG1456 Heterogeneous nuclear 97.8 0.00032 7E-09 54.1 9.5 73 72-149 282-355 (494)
109 KOG0105 Alternative splicing f 97.7 0.00015 3.3E-09 50.9 6.9 64 75-145 113-176 (241)
110 KOG1548 Transcription elongati 97.7 0.0001 2.2E-09 56.2 6.5 74 73-150 261-345 (382)
111 KOG1365 RNA-binding protein Fu 97.7 3.9E-05 8.5E-10 59.2 4.3 76 73-149 276-354 (508)
112 KOG0129 Predicted RNA-binding 97.7 9E-05 2E-09 59.0 6.4 64 75-139 257-326 (520)
113 KOG4307 RNA binding protein RB 97.7 0.00014 3E-09 60.0 6.9 72 78-149 868-939 (944)
114 KOG0112 Large RNA-binding prot 97.5 0.00018 3.8E-09 60.8 4.6 68 73-146 451-518 (975)
115 KOG1365 RNA-binding protein Fu 97.3 0.00036 7.8E-09 54.0 4.7 58 79-137 163-224 (508)
116 KOG0115 RNA-binding protein p5 97.3 0.00033 7.1E-09 51.4 3.8 63 78-141 32-94 (275)
117 KOG1190 Polypyrimidine tract-b 97.3 0.00091 2E-08 52.2 6.3 71 73-147 410-480 (492)
118 KOG2202 U2 snRNP splicing fact 97.3 8.6E-05 1.9E-09 54.4 0.7 56 94-150 85-141 (260)
119 KOG2193 IGF-II mRNA-binding pr 97.2 0.00036 7.8E-09 54.7 3.7 66 78-149 2-68 (584)
120 PF08952 DUF1866: Domain of un 97.2 0.0022 4.7E-08 43.6 6.9 68 74-150 24-100 (146)
121 KOG1996 mRNA splicing factor [ 97.2 0.0016 3.6E-08 48.8 6.5 59 92-150 301-360 (378)
122 KOG0128 RNA-binding protein SA 97.1 2.9E-05 6.2E-10 65.0 -3.7 66 76-141 666-731 (881)
123 KOG1456 Heterogeneous nuclear 97.1 0.0059 1.3E-07 47.4 8.8 83 62-146 391-474 (494)
124 KOG2068 MOT2 transcription fac 97.0 0.00033 7.1E-09 53.2 1.9 75 75-150 75-156 (327)
125 PF10309 DUF2414: Protein of u 97.0 0.0058 1.3E-07 35.5 6.3 56 76-139 4-62 (62)
126 KOG2416 Acinus (induces apopto 96.9 0.00055 1.2E-08 55.6 2.5 67 73-145 440-507 (718)
127 KOG4676 Splicing factor, argin 96.9 0.0017 3.6E-08 50.5 4.4 69 78-147 8-79 (479)
128 KOG0112 Large RNA-binding prot 96.7 0.00031 6.8E-09 59.3 -0.6 73 72-145 367-439 (975)
129 PF03467 Smg4_UPF3: Smg-4/UPF3 96.5 0.0066 1.4E-07 42.8 5.2 72 74-145 4-81 (176)
130 PF08675 RNA_bind: RNA binding 96.5 0.024 5.1E-07 34.9 6.6 57 76-140 7-63 (87)
131 KOG4307 RNA binding protein RB 96.4 0.0038 8.3E-08 51.9 3.6 75 74-149 431-506 (944)
132 PF07576 BRAP2: BRCA1-associat 96.2 0.14 3.1E-06 33.2 9.5 68 76-145 12-80 (110)
133 KOG4285 Mitotic phosphoprotein 96.0 0.014 3.1E-07 44.0 4.6 62 79-148 199-260 (350)
134 PF04847 Calcipressin: Calcipr 95.8 0.031 6.7E-07 39.7 5.4 55 90-150 8-64 (184)
135 KOG2135 Proteins containing th 95.5 0.0052 1.1E-07 48.9 0.7 69 75-150 370-439 (526)
136 KOG4660 Protein Mei2, essentia 95.4 0.028 6.1E-07 45.6 4.8 71 75-145 386-457 (549)
137 KOG4210 Nuclear localization s 95.1 0.02 4.4E-07 43.4 3.0 73 75-147 86-158 (285)
138 PF15023 DUF4523: Protein of u 95.1 0.12 2.7E-06 35.0 6.3 62 73-141 82-147 (166)
139 KOG2253 U1 snRNP complex, subu 95.0 0.033 7.3E-07 46.1 4.0 68 72-148 35-102 (668)
140 KOG4410 5-formyltetrahydrofola 94.8 0.27 5.8E-06 37.2 8.0 60 75-140 328-395 (396)
141 PF11767 SET_assoc: Histone ly 94.7 0.25 5.5E-06 29.0 6.2 53 88-149 11-63 (66)
142 KOG2591 c-Mpl binding protein, 94.0 0.18 3.9E-06 41.3 6.0 61 73-140 171-233 (684)
143 KOG4574 RNA-binding protein (c 92.7 0.052 1.1E-06 46.3 1.1 62 78-145 299-360 (1007)
144 PF03880 DbpA: DbpA RNA bindin 90.9 1.9 4.1E-05 25.6 6.4 63 79-150 2-70 (74)
145 KOG0804 Cytoplasmic Zn-finger 90.0 1.9 4.2E-05 34.6 7.2 69 75-145 72-141 (493)
146 KOG4454 RNA binding protein (R 89.2 0.093 2E-06 38.1 -0.4 85 57-142 51-148 (267)
147 KOG2318 Uncharacterized conser 88.0 2.3 5E-05 35.2 6.6 72 74-145 171-294 (650)
148 KOG4676 Splicing factor, argin 83.6 0.15 3.2E-06 40.0 -1.9 67 74-145 148-214 (479)
149 COG0724 RNA-binding proteins ( 81.6 3.5 7.6E-05 29.6 4.7 73 72-144 220-292 (306)
150 KOG4483 Uncharacterized conser 73.8 16 0.00036 29.2 6.4 67 74-148 388-455 (528)
151 KOG2891 Surface glycoprotein [ 73.3 4.3 9.3E-05 30.8 3.1 73 72-144 144-247 (445)
152 PF10567 Nab6_mRNP_bdg: RNA-re 72.7 10 0.00023 28.9 5.0 59 76-134 14-79 (309)
153 PF03468 XS: XS domain; Inter 71.7 9 0.0002 25.1 4.0 46 89-137 29-75 (116)
154 PF15513 DUF4651: Domain of un 69.2 15 0.00033 21.2 4.1 18 92-109 9-26 (62)
155 PRK14548 50S ribosomal protein 67.8 26 0.00056 21.6 5.7 58 79-139 22-81 (84)
156 PF07292 NID: Nmi/IFP 35 domai 61.0 6.2 0.00013 24.6 1.6 26 74-99 49-74 (88)
157 KOG2193 IGF-II mRNA-binding pr 60.5 0.3 6.5E-06 38.8 -5.3 70 74-147 77-147 (584)
158 PF09707 Cas_Cas2CT1978: CRISP 60.4 26 0.00056 21.7 4.2 50 75-127 23-72 (86)
159 KOG0156 Cytochrome P450 CYP2 s 57.8 20 0.00044 29.4 4.5 59 81-149 36-97 (489)
160 KOG4019 Calcineurin-mediated s 57.4 4.9 0.00011 28.5 0.7 67 75-147 8-79 (193)
161 TIGR03636 L23_arch archaeal ri 55.6 44 0.00095 20.2 5.8 57 79-138 15-73 (77)
162 PF03439 Spt5-NGN: Early trans 55.4 20 0.00044 21.8 3.2 36 103-143 33-68 (84)
163 COG0030 KsgA Dimethyladenosine 49.2 31 0.00068 25.9 3.9 36 77-112 95-130 (259)
164 PRK11901 hypothetical protein; 46.7 55 0.0012 25.5 4.9 62 77-143 245-308 (327)
165 KOG2295 C2H2 Zn-finger protein 46.2 3 6.5E-05 34.5 -1.9 71 75-145 229-299 (648)
166 PF04026 SpoVG: SpoVG; InterP 46.0 48 0.001 20.3 3.8 26 103-128 2-27 (84)
167 PRK11558 putative ssRNA endonu 45.5 45 0.00098 21.1 3.7 51 75-128 25-75 (97)
168 PRK13259 regulatory protein Sp 44.1 51 0.0011 20.8 3.7 26 103-128 2-27 (94)
169 PF11823 DUF3343: Protein of u 43.3 34 0.00074 20.0 2.8 29 120-148 2-30 (73)
170 KOG4213 RNA-binding protein La 43.2 16 0.00035 26.0 1.5 56 76-137 110-168 (205)
171 COG5193 LHP1 La protein, small 42.1 13 0.00029 29.6 1.1 64 74-137 171-244 (438)
172 KOG4008 rRNA processing protei 38.9 27 0.00057 26.0 2.1 35 73-107 36-70 (261)
173 TIGR01873 cas_CT1978 CRISPR-as 37.4 33 0.0007 21.3 2.1 51 75-128 23-74 (87)
174 PRK11230 glycolate oxidase sub 36.8 1.9E+02 0.0042 23.9 7.0 62 78-140 190-255 (499)
175 PF11411 DNA_ligase_IV: DNA li 36.6 29 0.00062 17.7 1.4 16 87-102 19-34 (36)
176 COG5584 Predicted small secret 34.7 49 0.0011 21.0 2.5 31 84-114 29-59 (103)
177 COG0445 GidA Flavin-dependent 34.3 1E+02 0.0022 26.1 5.0 49 72-128 296-344 (621)
178 PF08206 OB_RNB: Ribonuclease 34.2 32 0.0007 19.2 1.6 11 118-128 7-17 (58)
179 COG2088 SpoVG Uncharacterized 33.7 72 0.0016 19.8 3.1 27 103-129 2-28 (95)
180 PF00398 RrnaAD: Ribosomal RNA 31.0 44 0.00095 24.8 2.3 31 76-106 96-128 (262)
181 COG0150 PurM Phosphoribosylami 30.8 12 0.00025 29.3 -0.8 47 92-142 276-322 (345)
182 smart00738 NGN In Spt5p, this 30.4 72 0.0016 19.7 3.0 23 120-142 60-82 (106)
183 PF08442 ATP-grasp_2: ATP-gras 30.2 87 0.0019 22.5 3.6 53 90-145 26-81 (202)
184 PRK01178 rps24e 30S ribosomal 30.0 1.5E+02 0.0032 18.8 4.3 46 88-134 30-80 (99)
185 KOG1295 Nonsense-mediated deca 29.8 97 0.0021 24.7 4.0 68 76-144 6-77 (376)
186 TIGR01743 purR_Bsub pur operon 29.8 1.6E+02 0.0034 22.3 5.1 40 93-139 44-85 (268)
187 KOG3424 40S ribosomal protein 29.8 1.7E+02 0.0037 19.4 5.4 45 88-133 34-83 (132)
188 COG5353 Uncharacterized protei 29.4 1.9E+02 0.0042 19.9 6.5 55 76-130 86-153 (161)
189 PHA01632 hypothetical protein 29.3 55 0.0012 18.5 1.9 20 81-100 20-39 (64)
190 KOG0226 RNA-binding proteins [ 29.1 27 0.00058 26.3 0.9 74 76-150 95-171 (290)
191 PRK09213 pur operon repressor; 28.9 1.6E+02 0.0034 22.4 4.9 41 93-140 46-88 (271)
192 PRK15464 cold shock-like prote 28.6 31 0.00067 20.3 0.9 10 119-128 16-25 (70)
193 KOG3003 Molecular chaperone of 28.4 1.4E+02 0.0031 22.1 4.4 50 89-150 162-223 (236)
194 PF14657 Integrase_AP2: AP2-li 28.3 99 0.0022 16.2 3.5 30 111-140 9-38 (46)
195 cd00027 BRCT Breast Cancer Sup 27.7 99 0.0021 16.6 3.0 27 78-104 2-28 (72)
196 PTZ00071 40S ribosomal protein 27.1 2E+02 0.0044 19.3 4.9 46 88-134 35-86 (132)
197 PF13046 DUF3906: Protein of u 26.8 1E+02 0.0022 17.9 2.8 33 90-124 31-63 (64)
198 PRK15463 cold shock-like prote 26.7 36 0.00079 20.0 1.0 10 119-128 16-25 (70)
199 PRK09937 stationary phase/star 26.6 38 0.00082 20.2 1.1 11 118-128 12-22 (74)
200 PF05189 RTC_insert: RNA 3'-te 26.4 1E+02 0.0022 19.3 3.1 48 79-126 12-64 (103)
201 PTZ00338 dimethyladenosine tra 25.4 92 0.002 23.8 3.2 29 79-107 103-131 (294)
202 PRK09507 cspE cold shock prote 25.2 38 0.00083 19.8 0.9 10 119-128 15-24 (69)
203 PF00054 Laminin_G_1: Laminin 25.1 16 0.00034 24.0 -0.9 12 75-86 90-101 (131)
204 PRK14998 cold shock-like prote 25.0 42 0.0009 19.9 1.0 11 118-128 12-22 (73)
205 smart00457 MACPF membrane-atta 25.0 62 0.0013 22.8 2.1 28 82-109 30-59 (194)
206 smart00596 PRE_C2HC PRE_C2HC d 24.9 80 0.0017 18.7 2.2 38 92-129 2-40 (69)
207 PF11249 DUF3047: Protein of u 24.8 2.1E+02 0.0046 20.2 4.8 33 92-124 145-178 (183)
208 PRK10943 cold shock-like prote 24.7 39 0.00084 19.7 0.8 10 119-128 15-24 (69)
209 PF15063 TC1: Thyroid cancer p 24.7 45 0.00098 20.1 1.1 29 76-104 24-52 (79)
210 PRK00274 ksgA 16S ribosomal RN 24.7 1E+02 0.0023 23.0 3.4 22 79-100 107-128 (272)
211 PF08544 GHMP_kinases_C: GHMP 24.6 1.5E+02 0.0033 17.1 5.3 42 92-139 37-79 (85)
212 TIGR00755 ksgA dimethyladenosi 24.5 1.1E+02 0.0025 22.4 3.5 25 79-103 96-120 (253)
213 KOG4365 Uncharacterized conser 24.4 45 0.00098 27.2 1.4 59 78-137 4-62 (572)
214 PF00403 HMA: Heavy-metal-asso 24.2 1.3E+02 0.0029 16.4 5.9 54 79-138 1-58 (62)
215 COG5507 Uncharacterized conser 24.1 1E+02 0.0022 19.7 2.6 21 119-139 66-86 (117)
216 TIGR02381 cspD cold shock doma 23.8 46 0.001 19.3 1.1 11 118-128 12-22 (68)
217 PF07530 PRE_C2HC: Associated 23.6 1E+02 0.0023 17.9 2.6 40 92-131 2-42 (68)
218 PRK08559 nusG transcription an 23.6 99 0.0021 21.1 2.8 35 104-143 36-70 (153)
219 COG5236 Uncharacterized conser 23.5 3E+02 0.0066 21.9 5.6 52 90-149 263-314 (493)
220 PRK09890 cold shock protein Cs 23.3 44 0.00094 19.6 0.9 10 119-128 16-25 (70)
221 TIGR00387 glcD glycolate oxida 23.0 3.9E+02 0.0085 21.3 6.6 53 87-140 142-198 (413)
222 PF09180 ProRS-C_1: Prolyl-tRN 22.6 1.4E+02 0.0031 17.2 3.0 31 120-150 12-42 (68)
223 PRK10354 RNA chaperone/anti-te 22.4 46 0.001 19.4 0.9 10 119-128 16-25 (70)
224 PTZ00191 60S ribosomal protein 22.2 2.7E+02 0.0058 19.1 5.6 55 78-135 82-138 (145)
225 smart00650 rADc Ribosomal RNA 21.8 1.6E+02 0.0035 20.0 3.7 23 79-101 79-101 (169)
226 PF15407 Spo7_2_N: Sporulation 21.4 64 0.0014 18.9 1.3 20 74-93 24-43 (67)
227 PF14893 PNMA: PNMA 21.2 74 0.0016 24.9 2.0 26 75-100 16-41 (331)
228 PRK14046 malate--CoA ligase su 21.2 4E+02 0.0088 21.3 6.2 52 90-144 27-81 (392)
229 PF00313 CSD: 'Cold-shock' DNA 20.3 84 0.0018 17.7 1.7 11 119-129 12-22 (66)
230 PF09341 Pcc1: Transcription f 20.1 1.9E+02 0.004 16.9 3.2 20 120-139 3-22 (76)
231 COG0002 ArgC Acetylglutamate s 20.1 2.6E+02 0.0056 22.1 4.7 32 79-111 248-280 (349)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.87 E-value=2.1e-21 Score=132.37 Aligned_cols=77 Identities=35% Similarity=0.618 Sum_probs=73.8
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
...+++|||+|||++++|++|+++|++||.|.++.|+.|+.+|+++|||||+|.+.++|+.||+.||+..|+|++|+
T Consensus 31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~ 107 (144)
T PLN03134 31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIR 107 (144)
T ss_pred cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999875
No 2
>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=99.84 E-value=2.3e-20 Score=111.75 Aligned_cols=70 Identities=26% Similarity=0.573 Sum_probs=67.7
Q ss_pred EEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 80 LFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 80 l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
|||+|||.++++++|+++|++||.|..+.+..+ .+++.+|+|||+|.+.++|++|+..+||..+.|+.||
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999999999999998 5899999999999999999999999999999999986
No 3
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.83 E-value=5.7e-20 Score=141.63 Aligned_cols=76 Identities=25% Similarity=0.345 Sum_probs=72.5
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..+.+|||+|||+++++++|+++|++||.|.+++|+.|+.||++||||||+|.+.++|.+||..|||..++||.|+
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~ 342 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQ 342 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence 3445799999999999999999999999999999999999999999999999999999999999999999999985
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.81 E-value=1.2e-19 Score=139.88 Aligned_cols=75 Identities=24% Similarity=0.463 Sum_probs=72.4
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+..+|||+|||++++|++|+++|++||+|.+|+|++|+.+|+++|||||+|.+.++|++||..|||..+.|+.|+
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~ 76 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIK 76 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEE
Confidence 468999999999999999999999999999999999999999999999999999999999999999999999874
No 5
>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=99.80 E-value=2.3e-19 Score=137.92 Aligned_cols=78 Identities=23% Similarity=0.361 Sum_probs=74.3
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.....++|||+|||+++++++|+++|+.||+|.+|+|+.|+.+|+++|||||+|.++++|++||+.|||..+.+++|+
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~ 180 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLK 180 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceee
Confidence 445678999999999999999999999999999999999999999999999999999999999999999999999875
No 6
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.78 E-value=2.9e-19 Score=116.41 Aligned_cols=77 Identities=21% Similarity=0.412 Sum_probs=73.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
...+++||||||+..++|++|.++|+++|+|..|.+-.|+.+..++|||||+|.+.++|+.|++.++|+.++.++|+
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir 109 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIR 109 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCccccccee
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999999986
No 7
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.78 E-value=5e-19 Score=126.01 Aligned_cols=73 Identities=29% Similarity=0.551 Sum_probs=65.3
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
..-++||||||++.++.++|++.|++||+|.+..|+.|+.+|++||||||+|.+.++|.+|++. -+-.|+||.
T Consensus 10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~ 82 (247)
T KOG0149|consen 10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRK 82 (247)
T ss_pred ceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccc
Confidence 3457999999999999999999999999999999999999999999999999999999999973 334555554
No 8
>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=99.78 E-value=3.9e-19 Score=136.60 Aligned_cols=97 Identities=27% Similarity=0.456 Sum_probs=83.0
Q ss_pred ccCCCCCcccCCcCCCCCCCCC----------------------CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEE
Q 031884 50 RQGRGRGACFPLACLPPSPHSL----------------------STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEV 107 (151)
Q Consensus 50 ~~~r~~~~~~~~~~~~~~~~~~----------------------~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~ 107 (151)
.++++++++|+++..+..+..+ ......++|||+|||+++++++|+++|++||.|..+
T Consensus 144 ~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v 223 (346)
T TIGR01659 144 KTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQK 223 (346)
T ss_pred CCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccccccccceeEEeCCCCcccHHHHHHHHHhcCCEEEE
Confidence 4678889999988764332111 122346789999999999999999999999999999
Q ss_pred EEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCC
Q 031884 108 NLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCC 146 (151)
Q Consensus 108 ~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~g 146 (151)
.|+.|+.+|+++|||||+|.+.++|++||+.||+..+.|
T Consensus 224 ~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g 262 (346)
T TIGR01659 224 NILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEG 262 (346)
T ss_pred EEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 999999999999999999999999999999999998876
No 9
>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=99.77 E-value=3e-18 Score=102.92 Aligned_cols=70 Identities=36% Similarity=0.617 Sum_probs=65.3
Q ss_pred EEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 80 LFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 80 l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
|||+|||+++++++|+++|+.||.|..+.+..++. |.++|+|||+|.+.++|.+|++.++|..++|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 79999999999999999999999999999999986 99999999999999999999999999999999875
No 10
>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=99.77 E-value=1.6e-18 Score=140.34 Aligned_cols=76 Identities=30% Similarity=0.565 Sum_probs=73.2
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
...++||||||++++++++|+++|++||.|.++.++.|+.+|+++|||||+|.+.++|++||+.|||..++||+|+
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~Ik 180 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIK 180 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceee
Confidence 4568999999999999999999999999999999999999999999999999999999999999999999999875
No 11
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.76 E-value=5e-18 Score=124.50 Aligned_cols=77 Identities=30% Similarity=0.561 Sum_probs=74.3
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
...+-+||||+.|+++++|.+|+..|+.||+|+.|.|+.|..||+++|||||+|+.+.+...|.+..+|.+|+|+.|
T Consensus 97 ~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri 173 (335)
T KOG0113|consen 97 IGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRI 173 (335)
T ss_pred cCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEE
Confidence 45788999999999999999999999999999999999999999999999999999999999999999999999876
No 12
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.75 E-value=5.5e-18 Score=129.98 Aligned_cols=86 Identities=26% Similarity=0.421 Sum_probs=77.8
Q ss_pred CCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCcee
Q 031884 65 PPSPHSLSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVC 144 (151)
Q Consensus 65 ~~~~~~~~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~ 144 (151)
+++.+.....+.++.||||.||.++.|++|.-+|++-|+|-+++||+|+.+|.+||||||+|++.+.|+.|++.||+.+|
T Consensus 71 PpP~weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Ei 150 (506)
T KOG0117|consen 71 PPPGWEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEI 150 (506)
T ss_pred CCCcccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccc
Confidence 34445666668899999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred C-CEeCC
Q 031884 145 C-CFWMA 150 (151)
Q Consensus 145 ~-gr~ir 150 (151)
. |+.|+
T Consensus 151 r~GK~ig 157 (506)
T KOG0117|consen 151 RPGKLLG 157 (506)
T ss_pred cCCCEeE
Confidence 5 66653
No 13
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.74 E-value=3.2e-18 Score=124.12 Aligned_cols=73 Identities=27% Similarity=0.485 Sum_probs=68.7
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..++++++|||||++.-++|++|++.|++||+|.+|+|.+++ ||+||.|+++|+|.+||..+||++|.|+.+|
T Consensus 159 Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNntei~G~~Vk 231 (321)
T KOG0148|consen 159 QSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNNTEIGGQLVR 231 (321)
T ss_pred cCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcCceeCceEEE
Confidence 456788999999999999999999999999999999999998 9999999999999999999999999987654
No 14
>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=99.74 E-value=9.8e-18 Score=135.85 Aligned_cols=75 Identities=20% Similarity=0.391 Sum_probs=72.2
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..++|||+||++++++++|+++|+.||.|.+++|.+|+.+|+++|||||+|.+.++|.+||..|||..++|+.||
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~Lr 277 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLR 277 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEE
Confidence 347999999999999999999999999999999999999999999999999999999999999999999999886
No 15
>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=99.73 E-value=2.2e-17 Score=133.48 Aligned_cols=78 Identities=23% Similarity=0.353 Sum_probs=71.1
Q ss_pred CCCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC-CEeC
Q 031884 71 LSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC-CFWM 149 (151)
Q Consensus 71 ~~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~-gr~i 149 (151)
.......++|||+|||++++|++|+++|++||.|.+++|++| .+|+++|||||+|.+.++|++||+.||+..+. |+.|
T Consensus 52 ~~~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l 130 (578)
T TIGR01648 52 GVQPGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLL 130 (578)
T ss_pred CCCCCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccc
Confidence 333456799999999999999999999999999999999999 69999999999999999999999999999885 6654
No 16
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.73 E-value=1.2e-17 Score=123.88 Aligned_cols=76 Identities=28% Similarity=0.548 Sum_probs=70.5
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
+.....++|+|+|||+...|.||+.+|++||.|.+|.|+.+. .-|||||||+|++.+||++|-.+|||..+.||.|
T Consensus 91 ~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkI 166 (376)
T KOG0125|consen 91 SSKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKI 166 (376)
T ss_pred CCCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEE
Confidence 345667899999999999999999999999999999999974 5588999999999999999999999999999987
No 17
>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=99.73 E-value=2.4e-17 Score=131.22 Aligned_cols=75 Identities=31% Similarity=0.534 Sum_probs=72.0
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..++|||+|||..+++++|+++|+.||.|..|.++.++.+|+++|||||+|.+.++|.+|+..|||..+.|++|+
T Consensus 185 ~~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~ 259 (457)
T TIGR01622 185 NFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIK 259 (457)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEE
Confidence 368999999999999999999999999999999999999999999999999999999999999999999999874
No 18
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.73 E-value=8.8e-18 Score=114.88 Aligned_cols=71 Identities=25% Similarity=0.495 Sum_probs=65.9
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.-.++||||||+..+++.+|+..|..||.+.+|+|...+ .|||||+|++..+|+.|+..|+|+.|+|..|+
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~r 78 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIR 78 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceEE
Confidence 347899999999999999999999999999999998865 39999999999999999999999999997764
No 19
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.72 E-value=1.9e-17 Score=120.18 Aligned_cols=74 Identities=24% Similarity=0.492 Sum_probs=72.1
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 77 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
--.+|||-|...++-++|++.|.+||+|.+++|++|..|+++||||||.|.++++|+.||..|||+=|++|.||
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IR 135 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIR 135 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceee
Confidence 45899999999999999999999999999999999999999999999999999999999999999999999997
No 20
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.72 E-value=4.2e-17 Score=119.22 Aligned_cols=71 Identities=14% Similarity=0.229 Sum_probs=65.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..++|||+|||+.+++++|+++|+.||.|.+|.|+.++. .+|||||+|.++++|+.||. |||..|.|++|+
T Consensus 3 ~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~ 73 (260)
T PLN03120 3 QVRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVT 73 (260)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEE
Confidence 357999999999999999999999999999999998863 46999999999999999995 999999999874
No 21
>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=99.71 E-value=5.6e-17 Score=132.15 Aligned_cols=72 Identities=24% Similarity=0.424 Sum_probs=70.1
Q ss_pred eEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (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~ 73 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIR 73 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEE
Confidence 799999999999999999999999999999999999999999999999999999999999999999999875
No 22
>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=99.71 E-value=1.6e-16 Score=126.40 Aligned_cols=76 Identities=20% Similarity=0.366 Sum_probs=71.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..+.++|||+|||..+++++|+++|++||.|.+|.|+.|+.+|+++|||||+|.+.++|.+||. |+|..+.|++|.
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~ 161 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPII 161 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeE
Confidence 4557899999999999999999999999999999999999999999999999999999999996 999999999874
No 23
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.70 E-value=4.6e-17 Score=116.56 Aligned_cols=72 Identities=29% Similarity=0.479 Sum_probs=68.1
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCC 146 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~g 146 (151)
.+.++|-|.||+.+++|++|+++|.+||.|.++.|.+|+.||.+||||||.|.++++|.+||..|||.-++.
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~ 258 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDN 258 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccce
Confidence 467889999999999999999999999999999999999999999999999999999999999999986543
No 24
>PLN03213 repressor of silencing 3; Provisional
Probab=99.70 E-value=5.8e-17 Score=126.14 Aligned_cols=73 Identities=22% Similarity=0.333 Sum_probs=67.5
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCH--HHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATE--EESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~--~~a~~Al~~l~g~~~~gr~ir 150 (151)
.....+||||||++.+++++|+..|+.||.|.+|.|+ +.+| ||||||+|.+. .++.+||..|||..++||.||
T Consensus 7 ~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LK 81 (759)
T PLN03213 7 GGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLR 81 (759)
T ss_pred CCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeE
Confidence 4566899999999999999999999999999999999 4577 89999999987 789999999999999999986
No 25
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.70 E-value=1.5e-18 Score=119.40 Aligned_cols=76 Identities=24% Similarity=0.536 Sum_probs=73.3
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.++.-|||||||+..||.||--+|++||+|..|.+++|+.||+|+||||+.|++..+-..|+..|||..|.||.||
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtir 108 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIR 108 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEE
Confidence 4677899999999999999999999999999999999999999999999999999999999999999999999986
No 26
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.69 E-value=1.7e-16 Score=127.73 Aligned_cols=76 Identities=25% Similarity=0.459 Sum_probs=72.1
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
...++|||+|||..+++++|+++|+.||.|..+.++.+..+|.++|||||+|.+.++|..||..|||..+.|+.|+
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~ 368 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLH 368 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence 3457999999999999999999999999999999999999999999999999999999999999999999998763
No 27
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.69 E-value=4.8e-17 Score=114.07 Aligned_cols=78 Identities=31% Similarity=0.545 Sum_probs=74.0
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+......|-|-||.+-++.++|+.+|++||.|-+|.|.+|+.|+.++|||||.|....+|+.|+.+|+|.+|+|+.|+
T Consensus 9 dv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 9 DVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred CcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 345567899999999999999999999999999999999999999999999999999999999999999999999985
No 28
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=2.3e-17 Score=124.29 Aligned_cols=75 Identities=31% Similarity=0.573 Sum_probs=72.8
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
--|+||||.+.+.+.|+.|+..|.+||+|+++.+.+|+.||++||||||+|+-++.|+.|++.|||..++||.||
T Consensus 112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiK 186 (544)
T KOG0124|consen 112 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIK 186 (544)
T ss_pred HhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCcccc
Confidence 358999999999999999999999999999999999999999999999999999999999999999999999986
No 29
>smart00362 RRM_2 RNA recognition motif.
Probab=99.68 E-value=5.5e-16 Score=92.11 Aligned_cols=70 Identities=30% Similarity=0.569 Sum_probs=65.9
Q ss_pred eEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+|||+|||..+++++|+++|.+||.|..+.+..++ +.++|+|||+|.+.++|+.|+..++|..+.|+.|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~ 70 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLR 70 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEe
Confidence 58999999999999999999999999999998876 78899999999999999999999999999998874
No 30
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.68 E-value=2.9e-16 Score=113.33 Aligned_cols=72 Identities=14% Similarity=0.161 Sum_probs=65.6
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..+.+|||+||++.+|+++|+++|+.||.|.+|.|++|. ..+|||||+|.++++|+.|+. |+|..|.+++|.
T Consensus 3 ~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~ 74 (243)
T PLN03121 3 PGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVL-LSGATIVDQRVC 74 (243)
T ss_pred CCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHh-cCCCeeCCceEE
Confidence 356899999999999999999999999999999999884 445899999999999999995 999999998863
No 31
>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=99.66 E-value=4.2e-16 Score=127.07 Aligned_cols=75 Identities=25% Similarity=0.485 Sum_probs=70.8
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
....+|||+||+.++++++|+++|++||.|.+++++.| .+|+++|||||+|.+.++|.+|+..|||..++|++|+
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~ 357 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLY 357 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeE
Confidence 34578999999999999999999999999999999999 5999999999999999999999999999999999873
No 32
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.66 E-value=6.6e-17 Score=126.71 Aligned_cols=100 Identities=29% Similarity=0.526 Sum_probs=87.3
Q ss_pred cCCCCCcccCCcCCCCCCCCC-----------------------------------CCCCCCCeEEEcCCCCCCCHHHHH
Q 031884 51 QGRGRGACFPLACLPPSPHSL-----------------------------------STCQPKTRLFVSGLSFRTSEDSLR 95 (151)
Q Consensus 51 ~~r~~~~~~~~~~~~~~~~~~-----------------------------------~~~~~~~~l~V~nL~~~~te~~l~ 95 (151)
++|+++.+++++....+.... ....+...||||||++++++++|+
T Consensus 217 s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq~sEaeknr~a~~s~a~~~k~~~~p~~rl~vgnLHfNite~~lr 296 (549)
T KOG0147|consen 217 SRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQLSEAEKNRAANASPALQGKGFTGPMRRLYVGNLHFNITEDMLR 296 (549)
T ss_pred chhhcceeEEEEecccchhhHhhhcCCcccCceeEecccHHHHHHHHhccccccccccccchhhhhhcccccCchHHHHh
Confidence 788999999998876553222 112333449999999999999999
Q ss_pred HHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 96 NAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 96 ~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.+|++||.|..|.+++|..||+++|||||+|.+.++|.+|+..|||.+|-||.|+
T Consensus 297 ~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ik 351 (549)
T KOG0147|consen 297 GIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIK 351 (549)
T ss_pred hhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEE
Confidence 9999999999999999999999999999999999999999999999999999986
No 33
>smart00360 RRM RNA recognition motif.
Probab=99.65 E-value=9e-16 Score=90.81 Aligned_cols=69 Identities=33% Similarity=0.571 Sum_probs=65.4
Q ss_pred EcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 82 VSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 82 V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
|+|||..+++++|+++|++||.|..+.+..++.+++++|+|||+|.+.++|..|+..+++..+.|+.|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~ 69 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLK 69 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEE
Confidence 589999999999999999999999999999987899999999999999999999999999999998764
No 34
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.65 E-value=8.7e-16 Score=112.78 Aligned_cols=74 Identities=35% Similarity=0.624 Sum_probs=72.1
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 77 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..+|||+|||.++++++|.++|..||.|..+.+..++.+|+++|||||+|.+.++|..|+..++|..+.|++|+
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~ 188 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLR 188 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeE
Confidence 69999999999999999999999999999999999988999999999999999999999999999999999975
No 35
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.65 E-value=5.8e-17 Score=114.72 Aligned_cols=77 Identities=26% Similarity=0.481 Sum_probs=74.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
....++||||+|..+++|.-|...|-+||.|.+|+++.|-.+++++|||||+|+-.++|.+||..||+.++.||.||
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~Grtir 83 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIR 83 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEE
Confidence 35678999999999999999999999999999999999999999999999999999999999999999999999986
No 36
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.62 E-value=6.9e-16 Score=101.63 Aligned_cols=79 Identities=20% Similarity=0.421 Sum_probs=74.3
Q ss_pred CCCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 71 LSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 71 ~~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
+..+..+..|||.++....+|+++.+.|..||+|+.+.+-.|+.||..||||.|+|++...|++|+..+||..|.|+.|
T Consensus 66 PqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v 144 (170)
T KOG0130|consen 66 PQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNV 144 (170)
T ss_pred CccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCce
Confidence 3456678899999999999999999999999999999999999999999999999999999999999999999988876
No 37
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.62 E-value=1.9e-15 Score=115.83 Aligned_cols=71 Identities=31% Similarity=0.591 Sum_probs=67.3
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCce
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKV 143 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~ 143 (151)
.+.+.-++|||.+|..++|.||+++|++||.|.+|.|++|+.||.++|||||.|.+.++|.+|+.+||+.+
T Consensus 30 ~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~k 100 (510)
T KOG0144|consen 30 PDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQK 100 (510)
T ss_pred CCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhccc
Confidence 34667799999999999999999999999999999999999999999999999999999999999999875
No 38
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.61 E-value=1.3e-15 Score=119.24 Aligned_cols=73 Identities=29% Similarity=0.586 Sum_probs=71.9
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+.+||||+|++++|++|..+|+..|.|.+++++.|+.||+++||||++|.+.++|..|++.|||.++.||.||
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~ 91 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLR 91 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEE
Confidence 8999999999999999999999999999999999999999999999999999999999999999999999986
No 39
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.61 E-value=6.6e-16 Score=106.35 Aligned_cols=76 Identities=22% Similarity=0.362 Sum_probs=73.2
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
....+||||||+..++++-|.++|-+.|+|..+.+.+|+.+..++||||++|.++++|+-|++-||..++-||+||
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIr 82 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIR 82 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeE
Confidence 4567999999999999999999999999999999999999999999999999999999999999999999999986
No 40
>smart00361 RRM_1 RNA recognition motif.
Probab=99.60 E-value=5.4e-15 Score=88.92 Aligned_cols=60 Identities=22% Similarity=0.494 Sum_probs=55.0
Q ss_pred HHHHHHHhc----cCCCeEEEE-EeecCCC--CCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 91 EDSLRNAFQ----GFGQLVEVN-LVMDKIA--NRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 91 e~~l~~~F~----~~G~i~~~~-v~~~~~~--g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+++|+++|+ .||.|.++. |+.++.+ |+++|||||+|.+.++|.+|++.|||..+.||.|+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~ 68 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVK 68 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence 578889998 999999995 7777767 99999999999999999999999999999999885
No 41
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.58 E-value=8.5e-15 Score=92.33 Aligned_cols=73 Identities=18% Similarity=0.379 Sum_probs=66.8
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
+...+-|||.|||+++|.++.-++|.+||.|..|+|-..+. .+|-|||.|++..+|.+|+.+|+|..++++.+
T Consensus 15 pevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~---TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl 87 (124)
T KOG0114|consen 15 PEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE---TRGTAFVVYEDIFDAKKACDHLSGYNVDNRYL 87 (124)
T ss_pred hhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC---cCceEEEEehHhhhHHHHHHHhcccccCCceE
Confidence 45678999999999999999999999999999999977654 46999999999999999999999999998875
No 42
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.57 E-value=2e-14 Score=115.39 Aligned_cols=72 Identities=24% Similarity=0.303 Sum_probs=66.7
Q ss_pred CCCCCeEEEcCCCC-CCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSF-RTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~-~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..++++|||+||++ .+++++|+++|+.||.|.+|+|+.++ +|||||+|.+.++|..||..|||..+.|+.|+
T Consensus 272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~ 344 (481)
T TIGR01649 272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLR 344 (481)
T ss_pred CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEE
Confidence 35678999999998 69999999999999999999999874 59999999999999999999999999999874
No 43
>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=99.57 E-value=3.8e-14 Score=84.46 Aligned_cols=71 Identities=34% Similarity=0.592 Sum_probs=65.7
Q ss_pred eEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+|+|+|||..+++++|+++|+.||.|..+.+..++. ++++|+|||+|.+.++|..|+..+++..+.|+.|+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~-~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~ 71 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD-TKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLR 71 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC-CCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence 489999999999999999999999999999998874 47789999999999999999999999999998763
No 44
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=99.56 E-value=1.6e-14 Score=115.87 Aligned_cols=69 Identities=19% Similarity=0.157 Sum_probs=63.1
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh--CCceeCCEeCC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM--HGKVCCCFWMA 150 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l--~g~~~~gr~ir 150 (151)
++++|||+|||+++++++|+++|++||.|.++.++.++ |||||+|.+.++|++|++.+ ++..+.|++|+
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k------~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~ 71 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGK------RQALVEFEDEESAKACVNFATSVPIYIRGQPAF 71 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCC------CEEEEEeCchHHHHHHHHHhhcCCceEcCeEEE
Confidence 46899999999999999999999999999999998654 89999999999999999864 78899999874
No 45
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.56 E-value=1.6e-14 Score=104.70 Aligned_cols=78 Identities=28% Similarity=0.452 Sum_probs=73.5
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.....++|.|.=||+.+|+++++.+|...|+|++|++++|+.+|.+.|||||.|.++.||++|+..|||-.+..+.||
T Consensus 37 t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIK 114 (360)
T KOG0145|consen 37 TDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIK 114 (360)
T ss_pred cCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEE
Confidence 356678999999999999999999999999999999999999999999999999999999999999999999887775
No 46
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=4.3e-14 Score=102.54 Aligned_cols=77 Identities=25% Similarity=0.307 Sum_probs=72.9
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
.......|||-||.++.+|.-|.++|.+||.|..|+|++|..|.+.||||||.+.+-+.|..||..|||+.+++|.+
T Consensus 274 ~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvL 350 (360)
T KOG0145|consen 274 GPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVL 350 (360)
T ss_pred CCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEE
Confidence 34457899999999999999999999999999999999999999999999999999999999999999999999875
No 47
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=4.9e-15 Score=113.59 Aligned_cols=68 Identities=29% Similarity=0.546 Sum_probs=64.8
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCce
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKV 143 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~ 143 (151)
...++||||.|+..++|.+++++|++||.|++|.|++|. .|.+||||||.|.+++-|..||+.|||..
T Consensus 122 ~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~ 189 (510)
T KOG0144|consen 122 VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQ 189 (510)
T ss_pred ccchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccce
Confidence 446899999999999999999999999999999999997 89999999999999999999999999985
No 48
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=1.2e-14 Score=105.85 Aligned_cols=79 Identities=20% Similarity=0.367 Sum_probs=75.3
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
...+++|+|||-.||.+..+.+|.++|-+||.|.+.+|..|+.|..+|.||||.|++..+|+.||..|||..|+-+++|
T Consensus 280 reGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLK 358 (371)
T KOG0146|consen 280 REGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLK 358 (371)
T ss_pred hcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhh
Confidence 4578899999999999999999999999999999999999999999999999999999999999999999999887765
No 49
>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=99.53 E-value=4.4e-14 Score=114.47 Aligned_cols=67 Identities=22% Similarity=0.426 Sum_probs=62.3
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccC--CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGF--GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~--G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..++|||+||+.++++++|+++|++| |.|.+|.+++ +||||+|.+.++|++||+.|||..|+|+.|+
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~ 300 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--------DYAFVHFEDREDAVKAMDELNGKELEGSEIE 300 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEE
Confidence 45789999999999999999999999 9999997753 7999999999999999999999999999875
No 50
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.50 E-value=4e-14 Score=98.02 Aligned_cols=74 Identities=22% Similarity=0.376 Sum_probs=65.8
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
....++|||||||.++.|.+|+++|.+||.|.+|.+...+ ..-.||||+|++..+|+.||..-+|..++|..||
T Consensus 3 gr~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLR 76 (241)
T KOG0105|consen 3 GRNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLR 76 (241)
T ss_pred CcccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEE
Confidence 4567899999999999999999999999999999886543 2347999999999999999999999999988775
No 51
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=1.1e-13 Score=109.06 Aligned_cols=75 Identities=29% Similarity=0.532 Sum_probs=69.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.+..+|.|.|||+.+.+.+|+.+|+.||.|.+|.|++.+ .|+.+|||||+|.+..+|..||+.+||.+|+||+|.
T Consensus 115 ~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VA 189 (678)
T KOG0127|consen 115 LPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVA 189 (678)
T ss_pred CccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhccCceecCceeE
Confidence 447899999999999999999999999999999999776 677779999999999999999999999999999973
No 52
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.48 E-value=2.2e-13 Score=104.98 Aligned_cols=80 Identities=15% Similarity=0.312 Sum_probs=72.3
Q ss_pred CCCCCCCCCeEEEcCCCCCCCHHHHHHHhc-cCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 70 SLSTCQPKTRLFVSGLSFRTSEDSLRNAFQ-GFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 70 ~~~~~~~~~~l~V~nL~~~~te~~l~~~F~-~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
........+.+||.|||+++.+.+|+++|. +-|+|..|.++.|. +|+++|||.|+|++++.+++|++.||...+.||+
T Consensus 37 ~gn~~~r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~ 115 (608)
T KOG4212|consen 37 GGNVAARDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRE 115 (608)
T ss_pred CCCcccccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCce
Confidence 334455666799999999999999999995 58999999999997 9999999999999999999999999999999998
Q ss_pred CC
Q 031884 149 MA 150 (151)
Q Consensus 149 ir 150 (151)
|.
T Consensus 116 l~ 117 (608)
T KOG4212|consen 116 LV 117 (608)
T ss_pred EE
Confidence 74
No 53
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=3.4e-13 Score=106.23 Aligned_cols=76 Identities=26% Similarity=0.453 Sum_probs=68.6
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh-----CC-ceeCCEe
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM-----HG-KVCCCFW 148 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l-----~g-~~~~gr~ 148 (151)
....+|||.|||+++||++|.+.|++||+|..+.++.++.||+++|.|||.|.+..+|..||... .| ..++||-
T Consensus 290 ~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~ 369 (678)
T KOG0127|consen 290 TEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRL 369 (678)
T ss_pred cccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccE
Confidence 34589999999999999999999999999999999999999999999999999999999999865 33 6677876
Q ss_pred CC
Q 031884 149 MA 150 (151)
Q Consensus 149 ir 150 (151)
++
T Consensus 370 Lk 371 (678)
T KOG0127|consen 370 LK 371 (678)
T ss_pred Ee
Confidence 53
No 54
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.45 E-value=1.7e-13 Score=103.08 Aligned_cols=79 Identities=22% Similarity=0.358 Sum_probs=75.7
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
...++.+.|||..|.+.++.++|+-+|+.||.|.+|.|++|+.||.+..||||+|++.+++++|.-.|++..|+.|+|+
T Consensus 234 d~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIH 312 (479)
T KOG0415|consen 234 DVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIH 312 (479)
T ss_pred ccCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEE
Confidence 4567889999999999999999999999999999999999999999999999999999999999999999999999985
No 55
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=4.7e-14 Score=106.57 Aligned_cols=74 Identities=20% Similarity=0.399 Sum_probs=70.5
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 77 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
-.+|||..++++.+|+||+..|+-||+|..|.+.+++.++.+||||||+|.+..+...|+..||=..++|+.+|
T Consensus 210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLR 283 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLR 283 (544)
T ss_pred hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEe
Confidence 37999999999999999999999999999999999998889999999999999999999999999999998775
No 56
>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=99.43 E-value=7.5e-13 Score=76.01 Aligned_cols=52 Identities=31% Similarity=0.594 Sum_probs=46.7
Q ss_pred HHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 94 LRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 94 l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
|.++|++||+|.++.+..+. +++|||+|.+.++|+.|++.|||..+.|++|+
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~ 52 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLK 52 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEE
Confidence 67899999999999887654 59999999999999999999999999999985
No 57
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.43 E-value=1.5e-13 Score=101.00 Aligned_cols=65 Identities=23% Similarity=0.518 Sum_probs=61.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.+|||||||..+++.+|+.+|++||.|.+|.|++ .||||..++...|+.||++|||..|.|..|.
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvK--------NYgFVHiEdktaaedairNLhgYtLhg~nIn 67 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVK--------NYGFVHIEDKTAAEDAIRNLHGYTLHGVNIN 67 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeec--------ccceEEeecccccHHHHhhcccceecceEEE
Confidence 4799999999999999999999999999999987 5899999999999999999999999998774
No 58
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.41 E-value=1.1e-12 Score=105.85 Aligned_cols=70 Identities=23% Similarity=0.462 Sum_probs=58.5
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccC------------CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGF------------GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHG 141 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~------------G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g 141 (151)
....++|||||||+.+++++|+++|..+ +.|..+.+. +.+|||||+|.+.++|..|| .|+|
T Consensus 172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~------~~kg~afVeF~~~e~A~~Al-~l~g 244 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN------KEKNFAFLEFRTVEEATFAM-ALDS 244 (509)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC------CCCCEEEEEeCCHHHHhhhh-cCCC
Confidence 4456899999999999999999999974 345555443 44599999999999999999 5999
Q ss_pred ceeCCEeCC
Q 031884 142 KVCCCFWMA 150 (151)
Q Consensus 142 ~~~~gr~ir 150 (151)
..+.|++|+
T Consensus 245 ~~~~g~~l~ 253 (509)
T TIGR01642 245 IIYSNVFLK 253 (509)
T ss_pred eEeeCceeE
Confidence 999998874
No 59
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.40 E-value=4.4e-13 Score=97.67 Aligned_cols=70 Identities=30% Similarity=0.561 Sum_probs=66.1
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCce
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKV 143 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~ 143 (151)
...+.++||||.|...-.|+|++.+|..||.|.++.+.+.. .|.+||||||.|.+..+|+.||..|||..
T Consensus 15 rg~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSq 84 (371)
T KOG0146|consen 15 RGGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQ 84 (371)
T ss_pred CCccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccc
Confidence 35578999999999999999999999999999999999987 89999999999999999999999999975
No 60
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.40 E-value=1.1e-12 Score=92.07 Aligned_cols=78 Identities=21% Similarity=0.356 Sum_probs=71.4
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccC-CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGF-GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~-G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
.......-+||..+|..+.+..+..+|.+| |.+..+++.+++.||.|||||||+|++++.|.-|.+.||++.+.|+-+
T Consensus 44 p~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL 122 (214)
T KOG4208|consen 44 PEQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLL 122 (214)
T ss_pred CccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhhee
Confidence 345677889999999999999999999998 788999998999999999999999999999999999999999887754
No 61
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.39 E-value=7.1e-13 Score=102.20 Aligned_cols=66 Identities=27% Similarity=0.432 Sum_probs=61.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
.-..|||.||+.++||+.|+++|+.||.|.+|+.++| ||||.|.++++|-+||+.+||++|+|..|
T Consensus 258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~i 323 (506)
T KOG0117|consen 258 KVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPI 323 (506)
T ss_pred heeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceE
Confidence 3468999999999999999999999999999988754 99999999999999999999999999876
No 62
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.38 E-value=5.3e-13 Score=92.10 Aligned_cols=78 Identities=31% Similarity=0.517 Sum_probs=71.4
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEE-EEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVE-VNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~-~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
....+.+|||+||.++++|..|.+.|+.||.+.+ -++++++.||.++|||||.|.+.+.+.+|+..|||+.+..++|.
T Consensus 92 nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~it 170 (203)
T KOG0131|consen 92 NLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPIT 170 (203)
T ss_pred cccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceE
Confidence 3455689999999999999999999999999765 58999999999999999999999999999999999999988764
No 63
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.36 E-value=3.5e-12 Score=103.90 Aligned_cols=71 Identities=20% Similarity=0.400 Sum_probs=65.6
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
...++|||||+|+..++|.||..+|+.||+|.+|.++..+ |||||.+..+.+|++|+++|++..+.++.||
T Consensus 418 sV~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R------~cAfI~M~~RqdA~kalqkl~n~kv~~k~Ik 488 (894)
T KOG0132|consen 418 SVCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR------GCAFIKMVRRQDAEKALQKLSNVKVADKTIK 488 (894)
T ss_pred eEeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC------ceeEEEEeehhHHHHHHHHHhcccccceeeE
Confidence 4557899999999999999999999999999999988876 9999999999999999999999888887764
No 64
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.36 E-value=2.3e-12 Score=99.95 Aligned_cols=68 Identities=24% Similarity=0.533 Sum_probs=64.5
Q ss_pred eEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
.|||.||+++++..+|.++|+.||+|.+|+|..+. +| ++|| ||+|++++.|++|+..+||..+.|+.|
T Consensus 78 ~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki 145 (369)
T KOG0123|consen 78 LVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKI 145 (369)
T ss_pred eeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCee
Confidence 39999999999999999999999999999999997 66 9999 999999999999999999999988765
No 65
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.33 E-value=4.6e-12 Score=92.44 Aligned_cols=76 Identities=25% Similarity=0.365 Sum_probs=71.5
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.....+|+|.|||+.++++||+++|+.||.+..+.|.+++ +|++.|.|-|.|...++|.+|++.+||..++|++|+
T Consensus 80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk 155 (243)
T KOG0533|consen 80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMK 155 (243)
T ss_pred CCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceee
Confidence 4445899999999999999999999999999999999997 999999999999999999999999999999999875
No 66
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.29 E-value=3.2e-12 Score=96.55 Aligned_cols=72 Identities=31% Similarity=0.521 Sum_probs=63.7
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
+.++||||+|+++++++.|++.|.+||+|.++.+++|+.+++++||+||+|.+.+...++|. ..-..|+|+.
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ 76 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRS 76 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCcc
Confidence 78999999999999999999999999999999999999999999999999999999888885 3333344443
No 67
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.29 E-value=2.8e-12 Score=94.30 Aligned_cols=70 Identities=24% Similarity=0.468 Sum_probs=66.1
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.+..+++|+||||.+.++.++|+..|++||+|.+++|++ +|+||.|+..++|..|++.|||+++.|++|+
T Consensus 74 Ksk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivk--------dy~fvh~d~~eda~~air~l~~~~~~gk~m~ 143 (346)
T KOG0109|consen 74 KSKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVK--------DYAFVHFDRAEDAVEAIRGLDNTEFQGKRMH 143 (346)
T ss_pred cCCCccccccCCCCccccCHHHhhhhcccCCceeeeeec--------ceeEEEEeeccchHHHHhcccccccccceee
Confidence 356889999999999999999999999999999999986 6999999999999999999999999999985
No 68
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.29 E-value=1.4e-11 Score=87.81 Aligned_cols=73 Identities=22% Similarity=0.442 Sum_probs=66.6
Q ss_pred CCCCeEEEcCCCCCCCHHHHHH----HhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRN----AFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~----~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.+..||||.||+..+..++|+. +|++||.|.+|...+ +.+.+|-|||.|.+.+.|..|+..|+|..+-|++||
T Consensus 7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mr 83 (221)
T KOG4206|consen 7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMR 83 (221)
T ss_pred CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhh
Confidence 4455999999999999999887 999999999987654 778999999999999999999999999999999886
No 69
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.27 E-value=9.2e-12 Score=94.09 Aligned_cols=61 Identities=31% Similarity=0.716 Sum_probs=58.8
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031884 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (151)
Q Consensus 77 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~ 137 (151)
..+||||+||.+++++++++.|++||.|..+.++.|..+.+++||+||.|++++++.+++.
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~ 157 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL 157 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc
Confidence 4599999999999999999999999999999999999999999999999999999999985
No 70
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.23 E-value=2.4e-11 Score=94.29 Aligned_cols=67 Identities=19% Similarity=0.341 Sum_probs=64.1
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
..|||| +++||.+|.+.|+++|+|.+++|.+|. | +.|||||.|.++.+|++||..||...+.|++||
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~r 68 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIR 68 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEE
Confidence 368999 999999999999999999999999998 6 999999999999999999999999999999986
No 71
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.22 E-value=3.5e-11 Score=90.40 Aligned_cols=72 Identities=24% Similarity=0.440 Sum_probs=62.5
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh-CCceeCCEeC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM-HGKVCCCFWM 149 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l-~g~~~~gr~i 149 (151)
.......+||||+|-..++|.+|++.|.+||+|+++.++... |+|||+|.++++|+.|.... +...|+|++|
T Consensus 223 PeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl 295 (377)
T KOG0153|consen 223 PEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGFRL 295 (377)
T ss_pred CcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecceEE
Confidence 445667899999999999999999999999999999998876 89999999999999998754 4445677665
No 72
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=99.20 E-value=3.4e-11 Score=87.14 Aligned_cols=85 Identities=21% Similarity=0.382 Sum_probs=77.6
Q ss_pred CCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 66 PSPHSLSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 66 ~~~~~~~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
+.+.........-+||.|.|.-+++.+.|-..|.+|-.....++++|+.||+++||+||.|.+..++..|+..|+|+.++
T Consensus 179 edPsl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVg 258 (290)
T KOG0226|consen 179 EDPSLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVG 258 (290)
T ss_pred CCcccccCccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccc
Confidence 33445556677889999999999999999999999988888899999999999999999999999999999999999999
Q ss_pred CEeCC
Q 031884 146 CFWMA 150 (151)
Q Consensus 146 gr~ir 150 (151)
.|+|+
T Consensus 259 srpik 263 (290)
T KOG0226|consen 259 SRPIK 263 (290)
T ss_pred cchhH
Confidence 99985
No 73
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=99.15 E-value=6.4e-11 Score=86.41 Aligned_cols=78 Identities=18% Similarity=0.323 Sum_probs=73.1
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
....+...+||||+.+.++.++++..|+.||.|..+.+..|+.+|++|||+||+|.+.+.++.|+. |||..+.|+.|.
T Consensus 96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~ 173 (231)
T KOG4209|consen 96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIE 173 (231)
T ss_pred hhccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccce
Confidence 346788999999999999999999999999999999999999999999999999999999999998 999999998874
No 74
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.14 E-value=4.4e-11 Score=96.76 Aligned_cols=74 Identities=24% Similarity=0.436 Sum_probs=69.2
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
..++|+|.|||+..+-.+++++|..||.+.+|+|+.....+.++|||||+|-++.+|..|+.+|.++.+-||.+
T Consensus 612 ~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrL 685 (725)
T KOG0110|consen 612 KGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRL 685 (725)
T ss_pred ccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhh
Confidence 35799999999999999999999999999999999986677889999999999999999999999999999875
No 75
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.12 E-value=1.3e-10 Score=92.57 Aligned_cols=76 Identities=26% Similarity=0.413 Sum_probs=70.5
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
...+++|||.+|+..+...+|+.+|++||.|.-.+|+.+..+.-.+.|+||++.+.++|.+||.+||.++|.||-|
T Consensus 402 s~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmI 477 (940)
T KOG4661|consen 402 STLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMI 477 (940)
T ss_pred cccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceee
Confidence 3456899999999999999999999999999999999988777788999999999999999999999999999876
No 76
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.12 E-value=1.6e-10 Score=93.65 Aligned_cols=71 Identities=27% Similarity=0.518 Sum_probs=64.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCC----CceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANR----PRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~----~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
++|||.||+++.+.++|+..|...|.|.++.|...+ .+. |.|||||+|.+.++|+.|++.|+|+.|+|+.|
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkk-d~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l 590 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKK-DPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKL 590 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccc-cccccccccceeEEEecCHHHHHHHHHHhcCceecCceE
Confidence 349999999999999999999999999999888776 343 45999999999999999999999999999875
No 77
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=99.09 E-value=4.3e-10 Score=91.27 Aligned_cols=77 Identities=23% Similarity=0.437 Sum_probs=69.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCC---CCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKI---ANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~---~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.+..++|||+||++.++|+.|-..|..||+|.+++|++.+. ..+.+-||||.|.+..+|++|++.|+|..+.++.||
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K 250 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMK 250 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence 45678999999999999999999999999999999998863 235568999999999999999999999999988875
No 78
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.08 E-value=3.4e-10 Score=87.65 Aligned_cols=73 Identities=18% Similarity=0.359 Sum_probs=66.9
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.....++|||.|||.++|++.|++-|..||.|..+.|+ +.|+++| .|.|.++++|++|+..|+|..++||.|+
T Consensus 532 aarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim---e~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~ 604 (608)
T KOG4212|consen 532 AARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM---ENGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIK 604 (608)
T ss_pred ccccccEEEEecCCccccHHHHHHHHHhccceehhhhh---ccCCccc--eEEecCHHHHHHHHHHhccCcccCceee
Confidence 34667899999999999999999999999999999884 3688888 8999999999999999999999999885
No 79
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=99.07 E-value=1.4e-10 Score=91.77 Aligned_cols=72 Identities=19% Similarity=0.341 Sum_probs=65.1
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.....+|+|-|||..+++++|+.+|+.||+|++++. |-..+|..||+|.+..+|++|+++|++.++.|+.|+
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~-----t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRE-----TPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhc-----ccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 567789999999999999999999999999999755 344569999999999999999999999999998875
No 80
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.99 E-value=2.6e-09 Score=80.42 Aligned_cols=77 Identities=21% Similarity=0.264 Sum_probs=69.8
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeE--------EEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCcee
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLV--------EVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVC 144 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~--------~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~ 144 (151)
....++.|||.|||.++|.+++.++|++||-|. .|++.++. .|+.||=|.+.|-..+++..|++.|++..+
T Consensus 130 ~~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~ 208 (382)
T KOG1548|consen 130 EPKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDEL 208 (382)
T ss_pred ccccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccc
Confidence 345567799999999999999999999999885 47888887 699999999999999999999999999999
Q ss_pred CCEeCC
Q 031884 145 CCFWMA 150 (151)
Q Consensus 145 ~gr~ir 150 (151)
.|+.||
T Consensus 209 rg~~~r 214 (382)
T KOG1548|consen 209 RGKKLR 214 (382)
T ss_pred cCcEEE
Confidence 998875
No 81
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.95 E-value=4.2e-10 Score=80.06 Aligned_cols=75 Identities=17% Similarity=0.168 Sum_probs=69.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
....++|||+|+...++|+-|.++|-+-|+|..|.|..++ .++.| ||||.|.++-++.-|++-+||..+.+++|+
T Consensus 6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q 80 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQ 80 (267)
T ss_pred cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhh
Confidence 4567899999999999999999999999999999988886 77777 999999999999999999999999988874
No 82
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.94 E-value=3.2e-09 Score=83.24 Aligned_cols=72 Identities=18% Similarity=0.253 Sum_probs=60.0
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
...+|||+|||.++++++|+++|..||.|+...|......++..+||||+|.+.++++.||++- -..++|+.
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~k 358 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRK 358 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccCCee
Confidence 3456999999999999999999999999999888775545666699999999999999999743 55555554
No 83
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.89 E-value=1.1e-09 Score=78.56 Aligned_cols=63 Identities=22% Similarity=0.620 Sum_probs=57.8
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
..+|||+||+.+.+.+|+.+|..||.|.++.+.. ||+||+|++..+|..|+..+||..+.|-.
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~--------gf~fv~fed~rda~Dav~~l~~~~l~~e~ 64 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKN--------GFGFVEFEDPRDADDAVHDLDGKELCGER 64 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceeec--------ccceeccCchhhhhcccchhcCceeccee
Confidence 4689999999999999999999999999986643 89999999999999999999999998753
No 84
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=98.88 E-value=2.5e-08 Score=63.25 Aligned_cols=70 Identities=16% Similarity=0.265 Sum_probs=63.8
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhcc--CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCC
Q 031884 77 KTRLFVSGLSFRTSEDSLRNAFQG--FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCC 146 (151)
Q Consensus 77 ~~~l~V~nL~~~~te~~l~~~F~~--~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~g 146 (151)
.+||.|.|||...+.++|.+++.. .|....+-++.|..++-+.|||||.|.+.+.|.+-.+.++|..+..
T Consensus 1 RTTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~ 72 (97)
T PF04059_consen 1 RTTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPN 72 (97)
T ss_pred CeeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCcccc
Confidence 368999999999999999988866 4778889999999999999999999999999999999999998863
No 85
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.73 E-value=1.3e-07 Score=67.74 Aligned_cols=72 Identities=21% Similarity=0.212 Sum_probs=57.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEee-cCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVM-DKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~-~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
...-++|||.+||.++..-+|..+|..|---+.+.+-. ++...-.+-+||++|.+..+|.+|++.|||..++
T Consensus 31 ~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFD 103 (284)
T KOG1457|consen 31 PGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFD 103 (284)
T ss_pred ccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeec
Confidence 45578999999999999999999999985444443432 2222234579999999999999999999999886
No 86
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.67 E-value=2.3e-08 Score=79.59 Aligned_cols=78 Identities=27% Similarity=0.486 Sum_probs=72.7
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
......+.+||++||..+++..+.++...||.+....++.|..+|-++||||.+|.+......|+..|||..++++.+
T Consensus 284 ~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~l 361 (500)
T KOG0120|consen 284 DVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKL 361 (500)
T ss_pred CcccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCcee
Confidence 344567899999999999999999999999999999999999999999999999999999999999999999988764
No 87
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.67 E-value=1e-08 Score=81.20 Aligned_cols=77 Identities=19% Similarity=0.351 Sum_probs=71.6
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
....+.+++|+--|+...++-+|.++|+.+|.|.+|.++.|+.+++++|.|||+|.+.+....|| .|.|+.+.|.+|
T Consensus 174 ~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv 250 (549)
T KOG0147|consen 174 PEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPV 250 (549)
T ss_pred chHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCcee
Confidence 34456789999999999999999999999999999999999999999999999999999999999 599999999886
No 88
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.56 E-value=2.4e-07 Score=72.82 Aligned_cols=68 Identities=16% Similarity=0.346 Sum_probs=54.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
.....-|-+.+||+++|+++|.++|+.+ .|..+.+.+ .+|+..|-|||+|.+++++++|++ .+-..+.
T Consensus 7 ~~~~~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg 74 (510)
T KOG4211|consen 7 GSTAFEVRLRGLPWSATEKEILDFFSNC-GIENLEIPR--RNGRPSGEAYVEFTSEEDVEKALK-KDRESMG 74 (510)
T ss_pred CCcceEEEecCCCccccHHHHHHHHhcC-ceeEEEEec--cCCCcCcceEEEeechHHHHHHHH-hhHHHhC
Confidence 3445566678999999999999999999 567755544 489999999999999999999997 4444443
No 89
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.53 E-value=1.3e-07 Score=71.73 Aligned_cols=77 Identities=23% Similarity=0.326 Sum_probs=71.2
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeE--------EEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLV--------EVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~--------~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
.....+|||-+|+..++++++.++|.++|.|. .|.|.+|++|++.||-|.|.|++...|+.|+.-++++.+.
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~ 142 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC 142 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence 45677999999999999999999999999985 4788999999999999999999999999999999999999
Q ss_pred CEeCC
Q 031884 146 CFWMA 150 (151)
Q Consensus 146 gr~ir 150 (151)
|..|+
T Consensus 143 gn~ik 147 (351)
T KOG1995|consen 143 GNTIK 147 (351)
T ss_pred CCCch
Confidence 88775
No 90
>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=98.45 E-value=1.1e-06 Score=53.72 Aligned_cols=62 Identities=29% Similarity=0.408 Sum_probs=43.8
Q ss_pred CeEEEcCCCCCCCHHH----HHHHhccCC-CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 78 TRLFVSGLSFRTSEDS----LRNAFQGFG-QLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~----l~~~F~~~G-~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
..|||.|||.+.+... |++++..|| .|.+|. | +.|+|.|.+.+.|++|.+.|+|..+-|+.|
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-------~---~tAilrF~~~~~A~RA~KRmegEdVfG~kI 69 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-------G---GTAILRFPNQEFAERAQKRMEGEDVFGNKI 69 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE---------T---T-EEEEESSHHHHHHHHHHHTT--SSSS--
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-------C---CEEEEEeCCHHHHHHHHHhhcccccccceE
Confidence 4689999999988765 567888886 676651 1 789999999999999999999999988876
No 91
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.42 E-value=3.3e-07 Score=65.74 Aligned_cols=66 Identities=17% Similarity=0.327 Sum_probs=55.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
...+|||.||..+++|++|+++|+.|--...++|... .|. ..||++|++.+.|..||..|+|..|.
T Consensus 209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~--~g~--~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR--GGM--PVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC--CCc--ceEeecHHHHHHHHHHHHHhhcceec
Confidence 3459999999999999999999999976666666432 333 68999999999999999999998874
No 92
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.40 E-value=1.1e-06 Score=67.86 Aligned_cols=69 Identities=20% Similarity=0.300 Sum_probs=63.7
Q ss_pred CCeEEEcCCCCC-CCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 77 KTRLFVSGLSFR-TSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 77 ~~~l~V~nL~~~-~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+..|.|.||..+ +|.+.|..+|+.||.|.+|+|+.++. --|.|.|.+...|+.|+..|+|..|-|+.||
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lr 366 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLR 366 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCceEE
Confidence 578889999876 99999999999999999999998863 5699999999999999999999999999886
No 93
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.37 E-value=2.2e-07 Score=69.98 Aligned_cols=75 Identities=21% Similarity=0.435 Sum_probs=67.7
Q ss_pred CCCCeEE-EcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLF-VSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~-V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
....++| |++|+..+++++|...|..+|.|..+++..++.+|..+|||||.|.....+..++.. +...+.|++++
T Consensus 182 ~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 257 (285)
T KOG4210|consen 182 GPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLR 257 (285)
T ss_pred CccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccc
Confidence 4455666 999999999999999999999999999999999999999999999999999999987 78888887654
No 94
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.29 E-value=1.7e-06 Score=65.52 Aligned_cols=76 Identities=17% Similarity=0.358 Sum_probs=58.9
Q ss_pred CCCCeEEEcCCCCCCCHHH----H--HHHhccCCCeEEEEEeecCCCC-CCceEE--EEEeCCHHHHHHHHHHhCCceeC
Q 031884 75 QPKTRLFVSGLSFRTSEDS----L--RNAFQGFGQLVEVNLVMDKIAN-RPRGFA--FLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~----l--~~~F~~~G~i~~~~v~~~~~~g-~~kg~a--fV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
....-+||-+|++.+..++ | .++|.+||.|..|.|-+.-.+- ..-+.+ ||+|.+.++|.+||...+|..++
T Consensus 112 vQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~D 191 (480)
T COG5175 112 VQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLD 191 (480)
T ss_pred eecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhcccccc
Confidence 4457899999999866655 2 5899999999999665543111 112333 99999999999999999999999
Q ss_pred CEeCC
Q 031884 146 CFWMA 150 (151)
Q Consensus 146 gr~ir 150 (151)
||-||
T Consensus 192 Gr~lk 196 (480)
T COG5175 192 GRVLK 196 (480)
T ss_pred CceEe
Confidence 99876
No 95
>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=98.28 E-value=2.9e-06 Score=54.78 Aligned_cols=59 Identities=27% Similarity=0.465 Sum_probs=39.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCc
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGK 142 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~ 142 (151)
+.|.+.+++..++.++|++.|+.||.|.-|.+.... -.|||.|.+.++|+.|+..+...
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHT
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHhc
Confidence 568888999999999999999999999999887765 68999999999999999876433
No 96
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.26 E-value=4.9e-06 Score=65.64 Aligned_cols=69 Identities=25% Similarity=0.445 Sum_probs=55.0
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEE-EEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVE-VNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~-~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
.....|-+.+||+.++++||.++|+..=.+.. +-++.++ .|++.|-|||.|++.+.|+.||. -|...|+
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~-rhre~iG 170 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALG-RHRENIG 170 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHH-HHHHhhc
Confidence 45567888999999999999999998744444 4456665 78899999999999999999997 3433343
No 97
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.23 E-value=1e-06 Score=66.98 Aligned_cols=75 Identities=19% Similarity=0.299 Sum_probs=65.6
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCC--CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFG--QLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G--~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
......+|||||-+++|++||.+....-| .+.+++...++.+|.+||||.|...+..+.++.|+-|-.+.|.|+.
T Consensus 77 ~Grk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~ 153 (498)
T KOG4849|consen 77 EGRKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQS 153 (498)
T ss_pred cCceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCC
Confidence 34456899999999999999999888766 5788888899999999999999999999999999988888887753
No 98
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.17 E-value=6.1e-06 Score=46.62 Aligned_cols=52 Identities=23% Similarity=0.538 Sum_probs=42.2
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHH
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAI 136 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al 136 (151)
+.|-|.+.+.+..+.. ...|..||+|..+.+.... .+.+|.|.++.+|++||
T Consensus 2 ~wI~V~Gf~~~~~~~v-l~~F~~fGeI~~~~~~~~~------~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEEV-LEHFASFGEIVDIYVPEST------NWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHHH-HHHHHhcCCEEEEEcCCCC------cEEEEEECCHHHHHhhC
Confidence 4677889998877554 4588899999998876332 78999999999999985
No 99
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.15 E-value=1.4e-06 Score=62.73 Aligned_cols=70 Identities=30% Similarity=0.516 Sum_probs=61.5
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.....+.+.|.+++..+.+.+|.+.|.++|++....+ ..+++||+|...++|.+||..++|..+.|+.|.
T Consensus 95 p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~ 164 (216)
T KOG0106|consen 95 PSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRIS 164 (216)
T ss_pred cccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccchhhcCceee
Confidence 3566788999999999999999999999999954433 238999999999999999999999999999875
No 100
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.11 E-value=1.4e-05 Score=57.39 Aligned_cols=69 Identities=19% Similarity=0.446 Sum_probs=62.0
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
...++...+|+.|||..++.+.|..+|.+|.--.+++++... ++.|||+|.+...|..|...++|..|-
T Consensus 141 ~~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it 209 (221)
T KOG4206|consen 141 QMAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKIT 209 (221)
T ss_pred cCCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceec
Confidence 346778899999999999999999999999999999888754 289999999999999999999998875
No 101
>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=98.06 E-value=1.9e-05 Score=50.41 Aligned_cols=72 Identities=18% Similarity=0.293 Sum_probs=49.0
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecC-------CCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDK-------IANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~-------~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
..+-|.|-+.|+.. ...+-+.|++||.|.+..-.... .......+-.|+|.++.+|.+||. -||..+.|..
T Consensus 5 ~~~wVtVFGfp~~~-~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~ 82 (100)
T PF05172_consen 5 SETWVTVFGFPPSA-SNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSL 82 (100)
T ss_dssp GCCEEEEE---GGG-HHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCE
T ss_pred CCeEEEEEccCHHH-HHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcE
Confidence 44568888999884 46678899999999876411000 011223789999999999999996 9999998865
Q ss_pred C
Q 031884 149 M 149 (151)
Q Consensus 149 i 149 (151)
|
T Consensus 83 m 83 (100)
T PF05172_consen 83 M 83 (100)
T ss_dssp E
T ss_pred E
Confidence 4
No 102
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.04 E-value=2.6e-06 Score=62.14 Aligned_cols=73 Identities=11% Similarity=0.125 Sum_probs=62.7
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCC--------CCCce----EEEEEeCCHHHHHHHHHHhCCce
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIA--------NRPRG----FAFLRYATEEESRRAIEGMHGKV 143 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~--------g~~kg----~afV~f~~~~~a~~Al~~l~g~~ 143 (151)
....||+++||+.+....|+++|+.||.|-+|.+.....+ |.+++ -|.|+|.+...|......|||..
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 5678999999999999999999999999999988776554 33322 46799999999999999999999
Q ss_pred eCCEe
Q 031884 144 CCCFW 148 (151)
Q Consensus 144 ~~gr~ 148 (151)
|+|+.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99874
No 103
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.02 E-value=9.5e-06 Score=65.15 Aligned_cols=70 Identities=20% Similarity=0.426 Sum_probs=58.2
Q ss_pred CCCCeEEEcCCCCCCCH--H----HHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 75 QPKTRLFVSGLSFRTSE--D----SLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te--~----~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
.-...|+|.|+|.--.. + -|..+|+++|+|....++.+..+ ..+||.|++|.+..+|+.|++.+||+.++
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~g-gtkG~lf~E~~~~~~A~~aVK~l~G~~ld 131 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEG-GTKGYLFVEYASMRDAKKAVKSLNGKRLD 131 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccC-CeeeEEEEEecChhhHHHHHHhcccceec
Confidence 45567889999874322 2 35688999999999999888754 49999999999999999999999999885
No 104
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.92 E-value=3.8e-05 Score=61.10 Aligned_cols=66 Identities=21% Similarity=0.390 Sum_probs=61.2
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhc-cCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQ-GFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~-~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~ 137 (151)
..-++.+|||||+||.-++.++|-.+|+ -||-|.-+-|-.|++-+.++|-|=|+|.+..+-.+||.
T Consensus 365 q~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 365 QPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred cccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 3457889999999999999999999999 59999999999998899999999999999999999986
No 105
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.89 E-value=2.5e-05 Score=60.85 Aligned_cols=71 Identities=20% Similarity=0.306 Sum_probs=58.8
Q ss_pred CCCCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeec---CCCCC--C--------ceEEEEEeCCHHHHHHHH
Q 031884 70 SLSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMD---KIANR--P--------RGFAFLRYATEEESRRAI 136 (151)
Q Consensus 70 ~~~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~---~~~g~--~--------kg~afV~f~~~~~a~~Al 136 (151)
......++++|.+.|||.+-.-+.|.++|+.+|.|+.|+|... +.+++ + +-+|+|+|+..+.|.+|.
T Consensus 224 ~~~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~ 303 (484)
T KOG1855|consen 224 FDEEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKAR 303 (484)
T ss_pred ccccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHH
Confidence 3344568899999999999888999999999999999999877 33332 2 458999999999999999
Q ss_pred HHhC
Q 031884 137 EGMH 140 (151)
Q Consensus 137 ~~l~ 140 (151)
+.++
T Consensus 304 e~~~ 307 (484)
T KOG1855|consen 304 ELLN 307 (484)
T ss_pred Hhhc
Confidence 8664
No 106
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.84 E-value=5.2e-05 Score=60.86 Aligned_cols=57 Identities=23% Similarity=0.335 Sum_probs=47.5
Q ss_pred HHHHHhccCCCeEEEEEeecCCC---CCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 93 SLRNAFQGFGQLVEVNLVMDKIA---NRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 93 ~l~~~F~~~G~i~~~~v~~~~~~---g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
+++.-+++||.|.+|.+.++-.+ .-+.|-.||+|.+.+++++|+++|+|.++.||.+
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtV 484 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTV 484 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEE
Confidence 35566778999999999887222 2456889999999999999999999999999875
No 107
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.81 E-value=7.7e-06 Score=68.26 Aligned_cols=94 Identities=21% Similarity=0.303 Sum_probs=79.2
Q ss_pred cCCCCCcccCCcCCCCCCCCCCCC-----CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEE
Q 031884 51 QGRGRGACFPLACLPPSPHSLSTC-----QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLR 125 (151)
Q Consensus 51 ~~r~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~ 125 (151)
.++-++.+++.+..+..+...-.. .....++|.|+|+..|.+.|+.++..+|.+.+++++..+ .|+++|-|||.
T Consensus 705 ~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~ 783 (881)
T KOG0128|consen 705 EKRFRGKAYVEFLKPEHAGAAVAFRDSCFFGKISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVD 783 (881)
T ss_pred ccccccceeeEeecCCchhhhhhhhhhhhhhhhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceecc
Confidence 678889999999888776444222 335689999999999999999999999999999998887 89999999999
Q ss_pred eCCHHHHHHHHHHhCCceeC
Q 031884 126 YATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 126 f~~~~~a~~Al~~l~g~~~~ 145 (151)
|.++.++.++....+...+.
T Consensus 784 y~~ea~~s~~~~s~d~~~~r 803 (881)
T KOG0128|consen 784 YNTEADASRKVASVDVAGKR 803 (881)
T ss_pred CCCcchhhhhcccchhhhhh
Confidence 99999999998776655443
No 108
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.77 E-value=0.00032 Score=54.11 Aligned_cols=73 Identities=21% Similarity=0.224 Sum_probs=65.0
Q ss_pred CCCCCCCeEEEcCCCCC-CCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 72 STCQPKTRLFVSGLSFR-TSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~-~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
....+++.+.|.+|... ++-+.|..+|=.||.|.+|+.++.+. |-|.|++.+..+.++|+..||+..+-|..|
T Consensus 282 ~g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~-----gtamVemgd~~aver~v~hLnn~~lfG~kl 355 (494)
T KOG1456|consen 282 GGGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP-----GTAMVEMGDAYAVERAVTHLNNIPLFGGKL 355 (494)
T ss_pred CCCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc-----ceeEEEcCcHHHHHHHHHHhccCccccceE
Confidence 34577889999999986 77789999999999999999998763 899999999999999999999998877665
No 109
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.75 E-value=0.00015 Score=50.89 Aligned_cols=64 Identities=20% Similarity=0.343 Sum_probs=58.1
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
.....|.|.+||.+.+++||++...+-|.|....+.+| |++.|+|...++.+-|+..|+.+.+.
T Consensus 113 rSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 113 RSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred ccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence 34568999999999999999999999999999999888 79999999999999999999877653
No 110
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.75 E-value=0.0001 Score=56.16 Aligned_cols=74 Identities=18% Similarity=0.361 Sum_probs=58.2
Q ss_pred CCCCCCeEEEcCCCC----CCC-------HHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCC
Q 031884 73 TCQPKTRLFVSGLSF----RTS-------EDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHG 141 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~----~~t-------e~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g 141 (151)
.....++|.+.|+=. ..+ +++|++-.++||+|.+|.|. ++ .+.|.+-|.|.+.+.|..||+.|+|
T Consensus 261 k~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~-d~---hPdGvvtV~f~n~eeA~~ciq~m~G 336 (382)
T KOG1548|consen 261 KARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVY-DR---HPDGVVTVSFRNNEEADQCIQTMDG 336 (382)
T ss_pred cccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEe-cc---CCCceeEEEeCChHHHHHHHHHhcC
Confidence 445677888888743 233 24566778899999999654 32 3569999999999999999999999
Q ss_pred ceeCCEeCC
Q 031884 142 KVCCCFWMA 150 (151)
Q Consensus 142 ~~~~gr~ir 150 (151)
.-++||.|.
T Consensus 337 R~fdgRql~ 345 (382)
T KOG1548|consen 337 RWFDGRQLT 345 (382)
T ss_pred eeecceEEE
Confidence 999999863
No 111
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.75 E-value=3.9e-05 Score=59.18 Aligned_cols=76 Identities=21% Similarity=0.404 Sum_probs=63.6
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCC-eEE--EEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQ-LVE--VNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~-i~~--~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
.......|-+.+||+..+.++|-.+|..|.. |.. |.++.+. .|+..|-|||+|.+.++|..|....+.+..++|.|
T Consensus 276 ~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYi 354 (508)
T KOG1365|consen 276 PTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYI 354 (508)
T ss_pred CCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceE
Confidence 3344667888999999999999999999864 443 6777765 89999999999999999999999998888777655
No 112
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.74 E-value=9e-05 Score=59.01 Aligned_cols=64 Identities=20% Similarity=0.469 Sum_probs=48.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeec-CCCC--CCce---EEEEEeCCHHHHHHHHHHh
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMD-KIAN--RPRG---FAFLRYATEEESRRAIEGM 139 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~-~~~g--~~kg---~afV~f~~~~~a~~Al~~l 139 (151)
.-+++||||+||++++|+.|...|..||.+.- ..... ...+ .++| |+|+.|+++.+++.-|.++
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~~V-dWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQFGSVKV-DWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred ccccceeecCCCccccHHHHHhhcccccceEe-ecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 44689999999999999999999999998643 23211 1111 2466 9999999999988877654
No 113
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.69 E-value=0.00014 Score=60.02 Aligned_cols=72 Identities=15% Similarity=0.216 Sum_probs=62.1
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
+.|-+.|+|++++-+||-++|..|-.+-...+++-.+.|+..|-|-|-|++.+.|.+|...++++.|..|.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V 939 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVV 939 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeE
Confidence 377789999999999999999999776543344445689999999999999999999999999999988765
No 114
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.46 E-value=0.00018 Score=60.80 Aligned_cols=68 Identities=22% Similarity=0.394 Sum_probs=61.1
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCC 146 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~g 146 (151)
.....+.+|+++|..++....|...|..||.|..|.+-... -|++|.|++...|+.|++.|-|..++|
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq------~yayi~yes~~~aq~a~~~~rgap~G~ 518 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQ------PYAYIQYESPPAAQAATHDMRGAPLGG 518 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCC------cceeeecccCccchhhHHHHhcCcCCC
Confidence 45677899999999999999999999999999998775443 799999999999999999999998875
No 115
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.33 E-value=0.00036 Score=54.03 Aligned_cols=58 Identities=28% Similarity=0.369 Sum_probs=47.4
Q ss_pred eEEEcCCCCCCCHHHHHHHhccC----CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGF----GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~----G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~ 137 (151)
.|-+.+||+++++.++.++|.+- |-...|-.+..+ +|+..|-|||.|..+++|+.||.
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~ 224 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALR 224 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHH
Confidence 44558999999999999999742 344556555554 89999999999999999999996
No 116
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=97.28 E-value=0.00033 Score=51.44 Aligned_cols=63 Identities=24% Similarity=0.403 Sum_probs=56.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCC
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHG 141 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g 141 (151)
..|||.||...++-+.|++.|+.||+|....+.-|. .|++.+-++|+|...-.|.+|+..+.-
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~~ 94 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCRE 94 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHhcc
Confidence 789999999999999999999999999887666664 788999999999999999999987743
No 117
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.27 E-value=0.00091 Score=52.20 Aligned_cols=71 Identities=24% Similarity=0.278 Sum_probs=59.2
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCE
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCF 147 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr 147 (151)
..+++.+|...|+|.+++|++|+..|..-|-..+.... -++.+-++.+.+.+.+.|..|+..+++..+++.
T Consensus 410 i~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkf----f~kd~kmal~q~~sveeA~~ali~~hnh~lgen 480 (492)
T KOG1190|consen 410 IFPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKF----FQKDRKMALPQLESVEEAIQALIDLHNHYLGEN 480 (492)
T ss_pred cCCchhheeeccCCcccchhHHHHhhhcCCceEEeeee----cCCCcceeecccCChhHhhhhccccccccCCCC
Confidence 34777899999999999999999999998876554332 344558999999999999999999999888765
No 118
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.26 E-value=8.6e-05 Score=54.36 Aligned_cols=56 Identities=14% Similarity=0.333 Sum_probs=45.7
Q ss_pred HHHHhc-cCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 94 LRNAFQ-GFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 94 l~~~F~-~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+...|+ +||+|+++.|-.+. .-.-.|=+||.|..+++|++|+..|||.-+.|++|.
T Consensus 85 ~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ 141 (260)
T KOG2202|consen 85 VFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIH 141 (260)
T ss_pred HHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcce
Confidence 334444 89999998665443 446679999999999999999999999999999984
No 119
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.22 E-value=0.00036 Score=54.67 Aligned_cols=66 Identities=21% Similarity=0.329 Sum_probs=50.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCce-eCCEeC
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKV-CCCFWM 149 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~-~~gr~i 149 (151)
.++|+|||.+.++..+|+.+|...---.+=.++... ||+||.+.+...|.+|++.++|+. +.|+++
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~------gyafvd~pdq~wa~kaie~~sgk~elqGkr~ 68 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKS------GYAFVDCPDQQWANKAIETLSGKVELQGKRQ 68 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeeec------ceeeccCCchhhhhhhHHhhchhhhhcCcee
Confidence 468999999999999999999765211111222222 999999999999999999998874 556553
No 120
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.21 E-value=0.0022 Score=43.56 Aligned_cols=68 Identities=21% Similarity=0.264 Sum_probs=49.1
Q ss_pred CCCCCeEEEcCCC-----C-CCCH---HHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCcee
Q 031884 74 CQPKTRLFVSGLS-----F-RTSE---DSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVC 144 (151)
Q Consensus 74 ~~~~~~l~V~nL~-----~-~~te---~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~ 144 (151)
+++..+|.|.=+. . ...+ .+|-+.|..||++.-+++..+ .-.|+|.+..+|.+|+. ++|.++
T Consensus 24 GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~~v 94 (146)
T PF08952_consen 24 GPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGIQV 94 (146)
T ss_dssp --TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCSEE
T ss_pred CCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCcEE
Confidence 4566777776554 1 2322 267788999999988877654 47899999999999996 999999
Q ss_pred CCEeCC
Q 031884 145 CCFWMA 150 (151)
Q Consensus 145 ~gr~ir 150 (151)
.|+.|+
T Consensus 95 ~g~~l~ 100 (146)
T PF08952_consen 95 NGRTLK 100 (146)
T ss_dssp TTEEEE
T ss_pred CCEEEE
Confidence 999864
No 121
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.17 E-value=0.0016 Score=48.81 Aligned_cols=59 Identities=12% Similarity=0.183 Sum_probs=47.9
Q ss_pred HHHHHHhccCCCeEEEEEeecCCCCCCc-eEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 92 DSLRNAFQGFGQLVEVNLVMDKIANRPR-GFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 92 ~~l~~~F~~~G~i~~~~v~~~~~~g~~k-g~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+++.+-.++||.|..|-|.-.+...... ---||+|...++|.+|+..|||..++||.++
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~ 360 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVS 360 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeee
Confidence 4567888999999999777765333222 3479999999999999999999999999764
No 122
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.08 E-value=2.9e-05 Score=64.97 Aligned_cols=66 Identities=29% Similarity=0.408 Sum_probs=58.5
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHG 141 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g 141 (151)
...++||.||+..+.+.+|...|..+|.+..+++.....+++.+|+||++|...+++.+|+...++
T Consensus 666 ~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~ 731 (881)
T KOG0128|consen 666 DLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDS 731 (881)
T ss_pred HHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhh
Confidence 346899999999999999999999999999988876667899999999999999999999974433
No 123
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.07 E-value=0.0059 Score=47.35 Aligned_cols=83 Identities=12% Similarity=0.101 Sum_probs=64.5
Q ss_pred cCCCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHhccCCC-eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031884 62 ACLPPSPHSLSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQ-LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (151)
Q Consensus 62 ~~~~~~~~~~~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~-i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~ 140 (151)
|..++.+....-..+++.|..-|.|..+||+.|..+|..-+. -.+++|..-+ +-++ .-|.++|++.++|..||..+|
T Consensus 391 Fssp~qAsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp~k-serS-ssGllEfe~~s~Aveal~~~N 468 (494)
T KOG1456|consen 391 FSSPEQASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFPLK-SERS-SSGLLEFENKSDAVEALMKLN 468 (494)
T ss_pred cCChhHhhcccccCCcceeEEecCCCccCHHHHHHHhhhcCCCcceEEeeccc-cccc-ccceeeeehHHHHHHHHHHhc
Confidence 334444445556788999999999999999999999977543 4566666555 4444 468999999999999999999
Q ss_pred CceeCC
Q 031884 141 GKVCCC 146 (151)
Q Consensus 141 g~~~~g 146 (151)
-..+.+
T Consensus 469 H~pi~~ 474 (494)
T KOG1456|consen 469 HYPIEG 474 (494)
T ss_pred cccccC
Confidence 888765
No 124
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=97.04 E-value=0.00033 Score=53.22 Aligned_cols=75 Identities=20% Similarity=0.341 Sum_probs=58.4
Q ss_pred CCCCeEEEcCCCCCCCHH-HHH--HHhccCCCeEEEEEeecCC----CCCCceEEEEEeCCHHHHHHHHHHhCCceeCCE
Q 031884 75 QPKTRLFVSGLSFRTSED-SLR--NAFQGFGQLVEVNLVMDKI----ANRPRGFAFLRYATEEESRRAIEGMHGKVCCCF 147 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~-~l~--~~F~~~G~i~~~~v~~~~~----~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr 147 (151)
...+.+||-+|+..+..+ .|+ +.|.+||.|.++.+..+.. .|-+ .-++|+|...++|..||...+|..++|+
T Consensus 75 Vqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~-~s~yITy~~~eda~rci~~v~g~~~dg~ 153 (327)
T KOG2068|consen 75 VQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGT-CSVYITYEEEEDADRCIDDVDGFVDDGR 153 (327)
T ss_pred hhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCC-CcccccccchHhhhhHHHHhhhHHhhhh
Confidence 445788999999875444 443 7899999999998877662 2222 2389999999999999999999999988
Q ss_pred eCC
Q 031884 148 WMA 150 (151)
Q Consensus 148 ~ir 150 (151)
.++
T Consensus 154 ~lk 156 (327)
T KOG2068|consen 154 ALK 156 (327)
T ss_pred hhH
Confidence 753
No 125
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.98 E-value=0.0058 Score=35.45 Aligned_cols=56 Identities=16% Similarity=0.302 Sum_probs=45.2
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccC---CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGF---GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM 139 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~---G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l 139 (151)
....|+|.|+.. ++.++++.+|..| .....|..+-|. -|-|.|.+.+.|.+||.+|
T Consensus 4 rpeavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 4 RPEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eeceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 356899999855 6778899999998 235688888874 5889999999999999865
No 126
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=96.95 E-value=0.00055 Score=55.62 Aligned_cols=67 Identities=18% Similarity=0.273 Sum_probs=57.6
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhc-cCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQ-GFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~-~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
....++.|||.||-.-+|.-.|+.++. .+|.|.+.+| | +.|..|||.|.+.++|.....+|||..+-
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--D----kIKShCyV~yss~eEA~atr~AlhnV~WP 507 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--D----KIKSHCYVSYSSVEEAAATREALHNVQWP 507 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHHHH--H----HhhcceeEecccHHHHHHHHHHHhccccC
Confidence 567889999999999999999999998 5777877633 2 34588999999999999999999998763
No 127
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.87 E-value=0.0017 Score=50.52 Aligned_cols=69 Identities=13% Similarity=0.199 Sum_probs=56.3
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCC---CCceEEEEEeCCHHHHHHHHHHhCCceeCCE
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIAN---RPRGFAFLRYATEEESRRAIEGMHGKVCCCF 147 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g---~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr 147 (151)
..|-|.||.+.++.++++.+|.-.|.|.++.|+.....- .....|||.|.+...+..|.+ |.++++-++
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdr 79 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDR 79 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeee
Confidence 388899999999999999999999999999987743221 235689999999999999976 666665444
No 128
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.70 E-value=0.00031 Score=59.33 Aligned_cols=73 Identities=19% Similarity=0.315 Sum_probs=62.6
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
.....+.+||+|||+..+++.+|+..|..+|.|.+|.|-..+ -+..--||||.|.+.+.+..|+..+.+..|.
T Consensus 367 DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~ 439 (975)
T KOG0112|consen 367 DDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIG 439 (975)
T ss_pred cchhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccc
Confidence 345667899999999999999999999999999999887664 3444579999999999999999988887764
No 129
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=96.52 E-value=0.0066 Score=42.79 Aligned_cols=72 Identities=11% Similarity=0.105 Sum_probs=46.1
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhcc-CCCe---EEEEE-eecCCCC-CCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQG-FGQL---VEVNL-VMDKIAN-RPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~-~G~i---~~~~v-~~~~~~g-~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
.....+|.|.+||+++||+++.+.+.. ++.- ..+.- ..+...+ ....-|||.|.+.+++..-...++|..+.
T Consensus 4 ~~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~ 81 (176)
T PF03467_consen 4 EKEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFV 81 (176)
T ss_dssp -----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE
T ss_pred cccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEE
Confidence 345679999999999999999887776 6655 33321 1111122 22467999999999999999999998763
No 130
>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=96.47 E-value=0.024 Score=34.87 Aligned_cols=57 Identities=14% Similarity=0.289 Sum_probs=41.5
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~ 140 (151)
.+..||-=..|...-..||.++|+.||.|.=. .+.| .-|||...+++.|..++..+.
T Consensus 7 ~RdHVFhltFPkeWK~~DI~qlFspfG~I~Vs-Wi~d-------TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 7 SRDHVFHLTFPKEWKTSDIYQLFSPFGQIYVS-WIND-------TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp SGCCEEEEE--TT--HHHHHHHCCCCCCEEEE-EECT-------TEEEEEECCCHHHHHHHHHHT
T ss_pred CcceEEEEeCchHhhhhhHHHHhccCCcEEEE-EEcC-------CcEEEEeecHHHHHHHHHHhc
Confidence 33444444499999999999999999997654 4444 579999999999999998775
No 131
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.37 E-value=0.0038 Score=51.89 Aligned_cols=75 Identities=16% Similarity=0.048 Sum_probs=59.5
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEE-EEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVE-VNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~-~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
......|||..||..+++.++..+|...-.|++ |.|.+.+ +++-++.|||.|..++++..|..--+-..++-|.|
T Consensus 431 ~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~i 506 (944)
T KOG4307|consen 431 GGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRII 506 (944)
T ss_pred CCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEE
Confidence 455679999999999999999999998777766 7777766 88899999999999888888876444444444444
No 132
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=96.16 E-value=0.14 Score=33.22 Aligned_cols=68 Identities=16% Similarity=0.197 Sum_probs=50.9
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCC-CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFG-QLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G-~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
....+.+...|..++-++|..+.+.+- .|..++|++|. ..++=.+.+.|.+.++|..-.+.+||+.+.
T Consensus 12 ~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 12 RSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred CceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 344445566666677778877766654 57788898874 235567899999999999999999999764
No 133
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=95.95 E-value=0.014 Score=44.00 Aligned_cols=62 Identities=16% Similarity=0.228 Sum_probs=47.1
Q ss_pred eEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
=|-|-+.|+... .-+-..|++||+|.+.... ....+-+|.|.++.+|++||. .||+.|+|..
T Consensus 199 WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALs-kng~ii~g~v 260 (350)
T KOG4285|consen 199 WVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALS-KNGTIIDGDV 260 (350)
T ss_pred eEEEeccCccch-hHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhh-hcCeeeccce
Confidence 344557776644 3466889999999886332 223799999999999999996 8999888754
No 134
>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=95.75 E-value=0.031 Score=39.66 Aligned_cols=55 Identities=15% Similarity=0.157 Sum_probs=44.1
Q ss_pred CHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC--CceeCCEeCC
Q 031884 90 SEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH--GKVCCCFWMA 150 (151)
Q Consensus 90 te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~--g~~~~gr~ir 150 (151)
..+.|+++|..++.+.....++.- +-..|.|.+.++|.+|...|+ +..+.|..+|
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~ 64 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLHWDGTSFNGKRLR 64 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-E
T ss_pred hHHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhcccccccCCCceE
Confidence 347899999999999988777665 778999999999999999999 8999988764
No 135
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=95.46 E-value=0.0052 Score=48.88 Aligned_cols=69 Identities=19% Similarity=0.285 Sum_probs=52.9
Q ss_pred CCCCeEEEcCCCCC-CCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 75 QPKTRLFVSGLSFR-TSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 75 ~~~~~l~V~nL~~~-~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.+.+.|-+.-.|.. -+.++|...|.+||.|..|.|-... -.|.|+|.+..+|-.|.. .++..|++|.||
T Consensus 370 ~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~~-s~~avlnnr~iK 439 (526)
T KOG2135|consen 370 VDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAYA-SHGAVLNNRFIK 439 (526)
T ss_pred cccchhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchhc-cccceecCceeE
Confidence 44455666666766 4558999999999999999887664 579999999999977764 677777777664
No 136
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=95.44 E-value=0.028 Score=45.56 Aligned_cols=71 Identities=21% Similarity=0.249 Sum_probs=51.5
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhcc-CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQG-FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~-~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
...+++.|.|++-..|...|...-++ .|.=..+.++.|-.+....|||||.|.+.+++..+.+++||+.+.
T Consensus 386 ~~rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~ 457 (549)
T KOG4660|consen 386 CPRTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWE 457 (549)
T ss_pred CchhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchh
Confidence 34455555566555554444433222 455567788888878888999999999999999999999999764
No 137
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=95.14 E-value=0.02 Score=43.38 Aligned_cols=73 Identities=19% Similarity=0.071 Sum_probs=61.4
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCE
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCF 147 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr 147 (151)
....+.|+|++...+.+.+...++..+|.+....+........++|++++.|...+.+..|+.......+.++
T Consensus 86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~ 158 (285)
T KOG4210|consen 86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGN 158 (285)
T ss_pred cccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccc
Confidence 4578999999999999998899999999888887877777899999999999999999999974433344433
No 138
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.11 E-value=0.12 Score=35.01 Aligned_cols=62 Identities=18% Similarity=0.277 Sum_probs=47.6
Q ss_pred CCCCCCeEEEcCCCCCCCH-HHHH---HHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCC
Q 031884 73 TCQPKTRLFVSGLSFRTSE-DSLR---NAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHG 141 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te-~~l~---~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g 141 (151)
..++-.+|.|.=|..++.. +||+ +..+.||+|.+|.+.. +.-|.|.|.+..+|-+|+.+++.
T Consensus 82 kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG-------rqsavVvF~d~~SAC~Av~Af~s 147 (166)
T PF15023_consen 82 KEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG-------RQSAVVVFKDITSACKAVSAFQS 147 (166)
T ss_pred CCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC-------CceEEEEehhhHHHHHHHHhhcC
Confidence 3567778989888777543 4444 5567899999996632 26799999999999999998865
No 139
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=94.98 E-value=0.033 Score=46.08 Aligned_cols=68 Identities=15% Similarity=0.134 Sum_probs=58.2
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
..-++..++||+|+...+..+-+..+...||.|.++.... |||..|........|+..++-..++|+-
T Consensus 35 ~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~k 102 (668)
T KOG2253|consen 35 QPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQK 102 (668)
T ss_pred cCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcch
Confidence 3456788999999999999999999999999998875543 9999999999999999988777776654
No 140
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=94.81 E-value=0.27 Score=37.16 Aligned_cols=60 Identities=13% Similarity=0.244 Sum_probs=42.5
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCe-EEEEEeecCCCCCCceEEEEEeCCH-------HHHHHHHHHhC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQL-VEVNLVMDKIANRPRGFAFLRYATE-------EESRRAIEGMH 140 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i-~~~~v~~~~~~g~~kg~afV~f~~~-------~~a~~Al~~l~ 140 (151)
.-..-||++||+.++.-.||+..+.+-|.+ .++.... +.|-||+.|.+. +++.+++..+|
T Consensus 328 ~~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg------~~~k~flh~~~~~~~~~~~~~~~~~~~s~~ 395 (396)
T KOG4410|consen 328 GAKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKG------HFGKCFLHFGNRKGVPSTQDDMDKVLKSLN 395 (396)
T ss_pred ccccceeeccCccccchHHHHHHHHhcCCCceeEeeec------CCcceeEecCCccCCCCCchHHHHHhccCC
Confidence 345679999999999999999999887653 3443322 348899999764 45555555443
No 141
>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=94.66 E-value=0.25 Score=29.00 Aligned_cols=53 Identities=11% Similarity=0.347 Sum_probs=41.8
Q ss_pred CCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 88 RTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 88 ~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
.++-++++..+..|+- .+ |..|+ | | =||.|.+..+|++|....+|+.+.+..|
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~--I~~d~-t----G-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m 63 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DR--IRDDR-T----G-FYIVFNDSKEAERCFRAEDGTLFFTYRM 63 (66)
T ss_pred CccHHHHHHHHhcCCc-ce--EEecC-C----E-EEEEECChHHHHHHHHhcCCCEEEEEEE
Confidence 4677899999999954 34 34444 3 4 4899999999999999999999877665
No 142
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=94.04 E-value=0.18 Score=41.32 Aligned_cols=61 Identities=7% Similarity=0.290 Sum_probs=49.8
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhcc--CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQG--FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~--~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~ 140 (151)
.....|.|.+.-||....+++++.+|.. |-.+.+|..-.+. + =||+|++..||+.|.+.|.
T Consensus 171 p~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~------n-WyITfesd~DAQqAykylr 233 (684)
T KOG2591|consen 171 PNHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND------N-WYITFESDTDAQQAYKYLR 233 (684)
T ss_pred cCcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC------c-eEEEeecchhHHHHHHHHH
Confidence 3455677888999999999999999975 7788888776654 2 4899999999999987653
No 143
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=92.68 E-value=0.052 Score=46.31 Aligned_cols=62 Identities=15% Similarity=0.276 Sum_probs=53.7
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
.+.++.|.+-..+...|..+|.+||.|.+.+.+++- ..|.|+|.+.+.|..|+.+++|+++.
T Consensus 299 p~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs 360 (1007)
T KOG4574|consen 299 PKQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDALQGKEVS 360 (1007)
T ss_pred chhhhhcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhhcCCccc
Confidence 455566666777788899999999999999998887 78999999999999999999998763
No 144
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=90.95 E-value=1.9 Score=25.64 Aligned_cols=63 Identities=17% Similarity=0.277 Sum_probs=37.3
Q ss_pred eEEEc-CCCCCCCHHHHHHHhccCCC-----eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 79 RLFVS-GLSFRTSEDSLRNAFQGFGQ-----LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 79 ~l~V~-nL~~~~te~~l~~~F~~~G~-----i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
++||. +=-..++..+|..++..-+. |-.+.|.. .|+||+-... .|..++..|++..+.|+.++
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ 70 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPEE-VAEKVLEALNGKKIKGKKVR 70 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-TT--HHHHHHHHTT--SSS----
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECHH-HHHHHHHHhcCCCCCCeeEE
Confidence 45552 33345888888888877644 55676654 5899998654 78899999999999999875
No 145
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=89.97 E-value=1.9 Score=34.62 Aligned_cols=69 Identities=16% Similarity=0.284 Sum_probs=57.8
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccC-CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGF-GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~-G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
.+++.|+|-.+|-.++-.||-.+...+ -.|..+++++|.. -.+=...|.|.+.++|..-.+.+||+.+.
T Consensus 72 ~~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNGk~Fn 141 (493)
T KOG0804|consen 72 SSSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNGKQFN 141 (493)
T ss_pred CCCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCC--CceEEEEEEeccchhHHHHHHHcCCCcCC
Confidence 348899999999999999999998875 4689999999631 22346799999999999999999998764
No 146
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=89.23 E-value=0.093 Score=38.12 Aligned_cols=85 Identities=20% Similarity=0.229 Sum_probs=66.2
Q ss_pred cccCCcCCCCCCCCC---------CCCCCCCeEEEcC----CCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEE
Q 031884 57 ACFPLACLPPSPHSL---------STCQPKTRLFVSG----LSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAF 123 (151)
Q Consensus 57 ~~~~~~~~~~~~~~~---------~~~~~~~~l~V~n----L~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~af 123 (151)
++++.+..+-+...+ .......+++.|+ |...++++.+.+.|+.-|.+..+++..+. +|+++.++|
T Consensus 51 Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~ 129 (267)
T KOG4454|consen 51 FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGF 129 (267)
T ss_pred eeeeecccccchhhhhhhcccchhccchhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccc
Confidence 566666655543222 2334567888899 88999999999999999999999999997 699999999
Q ss_pred EEeCCHHHHHHHHHHhCCc
Q 031884 124 LRYATEEESRRAIEGMHGK 142 (151)
Q Consensus 124 V~f~~~~~a~~Al~~l~g~ 142 (151)
+++....+.-.++...++.
T Consensus 130 ~~~qr~~~~P~~~~~y~~l 148 (267)
T KOG4454|consen 130 VTYQRLCAVPFALDLYQGL 148 (267)
T ss_pred hhhhhhhcCcHHhhhhccc
Confidence 9998877777777655554
No 147
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=88.00 E-value=2.3 Score=35.24 Aligned_cols=72 Identities=17% Similarity=0.261 Sum_probs=57.7
Q ss_pred CCCCCeEEEcCCCCC-CCHHHHHHHhccC----CCeEEEEEeecC----------CCCC---------------------
Q 031884 74 CQPKTRLFVSGLSFR-TSEDSLRNAFQGF----GQLVEVNLVMDK----------IANR--------------------- 117 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~-~te~~l~~~F~~~----G~i~~~~v~~~~----------~~g~--------------------- 117 (151)
....++|-|.|+.++ +...+|..+|..| |.|.+|.|.... .+|.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 567789999999997 8889999999876 689999875432 1222
Q ss_pred ----------------CceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 118 ----------------PRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 118 ----------------~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
..=||.|+|.+.+.|......++|..+.
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfE 294 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFE 294 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceec
Confidence 0128999999999999999999999875
No 148
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=83.60 E-value=0.15 Score=40.05 Aligned_cols=67 Identities=12% Similarity=0.095 Sum_probs=52.8
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
..-.++++|++|+..+-..++-+.|..+|+|....+. .|-..-+|-+.|....+...|+. ++|..+.
T Consensus 148 eeirRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a----sk~~s~~c~~sf~~qts~~halr-~~gre~k 214 (479)
T KOG4676|consen 148 EEIRRTREVQSLISAAILPESGESFERKGEVSYAHTA----SKSRSSSCSHSFRKQTSSKHALR-SHGRERK 214 (479)
T ss_pred HHHHhhhhhhcchhhhcchhhhhhhhhcchhhhhhhh----ccCCCcchhhhHhhhhhHHHHHH-hcchhhh
Confidence 3445789999999999999999999999998766543 33344677799999989899986 6776554
No 149
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=81.56 E-value=3.5 Score=29.56 Aligned_cols=73 Identities=19% Similarity=0.305 Sum_probs=53.1
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCcee
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVC 144 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~ 144 (151)
........+++++++..++..++...|..+|.+....+...........+.++.+.....+..+.........
T Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 292 (306)
T COG0724 220 LLLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNSRGNKKKI 292 (306)
T ss_pred ccccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhccccceee
Confidence 3456778999999999999999999999999998877766654444555666666555655555554444433
No 150
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.80 E-value=16 Score=29.19 Aligned_cols=67 Identities=12% Similarity=0.102 Sum_probs=51.3
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCC-eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQ-LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~-i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
..-.+.|=|.+.|.....+||-..|+.|+. --+|.++-| -++|-.|.+...|..||. |.-..++=|+
T Consensus 388 ~dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDd-------thalaVFss~~~AaeaLt-~kh~~lKiRp 455 (528)
T KOG4483|consen 388 SDLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDD-------THALAVFSSVNRAAEALT-LKHDWLKIRP 455 (528)
T ss_pred ccccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeec-------ceeEEeecchHHHHHHhh-ccCceEEeee
Confidence 345678889999999999999999999975 356666655 479999999999999997 4333344343
No 151
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=73.26 E-value=4.3 Score=30.82 Aligned_cols=73 Identities=22% Similarity=0.541 Sum_probs=46.8
Q ss_pred CCCCCCCeEEEcCCCCC------------CCHHHHHHHhccCCCeEEEEEee-c----CCCCCC-----ceEE-------
Q 031884 72 STCQPKTRLFVSGLSFR------------TSEDSLRNAFQGFGQLVEVNLVM-D----KIANRP-----RGFA------- 122 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~------------~te~~l~~~F~~~G~i~~~~v~~-~----~~~g~~-----kg~a------- 122 (151)
.++....+||+.+||-. .+++-|+..|+.||.|..|.|+. | .-+|+. +||+
T Consensus 144 kpgerpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlff 223 (445)
T KOG2891|consen 144 KPGERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFF 223 (445)
T ss_pred CCCCCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhH
Confidence 34556678888888732 56778999999999999887643 2 235544 3343
Q ss_pred --EEEeCCHHHHHHHHHHhCCcee
Q 031884 123 --FLRYATEEESRRAIEGMHGKVC 144 (151)
Q Consensus 123 --fV~f~~~~~a~~Al~~l~g~~~ 144 (151)
||.|........||..|.|..+
T Consensus 224 eayvqfmeykgfa~amdalr~~k~ 247 (445)
T KOG2891|consen 224 EAYVQFMEYKGFAQAMDALRGMKL 247 (445)
T ss_pred HHHHHHHHHHhHHHHHHHHhcchH
Confidence 3444444455566666666554
No 152
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=72.65 E-value=10 Score=28.91 Aligned_cols=59 Identities=14% Similarity=0.215 Sum_probs=45.9
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCC-------CCCCceEEEEEeCCHHHHHH
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKI-------ANRPRGFAFLRYATEEESRR 134 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~-------~g~~kg~afV~f~~~~~a~~ 134 (151)
..+.|...|+..+++-..+-.-|.+||+|++|.++.+.. ..+......+-|-+++.+-.
T Consensus 14 rTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLd 79 (309)
T PF10567_consen 14 RTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLD 79 (309)
T ss_pred eeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHH
Confidence 456788899999999999999999999999999988751 22334567788887776544
No 153
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=71.66 E-value=9 Score=25.06 Aligned_cols=46 Identities=22% Similarity=0.341 Sum_probs=27.3
Q ss_pred CCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCC-HHHHHHHHH
Q 031884 89 TSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYAT-EEESRRAIE 137 (151)
Q Consensus 89 ~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~-~~~a~~Al~ 137 (151)
.+.+.|++.|..|..++ +..+.++. -+.|++.|.|.+ -..-..|+.
T Consensus 29 ~~~~~l~~~l~~f~p~k-v~~l~~~~--gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 29 MSNEELLDKLAEFNPLK-VKPLYGKQ--GHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp --SHHHHHHHHH---SE-EEEEEETT--EEEEEEEEE--SSHHHHHHHHH
T ss_pred cCHHHHHHHHHhcCCce-eEECcCCC--CCcEEEEEEECCChHHHHHHHH
Confidence 35578999999998875 55666652 456999999984 455555553
No 154
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=69.22 E-value=15 Score=21.20 Aligned_cols=18 Identities=17% Similarity=0.473 Sum_probs=15.4
Q ss_pred HHHHHHhccCCCeEEEEE
Q 031884 92 DSLRNAFQGFGQLVEVNL 109 (151)
Q Consensus 92 ~~l~~~F~~~G~i~~~~v 109 (151)
.+|+++|+..|+|.-+-+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 579999999999987754
No 155
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=67.79 E-value=26 Score=21.56 Aligned_cols=58 Identities=14% Similarity=0.264 Sum_probs=44.1
Q ss_pred eEEEcCCCCCCCHHHHHHHhcc-CC-CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQG-FG-QLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM 139 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~-~G-~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l 139 (151)
+-|+--++...+..++++.++. || .|.+|..+.-+ ...--|||++...++|......+
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~---~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP---KGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCcEEEEEEeCCCCcHHHHHHhh
Confidence 4566778999999999999988 66 57787776654 23356999999988888775543
No 156
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=60.99 E-value=6.2 Score=24.55 Aligned_cols=26 Identities=27% Similarity=0.415 Sum_probs=22.3
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhc
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQ 99 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~ 99 (151)
....++|.|.|||....+++|++..+
T Consensus 49 ~vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred cccCCEEEEeCCCCCCChhhheeeEE
Confidence 56778999999999999999987644
No 157
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=60.55 E-value=0.3 Score=38.84 Aligned_cols=70 Identities=14% Similarity=0.235 Sum_probs=55.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEe-ecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCE
Q 031884 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLV-MDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCF 147 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~-~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr 147 (151)
...++++-+.|+|+...++.|..+...||.+..+..+ .|.++ -..-|+|...+.++.||..++|..+...
T Consensus 77 kqrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~et----avvnvty~~~~~~~~ai~kl~g~Q~en~ 147 (584)
T KOG2193|consen 77 KQRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSET----AVVNVTYSAQQQHRQAIHKLNGPQLENQ 147 (584)
T ss_pred HHHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHH----HHHHHHHHHHHHHHHHHHhhcchHhhhh
Confidence 3456779999999999999999999999999887553 33322 3445789999999999999999877644
No 158
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=60.38 E-value=26 Score=21.69 Aligned_cols=50 Identities=20% Similarity=0.280 Sum_probs=35.6
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYA 127 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~ 127 (151)
....-+|||+++..+.|.-.+.+.+..+.-.-+-+..+. + ..||+|-+..
T Consensus 23 Ei~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~~-n--eqG~~~~t~G 72 (86)
T PF09707_consen 23 EIRPGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSDN-N--EQGFDFRTLG 72 (86)
T ss_pred ecCCCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEccC-C--CCCEEEEEeC
Confidence 345679999999999988777777766655554444333 2 5699998884
No 159
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=57.80 E-value=20 Score=29.44 Aligned_cols=59 Identities=12% Similarity=0.054 Sum_probs=44.2
Q ss_pred EEcCCCCCCCH---HHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 81 FVSGLSFRTSE---DSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 81 ~V~nL~~~~te---~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
+||||+.-... ..+..+=++||+|-.+++-.. -.|.-.+.+.|+.|+. -|+..+.+|+.
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~~---------~~Vviss~~~akE~l~-~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGSV---------PVVVISSYEAAKEVLV-KQDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecCc---------eEEEECCHHHHHHHHH-hCCccccCCCC
Confidence 48888875443 455566668999998877322 4788899999999997 77888888873
No 160
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=57.38 E-value=4.9 Score=28.47 Aligned_cols=67 Identities=10% Similarity=0.075 Sum_probs=46.4
Q ss_pred CCCCeEEEcCCCCCCCHH-----HHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCE
Q 031884 75 QPKTRLFVSGLSFRTSED-----SLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCF 147 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~-----~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr 147 (151)
.-..++.+.+++..+-.+ ....+|..|-+....++++. .+.--|.|.+.+.|..|...+++..+.|.
T Consensus 8 dlp~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrs------frrvRi~f~~p~~a~~a~i~~~~~~f~~~ 79 (193)
T KOG4019|consen 8 DLPTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRS------FRRVRINFSNPEAAADARIKLHSTSFNGK 79 (193)
T ss_pred cccceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHh------hceeEEeccChhHHHHHHHHhhhcccCCC
Confidence 344567788888764332 23455665555554445443 37778899999999999999999988876
No 161
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=55.64 E-value=44 Score=20.16 Aligned_cols=57 Identities=14% Similarity=0.239 Sum_probs=42.7
Q ss_pred eEEEcCCCCCCCHHHHHHHhcc-CC-CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHH
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQG-FG-QLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEG 138 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~-~G-~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~ 138 (151)
+-|+-.++...+..+++..++. || .|.+|..+.-+ ...--|||++...+.|...-..
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~---~~~KKA~VtL~~g~~a~~va~k 73 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP---RGEKKAYVKLAEEYAAEEIASR 73 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCceEEEEEECCCCcHHHHHHh
Confidence 4677788999999999999988 66 57777666654 2234699999888887766543
No 162
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=55.36 E-value=20 Score=21.81 Aligned_cols=36 Identities=17% Similarity=0.371 Sum_probs=24.5
Q ss_pred CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCce
Q 031884 103 QLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKV 143 (151)
Q Consensus 103 ~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~ 143 (151)
.|.++-.. + ..+||-||+=.+.+++..|+..+.+..
T Consensus 33 ~I~Si~~~-~----~lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 33 NIYSIFAP-D----SLKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp ---EEEE--T----TSTSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred ceEEEEEe-C----CCceEEEEEeCCHHHHHHHHhccccee
Confidence 45665332 2 267999999999999999998776654
No 163
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=49.19 E-value=31 Score=25.93 Aligned_cols=36 Identities=14% Similarity=0.152 Sum_probs=27.4
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeec
Q 031884 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMD 112 (151)
Q Consensus 77 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~ 112 (151)
.....|+|||++++..-+..+++..-.+.+..+|..
T Consensus 95 ~~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M~Q 130 (259)
T COG0030 95 QPYKVVANLPYNISSPILFKLLEEKFIIQDMVLMVQ 130 (259)
T ss_pred CCCEEEEcCCCcccHHHHHHHHhccCccceEEEEeH
Confidence 446669999999999999999887666655555543
No 164
>PRK11901 hypothetical protein; Reviewed
Probab=46.69 E-value=55 Score=25.49 Aligned_cols=62 Identities=23% Similarity=0.345 Sum_probs=40.7
Q ss_pred CCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEE--EeCCHHHHHHHHHHhCCce
Q 031884 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFL--RYATEEESRRAIEGMHGKV 143 (151)
Q Consensus 77 ~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV--~f~~~~~a~~Al~~l~g~~ 143 (151)
..+|=+.. ...++.|+.+..+++ +..+.+..-..+|+. +|..| .|.+.++|+.|+..|-...
T Consensus 245 ~YTLQL~A---as~~~~L~~f~~~~~-L~~~~VYqT~RnGkp-WYVVvyG~Y~Sr~eAk~Ai~sLPa~l 308 (327)
T PRK11901 245 HYTLQLSS---ASRSDTLNAYAKKQN-LSHYHVYETKRDGKP-WYVLVSGNYASSAEAKRAIATLPAEV 308 (327)
T ss_pred CeEEEeec---CCCHHHHHHHHHHcC-cCceEEEEEEECCce-EEEEEecCcCCHHHHHHHHHhCCHHH
Confidence 34554444 445778888887775 344555555445554 55543 6899999999999886544
No 165
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=46.19 E-value=3 Score=34.47 Aligned_cols=71 Identities=11% Similarity=0.120 Sum_probs=53.4
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
...+.+|+.|++++++-.+|..+...+--+..+.+..+........++.|+|.---....|+.+||+..+.
T Consensus 229 hke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~ 299 (648)
T KOG2295|consen 229 HKECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLR 299 (648)
T ss_pred hHHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccc
Confidence 44578999999999999999999998766666655444333345567889998777777777778776554
No 166
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=46.03 E-value=48 Score=20.33 Aligned_cols=26 Identities=12% Similarity=0.282 Sum_probs=19.5
Q ss_pred CeEEEEEeecCCCCCCceEEEEEeCC
Q 031884 103 QLVEVNLVMDKIANRPRGFAFLRYAT 128 (151)
Q Consensus 103 ~i~~~~v~~~~~~g~~kg~afV~f~~ 128 (151)
+|.+++|-.-...|+-+|||=|+|++
T Consensus 2 ~itdVri~~~~~~~~lka~asV~~dd 27 (84)
T PF04026_consen 2 KITDVRIRKIEPEGKLKAFASVTFDD 27 (84)
T ss_dssp -EEEEEEEETTSSSSEEEEEEEEETT
T ss_pred ccEEEEEEEecCCCCEEEEEEEEECC
Confidence 36677777666568888999999876
No 167
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=45.49 E-value=45 Score=21.13 Aligned_cols=51 Identities=18% Similarity=0.160 Sum_probs=33.4
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYAT 128 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~ 128 (151)
....-+|||+++..+.+.-.+.+-+.++.-.-+-+-.+ + .-.||+|-++..
T Consensus 25 Ev~~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~--~-~eqG~~~~t~G~ 75 (97)
T PRK11558 25 EVRAGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWAT--N-TESGFEFQTFGE 75 (97)
T ss_pred ecCCCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcC--C-CCCCcEEEecCC
Confidence 34567999999999988766666666655333323222 2 233999988865
No 168
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=44.08 E-value=51 Score=20.79 Aligned_cols=26 Identities=12% Similarity=0.257 Sum_probs=17.4
Q ss_pred CeEEEEEeecCCCCCCceEEEEEeCC
Q 031884 103 QLVEVNLVMDKIANRPRGFAFLRYAT 128 (151)
Q Consensus 103 ~i~~~~v~~~~~~g~~kg~afV~f~~ 128 (151)
+|.+|+|-.-...|+-++||-|+|++
T Consensus 2 ~ITdVri~~~~~~g~lka~asit~dd 27 (94)
T PRK13259 2 EVTDVRLRKVNTEGRMKAIVSITFDN 27 (94)
T ss_pred eEEEEEEEEeCCCCcEEEEEEEEECC
Confidence 35666665554467778888888766
No 169
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=43.34 E-value=34 Score=20.01 Aligned_cols=29 Identities=3% Similarity=0.078 Sum_probs=23.1
Q ss_pred eEEEEEeCCHHHHHHHHHHhCCceeCCEe
Q 031884 120 GFAFLRYATEEESRRAIEGMHGKVCCCFW 148 (151)
Q Consensus 120 g~afV~f~~~~~a~~Al~~l~g~~~~gr~ 148 (151)
.+.+|.|.+..+|-+|-+.|....+.++-
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi~~~l 30 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGIPVRL 30 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCCcEEE
Confidence 46899999999999998888776665543
No 170
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=43.18 E-value=16 Score=25.96 Aligned_cols=56 Identities=14% Similarity=0.170 Sum_probs=35.8
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhc-cCCCeEEEEEeecCCCC--CCceEEEEEeCCHHHHHHHHH
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQ-GFGQLVEVNLVMDKIAN--RPRGFAFLRYATEEESRRAIE 137 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~-~~G~i~~~~v~~~~~~g--~~kg~afV~f~~~~~a~~Al~ 137 (151)
..+++|.. .|++.|..+.. .-|.+..+.+-.. ..+ ..+|--||+|.+.+.|.+.+.
T Consensus 110 ~~r~v~~K-----~td~ql~~l~qw~~~k~~nv~mr~~-~~k~~~fkGsvkv~f~tk~qa~a~~~ 168 (205)
T KOG4213|consen 110 KERTVYKK-----ITDDQLDDLNQWASGKGHNVKMRRH-GNKAHPFKGSVKVTFQTKEQAFANDD 168 (205)
T ss_pred HHhhhhcc-----CCHHHHHHHHHHhcccceEeecccc-CCCCCCCCCceEEEeecHHHHHhhhh
Confidence 34566665 44444443321 1178888755433 244 457999999999999998775
No 171
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=42.13 E-value=13 Score=29.61 Aligned_cols=64 Identities=16% Similarity=0.226 Sum_probs=51.5
Q ss_pred CCCCCeEEEcCCCCCCCHH--------HHHHHhcc--CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031884 74 CQPKTRLFVSGLSFRTSED--------SLRNAFQG--FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~--------~l~~~F~~--~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~ 137 (151)
....+.+|+.+.......+ ++...|.. .+++.-+..-++.....++|--|++|.....+++++.
T Consensus 171 ~~~qr~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 171 SQMQRDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhHhhhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 3445678888887765555 89999999 6778888887777677888999999999999999874
No 172
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=38.85 E-value=27 Score=25.96 Aligned_cols=35 Identities=20% Similarity=0.426 Sum_probs=29.8
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEE
Q 031884 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEV 107 (151)
Q Consensus 73 ~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~ 107 (151)
......++|+-|+|...+++.|..+.+.+|-+..+
T Consensus 36 ~~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 36 NSNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred ccccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 35677899999999999999999999998865544
No 173
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=37.37 E-value=33 Score=21.31 Aligned_cols=51 Identities=20% Similarity=0.292 Sum_probs=30.9
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhcc-CCCeEEEEEeecCCCCCCceEEEEEeCC
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQG-FGQLVEVNLVMDKIANRPRGFAFLRYAT 128 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~-~G~i~~~~v~~~~~~g~~kg~afV~f~~ 128 (151)
....-+|||+++..+.+.-...+-+. .+.- .+-+... +..-.||.|-++..
T Consensus 23 Ev~~GVyVg~~s~rVRe~lW~~v~~~~~~~G-~avm~~~--~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 23 EPRAGVYVGGVSASVRERIWDYLAQHCPPKG-SLVITWS--SNTCPGFEFFTLGE 74 (87)
T ss_pred ecCCCcEEcCCCHHHHHHHHHHHHHhCCCCc-cEEEEEe--CCCCCCcEEEecCC
Confidence 34567999999998887655555444 2332 2222222 22344899988765
No 174
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=36.81 E-value=1.9e+02 Score=23.87 Aligned_cols=62 Identities=13% Similarity=0.132 Sum_probs=40.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHhc----cCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQ----GFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~----~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~ 140 (151)
..+-++.-..+.+..+|..+|- .+|-|.++.+-..+ ........++.|.+.++|..|+..+.
T Consensus 190 ~i~~~~~~~~~~~g~dl~~l~~Gs~GtlGIIt~atlkl~p-~p~~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 190 EALTLGSDALDSPGFDLLALFTGSEGMLGVVTEVTVKLLP-KPPVARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred cEEEeCCccCCCCccchHhhhccCCCccEEEEEEEEEEEc-CCcceEEEEEECCCHHHHHHHHHHHH
Confidence 3344443222233456777765 57788888776655 33445677899999999999988753
No 175
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=36.62 E-value=29 Score=17.75 Aligned_cols=16 Identities=31% Similarity=0.534 Sum_probs=9.9
Q ss_pred CCCCHHHHHHHhccCC
Q 031884 87 FRTSEDSLRNAFQGFG 102 (151)
Q Consensus 87 ~~~te~~l~~~F~~~G 102 (151)
.++++++|++.|.+.+
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 3578899999998754
No 176
>COG5584 Predicted small secreted protein [Function unknown]
Probab=34.68 E-value=49 Score=20.98 Aligned_cols=31 Identities=16% Similarity=0.233 Sum_probs=23.7
Q ss_pred CCCCCCCHHHHHHHhccCCCeEEEEEeecCC
Q 031884 84 GLSFRTSEDSLRNAFQGFGQLVEVNLVMDKI 114 (151)
Q Consensus 84 nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~ 114 (151)
|++.+.--+-+++.|+++|+|.-..|...++
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~pe 59 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEPE 59 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEecc
Confidence 4555555567889999999999888877764
No 177
>COG0445 GidA Flavin-dependent tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA [Cell cycle control, cell division, chromosome partitioning]
Probab=34.26 E-value=1e+02 Score=26.10 Aligned_cols=49 Identities=18% Similarity=0.331 Sum_probs=36.1
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCC
Q 031884 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYAT 128 (151)
Q Consensus 72 ~~~~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~ 128 (151)
+...+...+|+.+|+.++.++--.++...---.+.+.|++. ||| |+|+-
T Consensus 296 PEGl~~~evY~nGlSTSlP~dVQ~~~irsipGlEna~i~rp-------gYA-IEYD~ 344 (621)
T COG0445 296 PEGLDTDEVYPNGLSTSLPEDVQEQIIRSIPGLENAEILRP-------GYA-IEYDY 344 (621)
T ss_pred CCCCCCceEecCcccccCCHHHHHHHHHhCcccccceeecc-------cee-eeecc
Confidence 44567789999999999998877777766655667766654 777 66653
No 178
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=34.20 E-value=32 Score=19.21 Aligned_cols=11 Identities=36% Similarity=0.830 Sum_probs=8.4
Q ss_pred CceEEEEEeCC
Q 031884 118 PRGFAFLRYAT 128 (151)
Q Consensus 118 ~kg~afV~f~~ 128 (151)
.+|||||..++
T Consensus 7 ~~GfGFv~~~~ 17 (58)
T PF08206_consen 7 PKGFGFVIPDD 17 (58)
T ss_dssp SSS-EEEEECT
T ss_pred cCCCEEEEECC
Confidence 45999999986
No 179
>COG2088 SpoVG Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]
Probab=33.66 E-value=72 Score=19.83 Aligned_cols=27 Identities=11% Similarity=0.257 Sum_probs=21.4
Q ss_pred CeEEEEEeecCCCCCCceEEEEEeCCH
Q 031884 103 QLVEVNLVMDKIANRPRGFAFLRYATE 129 (151)
Q Consensus 103 ~i~~~~v~~~~~~g~~kg~afV~f~~~ 129 (151)
+|.+++|-+-...|+.+.|+-|+|++.
T Consensus 2 ~iTdVRirkv~~dgrmkA~vsvT~D~e 28 (95)
T COG2088 2 EITDVRIRKVDTDGRMKAYVSVTLDNE 28 (95)
T ss_pred cceeEEEEEecCCCcEEEEEEEEecce
Confidence 467788877777788899999999763
No 180
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=31.00 E-value=44 Score=24.84 Aligned_cols=31 Identities=26% Similarity=0.429 Sum_probs=23.9
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhc--cCCCeEE
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQ--GFGQLVE 106 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~--~~G~i~~ 106 (151)
...-++|||||++++..-|..++. .||.+.-
T Consensus 96 ~~~~~vv~NlPy~is~~il~~ll~~~~~g~~~~ 128 (262)
T PF00398_consen 96 NQPLLVVGNLPYNISSPILRKLLELYRFGRVRM 128 (262)
T ss_dssp SSEEEEEEEETGTGHHHHHHHHHHHGGGCEEEE
T ss_pred CCceEEEEEecccchHHHHHHHhhcccccccce
Confidence 456788999999999999998887 3554433
No 181
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=30.85 E-value=12 Score=29.30 Aligned_cols=47 Identities=13% Similarity=0.182 Sum_probs=34.6
Q ss_pred HHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCc
Q 031884 92 DSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGK 142 (151)
Q Consensus 92 ~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~ 142 (151)
..+.+...+.|.|..-.+.+-- +.|.|||..-.+++++++++.+.+.
T Consensus 276 p~iF~~i~~~G~v~~~EM~rtF----NmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 276 PPIFKWLQKAGNVEREEMYRTF----NMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred cHHHHHHHHhcCCCHHHHHHHh----cCccceEEEEcHHHHHHHHHHHHhc
Confidence 4566677778877654333322 3489999999999999999998875
No 182
>smart00738 NGN In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold. In Spt5p, this domain may confer affinity for Spt4p.Spt4p
Probab=30.45 E-value=72 Score=19.72 Aligned_cols=23 Identities=35% Similarity=0.580 Sum_probs=18.8
Q ss_pred eEEEEEeCCHHHHHHHHHHhCCc
Q 031884 120 GFAFLRYATEEESRRAIEGMHGK 142 (151)
Q Consensus 120 g~afV~f~~~~~a~~Al~~l~g~ 142 (151)
||-||.+...+....++..+.|.
T Consensus 60 GYvFv~~~~~~~~~~~i~~~~~v 82 (106)
T smart00738 60 GYIFVEADLEDEVWTAIRGTPGV 82 (106)
T ss_pred CEEEEEEEeCCcHHHHHhcCCCc
Confidence 99999998777777888777764
No 183
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=30.23 E-value=87 Score=22.53 Aligned_cols=53 Identities=23% Similarity=0.286 Sum_probs=36.3
Q ss_pred CHHHHHHHhccCCC---eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeC
Q 031884 90 SEDSLRNAFQGFGQ---LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCC 145 (151)
Q Consensus 90 te~~l~~~F~~~G~---i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~ 145 (151)
+.+++++.....|. |...++.. .|+.|+=+...-.+.++|..+.+.|-|..+.
T Consensus 26 s~eea~~~~~~l~~~~~VvKaQvl~---GgRGK~GgVk~~~s~~ea~~~a~~mlg~~l~ 81 (202)
T PF08442_consen 26 SPEEAREAAKELGGKPLVVKAQVLA---GGRGKAGGVKIAKSPEEAKEAAKEMLGKTLK 81 (202)
T ss_dssp SHHHHHHHHHHHTTSSEEEEE-SSS---STTTTTTCEEEESSHHHHHHHHHTTTTSEEE
T ss_pred CHHHHHHHHHHhCCCcEEEEEeEee---cCcccCCceeecCCHHHHHHHHHHHhCCceE
Confidence 56777777766553 55655643 4566664444456899999999999999887
No 184
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=30.04 E-value=1.5e+02 Score=18.82 Aligned_cols=46 Identities=20% Similarity=0.357 Sum_probs=25.0
Q ss_pred CCCHHHHHHHhcc-CCCeEEEEEeec----CCCCCCceEEEEEeCCHHHHHH
Q 031884 88 RTSEDSLRNAFQG-FGQLVEVNLVMD----KIANRPRGFAFLRYATEEESRR 134 (151)
Q Consensus 88 ~~te~~l~~~F~~-~G~i~~~~v~~~----~~~g~~kg~afV~f~~~~~a~~ 134 (151)
..+..+|++-... |+.=.+.-++.. -..|++.|||.| |++.+.|.+
T Consensus 30 tpsr~eirekLa~~~~~~~~~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~kk 80 (99)
T PRK01178 30 TPSRKDVRKKLAAMLNADKELVVVRKIKTEYGMGKSKGYAKV-YDDKERARK 80 (99)
T ss_pred CCCHHHHHHHHHHHHCcCCCEEEEEccCccCCCceEEEEEEE-ECCHHHHHh
Confidence 4566777765544 554333323322 224466777765 667666654
No 185
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=29.79 E-value=97 Score=24.66 Aligned_cols=68 Identities=13% Similarity=0.189 Sum_probs=45.8
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCC-eEEEEEeecCCCC---CCceEEEEEeCCHHHHHHHHHHhCCcee
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQ-LVEVNLVMDKIAN---RPRGFAFLRYATEEESRRAIEGMHGKVC 144 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~-i~~~~v~~~~~~g---~~kg~afV~f~~~~~a~~Al~~l~g~~~ 144 (151)
.-..+.|.+||...++.+|.+-..++-. +.-...... ..+ .-.+.+||.|...++...-...++|..+
T Consensus 6 ~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a-~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 6 AKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKA-DESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred cceeeeeecCCCcccHHHHhhhcCCCccccchheeccc-cccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 3457788999999999988877666422 111111110 011 1247899999999998888888888876
No 186
>TIGR01743 purR_Bsub pur operon repressor, Bacillus subtilis type. This model represents the puring operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.
Probab=29.77 E-value=1.6e+02 Score=22.32 Aligned_cols=40 Identities=20% Similarity=0.517 Sum_probs=32.5
Q ss_pred HHHHHhccC--CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh
Q 031884 93 SLRNAFQGF--GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM 139 (151)
Q Consensus 93 ~l~~~F~~~--G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l 139 (151)
-+++.|++. |.+..+ .|.+.|.-|+-+-+.+.|+..+..|
T Consensus 44 i~~~~~~~~~~g~~~t~-------~ga~ggv~~~p~~~~~~~~~~~~~l 85 (268)
T TIGR01743 44 IIKETFEKFGIGKLLTV-------PGAAGGVKYIPKMSQAEAEEFVEEL 85 (268)
T ss_pred HHHHHHHhcCCceEEEe-------CCCCCCeEEEeCCCHHHHHHHHHHH
Confidence 468999875 556554 6788899999999999999988765
No 187
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=29.77 E-value=1.7e+02 Score=19.36 Aligned_cols=45 Identities=16% Similarity=0.335 Sum_probs=26.8
Q ss_pred CCCHHHHHHHhcc-CCCeEEE----EEeecCCCCCCceEEEEEeCCHHHHH
Q 031884 88 RTSEDSLRNAFQG-FGQLVEV----NLVMDKIANRPRGFAFLRYATEEESR 133 (151)
Q Consensus 88 ~~te~~l~~~F~~-~G~i~~~----~v~~~~~~g~~kg~afV~f~~~~~a~ 133 (151)
.++.++|++-.++ |-.-.++ .+-..-.+|++.|||.| |++.+.|.
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~ak 83 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAK 83 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHH
Confidence 4677777776655 4322222 23333457788899976 66666655
No 188
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.39 E-value=1.9e+02 Score=19.92 Aligned_cols=55 Identities=18% Similarity=0.236 Sum_probs=38.8
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccC---CCeEEEEEeecCC---------CCCCce-EEEEEeCCHH
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGF---GQLVEVNLVMDKI---------ANRPRG-FAFLRYATEE 130 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~---G~i~~~~v~~~~~---------~g~~kg-~afV~f~~~~ 130 (151)
+..+||+.-++..++|++.++..++= +++.++.+-+..+ +...++ |-+|.|++-.
T Consensus 86 d~~KI~~k~asqGISe~~a~~~i~kE~~~~e~~~V~Lg~e~~~PiWEV~y~dkeg~~s~~~vdFetG~ 153 (161)
T COG5353 86 DDGKIYSKKASQGISEEDARAIISKEKAVKEIKSVTLGREKEKPIWEVTYLDKEGRLSFYYVDFETGK 153 (161)
T ss_pred CCCeEEEEehhcCCCHHHHHHHHhhhccccceeEEEEEeeCCceeEEEeecCccCcceEEEEEeccch
Confidence 33799999999999999999988764 5666666544432 112234 8888888754
No 189
>PHA01632 hypothetical protein
Probab=29.30 E-value=55 Score=18.48 Aligned_cols=20 Identities=15% Similarity=0.418 Sum_probs=16.2
Q ss_pred EEcCCCCCCCHHHHHHHhcc
Q 031884 81 FVSGLSFRTSEDSLRNAFQG 100 (151)
Q Consensus 81 ~V~nL~~~~te~~l~~~F~~ 100 (151)
.|..+|...||++|+..+.+
T Consensus 20 lieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 20 LIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred ehhhcCCCCCHHHHHHHHHH
Confidence 34789999999999977653
No 190
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=29.15 E-value=27 Score=26.28 Aligned_cols=74 Identities=20% Similarity=0.159 Sum_probs=55.5
Q ss_pred CCCeEEEcCCCCCCCHHH-H--HHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 76 PKTRLFVSGLSFRTSEDS-L--RNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~-l--~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
.--..+++++-..+..+- | ...|+.+-......+++++ -+...+++|+.|...+...++...-++++++-+++|
T Consensus 95 ~vf~p~~~~~g~~v~pep~lp~~~~f~~~p~L~ktk~v~~~-p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR 171 (290)
T KOG0226|consen 95 AVFRPFQSNAGATVNPEPPLPLPVVFSEYPSLVKTKLVRDR-PQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVR 171 (290)
T ss_pred ccccccccccccccCCCCCCcchhhhccchhhhhhhhhhcC-CCccCcccccCcchhhhhhhhccccccccccCccee
Confidence 334666777766665554 3 6788888778888888887 677889999999998888888877777777665443
No 191
>PRK09213 pur operon repressor; Provisional
Probab=28.87 E-value=1.6e+02 Score=22.40 Aligned_cols=41 Identities=24% Similarity=0.455 Sum_probs=33.0
Q ss_pred HHHHHhccC--CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031884 93 SLRNAFQGF--GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (151)
Q Consensus 93 ~l~~~F~~~--G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~ 140 (151)
-+++.|++. |.|..+ .|...|.-||-+-+.+.|+..+..|-
T Consensus 46 i~~~~~~~~~~g~~~t~-------~ga~ggv~~~p~~~~~~a~~~~~~L~ 88 (271)
T PRK09213 46 IIKETFEKQGIGTLETV-------PGAAGGVKYIPSISEEEAREFVEELC 88 (271)
T ss_pred HHHHHHHhcCCceEEEe-------CCCCCCeEEEcCCCHHHHHHHHHHHH
Confidence 468999875 556554 67888999999999999999987663
No 192
>PRK15464 cold shock-like protein CspH; Provisional
Probab=28.58 E-value=31 Score=20.34 Aligned_cols=10 Identities=20% Similarity=0.301 Sum_probs=8.0
Q ss_pred ceEEEEEeCC
Q 031884 119 RGFAFLRYAT 128 (151)
Q Consensus 119 kg~afV~f~~ 128 (151)
||||||+=.+
T Consensus 16 KGfGFI~~~~ 25 (70)
T PRK15464 16 SGKGFIIPSD 25 (70)
T ss_pred CCeEEEccCC
Confidence 5999997765
No 193
>KOG3003 consensus Molecular chaperone of the GrpE family [Posttranslational modification, protein turnover, chaperones]
Probab=28.41 E-value=1.4e+02 Score=22.10 Aligned_cols=50 Identities=16% Similarity=0.031 Sum_probs=32.1
Q ss_pred CCHHHHHHHhccCCCeEEE------------EEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 89 TSEDSLRNAFQGFGQLVEV------------NLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 89 ~te~~l~~~F~~~G~i~~~------------~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
+|+..|.+.|.++|-+.-- .+..-+..++..|..+..+ -.|+.+.||.||
T Consensus 162 mte~ql~~vf~KhGLekldPigekFDPn~HEAvfq~p~~~k~pgtV~~v~------------k~Gy~L~~R~IR 223 (236)
T KOG3003|consen 162 MTEAQLKEVFAKHGLEKLDPIGEKFDPNEHEAVFQVPDAAKEPGTVALVT------------KKGYKLNGRVIR 223 (236)
T ss_pred HHHHHHHHHHHHcCceecCCCCCCCCcchhheeEeccccCCCCCeEEEEe------------ccCcccCCeeec
Confidence 4899999999999976421 1111122345556666655 467788888876
No 194
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=28.30 E-value=99 Score=16.21 Aligned_cols=30 Identities=13% Similarity=0.246 Sum_probs=21.7
Q ss_pred ecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031884 111 MDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (151)
Q Consensus 111 ~~~~~g~~kg~afV~f~~~~~a~~Al~~l~ 140 (151)
.++.+|+.+-.----|.+..+|+.++..+.
T Consensus 9 ~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~ 38 (46)
T PF14657_consen 9 YDDETGKRKQKTKRGFKTKKEAEKALAKIE 38 (46)
T ss_pred EECCCCCEEEEEcCCCCcHHHHHHHHHHHH
Confidence 555678766555555899999999987653
No 195
>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=27.67 E-value=99 Score=16.56 Aligned_cols=27 Identities=15% Similarity=0.256 Sum_probs=21.6
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCe
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQL 104 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i 104 (151)
..+|+.+.....+.++|.++...+|--
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 467777776678889999999998873
No 196
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=27.14 E-value=2e+02 Score=19.34 Aligned_cols=46 Identities=9% Similarity=0.230 Sum_probs=25.4
Q ss_pred CCCHHHHHHHhcc-CC-CeEEEEE----eecCCCCCCceEEEEEeCCHHHHHH
Q 031884 88 RTSEDSLRNAFQG-FG-QLVEVNL----VMDKIANRPRGFAFLRYATEEESRR 134 (151)
Q Consensus 88 ~~te~~l~~~F~~-~G-~i~~~~v----~~~~~~g~~kg~afV~f~~~~~a~~ 134 (151)
..+..+|++-... |+ .=.++.+ ...-..|++.|||.| |++.+.|..
T Consensus 35 TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~I-Yds~e~~kk 86 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLI-YDNLAALKK 86 (132)
T ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEE-ECCHHHHHh
Confidence 4667778776655 55 2222222 222234567788866 666666543
No 197
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=26.85 E-value=1e+02 Score=17.91 Aligned_cols=33 Identities=24% Similarity=0.331 Sum_probs=22.8
Q ss_pred CHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEE
Q 031884 90 SEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFL 124 (151)
Q Consensus 90 te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV 124 (151)
-+.+|+..|-+--+|.++.+.-.+.-++ |-|||
T Consensus 31 ~e~eler~fl~~P~v~e~~l~EKKri~~--G~gyV 63 (64)
T PF13046_consen 31 VEVELERHFLPLPEVKEVALYEKKRIRK--GAGYV 63 (64)
T ss_pred HHHHhhhhccCCCCceEEEEEEEEeeeC--CceeE
Confidence 3456788888888899998877664444 44554
No 198
>PRK15463 cold shock-like protein CspF; Provisional
Probab=26.74 E-value=36 Score=19.99 Aligned_cols=10 Identities=10% Similarity=0.208 Sum_probs=8.1
Q ss_pred ceEEEEEeCC
Q 031884 119 RGFAFLRYAT 128 (151)
Q Consensus 119 kg~afV~f~~ 128 (151)
||||||+=.+
T Consensus 16 kGfGFI~~~~ 25 (70)
T PRK15463 16 SGKGLITPSD 25 (70)
T ss_pred CceEEEecCC
Confidence 5999998755
No 199
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=26.59 E-value=38 Score=20.20 Aligned_cols=11 Identities=27% Similarity=0.621 Sum_probs=8.0
Q ss_pred CceEEEEEeCC
Q 031884 118 PRGFAFLRYAT 128 (151)
Q Consensus 118 ~kg~afV~f~~ 128 (151)
.||||||+=.+
T Consensus 12 ~KGfGFI~~~~ 22 (74)
T PRK09937 12 AKGFGFICPEG 22 (74)
T ss_pred CCCeEEEeeCC
Confidence 35999997654
No 200
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=26.43 E-value=1e+02 Score=19.30 Aligned_cols=48 Identities=21% Similarity=0.187 Sum_probs=28.7
Q ss_pred eEEEcCCCCCCCHHHH---HHHhccCCCeEEEEE--eecCCCCCCceEEEEEe
Q 031884 79 RLFVSGLSFRTSEDSL---RNAFQGFGQLVEVNL--VMDKIANRPRGFAFLRY 126 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l---~~~F~~~G~i~~~~v--~~~~~~g~~kg~afV~f 126 (151)
..|+.+||.++.+.++ +..+..++.-..+.. ......+.+.|++.+.+
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~ 64 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLV 64 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEE
Confidence 4688999999888765 455556654444433 22334566777776554
No 201
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=25.38 E-value=92 Score=23.77 Aligned_cols=29 Identities=7% Similarity=0.033 Sum_probs=21.3
Q ss_pred eEEEcCCCCCCCHHHHHHHhccCCCeEEE
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEV 107 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~G~i~~~ 107 (151)
.+.|+|||+.++...+..+++....+...
T Consensus 103 d~VvaNlPY~Istpil~~ll~~~~~~~~~ 131 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAHRPLFRCA 131 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhcCCCCcee
Confidence 47789999999998888887653334333
No 202
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=25.16 E-value=38 Score=19.76 Aligned_cols=10 Identities=30% Similarity=0.776 Sum_probs=8.0
Q ss_pred ceEEEEEeCC
Q 031884 119 RGFAFLRYAT 128 (151)
Q Consensus 119 kg~afV~f~~ 128 (151)
||||||+=.+
T Consensus 15 kGyGFI~~~~ 24 (69)
T PRK09507 15 KGFGFITPED 24 (69)
T ss_pred CCcEEEecCC
Confidence 5999998655
No 203
>PF00054 Laminin_G_1: Laminin G domain; InterPro: IPR012679 Laminins are large heterotrimeric glycoproteins involved in basement membrane function []. The laminin globular (G) domain can be found in one to several copies in various laminin family members, which includes a large number of extracellular proteins. The C terminus of laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity []. Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation []. The structure of the laminin-G domain has been predicted to resemble that of pentraxin []. Laminin G domains can vary in their function, and a variety of binding functions has been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each has five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan []. Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. This entry represents one subtype of laminin G domains, which is sometimes found in association with thrombospondin-type laminin G domains (IPR012680 from INTERPRO).; PDB: 1OKQ_A 1DYK_A 2C5D_A 1H30_A 1LHW_A 1KDK_A 1LHU_A 1KDM_A 1LHO_A 1D2S_A ....
Probab=25.10 E-value=16 Score=23.97 Aligned_cols=12 Identities=33% Similarity=0.598 Sum_probs=9.4
Q ss_pred CCCCeEEEcCCC
Q 031884 75 QPKTRLFVSGLS 86 (151)
Q Consensus 75 ~~~~~l~V~nL~ 86 (151)
.....||||++|
T Consensus 90 ~~~~~lyvGG~p 101 (131)
T PF00054_consen 90 DVDGPLYVGGLP 101 (131)
T ss_dssp EECSEEEESSSS
T ss_pred ccccCEEEccCC
Confidence 344569999999
No 204
>PRK14998 cold shock-like protein CspD; Provisional
Probab=25.01 E-value=42 Score=19.93 Aligned_cols=11 Identities=27% Similarity=0.621 Sum_probs=8.3
Q ss_pred CceEEEEEeCC
Q 031884 118 PRGFAFLRYAT 128 (151)
Q Consensus 118 ~kg~afV~f~~ 128 (151)
.||||||.=.+
T Consensus 12 ~kGfGFI~~~~ 22 (73)
T PRK14998 12 AKGFGFICPEG 22 (73)
T ss_pred CCceEEEecCC
Confidence 35999997654
No 205
>smart00457 MACPF membrane-attack complex / perforin.
Probab=24.99 E-value=62 Score=22.80 Aligned_cols=28 Identities=11% Similarity=0.254 Sum_probs=21.8
Q ss_pred EcCCCCCCCHHHHHHHhccCCC--eEEEEE
Q 031884 82 VSGLSFRTSEDSLRNAFQGFGQ--LVEVNL 109 (151)
Q Consensus 82 V~nL~~~~te~~l~~~F~~~G~--i~~~~v 109 (151)
+.+||...+......+|+.||. |.++.+
T Consensus 30 l~~Lp~~~~~~~~~~fi~~yGTH~i~s~~~ 59 (194)
T smart00457 30 LRDLPDQYNRGAYARFIDKYGTHYITSATL 59 (194)
T ss_pred HHhCccccCHHHHHHHHHHhCCeEEEeeee
Confidence 4578888888899999999997 555533
No 206
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=24.94 E-value=80 Score=18.69 Aligned_cols=38 Identities=8% Similarity=0.297 Sum_probs=28.0
Q ss_pred HHHHHHhccCC-CeEEEEEeecCCCCCCceEEEEEeCCH
Q 031884 92 DSLRNAFQGFG-QLVEVNLVMDKIANRPRGFAFLRYATE 129 (151)
Q Consensus 92 ~~l~~~F~~~G-~i~~~~v~~~~~~g~~kg~afV~f~~~ 129 (151)
+++++.|...| ++..+..+..+.++.....=+|+....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~ 40 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPA 40 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeec
Confidence 35777888887 688888888876666667777777654
No 207
>PF11249 DUF3047: Protein of unknown function (DUF3047); InterPro: IPR021409 This bacterial family of proteins has no known function.
Probab=24.80 E-value=2.1e+02 Score=20.21 Aligned_cols=33 Identities=21% Similarity=0.248 Sum_probs=24.0
Q ss_pred HHHHHHhcc-CCCeEEEEEeecCCCCCCceEEEE
Q 031884 92 DSLRNAFQG-FGQLVEVNLVMDKIANRPRGFAFL 124 (151)
Q Consensus 92 ~~l~~~F~~-~G~i~~~~v~~~~~~g~~kg~afV 124 (151)
+|.+.+|.. .+.|..|.|+.|..+.+.++-|++
T Consensus 145 ~Dy~~~FG~~p~~i~~vai~tDsDnT~~~a~A~y 178 (183)
T PF11249_consen 145 ADYRRAFGEEPPRIVGVAIMTDSDNTGGSARAYY 178 (183)
T ss_pred HHHHHHhCCCCCceeEEEEEEEcCCCCCEEEEEE
Confidence 467777754 778999999999776666555543
No 208
>PRK10943 cold shock-like protein CspC; Provisional
Probab=24.68 E-value=39 Score=19.75 Aligned_cols=10 Identities=40% Similarity=0.856 Sum_probs=8.0
Q ss_pred ceEEEEEeCC
Q 031884 119 RGFAFLRYAT 128 (151)
Q Consensus 119 kg~afV~f~~ 128 (151)
||||||+=.+
T Consensus 15 kGfGFI~~~~ 24 (69)
T PRK10943 15 KGFGFITPAD 24 (69)
T ss_pred CCcEEEecCC
Confidence 5999998654
No 209
>PF15063 TC1: Thyroid cancer protein 1
Probab=24.67 E-value=45 Score=20.11 Aligned_cols=29 Identities=17% Similarity=0.165 Sum_probs=24.0
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHhccCCCe
Q 031884 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQL 104 (151)
Q Consensus 76 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i 104 (151)
..++--+.|+=.+++...|+.+|..-|.-
T Consensus 24 ~~RKkasaNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 24 ASRKKASANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred HHhhhhhhhhhhccCHHHHHHHHHHccch
Confidence 33445578999999999999999999874
No 210
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=24.66 E-value=1e+02 Score=22.98 Aligned_cols=22 Identities=14% Similarity=0.187 Sum_probs=18.6
Q ss_pred eEEEcCCCCCCCHHHHHHHhcc
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQG 100 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~ 100 (151)
.+.|+|+|+.++..-|..+...
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 5779999999998888888754
No 211
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=24.60 E-value=1.5e+02 Score=17.13 Aligned_cols=42 Identities=19% Similarity=0.316 Sum_probs=28.3
Q ss_pred HHHHHHhccCCCeEEEEEeecCCCCCC-ceEEEEEeCCHHHHHHHHHHh
Q 031884 92 DSLRNAFQGFGQLVEVNLVMDKIANRP-RGFAFLRYATEEESRRAIEGM 139 (151)
Q Consensus 92 ~~l~~~F~~~G~i~~~~v~~~~~~g~~-kg~afV~f~~~~~a~~Al~~l 139 (151)
.++.+....+| +.-..+ +|.+ .++.|+.+.+.+.++++.+.+
T Consensus 37 ~~~~~~~~~~G-a~~~~~-----sGsG~G~~v~~l~~~~~~~~~v~~~l 79 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKM-----SGSGGGPTVFALCKDEDDAERVAEAL 79 (85)
T ss_dssp HHHHHHHHHTT-ESEEEE-----ETTSSSSEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceec-----CCCCCCCeEEEEECCHHHHHHHHHHH
Confidence 45667778888 444434 2321 278888888999988888765
No 212
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=24.51 E-value=1.1e+02 Score=22.40 Aligned_cols=25 Identities=16% Similarity=0.068 Sum_probs=20.7
Q ss_pred eEEEcCCCCCCCHHHHHHHhccCCC
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGFGQ 103 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~G~ 103 (151)
-+.|+|||+.++..-+..++..+|.
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~~ 120 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPKF 120 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCCC
Confidence 4778999999999999999874443
No 213
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.39 E-value=45 Score=27.16 Aligned_cols=59 Identities=5% Similarity=-0.126 Sum_probs=44.0
Q ss_pred CeEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~ 137 (151)
.+.|+..++-..+++++.-+|+.||-|.-+.+...-+.|-.+-.+||+-.. +++..+++
T Consensus 4 ~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~ 62 (572)
T KOG4365|consen 4 MKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQ 62 (572)
T ss_pred hhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccC
Confidence 345677888889999999999999999988777766666677788887643 33444443
No 214
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=24.24 E-value=1.3e+02 Score=16.35 Aligned_cols=54 Identities=17% Similarity=0.271 Sum_probs=39.9
Q ss_pred eEEEcCCCCCCCHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCH----HHHHHHHHH
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATE----EESRRAIEG 138 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~----~~a~~Al~~ 138 (151)
++.|.|+.=.--...++..+...-.|.++.+-... +-.-|.|... ++..++|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~------~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLET------KTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTT------TEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCC------CEEEEEEecCCCCHHHHHHHHHH
Confidence 45666777666778899999998888998886665 7788888743 566666654
No 215
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=24.12 E-value=1e+02 Score=19.70 Aligned_cols=21 Identities=19% Similarity=0.349 Sum_probs=17.5
Q ss_pred ceEEEEEeCCHHHHHHHHHHh
Q 031884 119 RGFAFLRYATEEESRRAIEGM 139 (151)
Q Consensus 119 kg~afV~f~~~~~a~~Al~~l 139 (151)
--|+.++|.++++..+|...+
T Consensus 66 VvFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 66 VVFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEEEcCchhHHHHHHHHh
Confidence 358999999999998888754
No 216
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=23.81 E-value=46 Score=19.31 Aligned_cols=11 Identities=27% Similarity=0.621 Sum_probs=8.6
Q ss_pred CceEEEEEeCC
Q 031884 118 PRGFAFLRYAT 128 (151)
Q Consensus 118 ~kg~afV~f~~ 128 (151)
.||||||.=.+
T Consensus 12 ~kGfGFI~~~~ 22 (68)
T TIGR02381 12 AKGFGFICPEG 22 (68)
T ss_pred CCCeEEEecCC
Confidence 35999998765
No 217
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=23.65 E-value=1e+02 Score=17.95 Aligned_cols=40 Identities=8% Similarity=0.331 Sum_probs=30.1
Q ss_pred HHHHHHhccCC-CeEEEEEeecCCCCCCceEEEEEeCCHHH
Q 031884 92 DSLRNAFQGFG-QLVEVNLVMDKIANRPRGFAFLRYATEEE 131 (151)
Q Consensus 92 ~~l~~~F~~~G-~i~~~~v~~~~~~g~~kg~afV~f~~~~~ 131 (151)
+++++.|...| +|..+.-+..+.++.....-||+.....+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~ 42 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPN 42 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCcc
Confidence 45677777777 68888888887677777888888876644
No 218
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=23.59 E-value=99 Score=21.05 Aligned_cols=35 Identities=11% Similarity=0.237 Sum_probs=26.7
Q ss_pred eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCce
Q 031884 104 LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKV 143 (151)
Q Consensus 104 i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~ 143 (151)
|.++.++.. ..||-||+....+++..++..+.+..
T Consensus 36 i~~i~vp~~-----fpGYVfVe~~~~~~~~~~i~~v~~v~ 70 (153)
T PRK08559 36 IYAILAPPE-----LKGYVLVEAESKGAVEEAIRGIPHVR 70 (153)
T ss_pred EEEEEccCC-----CCcEEEEEEEChHHHHHHHhcCCCEe
Confidence 666655443 46999999998899999998877643
No 219
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=23.49 E-value=3e+02 Score=21.91 Aligned_cols=52 Identities=10% Similarity=-0.012 Sum_probs=39.2
Q ss_pred CHHHHHHHhccCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCceeCCEeC
Q 031884 90 SEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVCCCFWM 149 (151)
Q Consensus 90 te~~l~~~F~~~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~~gr~i 149 (151)
+-++|+..|+.-.-+..++--.+. -|+.|..+-..+.-|...+|..+.|.+|
T Consensus 263 ~Y~~Le~HF~~~hy~ct~qtc~~~--------k~~vf~~~~el~~h~~~~h~~~~~~~~~ 314 (493)
T COG5236 263 SYEDLEAHFRNAHYCCTFQTCRVG--------KCYVFPYHTELLEHLTRFHKVNARLSEI 314 (493)
T ss_pred CHHHHHHHhhcCceEEEEEEEecC--------cEEEeccHHHHHHHHHHHhhcccccCcC
Confidence 346788888876556655554442 5788999999999998999999888765
No 220
>PRK09890 cold shock protein CspG; Provisional
Probab=23.35 E-value=44 Score=19.59 Aligned_cols=10 Identities=30% Similarity=0.766 Sum_probs=8.1
Q ss_pred ceEEEEEeCC
Q 031884 119 RGFAFLRYAT 128 (151)
Q Consensus 119 kg~afV~f~~ 128 (151)
||||||+=.+
T Consensus 16 kGfGFI~~~~ 25 (70)
T PRK09890 16 KGFGFITPDD 25 (70)
T ss_pred CCcEEEecCC
Confidence 5999998764
No 221
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=23.00 E-value=3.9e+02 Score=21.29 Aligned_cols=53 Identities=17% Similarity=0.177 Sum_probs=36.8
Q ss_pred CCCCHHHHHHHhcc----CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031884 87 FRTSEDSLRNAFQG----FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (151)
Q Consensus 87 ~~~te~~l~~~F~~----~G~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~ 140 (151)
.+....+|..+|.. +|-|.++.+-..+ ....+....+.|.+.++|.+|+..+.
T Consensus 142 ~~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p-~p~~~~~~~~~f~~~~~~~~~~~~~~ 198 (413)
T TIGR00387 142 KDVAGYDLTGLFVGSEGTLGIVTEATLKLLP-KPENIVVALAFFDSIEKAMQAVYDII 198 (413)
T ss_pred CCCCCCChhhhcccCCccceEEEEEEEEeec-CCCccEEEEEECCCHHHHHHHHHHHH
Confidence 34444567777743 6778888776655 34455677889999999999986553
No 222
>PF09180 ProRS-C_1: Prolyl-tRNA synthetase, C-terminal; InterPro: IPR016061 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Prolyl tRNA synthetase (6.1.1.15 from EC) exists in two forms, which are loosely related. The first form is present in the majority of eubacteria species. The second one, present in some eubacteria, is essentially present in archaea and eukaryota. Prolyl-tRNA synthetase belongs to class IIa. This domain is found at the C-terminal in archaeal and eukaryotic enzymes, as well as in certain bacterial ones.; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1NJ6_A 1NJ2_A 1NJ5_A 1NJ1_A 1H4T_C 1H4S_A 1HC7_C 1H4Q_B 3IAL_B.
Probab=22.60 E-value=1.4e+02 Score=17.24 Aligned_cols=31 Identities=23% Similarity=0.477 Sum_probs=24.9
Q ss_pred eEEEEEeCCHHHHHHHHHHhCCceeCCEeCC
Q 031884 120 GFAFLRYATEEESRRAIEGMHGKVCCCFWMA 150 (151)
Q Consensus 120 g~afV~f~~~~~a~~Al~~l~g~~~~gr~ir 150 (151)
|++.+-|...++.+..|+..-|..+.|-++.
T Consensus 12 g~v~~pwcg~~ece~~ike~t~at~rciP~~ 42 (68)
T PF09180_consen 12 GFVLVPWCGDEECEEKIKEETGATIRCIPFD 42 (68)
T ss_dssp SEEEEEES-SHHHHHHHHHHHS-EEEEEETT
T ss_pred CEEEEEccCCHHHHHHHHHhcCCcEeEeEcc
Confidence 7999999999999999999988888777653
No 223
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=22.44 E-value=46 Score=19.42 Aligned_cols=10 Identities=30% Similarity=0.766 Sum_probs=7.8
Q ss_pred ceEEEEEeCC
Q 031884 119 RGFAFLRYAT 128 (151)
Q Consensus 119 kg~afV~f~~ 128 (151)
+|||||.=.+
T Consensus 16 kGfGFI~~~~ 25 (70)
T PRK10354 16 KGFGFITPDD 25 (70)
T ss_pred CCcEEEecCC
Confidence 5999998654
No 224
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=22.20 E-value=2.7e+02 Score=19.07 Aligned_cols=55 Identities=15% Similarity=0.298 Sum_probs=39.7
Q ss_pred CeEEEcCCCCCCCHHHHHHHhcc-CC-CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHH
Q 031884 78 TRLFVSGLSFRTSEDSLRNAFQG-FG-QLVEVNLVMDKIANRPRGFAFLRYATEEESRRA 135 (151)
Q Consensus 78 ~~l~V~nL~~~~te~~l~~~F~~-~G-~i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~A 135 (151)
.+-|+--++...+..++++.++. |+ .|..|..+.-+ .| .--|||.+....+|...
T Consensus 82 ~N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p-~g--~KKA~V~L~~~~~aidv 138 (145)
T PTZ00191 82 NNTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITP-DG--LKKAYIRLSPDVDALDV 138 (145)
T ss_pred CCEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcC-CC--ceEEEEEECCCCcHHHH
Confidence 35667778999999999999988 65 46777666654 22 24689999776665443
No 225
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=21.76 E-value=1.6e+02 Score=19.97 Aligned_cols=23 Identities=17% Similarity=0.128 Sum_probs=19.0
Q ss_pred eEEEcCCCCCCCHHHHHHHhccC
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQGF 101 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~~ 101 (151)
-+.++|+|+.++.+.+..+++..
T Consensus 79 d~vi~n~Py~~~~~~i~~~l~~~ 101 (169)
T smart00650 79 YKVVGNLPYNISTPILFKLLEEP 101 (169)
T ss_pred CEEEECCCcccHHHHHHHHHhcC
Confidence 46689999999988888887653
No 226
>PF15407 Spo7_2_N: Sporulation protein family 7
Probab=21.43 E-value=64 Score=18.91 Aligned_cols=20 Identities=15% Similarity=0.170 Sum_probs=15.7
Q ss_pred CCCCCeEEEcCCCCCCCHHH
Q 031884 74 CQPKTRLFVSGLSFRTSEDS 93 (151)
Q Consensus 74 ~~~~~~l~V~nL~~~~te~~ 93 (151)
...++.+|||++|...-++.
T Consensus 24 s~tSr~vflG~IP~~W~~~~ 43 (67)
T PF15407_consen 24 SLTSRRVFLGPIPEIWLQDH 43 (67)
T ss_pred HHcCceEEECCCChHHHHcC
Confidence 46788999999998765554
No 227
>PF14893 PNMA: PNMA
Probab=21.24 E-value=74 Score=24.90 Aligned_cols=26 Identities=27% Similarity=0.475 Sum_probs=21.3
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHhcc
Q 031884 75 QPKTRLFVSGLSFRTSEDSLRNAFQG 100 (151)
Q Consensus 75 ~~~~~l~V~nL~~~~te~~l~~~F~~ 100 (151)
...+.|.|.+||.+++++++++....
T Consensus 16 ~~~r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 16 DPQRALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred ChhhhheeecCCCCCCHHHHHHHHHH
Confidence 45678889999999999998877643
No 228
>PRK14046 malate--CoA ligase subunit beta; Provisional
Probab=21.22 E-value=4e+02 Score=21.25 Aligned_cols=52 Identities=21% Similarity=0.263 Sum_probs=33.5
Q ss_pred CHHHHHHHhccCCC---eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCcee
Q 031884 90 SEDSLRNAFQGFGQ---LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKVC 144 (151)
Q Consensus 90 te~~l~~~F~~~G~---i~~~~v~~~~~~g~~kg~afV~f~~~~~a~~Al~~l~g~~~ 144 (151)
+.++.....+..|. +..+.+... .-|+..|..+. .+.+++..|.+.|-+..+
T Consensus 27 ~~~ea~~~a~~lg~p~~VvK~qv~~g-~Rgk~GGV~l~--~~~~e~~~a~~~ll~~~~ 81 (392)
T PRK14046 27 SPEQAVYRARELGGWHWVVKAQIHSG-ARGKAGGIKLC--RTYNEVRDAAEDLLGKKL 81 (392)
T ss_pred CHHHHHHHHHHcCCCcEEEEeeeccC-CCCcCCeEEEE--CCHHHHHHHHHHHhcchh
Confidence 56677777777664 455444322 23444455555 599999999998887754
No 229
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=20.25 E-value=84 Score=17.69 Aligned_cols=11 Identities=18% Similarity=0.652 Sum_probs=8.7
Q ss_pred ceEEEEEeCCH
Q 031884 119 RGFAFLRYATE 129 (151)
Q Consensus 119 kg~afV~f~~~ 129 (151)
+|||||+-.+.
T Consensus 12 kgyGFI~~~~~ 22 (66)
T PF00313_consen 12 KGYGFITSDDG 22 (66)
T ss_dssp TTEEEEEETTS
T ss_pred CCceEEEEccc
Confidence 49999998753
No 230
>PF09341 Pcc1: Transcription factor Pcc1; InterPro: IPR015419 Pcc1 is a proposed transcription factor involved in the expression of genes regulated by alpha-factor and galactose; component of the EKC/KEOPS protein complex with Kae1, Gon7, Bud32, and Cgi121; related to human cancer-testis antigens [].; PDB: 2BNR_C 2P5W_C 3KLA_C 2F54_C 2P5E_C 2F53_C 3ENO_E 3ENC_B.
Probab=20.15 E-value=1.9e+02 Score=16.92 Aligned_cols=20 Identities=10% Similarity=0.095 Sum_probs=15.6
Q ss_pred eEEEEEeCCHHHHHHHHHHh
Q 031884 120 GFAFLRYATEEESRRAIEGM 139 (151)
Q Consensus 120 g~afV~f~~~~~a~~Al~~l 139 (151)
.-.-|.|.+++.|+.+++.+
T Consensus 3 ~~l~i~f~s~~~A~ii~~sL 22 (76)
T PF09341_consen 3 FTLEIPFESEEKAEIIYRSL 22 (76)
T ss_dssp EEEEEE-SSHHHHHHHHHHH
T ss_pred EEEEEEeCCHHHHHHHHHHh
Confidence 45678999999999998765
No 231
>COG0002 ArgC Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=20.13 E-value=2.6e+02 Score=22.14 Aligned_cols=32 Identities=16% Similarity=0.238 Sum_probs=22.3
Q ss_pred eEEEcCCCCCCCHHHHHHHhcc-CCCeEEEEEee
Q 031884 79 RLFVSGLSFRTSEDSLRNAFQG-FGQLVEVNLVM 111 (151)
Q Consensus 79 ~l~V~nL~~~~te~~l~~~F~~-~G~i~~~~v~~ 111 (151)
++++ .|...++.++|+++|.+ |..-..|+|..
T Consensus 248 Ti~~-~l~~~~t~~~i~~~y~~~Y~~epfVrv~~ 280 (349)
T COG0002 248 TIYL-KLKDLVTLEELHAAYEEFYAGEPFVRVVP 280 (349)
T ss_pred EEEE-ecCCCCCHHHHHHHHHHHhCCCCeEEEec
Confidence 4443 46666999999999987 55555666655
Done!