Query 031988
Match_columns 149
No_of_seqs 169 out of 2230
Neff 9.1
Searched_HMMs 46136
Date Fri Mar 29 08:05:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031988.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031988hhsearch_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 99.8 9.4E-20 2E-24 124.7 11.0 77 73-149 30-106 (144)
2 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 2E-18 4.4E-23 133.3 10.5 74 76-149 268-341 (352)
3 PF00076 RRM_1: RNA recognitio 99.8 1.5E-18 3.2E-23 104.1 7.4 69 80-149 1-69 (70)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 3.6E-18 7.8E-23 131.9 9.2 74 76-149 2-75 (352)
5 TIGR01659 sex-lethal sex-letha 99.7 8.9E-18 1.9E-22 129.6 10.2 77 73-149 103-179 (346)
6 KOG0149 Predicted RNA-binding 99.7 4.3E-18 9.4E-23 121.8 7.6 72 75-147 10-81 (247)
7 TIGR01659 sex-lethal sex-letha 99.7 8.8E-18 1.9E-22 129.6 7.2 98 50-147 144-263 (346)
8 PF14259 RRM_6: RNA recognitio 99.7 6.1E-17 1.3E-21 97.5 7.1 69 80-149 1-69 (70)
9 KOG0121 Nuclear cap-binding pr 99.7 5.1E-17 1.1E-21 106.5 6.5 76 74-149 33-108 (153)
10 TIGR01645 half-pint poly-U bin 99.7 1E-16 2.2E-21 130.5 9.2 76 74-149 104-179 (612)
11 TIGR01645 half-pint poly-U bin 99.7 2.1E-16 4.6E-21 128.6 9.3 74 76-149 203-276 (612)
12 KOG0122 Translation initiation 99.7 1.7E-16 3.7E-21 114.2 7.6 75 74-148 186-260 (270)
13 KOG0113 U1 small nuclear ribon 99.7 4.1E-16 9E-21 115.0 8.9 85 64-148 88-172 (335)
14 TIGR01648 hnRNP-R-Q heterogene 99.7 6.9E-16 1.5E-20 125.2 10.9 71 74-145 55-125 (578)
15 TIGR01622 SF-CC1 splicing fact 99.7 4.2E-16 9.1E-21 124.4 9.2 73 77-149 186-258 (457)
16 TIGR01622 SF-CC1 splicing fact 99.7 1.7E-15 3.8E-20 120.8 12.1 75 74-149 86-160 (457)
17 PLN03120 nucleic acid binding 99.6 7.7E-16 1.7E-20 113.1 9.0 69 77-149 4-72 (260)
18 KOG0148 Apoptosis-promoting RN 99.6 2.9E-16 6.3E-21 114.5 6.6 71 72-148 159-229 (321)
19 KOG0148 Apoptosis-promoting RN 99.6 5.4E-16 1.2E-20 113.1 7.9 73 77-149 62-134 (321)
20 KOG0125 Ataxin 2-binding prote 99.6 5.6E-16 1.2E-20 115.6 7.5 75 73-149 92-166 (376)
21 TIGR01642 U2AF_lg U2 snRNP aux 99.6 1.4E-15 3E-20 122.8 10.3 75 75-149 293-367 (509)
22 PLN03121 nucleic acid binding 99.6 1.7E-15 3.8E-20 109.7 8.9 70 76-149 4-73 (243)
23 TIGR01628 PABP-1234 polyadenyl 99.6 2E-15 4.4E-20 123.4 9.4 71 79-149 2-72 (562)
24 KOG0124 Polypyrimidine tract-b 99.6 1.4E-16 3.1E-21 120.5 1.9 140 1-149 110-282 (544)
25 KOG0147 Transcriptional coacti 99.6 3.5E-16 7.5E-21 123.2 3.5 112 38-149 191-350 (549)
26 KOG4207 Predicted splicing fac 99.6 1.7E-15 3.8E-20 106.8 6.3 76 74-149 10-85 (256)
27 smart00362 RRM_2 RNA recogniti 99.6 7.2E-15 1.6E-19 87.4 8.2 68 79-148 1-68 (72)
28 KOG0117 Heterogeneous nuclear 99.6 7.2E-15 1.6E-19 113.5 9.8 80 66-145 72-151 (506)
29 TIGR01628 PABP-1234 polyadenyl 99.6 7.3E-15 1.6E-19 120.1 9.8 74 75-149 283-356 (562)
30 PLN03213 repressor of silencin 99.6 6.9E-15 1.5E-19 115.2 8.9 72 74-149 7-80 (759)
31 smart00360 RRM RNA recognition 99.6 1.1E-14 2.5E-19 86.2 7.8 68 82-149 1-68 (71)
32 KOG0126 Predicted RNA-binding 99.6 1.2E-16 2.7E-21 110.4 -1.1 74 76-149 34-107 (219)
33 KOG0107 Alternative splicing f 99.6 4.9E-15 1.1E-19 101.9 6.7 67 76-147 9-75 (195)
34 KOG0114 Predicted RNA-binding 99.6 1.6E-14 3.5E-19 91.5 7.5 73 74-149 15-87 (124)
35 KOG0111 Cyclophilin-type pepti 99.6 1.1E-15 2.4E-20 108.8 2.4 76 74-149 7-82 (298)
36 KOG0124 Polypyrimidine tract-b 99.6 3.9E-15 8.4E-20 112.8 5.0 72 78-149 114-185 (544)
37 KOG0130 RNA-binding protein RB 99.5 1E-14 2.2E-19 96.6 5.9 77 73-149 68-144 (170)
38 COG0724 RNA-binding proteins ( 99.5 6.4E-14 1.4E-18 102.9 10.7 73 77-149 115-187 (306)
39 KOG0145 RNA-binding protein EL 99.5 5.2E-14 1.1E-18 102.6 9.3 78 72-149 273-350 (360)
40 KOG0144 RNA-binding protein CU 99.5 4.5E-14 9.7E-19 108.8 8.6 70 74-143 31-100 (510)
41 KOG0108 mRNA cleavage and poly 99.5 3.2E-14 6.9E-19 111.9 7.4 72 78-149 19-90 (435)
42 KOG0131 Splicing factor 3b, su 99.5 2.8E-14 6E-19 98.8 5.1 75 75-149 7-81 (203)
43 KOG0144 RNA-binding protein CU 99.5 5.2E-15 1.1E-19 113.9 1.2 67 76-143 123-189 (510)
44 cd00590 RRM RRM (RNA recogniti 99.5 3E-13 6.6E-18 80.7 8.7 69 79-148 1-69 (74)
45 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 2.3E-13 5E-18 109.6 10.3 71 74-149 272-343 (481)
46 smart00361 RRM_1 RNA recogniti 99.5 1.3E-13 2.9E-18 83.1 6.8 59 91-149 2-67 (70)
47 KOG0145 RNA-binding protein EL 99.5 2.1E-13 4.6E-18 99.4 8.3 76 73-148 37-112 (360)
48 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 3E-13 6.5E-18 108.9 8.5 68 76-149 1-70 (481)
49 TIGR01648 hnRNP-R-Q heterogene 99.4 6.1E-13 1.3E-17 108.2 8.6 66 76-149 232-299 (578)
50 KOG0146 RNA-binding protein ET 99.4 3.4E-13 7.3E-18 98.7 6.2 78 72-149 280-357 (371)
51 KOG0415 Predicted peptidyl pro 99.4 7.2E-13 1.6E-17 100.2 6.0 78 72-149 234-311 (479)
52 KOG0127 Nucleolar protein fibr 99.4 1.6E-12 3.5E-17 102.8 7.9 75 74-149 114-188 (678)
53 KOG4208 Nucleolar RNA-binding 99.4 1.9E-12 4.1E-17 91.4 7.3 77 73-149 45-122 (214)
54 KOG0117 Heterogeneous nuclear 99.4 4.5E-13 9.8E-18 103.7 4.0 64 78-149 260-323 (506)
55 KOG0105 Alternative splicing f 99.4 1.5E-12 3.3E-17 90.6 5.7 73 74-149 3-75 (241)
56 KOG4212 RNA-binding protein hn 99.3 9.6E-12 2.1E-16 96.4 9.1 74 75-149 42-116 (608)
57 KOG0127 Nucleolar protein fibr 99.3 5E-12 1.1E-16 100.2 7.1 73 77-149 5-77 (678)
58 TIGR01642 U2AF_lg U2 snRNP aux 99.3 1.1E-11 2.3E-16 100.3 9.0 70 73-149 171-252 (509)
59 KOG0131 Splicing factor 3b, su 99.3 3.6E-12 7.7E-17 88.4 5.3 77 73-149 92-169 (203)
60 KOG0109 RNA-binding protein LA 99.3 2.1E-12 4.5E-17 95.4 3.7 63 78-148 3-65 (346)
61 KOG0123 Polyadenylate-binding 99.3 1.2E-11 2.7E-16 96.2 7.8 70 77-149 76-145 (369)
62 PF13893 RRM_5: RNA recognitio 99.3 1.5E-11 3.3E-16 70.7 5.6 51 94-149 1-51 (56)
63 KOG0226 RNA-binding proteins [ 99.2 4.9E-11 1.1E-15 86.7 8.1 82 68-149 181-262 (290)
64 KOG0146 RNA-binding protein ET 99.2 2.2E-11 4.7E-16 89.3 6.1 69 74-143 16-84 (371)
65 KOG4661 Hsp27-ERE-TATA-binding 99.2 1.1E-10 2.3E-15 93.3 8.5 76 74-149 402-477 (940)
66 KOG0132 RNA polymerase II C-te 99.2 1.8E-10 3.8E-15 94.5 9.6 69 74-148 418-486 (894)
67 KOG4206 Spliceosomal protein s 99.2 2.4E-10 5.2E-15 81.8 8.4 71 75-148 7-81 (221)
68 KOG4205 RNA-binding protein mu 99.1 9.4E-11 2E-15 89.0 5.3 62 76-137 5-66 (311)
69 KOG4205 RNA-binding protein mu 99.1 1.8E-10 3.9E-15 87.5 5.6 94 51-145 44-164 (311)
70 KOG0533 RRM motif-containing p 99.0 9.3E-10 2E-14 80.7 7.8 74 74-148 80-153 (243)
71 KOG0110 RNA-binding protein (R 99.0 3.1E-10 6.6E-15 92.3 5.1 73 77-149 613-685 (725)
72 KOG0123 Polyadenylate-binding 99.0 1E-09 2.2E-14 85.6 7.7 75 74-149 267-341 (369)
73 KOG4212 RNA-binding protein hn 99.0 1.5E-09 3.2E-14 84.5 7.5 73 72-149 531-603 (608)
74 KOG0110 RNA-binding protein (R 99.0 1E-09 2.3E-14 89.3 6.4 70 79-149 517-590 (725)
75 KOG0109 RNA-binding protein LA 99.0 5.8E-10 1.3E-14 82.6 4.3 68 74-149 75-142 (346)
76 KOG4209 Splicing factor RNPS1, 98.9 1.7E-09 3.8E-14 79.2 5.6 76 73-149 97-172 (231)
77 KOG0153 Predicted RNA-binding 98.9 3.4E-09 7.4E-14 80.2 6.3 69 72-146 223-292 (377)
78 KOG4660 Protein Mei2, essentia 98.9 2E-09 4.3E-14 85.7 5.2 72 73-149 71-142 (549)
79 KOG0116 RasGAP SH3 binding pro 98.9 5.8E-09 1.3E-13 82.1 7.4 71 76-147 287-357 (419)
80 KOG4454 RNA binding protein (R 98.9 1.2E-09 2.6E-14 78.1 3.1 73 74-148 6-78 (267)
81 PF04059 RRM_2: RNA recognitio 98.8 4.3E-08 9.4E-13 62.4 8.9 68 78-145 2-71 (97)
82 KOG0106 Alternative splicing f 98.8 6E-09 1.3E-13 75.1 3.2 61 79-147 3-63 (216)
83 KOG0151 Predicted splicing reg 98.7 3.6E-08 7.9E-13 80.6 7.7 76 72-147 169-247 (877)
84 KOG1457 RNA binding protein (c 98.7 1E-07 2.2E-12 68.6 8.9 75 72-146 29-104 (284)
85 KOG1548 Transcription elongati 98.7 1.1E-07 2.3E-12 72.2 9.0 74 74-148 131-212 (382)
86 KOG4211 Splicing factor hnRNP- 98.6 1.1E-07 2.4E-12 74.9 7.4 71 74-148 7-77 (510)
87 KOG0147 Transcriptional coacti 98.6 1.3E-08 2.9E-13 80.9 1.6 77 72-149 174-250 (549)
88 KOG0120 Splicing factor U2AF, 98.6 8.4E-08 1.8E-12 76.7 4.6 78 72-149 284-361 (500)
89 KOG4211 Splicing factor hnRNP- 98.5 2.4E-07 5.2E-12 73.1 5.2 71 75-147 101-172 (510)
90 KOG1457 RNA binding protein (c 98.4 4E-07 8.6E-12 65.6 4.3 67 75-145 208-274 (284)
91 KOG4849 mRNA cleavage factor I 98.3 5.8E-07 1.3E-11 68.5 3.5 75 74-148 77-153 (498)
92 KOG1995 Conserved Zn-finger pr 98.3 1.5E-06 3.3E-11 66.3 5.1 76 74-149 63-146 (351)
93 PF08777 RRM_3: RNA binding mo 98.3 3.5E-06 7.7E-11 54.6 6.0 59 78-142 2-60 (105)
94 KOG4210 Nuclear localization s 98.2 1.3E-06 2.9E-11 66.0 3.1 73 75-148 182-255 (285)
95 KOG2314 Translation initiation 98.1 1.1E-05 2.4E-10 65.0 7.6 71 75-146 56-132 (698)
96 PF11608 Limkain-b1: Limkain b 98.1 2.6E-05 5.6E-10 48.0 7.3 62 78-149 3-69 (90)
97 KOG0105 Alternative splicing f 98.0 4.2E-05 9.1E-10 53.9 7.6 67 73-146 111-177 (241)
98 KOG4206 Spliceosomal protein s 98.0 3.3E-05 7.1E-10 55.7 6.9 69 72-145 141-209 (221)
99 PF14605 Nup35_RRM_2: Nup53/35 98.0 2.7E-05 5.8E-10 44.2 5.2 52 78-136 2-53 (53)
100 KOG3152 TBP-binding protein, a 98.0 1E-05 2.2E-10 59.4 4.2 73 76-148 73-157 (278)
101 KOG0106 Alternative splicing f 97.9 7.3E-06 1.6E-10 59.3 2.5 68 74-149 96-163 (216)
102 KOG0129 Predicted RNA-binding 97.9 4.5E-05 9.8E-10 60.9 7.0 66 72-137 365-431 (520)
103 COG5175 MOT2 Transcriptional r 97.9 3.6E-05 7.9E-10 58.7 6.0 74 76-149 113-195 (480)
104 KOG1190 Polypyrimidine tract-b 97.8 7.1E-05 1.5E-09 58.4 6.9 68 77-149 297-365 (492)
105 KOG1365 RNA-binding protein Fu 97.8 3.4E-05 7.5E-10 59.7 4.2 73 74-147 277-352 (508)
106 KOG4307 RNA binding protein RB 97.8 8.4E-05 1.8E-09 61.5 6.6 72 77-148 867-938 (944)
107 KOG0128 RNA-binding protein SA 97.7 1.4E-05 3.1E-10 66.9 1.8 94 50-144 704-802 (881)
108 KOG0129 Predicted RNA-binding 97.6 0.00033 7.2E-09 56.1 7.5 66 73-139 255-326 (520)
109 PF05172 Nup35_RRM: Nup53/35/4 97.4 0.00053 1.1E-08 44.0 5.7 70 76-147 5-81 (100)
110 KOG1548 Transcription elongati 97.4 0.00047 1E-08 52.8 5.5 73 73-149 261-344 (382)
111 KOG0112 Large RNA-binding prot 97.3 0.0004 8.7E-09 58.9 5.2 70 73-148 451-520 (975)
112 KOG1456 Heterogeneous nuclear 97.3 0.0031 6.8E-08 49.0 9.5 72 73-149 283-355 (494)
113 KOG1855 Predicted RNA-binding 97.3 0.00057 1.2E-08 53.7 5.5 69 73-141 227-308 (484)
114 KOG1365 RNA-binding protein Fu 97.3 0.0013 2.9E-08 51.2 7.1 60 77-137 161-224 (508)
115 KOG0120 Splicing factor U2AF, 97.2 0.00087 1.9E-08 54.2 6.0 56 93-148 425-483 (500)
116 KOG0115 RNA-binding protein p5 97.2 0.00053 1.1E-08 50.6 4.4 66 78-144 32-97 (275)
117 KOG0128 RNA-binding protein SA 97.1 3.2E-05 6.9E-10 64.9 -3.5 65 78-142 668-732 (881)
118 KOG1456 Heterogeneous nuclear 97.0 0.0035 7.6E-08 48.8 7.2 67 65-137 19-85 (494)
119 KOG1190 Polypyrimidine tract-b 97.0 0.0031 6.8E-08 49.5 6.7 70 74-147 411-480 (492)
120 PF10309 DUF2414: Protein of u 96.9 0.0077 1.7E-07 35.1 6.4 55 77-139 5-62 (62)
121 KOG2202 U2 snRNP splicing fact 96.8 0.00069 1.5E-08 49.9 1.6 55 94-149 85-140 (260)
122 PF07576 BRAP2: BRCA1-associat 96.7 0.049 1.1E-06 35.5 9.7 67 77-145 13-80 (110)
123 KOG0112 Large RNA-binding prot 96.7 0.00042 9E-09 58.8 -0.2 74 72-146 367-440 (975)
124 KOG2193 IGF-II mRNA-binding pr 96.6 0.0027 5.9E-08 50.1 3.7 60 78-143 2-61 (584)
125 PF08675 RNA_bind: RNA binding 96.5 0.019 4.2E-07 35.4 6.5 53 79-140 11-63 (87)
126 KOG1996 mRNA splicing factor [ 96.5 0.0094 2E-07 45.0 6.0 57 92-148 301-358 (378)
127 KOG4676 Splicing factor, argin 96.5 0.0034 7.3E-08 49.0 3.6 70 78-148 8-80 (479)
128 KOG2068 MOT2 transcription fac 96.4 0.0027 5.9E-08 48.5 2.6 72 77-148 77-154 (327)
129 PF03467 Smg4_UPF3: Smg-4/UPF3 96.3 0.0054 1.2E-07 43.4 3.9 72 75-146 5-82 (176)
130 KOG2253 U1 snRNP complex, subu 96.3 0.0061 1.3E-07 50.4 4.6 76 65-149 28-103 (668)
131 PF08952 DUF1866: Domain of un 95.9 0.016 3.4E-07 39.6 4.2 67 74-149 24-99 (146)
132 KOG2416 Acinus (induces apopto 95.7 0.0091 2E-07 49.0 2.9 65 74-144 441-506 (718)
133 KOG4307 RNA binding protein RB 95.6 0.012 2.5E-07 49.3 3.2 64 73-137 430-494 (944)
134 PF15023 DUF4523: Protein of u 95.6 0.068 1.5E-06 36.4 6.2 62 74-142 83-148 (166)
135 KOG4660 Protein Mei2, essentia 95.4 0.035 7.6E-07 45.2 5.1 71 74-144 385-456 (549)
136 KOG4210 Nuclear localization s 93.9 0.041 8.8E-07 41.9 2.2 72 75-146 86-157 (285)
137 KOG4285 Mitotic phosphoprotein 93.8 0.23 5.1E-06 37.8 5.9 62 78-147 198-259 (350)
138 KOG0804 Cytoplasmic Zn-finger 93.7 0.46 9.9E-06 38.2 7.5 70 74-145 71-141 (493)
139 KOG2591 c-Mpl binding protein, 93.1 0.63 1.4E-05 38.4 7.6 68 73-147 171-247 (684)
140 PF04847 Calcipressin: Calcipr 92.4 0.26 5.7E-06 35.1 4.3 53 90-148 8-62 (184)
141 KOG4454 RNA binding protein (R 91.7 0.046 9.9E-07 39.8 -0.3 90 51-142 46-148 (267)
142 KOG4410 5-formyltetrahydrofola 90.2 3 6.6E-05 31.8 8.1 61 74-140 327-395 (396)
143 KOG4676 Splicing factor, argin 89.6 0.04 8.7E-07 43.2 -2.2 68 73-145 147-214 (479)
144 PF11767 SET_assoc: Histone ly 89.4 2.4 5.1E-05 25.0 5.7 50 88-146 11-60 (66)
145 KOG2135 Proteins containing th 89.4 0.14 3.1E-06 41.1 0.7 66 76-148 371-437 (526)
146 KOG2318 Uncharacterized conser 89.1 1.7 3.8E-05 36.0 6.5 73 74-146 171-295 (650)
147 KOG4574 RNA-binding protein (c 88.7 0.22 4.8E-06 42.8 1.4 61 79-145 300-360 (1007)
148 KOG2193 IGF-II mRNA-binding pr 87.1 0.035 7.6E-07 44.0 -4.0 70 75-148 78-148 (584)
149 KOG2891 Surface glycoprotein [ 80.4 2.4 5.2E-05 32.3 3.4 71 74-144 146-247 (445)
150 PF03880 DbpA: DbpA RNA bindin 76.5 13 0.00029 22.0 6.7 54 87-149 11-69 (74)
151 PF03468 XS: XS domain; Inter 74.6 8.4 0.00018 25.3 4.4 56 79-137 10-75 (116)
152 COG0724 RNA-binding proteins ( 69.7 11 0.00023 27.0 4.6 66 73-138 221-286 (306)
153 PF15513 DUF4651: Domain of un 68.6 17 0.00036 21.1 4.2 17 92-108 9-25 (62)
154 KOG4483 Uncharacterized conser 67.0 23 0.00051 28.4 6.0 58 74-138 388-446 (528)
155 PF10567 Nab6_mRNP_bdg: RNA-re 64.9 14 0.00031 28.3 4.3 57 76-132 14-77 (309)
156 KOG3424 40S ribosomal protein 63.0 39 0.00084 22.4 5.5 45 88-133 34-83 (132)
157 KOG4019 Calcineurin-mediated s 61.5 6.7 0.00015 27.9 2.0 67 75-147 8-79 (193)
158 KOG1295 Nonsense-mediated deca 59.7 16 0.00035 29.0 3.9 72 76-147 6-80 (376)
159 PF07292 NID: Nmi/IFP 35 domai 56.6 6.9 0.00015 24.4 1.3 26 74-99 49-74 (88)
160 PF09707 Cas_Cas2CT1978: CRISP 56.1 36 0.00078 21.1 4.4 50 75-127 23-72 (86)
161 KOG2295 C2H2 Zn-finger protein 55.6 2 4.3E-05 35.6 -1.6 69 77-145 231-299 (648)
162 COG5638 Uncharacterized conser 52.5 55 0.0012 26.6 5.8 40 72-111 141-185 (622)
163 PRK14548 50S ribosomal protein 44.3 75 0.0016 19.6 6.2 58 79-139 22-81 (84)
164 PF03439 Spt5-NGN: Early trans 42.4 41 0.00089 20.5 3.1 25 118-142 43-67 (84)
165 TIGR01873 cas_CT1978 CRISPR-as 39.5 31 0.00068 21.4 2.3 50 76-128 24-74 (87)
166 PTZ00071 40S ribosomal protein 38.6 1.2E+02 0.0027 20.4 5.5 45 88-133 35-85 (132)
167 KOG4008 rRNA processing protei 38.4 31 0.00067 25.7 2.4 34 74-107 37-70 (261)
168 PRK09213 pur operon repressor; 38.3 95 0.0021 23.6 5.1 45 89-140 40-88 (271)
169 TIGR01743 purR_Bsub pur operon 38.3 1E+02 0.0022 23.4 5.3 44 89-139 38-85 (268)
170 PRK11558 putative ssRNA endonu 34.1 94 0.002 19.8 3.8 50 76-128 26-75 (97)
171 PF11411 DNA_ligase_IV: DNA li 32.8 39 0.00084 17.4 1.6 15 88-102 20-34 (36)
172 smart00457 MACPF membrane-atta 32.6 40 0.00088 23.8 2.3 27 82-108 30-58 (194)
173 PF04026 SpoVG: SpoVG; InterP 32.3 1.1E+02 0.0023 18.9 3.8 25 104-128 3-27 (84)
174 KOG0156 Cytochrome P450 CYP2 s 32.2 1.3E+02 0.0027 25.0 5.3 58 81-148 36-96 (489)
175 TIGR03636 L23_arch archaeal ri 31.6 1.2E+02 0.0027 18.3 6.0 58 79-139 15-74 (77)
176 PF05189 RTC_insert: RNA 3'-te 29.9 1.5E+02 0.0031 18.6 5.0 48 79-126 12-64 (103)
177 COG5193 LHP1 La protein, small 29.7 27 0.00058 28.1 1.0 64 74-137 171-244 (438)
178 PRK13259 regulatory protein Sp 29.3 1.2E+02 0.0026 19.2 3.7 25 104-128 3-27 (94)
179 KOG4213 RNA-binding protein La 28.9 35 0.00076 24.4 1.4 57 75-137 109-168 (205)
180 PRK05738 rplW 50S ribosomal pr 28.0 1.6E+02 0.0034 18.4 4.1 32 79-110 21-54 (92)
181 PF13046 DUF3906: Protein of u 27.5 96 0.0021 18.1 2.8 34 89-124 30-63 (64)
182 PF01282 Ribosomal_S24e: Ribos 27.3 1.5E+02 0.0033 18.1 5.1 46 87-133 11-61 (84)
183 PRK11230 glycolate oxidase sub 26.6 3.6E+02 0.0078 22.4 7.0 49 91-140 203-255 (499)
184 COG0030 KsgA Dimethyladenosine 26.6 1.2E+02 0.0026 22.9 4.0 34 77-110 95-128 (259)
185 PF08442 ATP-grasp_2: ATP-gras 26.5 94 0.002 22.4 3.3 54 89-145 25-81 (202)
186 PF14401 RLAN: RimK-like ATPgr 26.2 1.7E+02 0.0036 20.2 4.3 61 76-136 86-147 (153)
187 COG0481 LepA Membrane GTPase L 26.1 1.6E+02 0.0034 24.8 4.7 52 72-124 292-344 (603)
188 CHL00030 rpl23 ribosomal prote 25.5 1.7E+02 0.0038 18.3 4.0 34 79-112 20-55 (93)
189 PHA01632 hypothetical protein 23.8 87 0.0019 17.8 2.1 20 81-100 20-39 (64)
190 PRK01178 rps24e 30S ribosomal 23.6 2.1E+02 0.0045 18.2 5.2 45 88-133 30-79 (99)
191 PF08206 OB_RNB: Ribonuclease 23.5 62 0.0013 18.1 1.5 11 118-128 7-17 (58)
192 TIGR02542 B_forsyth_147 Bacter 23.2 46 0.00099 22.0 1.0 44 86-129 83-129 (145)
193 PF11249 DUF3047: Protein of u 22.7 2.4E+02 0.0052 20.0 4.7 33 92-124 145-178 (183)
194 PF01823 MACPF: MAC/Perforin d 22.5 49 0.0011 23.3 1.2 23 82-104 53-78 (212)
195 PF14893 PNMA: PNMA 22.0 73 0.0016 25.0 2.1 26 74-99 15-40 (331)
196 KOG4365 Uncharacterized conser 21.6 54 0.0012 26.8 1.4 58 79-137 5-62 (572)
197 PF08804 gp32: gp32 DNA bindin 21.6 42 0.00092 21.2 0.6 10 2-11 17-26 (94)
198 cd00874 RNA_Cyclase_Class_II R 20.4 1.7E+02 0.0037 22.9 3.8 47 79-127 188-238 (326)
199 cd00027 BRCT Breast Cancer Sup 20.3 1.6E+02 0.0034 15.7 3.3 26 78-103 2-27 (72)
200 PF00398 RrnaAD: Ribosomal RNA 20.2 86 0.0019 23.3 2.2 30 76-105 96-127 (262)
201 PF00403 HMA: Heavy-metal-asso 20.1 1.7E+02 0.0037 16.0 6.0 54 79-138 1-58 (62)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.83 E-value=9.4e-20 Score=124.67 Aligned_cols=77 Identities=35% Similarity=0.647 Sum_probs=72.4
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.....++|||+|||+.+++++|+++|++||.|.++.++.|+.+++++|||||+|.+.++|++|++.||+..|.|+.|
T Consensus 30 ~~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l 106 (144)
T PLN03134 30 LRLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHI 106 (144)
T ss_pred ccCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEE
Confidence 35567799999999999999999999999999999999999999999999999999999999999999999998754
No 2
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.77 E-value=2e-18 Score=133.33 Aligned_cols=74 Identities=27% Similarity=0.399 Sum_probs=70.7
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.+.+|||+|||+.+++++|+++|++||.|.+++|+.|+.+|+++|||||+|.+.++|.+||..|||..|+|+.|
T Consensus 268 ~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i 341 (352)
T TIGR01661 268 AGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVL 341 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEE
Confidence 34579999999999999999999999999999999999999999999999999999999999999999999875
No 3
>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=99.77 E-value=1.5e-18 Score=104.11 Aligned_cols=69 Identities=26% Similarity=0.630 Sum_probs=65.6
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 80 LFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 80 l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
|||+|||+++++++|+++|++||.|..+.+..+ .+++.+|+|||+|.+.++|+.|++.|||..++|+.|
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~i 69 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKI 69 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCc
Confidence 799999999999999999999999999999998 589999999999999999999999999999998754
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.76 E-value=3.6e-18 Score=131.91 Aligned_cols=74 Identities=24% Similarity=0.522 Sum_probs=70.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
+..+|||+|||+.+++++|+++|++||+|.+|+|+.|+.+|+++|||||+|.+.++|.+||+.|||..+.|+.|
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 75 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTI 75 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeE
Confidence 46799999999999999999999999999999999999999999999999999999999999999999998754
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=99.75 E-value=8.9e-18 Score=129.56 Aligned_cols=77 Identities=25% Similarity=0.403 Sum_probs=72.5
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.....++|||+|||+++++++|+++|+.||.|++|+|+.|+.+++++|||||+|.++++|++||+.|||..+.++.|
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i 179 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRL 179 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCcee
Confidence 45567899999999999999999999999999999999999999999999999999999999999999999988754
No 6
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.75 E-value=4.3e-18 Score=121.75 Aligned_cols=72 Identities=29% Similarity=0.576 Sum_probs=64.1
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
-.-++||||||+|.+..+.|++.|++||+|.+..|+.|+.+|++||||||+|++.++|++|++.- .-.|+||
T Consensus 10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp-~piIdGR 81 (247)
T KOG0149|consen 10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDP-NPIIDGR 81 (247)
T ss_pred ceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCC-CCccccc
Confidence 34469999999999999999999999999999999999999999999999999999999999733 3344544
No 7
>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=99.73 E-value=8.8e-18 Score=129.57 Aligned_cols=98 Identities=27% Similarity=0.455 Sum_probs=83.4
Q ss_pred ccCCCCCCCCCcccCCCCCCCC----------------------CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEE
Q 031988 50 RQGRGRGACFPLACLPPSPHSL----------------------STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEV 107 (149)
Q Consensus 50 ~~~r~~~~~~~~~~~~~~~~~~----------------------~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~ 107 (149)
.++++++++++++..++.+..+ ......++|||+|||+.+++++|+++|++||.|+.+
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 3677888999988765443211 122346789999999999999999999999999999
Q ss_pred EEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 108 NLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 108 ~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
.|+.|+.+|+++|||||+|.+.++|++||+.||+..+.+.
T Consensus 224 ~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~ 263 (346)
T TIGR01659 224 NILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGG 263 (346)
T ss_pred EEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCC
Confidence 9999999999999999999999999999999999988663
No 8
>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=99.70 E-value=6.1e-17 Score=97.47 Aligned_cols=69 Identities=38% Similarity=0.687 Sum_probs=63.6
Q ss_pred EEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 80 LFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 80 l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
|||+|||+++++++|+++|..||.|..+.+..++. |+++|+|||+|.+.++|.+|++.++|..+.|+.|
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l 69 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKL 69 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEc
Confidence 79999999999999999999999999999999986 9999999999999999999999999999998754
No 9
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=5.1e-17 Score=106.47 Aligned_cols=76 Identities=21% Similarity=0.480 Sum_probs=71.7
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...+++||||||++.++|+.|.++|+++|.|+.|.+-.|+.+..+.|||||+|.+.++|+.|++-++|+.+..+.|
T Consensus 33 ~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~i 108 (153)
T KOG0121|consen 33 LRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPI 108 (153)
T ss_pred HhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccce
Confidence 4567899999999999999999999999999999999999999999999999999999999999999999988764
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=99.69 E-value=1e-16 Score=130.46 Aligned_cols=76 Identities=30% Similarity=0.594 Sum_probs=72.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
....++|||+||++.+++++|+++|.+||.|.++.++.|+.+|+++|||||+|.+.++|.+|++.|||..++|+.|
T Consensus 104 ~~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~I 179 (612)
T TIGR01645 104 LAIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNI 179 (612)
T ss_pred hcCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEeccee
Confidence 3456799999999999999999999999999999999999999999999999999999999999999999999865
No 11
>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=99.67 E-value=2.1e-16 Score=128.59 Aligned_cols=74 Identities=22% Similarity=0.413 Sum_probs=70.7
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..++|||+||++++++++|+++|+.||.|.++.+.+|+.+|+++|||||+|.+.++|..|+..|||..++|+.|
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~L 276 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYL 276 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEE
Confidence 34699999999999999999999999999999999999899999999999999999999999999999999865
No 12
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.67 E-value=1.7e-16 Score=114.15 Aligned_cols=75 Identities=28% Similarity=0.455 Sum_probs=70.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
..+..+|-|.||+.+++|++|+++|.+||.|.++.+.+|+.||.++|||||.|.+.++|.+||..|||+-+.+-+
T Consensus 186 R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LI 260 (270)
T KOG0122|consen 186 RDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLI 260 (270)
T ss_pred CCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEE
Confidence 446678999999999999999999999999999999999999999999999999999999999999999776543
No 13
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.66 E-value=4.1e-16 Score=114.98 Aligned_cols=85 Identities=28% Similarity=0.552 Sum_probs=76.8
Q ss_pred CCCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCc
Q 031988 64 LPPSPHSLSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKS 143 (149)
Q Consensus 64 ~~~~~~~~~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~ 143 (149)
+.+........++-+||||+-|+.+++|..|+..|+.||.|+.|.|+.|+.||+++|||||+|+.+.+...|.+..+|..
T Consensus 88 wdP~~dp~a~gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~ 167 (335)
T KOG0113|consen 88 WDPNNDPNAIGDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIK 167 (335)
T ss_pred cCCCCCCcccCCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCce
Confidence 33444444456788999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCC
Q 031988 144 RASPG 148 (149)
Q Consensus 144 ~~~~~ 148 (149)
|.|+.
T Consensus 168 Idgrr 172 (335)
T KOG0113|consen 168 IDGRR 172 (335)
T ss_pred ecCcE
Confidence 99875
No 14
>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=99.66 E-value=6.9e-16 Score=125.24 Aligned_cols=71 Identities=25% Similarity=0.439 Sum_probs=67.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
....++|||+|||++++|++|+++|++||.|.+++|++| .+|+++|||||+|.+.++|++||+.||+..+.
T Consensus 55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~ 125 (578)
T TIGR01648 55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIR 125 (578)
T ss_pred CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeec
Confidence 456789999999999999999999999999999999999 69999999999999999999999999999885
No 15
>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=99.66 E-value=4.2e-16 Score=124.36 Aligned_cols=73 Identities=33% Similarity=0.608 Sum_probs=69.9
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.++|||+|||..+++++|+++|++||.|..|.++.+..+|+++|||||+|.+.++|..|+..|||..|.|+.|
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i 258 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPI 258 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEE
Confidence 5899999999999999999999999999999999999899999999999999999999999999999998754
No 16
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.65 E-value=1.7e-15 Score=120.82 Aligned_cols=75 Identities=20% Similarity=0.396 Sum_probs=70.1
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
....++|||+|||..+++++|+++|++||.|..|.++.|+.+|+++|||||+|.+.++|.+||. |+|..+.|+.|
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i 160 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPI 160 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeee
Confidence 4557799999999999999999999999999999999999999999999999999999999997 99999988653
No 17
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.65 E-value=7.7e-16 Score=113.07 Aligned_cols=69 Identities=14% Similarity=0.283 Sum_probs=63.8
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.++|||+|||+.+++++|+++|+.||.|.+|.|+.|+. ++|||||+|.+.++|+.||. |||..|.|+.|
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V 72 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSV 72 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceE
Confidence 46999999999999999999999999999999998763 46999999999999999996 99999999864
No 18
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=2.9e-16 Score=114.54 Aligned_cols=71 Identities=28% Similarity=0.514 Sum_probs=67.2
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
......++|||||++.-++|++|++.|.+||.|.+|++.+++ ||+||.|.++|+|.+||..+||.+|+|+.
T Consensus 159 Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNntei~G~~ 229 (321)
T KOG0148|consen 159 QSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNNTEIGGQL 229 (321)
T ss_pred cCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcCceeCceE
Confidence 467788999999999999999999999999999999999998 99999999999999999999999999863
No 19
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=5.4e-16 Score=113.11 Aligned_cols=73 Identities=25% Similarity=0.539 Sum_probs=70.2
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.--+||+-|.+.++-++|++.|.+||+|.+++|++|..|+++||||||.|-+.++|++||..|||+-|+.|.|
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~I 134 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTI 134 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeecccee
Confidence 4579999999999999999999999999999999999999999999999999999999999999999999864
No 20
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.64 E-value=5.6e-16 Score=115.61 Aligned_cols=75 Identities=25% Similarity=0.564 Sum_probs=69.2
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.....++|+|.|||+..-+-||+.+|++||.|.+|.|+.+. ..+||||||+|++.++|++|-.+|||..+.||.|
T Consensus 92 s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkI 166 (376)
T KOG0125|consen 92 SKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKI 166 (376)
T ss_pred CCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEE
Confidence 35566799999999999999999999999999999999974 6688999999999999999999999999999864
No 21
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.64 E-value=1.4e-15 Score=122.79 Aligned_cols=75 Identities=27% Similarity=0.538 Sum_probs=70.9
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...++|||+|||..+++++|+++|+.||.|..+.++.+..+|.++|||||+|.+.++|..||..|||..|+|+.|
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l 367 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKL 367 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence 446799999999999999999999999999999999999899999999999999999999999999999998754
No 22
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.63 E-value=1.7e-15 Score=109.74 Aligned_cols=70 Identities=14% Similarity=0.205 Sum_probs=63.9
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.+.+|||+||++.+++++|+++|+.||.|.+|.|++| ++.+|+|||+|+++++++.|+. |+|..|.++.|
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D---~et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I 73 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRS---GEYACTAYVTFKDAYALETAVL-LSGATIVDQRV 73 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecC---CCcceEEEEEECCHHHHHHHHh-cCCCeeCCceE
Confidence 4579999999999999999999999999999999987 4555899999999999999995 99999998754
No 23
>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=99.62 E-value=2e-15 Score=123.37 Aligned_cols=71 Identities=24% Similarity=0.491 Sum_probs=68.0
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
+|||+|||++++|++|+++|.+||.|.+|+|.+|..+++++|||||+|.+.++|++|+..+|+..+.|+.|
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i 72 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPI 72 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeE
Confidence 69999999999999999999999999999999999999999999999999999999999999998888753
No 24
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.61 E-value=1.4e-16 Score=120.51 Aligned_cols=140 Identities=18% Similarity=0.331 Sum_probs=111.0
Q ss_pred CceeecccCCceeeccCcceecCCCCCCCCCCCCCeeecccchhhhhhcccCCCCCCCCCcccCCCCCCCC---------
Q 031988 1 MAVLGFLPVPTTYFNINQNLLIHNLTRHSPAPATPFTIKRRDFDSLFSLRQGRGRGACFPLACLPPSPHSL--------- 71 (149)
Q Consensus 1 ~~~~~~~p~~~~~~~~~qn~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~--------- 71 (149)
+||||.+++...+|++-....-...++. ..++ ++....+.-++..++++++++..|+....+
T Consensus 110 LaiMcRvYVGSIsfEl~EDtiR~AF~PF-------GPIK--SInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~ml 180 (544)
T KOG0124|consen 110 LAIMCRVYVGSISFELREDTIRRAFDPF-------GPIK--SINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQML 180 (544)
T ss_pred HHHhHheeeeeeEEEechHHHHhhccCC-------CCcc--eeecccccccccccceEEEEEeCcHHHHHHHHHhccccc
Confidence 4799999999999998655432222221 1122 455666677888899998888877654221
Q ss_pred ------------------------CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeC
Q 031988 72 ------------------------STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYA 127 (149)
Q Consensus 72 ------------------------~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~ 127 (149)
.+...-.+|||..++++.+++||+..|+.||+|.+|++.+++.++.+|||||++|.
T Consensus 181 GGRNiKVgrPsNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~ 260 (544)
T KOG0124|consen 181 GGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYN 260 (544)
T ss_pred cCccccccCCCCCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEec
Confidence 12223369999999999999999999999999999999999988899999999999
Q ss_pred CHHHHHHHHHHhCCCccCCCCC
Q 031988 128 TEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 128 ~~~~a~~Al~~l~g~~~~~~~l 149 (149)
+..+...|+..||=..++|+.|
T Consensus 261 n~qs~~eAiasMNlFDLGGQyL 282 (544)
T KOG0124|consen 261 NLQSQSEAIASMNLFDLGGQYL 282 (544)
T ss_pred cccchHHHhhhcchhhcccceE
Confidence 9999999999999999999865
No 25
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.61 E-value=3.5e-16 Score=123.18 Aligned_cols=112 Identities=30% Similarity=0.557 Sum_probs=92.5
Q ss_pred ecccchhhhhhc-------------ccCCCCCCCCCcccCCCCCCCC---------------------------------
Q 031988 38 IKRRDFDSLFSL-------------RQGRGRGACFPLACLPPSPHSL--------------------------------- 71 (149)
Q Consensus 38 ~~~~~~~~~~~~-------------~~~r~~~~~~~~~~~~~~~~~~--------------------------------- 71 (149)
.+.+++..+|+. ..+|+++.+|+++....+...+
T Consensus 191 ~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~vq~sEaeknr~a~~s~a~~ 270 (549)
T KOG0147|consen 191 NPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIVQLSEAEKNRAANASPALQ 270 (549)
T ss_pred CCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEecccHHHHHHHHhcccccc
Confidence 455666666654 3788999999999876554322
Q ss_pred --CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 72 --STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 72 --~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
....+-..||||||++++++++|+.+|++||.|..|.+.+|..||+++||||++|.+.++|.+|+..|||..|-|+.+
T Consensus 271 ~k~~~~p~~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~i 350 (549)
T KOG0147|consen 271 GKGFTGPMRRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLI 350 (549)
T ss_pred ccccccchhhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceE
Confidence 011222349999999999999999999999999999999999999999999999999999999999999999988753
No 26
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.60 E-value=1.7e-15 Score=106.76 Aligned_cols=76 Identities=32% Similarity=0.593 Sum_probs=72.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.+.-..|-|-||.+-++.++|+.+|++||.|-+|-|+.|+.|+.++|||||.|.+..+|+.|+..|+|.+|+|+-|
T Consensus 10 v~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRel 85 (256)
T KOG4207|consen 10 VEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGREL 85 (256)
T ss_pred cccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeecccee
Confidence 4555689999999999999999999999999999999999999999999999999999999999999999999865
No 27
>smart00362 RRM_2 RNA recognition motif.
Probab=99.60 E-value=7.2e-15 Score=87.39 Aligned_cols=68 Identities=31% Similarity=0.632 Sum_probs=63.5
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
+|||+|||..+++++|+++|.+||.|..+.+..++ +.++|+|||+|.+.++|++|+..++|..+.|+.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~ 68 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRP 68 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEE
Confidence 58999999999999999999999999999988876 788999999999999999999999999988764
No 28
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.60 E-value=7.2e-15 Score=113.47 Aligned_cols=80 Identities=26% Similarity=0.442 Sum_probs=72.8
Q ss_pred CCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 66 PSPHSLSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 66 ~~~~~~~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
++.........++.||||.||.++.|++|.-+|++.|+|-++++++|+.+|.+||||||+|.+.+.|+.||+.||+++|.
T Consensus 72 pP~weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir 151 (506)
T KOG0117|consen 72 PPGWEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIR 151 (506)
T ss_pred CCcccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCcccc
Confidence 33344445577889999999999999999999999999999999999999999999999999999999999999999874
No 29
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.59 E-value=7.3e-15 Score=120.12 Aligned_cols=74 Identities=27% Similarity=0.539 Sum_probs=69.5
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
....+|||+||++.+++++|+++|++||.|.+++++.| .+|+++|||||+|.+.++|.+|+..|||..++|+.|
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l 356 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPL 356 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCcee
Confidence 34568999999999999999999999999999999999 489999999999999999999999999999999865
No 30
>PLN03213 repressor of silencing 3; Provisional
Probab=99.59 E-value=6.9e-15 Score=115.19 Aligned_cols=72 Identities=22% Similarity=0.365 Sum_probs=65.6
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCH--HHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATE--EESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~--~~a~~Al~~l~g~~~~~~~l 149 (149)
.....+||||||++.+++++|+..|..||.|.+|.|+ +.+| ||||||+|.+. .++.+||..|||..+.|+.|
T Consensus 7 ~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~L 80 (759)
T PLN03213 7 GGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRL 80 (759)
T ss_pred CCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCcee
Confidence 4455799999999999999999999999999999999 4467 89999999987 78999999999999999875
No 31
>smart00360 RRM RNA recognition motif.
Probab=99.58 E-value=1.1e-14 Score=86.16 Aligned_cols=68 Identities=35% Similarity=0.648 Sum_probs=63.6
Q ss_pred EcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 82 VSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 82 v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
|+|||..+++++|+.+|++||.|..+.+..++.+++++|+|||+|.+.++|.+|+..+++..+.|+.|
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~ 68 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPL 68 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEE
Confidence 57999999999999999999999999999988789999999999999999999999999999988653
No 32
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.58 E-value=1.2e-16 Score=110.45 Aligned_cols=74 Identities=24% Similarity=0.583 Sum_probs=70.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
++.-|||||||+..+|.||--+|++||+|..|.+++|+.||+++||||+.|++..+..-|+..|||..|.|+.|
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRti 107 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTI 107 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeE
Confidence 45579999999999999999999999999999999999999999999999999999999999999999999864
No 33
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=4.9e-15 Score=101.94 Aligned_cols=67 Identities=25% Similarity=0.503 Sum_probs=61.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
-.++||||||+..+++.+|+..|..||.+..|.|..++ -|||||+|++..+|+.|+..|+|..|-|-
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~ 75 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGS 75 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCc
Confidence 36799999999999999999999999999999887765 39999999999999999999999998763
No 34
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=1.6e-14 Score=91.55 Aligned_cols=73 Identities=18% Similarity=0.392 Sum_probs=66.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
++..+.|||+|||++++.++..++|.+||.|..++|-.. ...+|-|||.|++..+|.+|+.+|+|+.+.++.|
T Consensus 15 pevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~---k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl 87 (124)
T KOG0114|consen 15 PEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNT---KETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYL 87 (124)
T ss_pred hhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCc---cCcCceEEEEehHhhhHHHHHHHhcccccCCceE
Confidence 566789999999999999999999999999999988664 4557999999999999999999999999988764
No 35
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.56 E-value=1.1e-15 Score=108.76 Aligned_cols=76 Identities=26% Similarity=0.521 Sum_probs=71.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
....++||||+|...+++..|...|-+||.|.+|+++.|..+++++|||||+|...++|.+||..||+.++-|+.|
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~Grti 82 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTI 82 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeE
Confidence 3456799999999999999999999999999999999999999999999999999999999999999999988764
No 36
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.56 E-value=3.9e-15 Score=112.83 Aligned_cols=72 Identities=32% Similarity=0.653 Sum_probs=70.5
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
++||||.+.+.+.|+.||..|.+||+|+++.+.+|+.|+++||||||+|+-++.|.-|++.|||..++|++|
T Consensus 114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNi 185 (544)
T KOG0124|consen 114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNI 185 (544)
T ss_pred HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccc
Confidence 689999999999999999999999999999999999999999999999999999999999999999999986
No 37
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.55 E-value=1e-14 Score=96.64 Aligned_cols=77 Identities=21% Similarity=0.487 Sum_probs=72.5
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
-+..+..|||.++++.++++++.+.|..||+|+.+.+-.|+.||-.||||.|+|.+...|++|+..+||..|.|+.+
T Consensus 68 rSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v 144 (170)
T KOG0130|consen 68 RSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNV 144 (170)
T ss_pred cceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCce
Confidence 34556799999999999999999999999999999999999999999999999999999999999999999998864
No 38
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.55 E-value=6.4e-14 Score=102.92 Aligned_cols=73 Identities=37% Similarity=0.697 Sum_probs=70.3
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..+|||+|||..+++++|+++|..||.|..+.+..|+.+|+++|||||+|.+.++|..|+..++|..+.|+.|
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~ 187 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPL 187 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCcee
Confidence 6899999999999999999999999999999999998899999999999999999999999999999998764
No 39
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=5.2e-14 Score=102.56 Aligned_cols=78 Identities=26% Similarity=0.348 Sum_probs=73.3
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..+.....|||-||.++++|..|..+|.+||.|..|++++|..|.++||||||.+.+-++|..||..|||+.++++.|
T Consensus 273 ~~~~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvL 350 (360)
T KOG0145|consen 273 GGPGGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVL 350 (360)
T ss_pred CCCCCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEE
Confidence 345557899999999999999999999999999999999999899999999999999999999999999999999865
No 40
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.53 E-value=4.5e-14 Score=108.80 Aligned_cols=70 Identities=31% Similarity=0.607 Sum_probs=65.8
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCc
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKS 143 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~ 143 (149)
+.+.-++|||.+|..++|.||+.+|++||.|.+|.|++|+.||.++|+|||.|.+.++|.+|+..|++..
T Consensus 31 d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~k 100 (510)
T KOG0144|consen 31 DGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQK 100 (510)
T ss_pred CchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhccc
Confidence 4555689999999999999999999999999999999999999999999999999999999999998764
No 41
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.52 E-value=3.2e-14 Score=111.94 Aligned_cols=72 Identities=31% Similarity=0.641 Sum_probs=70.5
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..+||||+|+++++++|..+|+..|.|.+++++.|+.||+++||||++|.+.+++..|++.|||.++.|+.|
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l 90 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKL 90 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceE
Confidence 789999999999999999999999999999999999999999999999999999999999999999999875
No 42
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.50 E-value=2.8e-14 Score=98.84 Aligned_cols=75 Identities=23% Similarity=0.404 Sum_probs=70.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
....+||||||+..++++.|.++|-+.|+|..+.+++|+.+...+||||++|.++++|+=|++-||...+-|+.|
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpI 81 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPI 81 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCcee
Confidence 445699999999999999999999999999999999999999999999999999999999999999988888764
No 43
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=5.2e-15 Score=113.89 Aligned_cols=67 Identities=30% Similarity=0.570 Sum_probs=63.8
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCc
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKS 143 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~ 143 (149)
..++||||.|+..++|++++++|.+||.|++|.|.+|. .|.+||+|||.|.+.+.|..||+.|||..
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~ 189 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQ 189 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccce
Confidence 36789999999999999999999999999999999997 89999999999999999999999999974
No 44
>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=99.49 E-value=3e-13 Score=80.66 Aligned_cols=69 Identities=35% Similarity=0.656 Sum_probs=63.5
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
+|+|+|||+.+++++|+.+|+.+|.|..+.+..++. ++++|+|||+|.+.++|..|++.+++..+.|+.
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~-~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~ 69 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD-TKSKGFAFVEFEDEEDAEKALEALNGKELGGRP 69 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC-CCcceEEEEEECCHHHHHHHHHHhCCCeECCeE
Confidence 489999999999999999999999999999998774 478899999999999999999999999888764
No 45
>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=99.49 E-value=2.3e-13 Score=109.55 Aligned_cols=71 Identities=25% Similarity=0.354 Sum_probs=65.2
Q ss_pred CCCCCeEEEcCCCC-CCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSF-RTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~-~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..++++|||+||++ .+++++|+++|+.||.|.+|+++.++ +|+|||+|.+.++|..|+..|||..|.|+.|
T Consensus 272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l 343 (481)
T TIGR01649 272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPL 343 (481)
T ss_pred CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceE
Confidence 34678999999998 69999999999999999999998864 5999999999999999999999999999865
No 46
>smart00361 RRM_1 RNA recognition motif.
Probab=99.49 E-value=1.3e-13 Score=83.11 Aligned_cols=59 Identities=22% Similarity=0.544 Sum_probs=53.1
Q ss_pred HHHHHHHHh----cCCCeEEEE-EeecCCC--CCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 91 EDSLRNAFQ----GFGQLVEVN-LVMDKIA--NRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 91 ~~~l~~~F~----~~G~i~~~~-i~~~~~~--g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
+++|+++|. +||.|.++. ++.++.+ |+++|||||+|.+.++|..|++.|||..+.|+.|
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l 67 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTV 67 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence 578889998 999999995 7777666 9999999999999999999999999999999864
No 47
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.47 E-value=2.1e-13 Score=99.40 Aligned_cols=76 Identities=29% Similarity=0.503 Sum_probs=71.0
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
..+..++|.|.-||..+++++++.+|...|+|++|++++|+.+|++.|||||.|.++.+|++|+..|||-.+-.+.
T Consensus 37 t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KT 112 (360)
T KOG0145|consen 37 TDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKT 112 (360)
T ss_pred cCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccce
Confidence 4677789999999999999999999999999999999999999999999999999999999999999998776543
No 48
>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=99.45 E-value=3e-13 Score=108.90 Aligned_cols=68 Identities=19% Similarity=0.205 Sum_probs=61.0
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh--CCCccCCCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM--HGKSRASPGL 149 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l--~g~~~~~~~l 149 (149)
++++|||+|||+.+++++|+++|++||.|.++.+++++ |+|||+|.+.++|++|++.+ ++..+.|+.|
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k------~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l 70 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGK------RQALVEFEDEESAKACVNFATSVPIYIRGQPA 70 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCC------CEEEEEeCchHHHHHHHHHhhcCCceEcCeEE
Confidence 46799999999999999999999999999999988654 89999999999999999864 7788888753
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=99.42 E-value=6.1e-13 Score=108.23 Aligned_cols=66 Identities=23% Similarity=0.502 Sum_probs=60.7
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcC--CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGF--GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~--G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..++|||+||++++++++|+++|++| |.|++|.+++ +||||+|.+.++|++|++.|||..|.|+.|
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I 299 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--------DYAFVHFEDREDAVKAMDELNGKELEGSEI 299 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--------CeEEEEeCCHHHHHHHHHHhCCCEECCEEE
Confidence 35789999999999999999999999 9999997653 799999999999999999999999999764
No 50
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.42 E-value=3.4e-13 Score=98.70 Aligned_cols=78 Identities=22% Similarity=0.402 Sum_probs=73.9
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...+++++|||-.||....+.+|..+|-+||.|.+.++..|+.|..+|+||||.|.+..++..||..|||..|+-+.|
T Consensus 280 reGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRL 357 (371)
T KOG0146|consen 280 REGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRL 357 (371)
T ss_pred hcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhh
Confidence 467788999999999999999999999999999999999999999999999999999999999999999999987654
No 51
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.38 E-value=7.2e-13 Score=100.21 Aligned_cols=78 Identities=22% Similarity=0.386 Sum_probs=73.1
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...++.+.|||+.|.+.+++++|+-+|+.||.|.+|.|++|..||.+..||||+|.+.+++++|.-.|++..|.++.|
T Consensus 234 d~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRI 311 (479)
T KOG0415|consen 234 DVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRI 311 (479)
T ss_pred ccCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceE
Confidence 446677899999999999999999999999999999999999999999999999999999999999999999987753
No 52
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.38 E-value=1.6e-12 Score=102.85 Aligned_cols=75 Identities=28% Similarity=0.559 Sum_probs=68.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..+..+|.|+|||+.+.+.+|+.+|+.||.|..|.|++.. .|+.+|||||.|....+|+.||+.+||..|+|+.+
T Consensus 114 ~~~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~V 188 (678)
T KOG0127|consen 114 DLPKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPV 188 (678)
T ss_pred cCccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhccCceecCcee
Confidence 3447799999999999999999999999999999999766 67777999999999999999999999999999864
No 53
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.37 E-value=1.9e-12 Score=91.38 Aligned_cols=77 Identities=22% Similarity=0.338 Sum_probs=70.2
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcC-CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGF-GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~-G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
......-+|+..+|.-+.+.++...|.+| |.+..+++-+++.||.++|||||+|++++.|..|-+.||++.+.++.|
T Consensus 45 ~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL 122 (214)
T KOG4208|consen 45 EQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLL 122 (214)
T ss_pred ccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhhee
Confidence 35566689999999999999999999997 778888998999999999999999999999999999999999998765
No 54
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=4.5e-13 Score=103.68 Aligned_cols=64 Identities=27% Similarity=0.504 Sum_probs=60.1
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..|||+||+.++|++.|++.|+.||.|++|+.++ -||||-|.+.++|-+|++.+||+.|.|..|
T Consensus 260 KvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~r--------DYaFVHf~eR~davkAm~~~ngkeldG~~i 323 (506)
T KOG0117|consen 260 KVLYVRNLMESTTEETLKKLFNEFGKVERVKKPR--------DYAFVHFAEREDAVKAMKETNGKELDGSPI 323 (506)
T ss_pred eeeeeeccchhhhHHHHHHHHHhccceEEeeccc--------ceeEEeecchHHHHHHHHHhcCceecCceE
Confidence 5899999999999999999999999999997765 599999999999999999999999999765
No 55
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.35 E-value=1.5e-12 Score=90.62 Aligned_cols=73 Identities=23% Similarity=0.415 Sum_probs=63.5
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
....++|||+|||.++-+.+|+++|-+||.|..|.+...+ ..-+||||+|++..+|+.||..-+|+.++|-.|
T Consensus 3 gr~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rL 75 (241)
T KOG0105|consen 3 GRNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRL 75 (241)
T ss_pred CcccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceE
Confidence 4567799999999999999999999999999999875432 334899999999999999999999999887544
No 56
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.32 E-value=9.6e-12 Score=96.42 Aligned_cols=74 Identities=18% Similarity=0.397 Sum_probs=68.3
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHh-cCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQ-GFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~-~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...+.+||.|||+++-+.+|+++|. +-|+|+.|.+..|. +|+++|+|.|+|++++.+++|++.||-+.+.|+.|
T Consensus 42 ~r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l 116 (608)
T KOG4212|consen 42 ARDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGREL 116 (608)
T ss_pred cccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceE
Confidence 3345699999999999999999997 58999999999997 89999999999999999999999999999999865
No 57
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.31 E-value=5e-12 Score=100.15 Aligned_cols=73 Identities=29% Similarity=0.454 Sum_probs=70.2
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
+.||||++||++++.++|.++|+.+|+|..+.++.+..++.++|||||.|...+++++|+...++..+.|++|
T Consensus 5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l 77 (678)
T KOG0127|consen 5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRIL 77 (678)
T ss_pred CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceec
Confidence 3799999999999999999999999999999999999999999999999999999999999999999999876
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=99.31 E-value=1.1e-11 Score=100.31 Aligned_cols=70 Identities=26% Similarity=0.436 Sum_probs=57.3
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcC------------CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGF------------GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~------------G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~ 140 (149)
.....++|||||||+.+++++|+++|..+ +.|..+.+ ++.+|||||+|.+.++|..||. ||
T Consensus 171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al~-l~ 243 (509)
T TIGR01642 171 ATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAMA-LD 243 (509)
T ss_pred CCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhhc-CC
Confidence 34556799999999999999999999975 23444443 4456999999999999999995 99
Q ss_pred CCccCCCCC
Q 031988 141 GKSRASPGL 149 (149)
Q Consensus 141 g~~~~~~~l 149 (149)
|..+.|..|
T Consensus 244 g~~~~g~~l 252 (509)
T TIGR01642 244 SIIYSNVFL 252 (509)
T ss_pred CeEeeCcee
Confidence 999988654
No 59
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.30 E-value=3.6e-12 Score=88.44 Aligned_cols=77 Identities=30% Similarity=0.505 Sum_probs=69.8
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEE-EEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEV-NLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~-~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..+.+.++||+||.+.++|..|.+.|+.||++.+. ++.+|..||.++|||||.|.+.+.+.+|+..+||+.+.++.+
T Consensus 92 nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~i 169 (203)
T KOG0131|consen 92 NLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPI 169 (203)
T ss_pred cccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCce
Confidence 34556799999999999999999999999997664 888999899999999999999999999999999999988753
No 60
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.29 E-value=2.1e-12 Score=95.40 Aligned_cols=63 Identities=24% Similarity=0.554 Sum_probs=59.5
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
.+|||||||..+++.+|+.+|++||+|.+|+|++ .||||-.++...++.||+.|||++|.|-.
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvK--------NYgFVHiEdktaaedairNLhgYtLhg~n 65 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVK--------NYGFVHIEDKTAAEDAIRNLHGYTLHGVN 65 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeec--------ccceEEeecccccHHHHhhcccceecceE
Confidence 3799999999999999999999999999999998 69999999999999999999999998864
No 61
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.28 E-value=1.2e-11 Score=96.24 Aligned_cols=70 Identities=23% Similarity=0.544 Sum_probs=64.7
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...+||.||+++++..+|.++|+.||.|.+|++..+. .| ++|| ||.|.++++|.+|+..+||..+.++.|
T Consensus 76 ~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki 145 (369)
T KOG0123|consen 76 PSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKI 145 (369)
T ss_pred CceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCee
Confidence 3349999999999999999999999999999999997 56 9999 999999999999999999999888753
No 62
>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=99.26 E-value=1.5e-11 Score=70.72 Aligned_cols=51 Identities=33% Similarity=0.674 Sum_probs=45.0
Q ss_pred HHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 94 LRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 94 l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
|+++|++||.|.++.+..+. +++|||+|.+.++|..|++.|||..+.|+.|
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l 51 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPL 51 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEE
Confidence 67899999999999886654 5999999999999999999999999998754
No 63
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=99.23 E-value=4.9e-11 Score=86.71 Aligned_cols=82 Identities=23% Similarity=0.429 Sum_probs=74.4
Q ss_pred CCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 68 PHSLSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 68 ~~~~~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
.....-+....+||.|-|--.++++.|-..|.+|-.....++++|+.||+++||+||.|.+..++.+|++.|||+.++.+
T Consensus 181 Psl~ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsr 260 (290)
T KOG0226|consen 181 PSLAEWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSR 260 (290)
T ss_pred cccccCccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccc
Confidence 33444566778999999999999999999999999988899999999999999999999999999999999999999988
Q ss_pred CC
Q 031988 148 GL 149 (149)
Q Consensus 148 ~l 149 (149)
.+
T Consensus 261 pi 262 (290)
T KOG0226|consen 261 PI 262 (290)
T ss_pred hh
Confidence 64
No 64
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.23 E-value=2.2e-11 Score=89.33 Aligned_cols=69 Identities=30% Similarity=0.578 Sum_probs=64.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCc
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKS 143 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~ 143 (149)
..+.++||||.|...-+|+|++.+|..||.|.+|.+.+.. .|.+||++||.|.+..+|..||..|+|..
T Consensus 16 g~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSq 84 (371)
T KOG0146|consen 16 GGDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQ 84 (371)
T ss_pred CccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccc
Confidence 3366799999999999999999999999999999999987 89999999999999999999999999874
No 65
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.18 E-value=1.1e-10 Score=93.32 Aligned_cols=76 Identities=26% Similarity=0.432 Sum_probs=70.6
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...+++|||.+|...+-..+|+.+|++||.|.-.+|+++..+...++|+||++.+.++|.++|.+|+.+.|.|++|
T Consensus 402 s~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmI 477 (940)
T KOG4661|consen 402 STLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMI 477 (940)
T ss_pred cccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceee
Confidence 3456799999999999999999999999999999999998888889999999999999999999999999999875
No 66
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.17 E-value=1.8e-10 Score=94.53 Aligned_cols=69 Identities=22% Similarity=0.452 Sum_probs=63.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
...++|||||+|+.++++.||..+|+.||+|.+|.++..+ |+|||.+....+|++|+.+|+.+.+.++.
T Consensus 418 sV~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R------~cAfI~M~~RqdA~kalqkl~n~kv~~k~ 486 (894)
T KOG0132|consen 418 SVCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPR------GCAFIKMVRRQDAEKALQKLSNVKVADKT 486 (894)
T ss_pred eEeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccCC------ceeEEEEeehhHHHHHHHHHhccccccee
Confidence 3456899999999999999999999999999999998876 99999999999999999999998887654
No 67
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.15 E-value=2.4e-10 Score=81.82 Aligned_cols=71 Identities=21% Similarity=0.468 Sum_probs=63.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHH----HHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRN----AFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~----~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
.+..||||.||+..+..++|+. +|++||.|.+|...+ +.+.+|-|||.|++.+.|..|++.|+|..+-|+.
T Consensus 7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~ 81 (221)
T KOG4206|consen 7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKP 81 (221)
T ss_pred CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCch
Confidence 3344999999999999999888 999999999986644 7899999999999999999999999999998875
No 68
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.12 E-value=9.4e-11 Score=88.97 Aligned_cols=62 Identities=35% Similarity=0.688 Sum_probs=59.2
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~ 137 (149)
..+++||++|++.++++.|++.|.+||+|.++.+++|+.+++++||+||+|.+.+...+++.
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~ 66 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN 66 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec
Confidence 67899999999999999999999999999999999999999999999999999998888875
No 69
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.09 E-value=1.8e-10 Score=87.47 Aligned_cols=94 Identities=27% Similarity=0.526 Sum_probs=75.0
Q ss_pred cCCCCCCCCCcccCCCCCCCC----------------------C-----CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCC
Q 031988 51 QGRGRGACFPLACLPPSPHSL----------------------S-----TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQ 103 (149)
Q Consensus 51 ~~r~~~~~~~~~~~~~~~~~~----------------------~-----~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~ 103 (149)
++|++++.++.+..++..... . ......++||++||.+++++++++.|++||.
T Consensus 44 t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r~~~~~~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~g~ 123 (311)
T KOG4205|consen 44 TGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSREDQTKVGRHLRTKKIFVGGLPPDTTEEDFKDYFEQFGK 123 (311)
T ss_pred CCCcccccceecCCCcchheeecccccccCCccccceeccCcccccccccccceeEEEecCcCCCCchHHHhhhhhccce
Confidence 578888888887755443222 0 0112349999999999999999999999999
Q ss_pred eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 104 LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 104 i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
|..+.++.|..+.+++||+||.|.+++++..++. ..-+.|.
T Consensus 124 v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~ 164 (311)
T KOG4205|consen 124 VADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFN 164 (311)
T ss_pred eEeeEEeecccccccccceeeEeccccccceecc-cceeeec
Confidence 9999999999999999999999999999998875 3333333
No 70
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.05 E-value=9.3e-10 Score=80.74 Aligned_cols=74 Identities=24% Similarity=0.408 Sum_probs=68.5
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
.....+|+|.|||..+.+++|+++|+.||.++.+.+..|+ .|++.|.|-|.|...++|.+|++.+||..++|+.
T Consensus 80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~ 153 (243)
T KOG0533|consen 80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRP 153 (243)
T ss_pred CCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCce
Confidence 3344789999999999999999999999999999999987 8999999999999999999999999999988864
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.03 E-value=3.1e-10 Score=92.33 Aligned_cols=73 Identities=26% Similarity=0.472 Sum_probs=67.9
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.++|+|.|||+.++..+++.+|..||++.+|+|+.-...+.++|||||+|-++.+|.+|+.+|.++-+.|+.|
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrL 685 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRL 685 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhh
Confidence 5699999999999999999999999999999999875567789999999999999999999999999988865
No 72
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.02 E-value=1e-09 Score=85.57 Aligned_cols=75 Identities=25% Similarity=0.585 Sum_probs=69.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
.....+|||.|++..++++.|+..|..||.|.++.+..+. .|+++||+||.|.+.++|..|+..+||..++++.|
T Consensus 267 ~~~~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~~~-~g~skG~gfV~fs~~eeA~~A~~~~n~~~i~~k~l 341 (369)
T KOG0123|consen 267 SLQGANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMVDE-NGKSKGFGFVEFSSPEEAKKAMTEMNGRLIGGKPL 341 (369)
T ss_pred cccccccccccCccccchhHHHHHHhcccceeeEEEEecc-CCCccceEEEEcCCHHHHHHHHHhhChhhhcCCch
Confidence 4556799999999999999999999999999999999986 89999999999999999999999999999998754
No 73
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.00 E-value=1.5e-09 Score=84.49 Aligned_cols=73 Identities=18% Similarity=0.425 Sum_probs=66.0
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
-..+..++|+|.|||++.|+..|++-|..||.|.++.|+. .|+++| .|.|.++++|++|+..|||..+.|+.|
T Consensus 531 gaarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I 603 (608)
T KOG4212|consen 531 GAARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNI 603 (608)
T ss_pred cccccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhccCcccCcee
Confidence 4466778999999999999999999999999999998833 688888 899999999999999999999999865
No 74
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.98 E-value=1e-09 Score=89.30 Aligned_cols=70 Identities=26% Similarity=0.526 Sum_probs=63.0
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCC----CceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANR----PRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~----~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
+|||.||+++++.++|+..|.+.|.|.++.|...+ .+. +.|||||+|.+.++|++|++.|+|+.|.|..|
T Consensus 517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkk-d~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l 590 (725)
T KOG0110|consen 517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKK-DPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKL 590 (725)
T ss_pred hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccc-cccccccccceeEEEecCHHHHHHHHHHhcCceecCceE
Confidence 49999999999999999999999999999887765 343 45999999999999999999999999999764
No 75
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.97 E-value=5.8e-10 Score=82.64 Aligned_cols=68 Identities=24% Similarity=0.515 Sum_probs=63.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
....++|+||||.+.++..+|+..|++||.|.+++|++ +|+||.|.-.++|..|++.|||.++.|+.+
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivk--------dy~fvh~d~~eda~~air~l~~~~~~gk~m 142 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVK--------DYAFVHFDRAEDAVEAIRGLDNTEFQGKRM 142 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeeec--------ceeEEEEeeccchHHHHhccccccccccee
Confidence 45677999999999999999999999999999999988 799999999999999999999999999754
No 76
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.94 E-value=1.7e-09 Score=79.20 Aligned_cols=76 Identities=20% Similarity=0.428 Sum_probs=70.3
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...+...+||+|+.+.++-++++..|+.||.|..+.+..|+.+|.++||+||+|.+.+.++.|++ |||..|.++.+
T Consensus 97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i 172 (231)
T KOG4209|consen 97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAI 172 (231)
T ss_pred hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccc
Confidence 35566789999999999999999999999999999999999999999999999999999999999 99999988753
No 77
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.90 E-value=3.4e-09 Score=80.17 Aligned_cols=69 Identities=22% Similarity=0.411 Sum_probs=59.1
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh-CCCccCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM-HGKSRAS 146 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l-~g~~~~~ 146 (149)
..+..-.+|||++|-..+++.+|++.|.+||+|+++.+.... ++|||+|.+.++|+.|.... |...|.|
T Consensus 223 PeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G 292 (377)
T KOG0153|consen 223 PEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVING 292 (377)
T ss_pred CcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecc
Confidence 445666899999999999999999999999999999988766 89999999999999998755 4444444
No 78
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.90 E-value=2e-09 Score=85.66 Aligned_cols=72 Identities=21% Similarity=0.373 Sum_probs=63.6
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..-+.++|+|-|||..+++++|+.+|+.||+|+.++... ..+|..||+|.+..+|++|++.|++..+.|+.|
T Consensus 71 ~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~-----~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~ 142 (549)
T KOG4660|consen 71 KDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETP-----NKRGIVFVEFYDVRDAERALKALNRREIAGKRI 142 (549)
T ss_pred ccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccc-----ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhh
Confidence 356678999999999999999999999999999975543 446999999999999999999999999988754
No 79
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.89 E-value=5.8e-09 Score=82.09 Aligned_cols=71 Identities=18% Similarity=0.316 Sum_probs=57.8
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
...+|||+|||++++.++|+++|.+||.|+...|..-...++..+||||+|.+.+++..||.. +-..++++
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~ 357 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGR 357 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCe
Confidence 345699999999999999999999999999887665433455559999999999999999973 34455544
No 80
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.88 E-value=1.2e-09 Score=78.09 Aligned_cols=73 Identities=18% Similarity=0.256 Sum_probs=66.6
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
.+..++|||+|+...++|+.|.++|-+.|+|.++.|..++ .++.| ||||.|.++.+..-|++.+||..+.++-
T Consensus 6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e 78 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDE 78 (267)
T ss_pred cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccch
Confidence 4566799999999999999999999999999999998887 77777 9999999999999999999999887754
No 81
>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=98.84 E-value=4.3e-08 Score=62.40 Aligned_cols=68 Identities=16% Similarity=0.291 Sum_probs=62.2
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhc--CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQG--FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~--~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
+||.++|||...+.++|.+.+.. .|..-.+-++.|..++.+.|||||.|.+++.|..-.+.++|+.+.
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~ 71 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWP 71 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccc
Confidence 68999999999999999998876 466788889999989999999999999999999999999999875
No 82
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.75 E-value=6e-09 Score=75.09 Aligned_cols=61 Identities=21% Similarity=0.628 Sum_probs=57.1
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
.+|||+||+.+.+.+|+.+|..||.+..+.+.. ||+||+|.+.-+|..|+..+||..|.+.
T Consensus 3 rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~--------gf~fv~fed~rda~Dav~~l~~~~l~~e 63 (216)
T KOG0106|consen 3 RVYIGRLPYRARERDVERFFKGYGKIPDADMKN--------GFGFVEFEDPRDADDAVHDLDGKELCGE 63 (216)
T ss_pred ceeecccCCccchhHHHHHHhhccccccceeec--------ccceeccCchhhhhcccchhcCceecce
Confidence 689999999999999999999999999987755 8999999999999999999999998875
No 83
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.74 E-value=3.6e-08 Score=80.63 Aligned_cols=76 Identities=22% Similarity=0.391 Sum_probs=65.9
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCC---CCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKI---ANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~---~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
..++..+++||+||++.++++.|-..|..||+|..++|+..+. ..+.+-+|||.|-+..+|++|++.|+|..+.+.
T Consensus 169 dgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~ 247 (877)
T KOG0151|consen 169 DGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEY 247 (877)
T ss_pred CCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeee
Confidence 3456678999999999999999999999999999999887552 335668999999999999999999999987654
No 84
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.73 E-value=1e-07 Score=68.58 Aligned_cols=75 Identities=20% Similarity=0.216 Sum_probs=61.3
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeec-CCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMD-KIANRPRGFAFLRYATEEESRRAIEGMHGKSRAS 146 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~-~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~ 146 (149)
.....-+||||.+||.++--.+|..+|..|-..+...+..- +.....+-+|||+|.+..+|.+|+..|||..++=
T Consensus 29 ~~~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDp 104 (284)
T KOG1457|consen 29 DEPGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDP 104 (284)
T ss_pred ccccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeecc
Confidence 34556789999999999999999999999988777755442 2222345899999999999999999999998763
No 85
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.72 E-value=1.1e-07 Score=72.18 Aligned_cols=74 Identities=22% Similarity=0.309 Sum_probs=66.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEE--------EEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVE--------VNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~--------~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
...++.|||.|||.++|.+++.++|++||.|.+ |++..+. .|+.+|-|.+.|-..++++-|++.|++..+.
T Consensus 131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r 209 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELR 209 (382)
T ss_pred cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCccccc
Confidence 445567999999999999999999999998753 7788887 5999999999999999999999999999998
Q ss_pred CCC
Q 031988 146 SPG 148 (149)
Q Consensus 146 ~~~ 148 (149)
|+.
T Consensus 210 g~~ 212 (382)
T KOG1548|consen 210 GKK 212 (382)
T ss_pred CcE
Confidence 864
No 86
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.64 E-value=1.1e-07 Score=74.92 Aligned_cols=71 Identities=18% Similarity=0.366 Sum_probs=58.5
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
.....-|-+.+|||++|+++|.+||+.++ |+.+.+.+ .+|+..|-|||+|.+.++++.|++ .+...++.+.
T Consensus 7 ~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RY 77 (510)
T KOG4211|consen 7 GSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPR--RNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRY 77 (510)
T ss_pred CCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEec--cCCCcCcceEEEeechHHHHHHHH-hhHHHhCCce
Confidence 34455788899999999999999999994 66655544 479999999999999999999998 6666666654
No 87
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.61 E-value=1.3e-08 Score=80.90 Aligned_cols=77 Identities=19% Similarity=0.372 Sum_probs=70.3
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
......+++|+-.|+..++..+|.+||+.+|.|..|.++.|+.+++++|.|||+|.+.+++..||. |.|+.++|..|
T Consensus 174 ~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv 250 (549)
T KOG0147|consen 174 PEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPV 250 (549)
T ss_pred chHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCcee
Confidence 345566799999999999999999999999999999999999999999999999999999999995 99999888653
No 88
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.55 E-value=8.4e-08 Score=76.73 Aligned_cols=78 Identities=28% Similarity=0.543 Sum_probs=72.4
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
........+||++||...++..++++...||.+....++.|..+|.++||||.+|.+......|+..|||..+++..|
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 345566799999999999999999999999999999999999999999999999999999999999999999998764
No 89
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.47 E-value=2.4e-07 Score=73.12 Aligned_cols=71 Identities=24% Similarity=0.447 Sum_probs=57.8
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEE-EEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVE-VNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~-~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
.....|-+++||+.++++||.+||+..-.|.. +.++.|+ .+++.|-|||.|.+.+.|++|+. -|...|+.+
T Consensus 101 ~~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhR 172 (510)
T KOG4211|consen 101 ANDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALG-RHRENIGHR 172 (510)
T ss_pred CCCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHH-HHHHhhccc
Confidence 45568999999999999999999998766555 4566666 78899999999999999999997 444455444
No 90
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.40 E-value=4e-07 Score=65.58 Aligned_cols=67 Identities=16% Similarity=0.326 Sum_probs=56.6
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
....+|||.||.++++|++|+.+|+.|.....++|.. + .|. .+||++|++.+.|..|+.+|+|..|.
T Consensus 208 ~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~-~-~g~--~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 208 RACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRA-R-GGM--PVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred hhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec-C-CCc--ceEeecHHHHHHHHHHHHHhhcceec
Confidence 3445999999999999999999999998877666633 2 333 79999999999999999999998764
No 91
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.30 E-value=5.8e-07 Score=68.54 Aligned_cols=75 Identities=19% Similarity=0.340 Sum_probs=65.7
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCC--CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFG--QLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G--~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
......+|||||-|+++++||.+.+...| .+.++++..++.+|++||||.|...+..+..+.++.|--++|.|++
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 34455899999999999999999888766 4777888888999999999999999999999999999988888875
No 92
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.26 E-value=1.5e-06 Score=66.29 Aligned_cols=76 Identities=22% Similarity=0.316 Sum_probs=67.8
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEE--------EEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVE--------VNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~--------~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
.....+|||-+|+..+++++|.++|.++|.|.. +.+-+|+.|+++||-|.|.|.+...|..|+.-++++.+.
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 444568999999999999999999999998863 667889999999999999999999999999999999988
Q ss_pred CCCC
Q 031988 146 SPGL 149 (149)
Q Consensus 146 ~~~l 149 (149)
+..|
T Consensus 143 gn~i 146 (351)
T KOG1995|consen 143 GNTI 146 (351)
T ss_pred CCCc
Confidence 7543
No 93
>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=98.26 E-value=3.5e-06 Score=54.58 Aligned_cols=59 Identities=27% Similarity=0.465 Sum_probs=39.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGK 142 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~ 142 (149)
..|.+.+++..++.++|++.|.+||.|..|.+.... .-|||.|.+.+.|+.|+..+...
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 468888999999999999999999999999886654 68999999999999999876443
No 94
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.17 E-value=1.3e-06 Score=66.03 Aligned_cols=73 Identities=23% Similarity=0.494 Sum_probs=65.1
Q ss_pred CCCCeEE-EcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 75 QPKTRLF-VSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 75 ~~~~~l~-v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
....++| |+++++.+++++|+..|..+|.|..+++..++.+|..+|||||.|.+...+..++.. +...++++.
T Consensus 182 ~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~ 255 (285)
T KOG4210|consen 182 GPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRP 255 (285)
T ss_pred CccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcc
Confidence 3344666 999999999999999999999999999999999999999999999999999999886 777777664
No 95
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.13 E-value=1.1e-05 Score=65.01 Aligned_cols=71 Identities=20% Similarity=0.428 Sum_probs=59.1
Q ss_pred CCCCeEEEcCCCCCCCH------HHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCC
Q 031988 75 QPKTRLFVSGLSFRTSE------DSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRAS 146 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~------~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~ 146 (149)
.-...|+|.|+|.--.. ..|.++|+++|+|....++.+.. |.++||.|++|.+..+|..|++.|||+.|+-
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~-ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldk 132 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEE-GGTKGYLFVEYASMRDAKKAVKSLNGKRLDK 132 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCcc-CCeeeEEEEEecChhhHHHHHHhcccceecc
Confidence 44457889999874332 34678999999999999988874 5599999999999999999999999998764
No 96
>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=98.12 E-value=2.6e-05 Score=48.04 Aligned_cols=62 Identities=29% Similarity=0.434 Sum_probs=42.3
Q ss_pred CeEEEcCCCCCCCHHH----HHHHHhcCCC-eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 78 TRLFVSGLSFRTSEDS----LRNAFQGFGQ-LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~----l~~~F~~~G~-i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..|||.|||.+.+... |+.++.-||. |.+| +| +-|+|.|.+.+.|++|.+.|+|..+-|..|
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v-------~~---~tAilrF~~~~~A~RA~KRmegEdVfG~kI 69 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV-------SG---GTAILRFPNQEFAERAQKRMEGEDVFGNKI 69 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE---------T---T-EEEEESSHHHHHHHHHHHTT--SSSS--
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE-------eC---CEEEEEeCCHHHHHHHHHhhcccccccceE
Confidence 4699999999988765 5567777875 5554 12 899999999999999999999998777643
No 97
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.00 E-value=4.2e-05 Score=53.87 Aligned_cols=67 Identities=21% Similarity=0.340 Sum_probs=60.1
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRAS 146 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~ 146 (149)
.......|.|.+||++.++.+|++...+.|.|....+.+| |++.|+|-..++.+-|++.|+.+.+..
T Consensus 111 srrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~s 177 (241)
T KOG0105|consen 111 SRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFRS 177 (241)
T ss_pred ccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhccccccC
Confidence 3456678999999999999999999999999999999887 799999999999999999998876543
No 98
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.98 E-value=3.3e-05 Score=55.71 Aligned_cols=69 Identities=19% Similarity=0.454 Sum_probs=61.5
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
....+...+++.|||..++.+.|..+|.+|...+.++++... .+.|||+|.+...+..|...++|..|.
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 346677899999999999999999999999999999888765 289999999999999999999988765
No 99
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.97 E-value=2.7e-05 Score=44.16 Aligned_cols=52 Identities=25% Similarity=0.576 Sum_probs=41.6
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHH
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAI 136 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al 136 (149)
+.|-|.|.+++..+..| ..|..||+|..+.+... ....||.|.+..+|++|+
T Consensus 2 ~wI~V~Gf~~~~~~~vl-~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEEVL-EHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHHHH-HHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 46778888887665554 58889999999887632 379999999999999985
No 100
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.97 E-value=1e-05 Score=59.39 Aligned_cols=73 Identities=11% Similarity=0.175 Sum_probs=62.3
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCC--------CCCce----EEEEEeCCHHHHHHHHHHhCCCc
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIA--------NRPRG----FAFLRYATEEESRRAIEGMHGKS 143 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~--------g~~~g----~~fV~f~~~~~a~~Al~~l~g~~ 143 (149)
....||+++||+.++..-|+++|..||.|-+|-+.....+ |.+.+ -|.|+|.+...|.+....|||..
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 4568999999999999999999999999999988765544 33333 46799999999999999999999
Q ss_pred cCCCC
Q 031988 144 RASPG 148 (149)
Q Consensus 144 ~~~~~ 148 (149)
|+|+.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99973
No 101
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.90 E-value=7.3e-06 Score=59.26 Aligned_cols=68 Identities=31% Similarity=0.565 Sum_probs=59.3
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
....+.+.|.+++..+++.+|.+.|.++|++....+ ..+++||+|...+++..|+..|+|..+.++.|
T Consensus 96 ~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l 163 (216)
T KOG0106|consen 96 SRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRI 163 (216)
T ss_pred ccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccchhhcCcee
Confidence 556678999999999999999999999999855433 23899999999999999999999999988764
No 102
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.89 E-value=4.5e-05 Score=60.88 Aligned_cols=66 Identities=21% Similarity=0.412 Sum_probs=60.8
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhc-CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQG-FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~-~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~ 137 (149)
..-++.+|||||+||.-++.++|-.+|+. ||.|..+-|-.|+.-+=++|-|-|+|.+..+-.+||.
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 45678899999999999999999999995 9999999999997788899999999999999999985
No 103
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.88 E-value=3.6e-05 Score=58.72 Aligned_cols=74 Identities=19% Similarity=0.394 Sum_probs=56.1
Q ss_pred CCCeEEEcCCCCCCCHHH----H--HHHHhcCCCeEEEEEeecCCCCC-CceEE--EEEeCCHHHHHHHHHHhCCCccCC
Q 031988 76 PKTRLFVSGLSFRTSEDS----L--RNAFQGFGQLVEVNLVMDKIANR-PRGFA--FLRYATEEESRRAIEGMHGKSRAS 146 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~----l--~~~F~~~G~i~~~~i~~~~~~g~-~~g~~--fV~f~~~~~a~~Al~~l~g~~~~~ 146 (149)
...-+||-+|++.+..++ | .++|.+||.|..|.|-+...+-. ..+.+ |++|.+.++|.+||...+|..++|
T Consensus 113 QKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DG 192 (480)
T COG5175 113 QKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDG 192 (480)
T ss_pred ecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccC
Confidence 345789999998876655 3 47999999999986644321111 12323 999999999999999999999999
Q ss_pred CCC
Q 031988 147 PGL 149 (149)
Q Consensus 147 ~~l 149 (149)
+.|
T Consensus 193 r~l 195 (480)
T COG5175 193 RVL 195 (480)
T ss_pred ceE
Confidence 865
No 104
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.83 E-value=7.1e-05 Score=58.39 Aligned_cols=68 Identities=22% Similarity=0.342 Sum_probs=61.1
Q ss_pred CCeEEEcCCCC-CCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 77 KTRLFVSGLSF-RTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 77 ~~~l~v~nL~~-~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...|.|.||.+ .+|.+.|-.+|..||.|.+|+|..++. --|.|.|.+...|+-|+.+|+|..+.|+.|
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~l 365 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGKKL 365 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCceE
Confidence 56888999976 499999999999999999999988762 689999999999999999999999998764
No 105
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.76 E-value=3.4e-05 Score=59.70 Aligned_cols=73 Identities=23% Similarity=0.400 Sum_probs=61.1
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCC-eEE--EEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQ-LVE--VNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~-i~~--~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
......|-+++||+..+.++|-+||..|.. |.. |.++.+. .|+..|-|||+|.+.++|.+|....+.+....+
T Consensus 277 ~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~R 352 (508)
T KOG1365|consen 277 TRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSR 352 (508)
T ss_pred CCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccc
Confidence 344668999999999999999999999875 444 6777765 799999999999999999999988877665444
No 106
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.76 E-value=8.4e-05 Score=61.47 Aligned_cols=72 Identities=15% Similarity=0.236 Sum_probs=61.9
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
.+.|-+.|.|++++-+||.+||..|-.+-.-.+++-...|+..|-|.|.|++.++|.+|...|+++.|.++.
T Consensus 867 p~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~ 938 (944)
T KOG4307|consen 867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRV 938 (944)
T ss_pred CeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCccccee
Confidence 347889999999999999999999977654434444458999999999999999999999999999998874
No 107
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.72 E-value=1.4e-05 Score=66.90 Aligned_cols=94 Identities=21% Similarity=0.345 Sum_probs=79.0
Q ss_pred ccCCCCCCCCCcccCCCCCCCCCCC-----CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEE
Q 031988 50 RQGRGRGACFPLACLPPSPHSLSTC-----QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFL 124 (149)
Q Consensus 50 ~~~r~~~~~~~~~~~~~~~~~~~~~-----~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV 124 (149)
..++-+|.+|+.+..+........- .....++|.|.|+..+.++|+.++..+|.+.++.++..+ .|+++|.++|
T Consensus 704 n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v 782 (881)
T KOG0128|consen 704 NEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFGKISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARV 782 (881)
T ss_pred hccccccceeeEeecCCchhhhhhhhhhhhhhhhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceec
Confidence 3678889999999988876554322 234589999999999999999999999999999988887 8999999999
Q ss_pred EeCCHHHHHHHHHHhCCCcc
Q 031988 125 RYATEEESRRAIEGMHGKSR 144 (149)
Q Consensus 125 ~f~~~~~a~~Al~~l~g~~~ 144 (149)
.|.++.++.++....++..+
T Consensus 783 ~y~~ea~~s~~~~s~d~~~~ 802 (881)
T KOG0128|consen 783 DYNTEADASRKVASVDVAGK 802 (881)
T ss_pred cCCCcchhhhhcccchhhhh
Confidence 99999999998866655443
No 108
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.58 E-value=0.00033 Score=56.09 Aligned_cols=66 Identities=21% Similarity=0.468 Sum_probs=50.4
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecC-CCC--CCce---EEEEEeCCHHHHHHHHHHh
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDK-IAN--RPRG---FAFLRYATEEESRRAIEGM 139 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~-~~g--~~~g---~~fV~f~~~~~a~~Al~~l 139 (149)
...-.++||||+||++++|+.|...|..||.+. |.++... ..+ -++| |.|+.|+++.++..-+..+
T Consensus 255 ~~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 255 SPRYSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred ccccccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 345567999999999999999999999999864 4444211 111 2456 9999999999988877655
No 109
>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=97.43 E-value=0.00053 Score=43.95 Aligned_cols=70 Identities=16% Similarity=0.280 Sum_probs=46.6
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEE-EeecC------CCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVN-LVMDK------IANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~-i~~~~------~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
...-|.|-|.|+. ..+.+-..|++||.|.+.. +..+. ........-.|.|.++.+|.+||. -||..++|.
T Consensus 5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~ 81 (100)
T PF05172_consen 5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGS 81 (100)
T ss_dssp GCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTC
T ss_pred CCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCc
Confidence 3456888899998 4566677899999987763 11100 011223788999999999999997 899988874
No 110
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.36 E-value=0.00047 Score=52.82 Aligned_cols=73 Identities=21% Similarity=0.428 Sum_probs=56.4
Q ss_pred CCCCCCeEEEcCCC----CCCC-------HHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCC
Q 031988 73 TCQPKTRLFVSGLS----FRTS-------EDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHG 141 (149)
Q Consensus 73 ~~~~~~~l~v~nL~----~~~~-------~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g 141 (149)
.....++|.+.|+= ...+ +++|++-..+||.|.+|.|. + ..+.|.+-|.|.+.+.|..||+.|+|
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-D---RHPDGVVTVSFRNNEEADQCIQTMDG 336 (382)
T ss_pred cccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEe-c---cCCCceeEEEeCChHHHHHHHHHhcC
Confidence 34556789999872 2233 24566667899999999664 2 23459999999999999999999999
Q ss_pred CccCCCCC
Q 031988 142 KSRASPGL 149 (149)
Q Consensus 142 ~~~~~~~l 149 (149)
..++||.|
T Consensus 337 R~fdgRql 344 (382)
T KOG1548|consen 337 RWFDGRQL 344 (382)
T ss_pred eeecceEE
Confidence 99999865
No 111
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.32 E-value=0.0004 Score=58.89 Aligned_cols=70 Identities=23% Similarity=0.442 Sum_probs=62.2
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
.....+.+|+++|.+++....|...|..||.|..|.+-... -|+||.|++...++.|++.|-|..|+++.
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq------~yayi~yes~~~aq~a~~~~rgap~G~P~ 520 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQ------PYAYIQYESPPAAQAATHDMRGAPLGGPP 520 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCC------cceeeecccCccchhhHHHHhcCcCCCCC
Confidence 34566799999999999999999999999999998764433 79999999999999999999999999863
No 112
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.31 E-value=0.0031 Score=49.01 Aligned_cols=72 Identities=22% Similarity=0.270 Sum_probs=62.2
Q ss_pred CCCCCCeEEEcCCCCC-CCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 73 TCQPKTRLFVSGLSFR-TSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~-~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
...++..+.|-+|+.. ++.+.|-.+|=.||.|++|++++-+. |-|.|++.+....++|+.+||+..+-|..|
T Consensus 283 g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~-----gtamVemgd~~aver~v~hLnn~~lfG~kl 355 (494)
T KOG1456|consen 283 GGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP-----GTAMVEMGDAYAVERAVTHLNNIPLFGGKL 355 (494)
T ss_pred CCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc-----ceeEEEcCcHHHHHHHHHHhccCccccceE
Confidence 4566789999999875 66788999999999999999988653 899999999999999999999998877654
No 113
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.30 E-value=0.00057 Score=53.71 Aligned_cols=69 Identities=19% Similarity=0.301 Sum_probs=56.7
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeec---CCCC--CC--------ceEEEEEeCCHHHHHHHHHHh
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMD---KIAN--RP--------RGFAFLRYATEEESRRAIEGM 139 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~---~~~g--~~--------~g~~fV~f~~~~~a~~Al~~l 139 (149)
..-+.++|.+.|||.+-.-+-|.++|..+|.|+.|+|... +.++ .. +-+|+|+|...+.|.+|-+.+
T Consensus 227 eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~ 306 (484)
T KOG1855|consen 227 EELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELL 306 (484)
T ss_pred cccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhh
Confidence 3457889999999999888999999999999999998765 2222 22 458999999999999999877
Q ss_pred CC
Q 031988 140 HG 141 (149)
Q Consensus 140 ~g 141 (149)
|.
T Consensus 307 ~~ 308 (484)
T KOG1855|consen 307 NP 308 (484)
T ss_pred ch
Confidence 54
No 114
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.27 E-value=0.0013 Score=51.19 Aligned_cols=60 Identities=27% Similarity=0.374 Sum_probs=50.3
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhc----CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQG----FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~----~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~ 137 (149)
.-.|-.++||+++++.++.+||.+ -|..+.+.+++.. +|+..|-|||.|..+++|..|+.
T Consensus 161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~ 224 (508)
T KOG1365|consen 161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALR 224 (508)
T ss_pred ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHH
Confidence 346777899999999999999973 2356667677755 89999999999999999999996
No 115
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.23 E-value=0.00087 Score=54.15 Aligned_cols=56 Identities=25% Similarity=0.383 Sum_probs=46.1
Q ss_pred HHHHHHhcCCCeEEEEEeecCCC---CCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 93 SLRNAFQGFGQLVEVNLVMDKIA---NRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 93 ~l~~~F~~~G~i~~~~i~~~~~~---g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
+++.-+.+||.|..|.+.++... .-+.|--||+|.+.+++++|+..|+|.++.|+.
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRt 483 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRT 483 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcE
Confidence 34455678999999999887222 345688999999999999999999999999875
No 116
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=97.23 E-value=0.00053 Score=50.56 Aligned_cols=66 Identities=23% Similarity=0.365 Sum_probs=57.6
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCcc
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSR 144 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~ 144 (149)
..|||.||...++-+.|...|+.||+|....++-|. .+++.+-++|+|...-.+..|+..++-.-+
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~ 97 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCREGGF 97 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHhccCcc
Confidence 579999999999999999999999999887666664 689999999999999999999988754333
No 117
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.08 E-value=3.2e-05 Score=64.92 Aligned_cols=65 Identities=29% Similarity=0.414 Sum_probs=57.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGK 142 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~ 142 (149)
.++||.||+..+.+.+|...|..+|.+..+++.....+++.+|+|||+|...+++.+|+....+.
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~ 732 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSC 732 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhh
Confidence 47899999999999999999999999998877755668999999999999999999999754443
No 118
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.02 E-value=0.0035 Score=48.76 Aligned_cols=67 Identities=19% Similarity=0.285 Sum_probs=56.0
Q ss_pred CCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031988 65 PPSPHSLSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (149)
Q Consensus 65 ~~~~~~~~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~ 137 (149)
.+....+....++-.|.|++|...++|.+|-+.++.||.|..+..+..+ .-+.|+|++.+.|++++.
T Consensus 19 ~e~~~dphk~~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~------r~alvefedi~~akn~Vn 85 (494)
T KOG1456|consen 19 REDNADPHKPNPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHK------RQALVEFEDIEGAKNCVN 85 (494)
T ss_pred cccCCCCCCCCCCceEEEeccccccchhHHHHHHhcCCceEEEEecccc------ceeeeeeccccchhhhee
Confidence 3334444456667789999999999999999999999999999776655 689999999999998875
No 119
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.97 E-value=0.0031 Score=49.48 Aligned_cols=70 Identities=24% Similarity=0.320 Sum_probs=57.7
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
-++..++.+.|+|++++|++|+..|..-|...+... .-++.+-++++.+.+.++|..|+..++.+.+++.
T Consensus 411 ~PpsatlHlsnip~svsee~lk~~f~~~g~~vkafk----ff~kd~kmal~q~~sveeA~~ali~~hnh~lgen 480 (492)
T KOG1190|consen 411 FPPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFK----FFQKDRKMALPQLESVEEAIQALIDLHNHYLGEN 480 (492)
T ss_pred CCchhheeeccCCcccchhHHHHhhhcCCceEEeee----ecCCCcceeecccCChhHhhhhccccccccCCCC
Confidence 356679999999999999999999999877544322 2344558999999999999999999999988765
No 120
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.91 E-value=0.0077 Score=35.10 Aligned_cols=55 Identities=16% Similarity=0.313 Sum_probs=44.9
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcC---CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGF---GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM 139 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~---G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l 139 (149)
..+|+|.|++. ++.++++.+|..| ....+|.++-|. -|-|.|.+.+.|.+||..|
T Consensus 5 peavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 34799999966 6778899999988 235678898885 5778999999999999864
No 121
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.77 E-value=0.00069 Score=49.91 Aligned_cols=55 Identities=15% Similarity=0.391 Sum_probs=44.2
Q ss_pred HHHHHh-cCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 94 LRNAFQ-GFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 94 l~~~F~-~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
+...|+ +||+|+.+.|-.+. .-.-.|=.||.|...++|++|+..|||..+.|+.|
T Consensus 85 ~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi 140 (260)
T KOG2202|consen 85 VFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPI 140 (260)
T ss_pred HHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcc
Confidence 333344 89999998654443 44567999999999999999999999999999865
No 122
>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=96.69 E-value=0.049 Score=35.50 Aligned_cols=67 Identities=16% Similarity=0.211 Sum_probs=50.2
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCC-CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFG-QLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G-~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
...+.+...|..++.++|..+.+.+- .|..++|++|. ..++-...+.|.+.++|..-.+.+||+.+.
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 33444545555566667776666654 48888999874 346789999999999999999999999874
No 123
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.67 E-value=0.00042 Score=58.81 Aligned_cols=74 Identities=19% Similarity=0.303 Sum_probs=64.5
Q ss_pred CCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCC
Q 031988 72 STCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRAS 146 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~ 146 (149)
.+.....+||+|||+..+++.+|+..|..+|.|.+|.|..-+ -+...-|+||.|.+...+..|+..+.+..|+.
T Consensus 367 DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~ 440 (975)
T KOG0112|consen 367 DDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGN 440 (975)
T ss_pred cchhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCCcccc
Confidence 456677899999999999999999999999999999887764 45556799999999999999999888887764
No 124
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.56 E-value=0.0027 Score=50.09 Aligned_cols=60 Identities=22% Similarity=0.402 Sum_probs=46.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCc
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKS 143 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~ 143 (149)
.++|++||.+.++..+|+.+|...-.-..-.+.... ||+||.+.+...|.+|++.++|+.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~------gyafvd~pdq~wa~kaie~~sgk~ 61 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKS------GYAFVDCPDQQWANKAIETLSGKV 61 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeeec------ceeeccCCchhhhhhhHHhhchhh
Confidence 368999999999999999999864211111122222 999999999999999999998874
No 125
>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=96.52 E-value=0.019 Score=35.40 Aligned_cols=53 Identities=15% Similarity=0.330 Sum_probs=41.5
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~ 140 (149)
..+|. .|..+-..||.++|+.||.|. |.++.| .-|||...+.+.|..++..++
T Consensus 11 VFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~d-------TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 11 VFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWIND-------TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp EEEEE---TT--HHHHHHHCCCCCCEE-EEEECT-------TEEEEEECCCHHHHHHHHHHT
T ss_pred EEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcC-------CcEEEEeecHHHHHHHHHHhc
Confidence 45555 999999999999999999975 667776 489999999999999998775
No 126
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=96.49 E-value=0.0094 Score=45.04 Aligned_cols=57 Identities=12% Similarity=0.193 Sum_probs=45.8
Q ss_pred HHHHHHHhcCCCeEEEEEeecCCCCCCc-eEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 92 DSLRNAFQGFGQLVEVNLVMDKIANRPR-GFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 92 ~~l~~~F~~~G~i~~~~i~~~~~~g~~~-g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
+++++-.++||.|..|.|..++..-... ---||+|...++|.+|+.-|||.-|+|+.
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~ 358 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRV 358 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceeccee
Confidence 4567778899999999777665322222 35799999999999999999999999985
No 127
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.46 E-value=0.0034 Score=49.04 Aligned_cols=70 Identities=11% Similarity=0.184 Sum_probs=56.3
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCC---CCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKI---ANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~---~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
..|-|.||.++++.+.++.+|.-.|.|..+.+..... -....-.|||.|.+..++..|-. |.++++-++.
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdra 80 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRA 80 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeee
Confidence 3799999999999999999999999999998876431 22345699999999999998865 7666665543
No 128
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.36 E-value=0.0027 Score=48.51 Aligned_cols=72 Identities=21% Similarity=0.408 Sum_probs=55.0
Q ss_pred CCeEEEcCCCCCCCHHH-HH--HHHhcCCCeEEEEEeecCC--CC-CCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 77 KTRLFVSGLSFRTSEDS-LR--NAFQGFGQLVEVNLVMDKI--AN-RPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~-l~--~~F~~~G~i~~~~i~~~~~--~g-~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
...+||-+|+.....+. |+ +.|.+||.|.++.+-.+.. .+ .+-.-++|+|...++|..||...+|..+.|+.
T Consensus 77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~ 154 (327)
T KOG2068|consen 77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRA 154 (327)
T ss_pred hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhh
Confidence 35788999998765544 43 5789999999998777652 11 11234999999999999999999999888875
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=96.34 E-value=0.0054 Score=43.36 Aligned_cols=72 Identities=10% Similarity=0.103 Sum_probs=46.7
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhc-CCCe---EEEEEee-cCCCCC-CceEEEEEeCCHHHHHHHHHHhCCCccCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQG-FGQL---VEVNLVM-DKIANR-PRGFAFLRYATEEESRRAIEGMHGKSRAS 146 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~-~G~i---~~~~i~~-~~~~g~-~~g~~fV~f~~~~~a~~Al~~l~g~~~~~ 146 (149)
....+|.|++||+.++++++.+.+.. ++.- ..+.-.. +..... .-.-|||.|.+.+++..-...++|+.+.+
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D 82 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVD 82 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEEC
Confidence 34568999999999999998887776 6664 3443112 121222 34689999999999999999999987644
No 130
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=96.34 E-value=0.0061 Score=50.39 Aligned_cols=76 Identities=16% Similarity=0.212 Sum_probs=61.8
Q ss_pred CCCCCCCCCCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCcc
Q 031988 65 PPSPHSLSTCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSR 144 (149)
Q Consensus 65 ~~~~~~~~~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~ 144 (149)
++........++..++||+|+...+..+-++.+...+|.|..+.... |||..|..+...-+|+..++-..+
T Consensus 28 ~p~qp~~~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~ 98 (668)
T KOG2253|consen 28 VPIQPVFQPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNI 98 (668)
T ss_pred cCCcccccCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCC
Confidence 33333444466777999999999999999999999999988764332 999999999999999998888888
Q ss_pred CCCCC
Q 031988 145 ASPGL 149 (149)
Q Consensus 145 ~~~~l 149 (149)
+|+.|
T Consensus 99 ~~~kl 103 (668)
T KOG2253|consen 99 DDQKL 103 (668)
T ss_pred Ccchh
Confidence 77654
No 131
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=95.89 E-value=0.016 Score=39.58 Aligned_cols=67 Identities=21% Similarity=0.298 Sum_probs=46.1
Q ss_pred CCCCCeEEEcCCCC------CCCH---HHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCcc
Q 031988 74 CQPKTRLFVSGLSF------RTSE---DSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSR 144 (149)
Q Consensus 74 ~~~~~~l~v~nL~~------~~~~---~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~ 144 (149)
.++..||.|.-+.+ ..++ .+|-+.|..||.+.=++++. +--.|+|.+-.+|-+|+. ++|.++
T Consensus 24 GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~--------~~mwVTF~dg~sALaals-~dg~~v 94 (146)
T PF08952_consen 24 GPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVG--------DTMWVTFRDGQSALAALS-LDGIQV 94 (146)
T ss_dssp --TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEET--------TCEEEEESSCHHHHHHHH-GCCSEE
T ss_pred CCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeC--------CeEEEEECccHHHHHHHc-cCCcEE
Confidence 44555777765541 2333 25777888999987776655 457899999999999997 999999
Q ss_pred CCCCC
Q 031988 145 ASPGL 149 (149)
Q Consensus 145 ~~~~l 149 (149)
.|+.|
T Consensus 95 ~g~~l 99 (146)
T PF08952_consen 95 NGRTL 99 (146)
T ss_dssp TTEEE
T ss_pred CCEEE
Confidence 88653
No 132
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=95.70 E-value=0.0091 Score=49.01 Aligned_cols=65 Identities=22% Similarity=0.319 Sum_probs=54.4
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhc-CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCcc
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQG-FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSR 144 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~-~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~ 144 (149)
...++.|+|.||-.-.|.-.|+.++.. +|.|... ..|+ .|..|||.|.+.++|.+....|||..+
T Consensus 441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDk----IKShCyV~yss~eEA~atr~AlhnV~W 506 (718)
T KOG2416|consen 441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDK----IKSHCYVSYSSVEEAAATREALHNVQW 506 (718)
T ss_pred CCccceEeeecccccchHHHHHHHHhhccCchHHH--HHHH----hhcceeEecccHHHHHHHHHHHhcccc
Confidence 566789999999999999999999996 6667665 2332 358999999999999999999999865
No 133
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=95.61 E-value=0.012 Score=49.28 Aligned_cols=64 Identities=19% Similarity=0.157 Sum_probs=52.9
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEE-EEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVE-VNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~-~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~ 137 (149)
.......|||..||..+++.++.++|...-.|++ |.+...+ +++-++.|||.|..++.+..|..
T Consensus 430 P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~ 494 (944)
T KOG4307|consen 430 PGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASS 494 (944)
T ss_pred CCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhh
Confidence 3455679999999999999999999998777776 6666655 88999999999999777776664
No 134
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.57 E-value=0.068 Score=36.41 Aligned_cols=62 Identities=16% Similarity=0.275 Sum_probs=46.4
Q ss_pred CCCCCeEEEcCCCCCCCH-HH---HHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCC
Q 031988 74 CQPKTRLFVSGLSFRTSE-DS---LRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGK 142 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~-~~---l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~ 142 (149)
+.+-.+|.|+=|..++.. +| +-..++.||+|.+|.. .| +.-|.|.|++..+|.+|+..++..
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~-----cG--rqsavVvF~d~~SAC~Av~Af~s~ 148 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTL-----CG--RQSAVVVFKDITSACKAVSAFQSR 148 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeee-----cC--CceEEEEehhhHHHHHHHHhhcCC
Confidence 455568888877666543 34 4456678999999854 23 368999999999999999988764
No 135
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=95.38 E-value=0.035 Score=45.20 Aligned_cols=71 Identities=21% Similarity=0.255 Sum_probs=53.7
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhc-CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCcc
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQG-FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSR 144 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~-~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~ 144 (149)
....+++.|.|++...|...|.+.-++ .|.-..+-++.|-.+..+.|||||.|-+.+.+..+.+++||+..
T Consensus 385 e~~rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W 456 (549)
T KOG4660|consen 385 ECPRTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKW 456 (549)
T ss_pred cCchhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCch
Confidence 344456666666666555555544333 67777788888887888999999999999999999999999864
No 136
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=93.93 E-value=0.041 Score=41.87 Aligned_cols=72 Identities=18% Similarity=0.087 Sum_probs=60.2
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRAS 146 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~ 146 (149)
....+.|++++.+.+.+.+...++..+|.+....+........++|++++.|...+.+..|+.....+.+.+
T Consensus 86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~ 157 (285)
T KOG4210|consen 86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDG 157 (285)
T ss_pred cccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhcccccc
Confidence 356799999999999999888999999988877777766788999999999999999999998444344444
No 137
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=93.82 E-value=0.23 Score=37.82 Aligned_cols=62 Identities=18% Similarity=0.272 Sum_probs=47.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
.=|-|-+.++. +-..+...|++||.|.+... +....+-+|.|.+..+|++||. .||+.|+|-
T Consensus 198 ~WVTVfGFppg-~~s~vL~~F~~cG~Vvkhv~------~~ngNwMhirYssr~~A~KALs-kng~ii~g~ 259 (350)
T KOG4285|consen 198 TWVTVFGFPPG-QVSIVLNLFSRCGEVVKHVT------PSNGNWMHIRYSSRTHAQKALS-KNGTIIDGD 259 (350)
T ss_pred ceEEEeccCcc-chhHHHHHHHhhCeeeeeec------CCCCceEEEEecchhHHHHhhh-hcCeeeccc
Confidence 34556678775 34567778999999887633 3334789999999999999997 888888774
No 138
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=93.66 E-value=0.46 Score=38.15 Aligned_cols=70 Identities=16% Similarity=0.264 Sum_probs=59.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcC-CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGF-GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~-G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
+.+++.|.|-.+|-.++-.||-.|...+ -.|.++++++|. --++=...+.|.+.++|..-.+.+||..|.
T Consensus 71 ~~~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~--~pnrymvLIkFr~q~da~~Fy~efNGk~Fn 141 (493)
T KOG0804|consen 71 ASSSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG--MPNRYMVLIKFRDQADADTFYEEFNGKQFN 141 (493)
T ss_pred CCCCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC--CCceEEEEEEeccchhHHHHHHHcCCCcCC
Confidence 3337899999999999999999999885 459999999964 233457899999999999999999999875
No 139
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=93.08 E-value=0.63 Score=38.41 Aligned_cols=68 Identities=9% Similarity=0.276 Sum_probs=53.2
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhc--CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHH-------hCCCc
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQG--FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEG-------MHGKS 143 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~--~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~-------l~g~~ 143 (149)
.....+.|.++-||..+-.++++.+|.. |-.+.+|.+-.+. -=||+|++..+|+.|.+. +.|+.
T Consensus 171 p~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKp 243 (684)
T KOG2591|consen 171 PNHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKP 243 (684)
T ss_pred cCcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcc
Confidence 3455678889999999999999999985 8888888776653 348999999999999754 45555
Q ss_pred cCCC
Q 031988 144 RASP 147 (149)
Q Consensus 144 ~~~~ 147 (149)
|..|
T Consensus 244 ImAR 247 (684)
T KOG2591|consen 244 IMAR 247 (684)
T ss_pred hhhh
Confidence 5443
No 140
>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=92.40 E-value=0.26 Score=35.08 Aligned_cols=53 Identities=17% Similarity=0.199 Sum_probs=41.1
Q ss_pred CHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC--CCccCCCC
Q 031988 90 SEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH--GKSRASPG 148 (149)
Q Consensus 90 ~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~--g~~~~~~~ 148 (149)
..+.|+++|..++.+......+.- +-..|.|.+.+.|.+|...|+ +..+.|..
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sF------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~ 62 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSF------RRIRVVFESPESAQRARQLLHWDGTSFNGKR 62 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTT------TEEEEE-SSTTHHHHHHHTST--TSEETTEE
T ss_pred hHHHHHHHHHhcCCceEEEEcCCC------CEEEEEeCCHHHHHHHHHHhcccccccCCCc
Confidence 347899999999998887766654 678899999999999999999 88877753
No 141
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=91.66 E-value=0.046 Score=39.83 Aligned_cols=90 Identities=19% Similarity=0.224 Sum_probs=69.5
Q ss_pred cCCCCCCCCCcccCCCCCCCC---------CCCCCCCeEEEcC----CCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCC
Q 031988 51 QGRGRGACFPLACLPPSPHSL---------STCQPKTRLFVSG----LSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANR 117 (149)
Q Consensus 51 ~~r~~~~~~~~~~~~~~~~~~---------~~~~~~~~l~v~n----L~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~ 117 (149)
.+..+ ++++.+....+...+ ...+...+++.|+ |...++++.+...|...|.++.+++..+. .|+
T Consensus 46 d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~r 123 (267)
T KOG4454|consen 46 DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGR 123 (267)
T ss_pred cCCCc-eeeeecccccchhhhhhhcccchhccchhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCC
Confidence 34444 777777666554333 3455567888998 88899999999999999999999999987 699
Q ss_pred CceEEEEEeCCHHHHHHHHHHhCCC
Q 031988 118 PRGFAFLRYATEEESRRAIEGMHGK 142 (149)
Q Consensus 118 ~~g~~fV~f~~~~~a~~Al~~l~g~ 142 (149)
++.++|+.+.-....-.++....+.
T Consensus 124 nrn~~~~~~qr~~~~P~~~~~y~~l 148 (267)
T KOG4454|consen 124 NRNFGFVTYQRLCAVPFALDLYQGL 148 (267)
T ss_pred ccCccchhhhhhhcCcHHhhhhccc
Confidence 9999999998777777777655554
No 142
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=90.18 E-value=3 Score=31.79 Aligned_cols=61 Identities=13% Similarity=0.243 Sum_probs=41.8
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCe-EEEEEeecCCCCCCceEEEEEeCCH-------HHHHHHHHHhC
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQL-VEVNLVMDKIANRPRGFAFLRYATE-------EESRRAIEGMH 140 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i-~~~~i~~~~~~g~~~g~~fV~f~~~-------~~a~~Al~~l~ 140 (149)
....+-||++||+.++.-.||+.-+.+-+-+ .++.+.- +.|-||+.|.+. +++.+++..+|
T Consensus 327 a~~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg------~~~k~flh~~~~~~~~~~~~~~~~~~~s~~ 395 (396)
T KOG4410|consen 327 AGAKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKG------HFGKCFLHFGNRKGVPSTQDDMDKVLKSLN 395 (396)
T ss_pred CccccceeeccCccccchHHHHHHHHhcCCCceeEeeec------CCcceeEecCCccCCCCCchHHHHHhccCC
Confidence 3444579999999999999999999887653 3443322 348899999654 44455544443
No 143
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=89.63 E-value=0.04 Score=43.24 Aligned_cols=68 Identities=13% Similarity=0.143 Sum_probs=54.0
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
-.+..++++|++|+..+...++.+.|..+|+|....+. .|-..-+|-++|....+...|++ ++|..+.
T Consensus 147 leeirRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a----sk~~s~~c~~sf~~qts~~halr-~~gre~k 214 (479)
T KOG4676|consen 147 LEEIRRTREVQSLISAAILPESGESFERKGEVSYAHTA----SKSRSSSCSHSFRKQTSSKHALR-SHGRERK 214 (479)
T ss_pred hHHHHhhhhhhcchhhhcchhhhhhhhhcchhhhhhhh----ccCCCcchhhhHhhhhhHHHHHH-hcchhhh
Confidence 34445789999999999999999999999998876553 34444678899999999999987 6666553
No 144
>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=89.43 E-value=2.4 Score=25.00 Aligned_cols=50 Identities=10% Similarity=0.277 Sum_probs=38.8
Q ss_pred CCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCC
Q 031988 88 RTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRAS 146 (149)
Q Consensus 88 ~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~ 146 (149)
.++-++++..+..|+- .+|..|+ + | =||.|.+..+|+++....+|..+.+
T Consensus 11 ~~~v~d~K~~Lr~y~~---~~I~~d~-t----G-fYIvF~~~~Ea~rC~~~~~~~~~f~ 60 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW---DRIRDDR-T----G-FYIVFNDSKEAERCFRAEDGTLFFT 60 (66)
T ss_pred CccHHHHHHHHhcCCc---ceEEecC-C----E-EEEEECChHHHHHHHHhcCCCEEEE
Confidence 3567899999999975 3344555 2 3 4899999999999999999987654
No 145
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=89.35 E-value=0.14 Score=41.11 Aligned_cols=66 Identities=18% Similarity=0.248 Sum_probs=50.0
Q ss_pred CCCeEEEcCCCCCC-CHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 76 PKTRLFVSGLSFRT-SEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 76 ~~~~l~v~nL~~~~-~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
..+.+-+.-.|+.. +.++|...|.+||.|..|++-... --|.|+|.+..+|-.|.. .++..|.|+-
T Consensus 371 dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~~-s~~avlnnr~ 437 (526)
T KOG2135|consen 371 DHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAYA-SHGAVLNNRF 437 (526)
T ss_pred ccchhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchhc-cccceecCce
Confidence 33455566666654 458999999999999999886653 578999999999977765 7777777764
No 146
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.07 E-value=1.7 Score=36.05 Aligned_cols=73 Identities=18% Similarity=0.262 Sum_probs=56.5
Q ss_pred CCCCCeEEEcCCCCC-CCHHHHHHHHhcC----CCeEEEEEeecCC----------CCC---------------------
Q 031988 74 CQPKTRLFVSGLSFR-TSEDSLRNAFQGF----GQLVEVNLVMDKI----------ANR--------------------- 117 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~-~~~~~l~~~F~~~----G~i~~~~i~~~~~----------~g~--------------------- 117 (149)
....++|-|.|+.|. +...+|..+|..| |.|.+|.|..... .|.
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 556789999999997 7778999988876 5788888764320 111
Q ss_pred ---------------C-ceEEEEEeCCHHHHHHHHHHhCCCccCC
Q 031988 118 ---------------P-RGFAFLRYATEEESRRAIEGMHGKSRAS 146 (149)
Q Consensus 118 ---------------~-~g~~fV~f~~~~~a~~Al~~l~g~~~~~ 146 (149)
- -=||.|+|.+.+.|......++|..+..
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEs 295 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFES 295 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceecc
Confidence 0 1289999999999999999999998764
No 147
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=88.74 E-value=0.22 Score=42.80 Aligned_cols=61 Identities=15% Similarity=0.286 Sum_probs=51.7
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
+.++.|.+-..+...|-.++.+||.|.+....++- ..|.|+|.+.++|..|+..++|+++.
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs 360 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDALQGKEVS 360 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhhcCCccc
Confidence 45555666677778899999999999999777765 79999999999999999999998653
No 148
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=87.06 E-value=0.035 Score=44.05 Aligned_cols=70 Identities=13% Similarity=0.258 Sum_probs=56.2
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEE-eecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNL-VMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i-~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
...+.+-+.|+|+...++.|..++..||.++.|.. ..|.++ -.--|+|...+.+..||.+++|..+.+..
T Consensus 78 qrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~et----avvnvty~~~~~~~~ai~kl~g~Q~en~~ 148 (584)
T KOG2193|consen 78 QRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSET----AVVNVTYSAQQQHRQAIHKLNGPQLENQH 148 (584)
T ss_pred HHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHH----HHHHHHHHHHHHHHHHHHhhcchHhhhhh
Confidence 34467999999999999999999999999998844 344432 33447788999999999999999887654
No 149
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=80.39 E-value=2.4 Score=32.25 Aligned_cols=71 Identities=23% Similarity=0.535 Sum_probs=44.8
Q ss_pred CCCCCeEEEcCCCCC------------CCHHHHHHHHhcCCCeEEEEEee-c----CCCCCCceEEE-------------
Q 031988 74 CQPKTRLFVSGLSFR------------TSEDSLRNAFQGFGQLVEVNLVM-D----KIANRPRGFAF------------- 123 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~------------~~~~~l~~~F~~~G~i~~~~i~~-~----~~~g~~~g~~f------------- 123 (149)
...+.+||+.+||-. -+++-|+..|+.||.|..|.|+. | .-+|+..|..|
T Consensus 146 gerpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffea 225 (445)
T KOG2891|consen 146 GERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEA 225 (445)
T ss_pred CCCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHH
Confidence 445568888888742 45678999999999999988763 2 23555444333
Q ss_pred -EEeCCHHHHHHHHHHhCCCcc
Q 031988 124 -LRYATEEESRRAIEGMHGKSR 144 (149)
Q Consensus 124 -V~f~~~~~a~~Al~~l~g~~~ 144 (149)
|.|..-.....|+..|.|..+
T Consensus 226 yvqfmeykgfa~amdalr~~k~ 247 (445)
T KOG2891|consen 226 YVQFMEYKGFAQAMDALRGMKL 247 (445)
T ss_pred HHHHHHHHhHHHHHHHHhcchH
Confidence 333333445556666666543
No 150
>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=76.51 E-value=13 Score=21.98 Aligned_cols=54 Identities=13% Similarity=0.242 Sum_probs=32.5
Q ss_pred CCCCHHHHHHHHhcCCC-----eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCCC
Q 031988 87 FRTSEDSLRNAFQGFGQ-----LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPGL 149 (149)
Q Consensus 87 ~~~~~~~l~~~F~~~G~-----i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~l 149 (149)
..++..+|..++..-+. |-.+.+.. .|+||+-.. +.|..++..|++..+.|+.|
T Consensus 11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~--------~~S~vev~~-~~a~~v~~~l~~~~~~gk~v 69 (74)
T PF03880_consen 11 DGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPE-EVAEKVLEALNGKKIKGKKV 69 (74)
T ss_dssp GT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-T-T-HHHHHHHHTT--SSS---
T ss_pred cCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECH-HHHHHHHHHhcCCCCCCeeE
Confidence 45777888888877644 45666544 589998775 47888999999999998764
No 151
>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=74.55 E-value=8.4 Score=25.28 Aligned_cols=56 Identities=18% Similarity=0.288 Sum_probs=30.8
Q ss_pred eEEEcCCCCC---------CCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeC-CHHHHHHHHH
Q 031988 79 RLFVSGLSFR---------TSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYA-TEEESRRAIE 137 (149)
Q Consensus 79 ~l~v~nL~~~---------~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~-~~~~a~~Al~ 137 (149)
++.|-|++.. .+.+.|++.|..|..++ +....++ ..+.|++.|.|. +..-...|+.
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SE-EEEEEET--TEEEEEEEEE--SSHHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECCChHHHHHHHH
Confidence 4556666443 34578999999998875 5555554 356799999996 5555555654
No 152
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=69.72 E-value=11 Score=27.00 Aligned_cols=66 Identities=20% Similarity=0.362 Sum_probs=47.3
Q ss_pred CCCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHH
Q 031988 73 TCQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEG 138 (149)
Q Consensus 73 ~~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~ 138 (149)
.......+++++++..+....+...|..+|.+....+.............++.+.....+......
T Consensus 221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 286 (306)
T COG0724 221 LLEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNSR 286 (306)
T ss_pred cccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhcc
Confidence 355667899999999999999999999999997777766554444555555555544444444443
No 153
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=68.56 E-value=17 Score=21.15 Aligned_cols=17 Identities=18% Similarity=0.466 Sum_probs=14.3
Q ss_pred HHHHHHHhcCCCeEEEE
Q 031988 92 DSLRNAFQGFGQLVEVN 108 (149)
Q Consensus 92 ~~l~~~F~~~G~i~~~~ 108 (149)
.+||++|+..|.|.-+-
T Consensus 9 ~~iR~~fs~lG~I~vLY 25 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLY 25 (62)
T ss_pred HHHHHHHHhcCcEEEEE
Confidence 67999999999987553
No 154
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=66.99 E-value=23 Score=28.44 Aligned_cols=58 Identities=14% Similarity=0.177 Sum_probs=47.9
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCC-eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHH
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQ-LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEG 138 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~-i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~ 138 (149)
.+-...|=|-+.|...-.+||...|..|+. --+|.++-|. .+|-.|.+...|..||..
T Consensus 388 ~dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 388 SDLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALTL 446 (528)
T ss_pred ccccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhhc
Confidence 445568889999999888999999999876 4567777764 899999999999999873
No 155
>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=64.87 E-value=14 Score=28.27 Aligned_cols=57 Identities=14% Similarity=0.243 Sum_probs=42.9
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecC-------CCCCCceEEEEEeCCHHHH
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDK-------IANRPRGFAFLRYATEEES 132 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~-------~~g~~~g~~fV~f~~~~~a 132 (149)
..+.|.+.|+..+++-..+-.-|.+||+|++|.++.+. ...+...-..+.|-+.+.+
T Consensus 14 rTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~C 77 (309)
T PF10567_consen 14 RTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREIC 77 (309)
T ss_pred eeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHH
Confidence 34578889999999999999999999999999998765 1122335666777666554
No 156
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=63.04 E-value=39 Score=22.39 Aligned_cols=45 Identities=16% Similarity=0.335 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHhc-CCCeEEE----EEeecCCCCCCceEEEEEeCCHHHHH
Q 031988 88 RTSEDSLRNAFQG-FGQLVEV----NLVMDKIANRPRGFAFLRYATEEESR 133 (149)
Q Consensus 88 ~~~~~~l~~~F~~-~G~i~~~----~i~~~~~~g~~~g~~fV~f~~~~~a~ 133 (149)
.++.++|++-+++ |-.-.++ .+.....+|++.|||.| |.+.+.|.
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 5788899887776 5432222 34445567889999988 56666554
No 157
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=61.49 E-value=6.7 Score=27.90 Aligned_cols=67 Identities=12% Similarity=0.099 Sum_probs=47.3
Q ss_pred CCCCeEEEcCCCCCCCH-----HHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 75 QPKTRLFVSGLSFRTSE-----DSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~-----~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
+-..++.+.+++..+-. ...+.+|.+|.+....++.+.. +.--|.|.+.+.|..|...+++..+.|+
T Consensus 8 dlp~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrsf------rrvRi~f~~p~~a~~a~i~~~~~~f~~~ 79 (193)
T KOG4019|consen 8 DLPTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRSF------RRVRINFSNPEAAADARIKLHSTSFNGK 79 (193)
T ss_pred cccceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHhh------ceeEEeccChhHHHHHHHHhhhcccCCC
Confidence 34456788888876433 3345666666665555554433 6667889999999999999999988876
No 158
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=59.69 E-value=16 Score=28.96 Aligned_cols=72 Identities=13% Similarity=0.132 Sum_probs=49.7
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCC-eEEEEEeecCCCC--CCceEEEEEeCCHHHHHHHHHHhCCCccCCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQ-LVEVNLVMDKIAN--RPRGFAFLRYATEEESRRAIEGMHGKSRASP 147 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~-i~~~~i~~~~~~g--~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~ 147 (149)
....+.|.+||+..++.++.+-..+|-. +..........+- .-.+.+||.|...++...-...++|+.+.+.
T Consensus 6 ~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifld~ 80 (376)
T KOG1295|consen 6 AKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFLDN 80 (376)
T ss_pred cceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEecC
Confidence 3457889999999999988877777543 2222232211111 1247899999999998888888999887653
No 159
>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=56.56 E-value=6.9 Score=24.42 Aligned_cols=26 Identities=27% Similarity=0.415 Sum_probs=22.0
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHh
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQ 99 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~ 99 (149)
..+.++|-|.|||...++++|++.++
T Consensus 49 ~vs~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 49 GVSKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred cccCCEEEEeCCCCCCChhhheeeEE
Confidence 55677999999999999999997654
No 160
>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=56.14 E-value=36 Score=21.13 Aligned_cols=50 Identities=20% Similarity=0.280 Sum_probs=34.8
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeC
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYA 127 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~ 127 (149)
+...-+|||+++..+-+.....+.+..+.-.-+-+..+. + ..||.|-...
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 344569999999999888877777766554444343332 2 6699998874
No 161
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=55.63 E-value=2 Score=35.59 Aligned_cols=69 Identities=12% Similarity=0.134 Sum_probs=53.0
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
.+.+++.|+++.++-++|..+...+-.+..+.+..+....+...++.|.|+---....|+..||+..+.
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~ 299 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLR 299 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccc
Confidence 457899999999999999999999877777666554444455678888888766777777778776554
No 162
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=52.47 E-value=55 Score=26.57 Aligned_cols=40 Identities=25% Similarity=0.460 Sum_probs=29.7
Q ss_pred CCCCCCCeEEEcCCCCC-CCHHHHHHHHhcC----CCeEEEEEee
Q 031988 72 STCQPKTRLFVSGLSFR-TSEDSLRNAFQGF----GQLVEVNLVM 111 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~-~~~~~l~~~F~~~----G~i~~~~i~~ 111 (149)
....+..+|-|-|++|. +...+|..+|+.| |.+..|.|..
T Consensus 141 e~G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iyp 185 (622)
T COG5638 141 EEGNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYP 185 (622)
T ss_pred CCCCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEech
Confidence 34556678999999986 7778999888865 5577776543
No 163
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=44.26 E-value=75 Score=19.57 Aligned_cols=58 Identities=14% Similarity=0.247 Sum_probs=42.8
Q ss_pred eEEEcCCCCCCCHHHHHHHHhc-CCC-eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQG-FGQ-LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM 139 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~-~G~-i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l 139 (149)
+-|+--.+..++..+++..++. ||. |.+|....-+ ...-=|||.+....+|......+
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 4566678899999999999998 775 7777655543 22357999999888887765543
No 164
>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=42.41 E-value=41 Score=20.48 Aligned_cols=25 Identities=20% Similarity=0.505 Sum_probs=20.9
Q ss_pred CceEEEEEeCCHHHHHHHHHHhCCC
Q 031988 118 PRGFAFLRYATEEESRRAIEGMHGK 142 (149)
Q Consensus 118 ~~g~~fV~f~~~~~a~~Al~~l~g~ 142 (149)
.+||-||+=.+.+++..|++.+.+.
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~i 67 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRHI 67 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TTE
T ss_pred CceEEEEEeCCHHHHHHHHhcccce
Confidence 5699999999999999999877553
No 165
>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=39.51 E-value=31 Score=21.45 Aligned_cols=50 Identities=20% Similarity=0.286 Sum_probs=30.1
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhc-CCCeEEEEEeecCCCCCCceEEEEEeCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQG-FGQLVEVNLVMDKIANRPRGFAFLRYAT 128 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~-~G~i~~~~i~~~~~~g~~~g~~fV~f~~ 128 (149)
...-+|||+++..+-+.....+-+. .+.- .+.++.. +....||.|-++..
T Consensus 24 v~~GVyVg~~s~rVRe~lW~~v~~~~~~~G-~avm~~~--~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 24 PRAGVYVGGVSASVRERIWDYLAQHCPPKG-SLVITWS--SNTCPGFEFFTLGE 74 (87)
T ss_pred cCCCcEEcCCCHHHHHHHHHHHHHhCCCCc-cEEEEEe--CCCCCCcEEEecCC
Confidence 3456999999988877665555554 3332 2223222 23345899988764
No 166
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=38.65 E-value=1.2e+02 Score=20.41 Aligned_cols=45 Identities=9% Similarity=0.279 Sum_probs=26.5
Q ss_pred CCCHHHHHHHHhc-CC-C---eEEE-EEeecCCCCCCceEEEEEeCCHHHHH
Q 031988 88 RTSEDSLRNAFQG-FG-Q---LVEV-NLVMDKIANRPRGFAFLRYATEEESR 133 (149)
Q Consensus 88 ~~~~~~l~~~F~~-~G-~---i~~~-~i~~~~~~g~~~g~~fV~f~~~~~a~ 133 (149)
..+..+|++-+.. |+ . ...| .+......|++.|||.| |.+.+.+.
T Consensus 35 TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~I-Yds~e~~k 85 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLI-YDNLAALK 85 (132)
T ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEE-ECCHHHHH
Confidence 4677888877765 66 2 1222 22333445677888887 56655543
No 167
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=38.38 E-value=31 Score=25.72 Aligned_cols=34 Identities=21% Similarity=0.433 Sum_probs=28.7
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEE
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEV 107 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~ 107 (149)
......+|+-|+|...+++.|..+..++|-+..+
T Consensus 37 ~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 37 SNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred cccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 4556689999999999999999999998865543
No 168
>PRK09213 pur operon repressor; Provisional
Probab=38.32 E-value=95 Score=23.59 Aligned_cols=45 Identities=27% Similarity=0.431 Sum_probs=34.8
Q ss_pred CCH--HHHHHHHhcC--CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031988 89 TSE--DSLRNAFQGF--GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (149)
Q Consensus 89 ~~~--~~l~~~F~~~--G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~ 140 (149)
++| ..+++.|++. |.++.+ .|...|.-|+-+-+.+.|+..+..|-
T Consensus 40 ised~~i~~~~~~~~~~g~~~t~-------~ga~ggv~~~p~~~~~~a~~~~~~L~ 88 (271)
T PRK09213 40 ISEDLVIIKETFEKQGIGTLETV-------PGAAGGVKYIPSISEEEAREFVEELC 88 (271)
T ss_pred hhhhHHHHHHHHHhcCCceEEEe-------CCCCCCeEEEcCCCHHHHHHHHHHHH
Confidence 444 3588999975 555554 58888999999999999999887663
No 169
>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=38.28 E-value=1e+02 Score=23.37 Aligned_cols=44 Identities=23% Similarity=0.488 Sum_probs=34.2
Q ss_pred CCH--HHHHHHHhcC--CCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh
Q 031988 89 TSE--DSLRNAFQGF--GQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM 139 (149)
Q Consensus 89 ~~~--~~l~~~F~~~--G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l 139 (149)
++| ..+++.|++. |.++.+ .|.+.|.-|+-+-+.++++..+..|
T Consensus 38 ised~~i~~~~~~~~~~g~~~t~-------~ga~ggv~~~p~~~~~~~~~~~~~l 85 (268)
T TIGR01743 38 ISEDIVIIKETFEKFGIGKLLTV-------PGAAGGVKYIPKMSQAEAEEFVEEL 85 (268)
T ss_pred hhhhHHHHHHHHHhcCCceEEEe-------CCCCCCeEEEeCCCHHHHHHHHHHH
Confidence 444 3588999975 555554 5888899999999999999888755
No 170
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=34.07 E-value=94 Score=19.77 Aligned_cols=50 Identities=20% Similarity=0.179 Sum_probs=32.3
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCC
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYAT 128 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~ 128 (149)
...-+|||+++..+-+.....+-+.++.-.-+-+..+ ....||.|-++..
T Consensus 26 v~~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~---~~eqG~~~~t~G~ 75 (97)
T PRK11558 26 VRAGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWAT---NTESGFEFQTFGE 75 (97)
T ss_pred cCCCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcC---CCCCCcEEEecCC
Confidence 3456999999988888776666666655333323222 2334999988764
No 171
>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=32.82 E-value=39 Score=17.35 Aligned_cols=15 Identities=33% Similarity=0.567 Sum_probs=9.7
Q ss_pred CCCHHHHHHHHhcCC
Q 031988 88 RTSEDSLRNAFQGFG 102 (149)
Q Consensus 88 ~~~~~~l~~~F~~~G 102 (149)
+++++.|++.|.+.+
T Consensus 20 Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 20 DTDEDQLKEVFNRIK 34 (36)
T ss_dssp ---HHHHHHHHHCS-
T ss_pred cCCHHHHHHHHHHhc
Confidence 578899999998764
No 172
>smart00457 MACPF membrane-attack complex / perforin.
Probab=32.63 E-value=40 Score=23.81 Aligned_cols=27 Identities=7% Similarity=0.214 Sum_probs=21.5
Q ss_pred EcCCCCCCCHHHHHHHHhcCCC--eEEEE
Q 031988 82 VSGLSFRTSEDSLRNAFQGFGQ--LVEVN 108 (149)
Q Consensus 82 v~nL~~~~~~~~l~~~F~~~G~--i~~~~ 108 (149)
+..||...+..+...+|+.||. |.++.
T Consensus 30 l~~Lp~~~~~~~~~~fi~~yGTH~i~s~~ 58 (194)
T smart00457 30 LRDLPDQYNRGAYARFIDKYGTHYITSAT 58 (194)
T ss_pred HHhCccccCHHHHHHHHHHhCCeEEEeee
Confidence 4578888888899999999997 55543
No 173
>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=32.31 E-value=1.1e+02 Score=18.87 Aligned_cols=25 Identities=12% Similarity=0.274 Sum_probs=17.6
Q ss_pred eEEEEEeecCCCCCCceEEEEEeCC
Q 031988 104 LVEVNLVMDKIANRPRGFAFLRYAT 128 (149)
Q Consensus 104 i~~~~i~~~~~~g~~~g~~fV~f~~ 128 (149)
|.++++..-...|+-+|+|=|+|.+
T Consensus 3 itdVri~~~~~~~~lka~asV~~dd 27 (84)
T PF04026_consen 3 ITDVRIRKIEPEGKLKAFASVTFDD 27 (84)
T ss_dssp EEEEEEEETTSSSSEEEEEEEEETT
T ss_pred cEEEEEEEecCCCCEEEEEEEEECC
Confidence 5666666655557778888888765
No 174
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=32.19 E-value=1.3e+02 Score=24.95 Aligned_cols=58 Identities=14% Similarity=0.153 Sum_probs=42.1
Q ss_pred EEcCCCCCCCH---HHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccCCCC
Q 031988 81 FVSGLSFRTSE---DSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRASPG 148 (149)
Q Consensus 81 ~v~nL~~~~~~---~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~~~~ 148 (149)
+||||+.-... ..+.++=.+||.|-.+.+-. .-.|.-.+.+.|+.++. -+|..+.+|.
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~---------~~~Vviss~~~akE~l~-~~d~~fa~Rp 96 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS---------VPVVVISSYEAAKEVLV-KQDLEFADRP 96 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC---------ceEEEECCHHHHHHHHH-hCCccccCCC
Confidence 58888875443 45666666899999776622 24688889999999987 6677777764
No 175
>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=31.58 E-value=1.2e+02 Score=18.28 Aligned_cols=58 Identities=14% Similarity=0.234 Sum_probs=41.6
Q ss_pred eEEEcCCCCCCCHHHHHHHHhc-CCC-eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHh
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQG-FGQ-LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGM 139 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~-~G~-i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l 139 (149)
+-|+-..+..++..+++..++. ||. |.+|....-+ ...-=|||.+..-.+|...-..+
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~---~~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP---RGEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCceEEEEEECCCCcHHHHHHhh
Confidence 4667778999999999999998 764 7777554433 22357999998777776654433
No 176
>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=29.91 E-value=1.5e+02 Score=18.61 Aligned_cols=48 Identities=21% Similarity=0.187 Sum_probs=28.8
Q ss_pred eEEEcCCCCCCCHHHH---HHHHhcCCCeEEEEE--eecCCCCCCceEEEEEe
Q 031988 79 RLFVSGLSFRTSEDSL---RNAFQGFGQLVEVNL--VMDKIANRPRGFAFLRY 126 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l---~~~F~~~G~i~~~~i--~~~~~~g~~~g~~fV~f 126 (149)
..|+.+||.++.+.++ +..+..+..-..+.. ......+.+.|++.+.+
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 5689999999888664 455666664344433 22334566777776655
No 177
>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=29.70 E-value=27 Score=28.05 Aligned_cols=64 Identities=16% Similarity=0.226 Sum_probs=49.6
Q ss_pred CCCCCeEEEcCCCCCCCHH--------HHHHHHhc--CCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031988 74 CQPKTRLFVSGLSFRTSED--------SLRNAFQG--FGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~--------~l~~~F~~--~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~ 137 (149)
....+.+|+.+.......+ ++..+|.. -+.+..+...+|.....++|.-|++|+....+++...
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 3344577777776654444 88999998 5777888888887778889999999999999988763
No 178
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=29.30 E-value=1.2e+02 Score=19.18 Aligned_cols=25 Identities=12% Similarity=0.244 Sum_probs=13.6
Q ss_pred eEEEEEeecCCCCCCceEEEEEeCC
Q 031988 104 LVEVNLVMDKIANRPRGFAFLRYAT 128 (149)
Q Consensus 104 i~~~~i~~~~~~g~~~g~~fV~f~~ 128 (149)
|++|++.+-...|+-++||=|+|.+
T Consensus 3 ITdVri~~~~~~g~lka~asit~dd 27 (94)
T PRK13259 3 VTDVRLRKVNTEGRMKAIVSITFDN 27 (94)
T ss_pred EEEEEEEEeCCCCcEEEEEEEEECC
Confidence 4455554443345666666666654
No 179
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=28.93 E-value=35 Score=24.37 Aligned_cols=57 Identities=14% Similarity=0.153 Sum_probs=38.2
Q ss_pred CCCCeEEEcCCCCCCCHHHHHHHHhcC-CCeEEEEEeecCCCC--CCceEEEEEeCCHHHHHHHHH
Q 031988 75 QPKTRLFVSGLSFRTSEDSLRNAFQGF-GQLVEVNLVMDKIAN--RPRGFAFLRYATEEESRRAIE 137 (149)
Q Consensus 75 ~~~~~l~v~nL~~~~~~~~l~~~F~~~-G~i~~~~i~~~~~~g--~~~g~~fV~f~~~~~a~~Al~ 137 (149)
...+++|.. .+++.|.++...- |.+..+.+.... .+ ..+|--||.|.+.+.|.+.++
T Consensus 109 ~~~r~v~~K-----~td~ql~~l~qw~~~k~~nv~mr~~~-~k~~~fkGsvkv~f~tk~qa~a~~~ 168 (205)
T KOG4213|consen 109 IKERTVYKK-----ITDDQLDDLNQWASGKGHNVKMRRHG-NKAHPFKGSVKVTFQTKEQAFANDD 168 (205)
T ss_pred HHHhhhhcc-----CCHHHHHHHHHHhcccceEeeccccC-CCCCCCCCceEEEeecHHHHHhhhh
Confidence 334566665 5555555555432 688887665433 33 457999999999999988665
No 180
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=27.96 E-value=1.6e+02 Score=18.37 Aligned_cols=32 Identities=19% Similarity=0.344 Sum_probs=25.1
Q ss_pred eEEEcCCCCCCCHHHHHHHHhc-CCC-eEEEEEe
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQG-FGQ-LVEVNLV 110 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~-~G~-i~~~~i~ 110 (149)
+.|+-..+..++..+++..++. ||. |.+|...
T Consensus 21 n~~~F~V~~~a~K~eIK~aie~lf~VkV~~VnT~ 54 (92)
T PRK05738 21 NKYVFEVAPDATKPEIKAAVEKLFGVKVESVNTL 54 (92)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHcCCceeEEEEE
Confidence 4667778999999999999998 764 6666443
No 181
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=27.53 E-value=96 Score=18.11 Aligned_cols=34 Identities=24% Similarity=0.308 Sum_probs=24.0
Q ss_pred CCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEE
Q 031988 89 TSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFL 124 (149)
Q Consensus 89 ~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV 124 (149)
.-+.+|++.|-+-.+|.++.+.-.+.-++ |-|||
T Consensus 30 ~~e~eler~fl~~P~v~e~~l~EKKri~~--G~gyV 63 (64)
T PF13046_consen 30 LVEVELERHFLPLPEVKEVALYEKKRIRK--GAGYV 63 (64)
T ss_pred HHHHHhhhhccCCCCceEEEEEEEEeeeC--CceeE
Confidence 34467888888888999998877664444 55554
No 182
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=27.33 E-value=1.5e+02 Score=18.07 Aligned_cols=46 Identities=17% Similarity=0.315 Sum_probs=25.0
Q ss_pred CCCCHHHHHHHHhc-CCC----eEEEEEeecCCCCCCceEEEEEeCCHHHHH
Q 031988 87 FRTSEDSLRNAFQG-FGQ----LVEVNLVMDKIANRPRGFAFLRYATEEESR 133 (149)
Q Consensus 87 ~~~~~~~l~~~F~~-~G~----i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~ 133 (149)
...+..+|++.+.. ++. |.=-.+......+++.|||.| |.+.+.+.
T Consensus 11 ~Tpsr~ei~~klA~~~~~~~~~ivv~~~~t~fG~~~s~g~a~I-Yd~~e~~k 61 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLNVDPDLIVVFGIKTEFGGGKSTGFAKI-YDSAEALK 61 (84)
T ss_dssp SS--HHHHHHHHHHHHTSTGCCEEEEEEEESSSSSEEEEEEEE-ESSHHHHH
T ss_pred CCCCHHHHHHHHHHHhCCCCCeEEEeccEecCCCceEEEEEEE-eCCHHHHH
Confidence 34566777776664 443 221234444445667788887 56666554
No 183
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=26.63 E-value=3.6e+02 Score=22.35 Aligned_cols=49 Identities=14% Similarity=0.137 Sum_probs=34.8
Q ss_pred HHHHHHHHh----cCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhC
Q 031988 91 EDSLRNAFQ----GFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMH 140 (149)
Q Consensus 91 ~~~l~~~F~----~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~ 140 (149)
.-+|..+|. .+|-|.++.+...+ --+.....++.|.+.+++..++..+-
T Consensus 203 g~dl~~l~~Gs~GtlGIIt~atlkl~p-~p~~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 203 GFDLLALFTGSEGMLGVVTEVTVKLLP-KPPVARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred ccchHhhhccCCCccEEEEEEEEEEEc-CCcceEEEEEECCCHHHHHHHHHHHH
Confidence 345666665 47778888766655 33445677889999999999987753
No 184
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=26.62 E-value=1.2e+02 Score=22.88 Aligned_cols=34 Identities=15% Similarity=0.136 Sum_probs=25.6
Q ss_pred CCeEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEe
Q 031988 77 KTRLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLV 110 (149)
Q Consensus 77 ~~~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~ 110 (149)
.....|+|||++++..-+..+++..-.+....++
T Consensus 95 ~~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M 128 (259)
T COG0030 95 QPYKVVANLPYNISSPILFKLLEEKFIIQDMVLM 128 (259)
T ss_pred CCCEEEEcCCCcccHHHHHHHHhccCccceEEEE
Confidence 3466799999999999999988876555444443
No 185
>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=26.49 E-value=94 Score=22.42 Aligned_cols=54 Identities=24% Similarity=0.316 Sum_probs=36.3
Q ss_pred CCHHHHHHHHhcCCC---eEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHHHhCCCccC
Q 031988 89 TSEDSLRNAFQGFGQ---LVEVNLVMDKIANRPRGFAFLRYATEEESRRAIEGMHGKSRA 145 (149)
Q Consensus 89 ~~~~~l~~~F~~~G~---i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~~l~g~~~~ 145 (149)
.+.+++++...+.|. |...++.. .||.|+-+...-.+.++|..+.+.|-|..+.
T Consensus 25 ~s~eea~~~~~~l~~~~~VvKaQvl~---GgRGK~GgVk~~~s~~ea~~~a~~mlg~~l~ 81 (202)
T PF08442_consen 25 TSPEEAREAAKELGGKPLVVKAQVLA---GGRGKAGGVKIAKSPEEAKEAAKEMLGKTLK 81 (202)
T ss_dssp SSHHHHHHHHHHHTTSSEEEEE-SSS---STTTTTTCEEEESSHHHHHHHHHTTTTSEEE
T ss_pred CCHHHHHHHHHHhCCCcEEEEEeEee---cCcccCCceeecCCHHHHHHHHHHHhCCceE
Confidence 456777777776554 55665544 4555654444457899999999988888764
No 186
>PF14401 RLAN: RimK-like ATPgrasp N-terminal domain
Probab=26.15 E-value=1.7e+02 Score=20.17 Aligned_cols=61 Identities=20% Similarity=0.186 Sum_probs=43.7
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHhcCC-CeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHH
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQGFG-QLVEVNLVMDKIANRPRGFAFLRYATEEESRRAI 136 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~~~G-~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al 136 (149)
-.-+||.|.-+..--+.--+.+|+.|- ++..+.+..+...++-+...-+...+..+.+++.
T Consensus 86 ~~l~iyFG~~~~~~~~~lAr~lFe~F~~PlL~v~~~~~~~~w~i~~i~~~~~~~l~~~e~~~ 147 (153)
T PF14401_consen 86 FELSIYFGQTPDPRLERLARQLFERFPCPLLEVEFVRDDGKWRISSIKPLSLSELSEEEQDF 147 (153)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHHhCCCceEEEEEEecCCcEEEeeEeecChhhCCHHHHHH
Confidence 344899998876666677889999985 4888888877633566677777777666555543
No 187
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=26.11 E-value=1.6e+02 Score=24.77 Aligned_cols=52 Identities=21% Similarity=0.381 Sum_probs=39.1
Q ss_pred CCCCCCCeEEEcCCCCCCCH-HHHHHHHhcCCCeEEEEEeecCCCCCCceEEEE
Q 031988 72 STCQPKTRLFVSGLSFRTSE-DSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFL 124 (149)
Q Consensus 72 ~~~~~~~~l~v~nL~~~~~~-~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV 124 (149)
.-......||.|-.|-+.++ ++|++.+++. .+.+..+...+++....||||-
T Consensus 292 Gfk~~~P~Vf~GlyPid~~dye~LrdAleKL-~LNDasl~~E~EtS~ALGfGfR 344 (603)
T COG0481 292 GFKEVKPMVFAGLYPVDSDDYEDLRDALEKL-QLNDASLTYEPETSQALGFGFR 344 (603)
T ss_pred CCCcCCceEEEeecccChhHHHHHHHHHHhc-ccccceeeeccccchhccCcee
Confidence 33455668999999988776 8899999887 4556666667777888888874
No 188
>CHL00030 rpl23 ribosomal protein L23
Probab=25.49 E-value=1.7e+02 Score=18.32 Aligned_cols=34 Identities=12% Similarity=0.196 Sum_probs=26.5
Q ss_pred eEEEcCCCCCCCHHHHHHHHhc-CCC-eEEEEEeec
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQG-FGQ-LVEVNLVMD 112 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~-~G~-i~~~~i~~~ 112 (149)
+-|+--.+..++..++++.++. ||. |..|....-
T Consensus 20 n~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt~~~ 55 (93)
T CHL00030 20 NQYTFDVDSGSTKTEIKHWIELFFGVKVIAVNSHRL 55 (93)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCeEEEEEEEEc
Confidence 5677778999999999999998 765 777755443
No 189
>PHA01632 hypothetical protein
Probab=23.80 E-value=87 Score=17.77 Aligned_cols=20 Identities=15% Similarity=0.418 Sum_probs=15.7
Q ss_pred EEcCCCCCCCHHHHHHHHhc
Q 031988 81 FVSGLSFRTSEDSLRNAFQG 100 (149)
Q Consensus 81 ~v~nL~~~~~~~~l~~~F~~ 100 (149)
.|...|..-++++|++.+.+
T Consensus 20 lieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 20 LIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred ehhhcCCCCCHHHHHHHHHH
Confidence 34588999999999977643
No 190
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=23.61 E-value=2.1e+02 Score=18.25 Aligned_cols=45 Identities=20% Similarity=0.369 Sum_probs=25.9
Q ss_pred CCCHHHHHHHHhc-CCCeEEEEEe----ecCCCCCCceEEEEEeCCHHHHH
Q 031988 88 RTSEDSLRNAFQG-FGQLVEVNLV----MDKIANRPRGFAFLRYATEEESR 133 (149)
Q Consensus 88 ~~~~~~l~~~F~~-~G~i~~~~i~----~~~~~g~~~g~~fV~f~~~~~a~ 133 (149)
..+..+|++-+.. |+.=.+..++ .....|++.|||.| |.+.+.|.
T Consensus 30 tpsr~eirekLa~~~~~~~~~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~k 79 (99)
T PRK01178 30 TPSRKDVRKKLAAMLNADKELVVVRKIKTEYGMGKSKGYAKV-YDDKERAR 79 (99)
T ss_pred CCCHHHHHHHHHHHHCcCCCEEEEEccCccCCCceEEEEEEE-ECCHHHHH
Confidence 4667788776664 6642222222 33345567788877 56666554
No 191
>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=23.51 E-value=62 Score=18.08 Aligned_cols=11 Identities=36% Similarity=0.830 Sum_probs=8.2
Q ss_pred CceEEEEEeCC
Q 031988 118 PRGFAFLRYAT 128 (149)
Q Consensus 118 ~~g~~fV~f~~ 128 (149)
.+|||||...+
T Consensus 7 ~~GfGFv~~~~ 17 (58)
T PF08206_consen 7 PKGFGFVIPDD 17 (58)
T ss_dssp SSS-EEEEECT
T ss_pred cCCCEEEEECC
Confidence 45999999886
No 192
>TIGR02542 B_forsyth_147 Bacteroides forsythus 147-residue repeat. The longest predicted protein in Bacteroides forsythus ATCC 43037 is over 3000 residues long and lacks homology to other known proteins. Immediately after the signal sequence are four tandem repeats, approximately 147 residues long. This model describes that repeat. This model describes that repeat.
Probab=23.18 E-value=46 Score=22.03 Aligned_cols=44 Identities=11% Similarity=0.295 Sum_probs=31.8
Q ss_pred CCCCCHHHHHHHHhc---CCCeEEEEEeecCCCCCCceEEEEEeCCH
Q 031988 86 SFRTSEDSLRNAFQG---FGQLVEVNLVMDKIANRPRGFAFLRYATE 129 (149)
Q Consensus 86 ~~~~~~~~l~~~F~~---~G~i~~~~i~~~~~~g~~~g~~fV~f~~~ 129 (149)
|..++..+|+++|.. |..|.+-++.+|-.-..+-..||..|...
T Consensus 83 PYTlT~~e~r~iF~Epm~YQGITReQV~rdGLP~GsYRiCFrL~~~~ 129 (145)
T TIGR02542 83 PYTLTYNELRQIFREPMVYQGITREQVQRDGLPEGSYRICFRLFNAT 129 (145)
T ss_pred ceeeeHHHHHHHHhhhhhhccccHHHHhhcCCCCCceEEEEEEeccc
Confidence 557899999999974 77777766666543334456899988755
No 193
>PF11249 DUF3047: Protein of unknown function (DUF3047); InterPro: IPR021409 This bacterial family of proteins has no known function.
Probab=22.71 E-value=2.4e+02 Score=19.97 Aligned_cols=33 Identities=21% Similarity=0.248 Sum_probs=24.7
Q ss_pred HHHHHHHhc-CCCeEEEEEeecCCCCCCceEEEE
Q 031988 92 DSLRNAFQG-FGQLVEVNLVMDKIANRPRGFAFL 124 (149)
Q Consensus 92 ~~l~~~F~~-~G~i~~~~i~~~~~~g~~~g~~fV 124 (149)
+|.+++|.. .+.|..|.|+.|..+.+.++-|++
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 567777764 778999999999877776665554
No 194
>PF01823 MACPF: MAC/Perforin domain; InterPro: IPR020864 The membrane attack complex/perforin (MACPF) domain is conserved in bacteria, fungi, mammals and plants. It was originally identified and named as being common to five complement components (C6, C7, C8-alpha, C8-beta, and C9) and perforin. These molecules perform critical functions in innate and adaptive immunity. The MAC family proteins and perforin are known to participate in lytic pore formation. In response to pathogen infection, a sequential and highly specific interaction between the constituent elements occurs to form transmembrane channels which are known as the membrane-attack complex (MAC).Only a few other MACPF proteins have been characterised and several are thought to form pores for invasion or protection [, , ]. Examples are proteins from malarial parasites [], the cytolytic toxins from sea anemones [], and proteins that provide plant immunity [, ]. Functionally uncharacterised MACPF proteins are also evident in pathogenic bacteria such as Chlamydia spp [] and Photorhabdus luminescens (Xenorhabdus luminescens) []. The MACPF domain is commonly found to be associated with other N- and C-terminal domains, such as TSP1 (see PDOC50092 from PROSITEDOC), LDLRA (see PDOC00929 from PROSITEDOC), EGF-like (see PDOC00021 from PROSITEDOC),Sushi/CCP/SCR (see PDOC50923 from PROSITEDOC), FIMAC or C2 (see PDOC00380 from PROSITEDOC). They probably control or target MACPF function [, ]. The MACPF domain oligomerizes, undergoes conformational change, and is required for lytic activity. The MACPF domain consists of a central kinked four-stranded antiparallel beta sheet surrounded by alpha helices and beta strands, forming two structural segments. Overall, the MACPF domain has a thin L-shaped appearance. MACPF domains exhibit limited sequence similarity but contain a signature [YW]-G-[TS]-H-[FY]-x(6)-G-G motif [, , ]. Some proteins known to contain a MACPF domain are listed below: Vertebrate complement proteins C6 to C9. Complement factors C6 to C9 assemble to form a scaffold, the membrane attack complex (MAC), that permits C9 polymerisation into pores that lyse Gram-negative pathogens [, ]. Vertebrate perforin. It is delivered by natural killer cells and cytotoxic T lymphocytes and forms oligomeric pores (12 to 18 monomers) in the plasma membrane of either virus-infected or transformed cells. Arabidopsis thaliana (Mouse-ear cress) constitutively activated cell death 1 (CAD1) protein. It is likely to act as a mediator that recognises plant signals for pathogen infection []. Arabidopsis thaliana (Mouse-ear cress) necrotic spotted lesions 1 (NSL1) protein []. Venomous sea anemone Phyllodiscus semoni (Night anemone) toxins PsTX-60A and PsTX-60B []. Venomous sea anemone Actineria villosa (Okinawan sea anemone) toxin AvTX-60A []. Plasmodium sporozoite microneme protein essential for cell traversal 2 (SPECT2). It is essential for the membrane-wounding activity of the sporozoite and is involved in its traversal of the sinusoidal cell layer prior to hepatocyte-infection []. P. luminescens Plu-MACPF. Although nonlytic, it was shown to bind to cell membranes []. Chlamydial putative uncharacterised protein CT153 []. ; PDB: 2QP2_A 3OJY_B 3NSJ_A 4E0S_B 3T5O_A 4A5W_B 2QQH_A 2RD7_A.
Probab=22.53 E-value=49 Score=23.26 Aligned_cols=23 Identities=17% Similarity=0.339 Sum_probs=16.4
Q ss_pred EcCCCCCCCHHH---HHHHHhcCCCe
Q 031988 82 VSGLSFRTSEDS---LRNAFQGFGQL 104 (149)
Q Consensus 82 v~nL~~~~~~~~---l~~~F~~~G~i 104 (149)
|..||...+... +.++|..||.-
T Consensus 53 l~~L~~~~~~~~~~~y~~f~~~yGTH 78 (212)
T PF01823_consen 53 LNALPAEYNSDNTDEYYRFFDKYGTH 78 (212)
T ss_dssp HHTSHSS--HHHHHHHHHHHHHH-SE
T ss_pred HHhhCcccCccchHHHHHHHHHhCcE
Confidence 567888888777 88899999983
No 195
>PF14893 PNMA: PNMA
Probab=22.05 E-value=73 Score=25.00 Aligned_cols=26 Identities=27% Similarity=0.469 Sum_probs=21.3
Q ss_pred CCCCCeEEEcCCCCCCCHHHHHHHHh
Q 031988 74 CQPKTRLFVSGLSFRTSEDSLRNAFQ 99 (149)
Q Consensus 74 ~~~~~~l~v~nL~~~~~~~~l~~~F~ 99 (149)
-+..+.|.|.+||.++++++|++.+.
T Consensus 15 ~~~~r~lLv~giP~dc~~~ei~e~l~ 40 (331)
T PF14893_consen 15 VDPQRALLVLGIPEDCEEAEIEEALQ 40 (331)
T ss_pred cChhhhheeecCCCCCCHHHHHHHHH
Confidence 45566799999999999998887664
No 196
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.63 E-value=54 Score=26.81 Aligned_cols=58 Identities=5% Similarity=-0.125 Sum_probs=43.6
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCHHHHHHHHH
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATEEESRRAIE 137 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~~~a~~Al~ 137 (149)
+.++..++-..++.++.-.|..||-|..+.+.+....|-.+-.+||.-.. +++..+|.
T Consensus 5 ~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~ 62 (572)
T KOG4365|consen 5 KKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQ 62 (572)
T ss_pred hhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccC
Confidence 45677788889999999999999999988877766666777788887654 23344443
No 197
>PF08804 gp32: gp32 DNA binding protein like; InterPro: IPR012339 This entry is represented by the Bacteriophage T4, Gp32, single-stranded DNA-binding protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Gp32 is essential for T4 DNA replication, recombination and repair, acting to stimulate replisome processing and accuracy through its binding to ssDNA as the replication fork advances. The crystal structure of Gp32 shows an ssDNA binding cleft comprised of regions from three structural subdomains, through which ssDNA can slide freely []. The structure of Gp32 is similar to other phage ssDNA-binding proteins such as Gp2.5 from bacteriophage T4, and gene V protein, both of which have a nucleic acid-binding OB-type fold. However, Gp32 contains a zinc-finger subdomain at residues 63-111 that is not found in the other two phage proteins.; GO: 0003697 single-stranded DNA binding; PDB: 1GPC_A 2A1K_B 2ATQ_B.
Probab=21.63 E-value=42 Score=21.17 Aligned_cols=10 Identities=50% Similarity=0.856 Sum_probs=5.4
Q ss_pred ceeecccCCc
Q 031988 2 AVLGFLPVPT 11 (149)
Q Consensus 2 ~~~~~~p~~~ 11 (149)
||++|||.+.
T Consensus 17 AvIRFLPa~~ 26 (94)
T PF08804_consen 17 AVIRFLPAKD 26 (94)
T ss_dssp EEEEE---SS
T ss_pred EEEEecCCCC
Confidence 7899999763
No 198
>cd00874 RNA_Cyclase_Class_II RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine residue is found in all members of this subfamily.
Probab=20.36 E-value=1.7e+02 Score=22.86 Aligned_cols=47 Identities=11% Similarity=0.181 Sum_probs=30.1
Q ss_pred eEEEcCCCCCCCHHH---HHHHHhc-CCCeEEEEEeecCCCCCCceEEEEEeC
Q 031988 79 RLFVSGLSFRTSEDS---LRNAFQG-FGQLVEVNLVMDKIANRPRGFAFLRYA 127 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~---l~~~F~~-~G~i~~~~i~~~~~~g~~~g~~fV~f~ 127 (149)
..|+.++|+++.+.+ .+..+.+ ++ .++.+..+...+.+.|++.+-+.
T Consensus 188 ~~~~~~l~~~va~r~~~~a~~~L~~~~~--~dv~i~~~~~~~~s~G~~i~L~a 238 (326)
T cd00874 188 ISHAANLPPHVAERQAEAAAALLRKALG--LQIEIEPEDQSALGPGSGIVLWA 238 (326)
T ss_pred EEEEccCCHHHHHHHHHHHHHHHhhccC--CCeEEEEEecCCCCCCEEEEEEE
Confidence 667889999988865 4455666 44 23444444444777788776654
No 199
>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=20.27 E-value=1.6e+02 Score=15.69 Aligned_cols=26 Identities=15% Similarity=0.293 Sum_probs=21.4
Q ss_pred CeEEEcCCCCCCCHHHHHHHHhcCCC
Q 031988 78 TRLFVSGLSFRTSEDSLRNAFQGFGQ 103 (149)
Q Consensus 78 ~~l~v~nL~~~~~~~~l~~~F~~~G~ 103 (149)
..+++.+.....+.++|.++...+|.
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg 27 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGG 27 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCC
Confidence 35777777767888999999999987
No 200
>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=20.16 E-value=86 Score=23.29 Aligned_cols=30 Identities=27% Similarity=0.465 Sum_probs=23.4
Q ss_pred CCCeEEEcCCCCCCCHHHHHHHHh--cCCCeE
Q 031988 76 PKTRLFVSGLSFRTSEDSLRNAFQ--GFGQLV 105 (149)
Q Consensus 76 ~~~~l~v~nL~~~~~~~~l~~~F~--~~G~i~ 105 (149)
....+.|+|||..++..-|..++. .+|.+.
T Consensus 96 ~~~~~vv~NlPy~is~~il~~ll~~~~~g~~~ 127 (262)
T PF00398_consen 96 NQPLLVVGNLPYNISSPILRKLLELYRFGRVR 127 (262)
T ss_dssp SSEEEEEEEETGTGHHHHHHHHHHHGGGCEEE
T ss_pred CCceEEEEEecccchHHHHHHHhhcccccccc
Confidence 355789999999999999999887 354433
No 201
>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=20.08 E-value=1.7e+02 Score=15.97 Aligned_cols=54 Identities=17% Similarity=0.271 Sum_probs=37.4
Q ss_pred eEEEcCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCCceEEEEEeCCH----HHHHHHHHH
Q 031988 79 RLFVSGLSFRTSEDSLRNAFQGFGQLVEVNLVMDKIANRPRGFAFLRYATE----EESRRAIEG 138 (149)
Q Consensus 79 ~l~v~nL~~~~~~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~~fV~f~~~----~~a~~Al~~ 138 (149)
++.|.|+.=.--...+++.+...-.|.++.+-... +-.-|.|... +....+|+.
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 35566665555567789999999889988876554 6777888643 566666654
Done!