Query 046599
Match_columns 131
No_of_seqs 270 out of 2424
Neff 9.4
Searched_HMMs 46136
Date Fri Mar 29 02:29:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046599.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046599hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0107 Alternative splicing f 100.0 3.3E-27 7.2E-32 154.3 12.4 106 1-109 10-119 (195)
2 PLN03134 glycine-rich RNA-bind 99.8 9.5E-20 2.1E-24 118.9 13.0 71 2-72 35-112 (144)
3 KOG0109 RNA-binding protein LA 99.8 1.1E-20 2.4E-25 132.3 6.6 98 2-110 79-180 (346)
4 KOG4207 Predicted splicing fac 99.8 4.3E-18 9.4E-23 114.4 9.7 71 1-71 13-92 (256)
5 KOG0121 Nuclear cap-binding pr 99.7 2.8E-16 6.1E-21 98.5 7.6 77 2-78 37-122 (153)
6 TIGR01659 sex-lethal sex-letha 99.7 2.2E-15 4.7E-20 110.9 12.6 61 2-62 194-259 (346)
7 PF00076 RRM_1: RNA recognitio 99.7 4.4E-16 9.6E-21 89.2 7.1 59 4-62 1-63 (70)
8 TIGR01659 sex-lethal sex-letha 99.7 8.1E-16 1.7E-20 113.1 9.4 68 2-69 108-184 (346)
9 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 1E-15 2.2E-20 112.7 9.7 69 3-71 271-348 (352)
10 KOG0105 Alternative splicing f 99.6 1.2E-15 2.7E-20 101.2 9.0 70 2-71 7-82 (241)
11 KOG0122 Translation initiation 99.6 8.7E-16 1.9E-20 105.6 8.2 72 1-72 189-269 (270)
12 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.6 1.2E-15 2.7E-20 112.2 9.2 70 2-71 4-80 (352)
13 TIGR01648 hnRNP-R-Q heterogene 99.6 3.7E-14 8E-19 109.8 14.7 68 2-72 234-307 (578)
14 PLN03120 nucleic acid binding 99.6 7.6E-15 1.6E-19 102.9 9.9 70 2-72 5-78 (260)
15 KOG0125 Ataxin 2-binding prote 99.6 3.9E-15 8.4E-20 106.1 7.1 72 2-73 97-173 (376)
16 KOG0113 U1 small nuclear ribon 99.6 6.9E-14 1.5E-18 98.7 12.6 62 1-62 101-167 (335)
17 PF14259 RRM_6: RNA recognitio 99.6 3.3E-14 7.2E-19 81.7 7.5 59 4-62 1-63 (70)
18 KOG0148 Apoptosis-promoting RN 99.5 4.7E-14 1E-18 98.4 9.0 72 2-74 165-238 (321)
19 PLN03213 repressor of silencin 99.5 3.6E-14 7.8E-19 106.2 8.9 72 2-73 11-87 (759)
20 KOG0149 Predicted RNA-binding 99.5 1.5E-14 3.1E-19 99.1 5.8 62 1-62 12-78 (247)
21 KOG0109 RNA-binding protein LA 99.5 1.9E-14 4.1E-19 101.3 6.3 69 1-72 2-74 (346)
22 smart00362 RRM_2 RNA recogniti 99.5 1.8E-13 3.9E-18 77.8 9.0 65 3-67 1-70 (72)
23 TIGR01645 half-pint poly-U bin 99.5 6.7E-14 1.5E-18 108.7 9.1 70 1-70 107-183 (612)
24 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 1.4E-13 3.1E-18 105.4 10.1 70 2-71 276-348 (481)
25 KOG0130 RNA-binding protein RB 99.5 1.1E-13 2.4E-18 87.7 7.8 71 3-73 74-153 (170)
26 TIGR01628 PABP-1234 polyadenyl 99.5 1.1E-13 2.4E-18 107.8 9.1 69 2-70 1-78 (562)
27 TIGR01645 half-pint poly-U bin 99.5 1.4E-13 3E-18 106.9 9.4 70 2-71 205-281 (612)
28 PLN03121 nucleic acid binding 99.5 2.6E-13 5.6E-18 94.0 9.2 68 2-70 6-77 (243)
29 TIGR01648 hnRNP-R-Q heterogene 99.5 1.4E-13 3.1E-18 106.6 8.1 61 2-62 59-123 (578)
30 TIGR01642 U2AF_lg U2 snRNP aux 99.5 3E-13 6.5E-18 104.0 9.9 69 2-70 296-373 (509)
31 TIGR01622 SF-CC1 splicing fact 99.5 3.6E-13 7.8E-18 102.4 9.6 69 2-70 187-262 (457)
32 KOG0144 RNA-binding protein CU 99.4 9.6E-14 2.1E-18 102.1 4.9 72 3-74 126-208 (510)
33 KOG0117 Heterogeneous nuclear 99.4 2.6E-13 5.7E-18 100.2 7.0 69 2-73 260-332 (506)
34 TIGR01628 PABP-1234 polyadenyl 99.4 7.3E-13 1.6E-17 103.2 9.8 69 2-70 286-362 (562)
35 KOG0114 Predicted RNA-binding 99.4 1.2E-12 2.7E-17 79.4 8.5 60 3-62 20-81 (124)
36 KOG0111 Cyclophilin-type pepti 99.4 9.3E-14 2E-18 94.6 4.0 72 2-73 11-91 (298)
37 KOG0117 Heterogeneous nuclear 99.4 7E-13 1.5E-17 98.0 8.3 70 2-71 84-163 (506)
38 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 1.2E-12 2.5E-17 100.4 9.7 70 2-71 97-173 (481)
39 cd00590 RRM RRM (RNA recogniti 99.4 2.9E-12 6.3E-17 73.0 9.2 66 3-68 1-72 (74)
40 TIGR01622 SF-CC1 splicing fact 99.4 1.4E-12 3.1E-17 99.1 9.4 67 2-69 90-163 (457)
41 KOG0148 Apoptosis-promoting RN 99.4 9.3E-13 2E-17 92.0 6.3 71 3-73 64-143 (321)
42 KOG0126 Predicted RNA-binding 99.4 4.6E-14 9.9E-19 93.5 -0.8 67 3-69 37-110 (219)
43 KOG0144 RNA-binding protein CU 99.4 2.3E-12 4.9E-17 95.0 7.1 72 2-73 35-116 (510)
44 KOG0131 Splicing factor 3b, su 99.4 2E-12 4.4E-17 85.6 6.2 71 2-72 10-87 (203)
45 smart00360 RRM RNA recognition 99.4 6.8E-12 1.5E-16 70.8 7.7 57 6-62 1-62 (71)
46 COG0724 RNA-binding proteins ( 99.3 8.8E-12 1.9E-16 87.3 9.2 68 2-69 116-192 (306)
47 PF13893 RRM_5: RNA recognitio 99.3 3E-11 6.4E-16 66.5 7.6 45 18-62 1-45 (56)
48 TIGR01642 U2AF_lg U2 snRNP aux 99.3 1.1E-11 2.3E-16 95.4 7.7 67 2-70 176-256 (509)
49 KOG0146 RNA-binding protein ET 99.3 7.3E-12 1.6E-16 87.7 5.7 75 2-76 286-369 (371)
50 KOG0124 Polypyrimidine tract-b 99.3 5.3E-12 1.2E-16 91.7 4.7 70 1-70 113-189 (544)
51 KOG0145 RNA-binding protein EL 99.3 2.3E-11 5.1E-16 84.9 7.5 72 2-73 42-120 (360)
52 KOG0145 RNA-binding protein EL 99.3 4.6E-11 9.9E-16 83.5 8.5 60 3-62 280-344 (360)
53 KOG0108 mRNA cleavage and poly 99.2 2.5E-11 5.4E-16 91.3 7.6 70 2-71 19-95 (435)
54 KOG0153 Predicted RNA-binding 99.2 2.9E-11 6.3E-16 87.1 7.6 72 1-73 228-302 (377)
55 KOG0132 RNA polymerase II C-te 99.2 3.3E-11 7.2E-16 94.2 8.2 69 2-71 422-492 (894)
56 KOG0127 Nucleolar protein fibr 99.2 5.1E-11 1.1E-15 90.3 8.1 72 2-73 118-195 (678)
57 KOG0415 Predicted peptidyl pro 99.2 3.5E-11 7.6E-16 87.1 6.6 73 2-74 240-321 (479)
58 KOG0106 Alternative splicing f 99.2 3.8E-11 8.2E-16 82.4 5.1 69 1-72 1-71 (216)
59 KOG0146 RNA-binding protein ET 99.2 6.6E-11 1.4E-15 83.0 5.3 72 2-73 20-102 (371)
60 KOG4212 RNA-binding protein hn 99.2 9E-10 1.9E-14 81.8 11.5 69 3-71 46-121 (608)
61 KOG0116 RasGAP SH3 binding pro 99.1 1.2E-09 2.6E-14 81.9 11.0 71 2-72 289-365 (419)
62 KOG0147 Transcriptional coacti 99.1 1.5E-10 3.4E-15 87.5 5.6 60 3-62 280-344 (549)
63 KOG4206 Spliceosomal protein s 99.1 6E-10 1.3E-14 76.2 7.4 71 3-73 11-91 (221)
64 KOG0123 Polyadenylate-binding 99.1 5.5E-10 1.2E-14 83.0 7.8 58 4-62 79-139 (369)
65 KOG0127 Nucleolar protein fibr 99.1 3.2E-10 7E-15 86.0 6.3 73 2-74 6-87 (678)
66 smart00361 RRM_1 RNA recogniti 99.1 1.1E-09 2.4E-14 62.9 7.2 53 15-67 2-68 (70)
67 KOG0131 Splicing factor 3b, su 99.1 5.2E-10 1.1E-14 74.3 6.0 71 2-72 97-177 (203)
68 KOG1457 RNA binding protein (c 99.0 1.9E-09 4E-14 73.9 8.4 75 1-75 34-121 (284)
69 KOG0110 RNA-binding protein (R 99.0 1.6E-09 3.4E-14 84.2 7.4 71 2-72 516-596 (725)
70 KOG4212 RNA-binding protein hn 99.0 1.9E-09 4E-14 80.2 6.5 61 2-62 537-597 (608)
71 KOG4661 Hsp27-ERE-TATA-binding 98.9 6.2E-09 1.3E-13 79.8 8.0 71 3-73 407-486 (940)
72 KOG0110 RNA-binding protein (R 98.9 1.7E-09 3.8E-14 84.0 4.8 71 1-71 613-690 (725)
73 KOG0123 Polyadenylate-binding 98.9 5.7E-09 1.2E-13 77.6 7.4 70 1-73 1-76 (369)
74 KOG4205 RNA-binding protein mu 98.9 1.3E-09 2.8E-14 79.0 3.8 73 2-74 7-85 (311)
75 KOG0533 RRM motif-containing p 98.8 2.1E-08 4.7E-13 70.3 7.8 61 2-62 84-148 (243)
76 KOG0124 Polypyrimidine tract-b 98.8 9.6E-09 2.1E-13 75.0 6.0 61 2-62 211-276 (544)
77 KOG4660 Protein Mei2, essentia 98.8 4.8E-09 1E-13 79.7 4.5 61 2-62 76-136 (549)
78 KOG1457 RNA binding protein (c 98.8 5.6E-09 1.2E-13 71.6 3.6 61 2-62 211-272 (284)
79 KOG0151 Predicted splicing reg 98.8 1.5E-08 3.3E-13 79.1 6.3 61 2-62 175-243 (877)
80 KOG4208 Nucleolar RNA-binding 98.8 3.7E-08 8E-13 66.7 7.4 69 3-71 51-129 (214)
81 KOG4454 RNA binding protein (R 98.8 3.5E-09 7.7E-14 72.4 2.1 59 3-62 11-73 (267)
82 KOG4209 Splicing factor RNPS1, 98.7 1.5E-07 3.2E-12 65.9 9.6 70 2-72 102-180 (231)
83 KOG1548 Transcription elongati 98.7 8.1E-08 1.7E-12 69.6 7.3 72 2-73 135-220 (382)
84 KOG4205 RNA-binding protein mu 98.7 2.8E-08 6.2E-13 72.1 4.9 73 2-74 98-176 (311)
85 PF11608 Limkain-b1: Limkain b 98.6 8.6E-07 1.9E-11 52.1 8.0 65 2-71 3-74 (90)
86 KOG0106 Alternative splicing f 98.6 1.6E-07 3.5E-12 64.7 5.8 64 2-68 100-165 (216)
87 PF04059 RRM_2: RNA recognitio 98.5 1.7E-06 3.6E-11 52.7 8.5 61 2-62 2-69 (97)
88 PF08777 RRM_3: RNA binding mo 98.4 1.1E-06 2.4E-11 54.4 6.6 58 3-61 3-60 (105)
89 KOG4211 Splicing factor hnRNP- 98.4 1.8E-06 4E-11 65.2 7.4 67 4-71 13-83 (510)
90 KOG0105 Alternative splicing f 98.4 1.3E-05 2.9E-10 53.9 10.7 58 3-62 117-174 (241)
91 KOG1190 Polypyrimidine tract-b 98.4 2.3E-06 4.9E-11 63.5 7.6 70 2-71 298-372 (492)
92 KOG4206 Spliceosomal protein s 98.2 8.8E-06 1.9E-10 56.0 7.5 60 3-62 148-207 (221)
93 KOG1995 Conserved Zn-finger pr 98.2 4.2E-06 9E-11 61.1 6.2 61 2-62 67-140 (351)
94 PF14605 Nup35_RRM_2: Nup53/35 98.1 1E-05 2.2E-10 43.9 5.4 52 2-55 2-53 (53)
95 KOG4211 Splicing factor hnRNP- 98.1 1.2E-05 2.6E-10 60.9 6.9 59 3-61 105-168 (510)
96 KOG1190 Polypyrimidine tract-b 98.0 1.7E-05 3.7E-10 59.0 5.9 69 2-70 415-489 (492)
97 KOG0226 RNA-binding proteins [ 98.0 1.2E-05 2.7E-10 56.4 4.9 60 3-62 192-256 (290)
98 KOG1855 Predicted RNA-binding 97.9 7E-06 1.5E-10 61.3 2.9 60 3-62 233-310 (484)
99 KOG0120 Splicing factor U2AF, 97.9 8.6E-06 1.9E-10 62.4 3.0 69 2-70 290-367 (500)
100 KOG0129 Predicted RNA-binding 97.9 9.1E-05 2E-09 56.6 8.0 58 2-60 260-328 (520)
101 KOG2193 IGF-II mRNA-binding pr 97.8 2.3E-05 4.9E-10 58.7 3.9 68 1-70 1-72 (584)
102 KOG4849 mRNA cleavage factor I 97.7 4.1E-05 8.9E-10 56.1 3.9 60 3-62 82-148 (498)
103 KOG0129 Predicted RNA-binding 97.7 0.00018 3.8E-09 55.0 7.4 69 2-70 371-450 (520)
104 KOG4210 Nuclear localization s 97.7 5.7E-05 1.2E-09 54.6 3.9 71 3-74 186-264 (285)
105 COG5175 MOT2 Transcriptional r 97.6 0.0002 4.4E-09 52.4 6.4 68 3-70 116-199 (480)
106 KOG1456 Heterogeneous nuclear 97.6 0.0003 6.6E-09 52.1 7.1 66 8-73 129-200 (494)
107 KOG1456 Heterogeneous nuclear 97.6 0.00053 1.1E-08 50.8 8.2 71 3-73 289-362 (494)
108 PF00098 zf-CCHC: Zinc knuckle 97.6 5.1E-05 1.1E-09 31.9 1.8 17 92-108 2-18 (18)
109 KOG0147 Transcriptional coacti 97.4 0.00049 1.1E-08 53.0 6.4 46 17-62 469-514 (549)
110 KOG3152 TBP-binding protein, a 97.3 0.00017 3.6E-09 50.8 2.5 61 2-62 75-152 (278)
111 PF08675 RNA_bind: RNA binding 97.3 0.0044 9.6E-08 36.5 8.0 58 5-66 13-70 (87)
112 PF10309 DUF2414: Protein of u 97.3 0.0021 4.6E-08 35.8 6.4 54 2-58 6-62 (62)
113 KOG2314 Translation initiation 97.3 0.00088 1.9E-08 52.0 6.3 60 3-62 60-129 (698)
114 KOG0112 Large RNA-binding prot 97.2 0.00071 1.5E-08 54.9 5.1 69 2-71 456-530 (975)
115 PF05172 Nup35_RRM: Nup53/35/4 97.2 0.0024 5.2E-08 39.1 6.4 58 3-62 8-77 (100)
116 PF15023 DUF4523: Protein of u 97.2 0.0041 8.9E-08 40.4 7.4 67 1-69 86-157 (166)
117 KOG0120 Splicing factor U2AF, 97.0 0.0029 6.2E-08 49.0 6.9 52 17-68 425-486 (500)
118 KOG1365 RNA-binding protein Fu 97.0 0.00084 1.8E-08 50.0 3.7 68 3-70 282-358 (508)
119 KOG1365 RNA-binding protein Fu 97.0 0.0035 7.5E-08 46.8 6.6 59 3-61 163-229 (508)
120 KOG4307 RNA binding protein RB 96.9 0.0035 7.6E-08 50.0 6.7 66 3-68 869-941 (944)
121 KOG1548 Transcription elongati 96.8 0.0082 1.8E-07 44.2 7.0 55 16-70 291-348 (382)
122 PF08952 DUF1866: Domain of un 96.7 0.0091 2E-07 38.9 6.3 50 17-70 52-105 (146)
123 KOG0115 RNA-binding protein p5 96.7 0.002 4.4E-08 45.5 3.4 58 2-59 32-93 (275)
124 KOG0128 RNA-binding protein SA 96.6 0.0025 5.5E-08 51.5 3.8 70 2-71 737-814 (881)
125 KOG2416 Acinus (induces apopto 96.6 0.002 4.4E-08 50.3 3.0 60 2-62 445-505 (718)
126 KOG4676 Splicing factor, argin 96.5 0.0022 4.7E-08 47.9 2.8 58 3-61 9-74 (479)
127 KOG2202 U2 snRNP splicing fact 96.4 0.0018 4E-08 45.6 1.8 54 16-69 83-145 (260)
128 KOG4307 RNA binding protein RB 96.4 0.0095 2.1E-07 47.6 5.6 66 3-69 4-72 (944)
129 KOG0128 RNA-binding protein SA 96.3 0.00026 5.6E-09 57.0 -3.1 61 2-62 668-733 (881)
130 KOG0112 Large RNA-binding prot 95.9 0.0015 3.3E-08 53.1 -0.8 60 3-62 374-437 (975)
131 PRK11634 ATP-dependent RNA hel 95.8 0.58 1.3E-05 37.8 13.1 64 2-69 487-560 (629)
132 PF13917 zf-CCHC_3: Zinc knuck 95.7 0.015 3.3E-07 29.8 2.7 19 90-108 4-22 (42)
133 PF03467 Smg4_UPF3: Smg-4/UPF3 95.5 0.035 7.5E-07 37.5 4.6 61 2-62 8-79 (176)
134 PF13696 zf-CCHC_2: Zinc knuck 95.3 0.01 2.2E-07 28.5 1.2 22 89-110 7-28 (32)
135 KOG4574 RNA-binding protein (c 95.3 0.014 3E-07 47.6 2.6 69 3-72 300-374 (1007)
136 PF07576 BRAP2: BRCA1-associat 95.0 0.33 7.2E-06 30.2 7.7 56 7-62 19-78 (110)
137 KOG4660 Protein Mei2, essentia 94.2 0.13 2.8E-06 40.2 5.4 27 36-62 429-455 (549)
138 KOG4410 5-formyltetrahydrofola 94.1 0.15 3.3E-06 36.9 5.2 47 2-49 331-378 (396)
139 KOG1996 mRNA splicing factor [ 93.6 0.29 6.2E-06 35.7 5.8 47 16-62 301-353 (378)
140 KOG2591 c-Mpl binding protein, 93.2 0.31 6.7E-06 38.4 5.7 57 2-60 176-234 (684)
141 KOG2068 MOT2 transcription fac 93.1 0.073 1.6E-06 39.1 2.2 60 3-62 79-149 (327)
142 smart00343 ZnF_C2HC zinc finge 92.9 0.06 1.3E-06 24.4 1.0 17 92-108 1-17 (26)
143 KOG2253 U1 snRNP complex, subu 92.4 0.082 1.8E-06 42.1 1.9 57 2-62 41-97 (668)
144 PF14787 zf-CCHC_5: GAG-polypr 92.4 0.095 2.1E-06 25.7 1.4 19 91-109 3-21 (36)
145 PF03880 DbpA: DbpA RNA bindin 91.5 1.6 3.5E-05 24.9 7.0 62 3-68 2-71 (74)
146 KOG4285 Mitotic phosphoprotein 91.5 0.77 1.7E-05 33.6 5.7 54 5-61 201-254 (350)
147 KOG0804 Cytoplasmic Zn-finger 90.9 0.95 2.1E-05 34.8 6.0 61 2-62 75-139 (493)
148 PF04847 Calcipressin: Calcipr 90.6 1.3 2.8E-05 30.2 5.9 48 14-62 8-57 (184)
149 KOG4210 Nuclear localization s 90.0 0.19 4.1E-06 36.6 1.6 59 2-60 89-152 (285)
150 PTZ00368 universal minicircle 85.6 0.69 1.5E-05 30.1 2.1 18 91-108 130-147 (148)
151 COG5082 AIR1 Arginine methyltr 85.6 0.46 9.9E-06 32.4 1.2 17 91-107 98-114 (190)
152 COG5222 Uncharacterized conser 85.4 0.31 6.7E-06 35.6 0.4 22 88-109 174-195 (427)
153 COG5082 AIR1 Arginine methyltr 85.1 0.44 9.6E-06 32.5 1.0 20 88-107 58-77 (190)
154 PRK14548 50S ribosomal protein 84.0 6.6 0.00014 23.2 5.5 55 4-58 23-81 (84)
155 KOG2135 Proteins containing th 83.6 0.83 1.8E-05 35.4 2.0 42 14-56 386-427 (526)
156 KOG2318 Uncharacterized conser 83.1 11 0.00024 30.2 7.9 70 2-71 175-305 (650)
157 KOG4676 Splicing factor, argin 82.6 0.28 6E-06 37.1 -0.8 55 3-57 153-208 (479)
158 PF15513 DUF4651: Domain of un 82.3 4.1 8.9E-05 22.7 3.9 19 16-34 9-27 (62)
159 KOG4483 Uncharacterized conser 80.3 4.3 9.4E-05 31.0 4.7 53 3-57 393-446 (528)
160 TIGR03636 L23_arch archaeal ri 79.3 10 0.00022 22.0 5.6 55 3-57 15-73 (77)
161 PF14893 PNMA: PNMA 79.1 4.3 9.4E-05 30.3 4.4 70 3-72 20-97 (331)
162 PF02714 DUF221: Domain of unk 78.8 3.4 7.4E-05 30.2 3.8 30 41-70 1-32 (325)
163 KOG2891 Surface glycoprotein [ 78.5 1.3 2.8E-05 32.2 1.5 32 3-34 151-194 (445)
164 PF14392 zf-CCHC_4: Zinc knuck 78.3 0.93 2E-05 23.8 0.5 18 90-107 31-48 (49)
165 PF11767 SET_assoc: Histone ly 77.7 10 0.00022 21.3 7.3 47 12-62 11-57 (66)
166 PF03439 Spt5-NGN: Early trans 77.2 6.1 0.00013 23.1 3.9 36 27-62 33-68 (84)
167 KOG4400 E3 ubiquitin ligase in 76.4 1.5 3.3E-05 31.3 1.4 19 91-109 144-162 (261)
168 PF15288 zf-CCHC_6: Zinc knuck 74.4 2.4 5.3E-05 21.4 1.4 20 91-110 2-23 (40)
169 PF03468 XS: XS domain; Inter 73.1 7.7 0.00017 24.4 3.8 54 3-56 10-75 (116)
170 PTZ00368 universal minicircle 72.8 4.2 9.2E-05 26.4 2.7 17 92-108 54-70 (148)
171 KOG0119 Splicing factor 1/bran 70.5 3.9 8.3E-05 32.1 2.3 23 39-61 205-227 (554)
172 KOG1295 Nonsense-mediated deca 70.1 6 0.00013 29.9 3.2 61 2-62 8-76 (376)
173 KOG2295 C2H2 Zn-finger protein 66.9 0.92 2E-05 35.9 -1.6 61 2-62 232-297 (648)
174 COG0002 ArgC Acetylglutamate s 65.8 20 0.00043 27.0 5.2 32 2-34 247-279 (349)
175 KOG4008 rRNA processing protei 65.4 5 0.00011 28.5 1.9 32 2-33 41-72 (261)
176 PRK08559 nusG transcription an 63.8 34 0.00074 22.4 5.6 35 28-62 36-70 (153)
177 KOG2193 IGF-II mRNA-binding pr 63.0 1.3 2.7E-05 34.1 -1.5 60 3-62 82-143 (584)
178 KOG0107 Alternative splicing f 61.8 28 0.00061 23.8 4.8 10 2-11 38-47 (195)
179 PF07292 NID: Nmi/IFP 35 domai 59.9 5.2 0.00011 23.9 1.0 21 2-22 53-73 (88)
180 PTZ00191 60S ribosomal protein 59.5 48 0.001 21.8 5.6 51 3-53 83-137 (145)
181 KOG4019 Calcineurin-mediated s 58.2 16 0.00034 25.0 3.2 71 2-73 11-89 (193)
182 PF11411 DNA_ligase_IV: DNA li 56.0 10 0.00022 18.7 1.5 16 11-26 19-34 (36)
183 PF00906 Hepatitis_core: Hepat 55.3 3.9 8.5E-05 27.3 0.0 15 114-128 169-183 (187)
184 PF10567 Nab6_mRNP_bdg: RNA-re 51.6 55 0.0012 24.2 5.2 50 4-53 18-79 (309)
185 CHL00123 rps6 ribosomal protei 51.5 52 0.0011 19.8 4.5 52 9-60 14-84 (97)
186 PF00403 HMA: Heavy-metal-asso 50.5 38 0.00082 17.9 6.9 54 3-57 1-58 (62)
187 COG0030 KsgA Dimethyladenosine 47.6 33 0.00072 24.8 3.7 26 3-28 97-122 (259)
188 PF00398 RrnaAD: Ribosomal RNA 45.8 21 0.00046 25.4 2.5 27 3-29 99-127 (262)
189 PF09707 Cas_Cas2CT1978: CRISP 45.4 65 0.0014 19.1 4.4 43 3-45 27-71 (86)
190 COG0150 PurM Phosphoribosylami 43.0 11 0.00024 28.3 0.7 47 15-61 275-322 (345)
191 PHA01632 hypothetical protein 42.9 28 0.0006 18.9 2.0 21 4-24 19-39 (64)
192 TIGR00405 L26e_arch ribosomal 41.8 93 0.002 19.9 5.5 35 28-62 28-62 (145)
193 TIGR01873 cas_CT1978 CRISPR-as 40.6 67 0.0015 19.1 3.7 45 3-47 27-74 (87)
194 PF08544 GHMP_kinases_C: GHMP 38.4 74 0.0016 17.8 6.1 43 16-59 37-80 (85)
195 TIGR00755 ksgA dimethyladenosi 38.0 48 0.001 23.4 3.3 23 4-26 97-119 (253)
196 PF09902 DUF2129: Uncharacteri 37.5 81 0.0018 18.0 5.5 46 21-70 16-62 (71)
197 cd00027 BRCT Breast Cancer Sup 37.0 56 0.0012 16.9 2.9 45 3-50 3-47 (72)
198 PF08156 NOP5NT: NOP5NT (NUC12 36.8 13 0.00027 20.9 0.2 39 16-59 27-65 (67)
199 PF12353 eIF3g: Eukaryotic tra 34.3 25 0.00053 22.5 1.2 20 88-108 104-123 (128)
200 COG5353 Uncharacterized protei 34.2 1.4E+02 0.003 19.8 4.6 48 3-50 89-154 (161)
201 PRK00274 ksgA 16S ribosomal RN 34.2 58 0.0012 23.4 3.3 22 3-24 107-128 (272)
202 KOG4213 RNA-binding protein La 33.9 79 0.0017 21.7 3.6 33 26-58 132-170 (205)
203 PF03108 DBD_Tnp_Mut: MuDR fam 33.9 84 0.0018 17.1 3.4 29 43-71 8-36 (67)
204 PTZ00338 dimethyladenosine tra 33.5 55 0.0012 24.0 3.1 21 4-24 104-124 (294)
205 PRK10629 EnvZ/OmpR regulon mod 32.6 1.4E+02 0.0029 19.1 7.1 57 3-62 37-97 (127)
206 COG0724 RNA-binding proteins ( 32.3 57 0.0012 22.1 3.0 33 2-34 226-258 (306)
207 PF04127 DFP: DNA / pantothena 31.5 1.7E+02 0.0037 19.9 5.9 56 5-60 22-81 (185)
208 PF07530 PRE_C2HC: Associated 31.5 1E+02 0.0022 17.3 3.6 57 16-73 2-64 (68)
209 PF15063 TC1: Thyroid cancer p 31.2 32 0.00069 19.9 1.2 23 6-28 30-52 (79)
210 PF00276 Ribosomal_L23: Riboso 30.5 67 0.0014 19.1 2.6 31 3-33 21-53 (91)
211 KOG4066 Cell growth regulatory 30.5 96 0.0021 20.8 3.5 56 6-70 79-135 (177)
212 smart00650 rADc Ribosomal RNA 30.4 89 0.0019 20.4 3.5 21 4-24 80-100 (169)
213 PRK11901 hypothetical protein; 30.0 2.3E+02 0.005 21.3 5.7 48 12-60 253-306 (327)
214 PRK11558 putative ssRNA endonu 30.0 1.3E+02 0.0029 18.3 3.8 45 3-47 29-75 (97)
215 PF13046 DUF3906: Protein of u 29.9 88 0.0019 17.5 2.8 30 14-43 31-63 (64)
216 TIGR01743 purR_Bsub pur operon 29.4 2.1E+02 0.0046 20.8 5.4 42 17-58 44-85 (268)
217 PF14112 DUF4284: Domain of un 29.3 68 0.0015 20.2 2.6 20 1-23 1-20 (122)
218 PRK05738 rplW 50S ribosomal pr 29.1 1.1E+02 0.0023 18.3 3.3 19 6-24 24-42 (92)
219 PRK09213 pur operon repressor; 28.4 2.1E+02 0.0046 20.8 5.3 42 17-58 46-87 (271)
220 PF11823 DUF3343: Protein of u 28.3 1.1E+02 0.0023 17.1 3.1 30 39-69 2-31 (73)
221 PRK11863 N-acetyl-gamma-glutam 27.4 95 0.0021 23.1 3.4 32 2-33 210-244 (313)
222 KOG1134 Uncharacterized conser 27.0 1.2E+02 0.0026 25.5 4.2 36 37-72 304-341 (728)
223 PRK02302 hypothetical protein; 27.0 1.5E+02 0.0032 17.8 5.2 46 21-70 22-68 (89)
224 cd06257 DnaJ DnaJ domain or J- 26.8 65 0.0014 16.4 2.0 20 6-25 5-24 (55)
225 smart00596 PRE_C2HC PRE_C2HC d 25.9 1.2E+02 0.0026 17.3 2.9 57 16-73 2-64 (69)
226 PRK02886 hypothetical protein; 25.4 1.6E+02 0.0034 17.6 5.2 46 21-70 20-66 (87)
227 KOG0862 Synaptobrevin/VAMP-lik 25.3 80 0.0017 22.2 2.6 31 16-49 89-120 (216)
228 KOG3116 Predicted C3H1-type Zn 24.9 14 0.0003 24.4 -1.1 19 91-109 28-46 (177)
229 KOG3671 Actin regulatory prote 24.9 2.1E+02 0.0046 23.0 5.0 50 12-61 89-138 (569)
230 COG2608 CopZ Copper chaperone 24.9 1.4E+02 0.003 16.6 5.5 44 3-47 5-48 (71)
231 COG1278 CspC Cold shock protei 24.7 26 0.00056 19.8 0.1 38 36-74 11-56 (67)
232 PF12829 Mhr1: Transcriptional 24.4 1.1E+02 0.0023 18.5 2.7 24 38-61 51-74 (91)
233 KOG0156 Cytochrome P450 CYP2 s 24.3 2E+02 0.0043 22.8 4.9 48 6-57 37-87 (489)
234 PRK01178 rps24e 30S ribosomal 24.1 1.7E+02 0.0037 17.8 3.6 15 12-26 30-45 (99)
235 PF08206 OB_RNB: Ribonuclease 24.0 86 0.0019 16.7 2.1 11 37-47 7-17 (58)
236 cd01611 GABARAP Ubiquitin doma 23.2 1.9E+02 0.0041 18.0 3.8 13 10-22 48-60 (112)
237 PF00226 DnaJ: DnaJ domain; I 23.2 83 0.0018 16.7 2.0 19 7-25 6-24 (64)
238 KOG3432 Vacuolar H+-ATPase V1 23.0 69 0.0015 20.0 1.7 21 11-31 43-63 (121)
239 PTZ00380 microtubule-associate 22.9 1.7E+02 0.0037 18.6 3.5 12 38-49 97-108 (121)
240 smart00271 DnaJ DnaJ molecular 22.7 85 0.0019 16.3 2.0 20 6-25 6-25 (60)
241 COG3444 Phosphotransferase sys 22.6 1.7E+02 0.0038 19.5 3.7 25 38-62 76-100 (159)
242 COG4009 Uncharacterized protei 22.4 86 0.0019 18.4 1.9 23 4-26 51-73 (88)
243 COG5594 Uncharacterized integr 22.3 1.3E+02 0.0027 25.7 3.5 35 38-72 357-394 (827)
244 PRK09937 stationary phase/star 22.2 1.1E+02 0.0023 17.5 2.3 12 36-47 11-22 (74)
245 cd04870 ACT_PSP_1 CT domains f 22.2 58 0.0013 18.1 1.3 9 18-26 16-24 (75)
246 PF13600 DUF4140: N-terminal d 22.2 27 0.00058 21.0 -0.2 18 2-19 24-41 (104)
247 PRK12450 foldase protein PrsA; 22.1 2.6E+02 0.0057 20.5 4.9 39 12-59 132-170 (309)
248 CHL00030 rpl23 ribosomal prote 22.0 1.6E+02 0.0034 17.8 3.1 16 47-62 31-46 (93)
249 PHA00147 upper collar protein 21.7 1.2E+02 0.0026 22.4 3.0 25 7-31 42-66 (308)
250 PF01071 GARS_A: Phosphoribosy 21.5 2.8E+02 0.0062 19.1 4.8 48 13-60 24-72 (194)
251 PRK15464 cold shock-like prote 21.5 1E+02 0.0022 17.4 2.2 12 36-47 14-25 (70)
252 COG0089 RplW Ribosomal protein 21.4 1.6E+02 0.0034 17.9 3.0 16 47-62 33-48 (94)
253 COG5507 Uncharacterized conser 21.2 1.5E+02 0.0032 18.3 2.8 23 39-61 67-89 (117)
254 KOG3424 40S ribosomal protein 21.2 2.3E+02 0.0051 18.0 3.9 39 11-50 33-81 (132)
255 PF13037 DUF3898: Domain of un 20.9 1.1E+02 0.0024 18.2 2.2 47 13-59 31-90 (91)
256 PTZ00071 40S ribosomal protein 20.9 2.5E+02 0.0054 18.2 4.2 15 12-26 35-50 (132)
257 PF09341 Pcc1: Transcription f 20.8 1.6E+02 0.0035 16.5 3.0 20 40-59 4-23 (76)
258 KOG2673 Uncharacterized conser 20.4 57 0.0012 25.6 1.2 21 91-111 129-149 (485)
259 PF14111 DUF4283: Domain of un 20.3 74 0.0016 20.2 1.6 31 4-34 107-138 (153)
260 KOG2044 5'-3' exonuclease HKE1 20.2 54 0.0012 27.7 1.1 21 89-109 259-279 (931)
No 1
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.95 E-value=3.3e-27 Score=154.26 Aligned_cols=106 Identities=50% Similarity=0.911 Sum_probs=89.1
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecCCCCC
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNSRGGG 76 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~~~~~ 76 (131)
.++|||+||+..+++.||+.+|..||.|..|+|-..+.|||||+|+++.+|+.|+..|+|.. .|+||++...+...
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~r~~ 89 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRPRGS 89 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCcccc
Confidence 47999999999999999999999999999999988889999999999999999999999998 58888888877654
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCC
Q 046599 77 GGRGGGRGRSGGSDLKCYECGEPGHFARECRLR 109 (131)
Q Consensus 77 ~~~~~~~~~~~~~~~~~~~~g~~g~~~~~~~~~ 109 (131)
..+... . ......|+.||+.||+.+.|.+.
T Consensus 90 r~gg~~-~--~~g~~~~~r~G~rg~~~r~~~~s 119 (195)
T KOG0107|consen 90 RRGGSR-P--PRGRGFCYRCGERGHIGRNCKDS 119 (195)
T ss_pred ccCCCC-C--cccccccccCCCccccccccccc
Confidence 322211 1 12223399999999999999874
No 2
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.84 E-value=9.5e-20 Score=118.95 Aligned_cols=71 Identities=30% Similarity=0.599 Sum_probs=61.5
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~ 72 (131)
++|||+|||+++|+++|+++|.+||.|..+.|+. +++|||||+|++.++|++||+.||+.+ +..|.|..+.
T Consensus 35 ~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~ 112 (144)
T PLN03134 35 TKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAN 112 (144)
T ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCC
Confidence 5899999999999999999999999999998863 468999999999999999999999986 4444444443
No 3
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.83 E-value=1.1e-20 Score=132.34 Aligned_cols=98 Identities=32% Similarity=0.653 Sum_probs=89.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecCCCCCC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNSRGGGG 77 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~~~~~~ 77 (131)
++|+|+||.+.++.++|+..|.+||.|.+++|+ ++|+||.|+..++|..|+..||+.+ .++|+++.++-....
T Consensus 79 tkl~vgNis~tctn~ElRa~fe~ygpviecdiv---kdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrtap 155 (346)
T KOG0109|consen 79 TKLHVGNISPTCTNQELRAKFEKYGPVIECDIV---KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTAP 155 (346)
T ss_pred cccccCCCCccccCHHHhhhhcccCCceeeeee---cceeEEEEeeccchHHHHhcccccccccceeeeeeeccccccCC
Confidence 689999999999999999999999999999998 7899999999999999999999997 689999988766555
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCcCCCCC
Q 046599 78 GRGGGRGRSGGSDLKCYECGEPGHFARECRLRG 110 (131)
Q Consensus 78 ~~~~~~~~~~~~~~~~~~~g~~g~~~~~~~~~~ 110 (131)
+ .++...||+||..|||+.+||..+
T Consensus 156 g--------mgDq~~cyrcGkeghwskEcP~~~ 180 (346)
T KOG0109|consen 156 G--------MGDQSGCYRCGKEGHWSKECPVDR 180 (346)
T ss_pred C--------CCCHHHheeccccccccccCCccC
Confidence 4 678889999999999999999863
No 4
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.77 E-value=4.3e-18 Score=114.44 Aligned_cols=71 Identities=37% Similarity=0.668 Sum_probs=64.6
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeec
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHN 71 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~ 71 (131)
|++|-|-||.+.++.++|..+|++||.|-+|.|.. +++|||||.|.+..+|+.|+++|+|.. .|+|+++.-
T Consensus 13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ary 92 (256)
T KOG4207|consen 13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARY 92 (256)
T ss_pred ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhc
Confidence 68999999999999999999999999999999974 579999999999999999999999996 567777653
No 5
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.67 E-value=2.8e-16 Score=98.48 Aligned_cols=77 Identities=29% Similarity=0.504 Sum_probs=66.6
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc-----cCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA-----RRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~-----~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~ 72 (131)
++|||+||+..++|+.|.++|+++|+|..|.|- ..+-||+||+|.+.++|+.|++.+++.. .|+|.+...-
T Consensus 37 ~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF 116 (153)
T KOG0121|consen 37 CTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGF 116 (153)
T ss_pred ceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccccc
Confidence 689999999999999999999999999998773 2467999999999999999999999985 7788887765
Q ss_pred CCCCCC
Q 046599 73 RGGGGG 78 (131)
Q Consensus 73 ~~~~~~ 78 (131)
..++..
T Consensus 117 ~eGRQy 122 (153)
T KOG0121|consen 117 VEGRQY 122 (153)
T ss_pred hhhhhh
Confidence 554444
No 6
>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=99.66 E-value=2.2e-15 Score=110.87 Aligned_cols=61 Identities=31% Similarity=0.556 Sum_probs=56.5
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
++|||+|||+++|+++|+++|++||.|..+.|+. ++++||||+|.+.++|++||+.||+..
T Consensus 194 ~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~ 259 (346)
T TIGR01659 194 TNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVI 259 (346)
T ss_pred ceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCc
Confidence 5799999999999999999999999999998874 356999999999999999999999985
No 7
>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=99.66 E-value=4.4e-16 Score=89.16 Aligned_cols=59 Identities=47% Similarity=0.845 Sum_probs=55.0
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 4 VYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
|||+|||+++|+++|+++|.+||.|..+.+.. ..+++|||+|.+.++|+.|++.|++..
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~ 63 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKK 63 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCE
Confidence 79999999999999999999999999998875 357899999999999999999999975
No 8
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.65 E-value=8.1e-16 Score=113.12 Aligned_cols=68 Identities=32% Similarity=0.562 Sum_probs=60.4
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEe
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELS 69 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~ 69 (131)
++|||+|||+++|+++|+++|+.||+|..|+|+. .++|||||+|.++++|+.||+.||+.. .|+|.++
T Consensus 108 ~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a 184 (346)
T TIGR01659 108 TNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYA 184 (346)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecc
Confidence 6899999999999999999999999999999864 357999999999999999999999986 4455444
No 9
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.65 E-value=1e-15 Score=112.70 Aligned_cols=69 Identities=30% Similarity=0.510 Sum_probs=61.0
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--c--eEEEEeec
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--G--WRVELSHN 71 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~--~~v~~~~~ 71 (131)
+|||+|||+.+++++|.++|++||.|..+.|+. .++|||||+|.+.++|..||+.|||.. + |+|.+...
T Consensus 271 ~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~ 348 (352)
T TIGR01661 271 CIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTN 348 (352)
T ss_pred EEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccC
Confidence 599999999999999999999999999999974 368999999999999999999999997 4 45554443
No 10
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.65 E-value=1.2e-15 Score=101.21 Aligned_cols=70 Identities=43% Similarity=0.782 Sum_probs=61.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc--CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR--RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~--~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~ 71 (131)
.+|||+|||.++.+.+|+++|.+||.|..|.+.. ....||||+|+++.+|+.||..-++.. .|+|++...
T Consensus 7 ~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprg 82 (241)
T KOG0105|consen 7 RRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRG 82 (241)
T ss_pred ceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccC
Confidence 4799999999999999999999999999998863 346799999999999999999999887 567776654
No 11
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.65 E-value=8.7e-16 Score=105.55 Aligned_cols=72 Identities=43% Similarity=0.628 Sum_probs=64.8
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeec
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHN 71 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~ 71 (131)
.++|-|.||+.+++|++|+++|.+||.|..+.|.. .++|||||.|++.++|++||..|||.- .|+|+|+++
T Consensus 189 ~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP 268 (270)
T KOG0122|consen 189 EATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKP 268 (270)
T ss_pred cceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCC
Confidence 36899999999999999999999999999998864 479999999999999999999999985 678888775
Q ss_pred C
Q 046599 72 S 72 (131)
Q Consensus 72 ~ 72 (131)
+
T Consensus 269 ~ 269 (270)
T KOG0122|consen 269 S 269 (270)
T ss_pred C
Confidence 4
No 12
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.64 E-value=1.2e-15 Score=112.19 Aligned_cols=70 Identities=23% Similarity=0.446 Sum_probs=61.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~ 71 (131)
++|||+|||+.+++++|+++|++||+|..|.|+. .++|||||+|.+.++|+.||+.||+.. +..|.+..+
T Consensus 4 ~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a 80 (352)
T TIGR01661 4 TNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYA 80 (352)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEee
Confidence 6899999999999999999999999999999974 367999999999999999999999986 444444333
No 13
>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=99.61 E-value=3.7e-14 Score=109.78 Aligned_cols=68 Identities=37% Similarity=0.581 Sum_probs=59.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcC--CCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--c--eEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVF--GVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--G--WRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~--G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~--~~v~~~~~~ 72 (131)
.+|||+||++++|+++|+++|++| |.|..|.++ ++||||+|++.++|++||+.||+.+ + |+|+++.+.
T Consensus 234 k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~---rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~ 307 (578)
T TIGR01648 234 KILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI---RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPV 307 (578)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee---cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCC
Confidence 479999999999999999999999 999999876 6899999999999999999999997 4 455555443
No 14
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.61 E-value=7.6e-15 Score=102.90 Aligned_cols=70 Identities=26% Similarity=0.386 Sum_probs=60.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC--CCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR--PPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~--~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~ 72 (131)
.+|||+|||+.+|+++|+++|+.||.|..|.|+.+ .++||||+|++.++|+.||. ||+.. +..|.+..+.
T Consensus 5 rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 5 RTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE 78 (260)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence 58999999999999999999999999999999753 57999999999999999995 99886 5555555543
No 15
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.59 E-value=3.9e-15 Score=106.10 Aligned_cols=72 Identities=29% Similarity=0.519 Sum_probs=64.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc---cCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecCC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA---RRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNSR 73 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~---~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~~ 73 (131)
..|+|.|||+...+.||+.+|.+||.|.+|.|+ +.+|||+||+|++.++|++|-++|||.. +.+|||..+..
T Consensus 97 kRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATa 173 (376)
T KOG0125|consen 97 KRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATA 173 (376)
T ss_pred ceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccch
Confidence 479999999999999999999999999999997 3589999999999999999999999996 77777766543
No 16
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.58 E-value=6.9e-14 Score=98.68 Aligned_cols=62 Identities=32% Similarity=0.662 Sum_probs=58.4
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
..||||+-|+.+++|..|+..|..||+|+.|.|+. +++|||||+|+++.++.+|.+..++++
T Consensus 101 y~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~ 167 (335)
T KOG0113|consen 101 YKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIK 167 (335)
T ss_pred cceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCce
Confidence 36999999999999999999999999999999874 689999999999999999999999987
No 17
>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=99.55 E-value=3.3e-14 Score=81.69 Aligned_cols=59 Identities=36% Similarity=0.684 Sum_probs=51.9
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC----CCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 4 VYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR----PPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~----~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
|||+|||+++++++|.++|..+|.|..+.+... .+++|||+|.+.++|+.|++.+++..
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~ 63 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKE 63 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcE
Confidence 799999999999999999999999999988754 36899999999999999999888654
No 18
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.54 E-value=4.7e-14 Score=98.43 Aligned_cols=72 Identities=35% Similarity=0.586 Sum_probs=65.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecCCC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNSRG 74 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~~~ 74 (131)
|+|||+||+..+||++|++.|+.||+|.+|+|..+ +||+||.|++.|.|..||..||+.+ +-.|..++.+..
T Consensus 165 tsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~-qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~ 238 (321)
T KOG0148|consen 165 TSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD-QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEG 238 (321)
T ss_pred ceEEeCCcCccccHHHHHHhcccCCcceEEEEecc-cceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccC
Confidence 68999999999999999999999999999999765 8999999999999999999999998 666777766543
No 19
>PLN03213 repressor of silencing 3; Provisional
Probab=99.54 E-value=3.6e-14 Score=106.22 Aligned_cols=72 Identities=26% Similarity=0.423 Sum_probs=61.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-CCCcEEEEEEcCH--HHHHHHHHHhcCCc--ceEEEEeecCC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-RPPGYAFIDFDDY--RDAQDAIRELDGKN--GWRVELSHNSR 73 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-~~~g~~fv~f~~~--~~a~~ai~~l~g~~--~~~v~~~~~~~ 73 (131)
.+||||||++.+++++|..+|+.||.|..|.|++ ..+|||||+|.+. .++.+||..||+.+ +..|.|..+++
T Consensus 11 MRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP 87 (759)
T PLN03213 11 VRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKE 87 (759)
T ss_pred eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccH
Confidence 4799999999999999999999999999999985 3589999999987 68999999999997 54555554433
No 20
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.53 E-value=1.5e-14 Score=99.09 Aligned_cols=62 Identities=27% Similarity=0.478 Sum_probs=55.9
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+++|||++|+|.+..++|+++|++||+|.+..|+. +++||+||+|.+.++|..|++..|-..
T Consensus 12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piI 78 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPII 78 (247)
T ss_pred EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcc
Confidence 47999999999999999999999999999988763 589999999999999999998766553
No 21
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.53 E-value=1.9e-14 Score=101.28 Aligned_cols=69 Identities=29% Similarity=0.546 Sum_probs=61.7
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecC
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNS 72 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~ 72 (131)
+.+|||+|||..+++.+|+.+|.+||+|.+|.|+ |.|+||+.++...++.||..|++.+ .|+|+-++++
T Consensus 2 ~~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv---KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 2 PVKLFIGNLPREATEQELRSLFEQYGKVLECDIV---KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred ccchhccCCCcccchHHHHHHHHhhCceEeeeee---cccceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 4689999999999999999999999999999998 7899999999999999999999987 4555555554
No 22
>smart00362 RRM_2 RNA recognition motif.
Probab=99.52 E-value=1.8e-13 Score=77.77 Aligned_cols=65 Identities=38% Similarity=0.731 Sum_probs=57.2
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC---CCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEE
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR---PPGYAFIDFDDYRDAQDAIRELDGKN--GWRVE 67 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~---~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~ 67 (131)
+|||.|||..+++++|+++|.+||.|..+.+... ++++|||+|.+.++|+.|++.+++.. +..|.
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~ 70 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLR 70 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEe
Confidence 5899999999999999999999999999988754 36999999999999999999999865 44444
No 23
>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=99.52 E-value=6.7e-14 Score=108.70 Aligned_cols=70 Identities=29% Similarity=0.608 Sum_probs=62.0
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEee
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSH 70 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~ 70 (131)
+++|||+|||+.+++++|+++|.+||.|..|.|+. +++|||||+|.+.++|+.||+.||+.. +..|.+..
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r 183 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 183 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence 46899999999999999999999999999999863 479999999999999999999999986 55555543
No 24
>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=99.51 E-value=1.4e-13 Score=105.41 Aligned_cols=70 Identities=26% Similarity=0.337 Sum_probs=61.6
Q ss_pred ceEEEcCCCC-CCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeec
Q 046599 2 SRVYVGNLDS-RVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~-~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~ 71 (131)
++|||+|||+ .+|+++|+++|+.||.|..|+|+...+|||||+|.+.++|+.||..||+.. +..|.|..+
T Consensus 276 ~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s 348 (481)
T TIGR01649 276 SVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPS 348 (481)
T ss_pred CEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEc
Confidence 4899999998 699999999999999999999987778999999999999999999999986 444444443
No 25
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.51 E-value=1.1e-13 Score=87.70 Aligned_cols=71 Identities=24% Similarity=0.521 Sum_probs=62.5
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecCC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNSR 73 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~~ 73 (131)
-|||.++.+.+|+++|.+.|..||+|+.|.+.- ..+|||+|+|++..+|++||..||+.+ .+.|.|...+.
T Consensus 74 Ii~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~g 153 (170)
T KOG0130|consen 74 IIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVKG 153 (170)
T ss_pred EEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEecC
Confidence 589999999999999999999999999998863 468999999999999999999999987 55666666543
No 26
>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=99.50 E-value=1.1e-13 Score=107.76 Aligned_cols=69 Identities=38% Similarity=0.644 Sum_probs=60.5
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEee
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSH 70 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~ 70 (131)
++|||+|||+++||++|.++|.+||.|..|.|+. +++|||||+|.+.++|++||+.||+.. .|+|.++.
T Consensus 1 ~sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~ 78 (562)
T TIGR01628 1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQ 78 (562)
T ss_pred CeEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccc
Confidence 4799999999999999999999999999999964 467999999999999999999999885 34555543
No 27
>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=99.50 E-value=1.4e-13 Score=106.95 Aligned_cols=70 Identities=27% Similarity=0.556 Sum_probs=61.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~ 71 (131)
.+|||+|||+++++++|+++|+.||.|..+.|.. .++|||||+|++.++|..||+.||+.+ +..|.|.++
T Consensus 205 ~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kA 281 (612)
T TIGR01645 205 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKC 281 (612)
T ss_pred ceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEec
Confidence 5899999999999999999999999999999864 368999999999999999999999997 444444443
No 28
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.49 E-value=2.6e-13 Score=94.04 Aligned_cols=68 Identities=28% Similarity=0.379 Sum_probs=59.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc--CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEee
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR--RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSH 70 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~--~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~ 70 (131)
.+|||+||++.+|+++|+++|+.||+|.+|.|+. ...+||||+|+++++++.|+. |+|.. ...|.+..
T Consensus 6 ~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~ 77 (243)
T PLN03121 6 YTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITR 77 (243)
T ss_pred eEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEe
Confidence 3799999999999999999999999999999985 346899999999999999995 99987 44555554
No 29
>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=99.48 E-value=1.4e-13 Score=106.56 Aligned_cols=61 Identities=26% Similarity=0.465 Sum_probs=57.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
++|||+|||++++|++|.++|++||.|..++|+. .++|||||+|.+.++|++||+.||+.+
T Consensus 59 ~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~ 123 (578)
T TIGR01648 59 CEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYE 123 (578)
T ss_pred CEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCe
Confidence 6899999999999999999999999999999864 578999999999999999999999875
No 30
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.48 E-value=3e-13 Score=104.00 Aligned_cols=69 Identities=28% Similarity=0.535 Sum_probs=60.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--c--eEEEEee
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--G--WRVELSH 70 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~--~~v~~~~ 70 (131)
.+|||+|||+.+|+++|+++|.+||.|..+.|+. .++|||||+|.+.++|+.||+.||+.. + |.|+++.
T Consensus 296 ~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 296 DRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC 373 (509)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence 4799999999999999999999999999988863 368999999999999999999999997 3 4555543
No 31
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.47 E-value=3.6e-13 Score=102.39 Aligned_cols=69 Identities=33% Similarity=0.667 Sum_probs=60.3
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEee
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSH 70 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~ 70 (131)
.+|||+|||..+|+++|+++|.+||.|..|.|+. .++|||||+|.+.++|+.|++.||+.. +..|.|..
T Consensus 187 ~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~ 262 (457)
T TIGR01622 187 LKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGY 262 (457)
T ss_pred CEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEE
Confidence 5899999999999999999999999999998873 457999999999999999999999986 43444444
No 32
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=9.6e-14 Score=102.14 Aligned_cols=72 Identities=26% Similarity=0.536 Sum_probs=65.2
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCCc-------ceEEEEeec
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGKN-------GWRVELSHN 71 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~~-------~~~v~~~~~ 71 (131)
+|||+.|+..+||.+|+++|++||.|++|.|++ .++|||||.|.+.+.|..||+.||+.. .+.|.|+..
T Consensus 126 KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADt 205 (510)
T KOG0144|consen 126 KLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADT 205 (510)
T ss_pred hhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEeccc
Confidence 789999999999999999999999999999985 479999999999999999999999985 677888766
Q ss_pred CCC
Q 046599 72 SRG 74 (131)
Q Consensus 72 ~~~ 74 (131)
++.
T Consensus 206 qkd 208 (510)
T KOG0144|consen 206 QKD 208 (510)
T ss_pred CCC
Confidence 553
No 33
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=2.6e-13 Score=100.17 Aligned_cols=69 Identities=32% Similarity=0.498 Sum_probs=61.4
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecCC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNSR 73 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~~ 73 (131)
..|||.||+.+||++.|+++|.+||.|..|+.+ +.||||+|.+.++|.+|++.||+++ .|.|.++++..
T Consensus 260 KvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~---rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~ 332 (506)
T KOG0117|consen 260 KVLYVRNLMESTTEETLKKLFNEFGKVERVKKP---RDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVD 332 (506)
T ss_pred eeeeeeccchhhhHHHHHHHHHhccceEEeecc---cceeEEeecchHHHHHHHHHhcCceecCceEEEEecCChh
Confidence 569999999999999999999999999999876 6699999999999999999999997 56666666543
No 34
>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=99.44 E-value=7.3e-13 Score=103.16 Aligned_cols=69 Identities=30% Similarity=0.497 Sum_probs=61.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEee
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSH 70 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~ 70 (131)
++|||+||++.+|+++|+++|++||.|..+.|+. .++|||||+|.+.++|++|+..||+.. .+.|.++.
T Consensus 286 ~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~ 362 (562)
T TIGR01628 286 VNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQ 362 (562)
T ss_pred CEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEecc
Confidence 4799999999999999999999999999999864 468999999999999999999999986 45555554
No 35
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.44 E-value=1.2e-12 Score=79.36 Aligned_cols=60 Identities=30% Similarity=0.582 Sum_probs=55.9
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc--cCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA--RRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~--~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
-|||.|||+.+|.++..++|.+||.|..|.|- ...+|-|||.|++..+|..|++.|+|..
T Consensus 20 iLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n 81 (124)
T KOG0114|consen 20 ILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYN 81 (124)
T ss_pred eEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccc
Confidence 48999999999999999999999999999985 3468999999999999999999999986
No 36
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.44 E-value=9.3e-14 Score=94.61 Aligned_cols=72 Identities=29% Similarity=0.592 Sum_probs=63.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~ 72 (131)
.+|||++|...+|+.-|...|-.||.|..|.+.- +.+||+||+|+..++|.+||..||+.+ .|+|.++.+.
T Consensus 11 rtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~ 90 (298)
T KOG0111|consen 11 RTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPE 90 (298)
T ss_pred eeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCc
Confidence 5899999999999999999999999999999863 579999999999999999999999998 4566666554
Q ss_pred C
Q 046599 73 R 73 (131)
Q Consensus 73 ~ 73 (131)
.
T Consensus 91 k 91 (298)
T KOG0111|consen 91 K 91 (298)
T ss_pred c
Confidence 3
No 37
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.43 E-value=7e-13 Score=97.96 Aligned_cols=70 Identities=31% Similarity=0.438 Sum_probs=62.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc-----ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN-----GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~-----~~~v~~~~~ 71 (131)
+.|||+.||.++.|++|.-+|++.|+|-+++|+. +++|||||.|.+.++|+.||+.||+.+ .|.|.++.+
T Consensus 84 ~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sva 163 (506)
T KOG0117|consen 84 CEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVA 163 (506)
T ss_pred ceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeee
Confidence 5799999999999999999999999999999874 579999999999999999999999997 455665554
No 38
>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=99.42 E-value=1.2e-12 Score=100.44 Aligned_cols=70 Identities=21% Similarity=0.274 Sum_probs=60.6
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCC-CcEEEEEEcCHHHHHHHHHHhcCCc------ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRP-PGYAFIDFDDYRDAQDAIRELDGKN------GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~-~g~~fv~f~~~~~a~~ai~~l~g~~------~~~v~~~~~ 71 (131)
.+|||.||++.+|+++|+++|+.||.|..|.|..+. .++|||+|++.++|++|++.||+.+ .++|+++..
T Consensus 97 ~~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~~~~~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l~v~~sk~ 173 (481)
T TIGR01649 97 LRVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTKNNVFQALVEFESVNSAQHAKAALNGADIYNGCCTLKIEYAKP 173 (481)
T ss_pred EEEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEecCCceEEEEEECCHHHHHHHHHHhcCCcccCCceEEEEEEecC
Confidence 379999999999999999999999999999887543 4799999999999999999999997 255555543
No 39
>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=99.42 E-value=2.9e-12 Score=73.04 Aligned_cols=66 Identities=39% Similarity=0.771 Sum_probs=58.1
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC----CCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEE
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR----PPGYAFIDFDDYRDAQDAIRELDGKN--GWRVEL 68 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~----~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~ 68 (131)
+|+|+|||+.+++++|.++|..+|.|..+.+... ..+++||+|.+.++|+.|++.+++.. +.+|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v 72 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRV 72 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence 5899999999999999999999999999988754 37899999999999999999999984 445544
No 40
>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=99.41 E-value=1.4e-12 Score=99.09 Aligned_cols=67 Identities=30% Similarity=0.487 Sum_probs=58.4
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEe
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELS 69 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~ 69 (131)
.+|||+|||..+++++|+++|.+||.|..|.|+. .++|||||+|.+.++|++||. |++.. +..|.+.
T Consensus 90 ~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~ 163 (457)
T TIGR01622 90 RTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQ 163 (457)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEe
Confidence 4799999999999999999999999999999864 468999999999999999997 88886 4444443
No 41
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.39 E-value=9.3e-13 Score=92.03 Aligned_cols=71 Identities=28% Similarity=0.610 Sum_probs=64.2
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecCC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNSR 73 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~~ 73 (131)
.+||+.|...++.++|++.|.+||+|.+++|++ ++|||+||.|.+.++|+.||+.|||.. .|+..|+..++
T Consensus 64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp 143 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKP 143 (321)
T ss_pred eEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence 589999999999999999999999999999975 689999999999999999999999996 46666776655
No 42
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.37 E-value=4.6e-14 Score=93.45 Aligned_cols=67 Identities=27% Similarity=0.555 Sum_probs=60.1
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEe
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELS 69 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~ 69 (131)
-|||+|||+..||.||-.+|++||+|..|.+++ +++||||+.|++..+...|+..|||.. +..|.|.
T Consensus 37 ~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVD 110 (219)
T KOG0126|consen 37 YIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVD 110 (219)
T ss_pred EEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEee
Confidence 589999999999999999999999999999974 689999999999999999999999997 4444444
No 43
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=2.3e-12 Score=95.03 Aligned_cols=72 Identities=21% Similarity=0.481 Sum_probs=62.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc-----ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN-----GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~-----~~~v~~~~~ 71 (131)
.+|||+.||..++|.||+++|++||.|.+|.|++ .++|||||.|.+.++|.+|+.+|++++ ...|++..+
T Consensus 35 vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~A 114 (510)
T KOG0144|consen 35 VKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYA 114 (510)
T ss_pred hhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeeccc
Confidence 4799999999999999999999999999999975 368999999999999999999999987 234555544
Q ss_pred CC
Q 046599 72 SR 73 (131)
Q Consensus 72 ~~ 73 (131)
+.
T Consensus 115 d~ 116 (510)
T KOG0144|consen 115 DG 116 (510)
T ss_pred ch
Confidence 33
No 44
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.36 E-value=2e-12 Score=85.64 Aligned_cols=71 Identities=32% Similarity=0.532 Sum_probs=62.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~ 72 (131)
.||||+||++.++++.|.++|-+.|+|..+.|.+ ..+||||++|.++++|+-||+.||..+ +..|.+.++.
T Consensus 10 ~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas 87 (203)
T KOG0131|consen 10 ATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS 87 (203)
T ss_pred ceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence 5899999999999999999999999999999874 368999999999999999999999766 5455555543
No 45
>smart00360 RRM RNA recognition motif.
Probab=99.36 E-value=6.8e-12 Score=70.83 Aligned_cols=57 Identities=42% Similarity=0.767 Sum_probs=51.3
Q ss_pred EcCCCCCCcHHHHHHHhhcCCCeeEEEEccC-----CCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 6 VGNLDSRVSERDLEDEFRVFGVIRSVWVARR-----PPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 6 V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~-----~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
|+|||..+++++|+++|.+||.|..+.+... ++++|||+|.+.++|..|++.|++..
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~ 62 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKE 62 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCe
Confidence 5799999999999999999999999988643 36899999999999999999999765
No 46
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.34 E-value=8.8e-12 Score=87.33 Aligned_cols=68 Identities=38% Similarity=0.736 Sum_probs=59.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEe
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELS 69 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~ 69 (131)
.+|||+|||..+|+++|.++|.+||.|..+.+.. ..+|||||+|.+.++|..|++.|++.. .+.|.++
T Consensus 116 ~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~ 192 (306)
T COG0724 116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKA 192 (306)
T ss_pred ceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecc
Confidence 6899999999999999999999999998888753 468999999999999999999999886 3445543
No 47
>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=99.29 E-value=3e-11 Score=66.49 Aligned_cols=45 Identities=33% Similarity=0.699 Sum_probs=40.4
Q ss_pred HHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 18 LEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 18 l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
|.++|++||+|..+.+..+..++|||+|.+.++|+.|++.||+..
T Consensus 1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~ 45 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQ 45 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSE
T ss_pred ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCE
Confidence 678999999999999986546999999999999999999999997
No 48
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.29 E-value=1.1e-11 Score=95.43 Aligned_cols=67 Identities=24% Similarity=0.398 Sum_probs=53.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcC------------CCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEE
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVF------------GVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVE 67 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~------------G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~ 67 (131)
.+|||+|||+.+|+++|.++|.++ +.|..+.+. ..++||||+|.+.++|+.||. |++.. +..|.
T Consensus 176 r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~-~~kg~afVeF~~~e~A~~Al~-l~g~~~~g~~l~ 253 (509)
T TIGR01642 176 RRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN-KEKNFAFLEFRTVEEATFAMA-LDSIIYSNVFLK 253 (509)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC-CCCCEEEEEeCCHHHHhhhhc-CCCeEeeCceeE
Confidence 479999999999999999999874 244445444 458999999999999999995 99986 55555
Q ss_pred Eee
Q 046599 68 LSH 70 (131)
Q Consensus 68 ~~~ 70 (131)
+..
T Consensus 254 v~r 256 (509)
T TIGR01642 254 IRR 256 (509)
T ss_pred ecC
Confidence 543
No 49
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.28 E-value=7.3e-12 Score=87.67 Aligned_cols=75 Identities=24% Similarity=0.407 Sum_probs=66.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc-----cCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA-----RRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~-----~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~ 72 (131)
++|||-.||.+..+.||.++|..||.|.+.++. ..+|+|+||.|.++.+|++||..|||.. .++|++..++
T Consensus 286 CNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRPk 365 (371)
T KOG0146|consen 286 CNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRPK 365 (371)
T ss_pred ceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCcc
Confidence 689999999999999999999999999887764 2579999999999999999999999986 6788888776
Q ss_pred CCCC
Q 046599 73 RGGG 76 (131)
Q Consensus 73 ~~~~ 76 (131)
..++
T Consensus 366 danR 369 (371)
T KOG0146|consen 366 DANR 369 (371)
T ss_pred ccCC
Confidence 5443
No 50
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.27 E-value=5.3e-12 Score=91.70 Aligned_cols=70 Identities=29% Similarity=0.608 Sum_probs=62.2
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEee
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSH 70 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~ 70 (131)
|+.|||+.|.+.+.|+.|+..|..||+|++|.+.. +.+|||||+|+-++.|+.|++.||+.. +.+|.+-.
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 68999999999999999999999999999998853 679999999999999999999999986 44554443
No 51
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.26 E-value=2.3e-11 Score=84.88 Aligned_cols=72 Identities=25% Similarity=0.443 Sum_probs=61.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecCC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNSR 73 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~~ 73 (131)
++|.|.-||.++|+++|+.+|...|+|++|++++ .+.||+||.|.++++|++||..|||.. ...|+|+.+++
T Consensus 42 TNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARP 120 (360)
T KOG0145|consen 42 TNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARP 120 (360)
T ss_pred ceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccC
Confidence 6788999999999999999999999999999985 468999999999999999999999985 33444444433
No 52
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.25 E-value=4.6e-11 Score=83.46 Aligned_cols=60 Identities=32% Similarity=0.513 Sum_probs=56.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
-|||-||.++++|.-|+++|.+||.|..|+|++ +.+||+||.+.+-++|..||..|||..
T Consensus 280 ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~ 344 (360)
T KOG0145|consen 280 CIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYR 344 (360)
T ss_pred EEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCcc
Confidence 489999999999999999999999999999985 468999999999999999999999997
No 53
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.25 E-value=2.5e-11 Score=91.27 Aligned_cols=70 Identities=33% Similarity=0.557 Sum_probs=61.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~ 71 (131)
..|||+|||+++++++|..+|+..|.|..++++. +++||+|++|.+.++|+.|++.||+.+ +.++.+.++
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~ 95 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYA 95 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecc
Confidence 5799999999999999999999999999999973 579999999999999999999999998 444444443
No 54
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.25 E-value=2.9e-11 Score=87.08 Aligned_cols=72 Identities=31% Similarity=0.577 Sum_probs=61.6
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc---ceEEEEeecCC
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN---GWRVELSHNSR 73 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~---~~~v~~~~~~~ 73 (131)
+++|||++|...+++.+|.++|.+||+|..|.+... ++||||+|.+.++|+.|.+.+-+.. +.+|.+.++.+
T Consensus 228 I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~-~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 228 IKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR-KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred eeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc-cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 479999999999999999999999999999988754 6799999999999999988776653 55666666655
No 55
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.24 E-value=3.3e-11 Score=94.20 Aligned_cols=69 Identities=29% Similarity=0.543 Sum_probs=60.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~ 71 (131)
+||||++|+.+++|.||..+|+.||+|.+|.++. +++||||.+....+|++|+.+|++.. ...|.++++
T Consensus 422 rTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~-~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa 492 (894)
T KOG0132|consen 422 RTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP-PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWA 492 (894)
T ss_pred eeeeeccccchhhHHHHHHHHHhcccceeEeecc-CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeee
Confidence 5899999999999999999999999999998874 48999999999999999999999776 444444444
No 56
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.22 E-value=5.1e-11 Score=90.27 Aligned_cols=72 Identities=26% Similarity=0.522 Sum_probs=62.4
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecCC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNSR 73 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~~ 73 (131)
.+|.|.|||+.+...+|+.+|++||.|..|.|+. +..|||||+|.+..+|..|++.||+.+ +..|-+.++.+
T Consensus 118 ~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~ 195 (678)
T KOG0127|consen 118 WRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVD 195 (678)
T ss_pred ceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecc
Confidence 4789999999999999999999999999999974 346999999999999999999999997 55555555444
No 57
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.21 E-value=3.5e-11 Score=87.10 Aligned_cols=73 Identities=29% Similarity=0.422 Sum_probs=64.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~ 72 (131)
+.|||..|.+-+|.++|+-+|+.||.|..|.|++ .+..||||+|++.+++++|.-+|++.. .|+|.++.+.
T Consensus 240 NVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSV 319 (479)
T KOG0415|consen 240 NVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSV 319 (479)
T ss_pred ceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhhh
Confidence 4699999999999999999999999999999985 356799999999999999999999985 7888887765
Q ss_pred CC
Q 046599 73 RG 74 (131)
Q Consensus 73 ~~ 74 (131)
..
T Consensus 320 sk 321 (479)
T KOG0415|consen 320 SK 321 (479)
T ss_pred hh
Confidence 54
No 58
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.18 E-value=3.8e-11 Score=82.42 Aligned_cols=69 Identities=43% Similarity=0.784 Sum_probs=60.7
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecC
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNS 72 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~ 72 (131)
|..+||++||+.+.+.+|+.+|..||.+..+.+. .+|+||+|++..+|..||..||+.+ +.++.+..+.
T Consensus 1 m~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk---~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r 71 (216)
T KOG0106|consen 1 MPRVYIGRLPYRARERDVERFFKGYGKIPDADMK---NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHAR 71 (216)
T ss_pred CCceeecccCCccchhHHHHHHhhccccccceee---cccceeccCchhhhhcccchhcCceecceeeeeeccc
Confidence 6789999999999999999999999999999886 7899999999999999999999997 3344444444
No 59
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.15 E-value=6.6e-11 Score=82.96 Aligned_cols=72 Identities=32% Similarity=0.551 Sum_probs=64.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCCc-------ceEEEEee
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGKN-------GWRVELSH 70 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~~-------~~~v~~~~ 70 (131)
.+|||+.|...-.|+|++.+|..||.|.++.+.+ .+|||+||.|.+..+|++||..|++.. .+.|+++.
T Consensus 20 rklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~AD 99 (371)
T KOG0146|consen 20 RKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFAD 99 (371)
T ss_pred hhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEecc
Confidence 3799999999999999999999999999999874 579999999999999999999999986 46777766
Q ss_pred cCC
Q 046599 71 NSR 73 (131)
Q Consensus 71 ~~~ 73 (131)
..+
T Consensus 100 Tdk 102 (371)
T KOG0146|consen 100 TDK 102 (371)
T ss_pred chH
Confidence 544
No 60
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.15 E-value=9e-10 Score=81.84 Aligned_cols=69 Identities=23% Similarity=0.397 Sum_probs=60.3
Q ss_pred eEEEcCCCCCCcHHHHHHHhh-cCCCeeEEEEc----cCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeec
Q 046599 3 RVYVGNLDSRVSERDLEDEFR-VFGVIRSVWVA----RRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHN 71 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~-~~G~i~~~~i~----~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~ 71 (131)
.+||.|||+++.|++|+++|. +.|+|..|.+. .+++|||.|+|++++.+++|++.||..+ +..+.+...
T Consensus 46 ~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd 121 (608)
T KOG4212|consen 46 SVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKED 121 (608)
T ss_pred eEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEecc
Confidence 489999999999999999995 58999999886 4689999999999999999999999997 555555443
No 61
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.11 E-value=1.2e-09 Score=81.93 Aligned_cols=71 Identities=23% Similarity=0.460 Sum_probs=54.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~~~~ 72 (131)
.+|||.|||+++++.+|+++|.+||.|+...|.. +..+||||+|++.++++.||++-.-.. .++|.|...+
T Consensus 289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~ 365 (419)
T KOG0116|consen 289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKR 365 (419)
T ss_pred cceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEecc
Confidence 3599999999999999999999999999876642 223899999999999999998652221 4444444433
No 62
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.10 E-value=1.5e-10 Score=87.49 Aligned_cols=60 Identities=38% Similarity=0.691 Sum_probs=56.2
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.|||+||.+++++++|..+|+.||.|..|.+.. ..+||+||+|.+.++|.+|++.||+.+
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfe 344 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFE 344 (549)
T ss_pred hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccce
Confidence 489999999999999999999999999998864 468999999999999999999999987
No 63
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.08 E-value=6e-10 Score=76.21 Aligned_cols=71 Identities=25% Similarity=0.499 Sum_probs=62.8
Q ss_pred eEEEcCCCCCCcHHHHHH----HhhcCCCeeEEEEcc--CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecC
Q 046599 3 RVYVGNLDSRVSERDLED----EFRVFGVIRSVWVAR--RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNS 72 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~----~f~~~G~i~~~~i~~--~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~ 72 (131)
||||.||++.+..++|+. +|++||.|..|...+ +.+|-|||.|.+.+.|..|+..|+|.- .++|++++.+
T Consensus 11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~ 90 (221)
T KOG4206|consen 11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSD 90 (221)
T ss_pred eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCc
Confidence 899999999999998877 999999999998864 568999999999999999999999985 5677777665
Q ss_pred C
Q 046599 73 R 73 (131)
Q Consensus 73 ~ 73 (131)
.
T Consensus 91 s 91 (221)
T KOG4206|consen 91 S 91 (221)
T ss_pred c
Confidence 4
No 64
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.08 E-value=5.5e-10 Score=83.00 Aligned_cols=58 Identities=38% Similarity=0.650 Sum_probs=54.6
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC---CCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 4 VYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR---PPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~---~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
|||.||++.++..+|.++|+.||+|.+|++..+ ++|| ||+|+++++|.+||+.|||..
T Consensus 79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~l 139 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGML 139 (369)
T ss_pred eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcc
Confidence 899999999999999999999999999999743 6889 999999999999999999986
No 65
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.07 E-value=3.2e-10 Score=86.01 Aligned_cols=73 Identities=22% Similarity=0.350 Sum_probs=63.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~ 72 (131)
.||||++||+.++.++|.++|+.+|+|..+.++. ..+||+||.|.-.++++.|++.+++.. .++|+++..+
T Consensus 6 ~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R 85 (678)
T KOG0127|consen 6 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKR 85 (678)
T ss_pred ceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceeccccccccc
Confidence 4899999999999999999999999999998874 368999999999999999999999964 4566666554
Q ss_pred CC
Q 046599 73 RG 74 (131)
Q Consensus 73 ~~ 74 (131)
.+
T Consensus 86 ~r 87 (678)
T KOG0127|consen 86 AR 87 (678)
T ss_pred cc
Confidence 43
No 66
>smart00361 RRM_1 RNA recognition motif.
Probab=99.07 E-value=1.1e-09 Score=62.94 Aligned_cols=53 Identities=32% Similarity=0.611 Sum_probs=44.0
Q ss_pred HHHHHHHhh----cCCCeeEEE-E-c------cCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEE
Q 046599 15 ERDLEDEFR----VFGVIRSVW-V-A------RRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVE 67 (131)
Q Consensus 15 ~~~l~~~f~----~~G~i~~~~-i-~------~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~ 67 (131)
+++|+++|. +||.|..+. | + ..++||+||.|.+.++|+.|+..||+.. +..|.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~ 68 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVK 68 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence 578888998 999999884 3 2 2468999999999999999999999987 54544
No 67
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.05 E-value=5.2e-10 Score=74.31 Aligned_cols=71 Identities=31% Similarity=0.613 Sum_probs=58.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeE-EEEc-----cCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRS-VWVA-----RRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~-~~i~-----~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~ 71 (131)
.+|||+||.++++|..|.++|+.||.+.. -+|+ +++++|+||.|.+.+.+.+|+..||+.- .+.|.++..
T Consensus 97 anlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k 176 (203)
T KOG0131|consen 97 ANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFK 176 (203)
T ss_pred ccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEe
Confidence 47999999999999999999999997765 2333 3678999999999999999999999986 455665554
Q ss_pred C
Q 046599 72 S 72 (131)
Q Consensus 72 ~ 72 (131)
+
T Consensus 177 ~ 177 (203)
T KOG0131|consen 177 K 177 (203)
T ss_pred c
Confidence 3
No 68
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.04 E-value=1.9e-09 Score=73.95 Aligned_cols=75 Identities=21% Similarity=0.329 Sum_probs=60.4
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEE--ccC----CCcEEEEEEcCHHHHHHHHHHhcCCc-------ceEEE
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWV--ARR----PPGYAFIDFDDYRDAQDAIRELDGKN-------GWRVE 67 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i--~~~----~~g~~fv~f~~~~~a~~ai~~l~g~~-------~~~v~ 67 (131)
+.||||.+||.++...+|..+|..|-.-+...| ..+ .+-+|||+|.+..+|++|+..|||.. .++|+
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiE 113 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIE 113 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEee
Confidence 468999999999999999999998854444333 322 24699999999999999999999985 67888
Q ss_pred EeecCCCC
Q 046599 68 LSHNSRGG 75 (131)
Q Consensus 68 ~~~~~~~~ 75 (131)
++++..+.
T Consensus 114 lAKSNtK~ 121 (284)
T KOG1457|consen 114 LAKSNTKR 121 (284)
T ss_pred ehhcCccc
Confidence 88775543
No 69
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.99 E-value=1.6e-09 Score=84.22 Aligned_cols=71 Identities=30% Similarity=0.570 Sum_probs=60.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC--------CCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR--------PPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~--------~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~ 71 (131)
++|||.||++.+|.++|+.+|...|.|..+.|..+ +.|||||+|.+.++|+.|++.|+++. +..|++..+
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S 595 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKIS 595 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEec
Confidence 45999999999999999999999999999988531 35999999999999999999999886 555555444
Q ss_pred C
Q 046599 72 S 72 (131)
Q Consensus 72 ~ 72 (131)
.
T Consensus 596 ~ 596 (725)
T KOG0110|consen 596 E 596 (725)
T ss_pred c
Confidence 3
No 70
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.96 E-value=1.9e-09 Score=80.20 Aligned_cols=61 Identities=20% Similarity=0.257 Sum_probs=54.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
++|||.|||.+.||+.|++-|..||.|....|+...+.-+.|.|.++++|+.|+..|++..
T Consensus 537 ~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~ 597 (608)
T KOG4212|consen 537 CQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPEDAERACALMNGSR 597 (608)
T ss_pred cEEEEecCCccccHHHHHHHHHhccceehhhhhccCCccceEEecCHHHHHHHHHHhccCc
Confidence 6899999999999999999999999999999864334445999999999999999999997
No 71
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.91 E-value=6.2e-09 Score=79.78 Aligned_cols=71 Identities=23% Similarity=0.365 Sum_probs=61.3
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC-----CCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecCC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR-----PPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNSR 73 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~-----~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~~ 73 (131)
+|||.+|+..+...+|+.+|++||.|.-.+|+.+ .++|+||++.+.++|.+||+.|+.++ .|.|+-++..+
T Consensus 407 NlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNEp 486 (940)
T KOG4661|consen 407 NLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNEP 486 (940)
T ss_pred ceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccCc
Confidence 6999999999999999999999999999888742 46899999999999999999999987 45566555444
No 72
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.90 E-value=1.7e-09 Score=84.01 Aligned_cols=71 Identities=27% Similarity=0.544 Sum_probs=61.2
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC-----CCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeec
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR-----PPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHN 71 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~-----~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~ 71 (131)
+++|+|.|||+..+-.+|+++|..||+|..|.|+.+ ++|||||+|-++.+|..|+..|..+. +.++.+.++
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA 690 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWA 690 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehh
Confidence 579999999999999999999999999999999753 58999999999999999999999665 444444443
No 73
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.90 E-value=5.7e-09 Score=77.63 Aligned_cols=70 Identities=31% Similarity=0.491 Sum_probs=60.0
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC--CCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecCC
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR--PPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNSR 73 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~--~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~~ 73 (131)
+..|||+ +++|+..|.++|+.+|+|..+++..+ +.|||||.|.++.+|++||+.||... .++|.|+...+
T Consensus 1 ~~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~ 76 (369)
T KOG0123|consen 1 MASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP 76 (369)
T ss_pred CCceecC---CcCChHHHHHHhcccCCceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC
Confidence 5689999 99999999999999999999988643 67899999999999999999999886 55666665443
No 74
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.90 E-value=1.3e-09 Score=79.00 Aligned_cols=73 Identities=23% Similarity=0.440 Sum_probs=61.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEeecCCC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELSHNSRG 74 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~~~~~~ 74 (131)
++|||++|+++++++.|++.|.+||+|.++.+++ .+++|+||+|++.+...++|..-..+. +..|+...+.+.
T Consensus 7 ~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~r 85 (311)
T KOG4205|consen 7 GKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVSR 85 (311)
T ss_pred cceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccCc
Confidence 6899999999999999999999999999999875 468999999999999888887654443 677777766554
No 75
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.83 E-value=2.1e-08 Score=70.26 Aligned_cols=61 Identities=33% Similarity=0.499 Sum_probs=55.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc----cCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA----RRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~----~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
++|+|.|||+.|+++||+++|..||.++.+.|. +.+.|.|-|.|...++|.+|++.+++..
T Consensus 84 ~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ 148 (243)
T KOG0533|consen 84 TKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVA 148 (243)
T ss_pred ceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcc
Confidence 579999999999999999999999988877775 3467999999999999999999999975
No 76
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.82 E-value=9.6e-09 Score=75.04 Aligned_cols=61 Identities=30% Similarity=0.609 Sum_probs=56.6
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+.|||..+.++.+++||+.+|+.||+|..|.+-+ ..+||+||+|.+..+...||..||-.+
T Consensus 211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFD 276 (544)
T KOG0124|consen 211 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFD 276 (544)
T ss_pred heEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhh
Confidence 5899999999999999999999999999999853 579999999999999999999998776
No 77
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.82 E-value=4.8e-09 Score=79.71 Aligned_cols=61 Identities=31% Similarity=0.491 Sum_probs=57.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
-+|+|.|||..|++++|..+|+.||+|..|.......+..||+|.+..+|+.|+++|++.+
T Consensus 76 ~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~ 136 (549)
T KOG4660|consen 76 GTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRRE 136 (549)
T ss_pred ceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHH
Confidence 3799999999999999999999999999988776778999999999999999999999886
No 78
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.78 E-value=5.6e-09 Score=71.64 Aligned_cols=61 Identities=23% Similarity=0.397 Sum_probs=52.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+||||.||..++||++|+.+|+.|.....++|.. .....||++|++.+.|..|+..|+|..
T Consensus 211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~ 272 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNL 272 (284)
T ss_pred hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhcce
Confidence 5899999999999999999999998766666642 335689999999999999999888864
No 79
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.78 E-value=1.5e-08 Score=79.07 Aligned_cols=61 Identities=36% Similarity=0.550 Sum_probs=56.4
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc--------CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR--------RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~--------~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
++|||+||++.++++.|-..|..||+|..++|+. ....|+||.|-+..+|++|++.|+++.
T Consensus 175 TNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~i 243 (877)
T KOG0151|consen 175 TNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGII 243 (877)
T ss_pred cceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhccee
Confidence 6899999999999999999999999999999873 246799999999999999999999996
No 80
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.78 E-value=3.7e-08 Score=66.73 Aligned_cols=69 Identities=22% Similarity=0.367 Sum_probs=57.3
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcC-CCeeEEEEc-----cCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeec
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVF-GVIRSVWVA-----RRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHN 71 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~-G~i~~~~i~-----~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~ 71 (131)
-+||..+|..+.+.+|...|.++ |.|..+.+- ++++|||||+|++.+.|..|.+.||+.. .+.+.+-.+
T Consensus 51 ~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmpp 129 (214)
T KOG4208|consen 51 VVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPP 129 (214)
T ss_pred ceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCc
Confidence 47899999999999999999998 677777773 3689999999999999999999999986 445554433
No 81
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.76 E-value=3.5e-09 Score=72.37 Aligned_cols=59 Identities=25% Similarity=0.283 Sum_probs=54.3
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
||||+||...++|+-|.++|.+.|+|..+.|.. +.+ ||||.|+++..+.-|++.|||..
T Consensus 11 tl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~ 73 (267)
T KOG4454|consen 11 TLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDD 73 (267)
T ss_pred HHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccch
Confidence 799999999999999999999999999999863 334 99999999999999999999985
No 82
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.74 E-value=1.5e-07 Score=65.94 Aligned_cols=70 Identities=33% Similarity=0.601 Sum_probs=59.4
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeecC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHNS 72 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~~ 72 (131)
..+||+|+...+|.++++.+|+.||.|..+.|.. ++++|+||+|.+.+.++.|+. ||+.+ .+.|+.....
T Consensus 102 ~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 102 PSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRTN 180 (231)
T ss_pred ceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeeee
Confidence 4799999999999999999999999998776652 478999999999999999999 99987 4555555544
No 83
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.69 E-value=8.1e-08 Score=69.58 Aligned_cols=72 Identities=19% Similarity=0.279 Sum_probs=59.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeE--------EEEc----cCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEE
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRS--------VWVA----RRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVE 67 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~--------~~i~----~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~ 67 (131)
+.|||.|||.++|.+++.++|+++|-|.. |+|- ++.+|-|++.|...+++..|++.|++.. +..|.
T Consensus 135 t~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~r 214 (382)
T KOG1548|consen 135 TSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGKKLR 214 (382)
T ss_pred ceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCcEEE
Confidence 46999999999999999999999997653 3332 3578999999999999999999999997 55555
Q ss_pred EeecCC
Q 046599 68 LSHNSR 73 (131)
Q Consensus 68 ~~~~~~ 73 (131)
|..++-
T Consensus 215 VerAkf 220 (382)
T KOG1548|consen 215 VERAKF 220 (382)
T ss_pred Eehhhh
Confidence 555543
No 84
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.68 E-value=2.8e-08 Score=72.09 Aligned_cols=73 Identities=27% Similarity=0.551 Sum_probs=59.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHH-hcCCcceEEEEeecCCC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRE-LDGKNGWRVELSHNSRG 74 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~-l~g~~~~~v~~~~~~~~ 74 (131)
.+|||++||.+++++++++.|.+||.|..+.++. ..++|+||.|.+++++.+++.. .+...+..|++..+.+.
T Consensus 98 kkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~pk 176 (311)
T KOG4205|consen 98 KKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAIPK 176 (311)
T ss_pred eEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccceeeecCceeeEeeccch
Confidence 3899999999999999999999999888887763 4789999999999998887652 22223667777776654
No 85
>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=98.57 E-value=8.6e-07 Score=52.11 Aligned_cols=65 Identities=26% Similarity=0.380 Sum_probs=44.6
Q ss_pred ceEEEcCCCCCCcHHH----HHHHhhcCC-CeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERD----LEDEFRVFG-VIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~----l~~~f~~~G-~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~ 71 (131)
+.|||.|||.+.+... |++++..+| .|..|. .+.|+|.|.+.+.|+.|.+.|++.. +.+|.++..
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~-----~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~ 74 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS-----GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS 74 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe-----CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence 5799999999988765 566777887 666652 6889999999999999999999997 556666654
No 86
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.57 E-value=1.6e-07 Score=64.68 Aligned_cols=64 Identities=41% Similarity=0.640 Sum_probs=54.7
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEE
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVEL 68 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~ 68 (131)
+.|.|.+|+..+.+++|.++|.++|++....+ ..+++||.|+..++|..|+..|++.+ ..+|.+
T Consensus 100 ~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~---~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 100 FRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA---RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred ceeeeccchhhhhHHHHhhhhcccCCCchhhh---hccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 36788999999999999999999999855444 37899999999999999999999998 445555
No 87
>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=98.51 E-value=1.7e-06 Score=52.71 Aligned_cols=61 Identities=20% Similarity=0.350 Sum_probs=50.5
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcC--CCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVF--GVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~--G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
|||.|.|||...|.++|.+++... |....+.++- ...|||||.|.+++.|..-.+.++|..
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~ 69 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKK 69 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCc
Confidence 799999999999999999988653 4444444432 357999999999999999999999986
No 88
>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=98.44 E-value=1.1e-06 Score=54.36 Aligned_cols=58 Identities=22% Similarity=0.351 Sum_probs=39.4
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
-|.|.+++..++.++|+++|.+||.|.+|.+... .--|+|-|.+.++|+.|++.+...
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G-~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG-DTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT--SEEEEEESS---HHHHHHHHHHT
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC-CCEEEEEECCcchHHHHHHHHHhc
Confidence 5788899999999999999999999999998742 348999999999999999987655
No 89
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.37 E-value=1.8e-06 Score=65.19 Aligned_cols=67 Identities=24% Similarity=0.397 Sum_probs=51.5
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc---CCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEeec
Q 046599 4 VYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR---RPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELSHN 71 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~---~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~~~ 71 (131)
|-+.+|||++|++||.++|+.++ |..+.+.+ +..|-|||+|++.+++++|+++-.... ..-|+|-.+
T Consensus 13 vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 13 VRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTA 83 (510)
T ss_pred EEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEcc
Confidence 55679999999999999999997 67766653 578999999999999999998433222 334444443
No 90
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.36 E-value=1.3e-05 Score=53.87 Aligned_cols=58 Identities=31% Similarity=0.394 Sum_probs=53.3
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.|.|.+||+..+|+||++++.+.|.|....+.++ +.+.|+|...++.+-||..|+...
T Consensus 117 RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD--g~GvV~~~r~eDMkYAvr~ld~~~ 174 (241)
T KOG0105|consen 117 RVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD--GVGVVEYLRKEDMKYAVRKLDDQK 174 (241)
T ss_pred eEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc--cceeeeeeehhhHHHHHHhhcccc
Confidence 5789999999999999999999999999888754 689999999999999999998875
No 91
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.36 E-value=2.3e-06 Score=63.54 Aligned_cols=70 Identities=30% Similarity=0.388 Sum_probs=60.5
Q ss_pred ceEEEcCCC-CCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeec
Q 046599 2 SRVYVGNLD-SRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~-~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~ 71 (131)
+.|.|.||. +.+|.+.|..+|+-||+|..|+|..+.+--|+|.|.+...|+.|++.|++.. .|+|.+++-
T Consensus 298 ~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH 372 (492)
T KOG1190|consen 298 VVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKH 372 (492)
T ss_pred eEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceEEEeeccC
Confidence 357788885 5699999999999999999999987767899999999999999999999997 566666654
No 92
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.22 E-value=8.8e-06 Score=56.00 Aligned_cols=60 Identities=25% Similarity=0.387 Sum_probs=55.2
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.||+.|||..++.+.|..+|.+|.....+.++....+.|||+|.+...|..|...+++..
T Consensus 148 ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~~iAfve~~~d~~a~~a~~~lq~~~ 207 (221)
T KOG4206|consen 148 ILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQGFK 207 (221)
T ss_pred EEEEecCCcchhHHHHHHHHhhCcccceeEeccCCCceeEEecchhhhhHHHhhhhccce
Confidence 689999999999999999999999899998886668999999999999999999998876
No 93
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.21 E-value=4.2e-06 Score=61.07 Aligned_cols=61 Identities=30% Similarity=0.420 Sum_probs=52.6
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeE--------EEEc-----cCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRS--------VWVA-----RRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~--------~~i~-----~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.+|||.+||..+++++|.++|.+++.|.. |.|- ..+|+-|.|.|++...|++||+.+++..
T Consensus 67 ~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkd 140 (351)
T KOG1995|consen 67 ETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKD 140 (351)
T ss_pred ccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccc
Confidence 48999999999999999999999997754 2221 2478999999999999999999999986
No 94
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.14 E-value=1e-05 Score=43.89 Aligned_cols=52 Identities=21% Similarity=0.532 Sum_probs=42.5
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHH
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAI 55 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai 55 (131)
+.|-|.+.+++..+.-| .+|..||+|..+.+. ....+.+|.|.+..+|+.|+
T Consensus 2 ~wI~V~Gf~~~~~~~vl-~~F~~fGeI~~~~~~-~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAEEVL-EHFASFGEIVDIYVP-ESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHHHHH-HHHHhcCCEEEEEcC-CCCcEEEEEECCHHHHHhhC
Confidence 45778899887775554 589999999999886 33679999999999999985
No 95
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.10 E-value=1.2e-05 Score=60.86 Aligned_cols=59 Identities=22% Similarity=0.376 Sum_probs=46.9
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeE-EEEc----cCCCcEEEEEEcCHHHHHHHHHHhcCC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRS-VWVA----RRPPGYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~-~~i~----~~~~g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
.|-+.+||+.+|++||.++|+-.-.|.. |.++ ..+.|-|||.|++.+.|+.|+......
T Consensus 105 vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~ 168 (510)
T KOG4211|consen 105 VVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHREN 168 (510)
T ss_pred eEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHh
Confidence 4678899999999999999998765544 3333 246789999999999999998855443
No 96
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.00 E-value=1.7e-05 Score=59.02 Aligned_cols=69 Identities=22% Similarity=0.331 Sum_probs=56.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCC-eeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc-----ceEEEEee
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGV-IRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN-----GWRVELSH 70 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~-i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~-----~~~v~~~~ 70 (131)
.+|.+.|+|.+++|++|+.+|..-|. |+..++-.+.+.+|++.+++.++|..|+..+++.. .++|.+++
T Consensus 415 atlHlsnip~svsee~lk~~f~~~g~~vkafkff~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFSk 489 (492)
T KOG1190|consen 415 ATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFSK 489 (492)
T ss_pred hheeeccCCcccchhHHHHhhhcCCceEEeeeecCCCcceeecccCChhHhhhhccccccccCCCCceEEEEeec
Confidence 37899999999999999999998874 45566655567799999999999999999998875 45666554
No 97
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.00 E-value=1.2e-05 Score=56.36 Aligned_cols=60 Identities=33% Similarity=0.648 Sum_probs=52.9
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+||.+.|..+++.+.|-..|.+|-.-...++++ +++||+||.|.+..++..|+..||++-
T Consensus 192 RIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gky 256 (290)
T KOG0226|consen 192 RIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKY 256 (290)
T ss_pred eeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccc
Confidence 689999999999999999999997655555543 679999999999999999999999986
No 98
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.94 E-value=7e-06 Score=61.27 Aligned_cols=60 Identities=20% Similarity=0.345 Sum_probs=52.3
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC------------------CCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR------------------PPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~------------------~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+|.+-|||.+-.-+-|.++|+.+|.|+.|.|+.- .+-+|+|+|+..+.|.+|.+.|+...
T Consensus 233 tivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e~ 310 (484)
T KOG1855|consen 233 TIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPEQ 310 (484)
T ss_pred eEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchhh
Confidence 6888999999888999999999999999999631 25689999999999999999886553
No 99
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.90 E-value=8.6e-06 Score=62.45 Aligned_cols=69 Identities=22% Similarity=0.459 Sum_probs=59.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEee
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSH 70 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~ 70 (131)
.++||++||..+++..+.+++..||.+....++. .++||||.+|.+......|+..|||+. .+.|+.+.
T Consensus 290 ~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~ 367 (500)
T KOG0120|consen 290 NKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAI 367 (500)
T ss_pred chhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhh
Confidence 4789999999999999999999999988877653 478999999999999999999999997 34454443
No 100
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.88 E-value=9.1e-05 Score=56.55 Aligned_cols=58 Identities=29% Similarity=0.566 Sum_probs=45.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc--------CCCc---EEEEEEcCHHHHHHHHHHhcC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR--------RPPG---YAFIDFDDYRDAQDAIRELDG 60 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~--------~~~g---~~fv~f~~~~~a~~ai~~l~g 60 (131)
.+||||+||++++|+.|...|..||.+. |.+.. -++| |+|+.|+++.+++.-|.+...
T Consensus 260 ~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~ 328 (520)
T KOG0129|consen 260 RKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSE 328 (520)
T ss_pred cceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhh
Confidence 4799999999999999999999999643 33321 2466 999999999988876665443
No 101
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.82 E-value=2.3e-05 Score=58.72 Aligned_cols=68 Identities=38% Similarity=0.611 Sum_probs=52.3
Q ss_pred CceEEEcCCCCCCcHHHHHHHhhcCCC-eeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc---ceEEEEee
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFRVFGV-IRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN---GWRVELSH 70 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~~~G~-i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~---~~~v~~~~ 70 (131)
|++||++||.+.++..+|+.+|...-. ...-.++ ..||+||.+.+...|.+|++.++++. +.+.++..
T Consensus 1 mnklyignL~p~~~psdl~svfg~ak~~~~g~fl~--k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~ 72 (584)
T KOG2193|consen 1 MNKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV--KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEH 72 (584)
T ss_pred CCcccccccCCCCChHHHHHHhccccCCCCcceee--ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccc
Confidence 689999999999999999999975421 1111222 26899999999999999999999985 44455444
No 102
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.73 E-value=4.1e-05 Score=56.10 Aligned_cols=60 Identities=22% Similarity=0.311 Sum_probs=48.4
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCC--CeeEEEEc-----cCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFG--VIRSVWVA-----RRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G--~i~~~~i~-----~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.+||+||-|.+|.+||.+.+...| ++.++++. +.++|||+|...+..+.++.++.|-.++
T Consensus 82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~ 148 (498)
T KOG4849|consen 82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKT 148 (498)
T ss_pred EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccce
Confidence 489999999999999999988777 44444442 4689999999999888888888776554
No 103
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.72 E-value=0.00018 Score=55.02 Aligned_cols=69 Identities=26% Similarity=0.397 Sum_probs=55.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhh-cCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHH----hcCCc-ceEEEEee
Q 046599 2 SRVYVGNLDSRVSERDLEDEFR-VFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRE----LDGKN-GWRVELSH 70 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~-~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~----l~g~~-~~~v~~~~ 70 (131)
.|||||+||--++.++|..+|. -||.|..+-|-. .++|-|-|+|.+..+..+||.+ |+..+ ..+|||..
T Consensus 371 rTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarFvql~h~d~~KRVEIkP 450 (520)
T KOG0129|consen 371 RTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARFVQLDHTDIDKRVEIKP 450 (520)
T ss_pred ceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhhheEEEeccccceeeeecc
Confidence 4899999999999999999998 699999887743 4789999999999999999984 33333 33566543
No 104
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.66 E-value=5.7e-05 Score=54.65 Aligned_cols=71 Identities=25% Similarity=0.504 Sum_probs=55.9
Q ss_pred eEE-EcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecCCC
Q 046599 3 RVY-VGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNSRG 74 (131)
Q Consensus 3 ~l~-V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~~~ 74 (131)
++| |++|+..+++++|+.+|..+|.|..+.+.. ..++|++|.|.+...+..++.. +... ++.+.+....+.
T Consensus 186 ~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 264 (285)
T KOG4210|consen 186 TIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPR 264 (285)
T ss_pred cceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCC
Confidence 345 999999999999999999999999998863 4689999999999999988875 4443 444555544443
No 105
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.64 E-value=0.0002 Score=52.38 Aligned_cols=68 Identities=24% Similarity=0.454 Sum_probs=53.4
Q ss_pred eEEEcCCCCCCcHHH------HHHHhhcCCCeeEEEEccCC------CcE--EEEEEcCHHHHHHHHHHhcCCc--ceEE
Q 046599 3 RVYVGNLDSRVSERD------LEDEFRVFGVIRSVWVARRP------PGY--AFIDFDDYRDAQDAIRELDGKN--GWRV 66 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~------l~~~f~~~G~i~~~~i~~~~------~g~--~fv~f~~~~~a~~ai~~l~g~~--~~~v 66 (131)
-+||-+||+.+..++ -.++|.+||.|..|.|.++. .+. .||+|...++|..||...++.. +..+
T Consensus 116 LvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~l 195 (480)
T COG5175 116 LVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVL 195 (480)
T ss_pred eeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceE
Confidence 479999998877766 25789999999999887531 233 3999999999999999999985 5555
Q ss_pred EEee
Q 046599 67 ELSH 70 (131)
Q Consensus 67 ~~~~ 70 (131)
..+.
T Consensus 196 katY 199 (480)
T COG5175 196 KATY 199 (480)
T ss_pred eeec
Confidence 5544
No 106
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.62 E-value=0.0003 Score=52.08 Aligned_cols=66 Identities=20% Similarity=0.253 Sum_probs=55.7
Q ss_pred CCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc------ceEEEEeecCC
Q 046599 8 NLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN------GWRVELSHNSR 73 (131)
Q Consensus 8 ~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~------~~~v~~~~~~~ 73 (131)
|--+-+|.+-|..+-...|+|..|.|.++.---|.|+|++.+.|++|.+.|||.+ .++|+++++..
T Consensus 129 Np~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~r 200 (494)
T KOG1456|consen 129 NPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTR 200 (494)
T ss_pred cCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcce
Confidence 4445688999999999999999999987755579999999999999999999997 57777776543
No 107
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.61 E-value=0.00053 Score=50.85 Aligned_cols=71 Identities=20% Similarity=0.335 Sum_probs=59.7
Q ss_pred eEEEcCCCCC-CcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecCC
Q 046599 3 RVYVGNLDSR-VSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNSR 73 (131)
Q Consensus 3 ~l~V~~L~~~-~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~~ 73 (131)
.+.|-+|... ++-+.|..+|-.||.|..|++++...|-|.|++.+..+.+.|+..||+.. +.++++..++.
T Consensus 289 VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ 362 (494)
T KOG1456|consen 289 VMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQ 362 (494)
T ss_pred EEEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccc
Confidence 4677888754 66678999999999999999998778999999999999999999999997 55666655443
No 108
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=97.60 E-value=5.1e-05 Score=31.88 Aligned_cols=17 Identities=65% Similarity=1.603 Sum_probs=15.6
Q ss_pred CCCCCCCCCCCCCcCCC
Q 046599 92 KCYECGEPGHFARECRL 108 (131)
Q Consensus 92 ~~~~~g~~g~~~~~~~~ 108 (131)
.||.||..||++++||.
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 59999999999999984
No 109
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.44 E-value=0.00049 Score=52.98 Aligned_cols=46 Identities=20% Similarity=0.409 Sum_probs=40.9
Q ss_pred HHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 17 DLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 17 ~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
|+.+.-.++|.|.+|.|...+-|+.||.|.+.+.|..|+.+|||..
T Consensus 469 dV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrW 514 (549)
T KOG0147|consen 469 DVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRW 514 (549)
T ss_pred HHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhh
Confidence 4555558999999999987777999999999999999999999986
No 110
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.32 E-value=0.00017 Score=50.78 Aligned_cols=61 Identities=16% Similarity=0.291 Sum_probs=51.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC-------------C----CcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR-------------P----PGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~-------------~----~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.-||+++||+.+...-|+++|++||.|-.|.+... . ---++|+|.+...|..+.+.||+..
T Consensus 75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 36899999999999999999999999999988520 1 1236899999999999999999875
No 111
>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=97.31 E-value=0.0044 Score=36.54 Aligned_cols=58 Identities=19% Similarity=0.400 Sum_probs=41.9
Q ss_pred EEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCcceEE
Q 046599 5 YVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKNGWRV 66 (131)
Q Consensus 5 ~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~~~~v 66 (131)
|| .+|......||.++|+.||.|.--.|. -.-|||...+.+.|..|+..+.-....+|
T Consensus 13 hl-tFPkeWK~~DI~qlFspfG~I~VsWi~---dTSAfV~l~~r~~~~~v~~~~~~~~~y~i 70 (87)
T PF08675_consen 13 HL-TFPKEWKTSDIYQLFSPFGQIYVSWIN---DTSAFVALHNRDQAKVVMNTLKKNSSYRI 70 (87)
T ss_dssp EE-E--TT--HHHHHHHCCCCCCEEEEEEC---TTEEEEEECCCHHHHHHHHHHTT-SSSEE
T ss_pred EE-eCchHhhhhhHHHHhccCCcEEEEEEc---CCcEEEEeecHHHHHHHHHHhccCCceEE
Confidence 44 489999999999999999987655553 34699999999999999998875544444
No 112
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.31 E-value=0.0021 Score=35.81 Aligned_cols=54 Identities=19% Similarity=0.181 Sum_probs=41.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcC---CCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHh
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVF---GVIRSVWVARRPPGYAFIDFDDYRDAQDAIREL 58 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~---G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l 58 (131)
.+|+|.++. +++.++|+.+|..| .....|.++.+. -|-|.|.+.+.|..||.+|
T Consensus 6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt--ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT--SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC--cEEEEECCHHHHHHHHHcC
Confidence 478999985 57778999999988 134566666443 4788999999999999765
No 113
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=97.29 E-value=0.00088 Score=52.03 Aligned_cols=60 Identities=27% Similarity=0.459 Sum_probs=48.2
Q ss_pred eEEEcCCCCCCc------HHHHHHHhhcCCCeeEEEEc----cCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVS------ERDLEDEFRVFGVIRSVWVA----RRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t------~~~l~~~f~~~G~i~~~~i~----~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
-|+|.|+|---. ..-|..+|+++|+|....+. +..+||.|++|.+..+|+.|++.|||+.
T Consensus 60 vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ 129 (698)
T KOG2314|consen 60 VVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKR 129 (698)
T ss_pred EEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccce
Confidence 467778874322 12467889999999888776 3468999999999999999999999986
No 114
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.19 E-value=0.00071 Score=54.92 Aligned_cols=69 Identities=29% Similarity=0.447 Sum_probs=59.5
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc------ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN------GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~------~~~v~~~~~ 71 (131)
+.++|++|+.++....|..+|..||.|..|.+-. ..-||+|.|++...+++|+..|-+.. .+.|.++..
T Consensus 456 tr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h-gq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~ 530 (975)
T KOG0112|consen 456 TRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH-GQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASP 530 (975)
T ss_pred eeeccCCCCCCChHHHHHHHhhccCcceeeeccc-CCcceeeecccCccchhhHHHHhcCcCCCCCcccccccccC
Confidence 5789999999999999999999999999988753 35699999999999999999998875 456666653
No 115
>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=97.19 E-value=0.0024 Score=39.15 Aligned_cols=58 Identities=22% Similarity=0.283 Sum_probs=40.6
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEE------------EccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVW------------VARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~------------i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
-|.|-++|+..+ ..|-+.|++||.|.+.. -......+..|.|.++.+|++||. -||..
T Consensus 8 wVtVFGfp~~~~-~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i 77 (100)
T PF05172_consen 8 WVTVFGFPPSAS-NQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTI 77 (100)
T ss_dssp EEEEE---GGGH-HHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEE
T ss_pred EEEEEccCHHHH-HHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeE
Confidence 477889998855 55677999999988764 111235689999999999999997 66654
No 116
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=97.15 E-value=0.0041 Score=40.38 Aligned_cols=67 Identities=25% Similarity=0.333 Sum_probs=49.3
Q ss_pred CceEEEcCCCCCCc----HHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEe
Q 046599 1 MSRVYVGNLDSRVS----ERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELS 69 (131)
Q Consensus 1 ~~~l~V~~L~~~~t----~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~ 69 (131)
|+||.|.=|..++. -..+...++.||+|..|.+.+ +.-|.|.|.+..+|-.|+.+++... +..++.+
T Consensus 86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG--rqsavVvF~d~~SAC~Av~Af~s~~pgtm~qCs 157 (166)
T PF15023_consen 86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG--RQSAVVVFKDITSACKAVSAFQSRAPGTMFQCS 157 (166)
T ss_pred ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC--CceEEEEehhhHHHHHHHHhhcCCCCCceEEee
Confidence 56777765554433 335566678999999998875 4579999999999999999988765 3333333
No 117
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.03 E-value=0.0029 Score=48.95 Aligned_cols=52 Identities=37% Similarity=0.599 Sum_probs=41.6
Q ss_pred HHHHHhhcCCCeeEEEEccC--------CCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEE
Q 046599 17 DLEDEFRVFGVIRSVWVARR--------PPGYAFIDFDDYRDAQDAIRELDGKN--GWRVEL 68 (131)
Q Consensus 17 ~l~~~f~~~G~i~~~~i~~~--------~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~ 68 (131)
+++..+++||.|..|.|... ..|..||+|.+.++++.|++.|+|.+ +..|..
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvt 486 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVA 486 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEE
Confidence 45556678999999998752 35788999999999999999999998 444443
No 118
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.01 E-value=0.00084 Score=49.96 Aligned_cols=68 Identities=26% Similarity=0.294 Sum_probs=52.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCC-CeeE--EEEc----cCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEee
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFG-VIRS--VWVA----RRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSH 70 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G-~i~~--~~i~----~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~ 70 (131)
-|.+.+||+..+.++|-++|..|. .|.. |.++ +.+.|-|||+|.+.+.|.+|....+++. ...|++-.
T Consensus 282 cvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp 358 (508)
T KOG1365|consen 282 CVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFP 358 (508)
T ss_pred eeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEee
Confidence 467889999999999999999886 3333 4443 3568999999999999999988877764 34555544
No 119
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.98 E-value=0.0035 Score=46.80 Aligned_cols=59 Identities=29% Similarity=0.282 Sum_probs=44.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcC----CCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVF----GVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~----G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
-|.+.+||+++++.++.++|..- |....|.++. +..|-|||.|..+++|+.|+.+-.+.
T Consensus 163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~ 229 (508)
T KOG1365|consen 163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQN 229 (508)
T ss_pred EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHH
Confidence 35668999999999999999742 2333444442 46789999999999999999864443
No 120
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.94 E-value=0.0035 Score=50.01 Aligned_cols=66 Identities=23% Similarity=0.344 Sum_probs=52.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCee-EEEEc----cCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEE
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIR-SVWVA----RRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVEL 68 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~-~~~i~----~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~ 68 (131)
.|-+.|+|++++-+||.++|.-|-.+. +|.+. +...|-|.|.|++.++|..|...|++.+ ..+|.+
T Consensus 869 V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l 941 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSL 941 (944)
T ss_pred EEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEE
Confidence 466789999999999999999997443 34443 2467899999999999999999999987 344444
No 121
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.76 E-value=0.0082 Score=44.19 Aligned_cols=55 Identities=33% Similarity=0.578 Sum_probs=44.8
Q ss_pred HHHHHHhhcCCCeeEEEEc-cCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEee
Q 046599 16 RDLEDEFRVFGVIRSVWVA-RRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSH 70 (131)
Q Consensus 16 ~~l~~~f~~~G~i~~~~i~-~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~ 70 (131)
++|.+--.+||.|..|.|. +.+.|.+.|.|.+.++|+.||+.|+|.. +..|.-+.
T Consensus 291 edl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i 348 (382)
T KOG1548|consen 291 EDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASI 348 (382)
T ss_pred HHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEE
Confidence 4555667899999999886 4678999999999999999999999986 55555443
No 122
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=96.71 E-value=0.0091 Score=38.92 Aligned_cols=50 Identities=26% Similarity=0.461 Sum_probs=38.6
Q ss_pred HHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--c--eEEEEee
Q 046599 17 DLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--G--WRVELSH 70 (131)
Q Consensus 17 ~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~--~~v~~~~ 70 (131)
+|-+.|..||++.-++++ .+.-+|+|.+.+.|.+|+. |++.+ + ++|.+..
T Consensus 52 ~ll~~~~~~GevvLvRfv---~~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKt 105 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFV---GDTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKT 105 (146)
T ss_dssp HHHHHHHCCS-ECEEEEE---TTCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE--
T ss_pred HHHHHHHhCCceEEEEEe---CCeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCC
Confidence 677889999998888887 4578999999999999997 89987 4 4444444
No 123
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.70 E-value=0.002 Score=45.47 Aligned_cols=58 Identities=29% Similarity=0.428 Sum_probs=49.5
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc----cCCCcEEEEEEcCHHHHHHHHHHhc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA----RRPPGYAFIDFDDYRDAQDAIRELD 59 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~----~~~~g~~fv~f~~~~~a~~ai~~l~ 59 (131)
+.|||.||+..++.+.|.+.|..||+|....+. .+..+-++|.|.....|.+|+...+
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~ 93 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCR 93 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhc
Confidence 469999999999999999999999998775443 3456789999999999999988764
No 124
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.61 E-value=0.0025 Score=51.55 Aligned_cols=70 Identities=19% Similarity=0.251 Sum_probs=58.3
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc----cCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeec
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA----RRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHN 71 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~----~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~ 71 (131)
..|+|.|+|+..|.++|+.++..+|.++.+.++ ++++|.|+|.|.+..++..++..++... .+.|.++.+
T Consensus 737 ~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 737 ISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred hhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 468999999999999999999999999988765 3689999999999999999887776653 456666444
No 125
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=96.57 E-value=0.002 Score=50.34 Aligned_cols=60 Identities=10% Similarity=0.152 Sum_probs=51.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhc-CCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRV-FGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~-~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+.|||.||-.-.|...|+.++.. .|.|... ++-+-+-.|||.|.+.++|.+.+.+|||..
T Consensus 445 nvlhI~nLvRPFTlgQLkelL~rtgg~Vee~-WmDkIKShCyV~yss~eEA~atr~AlhnV~ 505 (718)
T KOG2416|consen 445 NVLHIDNLVRPFTLGQLKELLGRTGGNVEEF-WMDKIKSHCYVSYSSVEEAAATREALHNVQ 505 (718)
T ss_pred ceEeeecccccchHHHHHHHHhhccCchHHH-HHHHhhcceeEecccHHHHHHHHHHHhccc
Confidence 46899999999999999999995 5566666 444457889999999999999999999986
No 126
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=96.53 E-value=0.0022 Score=47.88 Aligned_cols=58 Identities=16% Similarity=0.239 Sum_probs=47.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc--------CCCcEEEEEEcCHHHHHHHHHHhcCC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR--------RPPGYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~--------~~~g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
.|.|.||.+.+|.+.++.+|...|.|..+.|.. ...-.|||.|.+...+..|.. |.+.
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltnt 74 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNT 74 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccc
Confidence 588999999999999999999999999988853 124589999999888877765 4443
No 127
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=96.42 E-value=0.0018 Score=45.61 Aligned_cols=54 Identities=26% Similarity=0.424 Sum_probs=41.6
Q ss_pred HHHHHHhh-cCCCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEe
Q 046599 16 RDLEDEFR-VFGVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELS 69 (131)
Q Consensus 16 ~~l~~~f~-~~G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~ 69 (131)
++|...|+ +||+|..+.|.. ...|-++|.|...++|++|++.||+-. .|..++.
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~ 145 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS 145 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence 45555555 899999987753 346889999999999999999999975 4555544
No 128
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.37 E-value=0.0095 Score=47.65 Aligned_cols=66 Identities=26% Similarity=0.247 Sum_probs=50.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCee--EEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEe
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIR--SVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELS 69 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~--~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~ 69 (131)
-|.+.|||+.+...||+.+|+-.- |. -|+|++.-.|-|||.|.+-++|..|+-+-..+. +++|.+.
T Consensus 4 IIRLqnLP~tAga~DIR~FFSGL~-IPdGgVHIIGGe~GeaFI~FsTDeDARlaM~kdr~~i~g~~VrLl 72 (944)
T KOG4307|consen 4 IIRLQNLPMTAGASDIRTFFSGLK-IPDGGVHIIGGEEGEAFIGFSTDEDARLAMTKDRLMIHGAEVRLL 72 (944)
T ss_pred EEEecCCcccccchHHHHhhcccc-cCCCceEEecccccceEEEecccchhhhhhhhcccceecceEEEE
Confidence 467789999999999999998764 32 377777668999999999999999986544443 4555544
No 129
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.32 E-value=0.00026 Score=57.00 Aligned_cols=61 Identities=30% Similarity=0.444 Sum_probs=52.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc-----cCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA-----RRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~-----~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.++||.||+..+.+.+|...|..+|.+..+.+. .+.+|.|++.|..++++.+||...+...
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~ 733 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCF 733 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhh
Confidence 467999999999999999999999987776654 3578999999999999999998666553
No 130
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=95.88 E-value=0.0015 Score=53.10 Aligned_cols=60 Identities=25% Similarity=0.412 Sum_probs=52.0
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+||++||+..+++.+|+..|..+|.|..|.|.. .-.-|+||.|.+...+..|+..+.+..
T Consensus 374 TLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~ 437 (975)
T KOG0112|consen 374 TLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPL 437 (975)
T ss_pred hhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCc
Confidence 799999999999999999999999999998853 234599999999999888888777664
No 131
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=95.76 E-value=0.58 Score=37.79 Aligned_cols=64 Identities=11% Similarity=0.119 Sum_probs=41.0
Q ss_pred ceEEEc-CCCCCCcHHHHHHHhhcCCCee-----EEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEe
Q 046599 2 SRVYVG-NLDSRVSERDLEDEFRVFGVIR-----SVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN----GWRVELS 69 (131)
Q Consensus 2 ~~l~V~-~L~~~~t~~~l~~~f~~~G~i~-----~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~ 69 (131)
.++||. +=...++..+|..++..-+.|. .|.|. ..|.||+... ..+...+..|++.. .+.|+.+
T Consensus 487 ~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~---~~~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 560 (629)
T PRK11634 487 QLYRIEVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLF---ASHSTIELPK-GMPGEVLQHFTRTRILNKPMNMQLL 560 (629)
T ss_pred EEEEEecccccCCCHHHHHHHHHhhcCCChhhCCcEEEe---CCceEEEcCh-hhHHHHHHHhccccccCCceEEEEC
Confidence 345552 2245688888888887765444 35554 5689999874 55777888887754 3445544
No 132
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=95.66 E-value=0.015 Score=29.77 Aligned_cols=19 Identities=37% Similarity=1.062 Sum_probs=17.1
Q ss_pred CCCCCCCCCCCCCCCcCCC
Q 046599 90 DLKCYECGEPGHFARECRL 108 (131)
Q Consensus 90 ~~~~~~~g~~g~~~~~~~~ 108 (131)
...|..|+..|||..+|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4569999999999999995
No 133
>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=95.48 E-value=0.035 Score=37.52 Aligned_cols=61 Identities=15% Similarity=0.230 Sum_probs=42.2
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhc-CCCe---eEEE--Ecc-----CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRV-FGVI---RSVW--VAR-----RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~-~G~i---~~~~--i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.+|.|.+||+++|++++.+.++. ++.. ..+. ... ..-.-|+|.|.+.+++..-+..++|..
T Consensus 8 ~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~ 79 (176)
T PF03467_consen 8 TKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHV 79 (176)
T ss_dssp -EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEE
T ss_pred ceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcE
Confidence 57999999999999999887776 6654 2222 111 123479999999999999999998864
No 134
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=95.34 E-value=0.01 Score=28.52 Aligned_cols=22 Identities=27% Similarity=0.845 Sum_probs=18.4
Q ss_pred CCCCCCCCCCCCCCCCcCCCCC
Q 046599 89 SDLKCYECGEPGHFARECRLRG 110 (131)
Q Consensus 89 ~~~~~~~~g~~g~~~~~~~~~~ 110 (131)
..-.|+.|+..|||-.+||...
T Consensus 7 ~~Y~C~~C~~~GH~i~dCP~~~ 28 (32)
T PF13696_consen 7 PGYVCHRCGQKGHWIQDCPTNK 28 (32)
T ss_pred CCCEeecCCCCCccHhHCCCCC
Confidence 3456999999999999999843
No 135
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=95.32 E-value=0.014 Score=47.63 Aligned_cols=69 Identities=22% Similarity=0.341 Sum_probs=55.9
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc------ceEEEEeecC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN------GWRVELSHNS 72 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~------~~~v~~~~~~ 72 (131)
+.++.|.+-..+...|..++.+||.|..++..+. -..|.|+|...+.|..|+++|+|++ ..+|.+++.-
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~-~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~ 374 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRD-LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTL 374 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheeccc-ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEecccc
Confidence 3455667777888899999999999999988754 4689999999999999999999997 3455555543
No 136
>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=95.05 E-value=0.33 Score=30.25 Aligned_cols=56 Identities=20% Similarity=0.114 Sum_probs=41.4
Q ss_pred cCCCCCCcHHHHHHHhhcCC-CeeEEEEccCC---CcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 7 GNLDSRVSERDLEDEFRVFG-VIRSVWVARRP---PGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 7 ~~L~~~~t~~~l~~~f~~~G-~i~~~~i~~~~---~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
...|..++.++|..+.+.+- .|..++|+++. +-.+++.|.+.++|..-...+||+.
T Consensus 19 ~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~ 78 (110)
T PF07576_consen 19 AVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKP 78 (110)
T ss_pred EeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCc
Confidence 34445555566765556554 57778887643 4478999999999999999999985
No 137
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=94.22 E-value=0.13 Score=40.16 Aligned_cols=27 Identities=26% Similarity=0.442 Sum_probs=24.8
Q ss_pred CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 36 RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 36 ~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
...|||||.|.+++++..+.+++||+.
T Consensus 429 cNvGYAFINm~sp~ai~~F~kAFnGk~ 455 (549)
T KOG4660|consen 429 CNVGYAFINMTSPEAIIRFYKAFNGKK 455 (549)
T ss_pred cccceeEEeecCHHHHHHHHHHHcCCc
Confidence 357999999999999999999999996
No 138
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=94.12 E-value=0.15 Score=36.91 Aligned_cols=47 Identities=21% Similarity=0.325 Sum_probs=37.4
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCe-eEEEEccCCCcEEEEEEcCHH
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVI-RSVWVARRPPGYAFIDFDDYR 49 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i-~~~~i~~~~~g~~fv~f~~~~ 49 (131)
+.|||+|||.++...||+..+.+.+.+ ..+.+.+ +.+-||++|.+..
T Consensus 331 ~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg-~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 331 TDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKG-HFGKCFLHFGNRK 378 (396)
T ss_pred cceeeccCccccchHHHHHHHHhcCCCceeEeeec-CCcceeEecCCcc
Confidence 569999999999999999999988743 4455543 4678999998743
No 139
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=93.59 E-value=0.29 Score=35.69 Aligned_cols=47 Identities=19% Similarity=0.421 Sum_probs=37.8
Q ss_pred HHHHHHhhcCCCeeEEEEcc------CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 16 RDLEDEFRVFGVIRSVWVAR------RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 16 ~~l~~~f~~~G~i~~~~i~~------~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+++++...+||.|..|.|.. +-.---||+|+..++|.+|+..|||.-
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRy 353 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRY 353 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCce
Confidence 46777888999999887742 112357999999999999999999986
No 140
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=93.15 E-value=0.31 Score=38.42 Aligned_cols=57 Identities=19% Similarity=0.175 Sum_probs=45.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhc--CCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRV--FGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDG 60 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~--~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g 60 (131)
+-|.|.-||+.+..++++.+|.. +-.+.+|.+-.+. -=||+|++..+|+.|.+.|..
T Consensus 176 cIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~--nWyITfesd~DAQqAykylre 234 (684)
T KOG2591|consen 176 CIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND--NWYITFESDTDAQQAYKYLRE 234 (684)
T ss_pred eEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC--ceEEEeecchhHHHHHHHHHH
Confidence 35677899999999999999965 6677777775332 358999999999999886643
No 141
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=93.09 E-value=0.073 Score=39.12 Aligned_cols=60 Identities=25% Similarity=0.468 Sum_probs=44.9
Q ss_pred eEEEcCCCCCCcHHH-H--HHHhhcCCCeeEEEEccCC--------CcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERD-L--EDEFRVFGVIRSVWVARRP--------PGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~-l--~~~f~~~G~i~~~~i~~~~--------~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
-+||-+|+..+..++ | .+.|.+||.|..|.+..+. ..-++|+|+..++|..||...++..
T Consensus 79 lvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~ 149 (327)
T KOG2068|consen 79 LVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFV 149 (327)
T ss_pred hhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHH
Confidence 357778887765554 3 3568899999998876421 1247999999999999999888774
No 142
>smart00343 ZnF_C2HC zinc finger.
Probab=92.89 E-value=0.06 Score=24.38 Aligned_cols=17 Identities=59% Similarity=1.451 Sum_probs=15.0
Q ss_pred CCCCCCCCCCCCCcCCC
Q 046599 92 KCYECGEPGHFARECRL 108 (131)
Q Consensus 92 ~~~~~g~~g~~~~~~~~ 108 (131)
.|+.|+..||++.+|+.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 38899999999999984
No 143
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=92.42 E-value=0.082 Score=42.09 Aligned_cols=57 Identities=25% Similarity=0.237 Sum_probs=49.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
-++||+|+...+..+-+..+++.+|.|..+... -|+|..|.....+..|+..++...
T Consensus 41 ~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~----~fgf~~f~~~~~~~ra~r~~t~~~ 97 (668)
T KOG2253|consen 41 DTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD----KFGFCEFLKHIGDLRASRLLTELN 97 (668)
T ss_pred ceeEecchhhhhhHHHHHHHHhhCCcchhhhhh----hhcccchhhHHHHHHHHHHhcccC
Confidence 378999999999999999999999998887654 299999999999999988776543
No 144
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=92.38 E-value=0.095 Score=25.74 Aligned_cols=19 Identities=42% Similarity=0.824 Sum_probs=11.9
Q ss_pred CCCCCCCCCCCCCCcCCCC
Q 046599 91 LKCYECGEPGHFARECRLR 109 (131)
Q Consensus 91 ~~~~~~g~~g~~~~~~~~~ 109 (131)
..|.+|+...||+.+|...
T Consensus 3 ~~CprC~kg~Hwa~~C~sk 21 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSK 21 (36)
T ss_dssp -C-TTTSSSCS-TTT---T
T ss_pred ccCcccCCCcchhhhhhhh
Confidence 4699999999999999864
No 145
>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=91.53 E-value=1.6 Score=24.92 Aligned_cols=62 Identities=18% Similarity=0.392 Sum_probs=35.5
Q ss_pred eEEEc-CCCCCCcHHHHHHHhhcCC-----CeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEE
Q 046599 3 RVYVG-NLDSRVSERDLEDEFRVFG-----VIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN--GWRVEL 68 (131)
Q Consensus 3 ~l~V~-~L~~~~t~~~l~~~f~~~G-----~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~ 68 (131)
+|||. +=-..++..+|..++...+ .|-.|.|. ..|+||+... +.|+.++..|++.. +.+|.+
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~---~~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~v 71 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIF---DNFSFVEVPE-EVAEKVLEALNGKKIKGKKVRV 71 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE----SS-EEEEE-T-T-HHHHHHHHTT--SSS----E
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEe---eeEEEEEECH-HHHHHHHHHhcCCCCCCeeEEE
Confidence 56662 2235688899999987764 45567775 5689998875 57888999999876 444443
No 146
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=91.48 E-value=0.77 Score=33.60 Aligned_cols=54 Identities=15% Similarity=0.135 Sum_probs=39.9
Q ss_pred EEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCC
Q 046599 5 YVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 5 ~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
-|-++|+... .-|-.+|++||.|...... ..-.+-+|.|.+..+|++||. .|++
T Consensus 201 TVfGFppg~~-s~vL~~F~~cG~Vvkhv~~-~ngNwMhirYssr~~A~KALs-kng~ 254 (350)
T KOG4285|consen 201 TVFGFPPGQV-SIVLNLFSRCGEVVKHVTP-SNGNWMHIRYSSRTHAQKALS-KNGT 254 (350)
T ss_pred EEeccCccch-hHHHHHHHhhCeeeeeecC-CCCceEEEEecchhHHHHhhh-hcCe
Confidence 3456766654 3456789999998886554 334589999999999999997 4444
No 147
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=90.91 E-value=0.95 Score=34.85 Aligned_cols=61 Identities=21% Similarity=0.276 Sum_probs=51.4
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCC-CeeEEEEccCC---CcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFG-VIRSVWVARRP---PGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G-~i~~~~i~~~~---~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+.|+|-.+|-.+|.-||-.+...+- .|..++|+++. +-..+|.|.+.++|..-.+.+||+.
T Consensus 75 ~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~ 139 (493)
T KOG0804|consen 75 TMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQ 139 (493)
T ss_pred cEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCc
Confidence 4678888999999999999988754 78889988743 3467899999999999999999985
No 148
>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=90.57 E-value=1.3 Score=30.23 Aligned_cols=48 Identities=19% Similarity=0.161 Sum_probs=35.6
Q ss_pred cHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhc--CCc
Q 046599 14 SERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELD--GKN 62 (131)
Q Consensus 14 t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~--g~~ 62 (131)
..+.|+++|..++.+..+..+.. -+-..|.|.+.+.|+.|...|+ +..
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s-FrRi~v~f~~~~~A~~~r~~l~~~~~~ 57 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS-FRRIRVVFESPESAQRARQLLHWDGTS 57 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT-TTEEEEE-SSTTHHHHHHHTST--TSE
T ss_pred hHHHHHHHHHhcCCceEEEEcCC-CCEEEEEeCCHHHHHHHHHHhcccccc
Confidence 34789999999998877766543 4568899999999999999988 553
No 149
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=90.01 E-value=0.19 Score=36.60 Aligned_cols=59 Identities=17% Similarity=0.198 Sum_probs=47.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcC
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDG 60 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g 60 (131)
+++|++++.+.+.+.++..++..+|.+....+.. ..++++.+.|...+.+..|+.....
T Consensus 89 ~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~ 152 (285)
T KOG4210|consen 89 STFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGS 152 (285)
T ss_pred ccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhc
Confidence 6789999999999998888898888665554431 3689999999999999999985443
No 150
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=85.60 E-value=0.69 Score=30.13 Aligned_cols=18 Identities=44% Similarity=1.254 Sum_probs=11.1
Q ss_pred CCCCCCCCCCCCCCcCCC
Q 046599 91 LKCYECGEPGHFARECRL 108 (131)
Q Consensus 91 ~~~~~~g~~g~~~~~~~~ 108 (131)
..||.|++.||++++||.
T Consensus 130 ~~C~~Cg~~gH~~~dCp~ 147 (148)
T PTZ00368 130 KTCYNCGQTGHLSRDCPD 147 (148)
T ss_pred CccccCCCcCcccccCCC
Confidence 356666666666666664
No 151
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=85.55 E-value=0.46 Score=32.42 Aligned_cols=17 Identities=59% Similarity=1.527 Sum_probs=14.8
Q ss_pred CCCCCCCCCCCCCCcCC
Q 046599 91 LKCYECGEPGHFARECR 107 (131)
Q Consensus 91 ~~~~~~g~~g~~~~~~~ 107 (131)
-.|+.||+.||++++|+
T Consensus 98 ~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 98 KKCYNCGETGHLSRDCN 114 (190)
T ss_pred cccccccccCccccccC
Confidence 46999999999999994
No 152
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=85.42 E-value=0.31 Score=35.58 Aligned_cols=22 Identities=32% Similarity=0.961 Sum_probs=18.7
Q ss_pred CCCCCCCCCCCCCCCCCcCCCC
Q 046599 88 GSDLKCYECGEPGHFARECRLR 109 (131)
Q Consensus 88 ~~~~~~~~~g~~g~~~~~~~~~ 109 (131)
..+--||+||..|||=..||-.
T Consensus 174 PpgY~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 174 PPGYVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred CCceeEEecCCCCchhhcCCCC
Confidence 3445699999999999999976
No 153
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=85.10 E-value=0.44 Score=32.49 Aligned_cols=20 Identities=35% Similarity=1.099 Sum_probs=17.4
Q ss_pred CCCCCCCCCCCCCCCCCcCC
Q 046599 88 GSDLKCYECGEPGHFARECR 107 (131)
Q Consensus 88 ~~~~~~~~~g~~g~~~~~~~ 107 (131)
...-.|+.||..||..++||
T Consensus 58 ~~~~~C~nCg~~GH~~~DCP 77 (190)
T COG5082 58 EENPVCFNCGQNGHLRRDCP 77 (190)
T ss_pred ccccccchhcccCcccccCC
Confidence 34456999999999999999
No 154
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=83.97 E-value=6.6 Score=23.24 Aligned_cols=55 Identities=18% Similarity=0.269 Sum_probs=39.6
Q ss_pred EEEcCCCCCCcHHHHHHHhhc-CC-CeeEEEEccCCC--cEEEEEEcCHHHHHHHHHHh
Q 046599 4 VYVGNLDSRVSERDLEDEFRV-FG-VIRSVWVARRPP--GYAFIDFDDYRDAQDAIREL 58 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~-~G-~i~~~~i~~~~~--g~~fv~f~~~~~a~~ai~~l 58 (131)
-|+.-.+..++..+|++.++. |+ .|..|....... --|+|.+....+|......+
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPKGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCcEEEEEEeCCCCcHHHHHHhh
Confidence 456667888999999999987 67 667766543222 36999999888887765433
No 155
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=83.59 E-value=0.83 Score=35.38 Aligned_cols=42 Identities=26% Similarity=0.350 Sum_probs=33.6
Q ss_pred cHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHH
Q 046599 14 SERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIR 56 (131)
Q Consensus 14 t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~ 56 (131)
|.++|..+|++||.|..|.+-- +.-.|.|+|.+..+|-.|..
T Consensus 386 t~a~ln~hfA~fG~i~n~qv~~-~~~~a~vTF~t~aeag~a~~ 427 (526)
T KOG2135|consen 386 TIADLNPHFAQFGEIENIQVDY-SSLHAVVTFKTRAEAGEAYA 427 (526)
T ss_pred hHhhhhhhhhhcCccccccccC-chhhheeeeeccccccchhc
Confidence 4578999999999999998743 24679999999988855543
No 156
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.10 E-value=11 Score=30.25 Aligned_cols=70 Identities=31% Similarity=0.385 Sum_probs=54.0
Q ss_pred ceEEEcCCCCC-CcHHHHHHHhhcC----CCeeEEEEcc--------------CC-------------------------
Q 046599 2 SRVYVGNLDSR-VSERDLEDEFRVF----GVIRSVWVAR--------------RP------------------------- 37 (131)
Q Consensus 2 ~~l~V~~L~~~-~t~~~l~~~f~~~----G~i~~~~i~~--------------~~------------------------- 37 (131)
..|-|.||.|. +...+|..+|..| |.|..|.|.. .+
T Consensus 175 ~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~~~~ 254 (650)
T KOG2318|consen 175 KRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEEDVD 254 (650)
T ss_pred ceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhhhHH
Confidence 36889999986 7788999998876 5788888731 00
Q ss_pred -------------CcEEEEEEcCHHHHHHHHHHhcCCc----ceEEEEeec
Q 046599 38 -------------PGYAFIDFDDYRDAQDAIRELDGKN----GWRVELSHN 71 (131)
Q Consensus 38 -------------~g~~fv~f~~~~~a~~ai~~l~g~~----~~~v~~~~~ 71 (131)
--||.|+|.+.+.|.+..+..+|.+ ...+.+.+-
T Consensus 255 ~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFI 305 (650)
T KOG2318|consen 255 REKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRFI 305 (650)
T ss_pred HHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeeec
Confidence 1389999999999999999999997 455555543
No 157
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=82.57 E-value=0.28 Score=37.07 Aligned_cols=55 Identities=16% Similarity=0.138 Sum_probs=43.5
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccC-CCcEEEEEEcCHHHHHHHHHH
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARR-PPGYAFIDFDDYRDAQDAIRE 57 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~-~~g~~fv~f~~~~~a~~ai~~ 57 (131)
+|+|.+|+..+...++-+.|..+|+|....+-.+ ..-++.+.|....+...|+..
T Consensus 153 t~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~halr~ 208 (479)
T KOG4676|consen 153 TREVQSLISAAILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHALRS 208 (479)
T ss_pred hhhhhcchhhhcchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHHHh
Confidence 6889999999999999999999999988776432 234666888877777777763
No 158
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=82.31 E-value=4.1 Score=22.66 Aligned_cols=19 Identities=21% Similarity=0.452 Sum_probs=16.3
Q ss_pred HHHHHHhhcCCCeeEEEEc
Q 046599 16 RDLEDEFRVFGVIRSVWVA 34 (131)
Q Consensus 16 ~~l~~~f~~~G~i~~~~i~ 34 (131)
++|+++|+..|+|.-+.+.
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 5899999999999887764
No 159
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=80.32 E-value=4.3 Score=31.05 Aligned_cols=53 Identities=13% Similarity=0.110 Sum_probs=41.5
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCC-eeEEEEccCCCcEEEEEEcCHHHHHHHHHH
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGV-IRSVWVARRPPGYAFIDFDDYRDAQDAIRE 57 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~-i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~ 57 (131)
.|-|.++|.....+||-..|..|+. --.|.++. .-++|..|.+...|..||-.
T Consensus 393 VlEIydfp~efkteDll~~f~~yq~kgfdIkWvD--dthalaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 393 VLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVD--DTHALAVFSSVNRAAEALTL 446 (528)
T ss_pred eeEeccCchhhccHHHHHHHHHhhcCCceeEEee--cceeEEeecchHHHHHHhhc
Confidence 4567899999888999999999973 33455542 35799999999999999874
No 160
>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=79.27 E-value=10 Score=22.05 Aligned_cols=55 Identities=13% Similarity=0.206 Sum_probs=39.2
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc-CC-CeeEEEEccCC--CcEEEEEEcCHHHHHHHHHH
Q 046599 3 RVYVGNLDSRVSERDLEDEFRV-FG-VIRSVWVARRP--PGYAFIDFDDYRDAQDAIRE 57 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~-~G-~i~~~~i~~~~--~g~~fv~f~~~~~a~~ai~~ 57 (131)
+-|+..++..++..+|+..++. |+ .|..|...... ---|||.+.....|...-..
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~~~KKA~VtL~~g~~a~~va~k 73 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPRGEKKAYVKLAEEYAAEEIASR 73 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCceEEEEEECCCCcHHHHHHh
Confidence 3567778899999999999987 66 66666554322 23699999888777765443
No 161
>PF14893 PNMA: PNMA
Probab=79.10 E-value=4.3 Score=30.29 Aligned_cols=70 Identities=19% Similarity=0.319 Sum_probs=44.9
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc-CCCeeEEEEcc------CCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEeecC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRV-FGVIRSVWVAR------RPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELSHNS 72 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~-~G~i~~~~i~~------~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~~~~ 72 (131)
.|.|.+||.++++++|++.+.. .-.+-...+.. ...--++|+|....+-...=..+.|+. .++|-+....
T Consensus 20 ~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~~~~~aalve~~e~~n~~~iP~~i~g~gg~W~Vv~~p~~ 97 (331)
T PF14893_consen 20 ALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRREENAKAALVEFAEDVNYSLIPREIPGKGGPWRVVFKPPA 97 (331)
T ss_pred hheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhhhcccceeeeecccccchhhCchhcCCCCCceEEEecCCC
Confidence 4789999999999999988754 33333444432 233467888876555554444555655 5676665543
No 162
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=78.79 E-value=3.4 Score=30.25 Aligned_cols=30 Identities=37% Similarity=0.594 Sum_probs=23.6
Q ss_pred EEEEEcCHHHHHHHHHHhcCCc--ceEEEEee
Q 046599 41 AFIDFDDYRDAQDAIRELDGKN--GWRVELSH 70 (131)
Q Consensus 41 ~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~ 70 (131)
|||+|++..+|+.|++.+...+ .+.|+.+.
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~~~~~v~~AP 32 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRPNSWRVSPAP 32 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCCCCceEeeCC
Confidence 7999999999999999877776 44555444
No 163
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=78.54 E-value=1.3 Score=32.24 Aligned_cols=32 Identities=28% Similarity=0.440 Sum_probs=24.6
Q ss_pred eEEEcCCCC------------CCcHHHHHHHhhcCCCeeEEEEc
Q 046599 3 RVYVGNLDS------------RVSERDLEDEFRVFGVIRSVWVA 34 (131)
Q Consensus 3 ~l~V~~L~~------------~~t~~~l~~~f~~~G~i~~~~i~ 34 (131)
|||+.+||- -.+++-|...|..||.|..|.|.
T Consensus 151 ti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdip 194 (445)
T KOG2891|consen 151 TIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIP 194 (445)
T ss_pred ceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCc
Confidence 677777762 14567799999999999888774
No 164
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=78.30 E-value=0.93 Score=23.80 Aligned_cols=18 Identities=39% Similarity=0.982 Sum_probs=15.9
Q ss_pred CCCCCCCCCCCCCCCcCC
Q 046599 90 DLKCYECGEPGHFARECR 107 (131)
Q Consensus 90 ~~~~~~~g~~g~~~~~~~ 107 (131)
..-|+.||.-||...+||
T Consensus 31 p~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 31 PRFCFHCGRIGHSDKECP 48 (49)
T ss_pred ChhhcCCCCcCcCHhHcC
Confidence 356999999999999997
No 165
>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=77.71 E-value=10 Score=21.31 Aligned_cols=47 Identities=23% Similarity=0.420 Sum_probs=36.8
Q ss_pred CCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 12 RVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 12 ~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.++.++++..+.+|. ...|.. +..| -||.|.+..+|+++....++..
T Consensus 11 ~~~v~d~K~~Lr~y~-~~~I~~--d~tG-fYIvF~~~~Ea~rC~~~~~~~~ 57 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYR-WDRIRD--DRTG-FYIVFNDSKEAERCFRAEDGTL 57 (66)
T ss_pred CccHHHHHHHHhcCC-cceEEe--cCCE-EEEEECChHHHHHHHHhcCCCE
Confidence 577889999999997 344433 3344 5899999999999999888876
No 166
>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=77.20 E-value=6.1 Score=23.15 Aligned_cols=36 Identities=22% Similarity=0.429 Sum_probs=26.0
Q ss_pred CeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 27 VIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 27 ~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.|.++......+||-||+=.+..++..|+..+.+..
T Consensus 33 ~I~Si~~~~~lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 33 NIYSIFAPDSLKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp ---EEEE-TTSTSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred ceEEEEEeCCCceEEEEEeCCHHHHHHHHhccccee
Confidence 566776666789999999999999999987666554
No 167
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=76.41 E-value=1.5 Score=31.34 Aligned_cols=19 Identities=47% Similarity=1.195 Sum_probs=16.8
Q ss_pred CCCCCCCCCCCCCCcCCCC
Q 046599 91 LKCYECGEPGHFARECRLR 109 (131)
Q Consensus 91 ~~~~~~g~~g~~~~~~~~~ 109 (131)
-.||.||+.||++.+|+..
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred CccCCCCcCCcchhhCCCC
Confidence 3499999999999999964
No 168
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=74.43 E-value=2.4 Score=21.38 Aligned_cols=20 Identities=35% Similarity=0.931 Sum_probs=15.7
Q ss_pred CCCCCCCCCCCCC--CcCCCCC
Q 046599 91 LKCYECGEPGHFA--RECRLRG 110 (131)
Q Consensus 91 ~~~~~~g~~g~~~--~~~~~~~ 110 (131)
..|..||..||.. +.||-..
T Consensus 2 ~kC~~CG~~GH~~t~k~CP~~~ 23 (40)
T PF15288_consen 2 VKCKNCGAFGHMRTNKRCPMYC 23 (40)
T ss_pred ccccccccccccccCccCCCCC
Confidence 4689999999976 6788643
No 169
>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=73.08 E-value=7.7 Score=24.35 Aligned_cols=54 Identities=19% Similarity=0.341 Sum_probs=26.9
Q ss_pred eEEEcCCCCC---------CcHHHHHHHhhcCCCeeEEEEcc--CCCcEEEEEEcCH-HHHHHHHH
Q 046599 3 RVYVGNLDSR---------VSERDLEDEFRVFGVIRSVWVAR--RPPGYAFIDFDDY-RDAQDAIR 56 (131)
Q Consensus 3 ~l~V~~L~~~---------~t~~~l~~~f~~~G~i~~~~i~~--~~~g~~fv~f~~~-~~a~~ai~ 56 (131)
++.|-|++.. ++.++|.+.|+.|..+.-..+.. ...|+++|.|... .....|+.
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l~~~~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChHHHHHHHH
Confidence 4556677543 35578999999998765443332 3468999999963 33444444
No 170
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=72.78 E-value=4.2 Score=26.38 Aligned_cols=17 Identities=53% Similarity=1.400 Sum_probs=9.5
Q ss_pred CCCCCCCCCCCCCcCCC
Q 046599 92 KCYECGEPGHFARECRL 108 (131)
Q Consensus 92 ~~~~~g~~g~~~~~~~~ 108 (131)
.|+.|+..||++.+||.
T Consensus 54 ~C~~Cg~~GH~~~~Cp~ 70 (148)
T PTZ00368 54 SCYNCGKTGHLSRECPE 70 (148)
T ss_pred ccCCCCCcCcCcccCCC
Confidence 35555555555555554
No 171
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=70.50 E-value=3.9 Score=32.08 Aligned_cols=23 Identities=17% Similarity=0.160 Sum_probs=18.2
Q ss_pred cEEEEEEcCHHHHHHHHHHhcCC
Q 046599 39 GYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 39 g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
-+++|.-++.+..++|++.+.+.
T Consensus 205 LH~~Isadt~eki~~Ai~vienl 227 (554)
T KOG0119|consen 205 LHCLISADTQEKIKKAIAVIENL 227 (554)
T ss_pred eeEEEecchHHHHHHHHHHHHHH
Confidence 48999999999988888865443
No 172
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=70.14 E-value=6 Score=29.92 Aligned_cols=61 Identities=23% Similarity=0.389 Sum_probs=43.0
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCC-CeeEEEEcc-------CCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFG-VIRSVWVAR-------RPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G-~i~~~~i~~-------~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.++.|.+||+..++.+|.+.+..+- .+.+..+.. ...+.++|.|...++...-...+++..
T Consensus 8 ~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~i 76 (376)
T KOG1295|consen 8 VKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYI 76 (376)
T ss_pred eeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceE
Confidence 5788999999999999887777754 233333321 225688999999998766666666553
No 173
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=66.90 E-value=0.92 Score=35.86 Aligned_cols=61 Identities=13% Similarity=0.177 Sum_probs=46.5
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc-----cCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA-----RRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~-----~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
++|||.|++++++-++|+.+...+--+..+.+. +...-+.+|+|.-......|+.+||++.
T Consensus 232 ~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~ir 297 (648)
T KOG2295|consen 232 CSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIR 297 (648)
T ss_pred HHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcc
Confidence 467899999999999999998887655554442 2334578889988778888888888875
No 174
>COG0002 ArgC Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=65.82 E-value=20 Score=27.03 Aligned_cols=32 Identities=19% Similarity=0.328 Sum_probs=22.1
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhc-CCCeeEEEEc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRV-FGVIRSVWVA 34 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~-~G~i~~~~i~ 34 (131)
+|+++ .|...++.++|.++|.+ |..-..|+|.
T Consensus 247 ~Ti~~-~l~~~~t~~~i~~~y~~~Y~~epfVrv~ 279 (349)
T COG0002 247 ATIYL-KLKDLVTLEELHAAYEEFYAGEPFVRVV 279 (349)
T ss_pred EEEEE-ecCCCCCHHHHHHHHHHHhCCCCeEEEe
Confidence 35555 45566999999999976 5655566654
No 175
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=65.41 E-value=5 Score=28.47 Aligned_cols=32 Identities=13% Similarity=0.210 Sum_probs=26.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEE
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWV 33 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i 33 (131)
..||+-|+|..+|++.|..+.++.|-+..+..
T Consensus 41 d~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~y 72 (261)
T KOG4008|consen 41 DCLFLVNVPLLSTEEHLKRFVSQLGHVQELLY 72 (261)
T ss_pred cceeeecccccccHHHHHHHHHHhhhhhheec
Confidence 36899999999999999999999986555443
No 176
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=63.77 E-value=34 Score=22.40 Aligned_cols=35 Identities=17% Similarity=0.350 Sum_probs=27.9
Q ss_pred eeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 28 IRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 28 i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
|..+.+....+||.||+....+++..++..+.+..
T Consensus 36 i~~i~vp~~fpGYVfVe~~~~~~~~~~i~~v~~v~ 70 (153)
T PRK08559 36 IYAILAPPELKGYVLVEAESKGAVEEAIRGIPHVR 70 (153)
T ss_pred EEEEEccCCCCcEEEEEEEChHHHHHHHhcCCCEe
Confidence 66777777789999999998888888887666543
No 177
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=62.96 E-value=1.3 Score=34.10 Aligned_cols=60 Identities=12% Similarity=0.294 Sum_probs=47.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEcc-CC-CcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVAR-RP-PGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~-~~-~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
++-|.|+|+...++-|..++.+||.+..+..+. ++ ....-|.|...+.+..||..|++..
T Consensus 82 k~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~g~Q 143 (584)
T KOG2193|consen 82 KIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLNGPQ 143 (584)
T ss_pred hhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhcchH
Confidence 456789999999999999999999998876643 21 1233467788889999999999986
No 178
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=61.80 E-value=28 Score=23.75 Aligned_cols=10 Identities=20% Similarity=0.268 Sum_probs=4.8
Q ss_pred ceEEEcCCCC
Q 046599 2 SRVYVGNLDS 11 (131)
Q Consensus 2 ~~l~V~~L~~ 11 (131)
.+|||.--|+
T Consensus 38 rsvWvArnPP 47 (195)
T KOG0107|consen 38 RSVWVARNPP 47 (195)
T ss_pred eeEEEeecCC
Confidence 3455554443
No 179
>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=59.86 E-value=5.2 Score=23.91 Aligned_cols=21 Identities=24% Similarity=0.463 Sum_probs=17.8
Q ss_pred ceEEEcCCCCCCcHHHHHHHh
Q 046599 2 SRVYVGNLDSRVSERDLEDEF 22 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f 22 (131)
.+|.|.|||...++++|++.+
T Consensus 53 rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 53 RTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred CEEEEeCCCCCCChhhheeeE
Confidence 378899999999999988654
No 180
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=59.55 E-value=48 Score=21.79 Aligned_cols=51 Identities=22% Similarity=0.288 Sum_probs=34.5
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc-CC-CeeEEEEccCCCc--EEEEEEcCHHHHHH
Q 046599 3 RVYVGNLDSRVSERDLEDEFRV-FG-VIRSVWVARRPPG--YAFIDFDDYRDAQD 53 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~-~G-~i~~~~i~~~~~g--~~fv~f~~~~~a~~ 53 (131)
+.|+.-++...+..+|++.++. |+ .|..|..+....| -|||.+....+|..
T Consensus 83 N~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~g~KKA~V~L~~~~~aid 137 (145)
T PTZ00191 83 NTLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPDGLKKAYIRLSPDVDALD 137 (145)
T ss_pred CEEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCCCceEEEEEECCCCcHHH
Confidence 3566677888899999988886 66 5566554432233 68999977666443
No 181
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=58.23 E-value=16 Score=25.01 Aligned_cols=71 Identities=17% Similarity=0.151 Sum_probs=44.1
Q ss_pred ceEEEcCCCCCCcHH-----HHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc---ceEEEEeecCC
Q 046599 2 SRVYVGNLDSRVSER-----DLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN---GWRVELSHNSR 73 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~-----~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~---~~~v~~~~~~~ 73 (131)
+++.+.+++..+-.+ ..+.+|.+|-+.....+. .+.++.-|.|.+++.|..|...++... ...+.+-.+++
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~l-rsfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~ 89 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLL-RSFRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQP 89 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHH-HhhceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccC
Confidence 356777777654322 334556666554444443 245677899999999999999888775 22444444444
No 182
>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=56.00 E-value=10 Score=18.69 Aligned_cols=16 Identities=19% Similarity=0.306 Sum_probs=10.3
Q ss_pred CCCcHHHHHHHhhcCC
Q 046599 11 SRVSERDLEDEFRVFG 26 (131)
Q Consensus 11 ~~~t~~~l~~~f~~~G 26 (131)
.++++++|+++|.+..
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 4688999999998765
No 183
>PF00906 Hepatitis_core: Hepatitis core antigen; InterPro: IPR002006 This entry represent the core domain of the viral capsid (HBcAg) from various Hepatitis B virus (HBV), which is a major human pathogen. The virus is composed of an outer envelope of host-derived lipid containing the surface proteins, and an inner protein capsid that contains genomic DNA. The capsid is composed of a single polypeptide, HBcAg, also known as the core antigen. The capsid has a 5-helical fold, where two long helices form a hairpin that dimerises into a 4-helical bundle []; this fold is unusual for icosahedral viruses. The monomer fold is stabilised by a hydrophobic core that is highly conserved among human viral variants. The capsid is assembled from dimers via interactions involving a highly conserved arginine-rich region near the C terminus. This viral capsid acts as a core antigen, the major immunodominant region lying at the tips of the alpha-helical hairpins that form spikes on the capsid surface.; GO: 0005198 structural molecule activity, 0009405 pathogenesis; PDB: 1HHH_C 2QIJ_C 3KXS_F 2G34_B 2G33_C 3OX8_F 3OXS_C 3OXR_C 1QGT_B.
Probab=55.35 E-value=3.9 Score=27.31 Aligned_cols=15 Identities=67% Similarity=0.722 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCCCCC
Q 046599 114 RRRSRSPRYRRSPSY 128 (131)
Q Consensus 114 r~r~~s~~~~rs~~~ 128 (131)
|+||.|+.|++|.|.
T Consensus 169 RRRSqS~~Rr~sqsp 183 (187)
T PF00906_consen 169 RRRSQSRRRRRSQSP 183 (187)
T ss_dssp ---------------
T ss_pred cccccCcccccccCC
Confidence 556666666555443
No 184
>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=51.58 E-value=55 Score=24.18 Aligned_cols=50 Identities=16% Similarity=0.308 Sum_probs=37.8
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCC------------CcEEEEEEcCHHHHHH
Q 046599 4 VYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRP------------PGYAFIDFDDYRDAQD 53 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~------------~g~~fv~f~~~~~a~~ 53 (131)
|.+.|+..+++--.+-..|.+||+|+.|.++... .....+.|-+.+.|..
T Consensus 18 LLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLd 79 (309)
T PF10567_consen 18 LLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLD 79 (309)
T ss_pred HHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHH
Confidence 4456777778777788889999999999987422 3567888888777654
No 185
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=51.46 E-value=52 Score=19.79 Aligned_cols=52 Identities=17% Similarity=0.176 Sum_probs=30.9
Q ss_pred CCCCCcHHHHHHH-------hhcCC-CeeEEEEcc----------CCCc-EEEEEEcCHHHHHHHHHHhcC
Q 046599 9 LDSRVSERDLEDE-------FRVFG-VIRSVWVAR----------RPPG-YAFIDFDDYRDAQDAIRELDG 60 (131)
Q Consensus 9 L~~~~t~~~l~~~-------f~~~G-~i~~~~i~~----------~~~g-~~fv~f~~~~~a~~ai~~l~g 60 (131)
|.++++++++..+ +...| .|..+.-.+ ...| |.++.|....++.+.++..-.
T Consensus 14 l~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~eler~lr 84 (97)
T CHL00123 14 LKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEKALK 84 (97)
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHHHHhC
Confidence 4456666655444 44444 666665432 2345 688899977777777765433
No 186
>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=50.53 E-value=38 Score=17.94 Aligned_cols=54 Identities=15% Similarity=0.180 Sum_probs=39.1
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCH----HHHHHHHHH
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDY----RDAQDAIRE 57 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~----~~a~~ai~~ 57 (131)
+|.|.|+.=.--...|+..+...-.|..+.+... .+-+-|.|... ++...+|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~-~~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLE-TKTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETT-TTEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECC-CCEEEEEEecCCCCHHHHHHHHHH
Confidence 5677787777777889999999888888887543 46788888754 455555554
No 187
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=47.63 E-value=33 Score=24.76 Aligned_cols=26 Identities=23% Similarity=0.034 Sum_probs=20.7
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCe
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVI 28 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i 28 (131)
...|+|||++++..-|..++...-.+
T Consensus 97 ~~vVaNlPY~Isspii~kll~~~~~~ 122 (259)
T COG0030 97 YKVVANLPYNISSPILFKLLEEKFII 122 (259)
T ss_pred CEEEEcCCCcccHHHHHHHHhccCcc
Confidence 35689999999999998888765444
No 188
>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=45.82 E-value=21 Score=25.40 Aligned_cols=27 Identities=33% Similarity=0.454 Sum_probs=21.2
Q ss_pred eEEEcCCCCCCcHHHHHHHhh--cCCCee
Q 046599 3 RVYVGNLDSRVSERDLEDEFR--VFGVIR 29 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~--~~G~i~ 29 (131)
-+.|+|||+.++..-|..++. .+|.+.
T Consensus 99 ~~vv~NlPy~is~~il~~ll~~~~~g~~~ 127 (262)
T PF00398_consen 99 LLVVGNLPYNISSPILRKLLELYRFGRVR 127 (262)
T ss_dssp EEEEEEETGTGHHHHHHHHHHHGGGCEEE
T ss_pred eEEEEEecccchHHHHHHHhhcccccccc
Confidence 478999999999999988886 455433
No 189
>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=45.40 E-value=65 Score=19.13 Aligned_cols=43 Identities=35% Similarity=0.469 Sum_probs=26.6
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEE--ccCCCcEEEEEE
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWV--ARRPPGYAFIDF 45 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i--~~~~~g~~fv~f 45 (131)
-|||++++..+-+.-.+.+.+..++-.-+.+ ..+..||.|-.+
T Consensus 27 GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~~neqG~~~~t~ 71 (86)
T PF09707_consen 27 GVYVGNVSARVRERLWERVTEWIGDGSAVMVWSDNNEQGFDFRTL 71 (86)
T ss_pred CcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEccCCCCCEEEEEe
Confidence 5899999888887766655554433222222 223578888766
No 190
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=43.02 E-value=11 Score=28.29 Aligned_cols=47 Identities=15% Similarity=0.071 Sum_probs=36.4
Q ss_pred HHHHHHHhhcCCCeeEEEEcc-CCCcEEEEEEcCHHHHHHHHHHhcCC
Q 046599 15 ERDLEDEFRVFGVIRSVWVAR-RPPGYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 15 ~~~l~~~f~~~G~i~~~~i~~-~~~g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
...|.+++.+.|.|..-.+.+ -+.|.+||..-.+++++++++.|.+.
T Consensus 275 ~p~iF~~i~~~G~v~~~EM~rtFNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 275 PPPIFKWLQKAGNVEREEMYRTFNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CcHHHHHHHHhcCCCHHHHHHHhcCccceEEEEcHHHHHHHHHHHHhc
Confidence 456777888888776654432 14688999999999999999999876
No 191
>PHA01632 hypothetical protein
Probab=42.90 E-value=28 Score=18.92 Aligned_cols=21 Identities=10% Similarity=0.302 Sum_probs=16.2
Q ss_pred EEEcCCCCCCcHHHHHHHhhc
Q 046599 4 VYVGNLDSRVSERDLEDEFRV 24 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~ 24 (131)
|.|-.+|...|+++|+.++.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 345688999999999877653
No 192
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=41.83 E-value=93 Score=19.93 Aligned_cols=35 Identities=14% Similarity=0.268 Sum_probs=25.3
Q ss_pred eeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 28 IRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 28 i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
+..+.+....+||-||++....+...++..+.+..
T Consensus 28 ~~~~~vp~~fpGYvFV~~~~~~~~~~~i~~~~gv~ 62 (145)
T TIGR00405 28 VYSILAPESLKGYILVEAETKIDMRNPIIGVPHVR 62 (145)
T ss_pred EEEEEccCCCCcEEEEEEECcHHHHHHHhCCCCEE
Confidence 44555555679999999997777777776665543
No 193
>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=40.60 E-value=67 Score=19.14 Aligned_cols=45 Identities=27% Similarity=0.518 Sum_probs=24.1
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc---CCCeeEEEEccCCCcEEEEEEcC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRV---FGVIRSVWVARRPPGYAFIDFDD 47 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~---~G~i~~~~i~~~~~g~~fv~f~~ 47 (131)
-+||++++..+-+.-.+.+-+. -|.+.-+.-..+..||.|-.+-.
T Consensus 27 GVyVg~~s~rVRe~lW~~v~~~~~~~G~avm~~~~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 27 GVYVGGVSASVRERIWDYLAQHCPPKGSLVITWSSNTCPGFEFFTLGE 74 (87)
T ss_pred CcEEcCCCHHHHHHHHHHHHHhCCCCccEEEEEeCCCCCCcEEEecCC
Confidence 5899988877765533333222 23333222223446787776654
No 194
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=38.38 E-value=74 Score=17.80 Aligned_cols=43 Identities=16% Similarity=0.114 Sum_probs=29.7
Q ss_pred HHHHHHhhcCCCeeEEEEccC-CCcEEEEEEcCHHHHHHHHHHhc
Q 046599 16 RDLEDEFRVFGVIRSVWVARR-PPGYAFIDFDDYRDAQDAIRELD 59 (131)
Q Consensus 16 ~~l~~~f~~~G~i~~~~i~~~-~~g~~fv~f~~~~~a~~ai~~l~ 59 (131)
.+|.+.+.++| +....+.+. .-++.|+.+.+.+.++.+++.+.
T Consensus 37 ~~~~~~~~~~G-a~~~~~sGsG~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSGSGGGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEETTSSSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCCCCCCCeEEEEECCHHHHHHHHHHHH
Confidence 35666677888 555556542 14588888889899888877663
No 195
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=37.99 E-value=48 Score=23.38 Aligned_cols=23 Identities=17% Similarity=-0.005 Sum_probs=19.5
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCC
Q 046599 4 VYVGNLDSRVSERDLEDEFRVFG 26 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~~G 26 (131)
+.|+|||++++.+.|..++..++
T Consensus 97 ~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 97 KVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred eEEEcCChhhHHHHHHHHhccCC
Confidence 67899999999999999987444
No 196
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=37.50 E-value=81 Score=17.99 Aligned_cols=46 Identities=26% Similarity=0.301 Sum_probs=32.4
Q ss_pred HhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEee
Q 046599 21 EFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELSH 70 (131)
Q Consensus 21 ~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~~ 70 (131)
-+.+||.|..+.= ...|+ |.|-+.++++..++.|.... -.+|+.+.
T Consensus 16 ~L~kfG~i~Y~Sk---k~kYv-vlYvn~~~~e~~~~kl~~l~fVk~Ve~S~ 62 (71)
T PF09902_consen 16 QLRKFGDIHYVSK---KMKYV-VLYVNEEDVEEIIEKLKKLKFVKKVEPSP 62 (71)
T ss_pred hHhhcccEEEEEC---CccEE-EEEECHHHHHHHHHHHhcCCCeeEEeccC
Confidence 4678999888742 13344 45778999999999888876 44666554
No 197
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=37.01 E-value=56 Score=16.90 Aligned_cols=45 Identities=7% Similarity=-0.028 Sum_probs=28.8
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHH
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRD 50 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~ 50 (131)
.+++.+.....+.++|++++..+|.-..-.+. ....+|.+.+...
T Consensus 3 ~~~i~g~~~~~~~~~l~~~i~~~Gg~v~~~~~---~~~thvI~~~~~~ 47 (72)
T cd00027 3 TFVITGDLPSEERDELKELIEKLGGKVTSSVS---KKTTHVIVGSDAG 47 (72)
T ss_pred EEEEEecCCCcCHHHHHHHHHHcCCEEecccc---CCceEEEECCCCC
Confidence 57788877678889999999998853222221 2345555554443
No 198
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=36.78 E-value=13 Score=20.93 Aligned_cols=39 Identities=13% Similarity=0.181 Sum_probs=25.1
Q ss_pred HHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhc
Q 046599 16 RDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELD 59 (131)
Q Consensus 16 ~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~ 59 (131)
++|++.|..+.....+. +-.+|.-|.+.++|..++..+.
T Consensus 27 ~~v~~~~~~~~~f~k~v-----kL~aF~pF~s~~~ALe~~~ais 65 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKIV-----KLKAFSPFKSAEEALENANAIS 65 (67)
T ss_pred HHHHHHHcCHHHHhhhh-----hhhhccCCCCHHHHHHHHHHhh
Confidence 56777776554333221 3358999999988888776553
No 199
>PF12353 eIF3g: Eukaryotic translation initiation factor 3 subunit G ; InterPro: IPR024675 At least eleven different protein factors are involved in initiation of protein synthesis in eukaryotes. Binding of initiator tRNA and mRNA to the 40S subunit requires the presence of the translation initiation factors eIF-2 and eIF-3, with eIF-3 being particularly important for 80S ribosome dissociation and mRNA binding []. eIF-3 is the most complex translation inititation factor, consisting of about 13 putative subunits and having a molecular weight of between 550 - 700 kDa in mammalian cells. Subunits are designated eIF-3a - eIF-3m; the large number of subunits means that the interactions between the individual subunits that make up the eIF-3 complex are complex and varied. Subunit G is required for eIF3 integrity. This entry represents a domain of approximately 130 amino acids in length found at the N terminus of eukaryotic translation initiation factor 3 subunit G. This domain is commonly found in association with the RNA recognition domain PF00076 from PFAM.
Probab=34.32 E-value=25 Score=22.51 Aligned_cols=20 Identities=30% Similarity=0.738 Sum_probs=15.9
Q ss_pred CCCCCCCCCCCCCCCCCcCCC
Q 046599 88 GSDLKCYECGEPGHFARECRL 108 (131)
Q Consensus 88 ~~~~~~~~~g~~g~~~~~~~~ 108 (131)
..--.|..|+ ..||...||-
T Consensus 104 ~~~v~CR~Ck-GdH~T~~CPy 123 (128)
T PF12353_consen 104 KSKVKCRICK-GDHWTSKCPY 123 (128)
T ss_pred CceEEeCCCC-CCcccccCCc
Confidence 3444699997 8899999995
No 200
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.23 E-value=1.4e+02 Score=19.83 Aligned_cols=48 Identities=21% Similarity=0.344 Sum_probs=34.4
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcC---CCeeEEEEcc--------------CCCc-EEEEEEcCHHH
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVF---GVIRSVWVAR--------------RPPG-YAFIDFDDYRD 50 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~---G~i~~~~i~~--------------~~~g-~~fv~f~~~~~ 50 (131)
+||+..++..+++++..++.++- +++..|.+-. ..+. |-+|.|++...
T Consensus 89 KI~~k~asqGISe~~a~~~i~kE~~~~e~~~V~Lg~e~~~PiWEV~y~dkeg~~s~~~vdFetG~~ 154 (161)
T COG5353 89 KIYSKKASQGISEEDARAIISKEKAVKEIKSVTLGREKEKPIWEVTYLDKEGRLSFYYVDFETGKE 154 (161)
T ss_pred eEEEEehhcCCCHHHHHHHHhhhccccceeEEEEEeeCCceeEEEeecCccCcceEEEEEeccchh
Confidence 78899999999999888888764 3555555521 1234 88899987654
No 201
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=34.20 E-value=58 Score=23.36 Aligned_cols=22 Identities=18% Similarity=0.036 Sum_probs=18.1
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc
Q 046599 3 RVYVGNLDSRVSERDLEDEFRV 24 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~ 24 (131)
.+.|+|+|+.++..-|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 3578999999998888888754
No 202
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=33.91 E-value=79 Score=21.71 Aligned_cols=33 Identities=18% Similarity=0.073 Sum_probs=25.3
Q ss_pred CCeeEEEEcc------CCCcEEEEEEcCHHHHHHHHHHh
Q 046599 26 GVIRSVWVAR------RPPGYAFIDFDDYRDAQDAIREL 58 (131)
Q Consensus 26 G~i~~~~i~~------~~~g~~fv~f~~~~~a~~ai~~l 58 (131)
|.+..+.+.+ ..+|-.||+|...++|.+.++.-
T Consensus 132 ~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~~ 170 (205)
T KOG4213|consen 132 GKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDTH 170 (205)
T ss_pred ccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhhhh
Confidence 6777777643 24678899999999999877644
No 203
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=33.88 E-value=84 Score=17.10 Aligned_cols=29 Identities=24% Similarity=0.450 Sum_probs=19.8
Q ss_pred EEEcCHHHHHHHHHHhcCCcceEEEEeec
Q 046599 43 IDFDDYRDAQDAIRELDGKNGWRVELSHN 71 (131)
Q Consensus 43 v~f~~~~~a~~ai~~l~g~~~~~v~~~~~ 71 (131)
..|.+.+++..||..+.-.....+.+..+
T Consensus 8 ~~F~~~~e~k~av~~yai~~~~~~~v~ks 36 (67)
T PF03108_consen 8 QTFPSKEEFKEAVREYAIKNGFEFKVKKS 36 (67)
T ss_pred CEECCHHHHHHHHHHHHHhcCcEEEEecc
Confidence 36889999999998776554444444443
No 204
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=33.53 E-value=55 Score=23.99 Aligned_cols=21 Identities=19% Similarity=0.112 Sum_probs=17.9
Q ss_pred EEEcCCCCCCcHHHHHHHhhc
Q 046599 4 VYVGNLDSRVSERDLEDEFRV 24 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~ 24 (131)
+.|+|||++++...|..++..
T Consensus 104 ~VvaNlPY~Istpil~~ll~~ 124 (294)
T PTZ00338 104 VCVANVPYQISSPLVFKLLAH 124 (294)
T ss_pred EEEecCCcccCcHHHHHHHhc
Confidence 568999999999988888854
No 205
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=32.63 E-value=1.4e+02 Score=19.11 Aligned_cols=57 Identities=16% Similarity=0.127 Sum_probs=39.6
Q ss_pred eEEEcCCCCC---CcHHHHHHHhhcCC-CeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 3 RVYVGNLDSR---VSERDLEDEFRVFG-VIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 3 ~l~V~~L~~~---~t~~~l~~~f~~~G-~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
.|.|...... .+-..+.+.+.+-| .++.+... .+-..|.|.+.++..+|.+.|...-
T Consensus 37 avQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~---~~~~~irf~~~~~Ql~Ak~vL~~~L 97 (127)
T PRK10629 37 TLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPE---NDSLLIRFDSPEQSAAAKEVLDRTL 97 (127)
T ss_pred eEEEecCCCCCccchHHHHHHHHHHCCCCcceEEee---CCEEEEEECCHHHHHHHHHHHHHHc
Confidence 3455544222 45667888888877 55666553 4468899999999988888877664
No 206
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=32.27 E-value=57 Score=22.10 Aligned_cols=33 Identities=33% Similarity=0.523 Sum_probs=28.9
Q ss_pred ceEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEc
Q 046599 2 SRVYVGNLDSRVSERDLEDEFRVFGVIRSVWVA 34 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~ 34 (131)
..+++.+++..++..++...|..+|.+....+.
T Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 258 (306)
T COG0724 226 DNLYVGNLPLKTAEEELADLFKSRGDIVRASLP 258 (306)
T ss_pred ceeeccccccccchhHHHHhccccccceeeecc
Confidence 468899999999999999999999998766664
No 207
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=31.55 E-value=1.7e+02 Score=19.87 Aligned_cols=56 Identities=21% Similarity=0.313 Sum_probs=37.1
Q ss_pred EEcCCCCCCcHHHHHHHhhcCCC-eeEEEEcc---CCCcEEEEEEcCHHHHHHHHHHhcC
Q 046599 5 YVGNLDSRVSERDLEDEFRVFGV-IRSVWVAR---RPPGYAFIDFDDYRDAQDAIRELDG 60 (131)
Q Consensus 5 ~V~~L~~~~t~~~l~~~f~~~G~-i~~~~i~~---~~~g~~fv~f~~~~~a~~ai~~l~g 60 (131)
||+|.+...+-..|-+.|...|. |.-+.=.. .+.++-.+.+.+.++...++..+-.
T Consensus 22 ~ItN~SSG~~G~~lA~~~~~~Ga~V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~~~ 81 (185)
T PF04127_consen 22 FITNRSSGKMGAALAEEAARRGAEVTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKELLP 81 (185)
T ss_dssp EEEES--SHHHHHHHHHHHHTT-EEEEEE-TTS----TTEEEEE-SSHHHHHHHHHHHGG
T ss_pred EecCCCcCHHHHHHHHHHHHCCCEEEEEecCccccccccceEEEecchhhhhhhhccccC
Confidence 78888888888899999988884 33322111 1457889999999998888876543
No 208
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=31.54 E-value=1e+02 Score=17.29 Aligned_cols=57 Identities=14% Similarity=0.395 Sum_probs=32.0
Q ss_pred HHHHHHhhcCC-CeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCcceEEEEeecCC
Q 046599 16 RDLEDEFRVFG-VIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKNGWRVELSHNSR 73 (131)
Q Consensus 16 ~~l~~~f~~~G-~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~~~~v~~~~~~~ 73 (131)
++|.+.|...| +|..+.-+. .+...-||+++...+...++ .+...-.+.|++..+..
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~i~-~Ik~l~~~~V~vE~~~k 64 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKEIY-KIKTLCGQRVKVERPRK 64 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCcccccee-ehHhhCCeEEEEecCCC
Confidence 46778888888 666665442 23346778777654422221 12222256677776544
No 209
>PF15063 TC1: Thyroid cancer protein 1
Probab=31.24 E-value=32 Score=19.95 Aligned_cols=23 Identities=22% Similarity=0.182 Sum_probs=19.5
Q ss_pred EcCCCCCCcHHHHHHHhhcCCCe
Q 046599 6 VGNLDSRVSERDLEDEFRVFGVI 28 (131)
Q Consensus 6 V~~L~~~~t~~~l~~~f~~~G~i 28 (131)
+.||=.+++...|+.+|..-|+.
T Consensus 30 saNIFe~vn~~qlqrLF~~sGD~ 52 (79)
T PF15063_consen 30 SANIFENVNLDQLQRLFQKSGDK 52 (79)
T ss_pred hhhhhhccCHHHHHHHHHHccch
Confidence 45777889999999999999964
No 210
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 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 domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=30.54 E-value=67 Score=19.09 Aligned_cols=31 Identities=16% Similarity=0.445 Sum_probs=22.6
Q ss_pred eEEEcCCCCCCcHHHHHHHhhc-CC-CeeEEEE
Q 046599 3 RVYVGNLDSRVSERDLEDEFRV-FG-VIRSVWV 33 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~-~G-~i~~~~i 33 (131)
..|+..++..+|..+|++.++. || .|..|..
T Consensus 21 n~~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt 53 (91)
T PF00276_consen 21 NQYTFEVDPRATKTEIKEAIEKIYGVKVKKVNT 53 (91)
T ss_dssp SEEEEEETTTSTHHHHHHHHHHHHTSEEEEEEE
T ss_pred CEEEEEEeCCCCHHHHHHHHHhhcCCCeeEEEE
Confidence 3456677889999999998876 77 5555554
No 211
>KOG4066 consensus Cell growth regulatory protein CGR11 [Function unknown]
Probab=30.50 E-value=96 Score=20.82 Aligned_cols=56 Identities=27% Similarity=0.516 Sum_probs=30.9
Q ss_pred EcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEee
Q 046599 6 VGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELSH 70 (131)
Q Consensus 6 V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~~ 70 (131)
|-+|++..+ |-+.|.+||- ..++...-.|.|.+..+-+.+.+.|.... +-+|++..
T Consensus 79 ilsLSP~~n---ISdAf~kFgI------~~~st~Ii~vk~d~~~dke~~~e~l~k~VeG~~Vef~d 135 (177)
T KOG4066|consen 79 ILSLSPKTN---ISDAFRKFGI------TKKSTNIIVVKIDSKLDKEEEFERLDKLVEGNRVEFSD 135 (177)
T ss_pred EEEeCCCcc---hHHHHHHhCc------ccCCccEEEEEecCCccHHHHHHHHHHHhcCCcccccc
Confidence 557777765 5567888882 12334455566666544455555554432 44555543
No 212
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=30.44 E-value=89 Score=20.38 Aligned_cols=21 Identities=29% Similarity=0.184 Sum_probs=17.4
Q ss_pred EEEcCCCCCCcHHHHHHHhhc
Q 046599 4 VYVGNLDSRVSERDLEDEFRV 24 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~ 24 (131)
+.|+|+|++++.+.|..++..
T Consensus 80 ~vi~n~Py~~~~~~i~~~l~~ 100 (169)
T smart00650 80 KVVGNLPYNISTPILFKLLEE 100 (169)
T ss_pred EEEECCCcccHHHHHHHHHhc
Confidence 568899999998888888764
No 213
>PRK11901 hypothetical protein; Reviewed
Probab=30.02 E-value=2.3e+02 Score=21.34 Aligned_cols=48 Identities=19% Similarity=0.223 Sum_probs=30.3
Q ss_pred CCcHHHHHHHhhcCCCeeEEEEc---cC-CCcEEE--EEEcCHHHHHHHHHHhcC
Q 046599 12 RVSERDLEDEFRVFGVIRSVWVA---RR-PPGYAF--IDFDDYRDAQDAIRELDG 60 (131)
Q Consensus 12 ~~t~~~l~~~f~~~G~i~~~~i~---~~-~~g~~f--v~f~~~~~a~~ai~~l~g 60 (131)
...++.|..+..+.+ +..+.+. ++ ..+|.. =.|.+.++|..|+..|-.
T Consensus 253 as~~~~L~~f~~~~~-L~~~~VYqT~RnGkpWYVVvyG~Y~Sr~eAk~Ai~sLPa 306 (327)
T PRK11901 253 ASRSDTLNAYAKKQN-LSHYHVYETKRDGKPWYVLVSGNYASSAEAKRAIATLPA 306 (327)
T ss_pred CCCHHHHHHHHHHcC-cCceEEEEEEECCceEEEEEecCcCCHHHHHHHHHhCCH
Confidence 355777888777765 3333332 12 234443 358899999999998754
No 214
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=29.98 E-value=1.3e+02 Score=18.31 Aligned_cols=45 Identities=22% Similarity=0.499 Sum_probs=25.3
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCC--CeeEEEEccCCCcEEEEEEcC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFG--VIRSVWVARRPPGYAFIDFDD 47 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G--~i~~~~i~~~~~g~~fv~f~~ 47 (131)
-|||++++..+-+.-.+.+-+.++ .+.-+.-..+..||.|-.+-.
T Consensus 29 GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~~~eqG~~~~t~G~ 75 (97)
T PRK11558 29 GVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWATNTESGFEFQTFGE 75 (97)
T ss_pred CcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcCCCCCCcEEEecCC
Confidence 589999887777654444444343 332222222335888876654
No 215
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=29.94 E-value=88 Score=17.51 Aligned_cols=30 Identities=20% Similarity=0.363 Sum_probs=21.3
Q ss_pred cHHHHHHHhhcCCCeeEEEEccC---CCcEEEE
Q 046599 14 SERDLEDEFRVFGVIRSVWVARR---PPGYAFI 43 (131)
Q Consensus 14 t~~~l~~~f~~~G~i~~~~i~~~---~~g~~fv 43 (131)
-+.+|+.+|-+-.+|.++.|..+ .+|-|||
T Consensus 31 ~e~eler~fl~~P~v~e~~l~EKKri~~G~gyV 63 (64)
T PF13046_consen 31 VEVELERHFLPLPEVKEVALYEKKRIRKGAGYV 63 (64)
T ss_pred HHHHhhhhccCCCCceEEEEEEEEeeeCCceeE
Confidence 35578888888888998877532 3566665
No 216
>TIGR01743 purR_Bsub pur operon repressor, Bacillus subtilis type. This model represents the puring operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.
Probab=29.43 E-value=2.1e+02 Score=20.79 Aligned_cols=42 Identities=21% Similarity=0.351 Sum_probs=25.8
Q ss_pred HHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHh
Q 046599 17 DLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIREL 58 (131)
Q Consensus 17 ~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l 58 (131)
-|++.|++.|.-.-..+.+..-|.-|+-+.+.++|+..++.|
T Consensus 44 i~~~~~~~~~~g~~~t~~ga~ggv~~~p~~~~~~~~~~~~~l 85 (268)
T TIGR01743 44 IIKETFEKFGIGKLLTVPGAAGGVKYIPKMSQAEAEEFVEEL 85 (268)
T ss_pred HHHHHHHhcCCceEEEeCCCCCCeEEEeCCCHHHHHHHHHHH
Confidence 368888877633333344445567777777777776666544
No 217
>PF14112 DUF4284: Domain of unknown function (DUF4284)
Probab=29.31 E-value=68 Score=20.19 Aligned_cols=20 Identities=35% Similarity=0.730 Sum_probs=16.1
Q ss_pred CceEEEcCCCCCCcHHHHHHHhh
Q 046599 1 MSRVYVGNLDSRVSERDLEDEFR 23 (131)
Q Consensus 1 ~~~l~V~~L~~~~t~~~l~~~f~ 23 (131)
|..||||+++ ++++|.+.|.
T Consensus 1 ~VsiWiG~f~---s~~el~~Y~e 20 (122)
T PF14112_consen 1 KVSIWIGNFK---SEDELEEYFE 20 (122)
T ss_pred CeEEEEecCC---CHHHHHHHhC
Confidence 4579999875 7888888884
No 218
>PRK05738 rplW 50S ribosomal protein L23; Reviewed
Probab=29.09 E-value=1.1e+02 Score=18.32 Aligned_cols=19 Identities=5% Similarity=0.139 Sum_probs=9.0
Q ss_pred EcCCCCCCcHHHHHHHhhc
Q 046599 6 VGNLDSRVSERDLEDEFRV 24 (131)
Q Consensus 6 V~~L~~~~t~~~l~~~f~~ 24 (131)
+-.++..+|..+|++.|+.
T Consensus 24 ~F~V~~~a~K~eIK~aie~ 42 (92)
T PRK05738 24 VFEVAPDATKPEIKAAVEK 42 (92)
T ss_pred EEEECCCCCHHHHHHHHHH
Confidence 3344445555555555443
No 219
>PRK09213 pur operon repressor; Provisional
Probab=28.36 E-value=2.1e+02 Score=20.85 Aligned_cols=42 Identities=19% Similarity=0.219 Sum_probs=26.1
Q ss_pred HHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHh
Q 046599 17 DLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIREL 58 (131)
Q Consensus 17 ~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l 58 (131)
-|++.|++.|.-.-..+.+..-|.-|+-+.+.++|+..+..|
T Consensus 46 i~~~~~~~~~~g~~~t~~ga~ggv~~~p~~~~~~a~~~~~~L 87 (271)
T PRK09213 46 IIKETFEKQGIGTLETVPGAAGGVKYIPSISEEEAREFVEEL 87 (271)
T ss_pred HHHHHHHhcCCceEEEeCCCCCCeEEEcCCCHHHHHHHHHHH
Confidence 368888877633333344445567777777777777666554
No 220
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=28.29 E-value=1.1e+02 Score=17.12 Aligned_cols=30 Identities=30% Similarity=0.336 Sum_probs=22.0
Q ss_pred cEEEEEEcCHHHHHHHHHHhcCCcceEEEEe
Q 046599 39 GYAFIDFDDYRDAQDAIRELDGKNGWRVELS 69 (131)
Q Consensus 39 g~~fv~f~~~~~a~~ai~~l~g~~~~~v~~~ 69 (131)
.+.+|.|.+..+|.+|-+.|.... +.+.+.
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~g-i~~~li 31 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNG-IPVRLI 31 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCC-CcEEEe
Confidence 367899999999999988776654 344433
No 221
>PRK11863 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional
Probab=27.42 E-value=95 Score=23.09 Aligned_cols=32 Identities=19% Similarity=0.086 Sum_probs=23.4
Q ss_pred ceEEEcC--CCCCCcHHHHHHHhhc-CCCeeEEEE
Q 046599 2 SRVYVGN--LDSRVSERDLEDEFRV-FGVIRSVWV 33 (131)
Q Consensus 2 ~~l~V~~--L~~~~t~~~l~~~f~~-~G~i~~~~i 33 (131)
.|+|+.- |...++.++|.++|.. |+.-..|++
T Consensus 210 ~Ti~~~~~~~~~~~~~~~i~~~~~~~Y~~epfV~v 244 (313)
T PRK11863 210 VTVPLHLRLLPGGPTAEDLHAALADHYAGEAFVRV 244 (313)
T ss_pred EEEEEEecccCCCCCHHHHHHHHHHHcCCCCeEEE
Confidence 5788864 5788999999999975 565455555
No 222
>KOG1134 consensus Uncharacterized conserved protein [General function prediction only]
Probab=27.01 E-value=1.2e+02 Score=25.45 Aligned_cols=36 Identities=25% Similarity=0.372 Sum_probs=27.9
Q ss_pred CCcEEEEEEcCHHHHHHHHHHhcCCc--ceEEEEeecC
Q 046599 37 PPGYAFIDFDDYRDAQDAIRELDGKN--GWRVELSHNS 72 (131)
Q Consensus 37 ~~g~~fv~f~~~~~a~~ai~~l~g~~--~~~v~~~~~~ 72 (131)
..+.|||.|.+...|+.|.+..+... .+.++++...
T Consensus 304 ~~~~aFVtf~sr~~A~~~aq~~~~~~~~~w~~~~APeP 341 (728)
T KOG1134|consen 304 PLPAAFVTFKSRYGAAVAAQTQQSLNPTKWLTEFAPEP 341 (728)
T ss_pred CCceEEEEEEeeHHHHHHHHhhhcCCCCceEEEecCCc
Confidence 46899999999999999888655444 6778877653
No 223
>PRK02302 hypothetical protein; Provisional
Probab=26.97 E-value=1.5e+02 Score=17.78 Aligned_cols=46 Identities=17% Similarity=0.182 Sum_probs=31.8
Q ss_pred HhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEee
Q 046599 21 EFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELSH 70 (131)
Q Consensus 21 ~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~~ 70 (131)
-+.+||.|..+.= ...|+ |-|-+.++++..++.|.... -..|+.+.
T Consensus 22 ~LrkfG~I~Y~Sk---k~kYv-vlYvn~~~~e~~~~kl~~l~fVk~Ve~S~ 68 (89)
T PRK02302 22 KLSKYGDIVYHSK---RSRYL-VLYVNKEDVEQKLEELSKLKFVKKVRPSA 68 (89)
T ss_pred HHhhcCcEEEEec---cccEE-EEEECHHHHHHHHHHHhcCCCeeEEcccC
Confidence 3578998887642 12344 45778999999999988876 44566554
No 224
>cd06257 DnaJ DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s, an important chaperonine family. Hsp40 proteins are characterized by the presence of a J domain, which mediates the interaction with Hsp70. They may contain other domains as well, and the architectures provide a means of classification.
Probab=26.82 E-value=65 Score=16.38 Aligned_cols=20 Identities=10% Similarity=0.385 Sum_probs=16.0
Q ss_pred EcCCCCCCcHHHHHHHhhcC
Q 046599 6 VGNLDSRVSERDLEDEFRVF 25 (131)
Q Consensus 6 V~~L~~~~t~~~l~~~f~~~ 25 (131)
|=+|+..++.++|+..|...
T Consensus 5 vLgl~~~~~~~~ik~~y~~l 24 (55)
T cd06257 5 ILGVPPDASDEEIKKAYRKL 24 (55)
T ss_pred HcCCCCCCCHHHHHHHHHHH
Confidence 34788999999999888754
No 225
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=25.91 E-value=1.2e+02 Score=17.28 Aligned_cols=57 Identities=11% Similarity=0.219 Sum_probs=31.1
Q ss_pred HHHHHHhhcCC-CeeEEEEcc-----CCCcEEEEEEcCHHHHHHHHHHhcCCcceEEEEeecCC
Q 046599 16 RDLEDEFRVFG-VIRSVWVAR-----RPPGYAFIDFDDYRDAQDAIRELDGKNGWRVELSHNSR 73 (131)
Q Consensus 16 ~~l~~~f~~~G-~i~~~~i~~-----~~~g~~fv~f~~~~~a~~ai~~l~g~~~~~v~~~~~~~ 73 (131)
++|++.|...| ++..+..+. .+...-+|+.....+.... -.+...-+.+|.+.....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~I-l~ik~Lg~~~V~VEr~~k 64 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKEI-LNIKTLGGQRVTVERPHK 64 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcce-EeehhhCCeeEEEecCcc
Confidence 46788888888 677776553 2344667777654332221 111111255677666543
No 226
>PRK02886 hypothetical protein; Provisional
Probab=25.44 E-value=1.6e+02 Score=17.58 Aligned_cols=46 Identities=28% Similarity=0.329 Sum_probs=31.0
Q ss_pred HhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCCc-ceEEEEee
Q 046599 21 EFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGKN-GWRVELSH 70 (131)
Q Consensus 21 ~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~~-~~~v~~~~ 70 (131)
-+.+||.|..+.= ...|+ |-|-+.++++..++.|.... -..|+.+.
T Consensus 20 ~LrkyG~I~Y~Sk---r~kYv-vlYvn~~~~e~~~~kl~~l~fVk~Ve~S~ 66 (87)
T PRK02886 20 QLRKFGNVHYVSK---RLKYA-VLYCDMEQVEDIMNKLSSLPFVKRVEPSY 66 (87)
T ss_pred HHhhcCcEEEEec---cccEE-EEEECHHHHHHHHHHHhcCCCeeEEcccC
Confidence 3578998887642 12344 45778999999999888776 34555443
No 227
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.32 E-value=80 Score=22.19 Aligned_cols=31 Identities=35% Similarity=0.553 Sum_probs=17.6
Q ss_pred HHHHHHhh-cCCCeeEEEEccCCCcEEEEEEcCHH
Q 046599 16 RDLEDEFR-VFGVIRSVWVARRPPGYAFIDFDDYR 49 (131)
Q Consensus 16 ~~l~~~f~-~~G~i~~~~i~~~~~g~~fv~f~~~~ 49 (131)
++|.+.|. .||.-..-. -.+.|+||+|.+.-
T Consensus 89 edL~~EF~~~~~~~~~~~---~~RPY~FieFD~~I 120 (216)
T KOG0862|consen 89 EDLAQEFDKSYGKNIIQP---ASRPYAFIEFDTFI 120 (216)
T ss_pred HHHHHHHHHhcccccCCc---cCCCeeEEehhHHH
Confidence 34555553 466322111 24789999998744
No 228
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=24.94 E-value=14 Score=24.37 Aligned_cols=19 Identities=32% Similarity=0.948 Sum_probs=16.4
Q ss_pred CCCCCCCCCCCCCCcCCCC
Q 046599 91 LKCYECGEPGHFARECRLR 109 (131)
Q Consensus 91 ~~~~~~g~~g~~~~~~~~~ 109 (131)
-+|-.|=..|||.++|-..
T Consensus 28 ~rCQKClq~GHWtYECk~k 46 (177)
T KOG3116|consen 28 ARCQKCLQAGHWTYECKNK 46 (177)
T ss_pred hhHHHHHhhccceeeecCc
Confidence 4788999999999999764
No 229
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=24.91 E-value=2.1e+02 Score=22.95 Aligned_cols=50 Identities=12% Similarity=0.095 Sum_probs=31.7
Q ss_pred CCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhcCC
Q 046599 12 RVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 12 ~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
-+.+++|.+-|.-+-.-..+.-.....+++=+.|.++++|++..+.++..
T Consensus 89 liWdqELY~nf~y~q~r~ffhtFegddc~aGLnF~~E~EA~~F~k~V~~r 138 (569)
T KOG3671|consen 89 LIWDQELYQNFEYRQPRTFFHTFEGDDCQAGLNFASEEEAQKFRKKVQDR 138 (569)
T ss_pred eeehHHhhhhceeccCccceeeeccccceeeecccCHHHHHHHHHHHHHH
Confidence 45567777777654432222221123678888999999999887766554
No 230
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=24.86 E-value=1.4e+02 Score=16.64 Aligned_cols=44 Identities=20% Similarity=0.232 Sum_probs=30.5
Q ss_pred eEEEcCCCCCCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcC
Q 046599 3 RVYVGNLDSRVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDD 47 (131)
Q Consensus 3 ~l~V~~L~~~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~ 47 (131)
+|.|.++.=.--...++..+.....+..+.+.-. .+-++|.|.+
T Consensus 5 ~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~-~~~~~V~~d~ 48 (71)
T COG2608 5 TLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLE-KGTATVTFDS 48 (71)
T ss_pred EEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcc-cCeEEEEEcC
Confidence 5566665544445678888888777888776433 5669999988
No 231
>COG1278 CspC Cold shock proteins [Transcription]
Probab=24.72 E-value=26 Score=19.83 Aligned_cols=38 Identities=29% Similarity=0.401 Sum_probs=21.0
Q ss_pred CCCcEEEEEEcCH-HHHHH---HHHHhcCCc----ceEEEEeecCCC
Q 046599 36 RPPGYAFIDFDDY-RDAQD---AIRELDGKN----GWRVELSHNSRG 74 (131)
Q Consensus 36 ~~~g~~fv~f~~~-~~a~~---ai~~l~g~~----~~~v~~~~~~~~ 74 (131)
..+||+||.-++. .++-. ||+ ..+.. +.+|++......
T Consensus 11 ~~KGfGFI~p~~G~~DvFVH~Sai~-~~g~~~L~eGQ~V~f~~~~g~ 56 (67)
T COG1278 11 ATKGFGFITPEDGGKDVFVHISAIQ-RAGFRTLREGQKVEFEVEQGR 56 (67)
T ss_pred CCCcceEcCCCCCCcCEEEEeeeec-cCCCcccCCCCEEEEEEecCC
Confidence 4578888877665 23322 332 22322 667877776543
No 232
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=24.41 E-value=1.1e+02 Score=18.45 Aligned_cols=24 Identities=17% Similarity=0.303 Sum_probs=19.7
Q ss_pred CcEEEEEEcCHHHHHHHHHHhcCC
Q 046599 38 PGYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 38 ~g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
+.+|.|+|.+.+.+..|.+.|-..
T Consensus 51 ~pm~vv~f~~~~~g~~~yq~Lrel 74 (91)
T PF12829_consen 51 RPMCVVNFPNYEVGVSAYQKLREL 74 (91)
T ss_pred eEeEEEECCChHHHHHHHHHHHHH
Confidence 468999999999999888876543
No 233
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=24.32 E-value=2e+02 Score=22.84 Aligned_cols=48 Identities=17% Similarity=0.356 Sum_probs=32.9
Q ss_pred EcCCCCCCc---HHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHH
Q 046599 6 VGNLDSRVS---ERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRE 57 (131)
Q Consensus 6 V~~L~~~~t---~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~ 57 (131)
||||+.-.. ...+..+=.+||+|-.+++- ..-.|...+.+.|+.|+..
T Consensus 37 IGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG----~~~~Vviss~~~akE~l~~ 87 (489)
T KOG0156|consen 37 IGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLG----SVPVVVISSYEAAKEVLVK 87 (489)
T ss_pred cccHHHcCCCchhHHHHHHHHHhCCeEEEEec----CceEEEECCHHHHHHHHHh
Confidence 566654333 34555555689999988873 2357788888888888874
No 234
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=24.14 E-value=1.7e+02 Score=17.85 Aligned_cols=15 Identities=13% Similarity=0.352 Sum_probs=10.3
Q ss_pred CCcHHHHHHHhhc-CC
Q 046599 12 RVSERDLEDEFRV-FG 26 (131)
Q Consensus 12 ~~t~~~l~~~f~~-~G 26 (131)
+.+..+|++.+++ |+
T Consensus 30 tpsr~eirekLa~~~~ 45 (99)
T PRK01178 30 TPSRKDVRKKLAAMLN 45 (99)
T ss_pred CCCHHHHHHHHHHHHC
Confidence 5667788777754 55
No 235
>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=24.00 E-value=86 Score=16.72 Aligned_cols=11 Identities=45% Similarity=0.942 Sum_probs=8.8
Q ss_pred CCcEEEEEEcC
Q 046599 37 PPGYAFIDFDD 47 (131)
Q Consensus 37 ~~g~~fv~f~~ 47 (131)
.+|||||...+
T Consensus 7 ~~GfGFv~~~~ 17 (58)
T PF08206_consen 7 PKGFGFVIPDD 17 (58)
T ss_dssp SSS-EEEEECT
T ss_pred cCCCEEEEECC
Confidence 58999999987
No 236
>cd01611 GABARAP Ubiquitin domain of GABA-receptor-associated protein. GABARAP (GABA-receptor-associated protein) belongs ot a large family of proteins that mediate intracellular membrane trafficking and/or fusion. GABARAP binds not only to GABA, type A but also to tubulin, gephrin, and ULK1. Orthologues of GABARAP include Gate-16 (golgi-associated ATPase enhancer), LC3 (microtubule-associated protein light chain 3), and ATG8 (autophagy protein 8). ATG8 is a ubiquitin-like protein that is conjugated to the membrane phospholipid, phosphatidylethanolamine as part of a ubiquitin-like conjugation system essential for autophagosome-formation.
Probab=23.24 E-value=1.9e+02 Score=17.96 Aligned_cols=13 Identities=8% Similarity=-0.046 Sum_probs=5.4
Q ss_pred CCCCcHHHHHHHh
Q 046599 10 DSRVSERDLEDEF 22 (131)
Q Consensus 10 ~~~~t~~~l~~~f 22 (131)
|.++|-.++..++
T Consensus 48 p~~~tv~~f~~~i 60 (112)
T cd01611 48 PSDLTVGQFVYII 60 (112)
T ss_pred cCCCCHHHHHHHH
Confidence 4444444443333
No 237
>PF00226 DnaJ: DnaJ domain; InterPro: IPR001623 The prokaryotic heat shock protein DnaJ interacts with the chaperone hsp70-like DnaK protein []. Structurally, the DnaJ protein consists of an N-terminal conserved domain (called 'J' domain) of about 70 amino acids, a glycine-rich region ('G' domain') of about 30 residues, a central domain containing four repeats of a CXXCXGXG motif ('CRR' domain) and a C-terminal region of 120 to 170 residues. Such a structure is shown in the following schematic representation: +------------+-+-------+-----+-----------+--------------------------------+ | N-terminal | | Gly-R | | CXXCXGXG | C-terminal | +------------+-+-------+-----+-----------+--------------------------------+ It is thought that the 'J' domain of DnaJ mediates the interaction with the dnaK protein and consists of four helices, the second of which has a charged surface that includes at least one pair of basic residues that are essential for interaction with the ATPase domain of Hsp70. The J- and CRR-domains are found in many prokaryotic and eukaryotic proteins [], either together or separately. In yeast, J-domains have been classified into 3 groups; the class III proteins are functionally distinct and do not appear to act as molecular chaperones []. ; GO: 0031072 heat shock protein binding; PDB: 2GUZ_C 2L6L_A 1HDJ_A 2EJ7_A 1FPO_C 2CUG_A 2QSA_A 2OCH_A 3BVO_B 3APQ_A ....
Probab=23.16 E-value=83 Score=16.72 Aligned_cols=19 Identities=16% Similarity=0.384 Sum_probs=15.7
Q ss_pred cCCCCCCcHHHHHHHhhcC
Q 046599 7 GNLDSRVSERDLEDEFRVF 25 (131)
Q Consensus 7 ~~L~~~~t~~~l~~~f~~~ 25 (131)
-+|+.+++.++|+..|...
T Consensus 6 Lgl~~~~~~~eik~~y~~l 24 (64)
T PF00226_consen 6 LGLPPDASDEEIKKAYRRL 24 (64)
T ss_dssp CTSTTTSSHHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHhh
Confidence 4789999999999888654
No 238
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=23.05 E-value=69 Score=20.04 Aligned_cols=21 Identities=24% Similarity=0.545 Sum_probs=16.3
Q ss_pred CCCcHHHHHHHhhcCCCeeEE
Q 046599 11 SRVSERDLEDEFRVFGVIRSV 31 (131)
Q Consensus 11 ~~~t~~~l~~~f~~~G~i~~~ 31 (131)
..+|.++|++.|..|-.-.++
T Consensus 43 ~~Tt~~eiedaF~~f~~RdDI 63 (121)
T KOG3432|consen 43 SKTTVEEIEDAFKSFTARDDI 63 (121)
T ss_pred ccCCHHHHHHHHHhhccccCe
Confidence 478999999999998753333
No 239
>PTZ00380 microtubule-associated protein (MAP); Provisional
Probab=22.87 E-value=1.7e+02 Score=18.62 Aligned_cols=12 Identities=8% Similarity=0.476 Sum_probs=6.8
Q ss_pred CcEEEEEEcCHH
Q 046599 38 PGYAFIDFDDYR 49 (131)
Q Consensus 38 ~g~~fv~f~~~~ 49 (131)
-||-+|.|.+.+
T Consensus 97 DGFLYi~Ys~e~ 108 (121)
T PTZ00380 97 DGFLYVSVRTEQ 108 (121)
T ss_pred CCeEEEEEcccc
Confidence 356666665543
No 240
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=22.72 E-value=85 Score=16.29 Aligned_cols=20 Identities=10% Similarity=0.272 Sum_probs=16.0
Q ss_pred EcCCCCCCcHHHHHHHhhcC
Q 046599 6 VGNLDSRVSERDLEDEFRVF 25 (131)
Q Consensus 6 V~~L~~~~t~~~l~~~f~~~ 25 (131)
|=+|+..++.++|+..|...
T Consensus 6 vLgl~~~~~~~~ik~ay~~l 25 (60)
T smart00271 6 ILGVPRDASLDEIKKAYRKL 25 (60)
T ss_pred HcCCCCCCCHHHHHHHHHHH
Confidence 34788899999999888754
No 241
>COG3444 Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIB [Carbohydrate transport and metabolism]
Probab=22.63 E-value=1.7e+02 Score=19.51 Aligned_cols=25 Identities=12% Similarity=0.078 Sum_probs=21.3
Q ss_pred CcEEEEEEcCHHHHHHHHHHhcCCc
Q 046599 38 PGYAFIDFDDYRDAQDAIRELDGKN 62 (131)
Q Consensus 38 ~g~~fv~f~~~~~a~~ai~~l~g~~ 62 (131)
....|+.|+++.++...++.-...+
T Consensus 76 ~~~v~ll~~~p~d~~~lve~gv~I~ 100 (159)
T COG3444 76 GQKVFLLFENPQDVLRLVEGGVPIK 100 (159)
T ss_pred CeEEEEEECCHHHHHHHHhcCCCCc
Confidence 4589999999999999999776655
No 242
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.42 E-value=86 Score=18.42 Aligned_cols=23 Identities=35% Similarity=0.465 Sum_probs=17.3
Q ss_pred EEEcCCCCCCcHHHHHHHhhcCC
Q 046599 4 VYVGNLDSRVSERDLEDEFRVFG 26 (131)
Q Consensus 4 l~V~~L~~~~t~~~l~~~f~~~G 26 (131)
-||--|....++++|+..|...|
T Consensus 51 y~V~Fl~~~~s~eev~~ele~mg 73 (88)
T COG4009 51 YYVVFLEEVESEEEVERELEDMG 73 (88)
T ss_pred EEEEEEeccCCHHHHHHHHHHhC
Confidence 34555677788889998888877
No 243
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=22.32 E-value=1.3e+02 Score=25.65 Aligned_cols=35 Identities=23% Similarity=0.204 Sum_probs=25.5
Q ss_pred CcEEEEEEcCHHHHHHHHHHhcCCc---ceEEEEeecC
Q 046599 38 PGYAFIDFDDYRDAQDAIRELDGKN---GWRVELSHNS 72 (131)
Q Consensus 38 ~g~~fv~f~~~~~a~~ai~~l~g~~---~~~v~~~~~~ 72 (131)
...+||+|++...|+.|-+..-... .++|+++.+.
T Consensus 357 ~~~~FItFkSq~~Aq~~aQ~~~~sr~~~~~~v~iapaP 394 (827)
T COG5594 357 TKSGFITFKSQASAQIAAQSQIYSRVLGKLKVEIAPAP 394 (827)
T ss_pred cccEEEEEehhHHHHHHHHhhhhhhhhcceeeeecCCc
Confidence 4589999999999999888653333 4457776653
No 244
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=22.23 E-value=1.1e+02 Score=17.52 Aligned_cols=12 Identities=25% Similarity=0.528 Sum_probs=8.6
Q ss_pred CCCcEEEEEEcC
Q 046599 36 RPPGYAFIDFDD 47 (131)
Q Consensus 36 ~~~g~~fv~f~~ 47 (131)
..+||+||.-.+
T Consensus 11 ~~KGfGFI~~~~ 22 (74)
T PRK09937 11 NAKGFGFICPEG 22 (74)
T ss_pred CCCCeEEEeeCC
Confidence 358999986654
No 245
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.20 E-value=58 Score=18.14 Aligned_cols=9 Identities=22% Similarity=0.471 Sum_probs=3.8
Q ss_pred HHHHhhcCC
Q 046599 18 LEDEFRVFG 26 (131)
Q Consensus 18 l~~~f~~~G 26 (131)
+-++|+.+|
T Consensus 16 vt~~la~~~ 24 (75)
T cd04870 16 LTEVLAAHG 24 (75)
T ss_pred HHHHHHHCC
Confidence 344444443
No 246
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=22.17 E-value=27 Score=21.04 Aligned_cols=18 Identities=11% Similarity=0.248 Sum_probs=15.4
Q ss_pred ceEEEcCCCCCCcHHHHH
Q 046599 2 SRVYVGNLDSRVSERDLE 19 (131)
Q Consensus 2 ~~l~V~~L~~~~t~~~l~ 19 (131)
+.|.|.+||..+.++.|+
T Consensus 24 ~~i~~~~Lp~~~d~~Sl~ 41 (104)
T PF13600_consen 24 NEIIFEGLPPSLDPDSLR 41 (104)
T ss_pred eEEEEeCCCcccCCCcEE
Confidence 578899999999988874
No 247
>PRK12450 foldase protein PrsA; Reviewed
Probab=22.06 E-value=2.6e+02 Score=20.53 Aligned_cols=39 Identities=15% Similarity=0.411 Sum_probs=29.6
Q ss_pred CCcHHHHHHHhhcCCCeeEEEEccCCCcEEEEEEcCHHHHHHHHHHhc
Q 046599 12 RVSERDLEDEFRVFGVIRSVWVARRPPGYAFIDFDDYRDAQDAIRELD 59 (131)
Q Consensus 12 ~~t~~~l~~~f~~~G~i~~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~ 59 (131)
.+|+++++.++..+-+ .+. ...|.+.+.+.|+.+++.+.
T Consensus 132 ~Vtd~evk~~y~~~~~--~~~-------~~~I~~~~~~~A~~i~~~l~ 170 (309)
T PRK12450 132 TISKKDYRQAYDAYTP--TMT-------AEIMQFEKEEDAKAALEAVK 170 (309)
T ss_pred CCCHHHHHHHHHHhCc--cce-------eEEEEeCCHHHHHHHHHHHH
Confidence 4799999999988743 221 13477789999999999986
No 248
>CHL00030 rpl23 ribosomal protein L23
Probab=21.97 E-value=1.6e+02 Score=17.76 Aligned_cols=16 Identities=13% Similarity=0.059 Sum_probs=8.5
Q ss_pred CHHHHHHHHHHhcCCc
Q 046599 47 DYRDAQDAIRELDGKN 62 (131)
Q Consensus 47 ~~~~a~~ai~~l~g~~ 62 (131)
+..+..+|++.+=+.+
T Consensus 31 nK~eIK~avE~lf~Vk 46 (93)
T CHL00030 31 TKTEIKHWIELFFGVK 46 (93)
T ss_pred CHHHHHHHHHHHhCCe
Confidence 4455555555554444
No 249
>PHA00147 upper collar protein
Probab=21.74 E-value=1.2e+02 Score=22.37 Aligned_cols=25 Identities=16% Similarity=0.154 Sum_probs=21.7
Q ss_pred cCCCCCCcHHHHHHHhhcCCCeeEE
Q 046599 7 GNLDSRVSERDLEDEFRVFGVIRSV 31 (131)
Q Consensus 7 ~~L~~~~t~~~l~~~f~~~G~i~~~ 31 (131)
-|||+.+++..|+..+.++|-+...
T Consensus 42 eglP~~idp~flEk~i~q~G~v~fy 66 (308)
T PHA00147 42 EGLPNTIDPSFLEKSIHQNGYVAFY 66 (308)
T ss_pred cCCCCCCCHHHHHHHHHHcCceEEE
Confidence 4899999999999999999876654
No 250
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=21.48 E-value=2.8e+02 Score=19.08 Aligned_cols=48 Identities=17% Similarity=0.117 Sum_probs=29.1
Q ss_pred CcHHHHHHHhhcCCCee-EEEEccCCCcEEEEEEcCHHHHHHHHHHhcC
Q 046599 13 VSERDLEDEFRVFGVIR-SVWVARRPPGYAFIDFDDYRDAQDAIRELDG 60 (131)
Q Consensus 13 ~t~~~l~~~f~~~G~i~-~~~i~~~~~g~~fv~f~~~~~a~~ai~~l~g 60 (131)
.+.++..+++..++... -|+-.+-..|-+.+...+.++|..++..+-.
T Consensus 24 ~~~~~A~~~l~~~~~p~~ViKadGla~GKGV~i~~~~~eA~~~l~~~~~ 72 (194)
T PF01071_consen 24 TDYEEALEYLEEQGYPYVVIKADGLAAGKGVVIADDREEALEALREIFV 72 (194)
T ss_dssp SSHHHHHHHHHHHSSSEEEEEESSSCTTTSEEEESSHHHHHHHHHHHHT
T ss_pred CCHHHHHHHHHhcCCCceEEccCCCCCCCEEEEeCCHHHHHHHHHHhcc
Confidence 34566667776665433 2332222334456667999999999987743
No 251
>PRK15464 cold shock-like protein CspH; Provisional
Probab=21.47 E-value=1e+02 Score=17.36 Aligned_cols=12 Identities=42% Similarity=0.504 Sum_probs=9.2
Q ss_pred CCCcEEEEEEcC
Q 046599 36 RPPGYAFIDFDD 47 (131)
Q Consensus 36 ~~~g~~fv~f~~ 47 (131)
..+||+||.-.+
T Consensus 14 ~~KGfGFI~~~~ 25 (70)
T PRK15464 14 RKSGKGFIIPSD 25 (70)
T ss_pred CCCCeEEEccCC
Confidence 458999997765
No 252
>COG0089 RplW Ribosomal protein L23 [Translation, ribosomal structure and biogenesis]
Probab=21.41 E-value=1.6e+02 Score=17.87 Aligned_cols=16 Identities=25% Similarity=0.310 Sum_probs=7.7
Q ss_pred CHHHHHHHHHHhcCCc
Q 046599 47 DYRDAQDAIRELDGKN 62 (131)
Q Consensus 47 ~~~~a~~ai~~l~g~~ 62 (131)
+..+..+|++.|=+.+
T Consensus 33 tK~~IK~AvE~lF~Vk 48 (94)
T COG0089 33 TKPEIKAAVEELFGVK 48 (94)
T ss_pred CHHHHHHHHHHHhCCe
Confidence 3444555555554444
No 253
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=21.23 E-value=1.5e+02 Score=18.26 Aligned_cols=23 Identities=9% Similarity=0.226 Sum_probs=18.6
Q ss_pred cEEEEEEcCHHHHHHHHHHhcCC
Q 046599 39 GYAFIDFDDYRDAQDAIRELDGK 61 (131)
Q Consensus 39 g~~fv~f~~~~~a~~ai~~l~g~ 61 (131)
-|.+++|.+.+...+|...+-..
T Consensus 67 vFsW~~Y~skq~rDA~~~kmMsD 89 (117)
T COG5507 67 VFSWIEYPSKQVRDAANAKMMSD 89 (117)
T ss_pred EEEEEEcCchhHHHHHHHHhhcC
Confidence 48899999999999988766443
No 254
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=21.22 E-value=2.3e+02 Score=18.02 Aligned_cols=39 Identities=21% Similarity=0.494 Sum_probs=21.5
Q ss_pred CCCcHHHHHHHhhc-CCCeeE-EEEc--------cCCCcEEEEEEcCHHH
Q 046599 11 SRVSERDLEDEFRV-FGVIRS-VWVA--------RRPPGYAFIDFDDYRD 50 (131)
Q Consensus 11 ~~~t~~~l~~~f~~-~G~i~~-~~i~--------~~~~g~~fv~f~~~~~ 50 (131)
.+++.+||++-+++ |-.-.+ |.+. +++.|||.| |.+.+.
T Consensus 33 a~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~ 81 (132)
T KOG3424|consen 33 ANVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEY 81 (132)
T ss_pred CCCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHH
Confidence 35778888887765 432222 2222 245677776 544444
No 255
>PF13037 DUF3898: Domain of unknown function (DUF3898)
Probab=20.93 E-value=1.1e+02 Score=18.23 Aligned_cols=47 Identities=17% Similarity=0.289 Sum_probs=31.7
Q ss_pred CcHHHHHHHhhcCCCeeE-EEEcc--------C----CCcEEEEEEcCHHHHHHHHHHhc
Q 046599 13 VSERDLEDEFRVFGVIRS-VWVAR--------R----PPGYAFIDFDDYRDAQDAIRELD 59 (131)
Q Consensus 13 ~t~~~l~~~f~~~G~i~~-~~i~~--------~----~~g~~fv~f~~~~~a~~ai~~l~ 59 (131)
...-+++.+++.||.-.. .++.. + -+|+.=|+|-.+++.+..++.+.
T Consensus 31 Ld~~~Vk~lLaDfG~~iHiAKv~~RYv~liEgd~~~FEKG~SPVEflkP~~l~~V~eri~ 90 (91)
T PF13037_consen 31 LDHTTVKGLLADFGETIHIAKVNDRYVLLIEGDSLQFEKGFSPVEFLKPEDLQEVIERIK 90 (91)
T ss_pred cCceehhHHHHhhccceeEEEECCEEEEEEEcceEEEccCCCceeeeCchhHHHHHHHhc
Confidence 344568888899985333 23321 1 37888899999999888887653
No 256
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=20.89 E-value=2.5e+02 Score=18.17 Aligned_cols=15 Identities=20% Similarity=0.570 Sum_probs=10.8
Q ss_pred CCcHHHHHHHhhc-CC
Q 046599 12 RVSERDLEDEFRV-FG 26 (131)
Q Consensus 12 ~~t~~~l~~~f~~-~G 26 (131)
+++-.+|++.+++ |+
T Consensus 35 TpSr~eirekLA~~~~ 50 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYK 50 (132)
T ss_pred CCCHHHHHHHHHHHhC
Confidence 5677888888765 55
No 257
>PF09341 Pcc1: Transcription factor Pcc1; InterPro: IPR015419 Pcc1 is a proposed transcription factor involved in the expression of genes regulated by alpha-factor and galactose; component of the EKC/KEOPS protein complex with Kae1, Gon7, Bud32, and Cgi121; related to human cancer-testis antigens [].; PDB: 2BNR_C 2P5W_C 3KLA_C 2F54_C 2P5E_C 2F53_C 3ENO_E 3ENC_B.
Probab=20.76 E-value=1.6e+02 Score=16.46 Aligned_cols=20 Identities=25% Similarity=0.217 Sum_probs=15.3
Q ss_pred EEEEEEcCHHHHHHHHHHhc
Q 046599 40 YAFIDFDDYRDAQDAIRELD 59 (131)
Q Consensus 40 ~~fv~f~~~~~a~~ai~~l~ 59 (131)
-.-|.|.+++.|+.+...|.
T Consensus 4 ~l~i~f~s~~~A~ii~~sL~ 23 (76)
T PF09341_consen 4 TLEIPFESEEKAEIIYRSLK 23 (76)
T ss_dssp EEEEE-SSHHHHHHHHHHHH
T ss_pred EEEEEeCCHHHHHHHHHHhC
Confidence 45789999999998887664
No 258
>KOG2673 consensus Uncharacterized conserved protein, contains PSP domain [Function unknown]
Probab=20.38 E-value=57 Score=25.61 Aligned_cols=21 Identities=29% Similarity=0.643 Sum_probs=17.5
Q ss_pred CCCCCCCCCCCCCCcCCCCCC
Q 046599 91 LKCYECGEPGHFARECRLRGG 111 (131)
Q Consensus 91 ~~~~~~g~~g~~~~~~~~~~~ 111 (131)
..||.||...|-=++|++...
T Consensus 129 ~~CFNC~g~~hsLrdC~rp~d 149 (485)
T KOG2673|consen 129 DPCFNCGGTPHSLRDCPRPFD 149 (485)
T ss_pred ccccccCCCCCccccCCCccc
Confidence 349999999998899998643
No 259
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=20.25 E-value=74 Score=20.19 Aligned_cols=31 Identities=23% Similarity=-0.054 Sum_probs=24.2
Q ss_pred EEEcCCCCC-CcHHHHHHHhhcCCCeeEEEEc
Q 046599 4 VYVGNLDSR-VSERDLEDEFRVFGVIRSVWVA 34 (131)
Q Consensus 4 l~V~~L~~~-~t~~~l~~~f~~~G~i~~~~i~ 34 (131)
|.|-|||.. .+++-|..+-+.+|.+..+...
T Consensus 107 Vri~glP~~~~~~~~~~~i~~~iG~~i~vD~~ 138 (153)
T PF14111_consen 107 VRIYGLPLHLWSEEILKAIGSKIGEPIEVDEN 138 (153)
T ss_pred hhhccCCHHHhhhHHHHHHHHhcCCeEEEEcC
Confidence 345689877 5667788888999999988875
No 260
>KOG2044 consensus 5'-3' exonuclease HKE1/RAT1 [Replication, recombination and repair; RNA processing and modification]
Probab=20.17 E-value=54 Score=27.71 Aligned_cols=21 Identities=33% Similarity=0.956 Sum_probs=18.0
Q ss_pred CCCCCCCCCCCCCCCCcCCCC
Q 046599 89 SDLKCYECGEPGHFARECRLR 109 (131)
Q Consensus 89 ~~~~~~~~g~~g~~~~~~~~~ 109 (131)
....|+.||..||...+|..-
T Consensus 259 ~~~~C~~cgq~gh~~~dc~g~ 279 (931)
T KOG2044|consen 259 KPRRCFLCGQTGHEAKDCEGK 279 (931)
T ss_pred CcccchhhcccCCcHhhcCCc
Confidence 456699999999999999864
Done!