Query 040243
Match_columns 797
No_of_seqs 695 out of 3229
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 06:30:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040243.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040243hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0119 Splicing factor 1/bran 100.0 1.3E-82 2.7E-87 689.8 45.5 308 102-434 10-327 (554)
2 COG5176 MSL5 Splicing factor ( 100.0 5.1E-50 1.1E-54 394.5 12.2 217 148-370 47-269 (269)
3 cd02395 SF1_like-KH Splicing f 100.0 5.1E-35 1.1E-39 275.0 12.6 117 252-368 1-120 (120)
4 KOG1588 RNA-binding protein Sa 100.0 6E-35 1.3E-39 301.0 14.2 152 217-370 52-215 (259)
5 KOG0122 Translation initiation 99.9 6.3E-25 1.4E-29 223.0 13.7 152 395-571 118-269 (270)
6 PLN03134 glycine-rich RNA-bind 99.7 6.9E-16 1.5E-20 150.4 15.2 85 489-573 32-116 (144)
7 TIGR01628 PABP-1234 polyadenyl 99.7 7.5E-16 1.6E-20 180.4 17.2 83 489-572 283-365 (562)
8 TIGR01659 sex-lethal sex-letha 99.6 1.1E-14 2.4E-19 160.8 14.8 85 487-571 103-187 (346)
9 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.6 8.4E-15 1.8E-19 161.1 11.5 84 489-572 267-350 (352)
10 KOG0149 Predicted RNA-binding 99.6 2.1E-14 4.5E-19 146.4 11.7 86 487-573 8-93 (247)
11 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 2.9E-14 6.3E-19 156.8 11.2 83 490-572 2-84 (352)
12 KOG0132 RNA polymerase II C-te 99.5 2E-12 4.4E-17 148.8 25.5 76 490-571 420-495 (894)
13 PF00076 RRM_1: RNA recognitio 99.5 1.2E-13 2.7E-18 115.6 9.4 70 494-564 1-70 (70)
14 TIGR01659 sex-lethal sex-letha 99.5 4E-13 8.8E-18 148.5 14.9 84 490-573 192-277 (346)
15 KOG0148 Apoptosis-promoting RN 99.4 6.8E-13 1.5E-17 137.3 11.8 141 420-575 102-242 (321)
16 KOG0121 Nuclear cap-binding pr 99.4 1.8E-13 3.9E-18 127.8 6.8 81 489-569 34-114 (153)
17 TIGR01645 half-pint poly-U bin 99.4 5.8E-13 1.3E-17 155.2 12.2 84 490-573 203-286 (612)
18 KOG4207 Predicted splicing fac 99.4 2E-13 4.4E-18 136.5 7.2 87 487-573 9-95 (256)
19 KOG4849 mRNA cleavage factor I 99.4 6.7E-11 1.5E-15 125.8 24.7 77 490-566 79-157 (498)
20 PF14259 RRM_6: RNA recognitio 99.4 1.6E-12 3.5E-17 110.0 9.5 70 494-564 1-70 (70)
21 TIGR01645 half-pint poly-U bin 99.4 1.1E-12 2.3E-17 153.0 10.5 79 491-569 107-185 (612)
22 KOG0148 Apoptosis-promoting RN 99.4 1E-12 2.3E-17 136.0 8.3 83 490-572 61-143 (321)
23 KOG0125 Ataxin 2-binding prote 99.4 3.3E-12 7E-17 135.4 11.0 81 489-571 94-174 (376)
24 KOG0126 Predicted RNA-binding 99.3 1.5E-13 3.2E-18 135.1 0.7 81 489-569 33-113 (219)
25 KOG0113 U1 small nuclear ribon 99.3 3E-12 6.4E-17 134.3 10.1 84 489-572 99-182 (335)
26 KOG0107 Alternative splicing f 99.3 1.9E-12 4.2E-17 126.8 8.1 80 489-573 8-87 (195)
27 PLN03120 nucleic acid binding 99.3 4E-12 8.6E-17 133.6 10.4 77 491-571 4-80 (260)
28 PLN03213 repressor of silencin 99.3 2.9E-12 6.3E-17 140.9 9.4 77 490-570 9-87 (759)
29 TIGR01628 PABP-1234 polyadenyl 99.3 3.8E-12 8.2E-17 149.4 10.6 78 493-570 2-79 (562)
30 KOG0145 RNA-binding protein EL 99.3 3.5E-12 7.7E-17 131.2 8.7 85 488-572 38-122 (360)
31 TIGR01642 U2AF_lg U2 snRNP aux 99.3 7.9E-12 1.7E-16 144.5 11.8 83 490-572 294-376 (509)
32 KOG0111 Cyclophilin-type pepti 99.3 1.3E-12 2.8E-17 131.6 4.3 84 489-572 8-91 (298)
33 TIGR01622 SF-CC1 splicing fact 99.3 8.4E-12 1.8E-16 142.5 10.8 80 491-570 186-265 (457)
34 COG0724 RNA-binding proteins ( 99.3 1E-11 2.2E-16 127.4 10.0 80 491-570 115-194 (306)
35 KOG0130 RNA-binding protein RB 99.3 4.6E-12 9.9E-17 119.3 6.5 89 485-573 66-154 (170)
36 smart00362 RRM_2 RNA recogniti 99.3 1.4E-11 3.1E-16 101.6 8.8 72 493-566 1-72 (72)
37 TIGR01648 hnRNP-R-Q heterogene 99.3 8.1E-12 1.8E-16 145.4 9.4 78 490-568 57-135 (578)
38 smart00360 RRM RNA recognition 99.3 2E-11 4.3E-16 100.2 8.3 71 496-566 1-71 (71)
39 TIGR01622 SF-CC1 splicing fact 99.2 1.9E-11 4.1E-16 139.5 10.7 83 488-571 86-168 (457)
40 KOG0131 Splicing factor 3b, su 99.2 8.4E-12 1.8E-16 123.1 5.9 82 488-569 6-87 (203)
41 PLN03121 nucleic acid binding 99.2 3.1E-11 6.7E-16 125.2 10.3 77 490-570 4-80 (243)
42 KOG0117 Heterogeneous nuclear 99.2 1.7E-11 3.6E-16 134.3 8.7 80 489-568 81-161 (506)
43 KOG0108 mRNA cleavage and poly 99.2 2.5E-11 5.4E-16 136.7 8.2 81 492-572 19-99 (435)
44 KOG0145 RNA-binding protein EL 99.2 6.5E-11 1.4E-15 122.0 10.2 82 490-571 277-358 (360)
45 KOG0146 RNA-binding protein ET 99.2 1.8E-11 3.9E-16 126.5 6.2 87 487-573 281-367 (371)
46 cd00590 RRM RRM (RNA recogniti 99.2 1.5E-10 3.3E-15 95.9 9.5 74 493-567 1-74 (74)
47 KOG0144 RNA-binding protein CU 99.2 2.3E-11 5E-16 132.7 5.5 83 490-573 123-208 (510)
48 KOG0117 Heterogeneous nuclear 99.2 6.3E-10 1.4E-14 122.2 16.1 78 491-576 259-336 (506)
49 KOG0144 RNA-binding protein CU 99.1 7.7E-11 1.7E-15 128.7 8.5 86 487-572 30-118 (510)
50 KOG0123 Polyadenylate-binding 99.1 4.4E-11 9.5E-16 133.3 5.4 122 421-575 36-157 (369)
51 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.1 1.9E-10 4.2E-15 132.8 10.9 79 489-572 273-352 (481)
52 TIGR01648 hnRNP-R-Q heterogene 99.1 2.3E-10 4.9E-15 133.5 10.4 76 490-573 232-309 (578)
53 smart00361 RRM_1 RNA recogniti 99.1 3E-10 6.5E-15 97.2 7.7 62 505-566 2-70 (70)
54 KOG0109 RNA-binding protein LA 99.1 1.6E-10 3.5E-15 121.0 6.9 76 492-575 3-78 (346)
55 KOG0127 Nucleolar protein fibr 99.1 3.3E-10 7.1E-15 126.7 8.8 81 491-572 117-197 (678)
56 KOG0105 Alternative splicing f 99.0 3.1E-10 6.8E-15 112.1 6.9 80 490-572 5-84 (241)
57 KOG0114 Predicted RNA-binding 99.0 6.8E-10 1.5E-14 100.6 8.4 78 489-569 16-93 (124)
58 KOG0124 Polypyrimidine tract-b 99.0 1.7E-10 3.7E-15 123.4 4.8 77 492-568 114-190 (544)
59 PF13893 RRM_5: RNA recognitio 99.0 8.1E-10 1.7E-14 90.0 7.4 56 508-568 1-56 (56)
60 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.0 7.4E-10 1.6E-14 128.0 10.0 75 491-571 2-78 (481)
61 KOG0131 Splicing factor 3b, su 99.0 4.1E-10 8.9E-15 111.3 5.8 86 490-575 95-181 (203)
62 KOG0147 Transcriptional coacti 99.0 3.5E-10 7.7E-15 127.1 6.1 78 494-571 281-358 (549)
63 KOG0127 Nucleolar protein fibr 99.0 5.4E-10 1.2E-14 125.0 7.3 86 490-575 4-89 (678)
64 cd02393 PNPase_KH Polynucleoti 99.0 1.8E-09 3.8E-14 90.4 7.7 59 252-339 3-61 (61)
65 TIGR02696 pppGpp_PNP guanosine 98.9 2.7E-09 5.9E-14 126.2 11.0 97 217-344 546-642 (719)
66 KOG4208 Nucleolar RNA-binding 98.9 4.3E-09 9.3E-14 106.2 7.3 82 489-570 47-129 (214)
67 KOG4206 Spliceosomal protein s 98.9 5.1E-09 1.1E-13 107.1 7.9 80 491-573 9-92 (221)
68 KOG4212 RNA-binding protein hn 98.8 9.4E-09 2E-13 112.5 10.1 77 491-568 44-121 (608)
69 KOG4212 RNA-binding protein hn 98.8 8.1E-09 1.7E-13 113.0 9.5 77 487-568 532-608 (608)
70 KOG0109 RNA-binding protein LA 98.8 4.6E-09 9.9E-14 110.3 6.0 80 489-576 76-155 (346)
71 TIGR03591 polynuc_phos polyrib 98.8 9.1E-09 2E-13 123.3 9.4 96 217-343 518-614 (684)
72 KOG0153 Predicted RNA-binding 98.8 1.4E-08 2.9E-13 109.1 9.1 82 483-570 220-302 (377)
73 PLN00207 polyribonucleotide nu 98.8 6.1E-09 1.3E-13 125.6 7.0 99 217-346 652-752 (891)
74 KOG4661 Hsp27-ERE-TATA-binding 98.8 2.2E-08 4.8E-13 112.2 10.8 83 488-570 402-484 (940)
75 KOG0415 Predicted peptidyl pro 98.8 8E-09 1.7E-13 110.6 6.7 83 490-572 238-320 (479)
76 KOG4205 RNA-binding protein mu 98.8 4.7E-09 1E-13 114.0 5.1 82 490-572 5-86 (311)
77 TIGR01642 U2AF_lg U2 snRNP aux 98.7 2.6E-08 5.7E-13 115.3 9.2 76 487-569 171-258 (509)
78 KOG0124 Polypyrimidine tract-b 98.7 2.8E-08 6.1E-13 106.7 8.3 84 490-573 209-292 (544)
79 KOG0146 RNA-binding protein ET 98.7 1.7E-08 3.6E-13 104.8 5.6 83 490-573 18-103 (371)
80 PF00013 KH_1: KH domain syndr 98.7 2.9E-08 6.3E-13 82.2 5.0 60 252-338 1-60 (60)
81 cd00105 KH-I K homology RNA-bi 98.6 1.2E-07 2.6E-12 78.9 7.4 63 253-339 2-64 (64)
82 COG1185 Pnp Polyribonucleotide 98.6 8.8E-08 1.9E-12 111.4 7.8 100 218-348 520-620 (692)
83 KOG0533 RRM motif-containing p 98.6 1.9E-07 4.1E-12 98.2 8.7 86 488-574 80-165 (243)
84 KOG0110 RNA-binding protein (R 98.5 1.5E-07 3.2E-12 108.9 7.9 79 491-569 515-596 (725)
85 KOG0123 Polyadenylate-binding 98.5 1.7E-07 3.6E-12 104.9 8.1 75 492-572 2-76 (369)
86 KOG0110 RNA-binding protein (R 98.5 6.7E-08 1.5E-12 111.6 4.6 83 490-572 612-694 (725)
87 KOG4205 RNA-binding protein mu 98.5 1.3E-07 2.7E-12 103.0 6.0 85 490-575 96-180 (311)
88 PRK11824 polynucleotide phosph 98.5 1.7E-07 3.6E-12 112.8 6.9 97 217-344 521-618 (693)
89 KOG0226 RNA-binding proteins [ 98.5 1.3E-07 2.7E-12 98.1 4.2 84 488-571 187-270 (290)
90 cd02394 vigilin_like_KH K homo 98.4 2.3E-07 5.1E-12 77.3 5.0 60 253-338 2-61 (62)
91 smart00322 KH K homology RNA-b 98.4 1.1E-06 2.4E-11 72.6 8.6 66 251-342 3-68 (69)
92 KOG1457 RNA binding protein (c 98.4 1.4E-06 3.1E-11 88.9 10.4 87 490-576 33-123 (284)
93 COG5082 AIR1 Arginine methyltr 98.4 7.2E-08 1.6E-12 96.8 0.7 87 317-416 16-118 (190)
94 KOG4209 Splicing factor RNPS1, 98.4 3.7E-07 8E-12 95.9 5.9 84 487-571 97-180 (231)
95 KOG1960 Predicted RNA-binding 98.4 3.5E-07 7.5E-12 99.6 5.8 93 250-350 209-301 (531)
96 KOG1548 Transcription elongati 98.4 8.5E-07 1.8E-11 95.5 8.3 81 489-570 132-220 (382)
97 cd02396 PCBP_like_KH K homolog 98.4 1.3E-06 2.8E-11 73.8 7.4 63 253-338 2-64 (65)
98 KOG0151 Predicted splicing reg 98.3 3.3E-06 7.1E-11 97.6 10.4 85 488-572 171-258 (877)
99 KOG4454 RNA binding protein (R 98.3 3.2E-07 6.9E-12 93.4 1.6 79 490-570 8-86 (267)
100 KOG0116 RasGAP SH3 binding pro 98.2 1.8E-06 4E-11 97.4 6.9 83 489-572 286-368 (419)
101 KOG0106 Alternative splicing f 98.2 8.8E-07 1.9E-11 91.5 3.8 73 492-572 2-74 (216)
102 PRK13763 putative RNA-processi 98.2 2.2E-06 4.8E-11 86.9 6.4 66 251-345 3-72 (180)
103 KOG1995 Conserved Zn-finger pr 98.1 4.6E-06 1E-10 90.6 7.9 87 487-573 62-156 (351)
104 TIGR03665 arCOG04150 arCOG0415 98.1 2.5E-06 5.4E-11 86.0 4.8 62 255-345 2-66 (172)
105 PF04059 RRM_2: RNA recognitio 98.1 1.3E-05 2.9E-10 73.2 8.8 81 491-571 1-87 (97)
106 KOG4660 Protein Mei2, essentia 98.1 2E-06 4.4E-11 97.6 3.8 73 487-564 71-143 (549)
107 PF13014 KH_3: KH domain 97.9 8.4E-06 1.8E-10 63.3 3.2 28 267-294 1-28 (43)
108 KOG0120 Splicing factor U2AF, 97.9 1.1E-05 2.3E-10 92.4 5.3 88 488-575 286-373 (500)
109 KOG1676 K-homology type RNA bi 97.9 1.8E-05 4E-10 90.8 7.0 73 252-347 231-303 (600)
110 KOG1924 RhoA GTPase effector D 97.9 9.2E-05 2E-09 86.8 11.6 8 334-341 254-261 (1102)
111 KOG0147 Transcriptional coacti 97.8 5.1E-06 1.1E-10 94.2 1.3 82 487-569 175-256 (549)
112 TIGR03665 arCOG04150 arCOG0415 97.8 2.2E-05 4.8E-10 79.1 5.7 53 267-344 99-151 (172)
113 KOG1676 K-homology type RNA bi 97.8 5.8E-05 1.3E-09 86.8 9.7 75 248-344 136-210 (600)
114 PRK13763 putative RNA-processi 97.8 7E-05 1.5E-09 76.1 8.9 53 267-344 105-157 (180)
115 KOG1190 Polypyrimidine tract-b 97.8 5.5E-05 1.2E-09 83.3 8.4 79 491-574 297-376 (492)
116 KOG1067 Predicted RNA-binding 97.7 5.9E-05 1.3E-09 85.8 7.1 95 218-344 565-660 (760)
117 KOG4211 Splicing factor hnRNP- 97.7 0.0001 2.2E-09 83.1 7.9 75 490-568 9-83 (510)
118 KOG0105 Alternative splicing f 97.5 0.00055 1.2E-08 68.6 9.8 66 487-559 111-176 (241)
119 COG1094 Predicted RNA-binding 97.5 0.00037 8.1E-09 70.8 8.1 55 267-346 112-166 (194)
120 PHA03247 large tegument protei 97.4 0.024 5.3E-07 74.5 25.4 41 349-389 2371-2417(3151)
121 PF11608 Limkain-b1: Limkain b 97.4 0.00051 1.1E-08 60.9 7.1 70 492-571 3-77 (90)
122 KOG0106 Alternative splicing f 97.3 0.00018 4E-09 74.6 4.4 74 488-569 96-169 (216)
123 PRK04163 exosome complex RNA-b 97.3 0.00029 6.3E-09 74.5 5.9 63 254-345 148-210 (235)
124 KOG4210 Nuclear localization s 97.3 0.00014 3.1E-09 78.9 3.2 81 491-572 184-265 (285)
125 PHA03247 large tegument protei 97.3 0.052 1.1E-06 71.7 25.2 8 381-388 2314-2321(3151)
126 COG5175 MOT2 Transcriptional r 97.2 0.00063 1.4E-08 73.4 7.2 85 488-572 111-204 (480)
127 KOG4211 Splicing factor hnRNP- 97.2 0.00074 1.6E-08 76.3 7.2 76 491-568 103-179 (510)
128 KOG1457 RNA binding protein (c 97.2 0.00032 7E-09 72.1 3.8 66 490-559 209-274 (284)
129 KOG4206 Spliceosomal protein s 97.1 0.0014 2.9E-08 67.9 7.7 77 489-570 144-221 (221)
130 KOG1456 Heterogeneous nuclear 97.1 0.0046 1E-07 67.8 12.0 79 489-572 285-364 (494)
131 KOG2191 RNA-binding protein NO 97.0 0.0037 8E-08 67.7 10.5 104 220-344 96-204 (402)
132 KOG4307 RNA binding protein RB 97.0 0.0044 9.6E-08 72.4 11.6 76 492-567 868-943 (944)
133 PF08777 RRM_3: RNA binding mo 97.0 0.0016 3.4E-08 60.6 6.2 70 492-567 2-76 (105)
134 KOG1456 Heterogeneous nuclear 96.9 0.056 1.2E-06 59.6 18.0 38 535-572 161-200 (494)
135 KOG2191 RNA-binding protein NO 96.8 0.0028 6E-08 68.6 7.5 37 251-293 39-75 (402)
136 PF12353 eIF3g: Eukaryotic tra 96.7 0.00058 1.3E-08 65.7 1.4 24 394-418 104-127 (128)
137 KOG1365 RNA-binding protein Fu 96.7 0.013 2.9E-07 64.5 11.4 78 490-568 279-359 (508)
138 KOG2190 PolyC-binding proteins 96.7 0.0078 1.7E-07 69.9 10.0 103 219-344 105-208 (485)
139 PTZ00368 universal minicircle 96.7 0.0012 2.5E-08 64.9 2.9 43 372-414 105-147 (148)
140 KOG2314 Translation initiation 96.6 0.0032 7E-08 72.1 5.9 76 491-567 58-140 (698)
141 KOG2193 IGF-II mRNA-binding pr 96.5 0.0021 4.5E-08 71.3 3.9 74 257-345 280-353 (584)
142 KOG3152 TBP-binding protein, a 96.5 0.002 4.4E-08 67.6 3.2 72 491-562 74-157 (278)
143 KOG2193 IGF-II mRNA-binding pr 96.4 0.0026 5.6E-08 70.6 4.1 71 251-344 199-269 (584)
144 KOG1548 Transcription elongati 96.4 0.011 2.4E-07 64.5 8.7 79 488-570 262-351 (382)
145 PRK00106 hypothetical protein; 96.4 0.022 4.8E-07 66.9 11.7 98 215-344 194-291 (535)
146 KOG3671 Actin regulatory prote 96.4 0.13 2.9E-06 58.7 16.9 14 503-516 264-277 (569)
147 PRK12704 phosphodiesterase; Pr 96.3 0.024 5.1E-07 66.8 11.6 97 215-343 179-275 (520)
148 KOG1365 RNA-binding protein Fu 96.3 0.012 2.6E-07 64.8 8.1 74 490-565 160-237 (508)
149 KOG2814 Transcription coactiva 96.3 0.0043 9.3E-08 67.5 4.6 61 266-345 66-126 (345)
150 TIGR03319 YmdA_YtgF conserved 96.2 0.03 6.5E-07 65.8 11.4 96 217-344 175-270 (514)
151 PF14605 Nup35_RRM_2: Nup53/35 96.2 0.01 2.2E-07 48.4 5.3 52 492-550 2-53 (53)
152 PF05172 Nup35_RRM: Nup53/35/4 96.1 0.025 5.3E-07 52.3 7.7 78 489-568 4-89 (100)
153 KOG1855 Predicted RNA-binding 96.0 0.008 1.7E-07 67.1 4.8 81 487-567 227-320 (484)
154 KOG0129 Predicted RNA-binding 95.7 0.023 5.1E-07 64.9 7.3 64 489-552 368-432 (520)
155 PF00098 zf-CCHC: Zinc knuckle 95.7 0.005 1.1E-07 39.3 1.1 17 397-413 1-17 (18)
156 PTZ00368 universal minicircle 95.6 0.0077 1.7E-07 59.1 2.7 43 372-414 79-121 (148)
157 KOG0120 Splicing factor U2AF, 95.5 0.029 6.3E-07 64.9 7.2 64 506-569 424-490 (500)
158 KOG0128 RNA-binding protein SA 95.2 0.015 3.2E-07 69.8 3.7 80 490-570 735-814 (881)
159 KOG1190 Polypyrimidine tract-b 95.2 0.038 8.2E-07 61.6 6.4 77 490-570 413-490 (492)
160 PF13696 zf-CCHC_2: Zinc knuck 95.1 0.011 2.3E-07 43.3 1.4 21 395-415 7-27 (32)
161 KOG3671 Actin regulatory prote 95.1 0.82 1.8E-05 52.6 16.6 58 217-276 28-86 (569)
162 PF08952 DUF1866: Domain of un 95.0 0.073 1.6E-06 52.2 7.3 74 491-573 27-109 (146)
163 KOG0129 Predicted RNA-binding 95.0 0.035 7.7E-07 63.5 5.7 64 489-553 257-326 (520)
164 KOG2202 U2 snRNP splicing fact 94.9 0.011 2.4E-07 62.4 1.5 62 507-569 84-146 (260)
165 KOG2874 rRNA processing protei 94.7 0.062 1.3E-06 57.3 6.3 85 269-379 161-245 (356)
166 KOG0132 RNA polymerase II C-te 94.7 3.9 8.4E-05 49.5 21.5 35 532-568 508-542 (894)
167 KOG0128 RNA-binding protein SA 94.5 0.0029 6.2E-08 75.6 -4.4 70 490-559 666-735 (881)
168 PRK12705 hypothetical protein; 94.5 0.13 2.8E-06 60.2 9.0 101 211-343 163-263 (508)
169 KOG0307 Vesicle coat complex C 94.3 2.3 5E-05 53.1 19.1 39 394-432 605-643 (1049)
170 KOG0112 Large RNA-binding prot 94.3 0.056 1.2E-06 65.3 5.4 77 490-572 454-532 (975)
171 KOG2416 Acinus (induces apopto 94.2 0.041 9E-07 63.7 4.0 78 487-570 440-521 (718)
172 KOG1996 mRNA splicing factor [ 94.0 0.12 2.6E-06 55.6 6.7 64 506-569 301-365 (378)
173 KOG2068 MOT2 transcription fac 94.0 0.024 5.2E-07 62.0 1.5 84 489-572 75-164 (327)
174 KOG1960 Predicted RNA-binding 93.9 0.058 1.3E-06 59.9 4.1 63 274-344 111-173 (531)
175 KOG4307 RNA binding protein RB 93.5 0.13 2.9E-06 60.6 6.4 77 489-566 432-509 (944)
176 PF10309 DUF2414: Protein of u 93.4 0.32 6.9E-06 41.2 6.8 55 491-553 5-62 (62)
177 KOG0115 RNA-binding protein p5 93.3 0.085 1.8E-06 55.8 4.0 67 492-559 32-98 (275)
178 KOG4676 Splicing factor, argin 93.1 0.12 2.6E-06 57.5 5.0 76 493-569 9-87 (479)
179 COG5082 AIR1 Arginine methyltr 92.4 0.078 1.7E-06 54.0 2.3 42 371-416 98-140 (190)
180 KOG4400 E3 ubiquitin ligase in 92.3 0.08 1.7E-06 56.9 2.3 38 373-415 146-183 (261)
181 PF03880 DbpA: DbpA RNA bindin 92.1 0.45 9.7E-06 41.3 6.3 67 493-568 2-74 (74)
182 cd02134 NusA_KH NusA_K homolog 91.7 0.28 6.1E-06 41.1 4.4 36 251-292 25-60 (61)
183 COG1094 Predicted RNA-binding 91.6 0.54 1.2E-05 48.3 7.2 69 251-347 8-80 (194)
184 KOG0112 Large RNA-binding prot 91.2 0.068 1.5E-06 64.7 0.3 81 488-569 369-449 (975)
185 PF08675 RNA_bind: RNA binding 90.9 0.92 2E-05 40.7 7.0 55 491-554 9-63 (87)
186 COG1097 RRP4 RNA-binding prote 90.6 0.92 2E-05 48.0 8.0 86 245-359 140-226 (239)
187 PF08920 SF3b1: Splicing facto 90.5 0.087 1.9E-06 51.8 0.3 37 105-143 3-39 (144)
188 PF13917 zf-CCHC_3: Zinc knuck 90.0 0.14 3.1E-06 39.9 1.1 20 395-414 3-22 (42)
189 KOG0336 ATP-dependent RNA heli 89.8 0.39 8.4E-06 54.1 4.7 28 266-293 56-83 (629)
190 PF03467 Smg4_UPF3: Smg-4/UPF3 89.8 0.63 1.4E-05 47.3 5.9 82 489-570 5-97 (176)
191 KOG4849 mRNA cleavage factor I 89.5 12 0.00025 41.7 15.3 11 784-794 357-367 (498)
192 PF15288 zf-CCHC_6: Zinc knuck 89.4 0.23 4.9E-06 38.3 1.8 24 396-419 1-26 (40)
193 KOG2253 U1 snRNP complex, subu 89.2 0.18 3.9E-06 59.4 1.6 71 489-568 38-108 (668)
194 KOG2135 Proteins containing th 88.9 0.35 7.6E-06 55.1 3.6 78 488-572 369-447 (526)
195 PF04847 Calcipressin: Calcipr 88.0 0.92 2E-05 46.5 5.6 60 504-569 8-69 (184)
196 KOG2893 Zn finger protein [Gen 88.0 14 0.0003 39.2 14.0 9 395-403 33-41 (341)
197 PF15023 DUF4523: Protein of u 87.8 2 4.2E-05 42.3 7.3 74 487-568 82-159 (166)
198 KOG4210 Nuclear localization s 87.7 0.26 5.7E-06 53.8 1.6 82 489-570 86-167 (285)
199 KOG0119 Splicing factor 1/bran 87.4 28 0.00061 40.6 17.2 20 396-415 261-280 (554)
200 PF00098 zf-CCHC: Zinc knuckle 87.0 0.39 8.4E-06 30.7 1.4 17 372-388 2-18 (18)
201 KOG4400 E3 ubiquitin ligase in 86.9 0.41 8.9E-06 51.4 2.5 44 370-415 118-162 (261)
202 KOG2192 PolyC-binding hnRNP-K 86.4 1.9 4.2E-05 46.0 6.9 69 250-342 314-382 (390)
203 PF07576 BRAP2: BRCA1-associat 85.9 5.5 0.00012 37.6 9.1 68 491-560 13-81 (110)
204 KOG4660 Protein Mei2, essentia 85.5 1 2.2E-05 52.4 4.8 57 515-571 413-473 (549)
205 KOG2192 PolyC-binding hnRNP-K 84.8 2.4 5.3E-05 45.2 6.8 39 250-294 47-85 (390)
206 KOG1984 Vesicle coat complex C 84.7 1.2E+02 0.0026 38.1 22.2 7 784-790 255-261 (1007)
207 PF13184 KH_5: NusA-like KH do 84.3 0.67 1.5E-05 40.0 2.1 39 254-293 6-45 (69)
208 KOG2591 c-Mpl binding protein, 83.7 1.8 4E-05 50.4 5.7 73 488-567 172-248 (684)
209 KOG4285 Mitotic phosphoprotein 83.6 1.9 4.1E-05 46.9 5.5 65 491-563 197-261 (350)
210 PF13917 zf-CCHC_3: Zinc knuck 83.4 0.5 1.1E-05 36.9 0.9 18 371-388 5-22 (42)
211 KOG4574 RNA-binding protein (c 82.8 0.7 1.5E-05 56.0 2.1 76 491-572 298-375 (1007)
212 KOG2190 PolyC-binding proteins 82.7 0.84 1.8E-05 53.4 2.7 40 250-295 337-376 (485)
213 PF14787 zf-CCHC_5: GAG-polypr 81.9 0.61 1.3E-05 35.1 0.8 19 398-416 4-22 (36)
214 COG1855 ATPase (PilT family) [ 77.0 3.9 8.4E-05 47.3 5.4 39 253-297 488-526 (604)
215 KOG2113 Predicted RNA binding 76.3 2.2 4.8E-05 46.6 3.2 57 265-341 123-180 (394)
216 PHA03378 EBNA-3B; Provisional 74.7 44 0.00095 40.4 13.2 19 265-283 282-300 (991)
217 PRK08406 transcription elongat 73.7 3.9 8.4E-05 40.2 3.9 29 266-294 41-69 (140)
218 smart00343 ZnF_C2HC zinc finge 73.3 1.7 3.7E-05 30.0 1.0 17 398-414 1-17 (26)
219 KOG4672 Uncharacterized conser 70.7 25 0.00055 40.0 9.6 14 784-797 471-484 (487)
220 cd02409 KH-II KH-II (K homolo 70.4 3.6 7.9E-05 33.8 2.5 23 268-290 36-58 (68)
221 PRK00089 era GTPase Era; Revie 69.8 16 0.00034 39.5 8.0 87 199-293 172-271 (292)
222 PF11767 SET_assoc: Histone ly 69.2 21 0.00045 30.7 6.8 55 502-565 11-65 (66)
223 KOG2318 Uncharacterized conser 68.9 14 0.0003 43.7 7.4 79 489-567 172-304 (650)
224 KOG0260 RNA polymerase II, lar 65.1 3.7E+02 0.008 35.2 18.6 10 290-299 846-855 (1605)
225 KOG2113 Predicted RNA binding 63.5 5.8 0.00013 43.5 2.9 39 249-293 24-62 (394)
226 KOG0260 RNA polymerase II, lar 63.2 3.8E+02 0.0083 35.1 18.2 7 517-523 1257-1263(1605)
227 KOG4672 Uncharacterized conser 59.6 59 0.0013 37.2 9.9 18 220-237 43-60 (487)
228 TIGR00436 era GTP-binding prot 58.5 41 0.00089 36.1 8.5 67 222-293 185-266 (270)
229 KOG4483 Uncharacterized conser 57.8 17 0.00037 41.1 5.4 56 490-552 390-446 (528)
230 PHA03378 EBNA-3B; Provisional 57.7 2.1E+02 0.0045 35.1 14.2 10 275-284 325-334 (991)
231 PRK15494 era GTPase Era; Provi 57.5 40 0.00087 37.7 8.4 66 222-293 237-318 (339)
232 COG1702 PhoH Phosphate starvat 57.4 15 0.00032 41.3 4.8 53 266-343 24-78 (348)
233 PRK13764 ATPase; Provisional 57.3 11 0.00024 45.4 4.2 39 252-296 482-520 (602)
234 KOG0804 Cytoplasmic Zn-finger 56.5 24 0.00052 40.7 6.3 68 491-560 74-142 (493)
235 KOG4454 RNA binding protein (R 55.9 2.8 6.2E-05 43.8 -0.9 73 489-562 78-154 (267)
236 PRK12329 nusA transcription el 53.9 8 0.00017 44.7 2.2 75 217-294 228-306 (449)
237 KOG0334 RNA helicase [RNA proc 52.7 18 0.0004 45.5 5.1 85 245-343 892-976 (997)
238 PRK12327 nusA transcription el 52.1 9.3 0.0002 43.3 2.3 70 217-293 203-273 (362)
239 cd02414 jag_KH jag_K homology 52.1 8 0.00017 33.8 1.4 28 266-293 33-60 (77)
240 PRK04023 DNA polymerase II lar 51.7 37 0.0008 43.0 7.3 70 364-436 617-697 (1121)
241 TIGR01953 NusA transcription t 51.4 11 0.00023 42.5 2.6 70 217-293 201-271 (341)
242 KOG0213 Splicing factor 3b, su 51.4 11 0.00023 46.0 2.6 39 106-144 179-221 (1172)
243 KOG2279 Kinase anchor protein 51.1 8.3 0.00018 45.3 1.7 41 250-296 67-107 (608)
244 TIGR01952 nusA_arch NusA famil 50.3 16 0.00035 36.0 3.3 29 266-294 42-70 (141)
245 PRK08406 transcription elongat 48.9 15 0.00032 36.1 2.9 35 253-293 101-135 (140)
246 KOG4410 5-formyltetrahydrofola 48.6 92 0.002 34.1 8.8 48 491-544 330-378 (396)
247 PF14392 zf-CCHC_4: Zinc knuck 48.5 7.6 0.00017 31.1 0.7 19 396-414 31-49 (49)
248 KOG1923 Rac1 GTPase effector F 48.4 69 0.0015 39.4 8.6 11 337-347 121-131 (830)
249 PF13083 KH_4: KH domain; PDB: 46.4 5.9 0.00013 34.1 -0.3 23 266-288 38-60 (73)
250 COG0195 NusA Transcription elo 46.1 15 0.00032 38.1 2.4 33 264-296 83-115 (190)
251 KOG1923 Rac1 GTPase effector F 46.0 74 0.0016 39.2 8.4 14 783-796 383-396 (830)
252 KOG4676 Splicing factor, argin 44.5 4 8.6E-05 45.9 -2.0 72 491-567 151-222 (479)
253 PF14611 SLS: Mitochondrial in 43.8 52 0.0011 34.0 6.2 56 266-344 35-90 (210)
254 COG5222 Uncharacterized conser 42.8 11 0.00024 41.0 1.0 21 395-415 175-195 (427)
255 PRK12328 nusA transcription el 42.7 12 0.00025 42.6 1.2 70 217-293 209-279 (374)
256 KOG2236 Uncharacterized conser 42.7 2.9E+02 0.0064 32.3 12.1 42 284-345 216-257 (483)
257 COG0026 PurK Phosphoribosylami 41.6 40 0.00087 38.3 5.1 50 278-341 318-367 (375)
258 PRK06418 transcription elongat 41.5 20 0.00043 36.4 2.5 28 269-296 72-99 (166)
259 COG0724 RNA-binding proteins ( 41.4 29 0.00064 35.1 3.9 65 489-553 223-287 (306)
260 PRK14714 DNA polymerase II lar 40.7 38 0.00083 43.8 5.3 140 274-436 585-743 (1337)
261 PLN03119 putative ADP-ribosyla 39.8 44 0.00095 39.8 5.2 67 356-433 13-79 (648)
262 PF07530 PRE_C2HC: Associated 39.1 50 0.0011 28.5 4.3 63 506-571 2-65 (68)
263 PRK00468 hypothetical protein; 38.7 17 0.00036 32.0 1.3 31 251-287 30-60 (75)
264 KOG3116 Predicted C3H1-type Zn 38.2 9.5 0.00021 37.6 -0.3 24 393-416 24-47 (177)
265 PRK02821 hypothetical protein; 38.1 17 0.00037 32.2 1.3 23 266-288 40-62 (77)
266 PF13696 zf-CCHC_2: Zinc knuck 37.7 15 0.00032 27.2 0.7 20 370-389 8-27 (32)
267 smart00596 PRE_C2HC PRE_C2HC d 37.5 50 0.0011 28.7 3.9 63 506-571 2-65 (69)
268 PRK06019 phosphoribosylaminoim 36.2 56 0.0012 36.8 5.4 46 279-338 319-364 (372)
269 PLN03131 hypothetical protein; 35.5 55 0.0012 39.4 5.2 40 354-403 11-50 (705)
270 KOG2208 Vigilin [Lipid transpo 35.4 22 0.00048 44.1 2.2 38 250-293 708-745 (753)
271 COG3967 DltE Short-chain dehyd 35.4 28 0.0006 36.8 2.5 69 284-359 2-70 (245)
272 KOG3273 Predicted RNA-binding 34.4 23 0.0005 36.7 1.7 54 266-344 178-231 (252)
273 PRK09202 nusA transcription el 33.8 24 0.00053 41.4 2.0 71 217-294 203-274 (470)
274 COG1837 Predicted RNA-binding 33.6 23 0.0005 31.3 1.4 29 251-285 30-58 (76)
275 KOG4634 Mitochondrial F1F0-ATP 33.5 70 0.0015 29.6 4.4 46 163-232 30-75 (105)
276 PRK09986 DNA-binding transcrip 33.3 57 0.0012 34.6 4.7 20 277-296 40-59 (294)
277 KOG4019 Calcineurin-mediated s 33.2 30 0.00065 35.5 2.3 77 490-572 9-91 (193)
278 PRK01064 hypothetical protein; 32.5 28 0.00061 30.9 1.7 32 251-288 30-61 (78)
279 PF11598 COMP: Cartilage oligo 32.3 35 0.00076 27.2 2.1 41 330-377 5-45 (45)
280 cd02410 archeal_CPSF_KH The ar 31.6 91 0.002 31.0 5.2 57 231-293 56-112 (145)
281 PRK12328 nusA transcription el 31.2 48 0.0011 37.8 3.8 91 200-298 246-349 (374)
282 KOG3799 Rab3 effector RIM1 and 30.6 30 0.00066 33.7 1.7 12 368-379 63-74 (169)
283 KOG0341 DEAD-box protein abstr 30.6 29 0.00063 39.5 1.8 30 360-389 552-589 (610)
284 PF04216 FdhE: Protein involve 30.3 26 0.00056 38.3 1.4 40 371-410 173-225 (290)
285 KOG2208 Vigilin [Lipid transpo 29.9 50 0.0011 41.2 3.9 59 266-343 356-417 (753)
286 PF03420 Peptidase_U9: Prohead 29.3 1.8E+02 0.0038 30.7 7.0 77 219-301 59-148 (213)
287 COG1656 Uncharacterized conser 28.3 33 0.00071 34.7 1.6 54 320-379 49-106 (165)
288 COG1198 PriA Primosomal protei 28.3 38 0.00082 41.9 2.4 41 372-416 437-482 (730)
289 COG5179 TAF1 Transcription ini 27.6 75 0.0016 38.2 4.5 21 396-416 937-959 (968)
290 KOG4165 Gamma-glutamyl phospha 27.2 65 0.0014 36.1 3.7 27 266-295 190-218 (433)
291 KOG1423 Ras-like GTPase ERA [C 27.1 2.1E+02 0.0046 32.2 7.5 85 201-293 274-373 (379)
292 COG5638 Uncharacterized conser 26.1 1.6E+02 0.0035 33.7 6.6 36 490-525 145-185 (622)
293 PRK14126 cell division protein 25.6 54 0.0012 29.5 2.4 45 320-364 18-62 (85)
294 COG1159 Era GTPase [General fu 25.3 1.5E+02 0.0033 32.8 6.2 68 221-293 192-274 (298)
295 PF03468 XS: XS domain; Inter 24.9 80 0.0017 30.1 3.5 46 503-551 29-75 (116)
296 TIGR01385 TFSII transcription 24.0 87 0.0019 34.7 4.1 45 359-403 247-293 (299)
297 COG5118 BDP1 Transcription ini 23.5 3.8E+02 0.0081 30.7 8.7 179 43-232 64-265 (507)
298 KOG3794 CBF1-interacting corep 23.5 37 0.0008 38.5 1.1 24 395-418 123-148 (453)
299 PF10567 Nab6_mRNP_bdg: RNA-re 23.1 1.1E+02 0.0025 33.6 4.6 84 487-570 11-107 (309)
300 TIGR00269 conserved hypothetic 22.4 44 0.00095 31.0 1.2 19 371-403 81-99 (104)
301 TIGR03675 arCOG00543 arCOG0054 21.9 1E+02 0.0022 37.8 4.4 58 230-293 72-129 (630)
302 TIGR01953 NusA transcription t 21.8 87 0.0019 35.4 3.6 38 251-294 301-338 (341)
303 PRK14715 DNA polymerase II lar 21.2 1.5E+02 0.0032 39.0 5.7 48 371-436 675-722 (1627)
304 COG5185 HEC1 Protein involved 21.0 2.1E+02 0.0045 33.6 6.2 29 208-239 362-390 (622)
305 PRK11242 DNA-binding transcrip 21.0 1.4E+02 0.003 31.7 4.8 19 277-295 34-52 (296)
306 PF04908 SH3BGR: SH3-binding, 20.6 56 0.0012 30.3 1.5 44 318-361 2-53 (99)
307 PF08303 tRNA_lig_kinase: tRNA 20.6 2.6E+02 0.0055 28.6 6.2 57 221-296 65-121 (168)
308 PF00126 HTH_1: Bacterial regu 20.3 73 0.0016 26.1 2.0 20 277-296 32-51 (60)
309 PRK10246 exonuclease subunit S 20.3 1E+02 0.0022 40.0 4.2 26 357-382 490-515 (1047)
310 PF14392 zf-CCHC_4: Zinc knuck 20.2 45 0.00098 26.6 0.7 17 371-387 32-48 (49)
311 PRK10837 putative DNA-binding 20.1 1.4E+02 0.0029 31.6 4.6 20 277-296 36-55 (290)
No 1
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=100.00 E-value=1.3e-82 Score=689.84 Aligned_cols=308 Identities=54% Similarity=0.872 Sum_probs=272.6
Q ss_pred cchhhhhcccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCCCCCCcccCCccccccCCCCcCCHHHHHHHHHHHHHHHH
Q 040243 102 ETTSRRRRRSRWDPPPSESGGTEGNGDSGSGTRKRRSRWADDEPKPVIQLPDFMKDFTGGIEFDPEIQALNSRLLEISRM 181 (797)
Q Consensus 102 ~~~~~~~r~s~w~~~~~~~~~~~~~~~~~~~~~~r~srw~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~r~~ei~~~ 181 (797)
++-+ |||||||+++.-++.. .++...++.||++|.... +..+.+.|.|++||+||+++
T Consensus 10 ~~~p-~~~rS~w~~~~~es~~-------------------~~s~~~~~~lp~~m~~~l--t~eq~~~y~l~~~iee~t~k 67 (554)
T KOG0119|consen 10 ASVP-RRNRSRWDRDTVESDV-------------------VNSMTSTSALPSSMPGGL--TEEQKESYSLNLRIEEITRK 67 (554)
T ss_pred cccc-chhhccCCCCcccccc-------------------ccCccccccccccccccc--chhhhhhhhHHHHHHHhhhh
Confidence 3344 4459999888655432 111223567888887433 66778889999999999999
Q ss_pred HhcCCCCCCCCCCCCCCCCCcccCCCCcccChHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCC-ceEEEEEecCC
Q 040243 182 LQSGLPLDDRPEGQRSPSPEPIYDNMGIRINTREYRARERLNKERQEIISQIIKRNPAFKPPADYRPP-KLQKKLYIPMK 260 (797)
Q Consensus 182 l~~~~~~~~~~~~~rspsp~p~yd~~g~r~ntre~r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~-~~~~Ki~IP~~ 260 (797)
|+++++....+...||||++|+||+.|+||||||+|+|++||.|||+||++|+|+||.|++|.|||+. ++++|||||||
T Consensus 68 Lrt~d~~~p~~~e~rSPsp~p~yda~g~R~ntRe~R~r~~Le~er~e~I~~~lk~nP~fkpP~DYk~p~~~~~Kv~IPvk 147 (554)
T KOG0119|consen 68 LRTGDVGVPPPRELRSPSPEPVYDAKGKRLNTREQRARKKLEDERHEIIEEILKLNPGFKPPADYKPPAKLHDKVYIPVK 147 (554)
T ss_pred hccccCCCCCCccccCCCcchhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHhCcCCCCCcccCcccccccceecchh
Confidence 99999866666778999999999999999999999999999999999999999999999999999988 99999999999
Q ss_pred CCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHH
Q 040243 261 EYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEK 340 (797)
Q Consensus 261 ~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ 340 (797)
+||+||||||||||||+|||+||+||||||.||||||+|||| ..+.|......++|+|||+|+|+|+|+|++|+++|++
T Consensus 148 e~Pd~NFvGLiiGPRG~TqK~lE~etgAKI~IRGkgSvkEgk-~~~~d~~~~~~~~epLH~~Isadt~eki~~Ai~vien 226 (554)
T KOG0119|consen 148 EFPDINFVGLIIGPRGNTQKRLERETGAKIAIRGKGSVKEGK-GRSDDLSYIPKENEPLHCLISADTQEKIKKAIAVIEN 226 (554)
T ss_pred hcCCcceeEEEecCCccHHHHHHHHhCCeEEEeccccccccc-cCCcccccccccccceeEEEecchHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999 4445567777899999999999999999999999999
Q ss_pred hcC---CChHHHHHHHHHHHHHHHhhcCCcCccc--hhcccCCCCCccccCCCCCCCccccccceecCCCCCCcccCCCC
Q 040243 341 LLQ---PVDEVLNEHKRQQLRELAALNGTIRDEE--YCRLCGEPGHRQYACPSRTSTFKSDVLCKICGDGGHPTIDCLVK 415 (797)
Q Consensus 341 ll~---~~~e~~n~~k~~Ql~ela~lnGt~r~~~--~c~~cg~~gh~~~~cp~~~~~~~~~v~Cr~CG~~gH~t~dCp~k 415 (797)
||+ .+.|++|++||.||||||.||||+|+++ +|++||.+||++|+||++.+++++ +|++||..|||++||+++
T Consensus 227 li~~av~~~e~~n~l~~~Qlrela~lNgt~r~~d~~~c~~cg~~~H~q~~cp~r~~~~~n--~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 227 LIQSAVSVPEGQNDLKRLQLRELARLNGTLRDDDNRACRNCGSTGHKQYDCPGRIPNTTN--VCKICGPLGHISIDCKVN 304 (554)
T ss_pred HHHhhccCccccccccHHHHHHHHHhCCCCCccccccccccCCCccccccCCcccccccc--cccccCCcccccccCCCc
Confidence 998 5789999999999999999999999987 999999999999999999666666 999999999999999998
Q ss_pred Cc----CCCCcchHHHHHHhhhc
Q 040243 416 GT----TGKKMDDEYQNFLAELG 434 (797)
Q Consensus 416 ~~----~g~~ld~eY~~~m~Elg 434 (797)
+. ....||.||..+|.||+
T Consensus 305 ~q~~~~~~~~~d~ey~~lm~e~~ 327 (554)
T KOG0119|consen 305 DQQMPMSSANFDREYASLMLELG 327 (554)
T ss_pred ccccchhhhccCHHHHhhhcccc
Confidence 42 22348999999999888
No 2
>COG5176 MSL5 Splicing factor (branch point binding protein) [RNA processing and modification]
Probab=100.00 E-value=5.1e-50 Score=394.48 Aligned_cols=217 Identities=39% Similarity=0.594 Sum_probs=190.5
Q ss_pred cccCCccccccCCCCcCCH-HHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcccChHHHHHHHHHHHHH
Q 040243 148 VIQLPDFMKDFTGGIEFDP-EIQALNSRLLEISRMLQSGLPLDDRPEGQRSPSPEPIYDNMGIRINTREYRARERLNKER 226 (797)
Q Consensus 148 ~~~~p~~~~~~~~~~~~~~-~~~~~~~r~~ei~~~l~~~~~~~~~~~~~rspsp~p~yd~~g~r~ntre~r~~~~le~er 226 (797)
+..||..++. +++..+ +.|+++.|+.||+.||++++.+... ...|||||+|.||+.|+|+||||.|++++||+||
T Consensus 47 ~~~l~s~i~~---~lt~eqi~~y~~~~r~~eit~Klrt~d~Vp~~-re~Rspsppp~yd~~GrRlntre~ry~kkLeder 122 (269)
T COG5176 47 FNSLPSKISG---ALTREQIYSYQVMMRPFEITEKLRTPDGVPSK-RELRSPSPPPRYDEIGRRLNTREARYNKKLEDER 122 (269)
T ss_pred hhcchhHhhh---hhhHHHHHHHHHhccHhhhhhhhcCCCCCCch-hhccCCCCCcchhHHhhhhhHHHHHHhhhhhHHH
Confidence 4467766643 334322 3446789999999999999977432 3479999999999999999999999999999999
Q ss_pred HHHHHHHHHhCCCCCCCCCCC-CCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEecccccccccccc
Q 040243 227 QEIISQIIKRNPAFKPPADYR-PPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQ 305 (797)
Q Consensus 227 ~~li~~~~~~~p~~~pp~dy~-p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~ 305 (797)
+.|++.+++++|.|+.|.||+ |.+++.||||||++||++|||||||||||.|+|+||+.|+|||.|||+||+|+|+...
T Consensus 123 ~~l~era~k~lp~fv~p~dy~rpsk~q~KiYIPV~eyPe~NFVGLliGPRG~Tlk~le~~s~akIaIRG~gsvKegk~ss 202 (269)
T COG5176 123 LWLKERAQKILPRFVLPNDYIRPSKYQNKIYIPVQEYPESNFVGLLIGPRGSTLKQLERISRAKIAIRGSGSVKEGKISS 202 (269)
T ss_pred HHHHHHHHHhcCcccCCccccCcccccceEEeehhhCcccceeEEEecCCcchHHHHHHHhCCeEEEecccccccCcccc
Confidence 999999999999999999995 8899999999999999999999999999999999999999999999999999998752
Q ss_pred ccCCCCC-CCCCCCceEEEEecCHHHHHHHHHHHHHhcC---CChHHHHHHHHHHHHHHHhhcCCcCcc
Q 040243 306 KRDLKPD-PSENEDLHVLVEAETQESLEGAAAMVEKLLQ---PVDEVLNEHKRQQLRELAALNGTIRDE 370 (797)
Q Consensus 306 ~~~~~~~-~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~---~~~e~~n~~k~~Ql~ela~lnGt~r~~ 370 (797)
|.... -...++|||+|++++++++.+++..+.++|. .+.+|+|++||.||++||.||||+|+|
T Consensus 203 --d~p~~~~N~e~~lhcLI~adsedki~~~ik~~~n~I~~a~~~PeGqnDlkR~qlr~la~lngtlr~d 269 (269)
T COG5176 203 --DTPESLKNAEAVLHCLIEADSEDKICRLIKSQLNAIREARRNPEGQNDLKRFQLRWLAHLNGTLRAD 269 (269)
T ss_pred --cCchhhhhhHHhHHHHhhcchhhhHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHhcceecCC
Confidence 33322 3678899999999999999999999988886 467999999999999999999999875
No 3
>cd02395 SF1_like-KH Splicing factor 1 (SF1) K homology RNA-binding domain (KH). Splicing factor 1 (SF1) specifically recognizes the intron branch point sequence (BPS) UACUAAC in the pre-mRNA transcripts during spliceosome assembly. We show that the KH-QUA2 region of SF1 defines an enlarged KH (hnRNP K) fold which is necessary and sufficient for BPS binding. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=100.00 E-value=5.1e-35 Score=274.99 Aligned_cols=117 Identities=56% Similarity=0.865 Sum_probs=108.1
Q ss_pred EEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecC--HH
Q 040243 252 QKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAET--QE 329 (797)
Q Consensus 252 ~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~--~e 329 (797)
++|||||+++||+|||||+||||||+|+|+||++|||||.|||+||+|+++.+.........+.+|+|||+|+|++ .+
T Consensus 1 ~~ki~iP~~~~P~~N~IG~IIGPgG~tiK~i~~eTg~kI~Irg~gs~~~~~~~~~~~~~~~~~~~eplhV~I~a~~~~~e 80 (120)
T cd02395 1 TEKVYIPVKQYPKYNFVGLILGPRGNTLKQLEKETGAKISIRGKGSMKDGKKEEELRGPKYAHLNEPLHVLITAETPPEE 80 (120)
T ss_pred CCEEEcCcccCCCCCeeEEEECCCChHHHHHHHHHCCEEEEecCcccccccccccccCcccccCCCCcEEEEEeCCcHHH
Confidence 4799999999999999999999999999999999999999999999999887654433455689999999999999 99
Q ss_pred HHHHHHHHHHHhcCCChHH-HHHHHHHHHHHHHhhcCCcC
Q 040243 330 SLEGAAAMVEKLLQPVDEV-LNEHKRQQLRELAALNGTIR 368 (797)
Q Consensus 330 ~v~~A~~~I~~ll~~~~e~-~n~~k~~Ql~ela~lnGt~r 368 (797)
++++|+++|+.||..+.+. .|++||.||+|||.+|||||
T Consensus 81 ~~~~A~~~I~~ll~~~~~~~~~~~k~~ql~~la~~nGt~~ 120 (120)
T cd02395 81 ALAKAVEAIEELLKPAIEGGNDELKREQLRELALLNGTYR 120 (120)
T ss_pred HHHHHHHHHHHHhccCCCccchHHHHHHHHHHHHhcccCC
Confidence 9999999999999988776 89999999999999999986
No 4
>KOG1588 consensus RNA-binding protein Sam68 and related KH domain proteins [RNA processing and modification]
Probab=100.00 E-value=6e-35 Score=300.99 Aligned_cols=152 Identities=41% Similarity=0.621 Sum_probs=129.2
Q ss_pred HHHHHHHHHHHHHHHHHHHh---CCCCC---CCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEE
Q 040243 217 RARERLNKERQEIISQIIKR---NPAFK---PPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKI 290 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~---~p~~~---pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI 290 (797)
.+.++|.+|+.++...+.+. .+.-. .-.+-+++|+++||+||+++||+|||||+||||||+|+|+||+||||||
T Consensus 52 ~~~rLL~~Ei~rv~~~~~~~~~~~~~~~~~~~~~~~~~vk~~~Kv~vPv~~yP~fNFVGRILGPrGnSlkrLe~eTgCki 131 (259)
T KOG1588|consen 52 HAERLLDEEIERVQTSGRQHGSKEPEELPYADVYSGKPVKLTEKVLVPVKEYPKFNFVGRILGPRGNSLKRLEEETGCKI 131 (259)
T ss_pred HHHHHHHHHHHHHHhhhhhccCCCchhcccccCccCCceeEEEEEEeccCCCCCCccccccccCCcchHHHHHHHHCCeE
Confidence 57789999999988777653 23221 2334478999999999999999999999999999999999999999999
Q ss_pred EEeccccccccccccccCCCCCC-CCCCCceEEEEecCHH-----HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHhhc
Q 040243 291 VIRGKGSVKEGRLQQKRDLKPDP-SENEDLHVLVEAETQE-----SLEGAAAMVEKLLQPVDEVLNEHKRQQLRELAALN 364 (797)
Q Consensus 291 ~IrGkGS~k~g~~~~~~~~~~~~-~~~e~LHv~I~a~~~e-----~v~~A~~~I~~ll~~~~e~~n~~k~~Ql~ela~ln 364 (797)
.||||||+|+..++++...++.+ |++|||||+|++.... +|.+|++.|++||++..++.+ ||+||+|||.||
T Consensus 132 ~IrGrgSmrD~~KEE~lR~~p~yeHL~epLHVlIe~~~p~~ea~~rl~~AleeI~klL~P~~e~~d--k~~QL~ELa~ln 209 (259)
T KOG1588|consen 132 MIRGRGSMRDKAKEEELRGDPGYEHLNEPLHVLIETEAPPAEAYARLAYALEEIKKLLVPDHEDED--KREQLRELAILN 209 (259)
T ss_pred EEecCCcccchHHHHHhhcCcchHHhCCCcEEEEEEeCCHHHHHHHHHHHHHHHHHhcCCCCCCch--HHHHHHHHhhcC
Confidence 99999999997776665555554 8999999999998764 578999999999999988776 999999999999
Q ss_pred CCcCcc
Q 040243 365 GTIRDE 370 (797)
Q Consensus 365 Gt~r~~ 370 (797)
||+..+
T Consensus 210 gt~~~~ 215 (259)
T KOG1588|consen 210 GTYLRS 215 (259)
T ss_pred Cccccc
Confidence 996544
No 5
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.92 E-value=6.3e-25 Score=222.99 Aligned_cols=152 Identities=30% Similarity=0.485 Sum_probs=119.7
Q ss_pred ccccceecCCCCCCcccCCCCCcCCCCcchHHHHHHhhhcCCCCcccccccccccCCCCCCCCCCCCCCCCCCCCCCCCC
Q 040243 395 SDVLCKICGDGGHPTIDCLVKGTTGKKMDDEYQNFLAELGGTLPESASKQSTTLALGPGSGSSGSNPPWANNSGSSGTPG 474 (797)
Q Consensus 395 ~~v~Cr~CG~~gH~t~dCp~k~~~g~~ld~eY~~~m~Elg~~~pe~a~ka~~~~a~g~g~gg~G~~~p~~~~~g~~g~~g 474 (797)
+.+.||+|+ +.||+.+||||++.+. +|++ +..+..+.+..+- ++..|.|+|.+.+.|+.+..+
T Consensus 118 ~~~~CR~C~-gdHwt~~CPyK~~~~~--------~lde-----~~~~e~~~~~~ap---~~~~g~yvpP~mR~ga~~~~g 180 (270)
T KOG0122|consen 118 SIVACRICK-GDHWTTNCPYKDTLSP--------ALDE-----PATAESPAESAAP---GTKKGKYVPPSMRAGADRASG 180 (270)
T ss_pred ceeeeeecC-CCeeeecCCchhhccc--------cccC-----CcccccchhhcCc---CCcCccccCccccCCcccccc
Confidence 678999995 9999999999998753 2222 1111111111111 346778888888776532211
Q ss_pred CCCCCCCCCCCCCCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcC
Q 040243 475 HPGLGSNGAKPIKELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMN 554 (797)
Q Consensus 475 ~~g~g~~~~~~~~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~Ln 554 (797)
.......+.++|.|.||+.+++|++|++||..||.|.+|+|.+|+.||.+||||||+|.++++|.+||+.||
T Consensus 181 --------~~~R~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~Ln 252 (270)
T KOG0122|consen 181 --------SDMRERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLN 252 (270)
T ss_pred --------cccccCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHcc
Confidence 111134588999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeeccceEEEEecCCC
Q 040243 555 GYRLEGRTIAVRVAGKP 571 (797)
Q Consensus 555 G~~l~Gr~L~V~~A~~~ 571 (797)
|+.+++..|+|+|+++.
T Consensus 253 G~gyd~LILrvEwskP~ 269 (270)
T KOG0122|consen 253 GYGYDNLILRVEWSKPS 269 (270)
T ss_pred CcccceEEEEEEecCCC
Confidence 99999999999999864
No 6
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.68 E-value=6.9e-16 Score=150.44 Aligned_cols=85 Identities=47% Similarity=0.688 Sum_probs=80.3
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
...++|||+||+++++|++|+++|++||.|.+|+|+.|+.|+++||||||+|.+.++|++||+.||+..|+|+.|+|+|+
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a 111 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA 111 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence 35679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCC
Q 040243 569 GKPPQ 573 (797)
Q Consensus 569 ~~~~~ 573 (797)
..+..
T Consensus 112 ~~~~~ 116 (144)
T PLN03134 112 NDRPS 116 (144)
T ss_pred CcCCC
Confidence 76543
No 7
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.67 E-value=7.5e-16 Score=180.44 Aligned_cols=83 Identities=37% Similarity=0.621 Sum_probs=78.9
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
...++|||+||++++++++|+++|++||.|.+|+|+.| .+|++||||||+|.+.++|++||+.|||+.|+|+.|+|.||
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a 361 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALA 361 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEec
Confidence 45678999999999999999999999999999999999 58999999999999999999999999999999999999999
Q ss_pred CCCC
Q 040243 569 GKPP 572 (797)
Q Consensus 569 ~~~~ 572 (797)
..+.
T Consensus 362 ~~k~ 365 (562)
T TIGR01628 362 QRKE 365 (562)
T ss_pred cCcH
Confidence 8764
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=99.59 E-value=1.1e-14 Score=160.82 Aligned_cols=85 Identities=32% Similarity=0.542 Sum_probs=80.8
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
.....++|||+||+++++|++|+++|+.||.|++|+|++|+.|+++||||||+|.++++|++||+.|++..|.+++|+|.
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCC
Q 040243 567 VAGKP 571 (797)
Q Consensus 567 ~A~~~ 571 (797)
|++..
T Consensus 183 ~a~p~ 187 (346)
T TIGR01659 183 YARPG 187 (346)
T ss_pred ccccc
Confidence 98653
No 9
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.57 E-value=8.4e-15 Score=161.10 Aligned_cols=84 Identities=33% Similarity=0.534 Sum_probs=79.9
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
..+.+|||+||++.+++++|+++|++||.|.+|+|++|+.||++||||||+|.+.++|.+||+.|||+.|+||.|+|.|+
T Consensus 267 ~~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~ 346 (352)
T TIGR01661 267 GAGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFK 346 (352)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence 34568999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCC
Q 040243 569 GKPP 572 (797)
Q Consensus 569 ~~~~ 572 (797)
..+.
T Consensus 347 ~~~~ 350 (352)
T TIGR01661 347 TNKA 350 (352)
T ss_pred cCCC
Confidence 7664
No 10
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.55 E-value=2.1e-14 Score=146.43 Aligned_cols=86 Identities=34% Similarity=0.508 Sum_probs=77.9
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
.+..-++||||+|+|.+..++|+++|++||+|++..|+.|+.||+||||+||+|.+.++|++|++. ..-.|+||+..|.
T Consensus 8 ~DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcn 86 (247)
T KOG0149|consen 8 GDTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCN 86 (247)
T ss_pred CCceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccc
Confidence 345678999999999999999999999999999999999999999999999999999999999975 4567999999999
Q ss_pred ecCCCCC
Q 040243 567 VAGKPPQ 573 (797)
Q Consensus 567 ~A~~~~~ 573 (797)
+|.-...
T Consensus 87 lA~lg~~ 93 (247)
T KOG0149|consen 87 LASLGGK 93 (247)
T ss_pred hhhhcCc
Confidence 9876433
No 11
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.53 E-value=2.9e-14 Score=156.83 Aligned_cols=83 Identities=41% Similarity=0.726 Sum_probs=79.0
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
..++|||+||+..++|++|+++|++||.|.+|+|++|+.+|++||||||+|.+.++|++||+.|||..|.|+.|+|+|++
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~ 81 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR 81 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence 35799999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCC
Q 040243 570 KPP 572 (797)
Q Consensus 570 ~~~ 572 (797)
...
T Consensus 82 ~~~ 84 (352)
T TIGR01661 82 PSS 84 (352)
T ss_pred ccc
Confidence 543
No 12
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.52 E-value=2e-12 Score=148.76 Aligned_cols=76 Identities=25% Similarity=0.454 Sum_probs=71.0
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
.++|||||.|+.+++|+||..+|+.||+|.+|.++.. ||||||++..+++|++|+.+|+.+.+.++.|+|.||.
T Consensus 420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~ 493 (894)
T KOG0132|consen 420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAV 493 (894)
T ss_pred eeeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeec
Confidence 3689999999999999999999999999999998775 4899999999999999999999999999999999986
Q ss_pred CC
Q 040243 570 KP 571 (797)
Q Consensus 570 ~~ 571 (797)
.+
T Consensus 494 g~ 495 (894)
T KOG0132|consen 494 GK 495 (894)
T ss_pred cC
Confidence 53
No 13
>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=99.49 E-value=1.2e-13 Score=115.58 Aligned_cols=70 Identities=40% Similarity=0.796 Sum_probs=67.6
Q ss_pred EEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEE
Q 040243 494 LYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIA 564 (797)
Q Consensus 494 LfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~ 564 (797)
|||+||+.++++++|+++|++||.|..+++..+ .+++.+|||||+|.+.++|++|++.|+|+.++|+.|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999999999999998 6899999999999999999999999999999999986
No 14
>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=99.47 E-value=4e-13 Score=148.49 Aligned_cols=84 Identities=36% Similarity=0.673 Sum_probs=78.1
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeecc--ceEEEEe
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEG--RTIAVRV 567 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~G--r~L~V~~ 567 (797)
..++|||+||+++++|++|+++|++||+|.+|+|++|+.|+++||||||+|.+.++|++||+.||+..|.+ +.|+|+|
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~ 271 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRL 271 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence 35689999999999999999999999999999999999999999999999999999999999999999876 6899999
Q ss_pred cCCCCC
Q 040243 568 AGKPPQ 573 (797)
Q Consensus 568 A~~~~~ 573 (797)
|+....
T Consensus 272 a~~~~~ 277 (346)
T TIGR01659 272 AEEHGK 277 (346)
T ss_pred CCcccc
Confidence 886543
No 15
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.43 E-value=6.8e-13 Score=137.34 Aligned_cols=141 Identities=25% Similarity=0.364 Sum_probs=98.8
Q ss_pred CCcchHHHHHHhhhcCCCCcccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcEEEEecC
Q 040243 420 KKMDDEYQNFLAELGGTLPESASKQSTTLALGPGSGSSGSNPPWANNSGSSGTPGHPGLGSNGAKPIKELDDTNLYIGYL 499 (797)
Q Consensus 420 ~~ld~eY~~~m~Elg~~~pe~a~ka~~~~a~g~g~gg~G~~~p~~~~~g~~g~~g~~g~g~~~~~~~~~~~~~tLfVgNL 499 (797)
+...+.|++|-.... .|-|+..|+...+| ++..+.-|+.|...... +....-.-.-.+...++++||||||
T Consensus 102 KsKGYgFVSf~~k~d---AEnAI~~MnGqWlG----~R~IRTNWATRKp~e~n--~~~ltfdeV~NQssp~NtsVY~G~I 172 (321)
T KOG0148|consen 102 KSKGYGFVSFPNKED---AENAIQQMNGQWLG----RRTIRTNWATRKPSEMN--GKPLTFDEVYNQSSPDNTSVYVGNI 172 (321)
T ss_pred cccceeEEeccchHH---HHHHHHHhCCeeec----cceeeccccccCccccC--CCCccHHHHhccCCCCCceEEeCCc
Confidence 344555555554322 22233334444443 34456667776552111 1111000000224568899999999
Q ss_pred CCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCCCCCCC
Q 040243 500 PPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGKPPQPT 575 (797)
Q Consensus 500 p~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~~~~~~ 575 (797)
...++|++|++.|+.||.|.+|+|++|+ ||+||.|++.|+|..||..+|+.+|+|..+++.|.+......
T Consensus 173 ~~~lte~~mr~~Fs~fG~I~EVRvFk~q------GYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~~~~~ 242 (321)
T KOG0148|consen 173 ASGLTEDLMRQTFSPFGPIQEVRVFKDQ------GYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEGDDGI 242 (321)
T ss_pred CccccHHHHHHhcccCCcceEEEEeccc------ceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccCCCCC
Confidence 9999999999999999999999999996 899999999999999999999999999999999988655433
No 16
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.43 E-value=1.8e-13 Score=127.80 Aligned_cols=81 Identities=27% Similarity=0.421 Sum_probs=77.9
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
..++|||||||++.++|+.|.++|+++|.|.+|.+-.|+.+....|||||+|.+.++|+.|++.++|..|+.+.|+|.|.
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred C
Q 040243 569 G 569 (797)
Q Consensus 569 ~ 569 (797)
-
T Consensus 114 ~ 114 (153)
T KOG0121|consen 114 A 114 (153)
T ss_pred c
Confidence 3
No 17
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.43 E-value=5.8e-13 Score=155.25 Aligned_cols=84 Identities=31% Similarity=0.603 Sum_probs=79.5
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
..++|||+||+.++++++|+++|+.||.|.+|+|.+|+.++++||||||+|.+.++|.+||+.||++.|+|+.|+|.++.
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi 282 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 282 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence 35689999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred CCCC
Q 040243 570 KPPQ 573 (797)
Q Consensus 570 ~~~~ 573 (797)
.++.
T Consensus 283 ~pP~ 286 (612)
T TIGR01645 283 TPPD 286 (612)
T ss_pred CCcc
Confidence 6543
No 18
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.42 E-value=2e-13 Score=136.46 Aligned_cols=87 Identities=29% Similarity=0.449 Sum_probs=81.7
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
+-..-++|-|-||.+.++.++|+.+|++||.|.+|+|.+|+.|++++|||||-|.+..+|+.|++.|+|.+|+|+.|+|+
T Consensus 9 dv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq 88 (256)
T KOG4207|consen 9 DVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQ 88 (256)
T ss_pred CcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeeh
Confidence 44556789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCCC
Q 040243 567 VAGKPPQ 573 (797)
Q Consensus 567 ~A~~~~~ 573 (797)
+|+....
T Consensus 89 ~arygr~ 95 (256)
T KOG4207|consen 89 MARYGRP 95 (256)
T ss_pred hhhcCCC
Confidence 9976544
No 19
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=99.40 E-value=6.7e-11 Score=125.83 Aligned_cols=77 Identities=19% Similarity=0.320 Sum_probs=70.7
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCC--CEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFG--DIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG--~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
....+|||||-||+|++||.+.+...| .+.+++++.++.+|++||||+|...+..+.++.++.|-.++|+|+.-.|-
T Consensus 79 rk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~ 157 (498)
T KOG4849|consen 79 RKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL 157 (498)
T ss_pred ceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence 345799999999999999999998876 78889999999999999999999999999999999999999999887664
No 20
>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=99.39 E-value=1.6e-12 Score=110.02 Aligned_cols=70 Identities=33% Similarity=0.720 Sum_probs=65.5
Q ss_pred EEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEE
Q 040243 494 LYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIA 564 (797)
Q Consensus 494 LfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~ 564 (797)
|||+||++++++++|+++|+.||.|..+++..++. ++++|+|||+|.+.++|.+|++.+++..|+|+.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 79999999999999999999999999999999987 99999999999999999999999999999999885
No 21
>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=99.38 E-value=1.1e-12 Score=153.04 Aligned_cols=79 Identities=34% Similarity=0.521 Sum_probs=76.0
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
.++||||||++.+++++|+++|.+||.|.+|+|++|+.||++||||||+|.+.++|++||+.|||..|+|+.|+|.+..
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~ 185 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS 185 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccc
Confidence 4589999999999999999999999999999999999999999999999999999999999999999999999998654
No 22
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.37 E-value=1e-12 Score=135.99 Aligned_cols=83 Identities=42% Similarity=0.697 Sum_probs=80.1
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
...-||||.|...++.++|++.|.+||+|.+++|++|..|+++|||+||.|-+.++|++||+.|||..|++|.|+-.||.
T Consensus 61 ~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWAT 140 (321)
T KOG0148|consen 61 QHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWAT 140 (321)
T ss_pred cceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccc
Confidence 35679999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCC
Q 040243 570 KPP 572 (797)
Q Consensus 570 ~~~ 572 (797)
.+.
T Consensus 141 RKp 143 (321)
T KOG0148|consen 141 RKP 143 (321)
T ss_pred cCc
Confidence 776
No 23
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.35 E-value=3.3e-12 Score=135.36 Aligned_cols=81 Identities=30% Similarity=0.450 Sum_probs=75.0
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
+..++|+|+||++...|-||+.+|++||.|++|.|+.+. .-|||||||+|++.++|++|-++|+|..|.||+|+|..|
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~A 171 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNA 171 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEecc
Confidence 456789999999999999999999999999999998873 459999999999999999999999999999999999998
Q ss_pred CCC
Q 040243 569 GKP 571 (797)
Q Consensus 569 ~~~ 571 (797)
...
T Consensus 172 Tar 174 (376)
T KOG0125|consen 172 TAR 174 (376)
T ss_pred chh
Confidence 754
No 24
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.35 E-value=1.5e-13 Score=135.14 Aligned_cols=81 Identities=37% Similarity=0.655 Sum_probs=77.2
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
.++.-||||||++..||.||..+|++||+|+.|.+++|+.||+|+||||+.|++..+..-|+..|||..|.||.|+|...
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 46678999999999999999999999999999999999999999999999999999999999999999999999999854
Q ss_pred C
Q 040243 569 G 569 (797)
Q Consensus 569 ~ 569 (797)
.
T Consensus 113 ~ 113 (219)
T KOG0126|consen 113 S 113 (219)
T ss_pred c
Confidence 3
No 25
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.35 E-value=3e-12 Score=134.28 Aligned_cols=84 Identities=29% Similarity=0.501 Sum_probs=79.2
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
+.-+||||+-|+.+++|..|+..|++||.|..|+|++|+.||++||||||+|.++.+...|.+..+|..|+|+.|.|.+-
T Consensus 99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvE 178 (335)
T KOG0113|consen 99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVE 178 (335)
T ss_pred CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEec
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred CCCC
Q 040243 569 GKPP 572 (797)
Q Consensus 569 ~~~~ 572 (797)
....
T Consensus 179 RgRT 182 (335)
T KOG0113|consen 179 RGRT 182 (335)
T ss_pred cccc
Confidence 5443
No 26
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.34 E-value=1.9e-12 Score=126.84 Aligned_cols=80 Identities=26% Similarity=0.491 Sum_probs=74.2
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
...++||||||...+++.+|+.+|..||.|.+|.|..++ -|||||+|++..+|+.|+..|+|..|.|..|+|+++
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S 82 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELS 82 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceEEEEee
Confidence 457899999999999999999999999999999998864 599999999999999999999999999999999998
Q ss_pred CCCCC
Q 040243 569 GKPPQ 573 (797)
Q Consensus 569 ~~~~~ 573 (797)
.....
T Consensus 83 ~G~~r 87 (195)
T KOG0107|consen 83 TGRPR 87 (195)
T ss_pred cCCcc
Confidence 76554
No 27
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.33 E-value=4e-12 Score=133.59 Aligned_cols=77 Identities=16% Similarity=0.257 Sum_probs=71.5
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCC
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGK 570 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~ 570 (797)
.++|||+||++.+++++|+++|+.||.|.+|.|++|+. .+|||||+|.+.++|+.|| .|+|..|.|+.|+|.++..
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITPAED 79 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEeccC
Confidence 56999999999999999999999999999999999864 5799999999999999999 4999999999999999764
Q ss_pred C
Q 040243 571 P 571 (797)
Q Consensus 571 ~ 571 (797)
-
T Consensus 80 ~ 80 (260)
T PLN03120 80 Y 80 (260)
T ss_pred C
Confidence 3
No 28
>PLN03213 repressor of silencing 3; Provisional
Probab=99.33 E-value=2.9e-12 Score=140.86 Aligned_cols=77 Identities=18% Similarity=0.454 Sum_probs=71.5
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCH--HHHHHHHHhcCceeeccceEEEEe
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADI--QMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~--e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
...+||||||.+.+++++|+.+|..||.|.+|.|+ +.|| ||||||+|.+. .++.+||..|||..++|+.|+|..
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNK 84 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEK 84 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEee
Confidence 34689999999999999999999999999999999 5577 99999999977 789999999999999999999998
Q ss_pred cCC
Q 040243 568 AGK 570 (797)
Q Consensus 568 A~~ 570 (797)
|+.
T Consensus 85 AKP 87 (759)
T PLN03213 85 AKE 87 (759)
T ss_pred ccH
Confidence 865
No 29
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.32 E-value=3.8e-12 Score=149.36 Aligned_cols=78 Identities=35% Similarity=0.619 Sum_probs=75.8
Q ss_pred EEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCC
Q 040243 493 NLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGK 570 (797)
Q Consensus 493 tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~ 570 (797)
+||||||+.+++|++|+++|++||.|.+|+|.+|+.|++++|||||+|.+.++|++||+.|++..|.|+.|+|.|+..
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~ 79 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQR 79 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccc
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999999754
No 30
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.32 E-value=3.5e-12 Score=131.17 Aligned_cols=85 Identities=40% Similarity=0.708 Sum_probs=81.3
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
+...++|.|..||.++|+++|+.+|...|+|.+|++++|+.||++.||+||.|.+.++|++||..|||..|..+.|+|+|
T Consensus 38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSy 117 (360)
T KOG0145|consen 38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSY 117 (360)
T ss_pred CcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEe
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCC
Q 040243 568 AGKPP 572 (797)
Q Consensus 568 A~~~~ 572 (797)
|++..
T Consensus 118 ARPSs 122 (360)
T KOG0145|consen 118 ARPSS 122 (360)
T ss_pred ccCCh
Confidence 98654
No 31
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.31 E-value=7.9e-12 Score=144.50 Aligned_cols=83 Identities=36% Similarity=0.603 Sum_probs=78.9
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
..++|||+||++.+++++|+++|+.||.|..+.|+++..+|+++|||||+|.+.++|..||+.|+|..|+|+.|+|.+|.
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC 373 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCC
Q 040243 570 KPP 572 (797)
Q Consensus 570 ~~~ 572 (797)
...
T Consensus 374 ~~~ 376 (509)
T TIGR01642 374 VGA 376 (509)
T ss_pred cCC
Confidence 543
No 32
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=1.3e-12 Score=131.61 Aligned_cols=84 Identities=32% Similarity=0.472 Sum_probs=80.6
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
...++||||+|...++|.-|...|-.||.|.+|.+..|.+++++||||||+|...++|.+||+.||+.+|.||.|+|.+|
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A 87 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA 87 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCC
Q 040243 569 GKPP 572 (797)
Q Consensus 569 ~~~~ 572 (797)
++..
T Consensus 88 kP~k 91 (298)
T KOG0111|consen 88 KPEK 91 (298)
T ss_pred CCcc
Confidence 8754
No 33
>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=99.29 E-value=8.4e-12 Score=142.47 Aligned_cols=80 Identities=38% Similarity=0.659 Sum_probs=77.4
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCC
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGK 570 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~ 570 (797)
.++|||+||+..+++++|+++|+.||.|..|.|+.+..+|+++|||||+|.+.++|.+||+.|||+.|.|+.|+|.|+..
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~ 265 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD 265 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999873
No 34
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.29 E-value=1e-11 Score=127.37 Aligned_cols=80 Identities=35% Similarity=0.696 Sum_probs=77.5
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCC
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGK 570 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~ 570 (797)
.++|||+||++.+++++|+++|.+||.|..+.+..|+.+++++|||||+|.+.++|..|++.|++..|.|+.|+|.++..
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999763
No 35
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.28 E-value=4.6e-12 Score=119.35 Aligned_cols=89 Identities=24% Similarity=0.420 Sum_probs=83.3
Q ss_pred CCCCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEE
Q 040243 485 PIKELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIA 564 (797)
Q Consensus 485 ~~~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~ 564 (797)
+++...+..|||.++...++|++|.+.|..||+|+.|++-.|+.||..||||+|+|++.+.|++||+.|||..|.|+.|.
T Consensus 66 PqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~ 145 (170)
T KOG0130|consen 66 PQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVS 145 (170)
T ss_pred CccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCcee
Confidence 34667889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEecCCCCC
Q 040243 565 VRVAGKPPQ 573 (797)
Q Consensus 565 V~~A~~~~~ 573 (797)
|.|+..+..
T Consensus 146 VDw~Fv~gp 154 (170)
T KOG0130|consen 146 VDWCFVKGP 154 (170)
T ss_pred EEEEEecCC
Confidence 999865443
No 36
>smart00362 RRM_2 RNA recognition motif.
Probab=99.28 E-value=1.4e-11 Score=101.57 Aligned_cols=72 Identities=42% Similarity=0.774 Sum_probs=68.0
Q ss_pred EEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 493 NLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 493 tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
+|||+||+.++++++|+++|.+||.|..+++..++ +.++|+|||+|.+.++|++|++.|++..+.|+.|+|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 58999999999999999999999999999999886 7889999999999999999999999999999998874
No 37
>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=99.27 E-value=8.1e-12 Score=145.44 Aligned_cols=78 Identities=28% Similarity=0.628 Sum_probs=72.3
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeec-cceEEEEec
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE-GRTIAVRVA 568 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~-Gr~L~V~~A 568 (797)
..++|||+||+++++|++|+++|++||.|.+|+|++| .+|++||||||+|.+.++|++||+.||++.|. |+.|.|.++
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 5689999999999999999999999999999999999 79999999999999999999999999999885 777766654
No 38
>smart00360 RRM RNA recognition motif.
Probab=99.26 E-value=2e-11 Score=100.20 Aligned_cols=71 Identities=38% Similarity=0.779 Sum_probs=67.7
Q ss_pred EecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 496 IGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 496 VgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
|+||+..+++++|+++|.+||.|..+.+..++.+++++|||||+|.+.++|.+|++.|++..++|+.|+|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 67999999999999999999999999999998889999999999999999999999999999999999874
No 39
>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=99.25 E-value=1.9e-11 Score=139.55 Aligned_cols=83 Identities=30% Similarity=0.468 Sum_probs=77.7
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
+...++|||+||+..+++++|+++|++||.|.+|+|++|+.+++++|||||+|.+.++|.+||. |+|..|.|+.|.|.+
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~ 164 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQS 164 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEee
Confidence 4457899999999999999999999999999999999999999999999999999999999996 899999999999998
Q ss_pred cCCC
Q 040243 568 AGKP 571 (797)
Q Consensus 568 A~~~ 571 (797)
+...
T Consensus 165 ~~~~ 168 (457)
T TIGR01622 165 SQAE 168 (457)
T ss_pred cchh
Confidence 6543
No 40
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.23 E-value=8.4e-12 Score=123.10 Aligned_cols=82 Identities=35% Similarity=0.534 Sum_probs=78.9
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
.....|||||||+..++++-|.++|.+.|.|+++++.+|+.|...+|||||+|.++++|+-||+.||...|.||.|+|..
T Consensus 6 rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~k 85 (203)
T KOG0131|consen 6 RNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNK 85 (203)
T ss_pred cCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEe
Confidence 35678999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cC
Q 040243 568 AG 569 (797)
Q Consensus 568 A~ 569 (797)
+.
T Consensus 86 as 87 (203)
T KOG0131|consen 86 AS 87 (203)
T ss_pred cc
Confidence 87
No 41
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.23 E-value=3.1e-11 Score=125.17 Aligned_cols=77 Identities=16% Similarity=0.297 Sum_probs=70.6
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
.+++|||+||++.+|+++|+++|+.||.|.+|+|++|. +.+|||||+|.+.++|+.|| .|+|..|.++.|.|..+.
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG 79 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence 46799999999999999999999999999999999984 45689999999999999999 699999999999998755
Q ss_pred C
Q 040243 570 K 570 (797)
Q Consensus 570 ~ 570 (797)
.
T Consensus 80 ~ 80 (243)
T PLN03121 80 Q 80 (243)
T ss_pred c
Confidence 3
No 42
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.23 E-value=1.7e-11 Score=134.34 Aligned_cols=80 Identities=28% Similarity=0.598 Sum_probs=75.6
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeec-cceEEEEe
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE-GRTIAVRV 567 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~-Gr~L~V~~ 567 (797)
..++.||||.||.++.|++|.-+|++.|+|-+++|++|+.+|.+||||||+|.+.+.|++||+.||+++|. |+.|.|++
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~ 160 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCV 160 (506)
T ss_pred CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEE
Confidence 45778999999999999999999999999999999999999999999999999999999999999999885 88898876
Q ss_pred c
Q 040243 568 A 568 (797)
Q Consensus 568 A 568 (797)
+
T Consensus 161 S 161 (506)
T KOG0117|consen 161 S 161 (506)
T ss_pred e
Confidence 5
No 43
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.20 E-value=2.5e-11 Score=136.73 Aligned_cols=81 Identities=30% Similarity=0.628 Sum_probs=78.6
Q ss_pred cEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCCC
Q 040243 492 TNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGKP 571 (797)
Q Consensus 492 ~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~~ 571 (797)
+.||||||++.++|++|.++|+..|.|.+++++.|+.||+.|||||++|.+.++|++|++.|||.++.|++|+|.|+...
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999998765
Q ss_pred C
Q 040243 572 P 572 (797)
Q Consensus 572 ~ 572 (797)
.
T Consensus 99 ~ 99 (435)
T KOG0108|consen 99 K 99 (435)
T ss_pred c
Confidence 4
No 44
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.20 E-value=6.5e-11 Score=122.00 Aligned_cols=82 Identities=37% Similarity=0.580 Sum_probs=78.0
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
.++.|||-||..+++|.-|..+|..||.|..|+|++|..|.++|||+||++.+.++|..||..|||+.+++|.|.|.|..
T Consensus 277 ~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKt 356 (360)
T KOG0145|consen 277 GGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKT 356 (360)
T ss_pred CeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEec
Confidence 35689999999999999999999999999999999999999999999999999999999999999999999999999865
Q ss_pred CC
Q 040243 570 KP 571 (797)
Q Consensus 570 ~~ 571 (797)
.+
T Consensus 357 nk 358 (360)
T KOG0145|consen 357 NK 358 (360)
T ss_pred CC
Confidence 43
No 45
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.19 E-value=1.8e-11 Score=126.46 Aligned_cols=87 Identities=36% Similarity=0.581 Sum_probs=82.2
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
+..++|+|||-.|+.+..+.+|..+|..||.|++.+|+.|+.|++||+|+||.|++..+|+.||..|||+.|+-++|+|.
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQ 360 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQ 360 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhh
Confidence 34578999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecCCCCC
Q 040243 567 VAGKPPQ 573 (797)
Q Consensus 567 ~A~~~~~ 573 (797)
+.+++..
T Consensus 361 LKRPkda 367 (371)
T KOG0146|consen 361 LKRPKDA 367 (371)
T ss_pred hcCcccc
Confidence 9776654
No 46
>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=99.17 E-value=1.5e-10 Score=95.93 Aligned_cols=74 Identities=36% Similarity=0.759 Sum_probs=69.5
Q ss_pred EEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 493 NLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 493 tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
+|||+||+.++++++|+++|..||.|..+.+..+..+ ..+|+|||+|.+.++|..|++.+++..+.|+.|.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 4899999999999999999999999999999988754 7899999999999999999999999999999999875
No 47
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.16 E-value=2.3e-11 Score=132.70 Aligned_cols=83 Identities=30% Similarity=0.632 Sum_probs=76.2
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCcee-ecc--ceEEEE
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYR-LEG--RTIAVR 566 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~-l~G--r~L~V~ 566 (797)
+.++||||-|+..++|++++++|++||.|.+|+|++|. .+.|||||||+|.+++.|..||+.|||.. +.| ..|.|+
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVk 201 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVK 201 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEE
Confidence 57899999999999999999999999999999999996 79999999999999999999999999964 544 679999
Q ss_pred ecCCCCC
Q 040243 567 VAGKPPQ 573 (797)
Q Consensus 567 ~A~~~~~ 573 (797)
||..+..
T Consensus 202 FADtqkd 208 (510)
T KOG0144|consen 202 FADTQKD 208 (510)
T ss_pred ecccCCC
Confidence 9987654
No 48
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.15 E-value=6.3e-10 Score=122.19 Aligned_cols=78 Identities=29% Similarity=0.466 Sum_probs=72.3
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCC
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGK 570 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~ 570 (797)
-.-|||.||..++||+.|+++|.+||.|.+|+.++| ||||+|.++++|.+|++.+||++|+|..|.|.+|++
T Consensus 259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP 330 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKP 330 (506)
T ss_pred eeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecCC
Confidence 457999999999999999999999999999998876 999999999999999999999999999999999998
Q ss_pred CCCCCC
Q 040243 571 PPQPTV 576 (797)
Q Consensus 571 ~~~~~~ 576 (797)
......
T Consensus 331 ~~k~k~ 336 (506)
T KOG0117|consen 331 VDKKKK 336 (506)
T ss_pred hhhhcc
Confidence 765443
No 49
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.14 E-value=7.7e-11 Score=128.66 Aligned_cols=86 Identities=31% Similarity=0.546 Sum_probs=76.4
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCce-eecc--ceE
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGY-RLEG--RTI 563 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~-~l~G--r~L 563 (797)
.+.+.-+||||.|+..++|.||+++|++||.|.+|.|++||.|+.++|||||.|.++++|.+||..|+.. +|-| ..|
T Consensus 30 ~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pv 109 (510)
T KOG0144|consen 30 PDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPV 109 (510)
T ss_pred CCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcce
Confidence 4466789999999999999999999999999999999999999999999999999999999999999765 4543 668
Q ss_pred EEEecCCCC
Q 040243 564 AVRVAGKPP 572 (797)
Q Consensus 564 ~V~~A~~~~ 572 (797)
.|++|....
T Consensus 110 qvk~Ad~E~ 118 (510)
T KOG0144|consen 110 QVKYADGER 118 (510)
T ss_pred eecccchhh
Confidence 888886543
No 50
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.12 E-value=4.4e-11 Score=133.31 Aligned_cols=122 Identities=30% Similarity=0.501 Sum_probs=102.0
Q ss_pred CcchHHHHHHhhhcCCCCcccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCcEEEEecCC
Q 040243 421 KMDDEYQNFLAELGGTLPESASKQSTTLALGPGSGSSGSNPPWANNSGSSGTPGHPGLGSNGAKPIKELDDTNLYIGYLP 500 (797)
Q Consensus 421 ~ld~eY~~~m~Elg~~~pe~a~ka~~~~a~g~g~gg~G~~~p~~~~~g~~g~~g~~g~g~~~~~~~~~~~~~tLfVgNLp 500 (797)
.+.+.|++|.. +++|++|+.+++..... +.-...+|+.+... .|||.||+
T Consensus 36 slgy~yvnf~~------~~da~~A~~~~n~~~~~-~~~~rim~s~rd~~-----------------------~~~i~nl~ 85 (369)
T KOG0123|consen 36 SLGYAYVNFQQ------PADAERALDTMNFDVLK-GKPIRIMWSQRDPS-----------------------LVFIKNLD 85 (369)
T ss_pred ccceEEEecCC------HHHHHHHHHHcCCcccC-CcEEEeehhccCCc-----------------------eeeecCCC
Confidence 46777888775 66788888888876554 23346677776543 19999999
Q ss_pred CCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCCCCCCC
Q 040243 501 PTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGKPPQPT 575 (797)
Q Consensus 501 ~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~~~~~~ 575 (797)
..++..+|.++|+.||.|++|+|..|. +| +||| ||+|+++++|.+||+.|||..+.+++|.|.....+....
T Consensus 86 ~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~ 157 (369)
T KOG0123|consen 86 ESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEERE 157 (369)
T ss_pred cccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhc
Confidence 999999999999999999999999997 56 9999 999999999999999999999999999998877655433
No 51
>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=99.12 E-value=1.9e-10 Score=132.81 Aligned_cols=79 Identities=24% Similarity=0.379 Sum_probs=72.9
Q ss_pred CCCcEEEEecCCC-CCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 489 LDDTNLYIGYLPP-TLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 489 ~~~~tLfVgNLp~-~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
...++|||+||++ .+++++|+++|+.||.|.+|+|++++ +|||||+|.+.++|++||+.|||..|.|+.|+|.+
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~ 347 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCP 347 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEE
Confidence 3568999999998 69999999999999999999999874 69999999999999999999999999999999999
Q ss_pred cCCCC
Q 040243 568 AGKPP 572 (797)
Q Consensus 568 A~~~~ 572 (797)
++...
T Consensus 348 s~~~~ 352 (481)
T TIGR01649 348 SKQQN 352 (481)
T ss_pred ccccc
Confidence 86543
No 52
>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=99.10 E-value=2.3e-10 Score=133.48 Aligned_cols=76 Identities=32% Similarity=0.476 Sum_probs=69.8
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcC--CCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTF--GDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~f--G~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
..++|||+||++++++++|+++|++| |.|.+|++++ +||||+|.+.++|++||+.||+..|+|+.|+|+|
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~ 303 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--------DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTL 303 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence 34689999999999999999999999 9999998754 5999999999999999999999999999999999
Q ss_pred cCCCCC
Q 040243 568 AGKPPQ 573 (797)
Q Consensus 568 A~~~~~ 573 (797)
|+....
T Consensus 304 Akp~~~ 309 (578)
T TIGR01648 304 AKPVDK 309 (578)
T ss_pred ccCCCc
Confidence 986543
No 53
>smart00361 RRM_1 RNA recognition motif.
Probab=99.08 E-value=3e-10 Score=97.18 Aligned_cols=62 Identities=27% Similarity=0.500 Sum_probs=57.1
Q ss_pred HHHHHHHhh----cCCCEEEEE-EEecCCC--CcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 505 DDGLIRLFS----TFGDIVMAK-VIKDRVT--GMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 505 e~dL~~~Fs----~fG~I~~v~-v~~dk~T--GksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
+++|+++|+ +||.|.+|. |+.++.+ +.+||||||+|.+.++|.+|++.|||..++|+.|+++
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 578889998 999999995 8888777 9999999999999999999999999999999999873
No 54
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.07 E-value=1.6e-10 Score=120.95 Aligned_cols=76 Identities=32% Similarity=0.653 Sum_probs=71.5
Q ss_pred cEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCCC
Q 040243 492 TNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGKP 571 (797)
Q Consensus 492 ~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~~ 571 (797)
.+||||||+..+++.+|+.+|++||.|++|.|+++ ||||+.++...|+.||..|+|+.|+|..|+|+-++.+
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 37999999999999999999999999999999987 9999999999999999999999999999999999887
Q ss_pred CCCC
Q 040243 572 PQPT 575 (797)
Q Consensus 572 ~~~~ 575 (797)
....
T Consensus 75 sk~s 78 (346)
T KOG0109|consen 75 SKAS 78 (346)
T ss_pred CCCc
Confidence 5444
No 55
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.06 E-value=3.3e-10 Score=126.66 Aligned_cols=81 Identities=28% Similarity=0.460 Sum_probs=75.4
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCC
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGK 570 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~ 570 (797)
..+|.|+||||.+.+.+|+.+|+.||.|.+|.|.+.+. |+-+|||||.|....+|..||+.+|+..|+||.|-|.||-.
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~ 195 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVD 195 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC-CCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecc
Confidence 78999999999999999999999999999999998775 55559999999999999999999999999999999999976
Q ss_pred CC
Q 040243 571 PP 572 (797)
Q Consensus 571 ~~ 572 (797)
+.
T Consensus 196 Kd 197 (678)
T KOG0127|consen 196 KD 197 (678)
T ss_pred cc
Confidence 54
No 56
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.04 E-value=3.1e-10 Score=112.11 Aligned_cols=80 Identities=23% Similarity=0.450 Sum_probs=70.7
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
..++|||||||.++.+.+|+++|.+||.|.+|.|-.-+ ..-.||||+|++..+|+.||..-+|+.++|.+|+|+|+.
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfpr 81 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPR 81 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEecc
Confidence 56799999999999999999999999999999863322 235799999999999999999999999999999999987
Q ss_pred CCC
Q 040243 570 KPP 572 (797)
Q Consensus 570 ~~~ 572 (797)
...
T Consensus 82 ggr 84 (241)
T KOG0105|consen 82 GGR 84 (241)
T ss_pred CCC
Confidence 543
No 57
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.04 E-value=6.8e-10 Score=100.64 Aligned_cols=78 Identities=27% Similarity=0.462 Sum_probs=71.2
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
...+-|||.|||+++|.++..++|.+||.|..|+|-..+. .||-|||+|++..+|.+|++.|+|+.++++-|.|-+-
T Consensus 16 evnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~---TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyy 92 (124)
T KOG0114|consen 16 EVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE---TRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYY 92 (124)
T ss_pred hhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC---cCceEEEEehHhhhHHHHHHHhcccccCCceEEEEec
Confidence 3467899999999999999999999999999999977654 5899999999999999999999999999999999765
Q ss_pred C
Q 040243 569 G 569 (797)
Q Consensus 569 ~ 569 (797)
.
T Consensus 93 q 93 (124)
T KOG0114|consen 93 Q 93 (124)
T ss_pred C
Confidence 4
No 58
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.03 E-value=1.7e-10 Score=123.37 Aligned_cols=77 Identities=35% Similarity=0.546 Sum_probs=74.5
Q ss_pred cEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 492 TNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 492 ~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
|+||||.|.+.+.|+.|+..|..||.|++|.+..|..|+++||||||+|+-.+.|+.|++.|||.+++||.|+|..-
T Consensus 114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP 190 (544)
T KOG0124|consen 114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 190 (544)
T ss_pred HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC
Confidence 57999999999999999999999999999999999999999999999999999999999999999999999999743
No 59
>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=99.02 E-value=8.1e-10 Score=90.01 Aligned_cols=56 Identities=38% Similarity=0.770 Sum_probs=51.4
Q ss_pred HHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 508 LIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 508 L~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
|+++|++||.|.++.+..++ +++|||+|.+.++|++|++.|||..++|+.|+|+||
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 78999999999999997764 689999999999999999999999999999999986
No 60
>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=99.02 E-value=7.4e-10 Score=127.99 Aligned_cols=75 Identities=13% Similarity=0.240 Sum_probs=68.7
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHh--cCceeeccceEEEEec
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIAS--MNGYRLEGRTIAVRVA 568 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~--LnG~~l~Gr~L~V~~A 568 (797)
.++|||+||++.+++++|+++|++||.|.+|+|+++ ||||||+|.+.++|++||+. +++..|+|+.|+|.|+
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s 75 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYS 75 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEec
Confidence 468999999999999999999999999999999864 48999999999999999986 4788999999999999
Q ss_pred CCC
Q 040243 569 GKP 571 (797)
Q Consensus 569 ~~~ 571 (797)
..+
T Consensus 76 ~~~ 78 (481)
T TIGR01649 76 TSQ 78 (481)
T ss_pred CCc
Confidence 754
No 61
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.00 E-value=4.1e-10 Score=111.33 Aligned_cols=86 Identities=38% Similarity=0.622 Sum_probs=80.2
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEE-EEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMA-KVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v-~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
.+.+|||+||.+.++|..|.++|+.||.|.+. ++++|..||.++|||||.|++.+.+.+||+.|||..+..+++.|.++
T Consensus 95 vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya 174 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYA 174 (203)
T ss_pred ccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEE
Confidence 34789999999999999999999999988875 89999999999999999999999999999999999999999999999
Q ss_pred CCCCCCC
Q 040243 569 GKPPQPT 575 (797)
Q Consensus 569 ~~~~~~~ 575 (797)
.++....
T Consensus 175 ~k~~~kg 181 (203)
T KOG0131|consen 175 FKKDTKG 181 (203)
T ss_pred EecCCCc
Confidence 8876655
No 62
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.00 E-value=3.5e-10 Score=127.07 Aligned_cols=78 Identities=37% Similarity=0.667 Sum_probs=74.7
Q ss_pred EEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCCC
Q 040243 494 LYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGKP 571 (797)
Q Consensus 494 LfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~~ 571 (797)
||||||.+++++++|+.+|+.||.|..|.+.+|..||++|||+||+|.+.++|.+|++.|||++|.|+.|+|......
T Consensus 281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r 358 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTER 358 (549)
T ss_pred hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeee
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999875543
No 63
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.99 E-value=5.4e-10 Score=124.97 Aligned_cols=86 Identities=27% Similarity=0.448 Sum_probs=81.1
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
++.||||++|++.++.++|.++|+.+|.|..+.++.++.++.+|||+||+|.-.+++++|+..+++..|+|+.|+|.+|.
T Consensus 4 ~g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~ 83 (678)
T KOG0127|consen 4 SGATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAK 83 (678)
T ss_pred CCceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceeccccccc
Confidence 44799999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCCCC
Q 040243 570 KPPQPT 575 (797)
Q Consensus 570 ~~~~~~ 575 (797)
...+..
T Consensus 84 ~R~r~e 89 (678)
T KOG0127|consen 84 KRARSE 89 (678)
T ss_pred ccccch
Confidence 766543
No 64
>cd02393 PNPase_KH Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to those in other RNA binding proteins: a KH domain and an S1 domain. KH domains bind single-stranded RNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=98.97 E-value=1.8e-09 Score=90.39 Aligned_cols=59 Identities=39% Similarity=0.561 Sum_probs=52.5
Q ss_pred EEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHH
Q 040243 252 QKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESL 331 (797)
Q Consensus 252 ~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v 331 (797)
.+.|.||. +++|+|||++|.|+|+||++|||+|.|...| .|.|+|.+.+++
T Consensus 3 ~~~i~Ip~------~~ig~iIGkgG~~ik~I~~~tg~~I~i~~~g-----------------------~v~I~G~~~~~v 53 (61)
T cd02393 3 IETMKIPP------DKIRDVIGPGGKTIKKIIEETGVKIDIEDDG-----------------------TVYIAASDKEAA 53 (61)
T ss_pred EEEEEeCh------hheeeeECCCchHHHHHHHHHCCEEEeCCCC-----------------------EEEEEeCCHHHH
Confidence 45677998 9999999999999999999999999987422 699999999999
Q ss_pred HHHHHHHH
Q 040243 332 EGAAAMVE 339 (797)
Q Consensus 332 ~~A~~~I~ 339 (797)
++|.++|+
T Consensus 54 ~~A~~~I~ 61 (61)
T cd02393 54 EKAKKMIE 61 (61)
T ss_pred HHHHHHhC
Confidence 99999884
No 65
>TIGR02696 pppGpp_PNP guanosine pentaphosphate synthetase I/polynucleotide phosphorylase. Sohlberg, et al. present characterization of two proteins from Streptomyces coelicolor. The protein in this family was shown to have poly(A) polymerase activity and may be responsible for polyadenylating RNA in this species. Reference 2 showed that a nearly identical plasmid-encoded protein from Streptomyces antibioticus is a bifunctional enzyme that acts also as a guanosine pentaphosphate synthetase.
Probab=98.95 E-value=2.7e-09 Score=126.20 Aligned_cols=97 Identities=30% Similarity=0.483 Sum_probs=88.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccc
Q 040243 217 RARERLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkG 296 (797)
++.++-.+-|.+|++.|.+.+......++|.|+..+.+ |+. +.||.||||+|+|+|.|+++|||+|.|...|
T Consensus 546 ~aL~~A~~g~~~Il~~m~~al~~p~~~s~~aP~~~~~~--I~~------~ki~~vIG~gGk~I~~i~~~tg~~Idi~d~G 617 (719)
T TIGR02696 546 SALKQARDARLAILDVMAEAIDTPDEMSPYAPRIITVK--IPV------DKIGEVIGPKGKMINQIQDETGAEISIEDDG 617 (719)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCccccccCCCeeEEEE--eCh------HHhhheeCCCcHhHHHHHHHHCCEEEEecCc
Confidence 56677788899999999998887766899999988877 887 8999999999999999999999999999877
Q ss_pred cccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 297 SVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 297 S~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
+|.|+|.+.+++++|+++|+.|+..
T Consensus 618 -----------------------~V~I~a~d~~~~~~A~~~I~~i~~~ 642 (719)
T TIGR02696 618 -----------------------TVYIGAADGPSAEAARAMINAIANP 642 (719)
T ss_pred -----------------------EEEEEeCCHHHHHHHHHHHHHhhCc
Confidence 8999999999999999999999984
No 66
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.86 E-value=4.3e-09 Score=106.16 Aligned_cols=82 Identities=24% Similarity=0.455 Sum_probs=75.2
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcC-CCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTF-GDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~f-G~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
....-+||..++..+.+..|..+|.+| |.|.++++.+++.||.|||||||+|++.+.|+-|.+.||++.|.++.|.|.+
T Consensus 47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~v 126 (214)
T KOG4208|consen 47 EIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHV 126 (214)
T ss_pred CCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEE
Confidence 344569999999999999999999998 7888889999999999999999999999999999999999999999999987
Q ss_pred cCC
Q 040243 568 AGK 570 (797)
Q Consensus 568 A~~ 570 (797)
--+
T Consensus 127 mpp 129 (214)
T KOG4208|consen 127 MPP 129 (214)
T ss_pred eCc
Confidence 543
No 67
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.86 E-value=5.1e-09 Score=107.10 Aligned_cols=80 Identities=29% Similarity=0.538 Sum_probs=73.8
Q ss_pred CcEEEEecCCCCCcHHHHHH----HhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 491 DTNLYIGYLPPTLDDDGLIR----LFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~----~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
..||||.||++.+..++|+. +|++||.|++|...+ |.+.||-|||+|.+.+.|-.|++.|+|+.+.|+.++|.
T Consensus 9 n~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriq 85 (221)
T KOG4206|consen 9 NGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQ 85 (221)
T ss_pred CceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhhee
Confidence 34999999999999998887 999999999998765 67899999999999999999999999999999999999
Q ss_pred ecCCCCC
Q 040243 567 VAGKPPQ 573 (797)
Q Consensus 567 ~A~~~~~ 573 (797)
||+.+..
T Consensus 86 yA~s~sd 92 (221)
T KOG4206|consen 86 YAKSDSD 92 (221)
T ss_pred cccCccc
Confidence 9988764
No 68
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.85 E-value=9.4e-09 Score=112.48 Aligned_cols=77 Identities=22% Similarity=0.475 Sum_probs=71.9
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhc-CCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFST-FGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~-fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
.+.+||.||++++.|.+|+++|.. .|+|..|.++.|. +|++||||.|+|++++.+++|++.||.+.+.||.|+|+-.
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd 121 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKED 121 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEecc
Confidence 345999999999999999999975 7999999999996 8999999999999999999999999999999999999743
No 69
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.85 E-value=8.1e-09 Score=112.99 Aligned_cols=77 Identities=31% Similarity=0.433 Sum_probs=70.9
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
..+..++|||.|||+++||+.|++-|..||.|..+.|+. +|++|| .|.|.+.++|++|+..|+|..|+||.|+|.
T Consensus 532 aarKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~ 606 (608)
T KOG4212|consen 532 AARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVT 606 (608)
T ss_pred ccccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhccCcccCceeeee
Confidence 456789999999999999999999999999999998843 688888 899999999999999999999999999998
Q ss_pred ec
Q 040243 567 VA 568 (797)
Q Consensus 567 ~A 568 (797)
|+
T Consensus 607 y~ 608 (608)
T KOG4212|consen 607 YF 608 (608)
T ss_pred eC
Confidence 74
No 70
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.82 E-value=4.6e-09 Score=110.30 Aligned_cols=80 Identities=23% Similarity=0.474 Sum_probs=73.9
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
...++|+||||.+.++..+|++.|.+||.|.+|+|++| |+||+|+-.++|..||+.|++.+|.|++|+|.++
T Consensus 76 k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~s 147 (346)
T KOG0109|consen 76 KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLS 147 (346)
T ss_pred CCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeeee
Confidence 45679999999999999999999999999999999886 9999999999999999999999999999999998
Q ss_pred CCCCCCCC
Q 040243 569 GKPPQPTV 576 (797)
Q Consensus 569 ~~~~~~~~ 576 (797)
...-+..+
T Consensus 148 tsrlrtap 155 (346)
T KOG0109|consen 148 TSRLRTAP 155 (346)
T ss_pred ccccccCC
Confidence 87655443
No 71
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=98.81 E-value=9.1e-09 Score=123.28 Aligned_cols=96 Identities=30% Similarity=0.377 Sum_probs=87.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCC-CCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEecc
Q 040243 217 RARERLNKERQEIISQIIKRNPAF-KPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGK 295 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~-~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGk 295 (797)
++.++-.+.|.+|++.|.+.+..+ ...++|.|+..+.+ ||. ++||.||||+|+|+|.|+++|||+|.|...
T Consensus 518 ~al~~a~~~~~~I~~~m~~~l~~~~~~~~~~~p~~~~~~--I~~------~kI~~vIG~gGk~Ik~I~~~tg~~I~i~dd 589 (684)
T TIGR03591 518 QALEQAKEGRLHILGEMNKVISEPRAELSPYAPRIETIK--INP------DKIRDVIGPGGKVIREITEETGAKIDIEDD 589 (684)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccccccCCeEEEEe--cCH------HHHHhhcCCCcHHHHHHHHHHCCEEEEecC
Confidence 566677788999999999999999 56999999998888 887 899999999999999999999999999987
Q ss_pred ccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcC
Q 040243 296 GSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQ 343 (797)
Q Consensus 296 GS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~ 343 (797)
| +|.|.+.+.+.+++|.++|+.+..
T Consensus 590 G-----------------------~V~i~~~~~~~~~~a~~~I~~~~~ 614 (684)
T TIGR03591 590 G-----------------------TVKIAASDGEAAEAAIKMIEGITA 614 (684)
T ss_pred e-----------------------EEEEEECcHHHHHHHHHHHHhhhc
Confidence 7 899999999999999999999865
No 72
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.80 E-value=1.4e-08 Score=109.09 Aligned_cols=82 Identities=21% Similarity=0.400 Sum_probs=73.3
Q ss_pred CCCCCCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHH-hcCceeeccc
Q 040243 483 AKPIKELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIA-SMNGYRLEGR 561 (797)
Q Consensus 483 ~~~~~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~-~LnG~~l~Gr 561 (797)
..+.++....+|||++|...++|.+|+++|.+||+|.++.++..+ ++|||+|.++++|+.|.+ .++...|+|+
T Consensus 220 lepPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~ 293 (377)
T KOG0153|consen 220 LEPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGF 293 (377)
T ss_pred cCCCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecce
Confidence 445678889999999999999999999999999999999987764 699999999999999887 4566679999
Q ss_pred eEEEEecCC
Q 040243 562 TIAVRVAGK 570 (797)
Q Consensus 562 ~L~V~~A~~ 570 (797)
+|+|.|+..
T Consensus 294 Rl~i~Wg~~ 302 (377)
T KOG0153|consen 294 RLKIKWGRP 302 (377)
T ss_pred EEEEEeCCC
Confidence 999999987
No 73
>PLN00207 polyribonucleotide nucleotidyltransferase; Provisional
Probab=98.79 E-value=6.1e-09 Score=125.63 Aligned_cols=99 Identities=26% Similarity=0.355 Sum_probs=89.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCC-CCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcE-EEEec
Q 040243 217 RARERLNKERQEIISQIIKRNPAFK-PPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAK-IVIRG 294 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~~-pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgak-I~IrG 294 (797)
.+.++-.+.|.+|++.|.+.++..+ ..++|.|+..+.+ |+. +.||.||||+|+|||.|++|||++ |.|+.
T Consensus 652 eAL~~A~~g~~~Il~~M~~~i~~pr~~~s~~aP~i~~~~--i~~------~ki~~vIG~GGktIk~I~eetg~~~Idi~d 723 (891)
T PLN00207 652 RALLQAKDGRKHILAEMSKCSPPPSKRLSKYAPLIHIMK--VKP------EKVNMIIGSGGKKVKSIIEETGVEAIDTQD 723 (891)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhcccCCeeEEEE--cCH------HHHHHHhcCCchhHHHHHHHHCCCccCcCC
Confidence 4666777889999999999999995 5999999999888 787 999999999999999999999999 99997
Q ss_pred cccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCCCh
Q 040243 295 KGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQPVD 346 (797)
Q Consensus 295 kGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~~~ 346 (797)
.| +|.|.+.+.+++++|+++|+.|+....
T Consensus 724 dg-----------------------~V~I~a~d~~~i~~A~~~I~~l~~~~~ 752 (891)
T PLN00207 724 DG-----------------------TVKITAKDLSSLEKSKAIISSLTMVPT 752 (891)
T ss_pred Ce-----------------------eEEEEeCCHHHHHHHHHHHHHHhcCcC
Confidence 76 899999999999999999999987543
No 74
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.79 E-value=2.2e-08 Score=112.17 Aligned_cols=83 Identities=30% Similarity=0.435 Sum_probs=77.8
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
...+++|||.+|...+...||+.+|++||.|+-.+|+.+..+--.|+|+||++.+.++|.+||+.|+..+|+|+.|.|+.
T Consensus 402 s~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEk 481 (940)
T KOG4661|consen 402 STLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEK 481 (940)
T ss_pred cccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeee
Confidence 44678999999999999999999999999999999999988888899999999999999999999999999999999988
Q ss_pred cCC
Q 040243 568 AGK 570 (797)
Q Consensus 568 A~~ 570 (797)
++.
T Consensus 482 aKN 484 (940)
T KOG4661|consen 482 AKN 484 (940)
T ss_pred ccc
Confidence 765
No 75
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.78 E-value=8e-09 Score=110.63 Aligned_cols=83 Identities=30% Similarity=0.508 Sum_probs=78.4
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
..+-|||--|++-++++||.-+|+.||.|.+|.|++|+.||.+..||||+|++.+++++|.-+|+...|+.++|.|.|+.
T Consensus 238 PeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQ 317 (479)
T KOG0415|consen 238 PENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQ 317 (479)
T ss_pred CcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhh
Confidence 45689999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred CCC
Q 040243 570 KPP 572 (797)
Q Consensus 570 ~~~ 572 (797)
.-.
T Consensus 318 SVs 320 (479)
T KOG0415|consen 318 SVS 320 (479)
T ss_pred hhh
Confidence 433
No 76
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.78 E-value=4.7e-09 Score=113.98 Aligned_cols=82 Identities=28% Similarity=0.518 Sum_probs=75.0
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
+.++||||+|+|.++++.|++.|.+||+|.+|.+++|+.|+++|||+||+|++.+...++|. ..-+.|+|+.|.++.|.
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~av 83 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRAV 83 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceecc
Confidence 67899999999999999999999999999999999999999999999999999999998885 45677999999988876
Q ss_pred CCC
Q 040243 570 KPP 572 (797)
Q Consensus 570 ~~~ 572 (797)
+..
T Consensus 84 ~r~ 86 (311)
T KOG4205|consen 84 SRE 86 (311)
T ss_pred Ccc
Confidence 654
No 77
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.73 E-value=2.6e-08 Score=115.33 Aligned_cols=76 Identities=14% Similarity=0.423 Sum_probs=63.0
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcC------------CCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcC
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTF------------GDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMN 554 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~f------------G~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~Ln 554 (797)
.....++||||||++.+++++|+++|..| +.|..+.+ ++.+|||||+|.+.++|..|| .|+
T Consensus 171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~~~kg~afVeF~~~e~A~~Al-~l~ 243 (509)
T TIGR01642 171 ATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------NKEKNFAFLEFRTVEEATFAM-ALD 243 (509)
T ss_pred CCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------CCCCCEEEEEeCCHHHHhhhh-cCC
Confidence 34567899999999999999999999975 23333433 456799999999999999999 599
Q ss_pred ceeeccceEEEEecC
Q 040243 555 GYRLEGRTIAVRVAG 569 (797)
Q Consensus 555 G~~l~Gr~L~V~~A~ 569 (797)
|..|.|+.|+|....
T Consensus 244 g~~~~g~~l~v~r~~ 258 (509)
T TIGR01642 244 SIIYSNVFLKIRRPH 258 (509)
T ss_pred CeEeeCceeEecCcc
Confidence 999999999997543
No 78
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.72 E-value=2.8e-08 Score=106.72 Aligned_cols=84 Identities=31% Similarity=0.603 Sum_probs=78.7
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
.-++|||..+..+.+|+||+.+|+.||+|++|.+.++..++.+|||+|++|.+..+...||..||-+.|+|+-|+|..+.
T Consensus 209 ~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v 288 (544)
T KOG0124|consen 209 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 288 (544)
T ss_pred hhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999998776
Q ss_pred CCCC
Q 040243 570 KPPQ 573 (797)
Q Consensus 570 ~~~~ 573 (797)
.++.
T Consensus 289 TPP~ 292 (544)
T KOG0124|consen 289 TPPD 292 (544)
T ss_pred CCCc
Confidence 5543
No 79
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.69 E-value=1.7e-08 Score=104.80 Aligned_cols=83 Identities=31% Similarity=0.571 Sum_probs=74.8
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceee-c--cceEEEE
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRL-E--GRTIAVR 566 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l-~--Gr~L~V~ 566 (797)
+.++||||-|...-.|+|++.+|..||.|.+|.+++.. .|.+||||||.|.+..+|+.||..|+|..- - ...|.|+
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK 96 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK 96 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence 46789999999999999999999999999999999986 799999999999999999999999999753 3 3669999
Q ss_pred ecCCCCC
Q 040243 567 VAGKPPQ 573 (797)
Q Consensus 567 ~A~~~~~ 573 (797)
||.....
T Consensus 97 ~ADTdkE 103 (371)
T KOG0146|consen 97 FADTDKE 103 (371)
T ss_pred eccchHH
Confidence 9987653
No 80
>PF00013 KH_1: KH domain syndrome, contains KH motifs.; InterPro: IPR018111 The K homology (KH) domain was first identified in the human heterogeneous nuclear ribonucleoprotein (hnRNP) K. It is a domain of around 70 amino acids that is present in a wide variety of quite diverse nucleic acid-binding proteins []. It has been shown to bind RNA [, ]. Like many other RNA-binding motifs, KH motifs are found in one or multiple copies (14 copies in chicken vigilin) and, at least for hnRNP K (three copies) and FMR-1 (two copies), each motif is necessary for in vitro RNA binding activity, suggesting that they may function cooperatively or, in the case of single KH motif proteins (for example, Mer1p), independently []. According to structural [, , ] analysis the KH domain can be separated in two groups. The first group or type-1 contain a beta-alpha-alpha-beta-beta-alpha structure, whereas in the type-2 the two last beta-sheet are located in the N-terminal part of the domain (alpha-beta-beta-alpha-alpha-beta). Sequence similarity between these two folds are limited to a short region (VIGXXGXXI) in the RNA binding motif. This motif is located between helice 1 and 2 in type-1 and between helice 2 and 3 in type-2. Proteins known to contain a type-1 KH domain include bacterial polyribonucleotide nucleotidyltransferases (2.7.7.8 from EC); vertebrate fragile X mental retardation protein 1 (FMR1); eukaryotic heterogeneous nuclear ribonucleoprotein K (hnRNP K), one of at least 20 major proteins that are part of hnRNP particles in mammalian cells; mammalian poly(rC) binding proteins; Artemia salina glycine-rich protein GRP33; yeast PAB1-binding protein 2 (PBP2); vertebrate vigilin; and human high-density lipoprotein binding protein (HDL-binding protein). More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0003723 RNA binding; PDB: 1TUA_A 2Z0S_A 1WE8_A 4AM3_B 4AIM_A 4AID_A 2HH3_A 2JVZ_A 1J4W_A 2HH2_A ....
Probab=98.66 E-value=2.9e-08 Score=82.19 Aligned_cols=60 Identities=33% Similarity=0.558 Sum_probs=52.4
Q ss_pred EEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHH
Q 040243 252 QKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESL 331 (797)
Q Consensus 252 ~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v 331 (797)
+.+|.||. +++|+|||.+|.++|+||++|||+|.|..++ +.-.|.|+| +.++|
T Consensus 1 T~~i~vp~------~~~~~iIG~~G~~i~~I~~~t~~~I~i~~~~--------------------~~~~v~I~G-~~~~v 53 (60)
T PF00013_consen 1 TERIEVPS------SLVGRIIGKKGSNIKEIEEETGVKIQIPDDD--------------------ERDIVTISG-SPEQV 53 (60)
T ss_dssp EEEEEEEH------HHHHHHHTGGGHHHHHHHHHHTSEEEEESTT--------------------EEEEEEEEE-SHHHH
T ss_pred CEEEEECH------HHcCEEECCCCCcHHHhhhhcCeEEEEcCCC--------------------CcEEEEEEe-CHHHH
Confidence 56888998 9999999999999999999999999997541 122899999 99999
Q ss_pred HHHHHHH
Q 040243 332 EGAAAMV 338 (797)
Q Consensus 332 ~~A~~~I 338 (797)
++|.++|
T Consensus 54 ~~A~~~I 60 (60)
T PF00013_consen 54 EKAKKMI 60 (60)
T ss_dssp HHHHHHH
T ss_pred HHHHhhC
Confidence 9999887
No 81
>cd00105 KH-I K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is folded into a beta alpha alpha beta unit. In addition to the core, type II KH domains (e.g. ribosomal protein S3) include N-terminal extension and type I KH domains (e.g. hnRNP K) contain C-terminal extension.
Probab=98.61 E-value=1.2e-07 Score=78.90 Aligned_cols=63 Identities=35% Similarity=0.569 Sum_probs=52.3
Q ss_pred EEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHH
Q 040243 253 KKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLE 332 (797)
Q Consensus 253 ~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~ 332 (797)
.+|.||. +++|+|||++|+++++|+++|||+|.|...++ ...+-.|.|.|. .+.+.
T Consensus 2 ~~i~ip~------~~~~~vIG~~G~~i~~I~~~s~~~I~i~~~~~-----------------~~~~~~v~i~G~-~~~v~ 57 (64)
T cd00105 2 ERVLVPS------SLVGRIIGKGGSTIKEIREETGAKIKIPDSGS-----------------GSEERIVTITGT-PEAVE 57 (64)
T ss_pred EEEEEch------hhcceeECCCCHHHHHHHHHHCCEEEEcCCCC-----------------CCCceEEEEEcC-HHHHH
Confidence 5788998 99999999999999999999999999996542 223347889988 68888
Q ss_pred HHHHHHH
Q 040243 333 GAAAMVE 339 (797)
Q Consensus 333 ~A~~~I~ 339 (797)
+|..+|+
T Consensus 58 ~a~~~i~ 64 (64)
T cd00105 58 KAKELIL 64 (64)
T ss_pred HHHHHhC
Confidence 8888763
No 82
>COG1185 Pnp Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) [Translation, ribosomal structure and biogenesis]
Probab=98.58 E-value=8.8e-08 Score=111.40 Aligned_cols=100 Identities=29% Similarity=0.324 Sum_probs=90.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCC-CCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccc
Q 040243 218 ARERLNKERQEIISQIIKRNPAFK-PPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 218 ~~~~le~er~~li~~~~~~~p~~~-pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkG 296 (797)
+-.+....|.+|++.|.+.+...+ +.+.|+|...+.| |++ +.|+.+|||+|+|+|.|.++|||||.|..+|
T Consensus 520 AL~QAk~aRlhIL~~M~~ai~~pr~els~~aPri~t~~--i~~------dKI~dvIG~gGk~I~~I~eetg~~IdieddG 591 (692)
T COG1185 520 ALEQAKGARLHILIVMNEAISEPRKELSPYAPRIETIK--IDP------DKIRDVIGPGGKTIKAITEETGVKIDIEDDG 591 (692)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCceEEEc--cCH------HHHhhccCCcccchhhhhhhhCcEEEecCCC
Confidence 556667889999999999999995 8999999999999 777 7889999999999999999999999999888
Q ss_pred cccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCCChHH
Q 040243 297 SVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQPVDEV 348 (797)
Q Consensus 297 S~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~~~e~ 348 (797)
.|.|++.+.+++.+|.+.|+.++..+..+
T Consensus 592 -----------------------tv~i~~s~~~~~~~ak~~I~~i~~e~evg 620 (692)
T COG1185 592 -----------------------TVKIAASDGESAKKAKERIEAITREVEVG 620 (692)
T ss_pred -----------------------cEEEEecchHHHHHHHHHHHHHHhhcccc
Confidence 68899999999999999999999665544
No 83
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.55 E-value=1.9e-07 Score=98.16 Aligned_cols=86 Identities=30% Similarity=0.470 Sum_probs=78.8
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
+...++|+|.||+..|+++||+++|..||.+..+.|.+|+ +|.+.|.|-|.|...++|.+|++.|+|..|+|+.|++.+
T Consensus 80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~ 158 (243)
T KOG0533|consen 80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEI 158 (243)
T ss_pred CCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEE
Confidence 3445899999999999999999999999999999999997 899999999999999999999999999999999999998
Q ss_pred cCCCCCC
Q 040243 568 AGKPPQP 574 (797)
Q Consensus 568 A~~~~~~ 574 (797)
.......
T Consensus 159 i~~~~~~ 165 (243)
T KOG0533|consen 159 ISSPSQS 165 (243)
T ss_pred ecCcccc
Confidence 7765543
No 84
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.53 E-value=1.5e-07 Score=108.89 Aligned_cols=79 Identities=25% Similarity=0.503 Sum_probs=71.1
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCC---cccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTG---MSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TG---ksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
.++|||.||++.++.++|..+|...|.|.++.|.+.+... .|.|||||+|.+.++|++|++.|+|+.|+|+.|.|++
T Consensus 515 ~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~ 594 (725)
T KOG0110|consen 515 ETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKI 594 (725)
T ss_pred chhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEe
Confidence 3449999999999999999999999999999887665321 3569999999999999999999999999999999999
Q ss_pred cC
Q 040243 568 AG 569 (797)
Q Consensus 568 A~ 569 (797)
+.
T Consensus 595 S~ 596 (725)
T KOG0110|consen 595 SE 596 (725)
T ss_pred cc
Confidence 98
No 85
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.53 E-value=1.7e-07 Score=104.89 Aligned_cols=75 Identities=31% Similarity=0.546 Sum_probs=70.9
Q ss_pred cEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCCC
Q 040243 492 TNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGKP 571 (797)
Q Consensus 492 ~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~~ 571 (797)
..|||| .++||.+|.++|+.+|.|++++|.+|- | +-|||||.|.+.++|++||+.||...|.|+.|++.|+...
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd 75 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRD 75 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccC
Confidence 369999 899999999999999999999999998 6 9999999999999999999999999999999999998765
Q ss_pred C
Q 040243 572 P 572 (797)
Q Consensus 572 ~ 572 (797)
.
T Consensus 76 ~ 76 (369)
T KOG0123|consen 76 P 76 (369)
T ss_pred C
Confidence 4
No 86
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.52 E-value=6.7e-08 Score=111.65 Aligned_cols=83 Identities=23% Similarity=0.436 Sum_probs=77.1
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
..++|+|.||++..+-.+++.+|..||.|.+|+|..-...+.+||||||+|-+..+|.+|++.|..+-|.||+|.++||+
T Consensus 612 ~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~ 691 (725)
T KOG0110|consen 612 KGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAK 691 (725)
T ss_pred ccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhc
Confidence 46799999999999999999999999999999998876677789999999999999999999999999999999999997
Q ss_pred CCC
Q 040243 570 KPP 572 (797)
Q Consensus 570 ~~~ 572 (797)
...
T Consensus 692 ~d~ 694 (725)
T KOG0110|consen 692 SDN 694 (725)
T ss_pred cch
Confidence 643
No 87
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.50 E-value=1.3e-07 Score=103.03 Aligned_cols=85 Identities=19% Similarity=0.427 Sum_probs=78.5
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
...+||||+|+.++++++|++.|.+||.|.++.++.|..+.++|||+||+|.+++++.+++. ..-+.|.++.+.|+.|.
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~ 174 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAI 174 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeecc
Confidence 45689999999999999999999999999999999999999999999999999999999985 57889999999999998
Q ss_pred CCCCCC
Q 040243 570 KPPQPT 575 (797)
Q Consensus 570 ~~~~~~ 575 (797)
++....
T Consensus 175 pk~~~~ 180 (311)
T KOG4205|consen 175 PKEVMQ 180 (311)
T ss_pred chhhcc
Confidence 876544
No 88
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=98.48 E-value=1.7e-07 Score=112.77 Aligned_cols=97 Identities=30% Similarity=0.394 Sum_probs=87.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCC-CCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEecc
Q 040243 217 RARERLNKERQEIISQIIKRNPAFK-PPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGK 295 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~~-pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGk 295 (797)
++.++-.+.|.+|++.|.+.+...+ ..++|.|+..+.+ |+. +.|+.|||++|.|||.|+++||++|.|+..
T Consensus 521 ~al~~a~~g~~~I~~~M~~aI~~~r~~~~~~ap~~~~~~--I~~------~kI~~vIG~gg~~ik~I~~~~~~~idi~d~ 592 (693)
T PRK11824 521 EALEQAKEGRLHILGKMNEAISEPRAELSPYAPRIETIK--IPP------DKIRDVIGPGGKTIREITEETGAKIDIEDD 592 (693)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCChhhhcccCchheeec--CCH------HHHHHHhcCCchhHHHHHHHHCCccccCCC
Confidence 5667777889999999999999884 5889999888888 565 889999999999999999999999999977
Q ss_pred ccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 296 GSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 296 GS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
| +|.|++.+.+++++|.++|+.++..
T Consensus 593 G-----------------------~v~i~~~~~~~~~~a~~~I~~~~~~ 618 (693)
T PRK11824 593 G-----------------------TVKIAATDGEAAEAAKERIEGITAE 618 (693)
T ss_pred c-----------------------eEEEEcccHHHHHHHHHHHHHhccc
Confidence 7 8999999999999999999998854
No 89
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.45 E-value=1.3e-07 Score=98.14 Aligned_cols=84 Identities=38% Similarity=0.550 Sum_probs=77.9
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
+.+..+||+|.|...++++.|...|.+|-.....++++|+.||+++||+||.|.+..++.+|+..|+|..++.+.|+++-
T Consensus 187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK 266 (290)
T ss_pred ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999998875
Q ss_pred cCCC
Q 040243 568 AGKP 571 (797)
Q Consensus 568 A~~~ 571 (797)
+..+
T Consensus 267 S~wk 270 (290)
T KOG0226|consen 267 SEWK 270 (290)
T ss_pred hhHH
Confidence 5443
No 90
>cd02394 vigilin_like_KH K homology RNA-binding domain_vigilin_like. The vigilin family is a large and extended family of multiple KH-domain proteins, including vigilin, also called high density lipoprotein binding protien (HBP), fungal Scp160 and bicaudal-C. Yeast Scp160p has been shown to bind RNA and to associate with both soluble and membrane-bound polyribosomes as a mRNP component. Bicaudal-C is a RNA-binding molecule believed to function in embryonic development at the post-transcriptional level. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=98.45 E-value=2.3e-07 Score=77.28 Aligned_cols=60 Identities=25% Similarity=0.463 Sum_probs=50.6
Q ss_pred EEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHH
Q 040243 253 KKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLE 332 (797)
Q Consensus 253 ~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~ 332 (797)
++|.||. .++|.|||++|+++|+|+++|||+|.|-... +..=.|.|+|. .++|.
T Consensus 2 ~~i~Vp~------~~~~~iIG~~G~~i~~i~~~~g~~I~i~~~~-------------------~~~~~v~I~G~-~~~v~ 55 (62)
T cd02394 2 EEVEIPK------KLHRFIIGKKGSNIRKIMEETGVKIRFPDPG-------------------SKSDTITITGP-KENVE 55 (62)
T ss_pred eEEEeCH------HHhhhccCCCCCcHHHHHHHhCCEEEcCCCC-------------------CCCCEEEEEcC-HHHHH
Confidence 5678888 8899999999999999999999999998644 11127999999 78999
Q ss_pred HHHHHH
Q 040243 333 GAAAMV 338 (797)
Q Consensus 333 ~A~~~I 338 (797)
+|+++|
T Consensus 56 ~A~~~i 61 (62)
T cd02394 56 KAKEEI 61 (62)
T ss_pred HHHHHh
Confidence 998876
No 91
>smart00322 KH K homology RNA-binding domain.
Probab=98.42 E-value=1.1e-06 Score=72.65 Aligned_cols=66 Identities=39% Similarity=0.600 Sum_probs=56.5
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHH
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQES 330 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~ 330 (797)
.+.+|.||. +++|+|||.+|+++|+|+++|||+|.|....+ ..-+|.|.+. .+.
T Consensus 3 ~~~~i~i~~------~~~~~liG~~G~~i~~i~~~~~~~i~~~~~~~-------------------~~~~v~i~g~-~~~ 56 (69)
T smart00322 3 VTIEVLIPA------DKVGLIIGKGGSTIKKIEEETGVKIDIPEDGS-------------------EERVVEITGP-PEN 56 (69)
T ss_pred eEEEEEEcc------hhcceeECCCchHHHHHHHHHCCEEEECCCCC-------------------CccEEEEEcC-HHH
Confidence 567888988 89999999999999999999999999986542 2237899998 789
Q ss_pred HHHHHHHHHHhc
Q 040243 331 LEGAAAMVEKLL 342 (797)
Q Consensus 331 v~~A~~~I~~ll 342 (797)
+..|..+|.+++
T Consensus 57 v~~a~~~i~~~~ 68 (69)
T smart00322 57 VEKAAELILEIL 68 (69)
T ss_pred HHHHHHHHHHHh
Confidence 999999998876
No 92
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.41 E-value=1.4e-06 Score=88.92 Aligned_cols=87 Identities=20% Similarity=0.341 Sum_probs=70.7
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEE-EecCCCCcccceEEEEecCHHHHHHHHHhcCceeec---cceEEE
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKV-IKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE---GRTIAV 565 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v-~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~---Gr~L~V 565 (797)
..+||||.+||.++.-.+|..+|..|---..+.| +.++....++-+|||+|.+.+.|..|+..|||..|+ +..|++
T Consensus 33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhi 112 (284)
T KOG1457|consen 33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHI 112 (284)
T ss_pred ccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEe
Confidence 4679999999999999999999999843333333 344444456789999999999999999999999997 788999
Q ss_pred EecCCCCCCCC
Q 040243 566 RVAGKPPQPTV 576 (797)
Q Consensus 566 ~~A~~~~~~~~ 576 (797)
++|+...+...
T Consensus 113 ElAKSNtK~kr 123 (284)
T KOG1457|consen 113 ELAKSNTKRKR 123 (284)
T ss_pred eehhcCccccc
Confidence 99987655443
No 93
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=98.39 E-value=7.2e-08 Score=96.85 Aligned_cols=87 Identities=25% Similarity=0.442 Sum_probs=60.8
Q ss_pred CCceEEEEecCHHHHHHHHHHHHHhcCCC---hHHHHHHHHHHHHHHHhhcCCcCc-cchhcccCCCCCccccCC-----
Q 040243 317 EDLHVLVEAETQESLEGAAAMVEKLLQPV---DEVLNEHKRQQLRELAALNGTIRD-EEYCRLCGEPGHRQYACP----- 387 (797)
Q Consensus 317 e~LHv~I~a~~~e~v~~A~~~I~~ll~~~---~e~~n~~k~~Ql~ela~lnGt~r~-~~~c~~cg~~gh~~~~cp----- 387 (797)
+++|.+|+..++|.......++-.-++.- ...++.. ++++ ...|-+||+.||++++||
T Consensus 16 ~~~~~~~~~s~ee~~~~~~~~~~~~~~~~~~~~~~~d~~-------------~~~~~~~~C~nCg~~GH~~~DCP~~iC~ 82 (190)
T COG5082 16 LPIDKLSANSIEESSSNPNELRSLRSSGRYEDRSVEDVS-------------AIREENPVCFNCGQNGHLRRDCPHSICY 82 (190)
T ss_pred cChhhhcccchhhhhcCccceeeccceeeeecccccccc-------------cccccccccchhcccCcccccCChhHhh
Confidence 89999999999998877766655544321 1111111 4444 359999999999999999
Q ss_pred ------CCCCCccccccceecCCCCCCcccC-CCCC
Q 040243 388 ------SRTSTFKSDVLCKICGDGGHPTIDC-LVKG 416 (797)
Q Consensus 388 ------~~~~~~~~~v~Cr~CG~~gH~t~dC-p~k~ 416 (797)
...+-....++|.+||..||+.+|| |.+.
T Consensus 83 ~C~~~~H~s~~C~~~~~C~~Cg~~GH~~~dC~P~~~ 118 (190)
T COG5082 83 NCSWDGHRSNHCPKPKKCYNCGETGHLSRDCNPSKD 118 (190)
T ss_pred hcCCCCcccccCCcccccccccccCccccccCcccc
Confidence 1111123458999999999999999 5543
No 94
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.39 E-value=3.7e-07 Score=95.88 Aligned_cols=84 Identities=23% Similarity=0.450 Sum_probs=78.9
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
.+.+...+||+|+.++++.+++...|+.||.|..+.|..|+.++.+|||+||+|.+.+.++.|+. |++..|.|+.+.|.
T Consensus 97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt 175 (231)
T KOG4209|consen 97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVT 175 (231)
T ss_pred hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceee
Confidence 45678899999999999999999999999999999999999999999999999999999999997 99999999999999
Q ss_pred ecCCC
Q 040243 567 VAGKP 571 (797)
Q Consensus 567 ~A~~~ 571 (797)
+....
T Consensus 176 ~~r~~ 180 (231)
T KOG4209|consen 176 LKRTN 180 (231)
T ss_pred eeeee
Confidence 87654
No 95
>KOG1960 consensus Predicted RNA-binding protein, contains KH domains [RNA processing and modification]
Probab=98.39 E-value=3.5e-07 Score=99.60 Aligned_cols=93 Identities=18% Similarity=0.092 Sum_probs=80.9
Q ss_pred ceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHH
Q 040243 250 KLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQE 329 (797)
Q Consensus 250 ~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e 329 (797)
++..|++|++| .|.||.-+..=|++..+|..+|.||++++.||||+|+. ++.-.+.+.+|+++|+|++.+.+
T Consensus 209 ~Y~~k~~v~~~-~P~~~~K~~~~~r~d~~La~~~ie~~i~~l~~Gr~SG~-------iEP~~G~EsnEPMYI~i~h~~~~ 280 (531)
T KOG1960|consen 209 YYPNKALATDK-DPPLYLKIVSHNRKDLTLALQEIESWINPLIDGRRSGR-------REPNEGNESNEPMYIFSTHGNGN 280 (531)
T ss_pred cchhheecccC-CcchhhhhhccCccchhhhhhhhhhhhhhhhccccccc-------cCcccccccCCceeEEeecCCch
Confidence 45558999987 79999999999999999999999999999999999975 23334558899999999999999
Q ss_pred HHHHHHHHHHHhcCCChHHHH
Q 040243 330 SLEGAAAMVEKLLQPVDEVLN 350 (797)
Q Consensus 330 ~v~~A~~~I~~ll~~~~e~~n 350 (797)
.+.+|+.+|++|++.|.-.+.
T Consensus 281 g~~~A~r~~~nl~~~v~~~~s 301 (531)
T KOG1960|consen 281 GENGAPRRKWNLEEKVYINLS 301 (531)
T ss_pred hhccchhHHHhHHHHHHHHhh
Confidence 999999999999988765443
No 96
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.37 E-value=8.5e-07 Score=95.47 Aligned_cols=81 Identities=25% Similarity=0.343 Sum_probs=74.8
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEE--------EEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeecc
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVM--------AKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEG 560 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~--------v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~G 560 (797)
..++.|||.|||.++|.+++.++|++||.|.+ |+|.++. .|+.||=|++.|..+++++.||..|++..|.|
T Consensus 132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg 210 (382)
T KOG1548|consen 132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELRG 210 (382)
T ss_pred ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccccC
Confidence 45677999999999999999999999998865 8999997 59999999999999999999999999999999
Q ss_pred ceEEEEecCC
Q 040243 561 RTIAVRVAGK 570 (797)
Q Consensus 561 r~L~V~~A~~ 570 (797)
+.|+|+.|+-
T Consensus 211 ~~~rVerAkf 220 (382)
T KOG1548|consen 211 KKLRVERAKF 220 (382)
T ss_pred cEEEEehhhh
Confidence 9999998853
No 97
>cd02396 PCBP_like_KH K homology RNA-binding domain, PCBP_like. Members of this group possess KH domains in a tandem arrangement. Most members, similar to the poly(C) binding proteins (PCBPs) and Nova, containing three KH domains, with the first and second domains, which are represented here, in tandem arrangement, followed by a large spacer region, with the third domain near the C-terminal end of the protein. The poly(C) binding proteins (PCBPs) can be divided into two groups, hnRNPs K/J and the alphaCPs, which share a triple KH domain configuration and poly(C) binding specificity. They play roles in mRNA stabilization, translational activation, and translational silencing. Nova-1 and Nova-2 are nuclear RNA-binding proteins that regulate splicing. This group also contains plant proteins that seem to have two tandem repeat arrrangements, like Hen4, a protein that plays a role in AGAMOUS (AG) pre-mRNA processing and important step in plant development. In general, KH binds single-stran
Probab=98.35 E-value=1.3e-06 Score=73.80 Aligned_cols=63 Identities=30% Similarity=0.452 Sum_probs=50.3
Q ss_pred EEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHH
Q 040243 253 KKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLE 332 (797)
Q Consensus 253 ~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~ 332 (797)
.||+||. +.+|+|||.+|.++|+|+++|||+|.|..... ...++ --|.|+|+ .+.++
T Consensus 2 ~r~~ip~------~~vg~iIG~~G~~i~~i~~~tga~I~i~~~~~---------------~~~~~-r~v~I~G~-~~~v~ 58 (65)
T cd02396 2 LRLLVPS------SQAGSIIGKGGSTIKEIREETGAKIRVSKSVL---------------PGSTE-RVVTISGK-PSAVQ 58 (65)
T ss_pred EEEEECH------HHcCeeECCCcHHHHHHHHHHCCEEEEcCCCC---------------CCCCc-eEEEEEeC-HHHHH
Confidence 5889998 99999999999999999999999999964321 01122 25778876 78999
Q ss_pred HHHHHH
Q 040243 333 GAAAMV 338 (797)
Q Consensus 333 ~A~~~I 338 (797)
+|.++|
T Consensus 59 ~A~~~I 64 (65)
T cd02396 59 KALLLI 64 (65)
T ss_pred HHHHhh
Confidence 998887
No 98
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.27 E-value=3.3e-06 Score=97.64 Aligned_cols=85 Identities=26% Similarity=0.483 Sum_probs=75.4
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCC---CCcccceEEEEecCHHHHHHHHHhcCceeeccceEE
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRV---TGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIA 564 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~---TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~ 564 (797)
+...++|||+||+..++++.|...|..||.|..|+|+.-+. ..+-+-|+||.|.+..+|++|++.|+|..+.++.++
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K 250 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMK 250 (877)
T ss_pred CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence 34568999999999999999999999999999999987662 234567999999999999999999999999999999
Q ss_pred EEecCCCC
Q 040243 565 VRVAGKPP 572 (797)
Q Consensus 565 V~~A~~~~ 572 (797)
+.|++.-.
T Consensus 251 ~gWgk~V~ 258 (877)
T KOG0151|consen 251 LGWGKAVP 258 (877)
T ss_pred eccccccc
Confidence 99987543
No 99
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.25 E-value=3.2e-07 Score=93.36 Aligned_cols=79 Identities=16% Similarity=0.169 Sum_probs=72.8
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
..+||||+||...++|+-|.++|.+-|.|.+|.|..++ .++.| ||||.|.++.++.-|++.|||..+.++.|.|.+-.
T Consensus 8 ~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~ 85 (267)
T KOG4454|consen 8 MDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRC 85 (267)
T ss_pred hhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhccccc
Confidence 46799999999999999999999999999999998887 56777 99999999999999999999999999999998755
Q ss_pred C
Q 040243 570 K 570 (797)
Q Consensus 570 ~ 570 (797)
.
T Consensus 86 G 86 (267)
T KOG4454|consen 86 G 86 (267)
T ss_pred C
Confidence 4
No 100
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.22 E-value=1.8e-06 Score=97.35 Aligned_cols=83 Identities=23% Similarity=0.408 Sum_probs=69.6
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
....+|||+|||.+++.++|+++|.+||.|+...|..-.-.++..+||||+|.+.++++.||+. +-..|++++|.|+-.
T Consensus 286 ~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek 364 (419)
T KOG0116|consen 286 ADGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEK 364 (419)
T ss_pred ecccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEec
Confidence 3455699999999999999999999999999988765443455559999999999999999975 577899999999875
Q ss_pred CCCC
Q 040243 569 GKPP 572 (797)
Q Consensus 569 ~~~~ 572 (797)
+...
T Consensus 365 ~~~~ 368 (419)
T KOG0116|consen 365 RPGF 368 (419)
T ss_pred cccc
Confidence 5433
No 101
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.21 E-value=8.8e-07 Score=91.47 Aligned_cols=73 Identities=30% Similarity=0.564 Sum_probs=66.5
Q ss_pred cEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCCC
Q 040243 492 TNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGKP 571 (797)
Q Consensus 492 ~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~~ 571 (797)
..||||+|++.+.+.+|..||..||.|.+|.+.. ||+||+|.+..+|..||..||+.+|.|.++.|+|+...
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~--------gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKN--------GFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceeec--------ccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 3699999999999999999999999999987633 69999999999999999999999999999999998754
Q ss_pred C
Q 040243 572 P 572 (797)
Q Consensus 572 ~ 572 (797)
.
T Consensus 74 ~ 74 (216)
T KOG0106|consen 74 R 74 (216)
T ss_pred c
Confidence 3
No 102
>PRK13763 putative RNA-processing protein; Provisional
Probab=98.20 E-value=2.2e-06 Score=86.91 Aligned_cols=66 Identities=30% Similarity=0.531 Sum_probs=58.8
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEecc-ccccccccccccCCCCCCCCCCCceEEEE---ec
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGK-GSVKEGRLQQKRDLKPDPSENEDLHVLVE---AE 326 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGk-GS~k~g~~~~~~~~~~~~~~~e~LHv~I~---a~ 326 (797)
....|.||. +.||+|||++|+|+|.|+++|||+|.|..+ | .|.|. +.
T Consensus 3 ~~~~i~IP~------~kig~iIG~gGk~Ik~I~e~tg~~I~i~~~~g-----------------------~V~I~~~~~~ 53 (180)
T PRK13763 3 MMEYVKIPK------DRIGVLIGKKGETKKEIEERTGVKLEIDSETG-----------------------EVIIEPTDGE 53 (180)
T ss_pred ceEEEEcCH------HHhhhHhccchhHHHHHHHHHCcEEEEECCCC-----------------------eEEEEeCCCC
Confidence 345777888 899999999999999999999999999965 3 78898 88
Q ss_pred CHHHHHHHHHHHHHhcCCC
Q 040243 327 TQESLEGAAAMVEKLLQPV 345 (797)
Q Consensus 327 ~~e~v~~A~~~I~~ll~~~ 345 (797)
+.+++++|.++|+.|+..+
T Consensus 54 d~~~i~kA~~~I~ai~~gf 72 (180)
T PRK13763 54 DPLAVLKARDIVKAIGRGF 72 (180)
T ss_pred CHHHHHHHHHHHHHHhcCC
Confidence 9999999999999998853
No 103
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.15 E-value=4.6e-06 Score=90.63 Aligned_cols=87 Identities=26% Similarity=0.364 Sum_probs=80.0
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEE--------EEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceee
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVM--------AKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRL 558 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~--------v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l 558 (797)
......+|||-+|+..+++++|.++|.++|.|.. |+|.+|+.|++.||-|.|+|++...|+.||+.+++..|
T Consensus 62 ~~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf 141 (351)
T KOG1995|consen 62 DKSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDF 141 (351)
T ss_pred cccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccc
Confidence 3566789999999999999999999999998854 78999999999999999999999999999999999999
Q ss_pred ccceEEEEecCCCCC
Q 040243 559 EGRTIAVRVAGKPPQ 573 (797)
Q Consensus 559 ~Gr~L~V~~A~~~~~ 573 (797)
.+..|+|.+|.....
T Consensus 142 ~gn~ikvs~a~~r~~ 156 (351)
T KOG1995|consen 142 CGNTIKVSLAERRTG 156 (351)
T ss_pred cCCCchhhhhhhccC
Confidence 999999999876653
No 104
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=98.12 E-value=2.5e-06 Score=85.95 Aligned_cols=62 Identities=32% Similarity=0.505 Sum_probs=54.5
Q ss_pred EEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEecc-ccccccccccccCCCCCCCCCCCceEEE--EecCHHHH
Q 040243 255 LYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGK-GSVKEGRLQQKRDLKPDPSENEDLHVLV--EAETQESL 331 (797)
Q Consensus 255 i~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGk-GS~k~g~~~~~~~~~~~~~~~e~LHv~I--~a~~~e~v 331 (797)
|.||. +.||+|||++|+|+|+||++|||+|.|..+ | .|.| .+.+.+++
T Consensus 2 i~Ip~------~kig~vIG~gG~~Ik~I~~~tgv~I~Id~~~g-----------------------~V~I~~~t~d~~~i 52 (172)
T TIGR03665 2 VKIPK------DRIGVLIGKGGETKKEIEERTGVKLDIDSETG-----------------------EVKIEEEDEDPLAV 52 (172)
T ss_pred ccCCH------HHhhhHhCCchhHHHHHHHHhCcEEEEEcCCc-----------------------eEEEecCCCCHHHH
Confidence 45666 899999999999999999999999999954 3 6788 68889999
Q ss_pred HHHHHHHHHhcCCC
Q 040243 332 EGAAAMVEKLLQPV 345 (797)
Q Consensus 332 ~~A~~~I~~ll~~~ 345 (797)
.+|.++|+.|+..+
T Consensus 53 ~kA~~~I~~i~~gf 66 (172)
T TIGR03665 53 MKAREVVKAIGRGF 66 (172)
T ss_pred HHHHHHHHHHHcCC
Confidence 99999999998853
No 105
>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=98.11 E-value=1.3e-05 Score=73.23 Aligned_cols=81 Identities=20% Similarity=0.265 Sum_probs=71.4
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhc--CCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeec----cceEE
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFST--FGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE----GRTIA 564 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~--fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~----Gr~L~ 564 (797)
.+||.|.|||...+.++|.+++.. .|....+++..|-.++.+.|||||.|.+.+.|.+-.+.++|+.+. .+.+.
T Consensus 1 RTTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~ 80 (97)
T PF04059_consen 1 RTTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCE 80 (97)
T ss_pred CeeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEE
Confidence 369999999999999999988876 377788999999999999999999999999999999999998775 56788
Q ss_pred EEecCCC
Q 040243 565 VRVAGKP 571 (797)
Q Consensus 565 V~~A~~~ 571 (797)
|.||+-+
T Consensus 81 i~yAriQ 87 (97)
T PF04059_consen 81 ISYARIQ 87 (97)
T ss_pred EehhHhh
Confidence 8888643
No 106
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.09 E-value=2e-06 Score=97.56 Aligned_cols=73 Identities=26% Similarity=0.547 Sum_probs=66.3
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEE
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIA 564 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~ 564 (797)
.+....+|+|-||+..|++++|+.+|+.||+|+.|+... ..+|..||+|.|..+|++|++.|++..+.|+.|+
T Consensus 71 ~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~-----~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 71 KDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETP-----NKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred ccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccc-----ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 355678999999999999999999999999999976544 4579999999999999999999999999999988
No 107
>PF13014 KH_3: KH domain
Probab=97.91 E-value=8.4e-06 Score=63.28 Aligned_cols=28 Identities=54% Similarity=0.771 Sum_probs=26.9
Q ss_pred eeeeeeCCCchhHHHHHHHhCcEEEEec
Q 040243 267 FIGLIIGPRGNTQKRMERETGAKIVIRG 294 (797)
Q Consensus 267 fiG~iiGPrG~t~K~le~eTgakI~IrG 294 (797)
|+|+|||++|.|+|+|+++|||+|.|--
T Consensus 1 ~vg~iIG~~G~~I~~I~~~tg~~I~i~~ 28 (43)
T PF13014_consen 1 FVGRIIGKGGSTIKEIREETGAKIQIPP 28 (43)
T ss_pred CcCeEECCCChHHHHHHHHhCcEEEECC
Confidence 6899999999999999999999999985
No 108
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.91 E-value=1.1e-05 Score=92.42 Aligned_cols=88 Identities=30% Similarity=0.536 Sum_probs=81.6
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
-...+++||++|+..+++..++++...||.+....++.|..+|.++||||.+|.+......||..|||..++++.|.|..
T Consensus 286 ~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~ 365 (500)
T KOG0120|consen 286 PDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQR 365 (500)
T ss_pred ccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeeh
Confidence 35678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCC
Q 040243 568 AGKPPQPT 575 (797)
Q Consensus 568 A~~~~~~~ 575 (797)
|.......
T Consensus 366 A~~g~~~~ 373 (500)
T KOG0120|consen 366 AIVGASNA 373 (500)
T ss_pred hhccchhc
Confidence 87655433
No 109
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification]
Probab=97.90 E-value=1.8e-05 Score=90.81 Aligned_cols=73 Identities=25% Similarity=0.429 Sum_probs=56.3
Q ss_pred EEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHH
Q 040243 252 QKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESL 331 (797)
Q Consensus 252 ~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v 331 (797)
+..|-||- +.||.|||-+|.|||+|+.|||+||.++= |+ +..-++.+++.=-+.++|
T Consensus 231 ~~~V~VPr------~~VG~IIGkgGE~IKklq~etG~KIQfkp-------------Dd----~p~speR~~~IiG~~d~i 287 (600)
T KOG1676|consen 231 TREVKVPR------SKVGIIIGKGGEMIKKLQNETGAKIQFKP-------------DD----DPSSPERPAQIIGTVDQI 287 (600)
T ss_pred eeEEeccc------cceeeEEecCchHHHHHhhccCceeEeec-------------CC----CCCCccceeeeecCHHHH
Confidence 55566887 89999999999999999999999999983 21 113334444444467999
Q ss_pred HHHHHHHHHhcCCChH
Q 040243 332 EGAAAMVEKLLQPVDE 347 (797)
Q Consensus 332 ~~A~~~I~~ll~~~~e 347 (797)
.+|.+||.+||..+.+
T Consensus 288 e~Aa~lI~eii~~~~~ 303 (600)
T KOG1676|consen 288 EHAAELINEIIAEAEA 303 (600)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 9999999999986443
No 110
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=97.85 E-value=9.2e-05 Score=86.75 Aligned_cols=8 Identities=13% Similarity=0.343 Sum_probs=3.0
Q ss_pred HHHHHHHh
Q 040243 334 AAAMVEKL 341 (797)
Q Consensus 334 A~~~I~~l 341 (797)
|++++-.|
T Consensus 254 vvkllsal 261 (1102)
T KOG1924|consen 254 VVKLLSAL 261 (1102)
T ss_pred HHHHHHHH
Confidence 33333333
No 111
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.84 E-value=5.1e-06 Score=94.23 Aligned_cols=82 Identities=28% Similarity=0.419 Sum_probs=77.4
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
++.+.+|||+-.|.-.++..+|.++|+.+|.|.+|.++.|+.++.+||.|||+|.+.+++..|| .|.|..+.|..|.|.
T Consensus 175 eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq 253 (549)
T KOG0147|consen 175 EERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQ 253 (549)
T ss_pred hHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEec
Confidence 5677899999999999999999999999999999999999999999999999999999999999 699999999999998
Q ss_pred ecC
Q 040243 567 VAG 569 (797)
Q Consensus 567 ~A~ 569 (797)
...
T Consensus 254 ~sE 256 (549)
T KOG0147|consen 254 LSE 256 (549)
T ss_pred ccH
Confidence 754
No 112
>TIGR03665 arCOG04150 arCOG04150 universal archaeal KH domain protein. This family of proteins is universal among the 41 archaeal genomes analyzed in and is not observed outside of the archaea. The proteins contain a single KH domain (pfam00013) which is likely to confer the ability to bind RNA.
Probab=97.84 E-value=2.2e-05 Score=79.14 Aligned_cols=53 Identities=32% Similarity=0.446 Sum_probs=48.7
Q ss_pred eeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 267 FIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 267 fiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
.+|+|||++|.|+|.||..|||+|.|-|+ .|.|.| +.+.++.|.++|+.||..
T Consensus 99 ~~griIG~~G~t~~~ie~~t~~~i~i~~~------------------------~v~i~G-~~~~~~~A~~~i~~li~~ 151 (172)
T TIGR03665 99 IKGRIIGEGGKTRRIIEELTGVSISVYGK------------------------TVGIIG-DPEQVQIAREAIEMLIEG 151 (172)
T ss_pred HHhhhcCCCcHHHHHHHHHHCCeEEEcCC------------------------EEEEEC-CHHHHHHHHHHHHHHHcC
Confidence 68999999999999999999999999741 799999 899999999999999964
No 113
>KOG1676 consensus K-homology type RNA binding proteins [RNA processing and modification]
Probab=97.84 E-value=5.8e-05 Score=86.78 Aligned_cols=75 Identities=27% Similarity=0.552 Sum_probs=62.1
Q ss_pred CCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecC
Q 040243 248 PPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAET 327 (797)
Q Consensus 248 p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~ 327 (797)
..+.+.+|.||. |.+|+|||-+|.|+|+|+++||||+.+--.|+.-.+ .+. -+.|+++
T Consensus 136 ~~~ttqeI~IPa------~k~GlIIGKgGETikqlqe~sg~k~i~iqd~~~~~~-------------~~K--plritGd- 193 (600)
T KOG1676|consen 136 SVETTQEILIPA------NKCGLIIGKGGETIKQLQEQSGVKMILVQDGSIATG-------------ADK--PLRITGD- 193 (600)
T ss_pred ccceeeeeccCc------cceeeEeccCccHHHHHHhhcCCceEEEecCCcCCC-------------CCC--ceeecCC-
Confidence 577899999998 999999999999999999999999998877754332 122 3456665
Q ss_pred HHHHHHHHHHHHHhcCC
Q 040243 328 QESLEGAAAMVEKLLQP 344 (797)
Q Consensus 328 ~e~v~~A~~~I~~ll~~ 344 (797)
.++|+.|.+||.++|..
T Consensus 194 p~~ve~a~~lV~dil~e 210 (600)
T KOG1676|consen 194 PDKVEQAKQLVADILRE 210 (600)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 68999999999999985
No 114
>PRK13763 putative RNA-processing protein; Provisional
Probab=97.81 E-value=7e-05 Score=76.08 Aligned_cols=53 Identities=34% Similarity=0.480 Sum_probs=47.6
Q ss_pred eeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 267 FIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 267 fiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
.+|+|||++|+|+|.||+.|||+|.|-++ .|.|.| +.+.++.|.+.|+.|+..
T Consensus 105 ~~griIG~~G~~~k~ie~~t~~~i~i~~~------------------------~v~i~G-~~~~~~~A~~~I~~li~g 157 (180)
T PRK13763 105 IKGRIIGEGGKTRRIIEELTGVDISVYGK------------------------TVAIIG-DPEQVEIAREAIEMLIEG 157 (180)
T ss_pred HhhheeCCCcHHHHHHHHHHCcEEEEcCC------------------------EEEEEe-CHHHHHHHHHHHHHHHcC
Confidence 68999999999999999999999999741 477887 789999999999999974
No 115
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.80 E-value=5.5e-05 Score=83.26 Aligned_cols=79 Identities=22% Similarity=0.401 Sum_probs=71.4
Q ss_pred CcEEEEecCCC-CCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 491 DTNLYIGYLPP-TLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 491 ~~tLfVgNLp~-~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
...|.|.||.. .+|.+.|..+|+-||.|.+|+|+.++. --|+|.|.+...|+-|++.|+|+.|.|++|+|.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 67899999985 489999999999999999999999863 589999999999999999999999999999999988
Q ss_pred CCCCC
Q 040243 570 KPPQP 574 (797)
Q Consensus 570 ~~~~~ 574 (797)
-..-.
T Consensus 372 H~~vq 376 (492)
T KOG1190|consen 372 HTNVQ 376 (492)
T ss_pred Ccccc
Confidence 65543
No 116
>KOG1067 consensus Predicted RNA-binding polyribonucleotide nucleotidyltransferase [General function prediction only]
Probab=97.72 E-value=5.9e-05 Score=85.84 Aligned_cols=95 Identities=24% Similarity=0.346 Sum_probs=80.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCC-CCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccc
Q 040243 218 ARERLNKERQEIISQIIKRNPAF-KPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 218 ~~~~le~er~~li~~~~~~~p~~-~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkG 296 (797)
..++....|.+|++.|.+.++.. .-...|.|+..+.| ++. ..+-.||||+|..+|+||.|||+.-+|. .|
T Consensus 565 al~~a~~ar~~Il~~m~k~i~~Pr~~~~~y~P~~~tlk--v~~------sk~~~lIGp~G~~~kki~~EtGai~~vD-e~ 635 (760)
T KOG1067|consen 565 ALQKAREARLQILDIMEKNINSPRGSDKEYSPVLETLK--VSP------SKRATLIGPGGVLKKKIEVETGAISQVD-EG 635 (760)
T ss_pred HHHhhhHHHHHHHHHHHhhcCCcccCccccCceeeEEe--ecc------hhhheeecCccceeeeEeeeccceeeec-Cc
Confidence 44566778999999999999988 66788999999988 444 5567999999999999999999544443 22
Q ss_pred cccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 297 SVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 297 S~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
|+.|.|.++..+++|.+.|..|+..
T Consensus 636 -----------------------t~~i~A~~~~am~~Ak~~I~~i~~~ 660 (760)
T KOG1067|consen 636 -----------------------TFSIFAPTQAAMEEAKEFIDGIIKD 660 (760)
T ss_pred -----------------------eEEEEecCHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999875
No 117
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.66 E-value=0.0001 Score=83.09 Aligned_cols=75 Identities=20% Similarity=0.300 Sum_probs=63.4
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
...-|.+.+|||++|++||.++|+.++ |.++.+. +.+|+..|-|||+|.+++++++|++ ++...+..|-|.|--+
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~--r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIP--RRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTA 83 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcCc-eeEEEEe--ccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEcc
Confidence 456788999999999999999999995 6665444 4589999999999999999999997 4777788888888544
No 118
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.51 E-value=0.00055 Score=68.64 Aligned_cols=66 Identities=21% Similarity=0.360 Sum_probs=60.2
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeec
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE 559 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~ 559 (797)
......+|.|.+|+...+++||+++..+-|.|....+.+| |++.|+|...++.+-||.+|+...+.
T Consensus 111 srrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 111 SRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred ccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence 5567889999999999999999999999999999999888 59999999999999999999876654
No 119
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=97.46 E-value=0.00037 Score=70.80 Aligned_cols=55 Identities=35% Similarity=0.437 Sum_probs=49.3
Q ss_pred eeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCCCh
Q 040243 267 FIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQPVD 346 (797)
Q Consensus 267 fiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~~~ 346 (797)
..|||||..|+|.+.||+-|||.|+|.|+ +|.|-|+ ++.|+.|.+.|++||...+
T Consensus 112 ~kgRIIG~~GkTr~~IE~lt~~~I~V~g~------------------------tVaiiG~-~~~v~iAr~AVemli~G~~ 166 (194)
T COG1094 112 IKGRIIGREGKTRRAIEELTGVYISVYGK------------------------TVAIIGG-FEQVEIAREAVEMLINGAP 166 (194)
T ss_pred hhceeeCCCchHHHHHHHHhCCeEEEeCc------------------------EEEEecC-hhhhHHHHHHHHHHHcCCC
Confidence 46999999999999999999999999975 7888886 7899999999999998543
No 120
>PHA03247 large tegument protein UL36; Provisional
Probab=97.45 E-value=0.024 Score=74.55 Aligned_cols=41 Identities=20% Similarity=0.184 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHhhcC--CcCccchhcccCCCC----CccccCCCC
Q 040243 349 LNEHKRQQLRELAALNG--TIRDEEYCRLCGEPG----HRQYACPSR 389 (797)
Q Consensus 349 ~n~~k~~Ql~ela~lnG--t~r~~~~c~~cg~~g----h~~~~cp~~ 389 (797)
+|----.||.+|..|=- -|.....|-+-=..+ +--|+-++-
T Consensus 2371 ENACL~~QLe~LSaLiAsKPLa~aPPCLvlvD~~m~p~~VLWe~~~~ 2417 (3151)
T PHA03247 2371 ENACLAAQLPALSALIAARPLARSPPCLVLVDISMAPLFVLWEQPDP 2417 (3151)
T ss_pred HHHHHHHHHHHHHHHHhcCcccCCCCeEEEEcCCCceeEEeccCCCC
Confidence 34444678888876642 344555675544333 335665443
No 121
>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=97.40 E-value=0.00051 Score=60.89 Aligned_cols=70 Identities=24% Similarity=0.423 Sum_probs=48.7
Q ss_pred cEEEEecCCCCCcHHH----HHHHhhcCC-CEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 492 TNLYIGYLPPTLDDDG----LIRLFSTFG-DIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 492 ~tLfVgNLp~~vte~d----L~~~Fs~fG-~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
+.|||.|||.+.+-.. |+.++.-|| .|.+|. .+-|+|.|.+.+.|++|.+.|+|..+.|.+|.|+
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~----------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS----------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe----------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 4799999999988765 567777775 766652 3699999999999999999999999999999999
Q ss_pred ecCCC
Q 040243 567 VAGKP 571 (797)
Q Consensus 567 ~A~~~ 571 (797)
+....
T Consensus 73 ~~~~~ 77 (90)
T PF11608_consen 73 FSPKN 77 (90)
T ss_dssp SS--S
T ss_pred EcCCc
Confidence 97543
No 122
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.35 E-value=0.00018 Score=74.55 Aligned_cols=74 Identities=20% Similarity=0.397 Sum_probs=65.1
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
....+.|+|.+|..++.+.+|.+.|..+|.+....+ .++++||+|.+.++|.+||+.|++..+.++.|.|..
T Consensus 96 ~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~ 167 (216)
T KOG0106|consen 96 SRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEK 167 (216)
T ss_pred ccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccchhhcCceeeecc
Confidence 457789999999999999999999999999844333 357999999999999999999999999999999965
Q ss_pred cC
Q 040243 568 AG 569 (797)
Q Consensus 568 A~ 569 (797)
..
T Consensus 168 ~~ 169 (216)
T KOG0106|consen 168 NS 169 (216)
T ss_pred cC
Confidence 43
No 123
>PRK04163 exosome complex RNA-binding protein Rrp4; Provisional
Probab=97.34 E-value=0.00029 Score=74.55 Aligned_cols=63 Identities=21% Similarity=0.342 Sum_probs=56.4
Q ss_pred EEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHH
Q 040243 254 KLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEG 333 (797)
Q Consensus 254 Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~ 333 (797)
.+-||. ++|++|||++|.++|.|.++|+|+|.|--.| .|+|+|.+.+.+++
T Consensus 148 ~~~V~~------~~i~~lig~~g~~i~~l~~~~~~~I~ig~NG-----------------------~VwI~~~~~~~~~~ 198 (235)
T PRK04163 148 IVEIKP------VKVPRVIGKKGSMINMLKEETGCDIIVGQNG-----------------------RIWIKGPDEEDEEI 198 (235)
T ss_pred EEEECH------HHHHhhcCCCChhHhhhhhhhCcEEEEcCCc-----------------------EEEEeeCCHHHHHH
Confidence 344777 8999999999999999999999999997655 89999999999999
Q ss_pred HHHHHHHhcCCC
Q 040243 334 AAAMVEKLLQPV 345 (797)
Q Consensus 334 A~~~I~~ll~~~ 345 (797)
|+++|+++-...
T Consensus 199 a~~~I~~~e~~~ 210 (235)
T PRK04163 199 AIEAIKKIEREA 210 (235)
T ss_pred HHHHHHHHHhhh
Confidence 999999987653
No 124
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.30 E-value=0.00014 Score=78.86 Aligned_cols=81 Identities=22% Similarity=0.418 Sum_probs=73.8
Q ss_pred CcEEE-EecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 491 DTNLY-IGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 491 ~~tLf-VgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
..++| |++|++.+++++|+.+|..+|.|..+++..+..++.++|||||.|.+...+..++.. +...+.++.++|....
T Consensus 184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 262 (285)
T KOG4210|consen 184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDE 262 (285)
T ss_pred cccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCC
Confidence 34555 999999999999999999999999999999999999999999999999999999976 7888999999999876
Q ss_pred CCC
Q 040243 570 KPP 572 (797)
Q Consensus 570 ~~~ 572 (797)
...
T Consensus 263 ~~~ 265 (285)
T KOG4210|consen 263 PRP 265 (285)
T ss_pred CCc
Confidence 554
No 125
>PHA03247 large tegument protein UL36; Provisional
Probab=97.25 E-value=0.052 Score=71.68 Aligned_cols=8 Identities=0% Similarity=-0.205 Sum_probs=3.4
Q ss_pred CccccCCC
Q 040243 381 HRQYACPS 388 (797)
Q Consensus 381 h~~~~cp~ 388 (797)
-..+||++
T Consensus 2314 VIA~E~~~ 2321 (3151)
T PHA03247 2314 VVALRSDP 2321 (3151)
T ss_pred EEEecCcc
Confidence 33444443
No 126
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.25 E-value=0.00063 Score=73.39 Aligned_cols=85 Identities=22% Similarity=0.364 Sum_probs=66.9
Q ss_pred CCCCcEEEEecCCCCCcHHH----H--HHHhhcCCCEEEEEEEecCCCCcc-cceE--EEEecCHHHHHHHHHhcCceee
Q 040243 488 ELDDTNLYIGYLPPTLDDDG----L--IRLFSTFGDIVMAKVIKDRVTGMS-KGYG--FVKYADIQMANNAIASMNGYRL 558 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~d----L--~~~Fs~fG~I~~v~v~~dk~TGks-rGfa--FV~F~s~e~A~~AI~~LnG~~l 558 (797)
-...+-+||-+|+..+..++ | .++|.+||.|.+|.|-+......+ .+.+ ||+|.+.++|.+||...+|..+
T Consensus 111 VvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~ 190 (480)
T COG5175 111 VVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLL 190 (480)
T ss_pred eeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccc
Confidence 34566899999999887766 3 389999999999877554311111 2333 9999999999999999999999
Q ss_pred ccceEEEEecCCCC
Q 040243 559 EGRTIAVRVAGKPP 572 (797)
Q Consensus 559 ~Gr~L~V~~A~~~~ 572 (797)
+||.|+..|...+.
T Consensus 191 DGr~lkatYGTTKY 204 (480)
T COG5175 191 DGRVLKATYGTTKY 204 (480)
T ss_pred cCceEeeecCchHH
Confidence 99999999876643
No 127
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.18 E-value=0.00074 Score=76.30 Aligned_cols=76 Identities=18% Similarity=0.267 Sum_probs=63.4
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEE-EEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVM-AKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~-v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
...|.+++||+.|+++||.+||+-.--|.. |.++.|. .+++.|-|||.|++.++|++|+.. +...|+.|-|.|-.+
T Consensus 103 d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 103 DGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFRS 179 (510)
T ss_pred CceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeehh
Confidence 457999999999999999999998755544 5667776 688999999999999999999975 677788888888543
No 128
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.16 E-value=0.00032 Score=72.08 Aligned_cols=66 Identities=24% Similarity=0.434 Sum_probs=54.1
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeec
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE 559 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~ 559 (797)
.-.||||.||..+++|++|+.+|+.|-....++|.. + . .-..|||+|++.+.|..|+..|+|..|.
T Consensus 209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~-~-~--g~~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRA-R-G--GMPVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec-C-C--CcceEeecHHHHHHHHHHHHHhhcceec
Confidence 456899999999999999999999997665555522 2 2 2358999999999999999999998663
No 129
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.10 E-value=0.0014 Score=67.89 Aligned_cols=77 Identities=22% Similarity=0.434 Sum_probs=68.4
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeec-cceEEEEe
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE-GRTIAVRV 567 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~-Gr~L~V~~ 567 (797)
.....||+.||+..++.+.|..+|.+|....+|+++..+ ++.|||+|.+...|..|...|++..|- ...++|.+
T Consensus 144 ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~ 218 (221)
T KOG4206|consen 144 PPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITF 218 (221)
T ss_pred CCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceeccCceEEecc
Confidence 456789999999999999999999999999999988765 479999999999999999999998887 77888888
Q ss_pred cCC
Q 040243 568 AGK 570 (797)
Q Consensus 568 A~~ 570 (797)
+++
T Consensus 219 a~K 221 (221)
T KOG4206|consen 219 AKK 221 (221)
T ss_pred cCC
Confidence 753
No 130
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.10 E-value=0.0046 Score=67.80 Aligned_cols=79 Identities=22% Similarity=0.313 Sum_probs=70.3
Q ss_pred CCCcEEEEecCCCC-CcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 489 LDDTNLYIGYLPPT-LDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 489 ~~~~tLfVgNLp~~-vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
..++-+.|-+|... ++-+.|..+|-.||.|.+|++++.+. |-|.|++.+..+.++|+..||+..+.|.+|.|.+
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~-----gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~ 359 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP-----GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCV 359 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc-----ceeEEEcCcHHHHHHHHHHhccCccccceEEEee
Confidence 46778999999865 66678999999999999999999873 7999999999999999999999999999999999
Q ss_pred cCCCC
Q 040243 568 AGKPP 572 (797)
Q Consensus 568 A~~~~ 572 (797)
++...
T Consensus 360 SkQ~~ 364 (494)
T KOG1456|consen 360 SKQNF 364 (494)
T ss_pred ccccc
Confidence 87543
No 131
>KOG2191 consensus RNA-binding protein NOVA1/PASILLA and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=97.04 E-value=0.0037 Score=67.68 Aligned_cols=104 Identities=29% Similarity=0.350 Sum_probs=63.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCC-CCCCCCCCC----ceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEec
Q 040243 220 ERLNKERQEIISQIIKRNPAF-KPPADYRPP----KLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRG 294 (797)
Q Consensus 220 ~~le~er~~li~~~~~~~p~~-~pp~dy~p~----~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrG 294 (797)
+.|......|.+++.+.--.- ++-+-+.|. .++.||.+|. --.|.|||.+|.|+|.|.+++||-|.|-=
T Consensus 96 eai~av~efI~dKire~p~~~~k~v~~~~pqt~~r~kqikivvPN------stag~iigkggAtiK~~~Eqsga~iqisP 169 (402)
T KOG2191|consen 96 EALNAVHEFIADKIREKPQAVAKPVDILQPQTPDRIKQIKIVVPN------STAGMIIGKGGATIKAIQEQSGAWIQISP 169 (402)
T ss_pred HHHHHHHHHHHHHHHHhHHhhcCCccccCCCCccccceeEEeccC------CcccceecCCcchHHHHHHhhCcceEecc
Confidence 455555555555554432222 211222332 3678999997 56799999999999999999999999972
Q ss_pred cccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 295 KGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 295 kGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
.|+-+. .+.| .|.+...+.|.+.+|+++|-.-|++
T Consensus 170 ---qkpt~~----------sLqe--rvvt~sge~e~~~~A~~~IL~Ki~e 204 (402)
T KOG2191|consen 170 ---QKPTGI----------SLQE--RVVTVSGEPEQNMKAVSLILQKIQE 204 (402)
T ss_pred ---cCCCCc----------ccee--EEEEecCCHHHHHHHHHHHHHHhhc
Confidence 111110 1111 3444445667777887777655543
No 132
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.02 E-value=0.0044 Score=72.37 Aligned_cols=76 Identities=16% Similarity=0.324 Sum_probs=65.7
Q ss_pred cEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 492 TNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 492 ~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
+-|-|.|++++++-+||.+||..|-.+-.-.+++-.+.|+..|-|.|.|++.++|.+|...|++..|..++|.|.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 4788999999999999999999996554433344446899999999999999999999999999999999998875
No 133
>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=96.97 E-value=0.0016 Score=60.60 Aligned_cols=70 Identities=17% Similarity=0.390 Sum_probs=44.3
Q ss_pred cEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCce-----eeccceEEEE
Q 040243 492 TNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGY-----RLEGRTIAVR 566 (797)
Q Consensus 492 ~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~-----~l~Gr~L~V~ 566 (797)
+-|+|.++...++.++|+++|+.||.|..|.+.+.- --|||-|.+.++|++|++.+.-. .|.+..+.++
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~------~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~ 75 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD------TEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE 75 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC------CEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence 568999999999999999999999999998876643 38999999999999999876443 4556655554
Q ss_pred e
Q 040243 567 V 567 (797)
Q Consensus 567 ~ 567 (797)
+
T Consensus 76 v 76 (105)
T PF08777_consen 76 V 76 (105)
T ss_dssp -
T ss_pred E
Confidence 3
No 134
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=96.90 E-value=0.056 Score=59.62 Aligned_cols=38 Identities=21% Similarity=0.332 Sum_probs=32.9
Q ss_pred eEEEEecCHHHHHHHHHhcCceeec--cceEEEEecCCCC
Q 040243 535 YGFVKYADIQMANNAIASMNGYRLE--GRTIAVRVAGKPP 572 (797)
Q Consensus 535 faFV~F~s~e~A~~AI~~LnG~~l~--Gr~L~V~~A~~~~ 572 (797)
-|.|+|++.+.|++|.+.|||..|. --.|+|+||++..
T Consensus 161 QAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~r 200 (494)
T KOG1456|consen 161 QAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTR 200 (494)
T ss_pred eeEEeechhHHHHHHHhhcccccccccceeEEEEecCcce
Confidence 6889999999999999999999875 3678999998754
No 135
>KOG2191 consensus RNA-binding protein NOVA1/PASILLA and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=96.84 E-value=0.0028 Score=68.58 Aligned_cols=37 Identities=38% Similarity=0.551 Sum_probs=35.3
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEe
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIR 293 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~Ir 293 (797)
+..||+||- +-.|-|||-+|.||.+||+||||+|.+-
T Consensus 39 y~ikvLips------~AaGsIIGKGG~ti~~lqk~tgariklS 75 (402)
T KOG2191|consen 39 YFLKVLIPS------YAAGSIIGKGGQTIVQLQKETGARIKLS 75 (402)
T ss_pred eEEEEEeec------ccccceeccchHHHHHHHhccCcEEEec
Confidence 788999998 8899999999999999999999999986
No 136
>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=96.75 E-value=0.00058 Score=65.72 Aligned_cols=24 Identities=50% Similarity=0.796 Sum_probs=21.8
Q ss_pred cccccceecCCCCCCcccCCCCCcC
Q 040243 394 KSDVLCKICGDGGHPTIDCLVKGTT 418 (797)
Q Consensus 394 ~~~v~Cr~CG~~gH~t~dCp~k~~~ 418 (797)
...|+||+|+ ++|||..||||+++
T Consensus 104 ~~~v~CR~Ck-GdH~T~~CPyKd~~ 127 (128)
T PF12353_consen 104 KSKVKCRICK-GDHWTSKCPYKDTL 127 (128)
T ss_pred CceEEeCCCC-CCcccccCCccccc
Confidence 5789999997 99999999999875
No 137
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.69 E-value=0.013 Score=64.47 Aligned_cols=78 Identities=17% Similarity=0.279 Sum_probs=65.3
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCC-CEEE--EEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFG-DIVM--AKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG-~I~~--v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
....|.+++|++..+-+||.++|..|. .|.. |+++.+. -|+..|-|||+|.+.++|..|..+.+.+....|-|.|-
T Consensus 279 ~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvf 357 (508)
T KOG1365|consen 279 SKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVF 357 (508)
T ss_pred CCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEe
Confidence 355799999999999999999999986 3444 7888875 68999999999999999999998877776778888885
Q ss_pred ec
Q 040243 567 VA 568 (797)
Q Consensus 567 ~A 568 (797)
-+
T Consensus 358 p~ 359 (508)
T KOG1365|consen 358 PC 359 (508)
T ss_pred ec
Confidence 43
No 138
>KOG2190 consensus PolyC-binding proteins alphaCP-1 and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=96.66 E-value=0.0078 Score=69.90 Aligned_cols=103 Identities=22% Similarity=0.332 Sum_probs=72.1
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCCCCCCCCCC-ceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEecccc
Q 040243 219 RERLNKERQEIISQIIKRNPAFKPPADYRPP-KLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGS 297 (797)
Q Consensus 219 ~~~le~er~~li~~~~~~~p~~~pp~dy~p~-~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS 297 (797)
.+.|.+.-..||..+..-+-.+..-...... .++.++.||- +-||-|||-+|+.||+|.++|||+|.|-++ .
T Consensus 105 ~~al~ka~~~iv~~~~~d~~~~~d~~~~~~~~~v~~RLlVp~------sq~GslIGK~G~~Ik~Ire~TgA~I~v~~~-~ 177 (485)
T KOG2190|consen 105 TDALFKAFDMIVFKLEEDDEAAEDNGEDASGPEVTCRLLVPS------SQVGSLIGKGGSLIKEIREETGAKIRVSSD-M 177 (485)
T ss_pred HHHHHHHHHHHhhcccccccccccCCccccCCceEEEEEech------hheeeeeccCcHHHHHHHHhcCceEEecCC-C
Confidence 3667777777777654222222211111222 4788999998 889999999999999999999999999965 1
Q ss_pred ccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 298 VKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 298 ~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
.+...|-+ |.|+|. .++|.+|+..|-.+|..
T Consensus 178 --------------lP~ster~-V~IsG~-~~av~~al~~Is~~L~~ 208 (485)
T KOG2190|consen 178 --------------LPNSTERA-VTISGE-PDAVKKALVQISSRLLE 208 (485)
T ss_pred --------------CCccccee-EEEcCc-hHHHHHHHHHHHHHHHh
Confidence 12233333 777775 67899998888887764
No 139
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=96.66 E-value=0.0012 Score=64.86 Aligned_cols=43 Identities=35% Similarity=0.697 Sum_probs=22.3
Q ss_pred hhcccCCCCCccccCCCCCCCccccccceecCCCCCCcccCCC
Q 040243 372 YCRLCGEPGHRQYACPSRTSTFKSDVLCKICGDGGHPTIDCLV 414 (797)
Q Consensus 372 ~c~~cg~~gh~~~~cp~~~~~~~~~v~Cr~CG~~gH~t~dCp~ 414 (797)
.|.+|++.||...+|++........++|.+||+.|||+.||+.
T Consensus 105 ~C~~Cg~~gH~~~~C~~~~~~~~~~~~C~~Cg~~gH~~~dCp~ 147 (148)
T PTZ00368 105 ACYNCGGEGHISRDCPNAGKRPGGDKTCYNCGQTGHLSRDCPD 147 (148)
T ss_pred hhcccCcCCcchhcCCCccccCCCCCccccCCCcCcccccCCC
Confidence 4555555555555555542222334555555555555555554
No 140
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=96.56 E-value=0.0032 Score=72.10 Aligned_cols=76 Identities=36% Similarity=0.493 Sum_probs=61.6
Q ss_pred CcEEEEecCCCCCc------HHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeec-cceE
Q 040243 491 DTNLYIGYLPPTLD------DDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE-GRTI 563 (797)
Q Consensus 491 ~~tLfVgNLp~~vt------e~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~-Gr~L 563 (797)
..-|+|.|+|---. ..-|..+|+++|.|+.+.+..+..+| ++||.|++|.+..+|+.|++.|||+.|+ ...+
T Consensus 58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf 136 (698)
T KOG2314|consen 58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTF 136 (698)
T ss_pred ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccceE
Confidence 34688988885322 23466899999999999998887555 9999999999999999999999999987 4556
Q ss_pred EEEe
Q 040243 564 AVRV 567 (797)
Q Consensus 564 ~V~~ 567 (797)
.|..
T Consensus 137 ~v~~ 140 (698)
T KOG2314|consen 137 FVRL 140 (698)
T ss_pred Eeeh
Confidence 6653
No 141
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.51 E-value=0.0021 Score=71.31 Aligned_cols=74 Identities=31% Similarity=0.479 Sum_probs=52.2
Q ss_pred ecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHH
Q 040243 257 IPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAA 336 (797)
Q Consensus 257 IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~ 336 (797)
||.+-.-.-||+|||||-.|.+||+||.+||+||.|-- .- +.. ..+-.-.+.|-| +-|.+..|-+
T Consensus 280 ~pLk~lAHN~lvGRLIGKeGrnlKkIeq~TgTkITis~---lq--------els---~ynpERTItVkG-siEac~~AE~ 344 (584)
T KOG2193|consen 280 IPLKILAHNNLVGRLIGKEGRNLKKIEQDTGTKITISK---LQ--------ELS---LYNPERTITVKG-SIEACVQAEA 344 (584)
T ss_pred cchhhhhhcchhhhhhhhccccHHHHHhhcCCceeeee---hh--------hhc---ccCccceEEecc-cHHHHHHHHH
Confidence 33333333499999999999999999999999999961 11 111 122344778888 7788888888
Q ss_pred HHHHhcCCC
Q 040243 337 MVEKLLQPV 345 (797)
Q Consensus 337 ~I~~ll~~~ 345 (797)
+|-+-|...
T Consensus 345 eImkKlre~ 353 (584)
T KOG2193|consen 345 EIMKKLREC 353 (584)
T ss_pred HHHHHHHHH
Confidence 877766643
No 142
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=96.45 E-value=0.002 Score=67.63 Aligned_cols=72 Identities=18% Similarity=0.379 Sum_probs=62.2
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCC--------Ccccce----EEEEecCHHHHHHHHHhcCceee
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVT--------GMSKGY----GFVKYADIQMANNAIASMNGYRL 558 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~T--------GksrGf----aFV~F~s~e~A~~AI~~LnG~~l 558 (797)
.--||+++||..++-..|+++|++||+|-+|+|.....+ |.++.+ |.|+|.+...|.++.+.||+..|
T Consensus 74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I 153 (278)
T KOG3152|consen 74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI 153 (278)
T ss_pred ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence 347999999999999999999999999999999877655 334433 45999999999999999999999
Q ss_pred ccce
Q 040243 559 EGRT 562 (797)
Q Consensus 559 ~Gr~ 562 (797)
+|++
T Consensus 154 ggkk 157 (278)
T KOG3152|consen 154 GGKK 157 (278)
T ss_pred CCCC
Confidence 9876
No 143
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.45 E-value=0.0026 Score=70.58 Aligned_cols=71 Identities=27% Similarity=0.481 Sum_probs=53.7
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHH
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQES 330 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~ 330 (797)
+-.+++||. .|+|.|||+.|.|||.|-+.|-|||.|..+- +.| ..+..|.|+ .+.|.
T Consensus 199 ~PlR~lVpt------qyvgaIIGkeG~TIknItkqTqsriD~hrke--n~G------------aaek~itvh---~tpEg 255 (584)
T KOG2193|consen 199 WPLRLLVPT------QYVGAIIGKEGATIKNITKQTQSRIDVHRKE--NAG------------AAEKIITVH---STPEG 255 (584)
T ss_pred cceeeeecc------ceeEEEecCCCccccCcchhhhheeeeeecc--cCC------------cccCceEEe---cCccc
Confidence 456788888 8999999999999999999999999998653 111 122233443 34567
Q ss_pred HHHHHHHHHHhcCC
Q 040243 331 LEGAAAMVEKLLQP 344 (797)
Q Consensus 331 v~~A~~~I~~ll~~ 344 (797)
..+||++|-+++..
T Consensus 256 ~s~Ac~~ILeimqk 269 (584)
T KOG2193|consen 256 TSKACKMILEIMQK 269 (584)
T ss_pred hHHHHHHHHHHHHH
Confidence 77899999998874
No 144
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=96.42 E-value=0.011 Score=64.50 Aligned_cols=79 Identities=16% Similarity=0.287 Sum_probs=63.3
Q ss_pred CCCCcEEEEecCCC----CCc-------HHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCce
Q 040243 488 ELDDTNLYIGYLPP----TLD-------DDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGY 556 (797)
Q Consensus 488 ~~~~~tLfVgNLp~----~vt-------e~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~ 556 (797)
....++|.|.||=. ..+ +++|++-.++||.|.+|.|.-. ...|.+-|.|.+.+.|..||+.|+|.
T Consensus 262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~----hPdGvvtV~f~n~eeA~~ciq~m~GR 337 (382)
T KOG1548|consen 262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDR----HPDGVVTVSFRNNEEADQCIQTMDGR 337 (382)
T ss_pred ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEecc----CCCceeEEEeCChHHHHHHHHHhcCe
Confidence 35677899998732 222 3566777899999999977533 36799999999999999999999999
Q ss_pred eeccceEEEEecCC
Q 040243 557 RLEGRTIAVRVAGK 570 (797)
Q Consensus 557 ~l~Gr~L~V~~A~~ 570 (797)
.|+||.|...+...
T Consensus 338 ~fdgRql~A~i~DG 351 (382)
T KOG1548|consen 338 WFDGRQLTASIWDG 351 (382)
T ss_pred eecceEEEEEEeCC
Confidence 99999999886543
No 145
>PRK00106 hypothetical protein; Provisional
Probab=96.41 E-value=0.022 Score=66.90 Aligned_cols=98 Identities=22% Similarity=0.353 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEec
Q 040243 215 EYRARERLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRG 294 (797)
Q Consensus 215 e~r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrG 294 (797)
|..+++..+++-.+||..+++... .+|.--..+--|.+|-+ ++-|+|||-.|.++|.||.-||+.|.|..
T Consensus 194 e~~a~~~a~~~a~~ii~~aiqr~a-----~~~~~e~tvs~v~lp~d-----emkGriIGreGrNir~~E~~tGvdliidd 263 (535)
T PRK00106 194 EREVKDRSDKMAKDLLAQAMQRLA-----GEYVTEQTITTVHLPDD-----NMKGRIIGREGRNIRTLESLTGIDVIIDD 263 (535)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc-----chhhhhheeeeEEcCCh-----HhhcceeCCCcchHHHHHHHhCceEEEcC
Confidence 334555555555566665555543 25554566777888876 56699999999999999999999999984
Q ss_pred cccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 295 KGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 295 kGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
.- =-|.|++.|.-.-+-|..-+++||..
T Consensus 264 tp----------------------~~v~lS~fdpvRReiAr~~le~Li~d 291 (535)
T PRK00106 264 TP----------------------EVVVLSGFDPIRREIARMTLESLIKD 291 (535)
T ss_pred CC----------------------CeEEEeCCChHHHHHHHHHHHHHHHc
Confidence 32 27999999998888888888888864
No 146
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=96.35 E-value=0.13 Score=58.71 Aligned_cols=14 Identities=43% Similarity=0.527 Sum_probs=10.2
Q ss_pred CcHHHHHHHhhcCC
Q 040243 503 LDDDGLIRLFSTFG 516 (797)
Q Consensus 503 vte~dL~~~Fs~fG 516 (797)
-.+..|..+|++.|
T Consensus 264 ~~dp~~nn~~s~ag 277 (569)
T KOG3671|consen 264 NNDPPLNNLFSSAG 277 (569)
T ss_pred CCChhhhcccccCC
Confidence 34567888888886
No 147
>PRK12704 phosphodiesterase; Provisional
Probab=96.35 E-value=0.024 Score=66.76 Aligned_cols=97 Identities=29% Similarity=0.369 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEec
Q 040243 215 EYRARERLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRG 294 (797)
Q Consensus 215 e~r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrG 294 (797)
|..+++..+++-.+||-.+++... .+|.--..+--|.||-+ ++-|+|||-.|.++|.||.-||+.|.|..
T Consensus 179 ~~~~~~~a~~~a~~i~~~a~qr~a-----~~~~~e~~~~~v~lp~d-----~mkgriigreGrnir~~e~~tgvd~iidd 248 (520)
T PRK12704 179 EEEAKEEADKKAKEILAQAIQRCA-----ADHVAETTVSVVNLPND-----EMKGRIIGREGRNIRALETLTGVDLIIDD 248 (520)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhc-----chhhhhhceeeeecCCc-----hhhcceeCCCcchHHHHHHHhCCeEEEcC
Confidence 334455555555566665555543 35555566667788876 56699999999999999999999999984
Q ss_pred cccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcC
Q 040243 295 KGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQ 343 (797)
Q Consensus 295 kGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~ 343 (797)
. |=-|+||+.+.-.-+.|...++.|+.
T Consensus 249 t----------------------p~~v~ls~~~~~rre~a~~~l~~l~~ 275 (520)
T PRK12704 249 T----------------------PEAVILSGFDPIRREIARLALEKLVQ 275 (520)
T ss_pred C----------------------CCeEEEecCChhhHHHHHHHHHHHHh
Confidence 3 22799999998776677777777765
No 148
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.29 E-value=0.012 Score=64.80 Aligned_cols=74 Identities=18% Similarity=0.193 Sum_probs=56.2
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcC----CCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEE
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTF----GDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAV 565 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~f----G~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V 565 (797)
+.-.|.+++|++++++.++.++|..- |.+..|.+++. -+|+..|-|||.|..+++|+.||.+ +...|+-|-|.|
T Consensus 160 ~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~r-pdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIEl 237 (508)
T KOG1365|consen 160 NQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTR-PDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIEL 237 (508)
T ss_pred cceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEEC-CCCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHHH
Confidence 44568888999999999999999742 34445555554 3799999999999999999999975 444455555554
No 149
>KOG2814 consensus Transcription coactivator complex, P50 component (LigT RNA ligase/phosphodiesterase family) [Transcription]
Probab=96.28 E-value=0.0043 Score=67.47 Aligned_cols=61 Identities=26% Similarity=0.438 Sum_probs=53.2
Q ss_pred ceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCCC
Q 040243 266 NFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQPV 345 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~~ 345 (797)
-|+|.|||=+|.|.|+||+||+|+|.|=-.+..+ =||.|++-..++|-+|.+.|..+|.++
T Consensus 66 ~~~~~lig~~g~trkkle~Etq~~i~lp~p~~n~-------------------~~i~i~~~~~~~V~~a~~Ri~~~ids~ 126 (345)
T KOG2814|consen 66 SFIGWLIGKQGKTRKKLEEETQTNIFLPRPNTNK-------------------EEIKIIGISRNCVIQALERIAKLIDSD 126 (345)
T ss_pred HHhhhhhcccchHHHHHHHhhccceEccCCCCCc-------------------ceEEEeehhHHHHHHHHHHHHHHHHhh
Confidence 7899999999999999999999999987544211 189999999999999999999998764
No 150
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=96.20 E-value=0.03 Score=65.83 Aligned_cols=96 Identities=26% Similarity=0.358 Sum_probs=71.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccc
Q 040243 217 RARERLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkG 296 (797)
.+++..+++-.+||..+++... .+|.--..+.-|.||-+ ++-|+|||-.|.++|.||..||+.|.|...-
T Consensus 175 ~~~~~a~~~a~~i~~~aiqr~a-----~~~~~e~~~~~v~lp~d-----~~kgriigreGrnir~~e~~tgvd~iiddtp 244 (514)
T TIGR03319 175 EAKEEADKKAKEILATAIQRYA-----GDHVAETTVSVVNLPND-----EMKGRIIGREGRNIRALETLTGVDLIIDDTP 244 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc-----chhhhhheeeeEEcCCh-----hhhccccCCCcchHHHHHHHhCceEEEcCCC
Confidence 4444445555555555555443 35555566777888887 5669999999999999999999999998532
Q ss_pred cccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 297 SVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 297 S~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
=-|.|++.|.-.-+-|..-+++||..
T Consensus 245 ----------------------~~v~ls~fdp~rreia~~~l~~li~d 270 (514)
T TIGR03319 245 ----------------------EAVILSGFDPVRREIARMALEKLIQD 270 (514)
T ss_pred ----------------------CeEEecCCchHHHHHHHHHHHHHHHc
Confidence 27899999998888888888888763
No 151
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.18 E-value=0.01 Score=48.41 Aligned_cols=52 Identities=27% Similarity=0.511 Sum_probs=41.4
Q ss_pred cEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHH
Q 040243 492 TNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAI 550 (797)
Q Consensus 492 ~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI 550 (797)
+.|-|.+.+.+..+ ++..+|..||+|.++.+-.. .-+.||.|.++.+|++||
T Consensus 2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAE-EVLEHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHH-HHHHHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 46778888876654 45568999999999887522 349999999999999985
No 152
>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=96.05 E-value=0.025 Score=52.31 Aligned_cols=78 Identities=22% Similarity=0.351 Sum_probs=51.5
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEE-EEecC------CCCcccceEEEEecCHHHHHHHHHhcCceeeccc
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAK-VIKDR------VTGMSKGYGFVKYADIQMANNAIASMNGYRLEGR 561 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~-v~~dk------~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr 561 (797)
.+.+-|.|-+.+.. ....+.+.|++||.|++.. +.++. ..-....+-.|+|++..+|.+||. .||..|.|.
T Consensus 4 ~~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~ 81 (100)
T PF05172_consen 4 DSETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGS 81 (100)
T ss_dssp GGCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTC
T ss_pred cCCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCc
Confidence 34566888898887 5567888999999998875 11100 001123588999999999999996 599999986
Q ss_pred eE-EEEec
Q 040243 562 TI-AVRVA 568 (797)
Q Consensus 562 ~L-~V~~A 568 (797)
.| -|.+.
T Consensus 82 ~mvGV~~~ 89 (100)
T PF05172_consen 82 LMVGVKPC 89 (100)
T ss_dssp EEEEEEE-
T ss_pred EEEEEEEc
Confidence 54 46654
No 153
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=95.95 E-value=0.008 Score=67.12 Aligned_cols=81 Identities=21% Similarity=0.288 Sum_probs=63.4
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEec---CCCCc----------ccceEEEEecCHHHHHHHHHhc
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKD---RVTGM----------SKGYGFVKYADIQMANNAIASM 553 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~d---k~TGk----------srGfaFV~F~s~e~A~~AI~~L 553 (797)
.+...++|.+-||+.+-.-+.|.++|+.||.|..|+|... ..+.+ .+-+|||+|+..+.|.+|.+.|
T Consensus 227 eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~ 306 (484)
T KOG1855|consen 227 EELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELL 306 (484)
T ss_pred cccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhh
Confidence 4467899999999999888999999999999999999776 22221 2568999999999999999988
Q ss_pred CceeeccceEEEEe
Q 040243 554 NGYRLEGRTIAVRV 567 (797)
Q Consensus 554 nG~~l~Gr~L~V~~ 567 (797)
+-....-.-|+|++
T Consensus 307 ~~e~~wr~glkvkL 320 (484)
T KOG1855|consen 307 NPEQNWRMGLKVKL 320 (484)
T ss_pred chhhhhhhcchhhh
Confidence 65443333355544
No 154
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=95.71 E-value=0.023 Score=64.93 Aligned_cols=64 Identities=23% Similarity=0.383 Sum_probs=58.9
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhh-cCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHh
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFS-TFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIAS 552 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs-~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~ 552 (797)
+..+|||||+|+.-++.++|..+|. -||.|.-+-|=.|..-+..||-|=|+|.+..+-.+||..
T Consensus 368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred CccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 3567999999999999999999999 599999999999977889999999999999999999973
No 155
>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=95.70 E-value=0.005 Score=39.31 Aligned_cols=17 Identities=41% Similarity=0.835 Sum_probs=15.2
Q ss_pred ccceecCCCCCCcccCC
Q 040243 397 VLCKICGDGGHPTIDCL 413 (797)
Q Consensus 397 v~Cr~CG~~gH~t~dCp 413 (797)
++|..||+.||+++||+
T Consensus 1 ~~C~~C~~~GH~~~~Cp 17 (18)
T PF00098_consen 1 RKCFNCGEPGHIARDCP 17 (18)
T ss_dssp SBCTTTSCSSSCGCTSS
T ss_pred CcCcCCCCcCcccccCc
Confidence 47999999999999997
No 156
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=95.60 E-value=0.0077 Score=59.10 Aligned_cols=43 Identities=35% Similarity=0.732 Sum_probs=21.6
Q ss_pred hhcccCCCCCccccCCCCCCCccccccceecCCCCCCcccCCC
Q 040243 372 YCRLCGEPGHRQYACPSRTSTFKSDVLCKICGDGGHPTIDCLV 414 (797)
Q Consensus 372 ~c~~cg~~gh~~~~cp~~~~~~~~~v~Cr~CG~~gH~t~dCp~ 414 (797)
.|.+|++.||...+|++........++|.+|+..||++.+|+.
T Consensus 79 ~C~~Cg~~GH~~~~C~~~~~~~~~~~~C~~Cg~~gH~~~~C~~ 121 (148)
T PTZ00368 79 SCYNCGQTGHISRECPNRAKGGAARRACYNCGGEGHISRDCPN 121 (148)
T ss_pred ccCcCCCCCcccccCCCcccccccchhhcccCcCCcchhcCCC
Confidence 4555555555555555543222334455555555555555553
No 157
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=95.50 E-value=0.029 Score=64.93 Aligned_cols=64 Identities=17% Similarity=0.303 Sum_probs=52.8
Q ss_pred HHHHHHhhcCCCEEEEEEEecC---CCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 506 DGLIRLFSTFGDIVMAKVIKDR---VTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 506 ~dL~~~Fs~fG~I~~v~v~~dk---~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
++++.-+++||.|..|.+.++- .-.-..|--||+|.+.+++++|.+.|+|..|.+|.+...|-.
T Consensus 424 Edvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd 490 (500)
T KOG0120|consen 424 EDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD 490 (500)
T ss_pred HHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence 3456667899999999988772 223355788999999999999999999999999999888753
No 158
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=95.21 E-value=0.015 Score=69.83 Aligned_cols=80 Identities=21% Similarity=0.213 Sum_probs=72.9
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
....|||.|+++..|.++|+.+|..+|.+.+++++..+ .|+.+|.|||.|.++.++.+++...+...+.-+.+.|.++.
T Consensus 735 gK~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsn 813 (881)
T KOG0128|consen 735 GKISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSN 813 (881)
T ss_pred hhhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccccccC
Confidence 45789999999999999999999999999999998887 79999999999999999999999888888888888888765
Q ss_pred C
Q 040243 570 K 570 (797)
Q Consensus 570 ~ 570 (797)
.
T Consensus 814 p 814 (881)
T KOG0128|consen 814 P 814 (881)
T ss_pred C
Confidence 4
No 159
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=95.16 E-value=0.038 Score=61.58 Aligned_cols=77 Identities=17% Similarity=0.269 Sum_probs=64.0
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccc-eEEEEec
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGR-TIAVRVA 568 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr-~L~V~~A 568 (797)
...+|...|++.+++|++|+++|..-|-..+.+... ++.+-++++.+.+.+.|..|+-.++.+.++.. .|+|+|+
T Consensus 413 psatlHlsnip~svsee~lk~~f~~~g~~vkafkff----~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFS 488 (492)
T KOG1190|consen 413 PSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF----QKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFS 488 (492)
T ss_pred chhheeeccCCcccchhHHHHhhhcCCceEEeeeec----CCCcceeecccCChhHhhhhccccccccCCCCceEEEEee
Confidence 356899999999999999999999988766554332 23445999999999999999999999888765 8999998
Q ss_pred CC
Q 040243 569 GK 570 (797)
Q Consensus 569 ~~ 570 (797)
+.
T Consensus 489 ks 490 (492)
T KOG1190|consen 489 KS 490 (492)
T ss_pred cc
Confidence 64
No 160
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=95.12 E-value=0.011 Score=43.27 Aligned_cols=21 Identities=33% Similarity=0.771 Sum_probs=18.9
Q ss_pred ccccceecCCCCCCcccCCCC
Q 040243 395 SDVLCKICGDGGHPTIDCLVK 415 (797)
Q Consensus 395 ~~v~Cr~CG~~gH~t~dCp~k 415 (797)
...+|++|+..|||..|||.+
T Consensus 7 ~~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 7 PGYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCCEeecCCCCCccHhHCCCC
Confidence 567999999999999999984
No 161
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=95.07 E-value=0.82 Score=52.57 Aligned_cols=58 Identities=10% Similarity=0.166 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHH-HHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCc
Q 040243 217 RARERLNKERQEIISQ-IIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRG 276 (797)
Q Consensus 217 r~~~~le~er~~li~~-~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG 276 (797)
.+++.|-+ ...||.. ..++.-.|.....|+-.-+. -+..=||++..--|.=+|+.=.+
T Consensus 28 ~lf~~lgk-~~~~l~aAVVqLY~a~p~~~~W~~~~~~-Gal~lVkD~~~rsyFlrl~di~~ 86 (569)
T KOG3671|consen 28 TLFKLLGK-KCKTLAAAVVQLYKAYPDPNHWNKTGLC-GALCLVKDNAQRSYFLRLVDIVN 86 (569)
T ss_pred HHHHHhcc-chhhHHHHHHHHHhhcCChhhhccccCc-eeEEEeeccccceeeeEEeeecC
Confidence 34444444 3333332 34455555444455433221 12222345554334444544333
No 162
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=95.02 E-value=0.073 Score=52.25 Aligned_cols=74 Identities=27% Similarity=0.550 Sum_probs=52.7
Q ss_pred CcEEEEecCCC------CCcH---HHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccc
Q 040243 491 DTNLYIGYLPP------TLDD---DGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGR 561 (797)
Q Consensus 491 ~~tLfVgNLp~------~vte---~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr 561 (797)
..||.|.=+.+ .+.+ .+|.+.|..||+|.-++++.+ .-+|+|.+-++|.+|+. |+|..+.|+
T Consensus 27 DaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~~v~g~ 97 (146)
T PF08952_consen 27 DATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGIQVNGR 97 (146)
T ss_dssp T-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCSEETTE
T ss_pred CceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCcEECCE
Confidence 44788876661 2333 267788899999998888765 67899999999999995 899999999
Q ss_pred eEEEEecCCCCC
Q 040243 562 TIAVRVAGKPPQ 573 (797)
Q Consensus 562 ~L~V~~A~~~~~ 573 (797)
.|+|++..+.+.
T Consensus 98 ~l~i~LKtpdW~ 109 (146)
T PF08952_consen 98 TLKIRLKTPDWL 109 (146)
T ss_dssp EEEEEE------
T ss_pred EEEEEeCCccHH
Confidence 999998766553
No 163
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=94.98 E-value=0.035 Score=63.54 Aligned_cols=64 Identities=17% Similarity=0.337 Sum_probs=47.7
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEe-cCC--CCcccc---eEEEEecCHHHHHHHHHhc
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIK-DRV--TGMSKG---YGFVKYADIQMANNAIASM 553 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~-dk~--TGksrG---faFV~F~s~e~A~~AI~~L 553 (797)
.-.++||||+|++.++|+.|...|..||.+. |.+.. ... --..+| |+|+.|+++.++..-|...
T Consensus 257 ~~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 257 RYSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred ccccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 3467899999999999999999999999764 22221 111 112567 9999999999888766543
No 164
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=94.94 E-value=0.011 Score=62.37 Aligned_cols=62 Identities=19% Similarity=0.309 Sum_probs=51.5
Q ss_pred HHHHHhh-cCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 507 GLIRLFS-TFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 507 dL~~~Fs-~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
+|...|+ +||+|.+++|-.+. .-.-+|-.||.|..+++|++|++.||+..+.|+.|...+.-
T Consensus 84 d~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~p 146 (260)
T KOG2202|consen 84 DVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSP 146 (260)
T ss_pred HHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecC
Confidence 4444445 89999999776654 44568999999999999999999999999999999998753
No 165
>KOG2874 consensus rRNA processing protein [Translation, ribosomal structure and biogenesis; Cell cycle control, cell division, chromosome partitioning]
Probab=94.73 E-value=0.062 Score=57.25 Aligned_cols=85 Identities=25% Similarity=0.371 Sum_probs=58.3
Q ss_pred eeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCCChHH
Q 040243 269 GLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQPVDEV 348 (797)
Q Consensus 269 G~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~~~e~ 348 (797)
-|||||.|+|||.||=-|.|-|.|.|. .|.+.|. ...|..+..+|+..+..++.-
T Consensus 161 qRLiGpng~TLKAlelLT~CYilVqG~------------------------TVsaiGp-fkGlkevr~IV~DcM~NiHPi 215 (356)
T KOG2874|consen 161 QRLIGPNGSTLKALELLTNCYILVQGN------------------------TVSAIGP-FKGLKEVRKIVEDCMKNIHPI 215 (356)
T ss_pred HHhcCCCchhHHHHHHHhhcEEEeeCc------------------------EEEeecC-cchHHHHHHHHHHHHhccchH
Confidence 589999999999999999999999975 3444443 346777777777777777766
Q ss_pred HHHHHHHHHHHHHhhcCCcCccchhcccCCC
Q 040243 349 LNEHKRQQLRELAALNGTIRDEEYCRLCGEP 379 (797)
Q Consensus 349 ~n~~k~~Ql~ela~lnGt~r~~~~c~~cg~~ 379 (797)
+|--.-.--|||+. +-+|.+++|.+.--.+
T Consensus 216 Y~IK~LmiKRel~k-d~~l~ne~W~rfLP~f 245 (356)
T KOG2874|consen 216 YNIKTLMIKRELAK-DPELANEDWSRFLPQF 245 (356)
T ss_pred HHHHHHHHHHHhhc-ChhhccccHHHHhHHh
Confidence 54322233356654 4477777666554433
No 166
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=94.73 E-value=3.9 Score=49.53 Aligned_cols=35 Identities=17% Similarity=0.228 Sum_probs=25.9
Q ss_pred ccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 532 SKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 532 srGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
.+|+.+|=++...++.+|+. .|.+|++-.+...|.
T Consensus 508 ~lGVt~IP~~kLt~dl~~~~--egam~d~~t~~p~~k 542 (894)
T KOG0132|consen 508 ELGVTYIPWEKLTDDLEAWC--EGAMLDGTTGPPEWK 542 (894)
T ss_pred ccCeeEeehHhcCHHHHHhh--hhceecCccCCcccc
Confidence 45888998988888877764 588888776666553
No 167
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=94.54 E-value=0.0029 Score=75.60 Aligned_cols=70 Identities=19% Similarity=0.361 Sum_probs=61.5
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeec
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE 559 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~ 559 (797)
+..++||.||+..+.+.+|...|..+|.+..+.+...+.+++.||+|||+|.+.+++.+||...++..++
T Consensus 666 ~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 666 DLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 4578999999999999999999999998888877766778999999999999999999999876665555
No 168
>PRK12705 hypothetical protein; Provisional
Probab=94.51 E-value=0.13 Score=60.22 Aligned_cols=101 Identities=24% Similarity=0.284 Sum_probs=69.4
Q ss_pred cChHHHHHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEE
Q 040243 211 INTREYRARERLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKI 290 (797)
Q Consensus 211 ~ntre~r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI 290 (797)
+.-.|..+++..+++-.+||..+++.... +|.--...--|.+|-+ ++-|+|||-.|.++|.||..||+.|
T Consensus 163 i~~~e~~~~~~a~~~A~~ii~~aiqr~a~-----~~~~e~tvs~v~lp~d-----emkGriIGreGrNir~~E~~tGvdl 232 (508)
T PRK12705 163 VKKIEEEADLEAERKAQNILAQAMQRIAS-----ETASDLSVSVVPIPSD-----AMKGRIIGREGRNIRAFEGLTGVDL 232 (508)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcc-----chhhhheeeeeecCCh-----HhhccccCccchhHHHHHHhhCCce
Confidence 33444455666666666676666655532 4444456667778866 5679999999999999999999999
Q ss_pred EEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcC
Q 040243 291 VIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQ 343 (797)
Q Consensus 291 ~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~ 343 (797)
.|...- =-|.|++.+...-+.|...+++||.
T Consensus 233 iiddtp----------------------~~V~ls~fdp~rreia~~~l~~Li~ 263 (508)
T PRK12705 233 IIDDTP----------------------EAVVISSFNPIRREIARLTLEKLLA 263 (508)
T ss_pred EecCCc----------------------cchhhcccCccchHHHHHHHHHHHh
Confidence 998532 1366777777666666555655554
No 169
>KOG0307 consensus Vesicle coat complex COPII, subunit SEC31 [Intracellular trafficking, secretion, and vesicular transport]
Probab=94.30 E-value=2.3 Score=53.14 Aligned_cols=39 Identities=18% Similarity=0.403 Sum_probs=20.1
Q ss_pred cccccceecCCCCCCcccCCCCCcCCCCcchHHHHHHhh
Q 040243 394 KSDVLCKICGDGGHPTIDCLVKGTTGKKMDDEYQNFLAE 432 (797)
Q Consensus 394 ~~~v~Cr~CG~~gH~t~dCp~k~~~g~~ld~eY~~~m~E 432 (797)
...+.|.||.+.=|=...|-++..........|+.+++.
T Consensus 605 ~~a~lcYi~agsv~k~v~~w~~~~~~~~~~~~y~~~~e~ 643 (1049)
T KOG0307|consen 605 SAAILCYICAGSVDKLVEIWLKALDLELAPTSYQDLAED 643 (1049)
T ss_pred hhhhHHhhhccChhhhHHHHHHhcccccchHHHHHHHHH
Confidence 357889999755554455544432221223445554443
No 170
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=94.27 E-value=0.056 Score=65.34 Aligned_cols=77 Identities=30% Similarity=0.412 Sum_probs=66.7
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeecc--ceEEEEe
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEG--RTIAVRV 567 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~G--r~L~V~~ 567 (797)
..+.+||++|..|+....|...|..||.|..|.+-.. --||+|.|.+...|+.|++.|.|..|++ ++|+|.|
T Consensus 454 ~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdl 527 (975)
T KOG0112|consen 454 PTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDL 527 (975)
T ss_pred cceeeccCCCCCCChHHHHHHHhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCccccccc
Confidence 4678999999999999999999999999998765332 2499999999999999999999999986 6799999
Q ss_pred cCCCC
Q 040243 568 AGKPP 572 (797)
Q Consensus 568 A~~~~ 572 (797)
|....
T Consensus 528 a~~~~ 532 (975)
T KOG0112|consen 528 ASPPG 532 (975)
T ss_pred ccCCC
Confidence 87543
No 171
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=94.21 E-value=0.041 Score=63.73 Aligned_cols=78 Identities=14% Similarity=0.178 Sum_probs=64.9
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhc-CCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceee---ccce
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFST-FGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRL---EGRT 562 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~-fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l---~Gr~ 562 (797)
+....+.|||.||-.-+|.-.|++++.+ +|.|.+. .+|+ -|..|||.|.+.++|.+.+..|+|... +.+.
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~--WmDk----IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~ 513 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF--WMDK----IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKH 513 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHH--HHHH----hhcceeEecccHHHHHHHHHHHhccccCCCCCce
Confidence 4556789999999999999999999995 5666665 3443 567999999999999999999999764 5788
Q ss_pred EEEEecCC
Q 040243 563 IAVRVAGK 570 (797)
Q Consensus 563 L~V~~A~~ 570 (797)
|.+.|+..
T Consensus 514 L~adf~~~ 521 (718)
T KOG2416|consen 514 LIADFVRA 521 (718)
T ss_pred eEeeecch
Confidence 99998764
No 172
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=94.03 E-value=0.12 Score=55.56 Aligned_cols=64 Identities=16% Similarity=0.222 Sum_probs=52.3
Q ss_pred HHHHHHhhcCCCEEEEEEEecCCCCccc-ceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 506 DGLIRLFSTFGDIVMAKVIKDRVTGMSK-GYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 506 ~dL~~~Fs~fG~I~~v~v~~dk~TGksr-GfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
+++++.+++||.|..|.|+.+..--..+ ---||+|...++|.+|+--|||..|+||.++..|-.
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 4677889999999999888875322222 246999999999999999999999999998877643
No 173
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=93.98 E-value=0.024 Score=61.97 Aligned_cols=84 Identities=20% Similarity=0.358 Sum_probs=65.1
Q ss_pred CCCcEEEEecCCCCCcHHH-HH--HHhhcCCCEEEEEEEecCC--CCc-ccceEEEEecCHHHHHHHHHhcCceeeccce
Q 040243 489 LDDTNLYIGYLPPTLDDDG-LI--RLFSTFGDIVMAKVIKDRV--TGM-SKGYGFVKYADIQMANNAIASMNGYRLEGRT 562 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~d-L~--~~Fs~fG~I~~v~v~~dk~--TGk-srGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~ 562 (797)
...+-+||-+|+..+.+++ |+ +.|.+||.|.+|.+.++.. .+. ...-++|+|...++|.+||...+|..++|+.
T Consensus 75 Vqknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~ 154 (327)
T KOG2068|consen 75 VQKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRA 154 (327)
T ss_pred hhhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhh
Confidence 3456789999998765554 43 7899999999998888762 111 1123799999999999999999999999999
Q ss_pred EEEEecCCCC
Q 040243 563 IAVRVAGKPP 572 (797)
Q Consensus 563 L~V~~A~~~~ 572 (797)
|+..+...+.
T Consensus 155 lka~~gttky 164 (327)
T KOG2068|consen 155 LKASLGTTKY 164 (327)
T ss_pred hHHhhCCCcc
Confidence 8887776544
No 174
>KOG1960 consensus Predicted RNA-binding protein, contains KH domains [RNA processing and modification]
Probab=93.88 E-value=0.058 Score=59.94 Aligned_cols=63 Identities=22% Similarity=0.278 Sum_probs=50.9
Q ss_pred CCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 274 PRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 274 PrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
=||.|+..||++||+.|..||+--.- +.......+.+|..+|.+.|.|-+++|++.|+-++..
T Consensus 111 TRg~~~d~Ie~~~G~~~~~RGs~~~~--------El~~vg~~~~pLv~hI~~~T~Ei~~~Ai~RIkgv~~~ 173 (531)
T KOG1960|consen 111 TRGTSYDHIEGITGTTSASRGSAPAP--------ELPPVGSSEGPLVDHIPPSTAEITSKAIERIKGVFMQ 173 (531)
T ss_pred ccchhHHhhhhhccceeeccCCCCCc--------cCCCCCCCCCcceeecCCccHHHHHHHHhhCccceee
Confidence 38999999999999999999864221 1223446788999999999999999999999966553
No 175
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=93.53 E-value=0.13 Score=60.62 Aligned_cols=77 Identities=16% Similarity=0.088 Sum_probs=65.1
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEE-EEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVM-AKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~-v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
.....|||-.|+..+++.++.++|...-.|++ |.|.+-. +++.++.|||.|..++++..|+..-..+.++.+.|+|.
T Consensus 432 ~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~ 509 (944)
T KOG4307|consen 432 GAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVD 509 (944)
T ss_pred CccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEEEee
Confidence 34568999999999999999999999877777 6666665 88899999999999999888886656667778889995
No 176
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=93.41 E-value=0.32 Score=41.19 Aligned_cols=55 Identities=20% Similarity=0.230 Sum_probs=46.0
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcC---CCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhc
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTF---GDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASM 553 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~f---G~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~L 553 (797)
..+|+|.+++. ++.++|+.+|..| ....+|.++-|. -|-|.|.+.+.|.+||..|
T Consensus 5 peavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 45899999964 7778999999998 245688899886 6789999999999999765
No 177
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=93.27 E-value=0.085 Score=55.85 Aligned_cols=67 Identities=25% Similarity=0.267 Sum_probs=57.6
Q ss_pred cEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeec
Q 040243 492 TNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLE 559 (797)
Q Consensus 492 ~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~ 559 (797)
..|||.||...++.+.|...|+.||.|.+..++.|- .++..+-++|.|...-.|.+|+..++-..|.
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~ 98 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCREGGFG 98 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHhccCccc
Confidence 679999999999999999999999999987666663 6888899999999999999999877543333
No 178
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=93.11 E-value=0.12 Score=57.46 Aligned_cols=76 Identities=20% Similarity=0.295 Sum_probs=61.8
Q ss_pred EEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCC---CCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecC
Q 040243 493 NLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRV---TGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAG 569 (797)
Q Consensus 493 tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~---TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~ 569 (797)
.|-|.||...++.+.++.||.-.|.|.++.|+-+.. -....-.|||.|.+...+..|- .|..++|-++-|.|..+.
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~p~~ 87 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVRPYG 87 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEEecC
Confidence 699999999999999999999999999998876332 2234459999999999999886 577777777777776543
No 179
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=92.44 E-value=0.078 Score=54.04 Aligned_cols=42 Identities=33% Similarity=0.668 Sum_probs=35.8
Q ss_pred chhcccCCCCCccccC-CCCCCCccccccceecCCCCCCcccCCCCC
Q 040243 371 EYCRLCGEPGHRQYAC-PSRTSTFKSDVLCKICGDGGHPTIDCLVKG 416 (797)
Q Consensus 371 ~~c~~cg~~gh~~~~c-p~~~~~~~~~v~Cr~CG~~gH~t~dCp~k~ 416 (797)
..|.+||+.||..-+| |.+. ..+.|+.|....|.+++|+.-.
T Consensus 98 ~~C~~Cg~~GH~~~dC~P~~~----~~~~C~~C~s~~H~s~~Cp~~~ 140 (190)
T COG5082 98 KKCYNCGETGHLSRDCNPSKD----QQKSCFDCNSTRHSSEDCPSIW 140 (190)
T ss_pred cccccccccCccccccCcccc----cCcceeccCCCccccccCcccc
Confidence 4799999999999999 5554 5568999999999999998743
No 180
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=92.28 E-value=0.08 Score=56.88 Aligned_cols=38 Identities=42% Similarity=0.867 Sum_probs=21.3
Q ss_pred hcccCCCCCccccCCCCCCCccccccceecCCCCCCcccCCCC
Q 040243 373 CRLCGEPGHRQYACPSRTSTFKSDVLCKICGDGGHPTIDCLVK 415 (797)
Q Consensus 373 c~~cg~~gh~~~~cp~~~~~~~~~v~Cr~CG~~gH~t~dCp~k 415 (797)
|-+||+.||...+|++. ....|..|+..+|+.+||+.+
T Consensus 146 Cy~Cg~~GH~s~~C~~~-----~~~~c~~c~~~~h~~~~C~~~ 183 (261)
T KOG4400|consen 146 CYSCGEQGHISDDCPEN-----KGGTCFRCGKVGHGSRDCPSK 183 (261)
T ss_pred cCCCCcCCcchhhCCCC-----CCCccccCCCcceecccCCcc
Confidence 55566666666555543 334555565556666666544
No 181
>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=92.06 E-value=0.45 Score=41.31 Aligned_cols=67 Identities=19% Similarity=0.423 Sum_probs=40.0
Q ss_pred EEEEe-cCCCCCcHHHHHHHhhcCC-----CEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 493 NLYIG-YLPPTLDDDGLIRLFSTFG-----DIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 493 tLfVg-NLp~~vte~dL~~~Fs~fG-----~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
+|||. +--..++..+|..++...+ .|-+|.|..+ |+||+... +.|+.+++.|++..+.|++|+|+
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~--------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve 72 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFDN--------FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS---------EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEeee--------EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence 45552 2234578888888887764 5667776554 99998876 48889999999999999999998
Q ss_pred ec
Q 040243 567 VA 568 (797)
Q Consensus 567 ~A 568 (797)
.|
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 75
No 182
>cd02134 NusA_KH NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of ribosomal rrn operons. During transcription of many other genes, NusA-induced RNAP pausing provides a mechanism for synchronizing transcription and translation . The N-terminal RNAP-binding domain (NTD) is connected through a flexible hinge helix to three globular domains, S1, KH1 and KH2. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices.
Probab=91.69 E-value=0.28 Score=41.09 Aligned_cols=36 Identities=28% Similarity=0.474 Sum_probs=31.7
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEE
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVI 292 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~I 292 (797)
...+|+|+. .-+|+.||.+|.++|.+++.+|.+|.|
T Consensus 25 ~~~~v~V~~------~~~~~aIGk~G~nI~~~~~l~~~~I~v 60 (61)
T cd02134 25 KRARVVVPD------DQLGLAIGKGGQNVRLASKLLGEKIDI 60 (61)
T ss_pred cEEEEEECc------ccceeeECCCCHHHHHHHHHHCCCeEE
Confidence 456777887 678999999999999999999999887
No 183
>COG1094 Predicted RNA-binding protein (contains KH domains) [General function prediction only]
Probab=91.57 E-value=0.54 Score=48.28 Aligned_cols=69 Identities=26% Similarity=0.383 Sum_probs=54.9
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEec----
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAE---- 326 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~---- 326 (797)
..+.|.||. .-+|.|||..|.+.|.||+.++|+|.|..+.. -|-|...
T Consensus 8 ~~~~v~iPk------~R~~~lig~~g~v~k~ie~~~~~~~~iD~~~~----------------------~V~i~~~~~t~ 59 (194)
T COG1094 8 SSEAVKIPK------DRIGVLIGKWGEVKKAIEEKTGVKLRIDSKTG----------------------SVTIRTTRKTE 59 (194)
T ss_pred ceeeeecCc------hhheeeecccccchHHHHhhcCeEEEEECCCC----------------------eEEEEecCCCC
Confidence 345677887 77899999999999999999999999997620 3334433
Q ss_pred CHHHHHHHHHHHHHhcCCChH
Q 040243 327 TQESLEGAAAMVEKLLQPVDE 347 (797)
Q Consensus 327 ~~e~v~~A~~~I~~ll~~~~e 347 (797)
|.-++.+|.++|+.|=..++.
T Consensus 60 Dp~~~~ka~d~VkAIgrGF~p 80 (194)
T COG1094 60 DPLALLKARDVVKAIGRGFPP 80 (194)
T ss_pred ChHHHHHHHHHHHHHhcCCCH
Confidence 677899999999998776654
No 184
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=91.20 E-value=0.068 Score=64.68 Aligned_cols=81 Identities=16% Similarity=0.242 Sum_probs=66.7
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
.....|||+|||...+++.+|+..|..||.|.+|.|-.-+ -++---|+||.|.+.+.+-+|+..+.+..|..-.+++.+
T Consensus 369 ~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~gl 447 (975)
T KOG0112|consen 369 FRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGL 447 (975)
T ss_pred hhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccccCcccccc
Confidence 3567899999999999999999999999999999875553 233345999999999999999998988887766666666
Q ss_pred cC
Q 040243 568 AG 569 (797)
Q Consensus 568 A~ 569 (797)
..
T Consensus 448 G~ 449 (975)
T KOG0112|consen 448 GQ 449 (975)
T ss_pred cc
Confidence 54
No 185
>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=90.91 E-value=0.92 Score=40.66 Aligned_cols=55 Identities=24% Similarity=0.426 Sum_probs=42.4
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcC
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMN 554 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~Ln 554 (797)
.+-.||+ .|..+...||.++|+.||.|. |.++.|. -|||....++.|..|+..+.
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~dT-------SAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWINDT-------SAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCEE-EEEECTT-------EEEEEECCCHHHHHHHHHHT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcCC-------cEEEEeecHHHHHHHHHHhc
Confidence 4556666 899999999999999999874 6667764 89999999999999888765
No 186
>COG1097 RRP4 RNA-binding protein Rrp4 and related proteins (contain S1 domain and KH domain) [Translation, ribosomal structure and biogenesis]
Probab=90.65 E-value=0.92 Score=48.03 Aligned_cols=86 Identities=20% Similarity=0.326 Sum_probs=58.9
Q ss_pred CCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEE
Q 040243 245 DYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVE 324 (797)
Q Consensus 245 dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~ 324 (797)
.|...+--.-|.|+. .++=|+||.+|+-++-|.++|+|+|.|==.| .|+|.
T Consensus 140 ~~GkL~~G~iv~i~p------~kVpRvig~~~sm~~~l~~~~~~~I~VG~NG-----------------------~IWV~ 190 (239)
T COG1097 140 GLGKLKNGQIVKIPP------SKVPRVIGKKGSMLNMLKEKTGCEIIVGQNG-----------------------RIWVD 190 (239)
T ss_pred CCccccCCEEEEEch------hhcceEecCCCcHHHHhhhhcCeEEEEecCC-----------------------EEEec
Confidence 344444334566776 7777999999999999999999999997666 78888
Q ss_pred ecCHHHHHHHHHHHHHhcCCC-hHHHHHHHHHHHHH
Q 040243 325 AETQESLEGAAAMVEKLLQPV-DEVLNEHKRQQLRE 359 (797)
Q Consensus 325 a~~~e~v~~A~~~I~~ll~~~-~e~~n~~k~~Ql~e 359 (797)
+.++.....|++.|.++=... .+++-+..+.+|.+
T Consensus 191 ~~~~~~e~~~~~aI~~ie~ea~~~gltdr~~~~i~~ 226 (239)
T COG1097 191 GENESLEELAIEAIRKIEREAHTSGLTDRIKEFLKK 226 (239)
T ss_pred CCCcchHHHHHHHHHHHhhhhhhhhHHHHHHHHHHH
Confidence 888755555555565554433 24444444455443
No 187
>PF08920 SF3b1: Splicing factor 3B subunit 1; InterPro: IPR015016 This group of proteins consists of several eukaryotic splicing factor 3B subunit 1 proteins, which associate with p14 through a C terminus beta-strand that interacts with beta-3 of the p14 RNA recognition motif (RRM) beta-sheet, which is in turn connected to an alpha-helix by a loop that makes extensive contacts with both the shorter C-terminal helix and RRM of p14. This subunit is required for 'A' splicing complex assembly (formed by the stable binding of U2 snRNP to the branchpoint sequence in pre-mRNA) and 'E' splicing complex assembly []. ; PDB: 2FHO_A 3LQV_P 2PEH_D 2F9J_P 2F9D_Q.
Probab=90.47 E-value=0.087 Score=51.78 Aligned_cols=37 Identities=35% Similarity=0.754 Sum_probs=2.9
Q ss_pred hhhhcccCCCCCCCCCCCCCCCCCCCCCCCccCCCCCCC
Q 040243 105 SRRRRRSRWDPPPSESGGTEGNGDSGSGTRKRRSRWADD 143 (797)
Q Consensus 105 ~~~~r~s~w~~~~~~~~~~~~~~~~~~~~~~r~srw~~~ 143 (797)
+.+|||||||.-...... ..........+|||||+..
T Consensus 3 ~~~kkrsRWDetP~~~~~--~~~~t~~~~~~krsRWd~T 39 (144)
T PF08920_consen 3 SKKKKRSRWDETPAASEP--AGAATPGEPPKKRSRWDQT 39 (144)
T ss_dssp ----------------------------------SBT--
T ss_pred CcccccccccCCcccccc--cccccccCCCCCCCCcccC
Confidence 345799999987762111 0111111478899999974
No 188
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=90.01 E-value=0.14 Score=39.90 Aligned_cols=20 Identities=40% Similarity=0.831 Sum_probs=17.9
Q ss_pred ccccceecCCCCCCcccCCC
Q 040243 395 SDVLCKICGDGGHPTIDCLV 414 (797)
Q Consensus 395 ~~v~Cr~CG~~gH~t~dCp~ 414 (797)
..+.|..|++.|||+..|+.
T Consensus 3 ~~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 3 ARVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCCcCcccCCCCcchhhCCC
Confidence 56789999999999999984
No 189
>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]
Probab=89.83 E-value=0.39 Score=54.15 Aligned_cols=28 Identities=32% Similarity=0.631 Sum_probs=27.4
Q ss_pred ceeeeeeCCCchhHHHHHHHhCcEEEEe
Q 040243 266 NFIGLIIGPRGNTQKRMERETGAKIVIR 293 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTgakI~Ir 293 (797)
+|||.+||=+|+.||+||..|+++|.|-
T Consensus 56 ~mvg~vigrggskik~iq~~tnt~iqii 83 (629)
T KOG0336|consen 56 EMVGKVIGRGGSKIKRIQNDTNTRIQII 83 (629)
T ss_pred hhhheeeccCcchhhhhhcccceeEEEe
Confidence 8999999999999999999999999997
No 190
>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=89.81 E-value=0.63 Score=47.32 Aligned_cols=82 Identities=13% Similarity=0.140 Sum_probs=51.2
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhc-CCCE---EEEEEEecC-CCCc-ccceEEEEecCHHHHHHHHHhcCceeecc--
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFST-FGDI---VMAKVIKDR-VTGM-SKGYGFVKYADIQMANNAIASMNGYRLEG-- 560 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~-fG~I---~~v~v~~dk-~TGk-srGfaFV~F~s~e~A~~AI~~LnG~~l~G-- 560 (797)
....+|.|++||+++||+++.+.+.. ++.. ..+.-.... .... .-.-|||.|.+.+++..-++.++|+.|.+
T Consensus 5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~k 84 (176)
T PF03467_consen 5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSK 84 (176)
T ss_dssp ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TT
T ss_pred ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCC
Confidence 45679999999999999999997776 6655 233211221 1121 23578999999999999999999988753
Q ss_pred ---ceEEEEecCC
Q 040243 561 ---RTIAVRVAGK 570 (797)
Q Consensus 561 ---r~L~V~~A~~ 570 (797)
....|++|--
T Consensus 85 g~~~~~~VE~Apy 97 (176)
T PF03467_consen 85 GNEYPAVVEFAPY 97 (176)
T ss_dssp S-EEEEEEEE-SS
T ss_pred CCCcceeEEEcch
Confidence 2356666643
No 191
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=89.45 E-value=12 Score=41.68 Aligned_cols=11 Identities=36% Similarity=0.622 Sum_probs=8.1
Q ss_pred CcchHHHHHHH
Q 040243 784 GADAEYEKFMA 794 (797)
Q Consensus 784 ~~~~~~~~~~~ 794 (797)
..|+|||..|.
T Consensus 357 lSeAEFEdiM~ 367 (498)
T KOG4849|consen 357 LSEAEFEDIMT 367 (498)
T ss_pred chHHHHHHHHh
Confidence 45788888874
No 192
>PF15288 zf-CCHC_6: Zinc knuckle
Probab=89.42 E-value=0.23 Score=38.28 Aligned_cols=24 Identities=38% Similarity=0.628 Sum_probs=19.2
Q ss_pred cccceecCCCCCCc--ccCCCCCcCC
Q 040243 396 DVLCKICGDGGHPT--IDCLVKGTTG 419 (797)
Q Consensus 396 ~v~Cr~CG~~gH~t--~dCp~k~~~g 419 (797)
.++|..||..||.. +.||++...+
T Consensus 1 k~kC~~CG~~GH~~t~k~CP~~~~~~ 26 (40)
T PF15288_consen 1 KVKCKNCGAFGHMRTNKRCPMYCWSG 26 (40)
T ss_pred CccccccccccccccCccCCCCCCCC
Confidence 36899999999998 4599987654
No 193
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=89.19 E-value=0.18 Score=59.43 Aligned_cols=71 Identities=11% Similarity=0.172 Sum_probs=63.4
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
....+|||+|+...+.++-++.+...+|.|.+++.+. |||..|.+.....+|+..|+-..++|+.+.+...
T Consensus 38 ~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d 108 (668)
T KOG2253|consen 38 PPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQKLIENVD 108 (668)
T ss_pred CCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcchhhccch
Confidence 3566999999999999999999999999998876544 9999999999999999999999999999888764
No 194
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=88.93 E-value=0.35 Score=55.10 Aligned_cols=78 Identities=23% Similarity=0.215 Sum_probs=61.4
Q ss_pred CCCCcEEEEecCCCCC-cHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEE
Q 040243 488 ELDDTNLYIGYLPPTL-DDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVR 566 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~v-te~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~ 566 (797)
..+.+.|-+.-.++.. +-++|...|.+||+|..|.|-... -.|.|+|.+..+|-+|- ...+..|++|-|+|.
T Consensus 369 ~~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~------~~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~ 441 (526)
T KOG2135|consen 369 VVDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSS------LHAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLF 441 (526)
T ss_pred hcccchhhhhccCCCCchHhhhhhhhhhcCccccccccCch------hhheeeeeccccccchh-ccccceecCceeEEE
Confidence 3456666666666654 457899999999999999875542 37899999999997776 468999999999999
Q ss_pred ecCCCC
Q 040243 567 VAGKPP 572 (797)
Q Consensus 567 ~A~~~~ 572 (797)
|-+...
T Consensus 442 whnps~ 447 (526)
T KOG2135|consen 442 WHNPSP 447 (526)
T ss_pred EecCCc
Confidence 987643
No 195
>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=88.03 E-value=0.92 Score=46.52 Aligned_cols=60 Identities=22% Similarity=0.210 Sum_probs=45.6
Q ss_pred cHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcC--ceeeccceEEEEecC
Q 040243 504 DDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMN--GYRLEGRTIAVRVAG 569 (797)
Q Consensus 504 te~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~Ln--G~~l~Gr~L~V~~A~ 569 (797)
....|+++|..|+.+..+.+++. -+-..|.|.+.++|.+|...|+ +..+.|..|+|-|+.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~ 69 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQ 69 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE---
T ss_pred hHHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcc
Confidence 34789999999999888876654 3567899999999999999999 999999999999983
No 196
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=87.96 E-value=14 Score=39.19 Aligned_cols=9 Identities=33% Similarity=0.914 Sum_probs=7.1
Q ss_pred ccccceecC
Q 040243 395 SDVLCKICG 403 (797)
Q Consensus 395 ~~v~Cr~CG 403 (797)
...+|.||.
T Consensus 33 khfkchich 41 (341)
T KOG2893|consen 33 KHFKCHICH 41 (341)
T ss_pred ccceeeeeh
Confidence 467899996
No 197
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=87.77 E-value=2 Score=42.27 Aligned_cols=74 Identities=20% Similarity=0.327 Sum_probs=55.0
Q ss_pred CCCCCcEEEEecCCCCCc-HHHHH---HHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccce
Q 040243 487 KELDDTNLYIGYLPPTLD-DDGLI---RLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRT 562 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vt-e~dL~---~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~ 562 (797)
.+..-.||.|+=|..++. .+||+ ..++.||.|.+|.+.- |--|.|+|.+..+|-+|+.++.. ..-|..
T Consensus 82 kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG-------rqsavVvF~d~~SAC~Av~Af~s-~~pgtm 153 (166)
T PF15023_consen 82 KEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG-------RQSAVVVFKDITSACKAVSAFQS-RAPGTM 153 (166)
T ss_pred CCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC-------CceEEEEehhhHHHHHHHHhhcC-CCCCce
Confidence 344556899987766653 24444 5567799999997643 23799999999999999998865 566778
Q ss_pred EEEEec
Q 040243 563 IAVRVA 568 (797)
Q Consensus 563 L~V~~A 568 (797)
+.+.|-
T Consensus 154 ~qCsWq 159 (166)
T PF15023_consen 154 FQCSWQ 159 (166)
T ss_pred EEeecc
Confidence 888874
No 198
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=87.69 E-value=0.26 Score=53.78 Aligned_cols=82 Identities=17% Similarity=0.098 Sum_probs=68.9
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEec
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVA 568 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A 568 (797)
...+++||+++.+.+.+.++..+|..+|.+....+........++||+.|.|...+.+..|+.....+.+.+..+...+.
T Consensus 86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~ 165 (285)
T KOG4210|consen 86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLN 165 (285)
T ss_pred cccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccc
Confidence 35779999999999999999999999998888888777778999999999999999999999754445777776666555
Q ss_pred CC
Q 040243 569 GK 570 (797)
Q Consensus 569 ~~ 570 (797)
..
T Consensus 166 ~~ 167 (285)
T KOG4210|consen 166 TR 167 (285)
T ss_pred cc
Confidence 43
No 199
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=87.35 E-value=28 Score=40.59 Aligned_cols=20 Identities=35% Similarity=0.875 Sum_probs=17.4
Q ss_pred cccceecCCCCCCcccCCCC
Q 040243 396 DVLCKICGDGGHPTIDCLVK 415 (797)
Q Consensus 396 ~v~Cr~CG~~gH~t~dCp~k 415 (797)
.-.|+.||..||-..||+-+
T Consensus 261 ~~~c~~cg~~~H~q~~cp~r 280 (554)
T KOG0119|consen 261 NRACRNCGSTGHKQYDCPGR 280 (554)
T ss_pred cccccccCCCccccccCCcc
Confidence 36899999999999999876
No 200
>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=86.98 E-value=0.39 Score=30.71 Aligned_cols=17 Identities=53% Similarity=1.167 Sum_probs=15.4
Q ss_pred hhcccCCCCCccccCCC
Q 040243 372 YCRLCGEPGHRQYACPS 388 (797)
Q Consensus 372 ~c~~cg~~gh~~~~cp~ 388 (797)
.|-+||+.||.+.+||+
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 58899999999999984
No 201
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=86.94 E-value=0.41 Score=51.44 Aligned_cols=44 Identities=36% Similarity=0.786 Sum_probs=33.2
Q ss_pred cchhcccCCCCCccccCCCCCCC-ccccccceecCCCCCCcccCCCC
Q 040243 370 EEYCRLCGEPGHRQYACPSRTST-FKSDVLCKICGDGGHPTIDCLVK 415 (797)
Q Consensus 370 ~~~c~~cg~~gh~~~~cp~~~~~-~~~~v~Cr~CG~~gH~t~dCp~k 415 (797)
+..|-.|+..||+. |++.... +...+.|..||..|||..+|+..
T Consensus 118 ~~~~~~c~~~gh~~--~~~~~~~~~~~~~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 118 ETSCYSCGKTGHRG--CPDADPVDGPKPAKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred cceeeccCCCcccc--CcccccccCCCCCccCCCCcCCcchhhCCCC
Confidence 44678899999998 5554422 22228999999999999999954
No 202
>KOG2192 consensus PolyC-binding hnRNP-K protein HRB57A/hnRNP, contains KH domain [RNA processing and modification; General function prediction only]
Probab=86.40 E-value=1.9 Score=45.99 Aligned_cols=69 Identities=26% Similarity=0.398 Sum_probs=51.6
Q ss_pred ceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHH
Q 040243 250 KLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQE 329 (797)
Q Consensus 250 ~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e 329 (797)
..+..|-||. ++-|-|||-+|.-||+|-.|+||.|.|.--- +-.|+--+.|++ +++
T Consensus 314 itTaQvtip~------dlggsiigkggqri~~ir~esGA~Ikidepl-----------------eGsedrIitItG-Tqd 369 (390)
T KOG2192|consen 314 ITTAQVTIPK------DLGGSIIGKGGQRIKQIRHESGASIKIDEPL-----------------EGSEDRIITITG-TQD 369 (390)
T ss_pred eeeeeEeccc------ccCcceecccchhhhhhhhccCceEEecCcC-----------------CCCCceEEEEec-cHH
Confidence 5678899998 8899999999999999999999999998421 112332444544 688
Q ss_pred HHHHHHHHHHHhc
Q 040243 330 SLEGAAAMVEKLL 342 (797)
Q Consensus 330 ~v~~A~~~I~~ll 342 (797)
.|..|.=++++-+
T Consensus 370 QIqnAQYLlQn~V 382 (390)
T KOG2192|consen 370 QIQNAQYLLQNSV 382 (390)
T ss_pred HHhhHHHHHHHHH
Confidence 8888866655443
No 203
>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=85.95 E-value=5.5 Score=37.60 Aligned_cols=68 Identities=21% Similarity=0.256 Sum_probs=51.1
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcC-CCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeecc
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTF-GDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEG 560 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~f-G~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~G 560 (797)
...+.+...+..++.++|..+.+.+ ..|..++|++|. ..++=.+.+.|.+.++|..-.+.+||+.+..
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 3444555566666667777666665 467778999974 3467788999999999999999999988763
No 204
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=85.45 E-value=1 Score=52.39 Aligned_cols=57 Identities=14% Similarity=0.178 Sum_probs=44.7
Q ss_pred CCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCcee---ec-cceEEEEecCCC
Q 040243 515 FGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYR---LE-GRTIAVRVAGKP 571 (797)
Q Consensus 515 fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~---l~-Gr~L~V~~A~~~ 571 (797)
.|.-..+++..|-.+....|||||.|.+.+++.++.+++||+. |+ .+.+.+.||.-.
T Consensus 413 ~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQ 473 (549)
T KOG4660|consen 413 KGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQ 473 (549)
T ss_pred cCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhh
Confidence 4555567788887788889999999999999999999999975 33 344677777543
No 205
>KOG2192 consensus PolyC-binding hnRNP-K protein HRB57A/hnRNP, contains KH domain [RNA processing and modification; General function prediction only]
Probab=84.80 E-value=2.4 Score=45.23 Aligned_cols=39 Identities=18% Similarity=0.440 Sum_probs=33.7
Q ss_pred ceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEec
Q 040243 250 KLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRG 294 (797)
Q Consensus 250 ~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrG 294 (797)
+++.+|++-.|. .|.|||-+|++||+|..+.+|.|+|-.
T Consensus 47 r~e~ril~~sk~------agavigkgg~nik~lr~d~na~v~vpd 85 (390)
T KOG2192|consen 47 RVELRILLQSKN------AGAVIGKGGKNIKALRTDYNASVSVPD 85 (390)
T ss_pred ceeEEEEEeccc------ccceeccccccHHHHhhhccceeeccC
Confidence 577788887743 499999999999999999999999874
No 206
>KOG1984 consensus Vesicle coat complex COPII, subunit SFB3 [Intracellular trafficking, secretion, and vesicular transport]
Probab=84.72 E-value=1.2e+02 Score=38.09 Aligned_cols=7 Identities=14% Similarity=0.496 Sum_probs=2.8
Q ss_pred CcchHHH
Q 040243 784 GADAEYE 790 (797)
Q Consensus 784 ~~~~~~~ 790 (797)
-.|.+|+
T Consensus 255 ~d~~~~r 261 (1007)
T KOG1984|consen 255 EDDSSFR 261 (1007)
T ss_pred chhhhhh
Confidence 3344443
No 207
>PF13184 KH_5: NusA-like KH domain; PDB: 1HH2_P 1L2F_A 2ATW_A 1K0R_B 2ASB_A.
Probab=84.28 E-value=0.67 Score=40.00 Aligned_cols=39 Identities=28% Similarity=0.441 Sum_probs=28.9
Q ss_pred EEEecCCCCCCCceeeeeeCCCchhHHHHHHHh-CcEEEEe
Q 040243 254 KLYIPMKEYPGYNFIGLIIGPRGNTQKRMERET-GAKIVIR 293 (797)
Q Consensus 254 Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eT-gakI~Ir 293 (797)
||.|-. ..+.+|-+|.+||.+|..+|.|+++. |-||.|=
T Consensus 6 kvaV~~-~~~~~d~vG~~iG~~G~rik~i~~~L~gekIdvV 45 (69)
T PF13184_consen 6 KVAVKS-GDPNIDPVGACIGKKGSRIKAISEELNGEKIDVV 45 (69)
T ss_dssp EEEEEE-SSTTS-HHHHHH-CCCCCHHHHHHHTTT-EEEEE
T ss_pred EEEEEc-CCCCcCcceecCccccHHHHHHHHHhCCCeEEEE
Confidence 444443 33789999999999999999999999 7777665
No 208
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=83.66 E-value=1.8 Score=50.38 Aligned_cols=73 Identities=12% Similarity=0.215 Sum_probs=58.7
Q ss_pred CCCCcEEEEecCCCCCcHHHHHHHhhc--CCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCc--eeeccceE
Q 040243 488 ELDDTNLYIGYLPPTLDDDGLIRLFST--FGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNG--YRLEGRTI 563 (797)
Q Consensus 488 ~~~~~tLfVgNLp~~vte~dL~~~Fs~--fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG--~~l~Gr~L 563 (797)
....|.|.++-|+..+-.++++.||.. |-.+.+|.+..+- -=||+|++..+|+.|.+.|.. ++|.|+.|
T Consensus 172 ~~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpI 244 (684)
T KOG2591|consen 172 NHKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPI 244 (684)
T ss_pred CcceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcch
Confidence 346778999999999999999999976 6788899877663 458999999999999887754 45777776
Q ss_pred EEEe
Q 040243 564 AVRV 567 (797)
Q Consensus 564 ~V~~ 567 (797)
..++
T Consensus 245 mARI 248 (684)
T KOG2591|consen 245 MARI 248 (684)
T ss_pred hhhh
Confidence 5544
No 209
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=83.59 E-value=1.9 Score=46.94 Aligned_cols=65 Identities=23% Similarity=0.367 Sum_probs=48.3
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceE
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTI 563 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L 563 (797)
..=|-|-+++..- -..|..+|++||+|++.... ..-.|-+|.|.++.+|++||. .||+.|+|..+
T Consensus 197 D~WVTVfGFppg~-~s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALs-kng~ii~g~vm 261 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQ-VSIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALS-KNGTIIDGDVM 261 (350)
T ss_pred cceEEEeccCccc-hhHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhh-hcCeeeccceE
Confidence 3344455666643 35677899999999887543 223499999999999999996 59999998653
No 210
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=83.42 E-value=0.5 Score=36.90 Aligned_cols=18 Identities=44% Similarity=1.206 Sum_probs=16.7
Q ss_pred chhcccCCCCCccccCCC
Q 040243 371 EYCRLCGEPGHRQYACPS 388 (797)
Q Consensus 371 ~~c~~cg~~gh~~~~cp~ 388 (797)
..|..|++.||-.|||+.
T Consensus 5 ~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 5 VRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CcCcccCCCCcchhhCCC
Confidence 579999999999999995
No 211
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=82.84 E-value=0.7 Score=55.96 Aligned_cols=76 Identities=20% Similarity=0.319 Sum_probs=64.8
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceee--ccceEEEEec
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRL--EGRTIAVRVA 568 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l--~Gr~L~V~~A 568 (797)
..+.++.|..-..+...|..+|++||.|.+++.++|- -.|.|+|.+.+.|-.|++.|+|+++ -|-..+|.+|
T Consensus 298 qp~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~a 371 (1007)
T KOG4574|consen 298 QPKQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDL------NMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFA 371 (1007)
T ss_pred cchhhhhcccccchHHHHHHHHHhhcchhhheecccc------cchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEec
Confidence 3467777888888999999999999999999988875 3899999999999999999999875 4777888888
Q ss_pred CCCC
Q 040243 569 GKPP 572 (797)
Q Consensus 569 ~~~~ 572 (797)
+.-.
T Consensus 372 k~~~ 375 (1007)
T KOG4574|consen 372 KTLP 375 (1007)
T ss_pred cccc
Confidence 7433
No 212
>KOG2190 consensus PolyC-binding proteins alphaCP-1 and related KH domain proteins [RNA processing and modification; General function prediction only]
Probab=82.66 E-value=0.84 Score=53.42 Aligned_cols=40 Identities=35% Similarity=0.630 Sum_probs=36.6
Q ss_pred ceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEecc
Q 040243 250 KLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGK 295 (797)
Q Consensus 250 ~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGk 295 (797)
.++.++.||. ++||-|||..|+.+-.|++.|||.|.|-++
T Consensus 337 ~v~~~l~vps------~~igciiGk~G~~iseir~~tgA~I~I~~~ 376 (485)
T KOG2190|consen 337 TVTQRLLVPS------DLIGCIIGKGGAKISEIRQRTGASISILNK 376 (485)
T ss_pred eeeeeeccCc------cccceeecccccchHHHHHhcCCceEEccc
Confidence 3678888987 999999999999999999999999999864
No 213
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=81.95 E-value=0.61 Score=35.05 Aligned_cols=19 Identities=42% Similarity=0.796 Sum_probs=12.4
Q ss_pred cceecCCCCCCcccCCCCC
Q 040243 398 LCKICGDGGHPTIDCLVKG 416 (797)
Q Consensus 398 ~Cr~CG~~gH~t~dCp~k~ 416 (797)
.|..||.+.||+++|..+-
T Consensus 4 ~CprC~kg~Hwa~~C~sk~ 22 (36)
T PF14787_consen 4 LCPRCGKGFHWASECRSKT 22 (36)
T ss_dssp C-TTTSSSCS-TTT---TC
T ss_pred cCcccCCCcchhhhhhhhh
Confidence 6999999999999998763
No 214
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=76.95 E-value=3.9 Score=47.26 Aligned_cols=39 Identities=26% Similarity=0.461 Sum_probs=34.5
Q ss_pred EEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEecccc
Q 040243 253 KKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGS 297 (797)
Q Consensus 253 ~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS 297 (797)
..|+||. .+|+.+||-+|+.+++||+..|-+|.|+-.+.
T Consensus 488 avv~vpe------~~i~~vigk~g~~i~~ie~klgi~I~v~~~e~ 526 (604)
T COG1855 488 AVVKVPE------KYIPKVIGKGGKRIKEIEKKLGIKIDVKPLEE 526 (604)
T ss_pred EEEEeCH------HHhhHHhhcccchHHHHHHHhCCceEEEEccc
Confidence 4567887 67889999999999999999999999997763
No 215
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=76.33 E-value=2.2 Score=46.57 Aligned_cols=57 Identities=25% Similarity=0.415 Sum_probs=42.1
Q ss_pred CceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHH-HHHHHh
Q 040243 265 YNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAA-AMVEKL 341 (797)
Q Consensus 265 ~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~-~~I~~l 341 (797)
+-+||+|.||.|+|+|+||+.+..-|.--++-+ |+ -.+|++.+..++++|- ++|+.-
T Consensus 123 ~rvvglvv~~~~~ti~~iqq~tnt~I~T~v~~~-------------------~~-Vf~Vtg~~~nC~kra~s~eie~t 180 (394)
T KOG2113|consen 123 LRVVGLVVGPKGATIKRIQQFTNTYIATPVRCG-------------------EP-VFCVTGAPKNCVKRARSCEIEQT 180 (394)
T ss_pred ceeeeeccccccCccchheecccceEeeeccCC-------------------Cc-eEEEecCCcchhhhccccchhhh
Confidence 589999999999999999999999888765431 11 3456776666677665 555543
No 216
>PHA03378 EBNA-3B; Provisional
Probab=74.71 E-value=44 Score=40.43 Aligned_cols=19 Identities=11% Similarity=0.188 Sum_probs=11.5
Q ss_pred CceeeeeeCCCchhHHHHH
Q 040243 265 YNFIGLIIGPRGNTQKRME 283 (797)
Q Consensus 265 ~NfiG~iiGPrG~t~K~le 283 (797)
+.|+|.|-...-..||.-=
T Consensus 282 veFmG~L~k~d~~~Ik~Wf 300 (991)
T PHA03378 282 VEFVGWLCKKDHTHIREWF 300 (991)
T ss_pred HHHHHHHhccccHHHHHHH
Confidence 4566666666666666543
No 217
>PRK08406 transcription elongation factor NusA-like protein; Validated
Probab=73.72 E-value=3.9 Score=40.16 Aligned_cols=29 Identities=34% Similarity=0.542 Sum_probs=26.9
Q ss_pred ceeeeeeCCCchhHHHHHHHhCcEEEEec
Q 040243 266 NFIGLIIGPRGNTQKRMERETGAKIVIRG 294 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTgakI~IrG 294 (797)
+.+|..||.+|+.+|.|++..|-||.|=.
T Consensus 41 ~~vG~~IG~~G~rI~~i~e~lgekIdVve 69 (140)
T PRK08406 41 GDMGLAIGKGGENVKRLEEKLGKDIELVE 69 (140)
T ss_pred CCccccCCcCchHHHHHHHHhCCceEEEE
Confidence 78899999999999999999999998875
No 218
>smart00343 ZnF_C2HC zinc finger.
Probab=73.35 E-value=1.7 Score=29.99 Aligned_cols=17 Identities=41% Similarity=0.837 Sum_probs=15.0
Q ss_pred cceecCCCCCCcccCCC
Q 040243 398 LCKICGDGGHPTIDCLV 414 (797)
Q Consensus 398 ~Cr~CG~~gH~t~dCp~ 414 (797)
+|..||..||+.++|+.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 48899999999999973
No 219
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=70.70 E-value=25 Score=40.01 Aligned_cols=14 Identities=43% Similarity=0.726 Sum_probs=12.4
Q ss_pred CcchHHHHHHHhcC
Q 040243 784 GADAEYEKFMAEMK 797 (797)
Q Consensus 784 ~~~~~~~~~~~~~~ 797 (797)
..|.-|+-||.||+
T Consensus 471 tkDDaY~~FMkEM~ 484 (487)
T KOG4672|consen 471 TKDDAYNAFMKEMD 484 (487)
T ss_pred cchHHHHHHHHHHh
Confidence 46899999999995
No 220
>cd02409 KH-II KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional modifiers of mRNA (e.g. hnRNP K). There are two different KH domains that belong to different protein folds, but they share a single KH motif. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In addition to their KH core domain, KH-II proteins have an N-terminal alpha helical extension while KH-I proteins have a C-terminal alpha helical extension.
Probab=70.37 E-value=3.6 Score=33.77 Aligned_cols=23 Identities=22% Similarity=0.497 Sum_probs=21.0
Q ss_pred eeeeeCCCchhHHHHHHHhCcEE
Q 040243 268 IGLIIGPRGNTQKRMERETGAKI 290 (797)
Q Consensus 268 iG~iiGPrG~t~K~le~eTgakI 290 (797)
.|++||-+|.+++.|+..++-.+
T Consensus 36 ~g~lIGk~G~~l~~l~~l~~~~~ 58 (68)
T cd02409 36 PGLVIGKKGQNIRALQKLLQKLL 58 (68)
T ss_pred CceEECCCCccHHHHHHHHHHHc
Confidence 69999999999999999998655
No 221
>PRK00089 era GTPase Era; Reviewed
Probab=69.76 E-value=16 Score=39.50 Aligned_cols=87 Identities=17% Similarity=0.311 Sum_probs=52.4
Q ss_pred CCCcccCCCCcccChHHHHHHHHHHHHHHHHHHHHHHhCCCC--CCCCCC---CCCceEEEEEecCCCCCCCceeeeeeC
Q 040243 199 SPEPIYDNMGIRINTREYRARERLNKERQEIISQIIKRNPAF--KPPADY---RPPKLQKKLYIPMKEYPGYNFIGLIIG 273 (797)
Q Consensus 199 sp~p~yd~~g~r~ntre~r~~~~le~er~~li~~~~~~~p~~--~pp~dy---~p~~~~~Ki~IP~~~~P~~NfiG~iiG 273 (797)
.-+..|+.+-....+... ...|.-|..|+..+.+-+|.- .....| .-.++...|||.-+.+ .+.|||
T Consensus 172 ~~~~~y~~~~~td~~~r~---~~~EiiRe~~~~~l~~e~p~~~~v~~~~~~~~~~~~i~~~i~v~~~~~-----k~i~ig 243 (292)
T PRK00089 172 EGPPYYPEDQITDRPERF---LAAEIIREKLLRLLGDELPYSVAVEIEKFEERGLVRIEATIYVERDSQ-----KGIIIG 243 (292)
T ss_pred CCCCCCCCCCCCCCCHHH---HHHHHHHHHHHhhCCccCCceEEEEEEEEEECCeEEEEEEEEEccCCc-----eeEEEe
Confidence 334677765333222222 233344777777766656541 111111 2234677888887655 489999
Q ss_pred CCchhHHHH--------HHHhCcEEEEe
Q 040243 274 PRGNTQKRM--------ERETGAKIVIR 293 (797)
Q Consensus 274 PrG~t~K~l--------e~eTgakI~Ir 293 (797)
-+|.+||+| |+-.||||.+.
T Consensus 244 ~~g~~i~~i~~~ar~~l~~~~~~~v~l~ 271 (292)
T PRK00089 244 KGGAMLKKIGTEARKDIEKLLGKKVFLE 271 (292)
T ss_pred CCcHHHHHHHHHHHHHHHHHhCCCEEEE
Confidence 999999976 67788888776
No 222
>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=69.23 E-value=21 Score=30.74 Aligned_cols=55 Identities=13% Similarity=0.226 Sum_probs=43.6
Q ss_pred CCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEE
Q 040243 502 TLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAV 565 (797)
Q Consensus 502 ~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V 565 (797)
.++-++|+..+.+|+- . +|..|+ | | -||.|.+..+|+++....+|..+.+.+|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~--~I~~d~-t----G-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-D--RIRDDR-T----G-FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-c--eEEecC-C----E-EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 4677899999999963 2 344555 2 3 379999999999999999999998887765
No 223
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=68.86 E-value=14 Score=43.71 Aligned_cols=79 Identities=23% Similarity=0.374 Sum_probs=59.6
Q ss_pred CCCcEEEEecCCCC-CcHHHHHHHhhcC----CCEEEEEEEecC----------CCCc----------------------
Q 040243 489 LDDTNLYIGYLPPT-LDDDGLIRLFSTF----GDIVMAKVIKDR----------VTGM---------------------- 531 (797)
Q Consensus 489 ~~~~tLfVgNLp~~-vte~dL~~~Fs~f----G~I~~v~v~~dk----------~TGk---------------------- 531 (797)
...++|-|-||.|. +...||..+|..| |.|.+|.|.... ..|.
T Consensus 172 ~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~ 251 (650)
T KOG2318|consen 172 EETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEE 251 (650)
T ss_pred cccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhh
Confidence 34568999999997 7788999999887 699999876432 1121
Q ss_pred --------------cc-ceEEEEecCHHHHHHHHHhcCceeeccc--eEEEEe
Q 040243 532 --------------SK-GYGFVKYADIQMANNAIASMNGYRLEGR--TIAVRV 567 (797)
Q Consensus 532 --------------sr-GfaFV~F~s~e~A~~AI~~LnG~~l~Gr--~L~V~~ 567 (797)
-| =||.|+|.+.+.|...-+.++|..|..- .|-++|
T Consensus 252 ~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRF 304 (650)
T KOG2318|consen 252 DVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRF 304 (650)
T ss_pred hHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeee
Confidence 01 2789999999999999999999998754 444444
No 224
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=65.14 E-value=3.7e+02 Score=35.19 Aligned_cols=10 Identities=30% Similarity=0.627 Sum_probs=4.3
Q ss_pred EEEecccccc
Q 040243 290 IVIRGKGSVK 299 (797)
Q Consensus 290 I~IrGkGS~k 299 (797)
|.|+=.|+++
T Consensus 846 imv~yDgTVR 855 (1605)
T KOG0260|consen 846 IMVAYDGTVR 855 (1605)
T ss_pred HHhhcCccee
Confidence 3444444443
No 225
>KOG2113 consensus Predicted RNA binding protein, contains KH domain [General function prediction only]
Probab=63.51 E-value=5.8 Score=43.48 Aligned_cols=39 Identities=18% Similarity=0.324 Sum_probs=31.9
Q ss_pred CceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEe
Q 040243 249 PKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIR 293 (797)
Q Consensus 249 ~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~Ir 293 (797)
..+++.|-+| +.|+++|.|++|.++|.|+.+|...|.-=
T Consensus 24 ~nvt~sv~vp------s~~v~~ivg~qg~kikalr~KTqtyi~tP 62 (394)
T KOG2113|consen 24 QNVTESVEVP------SEHVAEIVGRQGCKIKALRAKTQTYIKTP 62 (394)
T ss_pred CccceeeecC------cccceeecccCccccchhhhhhcceeccC
Confidence 4566665555 48999999999999999999999987643
No 226
>KOG0260 consensus RNA polymerase II, large subunit [Transcription]
Probab=63.22 E-value=3.8e+02 Score=35.08 Aligned_cols=7 Identities=29% Similarity=0.335 Sum_probs=2.9
Q ss_pred CEEEEEE
Q 040243 517 DIVMAKV 523 (797)
Q Consensus 517 ~I~~v~v 523 (797)
.|.+|.+
T Consensus 1257 ~i~kV~m 1263 (1605)
T KOG0260|consen 1257 DIFKVYM 1263 (1605)
T ss_pred ccceEEE
Confidence 4444443
No 227
>KOG4672 consensus Uncharacterized conserved low complexity protein [Function unknown]
Probab=59.56 E-value=59 Score=37.18 Aligned_cols=18 Identities=22% Similarity=0.189 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHhC
Q 040243 220 ERLNKERQEIISQIIKRN 237 (797)
Q Consensus 220 ~~le~er~~li~~~~~~~ 237 (797)
..+.+--.+|+++|.+++
T Consensus 43 ~lk~KDp~qi~~~m~kld 60 (487)
T KOG4672|consen 43 VLKYKDPDQITSKMEKLD 60 (487)
T ss_pred hhccCCHHHHHHHHHhhc
Confidence 333334445555555554
No 228
>TIGR00436 era GTP-binding protein Era. Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.
Probab=58.49 E-value=41 Score=36.10 Aligned_cols=67 Identities=15% Similarity=0.135 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHhCCCC--CCCCCC-----CCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHH--------HHHh
Q 040243 222 LNKERQEIISQIIKRNPAF--KPPADY-----RPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRM--------ERET 286 (797)
Q Consensus 222 le~er~~li~~~~~~~p~~--~pp~dy-----~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~l--------e~eT 286 (797)
-|--|.+|+..+.+-+|.- .....| .-..+...|++..+.+- |.|||-+|.+||+| |+-.
T Consensus 185 ~e~ire~~~~~~~~e~p~~~~~~~~~~~~~~~~~~~i~~~i~v~~~s~k-----~iiig~~g~~ik~i~~~ar~~l~~~~ 259 (270)
T TIGR00436 185 SEIIREKIIRYTKEEIPHSVRVEIERKSFNEKGLLKIHALISVERESQK-----KIIIGKNGSMIKAIGIAARKDILELF 259 (270)
T ss_pred HHHHHHHHHHhcccccCceEEEEEEEEEECCCCeEEEEEEEEECcCCce-----eEEEcCCcHHHHHHHHHHHHHHHHHh
Confidence 3445566666665555531 111111 11346778888877554 89999999999986 6667
Q ss_pred CcEEEEe
Q 040243 287 GAKIVIR 293 (797)
Q Consensus 287 gakI~Ir 293 (797)
||||.++
T Consensus 260 ~~~v~l~ 266 (270)
T TIGR00436 260 DCDVFLE 266 (270)
T ss_pred CCCEEEE
Confidence 7877764
No 229
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=57.80 E-value=17 Score=41.13 Aligned_cols=56 Identities=18% Similarity=0.256 Sum_probs=48.6
Q ss_pred CCcEEEEecCCCCCcHHHHHHHhhcCC-CEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHh
Q 040243 490 DDTNLYIGYLPPTLDDDGLIRLFSTFG-DIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIAS 552 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte~dL~~~Fs~fG-~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~ 552 (797)
-.+-|-|-+++.....+||..+|+.|+ .--+|+|+.|. .+|-+|.+...|..||-.
T Consensus 390 lpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 390 LPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALTL 446 (528)
T ss_pred ccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhhc
Confidence 457888999999999999999999996 45678888886 899999999999999953
No 230
>PHA03378 EBNA-3B; Provisional
Probab=57.71 E-value=2.1e+02 Score=35.10 Aligned_cols=10 Identities=10% Similarity=0.082 Sum_probs=5.6
Q ss_pred CchhHHHHHH
Q 040243 275 RGNTQKRMER 284 (797)
Q Consensus 275 rG~t~K~le~ 284 (797)
+|.|-+.|..
T Consensus 325 rpLtsedi~~ 334 (991)
T PHA03378 325 DPLTSEEIDL 334 (991)
T ss_pred ccchHHHHHH
Confidence 5566555544
No 231
>PRK15494 era GTPase Era; Provisional
Probab=57.54 E-value=40 Score=37.71 Aligned_cols=66 Identities=20% Similarity=0.351 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHhCCC--------CCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHH--------HHH
Q 040243 222 LNKERQEIISQIIKRNPA--------FKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRM--------ERE 285 (797)
Q Consensus 222 le~er~~li~~~~~~~p~--------~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~l--------e~e 285 (797)
.|--|.+|+..+.+-+|. |..-.+. -..+...|||.-+.+- +.|||-+|.+||+| |+-
T Consensus 237 ~eiiRe~~~~~~~~EiP~~~~v~i~~~~~~~~~-~~~i~~~i~v~~~sqk-----~iiiG~~g~~ik~i~~~ar~~le~~ 310 (339)
T PRK15494 237 AEITREQLFLNLQKELPYKLTVQTEKWEDLKDK-SVKINQVIVVSRESYK-----TIILGKNGSKIKEIGAKSRMQMERF 310 (339)
T ss_pred HHHHHHHHHhhCCcccCceEEEEEEEEEEcCCC-eEEEEEEEEECCCCce-----eEEEcCCcHHHHHHHHHHHHHHHHH
Confidence 455677777776665654 3221111 1346788898887554 89999999999976 777
Q ss_pred hCcEEEEe
Q 040243 286 TGAKIVIR 293 (797)
Q Consensus 286 TgakI~Ir 293 (797)
.||||.++
T Consensus 311 ~~~~v~l~ 318 (339)
T PRK15494 311 FGFPVHLF 318 (339)
T ss_pred hCCCeEEE
Confidence 88888876
No 232
>COG1702 PhoH Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]
Probab=57.36 E-value=15 Score=41.27 Aligned_cols=53 Identities=25% Similarity=0.341 Sum_probs=43.1
Q ss_pred ceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHH--HhcC
Q 040243 266 NFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVE--KLLQ 343 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~--~ll~ 343 (797)
|-+-.|.||.+..++.||+.+|+.|.-||. ++.|.++.. .++.|..++. .++.
T Consensus 24 ~~~~~l~G~~~~~l~l~e~~~gv~i~~rG~------------------------~~~i~g~~~-~v~~A~~~l~~l~~~~ 78 (348)
T COG1702 24 NELVALFGPTDTNLSLLEIALGVSIVARGE------------------------AVRIIGARP-LVDVATRVLLTLELLA 78 (348)
T ss_pred hhhhhhcCCCCccHHHHHHHhCcEEEeCCc------------------------eEEEEechH-HHHHHHHHHhHHHHHH
Confidence 566688999999999999999999999974 677777765 7787877777 4444
No 233
>PRK13764 ATPase; Provisional
Probab=57.27 E-value=11 Score=45.42 Aligned_cols=39 Identities=28% Similarity=0.496 Sum_probs=34.5
Q ss_pred EEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccc
Q 040243 252 QKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 252 ~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkG 296 (797)
...||||. ..|+.+||-+|+++++||+..|.+|.||-+.
T Consensus 482 ~~~v~~~~------~~~~~~~~k~~~~~~~~~~~~~~~i~v~~~~ 520 (602)
T PRK13764 482 KAVVYVPE------KDIPKVIGKGGKRIKKIEKKLGIDIDVRPLD 520 (602)
T ss_pred eEEEEECh------hhhhHHhccCcchHHHHHHHhCCceEEEEcc
Confidence 45788998 5677999999999999999999999999764
No 234
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=56.48 E-value=24 Score=40.66 Aligned_cols=68 Identities=21% Similarity=0.367 Sum_probs=58.1
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcC-CCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeecc
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTF-GDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEG 560 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~f-G~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~G 560 (797)
.+.|+|=.+|-.++--||..|+..| -.|..++|++|.. -++=..+|.|.+..+|..-.+.+||+.|..
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCC--CceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 7789999999999999999999876 4888999999742 344567899999999999999999988763
No 235
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=55.93 E-value=2.8 Score=43.81 Aligned_cols=73 Identities=23% Similarity=0.387 Sum_probs=61.4
Q ss_pred CCCcEEEEec----CCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccce
Q 040243 489 LDDTNLYIGY----LPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRT 562 (797)
Q Consensus 489 ~~~~tLfVgN----Lp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~ 562 (797)
....+++.|+ |...++++.+.++|+.-|.+..+++-.+. +|+++-|+||++....+.-.++....+..+.-++
T Consensus 78 e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y~~l~~~~~~ 154 (267)
T KOG4454|consen 78 EEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLYQGLELFQKK 154 (267)
T ss_pred hhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhhcccCcCCCC
Confidence 3456888888 88999999999999999999999998887 4899999999999888888888877766554433
No 236
>PRK12329 nusA transcription elongation factor NusA; Provisional
Probab=53.85 E-value=8 Score=44.68 Aligned_cols=75 Identities=21% Similarity=0.287 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCC---CCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHh-CcEEEE
Q 040243 217 RARERLNKERQEIISQIIKRNPAFK---PPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERET-GAKIVI 292 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~~---pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eT-gakI~I 292 (797)
-++++|+.|--+|-+-+.++----+ ||+.+ +=...||-|=. ..++++-||..||.+|..++.|.++. |=||.|
T Consensus 228 lv~~Lfe~EVPEI~dG~VeIk~IAREa~~~~ri--pG~RtKVAV~S-~d~~VDPvGacVG~kG~RI~~I~~eL~gEkIDV 304 (449)
T PRK12329 228 LVVYLFENEVPEIEEGVVRIVAVAREANPPSRY--VGPRTKIAVDT-LERDVDPVGACIGARGSRIQAVVNELRGEKIDV 304 (449)
T ss_pred HHHHHHHhhCcccccCeEEEEEEEecCCCCCCC--CcceeEEEEEc-CCCCCChhhccCCCCcchHHHHHHHhCCCeEEE
Confidence 4678888888887776555433222 23322 12234555544 34889999999999999999999999 888887
Q ss_pred ec
Q 040243 293 RG 294 (797)
Q Consensus 293 rG 294 (797)
=-
T Consensus 305 I~ 306 (449)
T PRK12329 305 IR 306 (449)
T ss_pred EE
Confidence 64
No 237
>KOG0334 consensus RNA helicase [RNA processing and modification]
Probab=52.74 E-value=18 Score=45.49 Aligned_cols=85 Identities=22% Similarity=0.246 Sum_probs=62.8
Q ss_pred CCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEE
Q 040243 245 DYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVE 324 (797)
Q Consensus 245 dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~ 324 (797)
.|..-+++++ +..+++|- |.-+++.+-.- |.+|.+.++|.|.+||+=- ..|+. . ...++-||++|+
T Consensus 892 ~~~~~~y~~~--~~inD~Pq-~~r~~vt~~~~--L~~i~e~~~~~it~rg~f~-~~gk~-----p---~~gErklyl~ve 957 (997)
T KOG0334|consen 892 LILQFIYEAE--LEINDFPQ-NARWRVTYKEA--LLRISEPTAAGITTRGKFN-PPGKE-----P---KPGERKLYLLVE 957 (997)
T ss_pred ccccceeeee--ccccccch-hcceeeechhh--hhhccCccccceeeccccC-CCCCC-----C---CCcchhhhhhhh
Confidence 3444467777 56678884 46677776543 9999999999999999741 11211 0 245678999999
Q ss_pred ecCHHHHHHHHHHHHHhcC
Q 040243 325 AETQESLEGAAAMVEKLLQ 343 (797)
Q Consensus 325 a~~~e~v~~A~~~I~~ll~ 343 (797)
+.++-.|.+|++.++.+|.
T Consensus 958 ~~~e~~vqra~~e~~r~l~ 976 (997)
T KOG0334|consen 958 GPDELSVQRAIEELERLLE 976 (997)
T ss_pred cchhHHHHHHHHHHHHHHH
Confidence 9999999999999999665
No 238
>PRK12327 nusA transcription elongation factor NusA; Provisional
Probab=52.11 E-value=9.3 Score=43.31 Aligned_cols=70 Identities=20% Similarity=0.302 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHh-CcEEEEe
Q 040243 217 RARERLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERET-GAKIVIR 293 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eT-gakI~Ir 293 (797)
-++++|+.|--+|-+-+.++----+.|- ...||-|=. ..+++|-||..||++|..++.|.++. |=||.|=
T Consensus 203 ~v~~Lfe~EVPEI~~G~VeIk~iaR~pG------~RtKVAV~s-~~~~iDpvGa~iG~~G~rI~~i~~el~gekIdiv 273 (362)
T PRK12327 203 LVKRLFELEVPEIYDGTVEIKSIAREAG------DRTKIAVRS-NNPNVDAKGACVGPKGQRVQNIVSELKGEKIDII 273 (362)
T ss_pred HHHHHHHHhCccccCCeEEEEEEeeCCc------ceeEEEEEc-CCCCCCchheeECCCChhHHHHHHHhCCCeEEEE
Confidence 3566777776666554433221112211 223554443 34889999999999999999999998 7777665
No 239
>cd02414 jag_KH jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=52.09 E-value=8 Score=33.75 Aligned_cols=28 Identities=29% Similarity=0.412 Sum_probs=22.6
Q ss_pred ceeeeeeCCCchhHHHHHHHhCcEEEEe
Q 040243 266 NFIGLIIGPRGNTQKRMERETGAKIVIR 293 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTgakI~Ir 293 (797)
.-.|+|||-+|.||+.||--+..-+..+
T Consensus 33 ~~~g~LIGk~G~tL~AlQ~L~~~~~~~~ 60 (77)
T cd02414 33 DDIGLLIGKRGKTLDALQYLANLVLNRN 60 (77)
T ss_pred CCCCeEECCCCccHHHHHHHHHHHHhhc
Confidence 3469999999999999999887655443
No 240
>PRK04023 DNA polymerase II large subunit; Validated
Probab=51.74 E-value=37 Score=42.97 Aligned_cols=70 Identities=26% Similarity=0.451 Sum_probs=41.7
Q ss_pred cCCcCc---cchhcccCCCCCccccCC-CCCCCccccccceecCCCCCCcccCCCCCc---CC--C--CcchHHHHHHhh
Q 040243 364 NGTIRD---EEYCRLCGEPGHRQYACP-SRTSTFKSDVLCKICGDGGHPTIDCLVKGT---TG--K--KMDDEYQNFLAE 432 (797)
Q Consensus 364 nGt~r~---~~~c~~cg~~gh~~~~cp-~~~~~~~~~v~Cr~CG~~gH~t~dCp~k~~---~g--~--~ld~eY~~~m~E 432 (797)
+|++.- ..+|..||..+ -.+.|| |... ......|..||...+- ..|+-=+. .. . .+.+.|.+-++.
T Consensus 617 ~g~~eVEVg~RfCpsCG~~t-~~frCP~CG~~-Te~i~fCP~CG~~~~~-y~CPKCG~El~~~s~~~i~l~~~~~~A~~~ 693 (1121)
T PRK04023 617 KGTIEVEIGRRKCPSCGKET-FYRRCPFCGTH-TEPVYRCPRCGIEVEE-DECEKCGREPTPYSKRKIDLKELYDRALEN 693 (1121)
T ss_pred CCceeecccCccCCCCCCcC-CcccCCCCCCC-CCcceeCccccCcCCC-CcCCCCCCCCCccceEEecHHHHHHHHHHH
Confidence 455532 24899999887 447888 4432 2355679999864442 33654222 11 1 245678887887
Q ss_pred hcCC
Q 040243 433 LGGT 436 (797)
Q Consensus 433 lg~~ 436 (797)
+|..
T Consensus 694 lg~~ 697 (1121)
T PRK04023 694 LGER 697 (1121)
T ss_pred hCCc
Confidence 7764
No 241
>TIGR01953 NusA transcription termination factor NusA. This model describes NusA, or N utilization substance protein A, a bacterial transcription termination factor. It binds to RNA polymerase alpha subunit and promotes termination at certain RNA hairpin structures. It is named for the interaction in E. coli of phage lambda antitermination protein N with the N-utilization substance, consisting of NusA, NusB, NusE (ribosomal protein S10), and nusG. This model represents a region of NusA shared in all bacterial forms, and including an S1 (pfam00575) and a KH (pfam00013) RNA binding domains. Proteobacterial forms have an additional C-terminal region, not included in this model, with two repeats of 50-residue domain rich in acidic amino acids.
Probab=51.42 E-value=11 Score=42.49 Aligned_cols=70 Identities=26% Similarity=0.390 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHh-CcEEEEe
Q 040243 217 RARERLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERET-GAKIVIR 293 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eT-gakI~Ir 293 (797)
-++++|+.|--+|-+-+.++----+.|- ...||-|=.. .++++-||..||.+|..++.|.+|. |=||.|=
T Consensus 201 ~v~~Lfe~EVPEI~dG~VeI~~iaR~pG------~RtKvAV~s~-~~~iDpvga~vG~~G~ri~~i~~el~ge~Idiv 271 (341)
T TIGR01953 201 FVKELLKLEVPEIADGIIEIKKIAREPG------YRTKIAVESN-DENIDPVGACVGPKGSRIQAISKELNGEKIDII 271 (341)
T ss_pred HHHHHHHHhCccccCCeEEEEEEeeCCc------ceeEEEEEcC-CCCCCcceeeECCCCchHHHHHHHhCCCeEEEE
Confidence 4666677776666554433221122211 2235555443 5889999999999999999999998 6666665
No 242
>KOG0213 consensus Splicing factor 3b, subunit 1 [RNA processing and modification]
Probab=51.40 E-value=11 Score=46.00 Aligned_cols=39 Identities=36% Similarity=0.723 Sum_probs=24.5
Q ss_pred hhhcccCCCCCCCCCCC---C-CCCCCCCCCCCccCCCCCCCC
Q 040243 106 RRRRRSRWDPPPSESGG---T-EGNGDSGSGTRKRRSRWADDE 144 (797)
Q Consensus 106 ~~~r~s~w~~~~~~~~~---~-~~~~~~~~~~~~r~srw~~~~ 144 (797)
..-||+|||.-+..... . +...++-++..||||||..+-
T Consensus 179 ~~prrnrwdetp~~~t~~~~~~~~~~e~tp~~~KrrSrWDe~p 221 (1172)
T KOG0213|consen 179 ATPRRNRWDETPPGVTPVATRMEDKGEDTPRSTKRRSRWDETP 221 (1172)
T ss_pred cCccccccccCCCCCCCCCCccccccCcCccccchhhhccCCc
Confidence 34599999987642211 1 233344566889999998653
No 243
>KOG2279 consensus Kinase anchor protein AKAP149, contains KH and Tudor RNA-binding domains [Signal transduction mechanisms]
Probab=51.07 E-value=8.3 Score=45.25 Aligned_cols=41 Identities=29% Similarity=0.588 Sum_probs=36.4
Q ss_pred ceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccc
Q 040243 250 KLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 250 ~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkG 296 (797)
++..++.+++ .||=+|||-.|.++|.|++.|++||.++-+-
T Consensus 67 ~v~~e~Vv~~------e~vkli~gr~gsnik~l~~~t~aKi~L~~ed 107 (608)
T KOG2279|consen 67 DIEIEMVVPQ------EAVKLIIGRQGSNIKQLRKQTGAKIDLDTED 107 (608)
T ss_pred heeeeEeecc------cceeeeeccccCCcchhhcccccceecCccc
Confidence 4677888888 8889999999999999999999999999653
No 244
>TIGR01952 nusA_arch NusA family KH domain protein, archaeal. This model represents a family of archaeal proteins found in a single copy per genome. It contains two KH domains (pfam00013) and is most closely related to the central region bacterial NusA, a transcription termination factor named for its iteraction with phage lambda protein N in E. coli. The proteins required for antitermination by N include NusA, NusB, nusE (ribosomal protein S10), and nusG. This system, on the whole, appears not to be present in the Archaea.
Probab=50.29 E-value=16 Score=35.99 Aligned_cols=29 Identities=31% Similarity=0.442 Sum_probs=26.8
Q ss_pred ceeeeeeCCCchhHHHHHHHhCcEEEEec
Q 040243 266 NFIGLIIGPRGNTQKRMERETGAKIVIRG 294 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTgakI~IrG 294 (797)
+-+|..||.+|..+|.|++..|=||.|=.
T Consensus 42 g~vG~~IG~~G~rIk~i~el~gekIdVVe 70 (141)
T TIGR01952 42 GEMGAAIGKGGENVKRLEELIGKSIELIE 70 (141)
T ss_pred CCccccCCCCchHHHHHHHhcCCeeEEEE
Confidence 68999999999999999999999998875
No 245
>PRK08406 transcription elongation factor NusA-like protein; Validated
Probab=48.88 E-value=15 Score=36.09 Aligned_cols=35 Identities=17% Similarity=0.206 Sum_probs=28.5
Q ss_pred EEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEe
Q 040243 253 KKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIR 293 (797)
Q Consensus 253 ~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~Ir 293 (797)
..|.|+. +-+|++||-+|.|++.+++-+|-+|.|.
T Consensus 101 ~~V~V~~------~d~g~aIGK~G~ni~la~~L~~~~~di~ 135 (140)
T PRK08406 101 AYVEVAP------EDKGIAIGKNGKNIERAKDLAKRHFDID 135 (140)
T ss_pred EEEEECc------cccchhhCCCCHHHHHHHHHhCCccCCe
Confidence 3445555 4569999999999999999999888764
No 246
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=48.60 E-value=92 Score=34.10 Aligned_cols=48 Identities=10% Similarity=0.085 Sum_probs=36.4
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCE-EEEEEEecCCCCcccceEEEEecCHH
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDI-VMAKVIKDRVTGMSKGYGFVKYADIQ 544 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I-~~v~v~~dk~TGksrGfaFV~F~s~e 544 (797)
.+-|||+||+.++.-.||+..+.+.+.+ .++.+-- ++|-||++|.+..
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg------~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKG------HFGKCFLHFGNRK 378 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEeeec------CCcceeEecCCcc
Confidence 3459999999999999999999887743 3344322 4688999997643
No 247
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=48.51 E-value=7.6 Score=31.07 Aligned_cols=19 Identities=32% Similarity=0.697 Sum_probs=15.0
Q ss_pred cccceecCCCCCCcccCCC
Q 040243 396 DVLCKICGDGGHPTIDCLV 414 (797)
Q Consensus 396 ~v~Cr~CG~~gH~t~dCp~ 414 (797)
-..|..||..||...+|+.
T Consensus 31 p~~C~~C~~~gH~~~~C~k 49 (49)
T PF14392_consen 31 PRFCFHCGRIGHSDKECPK 49 (49)
T ss_pred ChhhcCCCCcCcCHhHcCC
Confidence 4568888888888888863
No 248
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=48.39 E-value=69 Score=39.42 Aligned_cols=11 Identities=18% Similarity=0.283 Sum_probs=4.8
Q ss_pred HHHHhcCCChH
Q 040243 337 MVEKLLQPVDE 347 (797)
Q Consensus 337 ~I~~ll~~~~e 347 (797)
.+.+.|.-..+
T Consensus 121 gld~yi~~~~e 131 (830)
T KOG1923|consen 121 GLDKYIDAPPE 131 (830)
T ss_pred hhhhhhhcchh
Confidence 34445544333
No 249
>PF13083 KH_4: KH domain; PDB: 3GKU_B.
Probab=46.39 E-value=5.9 Score=34.07 Aligned_cols=23 Identities=26% Similarity=0.358 Sum_probs=19.9
Q ss_pred ceeeeeeCCCchhHHHHHHHhCc
Q 040243 266 NFIGLIIGPRGNTQKRMERETGA 288 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTga 288 (797)
+-.|+|||-+|.|++.||--++.
T Consensus 38 ed~g~lIGk~G~tl~ALq~l~~~ 60 (73)
T PF13083_consen 38 EDAGRLIGKHGKTLNALQYLVNA 60 (73)
T ss_dssp CCCHHHCTTHHHHHHHHHHHHHH
T ss_pred CccceEECCCCeeHHHHHHHHHH
Confidence 44799999999999999987664
No 250
>COG0195 NusA Transcription elongation factor [Transcription]
Probab=46.05 E-value=15 Score=38.07 Aligned_cols=33 Identities=30% Similarity=0.402 Sum_probs=29.0
Q ss_pred CCceeeeeeCCCchhHHHHHHHhCcEEEEeccc
Q 040243 264 GYNFIGLIIGPRGNTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 264 ~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkG 296 (797)
+.+-||..||.+|..+|.|.++.|=||.|=.-.
T Consensus 83 ~~d~vG~~iG~~G~rvk~i~~eLgekIdVVe~s 115 (190)
T COG0195 83 KIDPVGACIGKRGSRVKAVSEELGEKIDVVEWS 115 (190)
T ss_pred CcCchhhhccCCChHHHHHHHHhCCceEEEEeC
Confidence 358899999999999999999999888887543
No 251
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=46.05 E-value=74 Score=39.15 Aligned_cols=14 Identities=7% Similarity=0.045 Sum_probs=7.3
Q ss_pred cCcchHHHHHHHhc
Q 040243 783 YGADAEYEKFMAEM 796 (797)
Q Consensus 783 ~~~~~~~~~~~~~~ 796 (797)
.++.++|.+...||
T Consensus 383 qv~~tvf~~~~De~ 396 (830)
T KOG1923|consen 383 QVKGTVFHELNDEK 396 (830)
T ss_pred ccccchhhhhhHHH
Confidence 34456666655543
No 252
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=44.51 E-value=4 Score=45.93 Aligned_cols=72 Identities=8% Similarity=-0.011 Sum_probs=56.5
Q ss_pred CcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEe
Q 040243 491 DTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRV 567 (797)
Q Consensus 491 ~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~ 567 (797)
..+|+|.+|...+...++-++|..+|+|...++.. +-..-+|-|+|....+...|++ ++|..+.-+..++.+
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~as----k~~s~~c~~sf~~qts~~halr-~~gre~k~qhsr~ai 222 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVSYAHTAS----KSRSSSCSHSFRKQTSSKHALR-SHGRERKRQHSRRAI 222 (479)
T ss_pred Hhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhc----cCCCcchhhhHhhhhhHHHHHH-hcchhhhhhhhhhhh
Confidence 37899999999999999999999999998877633 3344577899999999999986 577777654444443
No 253
>PF14611 SLS: Mitochondrial inner-membrane-bound regulator
Probab=43.83 E-value=52 Score=33.99 Aligned_cols=56 Identities=18% Similarity=0.262 Sum_probs=42.9
Q ss_pred ceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 266 NFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
..+=+|+..+|..++.|-...||||.+.-.- -.|.|+| +...++.+.+.|.++|..
T Consensus 35 ~~~~LLl~~~~~~L~~l~~~~~~~I~~~~~~----------------------~~i~I~g-~k~~~~~i~~~i~~~l~~ 90 (210)
T PF14611_consen 35 DEFFLLLTGNGRILENLAARNGAKIEVSRSE----------------------NRIRITG-TKSTAEYIEASINEILSN 90 (210)
T ss_pred hheeeeecCCchHHHHHHHhcCceEEEecCC----------------------cEEEEEc-cHHHHHHHHHHHHHHHhh
Confidence 3445899999999999988889999997321 1688888 466777777777777754
No 254
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=42.80 E-value=11 Score=41.00 Aligned_cols=21 Identities=29% Similarity=0.689 Sum_probs=18.8
Q ss_pred ccccceecCCCCCCcccCCCC
Q 040243 395 SDVLCKICGDGGHPTIDCLVK 415 (797)
Q Consensus 395 ~~v~Cr~CG~~gH~t~dCp~k 415 (797)
...+|..||+.|||...|+-.
T Consensus 175 pgY~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 175 PGYVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred CceeEEecCCCCchhhcCCCC
Confidence 567999999999999999864
No 255
>PRK12328 nusA transcription elongation factor NusA; Provisional
Probab=42.74 E-value=12 Score=42.58 Aligned_cols=70 Identities=20% Similarity=0.190 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHh-CcEEEEe
Q 040243 217 RARERLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERET-GAKIVIR 293 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eT-gakI~Ir 293 (797)
-++++|+.|--+|-+-+.++----+.|- ...||-|=. ..+++|-||..||.+|..++.|.++. |=||.|=
T Consensus 209 ~v~~Lfe~EVPEI~dG~VeIk~IARepG------~RtKVAV~S-~d~~iDPvGacIG~~G~rI~~I~~eL~gEkIDvI 279 (374)
T PRK12328 209 FLEALLELEVPEIKDGEVIIIHSARIPG------ERAKVALFS-NNPNIDPIGATVGVKGVRINAVSKELNGENIDCI 279 (374)
T ss_pred HHHHHHHHhCccccCCeEEEEEEeccCc------ceeEEEEEc-CCCCCChHHhhcCCCcchHHHHHHHhCCCeEEEE
Confidence 4677777777776665443322222211 123554443 45799999999999999999999998 5555543
No 256
>KOG2236 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.67 E-value=2.9e+02 Score=32.35 Aligned_cols=42 Identities=21% Similarity=0.337 Sum_probs=22.1
Q ss_pred HHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCCC
Q 040243 284 RETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQPV 345 (797)
Q Consensus 284 ~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~~ 345 (797)
.-..|.|.|.+.-+ | .-++|+--++++=.+ |+-+|-+++-+|
T Consensus 216 svv~~~VII~s~~~-~-------------~vlde~Svlf~edR~------~lG~I~EiFGpV 257 (483)
T KOG2236|consen 216 SVVDQQVIIESTCN-K-------------EVLDEDSVLFLEDRT------ALGQIFEIFGPV 257 (483)
T ss_pred HHhhhceEEEeccC-c-------------ccccccceEEeeccc------cchhhhhhhccc
Confidence 34456788875431 0 123455455555433 666666666554
No 257
>COG0026 PurK Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]
Probab=41.61 E-value=40 Score=38.28 Aligned_cols=50 Identities=28% Similarity=0.308 Sum_probs=39.3
Q ss_pred hHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHh
Q 040243 278 TQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKL 341 (797)
Q Consensus 278 t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~l 341 (797)
..+.+-+.-+|+|-+.||.-.|.|++-. ||.|.+++.+++..++.+|...
T Consensus 318 ~~~~~l~~p~~~lH~YGK~e~R~gRKmG--------------Hvn~~~~~~~~~~~~~~~l~~~ 367 (375)
T COG0026 318 DVKAVLALPGAHLHWYGKAEARPGRKMG--------------HVNVLGSDSDELEQLAALLPAK 367 (375)
T ss_pred hhHHHHhCCCCEEEEecCccCCCCCeee--------------eEEeecCCHHHHHHHHHhhhhh
Confidence 5799999999999999998667666532 9999999977776666665543
No 258
>PRK06418 transcription elongation factor NusA-like protein; Validated
Probab=41.46 E-value=20 Score=36.37 Aligned_cols=28 Identities=29% Similarity=0.452 Sum_probs=25.5
Q ss_pred eeeeCCCchhHHHHHHHhCcEEEEeccc
Q 040243 269 GLIIGPRGNTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 269 G~iiGPrG~t~K~le~eTgakI~IrGkG 296 (797)
|+.||.+|.++|+|++..|-+|.|=...
T Consensus 72 g~aIGk~G~~ik~l~~~lgk~VevVE~s 99 (166)
T PRK06418 72 RIPIGKGGKIAKALSRKLGKKVRVVEKT 99 (166)
T ss_pred cccccccchHHHHHHHHhCCcEEEEEcC
Confidence 9999999999999999999999887643
No 259
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=41.44 E-value=29 Score=35.11 Aligned_cols=65 Identities=28% Similarity=0.352 Sum_probs=47.7
Q ss_pred CCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhc
Q 040243 489 LDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASM 553 (797)
Q Consensus 489 ~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~L 553 (797)
.....++++++...++..++..+|..+|.+..+.+...........+.++.+.....+..+....
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 (306)
T COG0724 223 EKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNSRG 287 (306)
T ss_pred cccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhccc
Confidence 45668999999999999999999999999988777666544445555555555555555554443
No 260
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=40.68 E-value=38 Score=43.83 Aligned_cols=140 Identities=18% Similarity=0.313 Sum_probs=73.1
Q ss_pred CCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEE----EecCHHHHHHHHHHHHHhcCCChHHH
Q 040243 274 PRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLV----EAETQESLEGAAAMVEKLLQPVDEVL 349 (797)
Q Consensus 274 PrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I----~a~~~e~v~~A~~~I~~ll~~~~e~~ 349 (797)
-..++++-|-+-+|-+|+=| +.++-|..-.+.+..-.....-+.|+|- .|-+...|.+|.+.-.....
T Consensus 585 ~~~~~~~~vn~~s~~~ir~r--a~trIG~RmGRPeKs~~R~mkP~~h~LFPig~aGG~qR~I~kAa~~a~~~~d------ 656 (1337)
T PRK14714 585 DGHNAIDLINELAPFKVRER--APTRIGNRMGRPEKSKPRKMKPPVHTLFPIGEAGGAQRDVAKAAKHAPDMSD------ 656 (1337)
T ss_pred ccccHHHHHHhhCCcEEecc--CcceeecccCCcccccccccCCCCcccccccccCcccccHHHHHHhhhhccc------
Confidence 34477888887777665444 4333222111111111123344567763 23444556666544331111
Q ss_pred HHHHHHHHHHHHhhcCCcCc---cchhcccCCCCCccccCC-CCCCCccccccceecCCC----CCCcccCCCCCcC---
Q 040243 350 NEHKRQQLRELAALNGTIRD---EEYCRLCGEPGHRQYACP-SRTSTFKSDVLCKICGDG----GHPTIDCLVKGTT--- 418 (797)
Q Consensus 350 n~~k~~Ql~ela~lnGt~r~---~~~c~~cg~~gh~~~~cp-~~~~~~~~~v~Cr~CG~~----gH~t~dCp~k~~~--- 418 (797)
-.|.+.- ...|..||..... ..|| |... ......|..||.. .+-+..|++=+..
T Consensus 657 -------------~~G~ieVEV~~rkCPkCG~~t~~-~fCP~CGs~-te~vy~CPsCGaev~~des~a~~CP~CGtplv~ 721 (1337)
T PRK14714 657 -------------EGGVIEVEVGRRRCPSCGTETYE-NRCPDCGTH-TEPVYVCPDCGAEVPPDESGRVECPRCDVELTP 721 (1337)
T ss_pred -------------cCCeEEEEEEEEECCCCCCcccc-ccCcccCCc-CCCceeCccCCCccCCCccccccCCCCCCcccc
Confidence 1133211 3589999997765 5888 4443 2345689999842 1224578874421
Q ss_pred --CC--CcchHHHHHHhhhcCC
Q 040243 419 --GK--KMDDEYQNFLAELGGT 436 (797)
Q Consensus 419 --g~--~ld~eY~~~m~Elg~~ 436 (797)
.. .+.+.|.+-++.+|..
T Consensus 722 ~~~~~i~~~~~~~~A~~~~g~~ 743 (1337)
T PRK14714 722 YQRRTINVKEEYRSALENVGER 743 (1337)
T ss_pred cceEEecHHHHHHHHHHHhCcc
Confidence 11 2456788888877753
No 261
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=39.77 E-value=44 Score=39.81 Aligned_cols=67 Identities=25% Similarity=0.418 Sum_probs=36.5
Q ss_pred HHHHHHhhcCCcCccchhcccCCCCCccccCCCCCCCccccccceecCCCCCCcccCCCCCcCCCCcchHHHHHHhhh
Q 040243 356 QLRELAALNGTIRDEEYCRLCGEPGHRQYACPSRTSTFKSDVLCKICGDGGHPTIDCLVKGTTGKKMDDEYQNFLAEL 433 (797)
Q Consensus 356 Ql~ela~lnGt~r~~~~c~~cg~~gh~~~~cp~~~~~~~~~v~Cr~CG~~gH~t~dCp~k~~~g~~ld~eY~~~m~El 433 (797)
.|++|..+.| ...|..||..+ -.|.|-+- -..+|..|. +-|-...-++|...-...+.+-+.+|...
T Consensus 13 ILreLlklPg----Nk~CADCgs~~-P~WASiNl-----GIFICi~CS-GIHRsLGhRVKSLSLDkWT~EEVe~Mk~g 79 (648)
T PLN03119 13 IIRGLMKLPP----NRRCINCNSLG-PQYVCTTF-----WTFVCMACS-GIHREFTHRVKSVSMSKFTSKEVEVLQNG 79 (648)
T ss_pred HHHHHhhCcC----CCccccCCCCC-CCceeecc-----ceEEeccch-hhhccCCceeeccccCCCCHHHHHHHHHh
Confidence 3666665443 47899999877 45666532 456899996 33322222333332223344444555443
No 262
>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=39.11 E-value=50 Score=28.45 Aligned_cols=63 Identities=14% Similarity=0.068 Sum_probs=46.7
Q ss_pred HHHHHHhhcCC-CEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCCC
Q 040243 506 DGLIRLFSTFG-DIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGKP 571 (797)
Q Consensus 506 ~dL~~~Fs~fG-~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~~ 571 (797)
++|++.|...| .|..+.-+..+.++..--.-||+++...+. .+.|+=..|.++.++|+...+.
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~---k~i~~Ik~l~~~~V~vE~~~k~ 65 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNN---KEIYKIKTLCGQRVKVERPRKR 65 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccc---cceeehHhhCCeEEEEecCCCC
Confidence 46778888887 788888888877777778888888766552 2345566788989999876543
No 263
>PRK00468 hypothetical protein; Provisional
Probab=38.65 E-value=17 Score=32.02 Aligned_cols=31 Identities=19% Similarity=0.306 Sum_probs=22.5
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhC
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETG 287 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTg 287 (797)
...+|.+-. .=+|+|||=+|.|++.|-.-..
T Consensus 30 ~~~~l~v~~------~D~GrVIGk~Gr~i~AIRtvv~ 60 (75)
T PRK00468 30 VILELKVAP------EDMGKVIGKQGRIAKAIRTVVK 60 (75)
T ss_pred EEEEEEECh------hhCcceecCCChhHHHHHHHHH
Confidence 344555655 3469999999999999966543
No 264
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=38.16 E-value=9.5 Score=37.60 Aligned_cols=24 Identities=33% Similarity=0.563 Sum_probs=17.4
Q ss_pred ccccccceecCCCCCCcccCCCCC
Q 040243 393 FKSDVLCKICGDGGHPTIDCLVKG 416 (797)
Q Consensus 393 ~~~~v~Cr~CG~~gH~t~dCp~k~ 416 (797)
|.+.|.|..|=+.|||+..|..+.
T Consensus 24 ~~~~~rCQKClq~GHWtYECk~kR 47 (177)
T KOG3116|consen 24 VGSSARCQKCLQAGHWTYECKNKR 47 (177)
T ss_pred cccchhHHHHHhhccceeeecCce
Confidence 345667888877888888887654
No 265
>PRK02821 hypothetical protein; Provisional
Probab=38.05 E-value=17 Score=32.20 Aligned_cols=23 Identities=26% Similarity=0.429 Sum_probs=19.1
Q ss_pred ceeeeeeCCCchhHHHHHHHhCc
Q 040243 266 NFIGLIIGPRGNTQKRMERETGA 288 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTga 288 (797)
.=+|+|||-+|.|++.|-.-..|
T Consensus 40 ~D~GrVIGk~Gr~i~AIRtlv~a 62 (77)
T PRK02821 40 DDLGKVIGRGGRTATALRTVVAA 62 (77)
T ss_pred hhCcceeCCCCchHHHHHHHHHH
Confidence 55799999999999999766554
No 266
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=37.73 E-value=15 Score=27.25 Aligned_cols=20 Identities=35% Similarity=0.875 Sum_probs=17.8
Q ss_pred cchhcccCCCCCccccCCCC
Q 040243 370 EEYCRLCGEPGHRQYACPSR 389 (797)
Q Consensus 370 ~~~c~~cg~~gh~~~~cp~~ 389 (797)
.-.|..|+..||-..+||..
T Consensus 8 ~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 8 GYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCEeecCCCCCccHhHCCCC
Confidence 45899999999999999984
No 267
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=37.53 E-value=50 Score=28.74 Aligned_cols=63 Identities=14% Similarity=0.147 Sum_probs=46.5
Q ss_pred HHHHHHhhcCC-CEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccceEEEEecCCC
Q 040243 506 DGLIRLFSTFG-DIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGRTIAVRVAGKP 571 (797)
Q Consensus 506 ~dL~~~Fs~fG-~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr~L~V~~A~~~ 571 (797)
++|++.|..+| .+..++.+..+.++..--.-||+.....+... .|+=+.|+|+++.|+-..+.
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~k~ 65 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPHKR 65 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCccc
Confidence 46788888888 88889888888777777788888876543333 45667788999888865443
No 268
>PRK06019 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed
Probab=36.18 E-value=56 Score=36.84 Aligned_cols=46 Identities=24% Similarity=0.303 Sum_probs=33.3
Q ss_pred HHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHH
Q 040243 279 QKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMV 338 (797)
Q Consensus 279 ~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I 338 (797)
+..+.+..+++|.+.||...+.|++-. ||.|.+++.+.+..-++.+
T Consensus 319 ~~~~~~~~~~~~~~ygk~~~~~~rk~G--------------hv~~~~~~~~~~~~~~~~~ 364 (372)
T PRK06019 319 WDALLALPGAHLHLYGKAEARPGRKMG--------------HVTVLGDDVEALLAKLEAL 364 (372)
T ss_pred HHHHhhCCCCEEEECCCCCCCCCCceE--------------EEEeecCCHHHHHHHHHHH
Confidence 444556689999999997777776533 9999999987655444333
No 269
>PLN03131 hypothetical protein; Provisional
Probab=35.45 E-value=55 Score=39.37 Aligned_cols=40 Identities=25% Similarity=0.595 Sum_probs=26.7
Q ss_pred HHHHHHHHhhcCCcCccchhcccCCCCCccccCCCCCCCccccccceecC
Q 040243 354 RQQLRELAALNGTIRDEEYCRLCGEPGHRQYACPSRTSTFKSDVLCKICG 403 (797)
Q Consensus 354 ~~Ql~ela~lnGt~r~~~~c~~cg~~gh~~~~cp~~~~~~~~~v~Cr~CG 403 (797)
++.|++|..+. +...|..||..+ -+|.|-+- -..+|..|.
T Consensus 11 ekiLreLlk~P----gNk~CADCga~~-P~WASiNl-----GIFICi~CS 50 (705)
T PLN03131 11 EKIIRGLMKLP----PNRRCINCNSLG-PQFVCTNF-----WTFICMTCS 50 (705)
T ss_pred HHHHHHHhhCc----CCCccccCCCCC-CCeeEecc-----ceEEchhch
Confidence 34477776554 347899999876 44665432 456899996
No 270
>KOG2208 consensus Vigilin [Lipid transport and metabolism]
Probab=35.44 E-value=22 Score=44.11 Aligned_cols=38 Identities=29% Similarity=0.610 Sum_probs=33.0
Q ss_pred ceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEe
Q 040243 250 KLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIR 293 (797)
Q Consensus 250 ~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~Ir 293 (797)
.++..++||. .|=+-||||+|.++++++++++|-|.+-
T Consensus 708 ~~~~~~~~p~------~~~~~~ig~~g~~~r~~~~~~~~~~~~~ 745 (753)
T KOG2208|consen 708 LVTKEIEIPR------SLHRYLIGPKGSNLRQLEKEFNVNIVVP 745 (753)
T ss_pred ceeeEEeccH------HHhhhccCCCCccHHHHHHHhccceecC
Confidence 5677888887 6667999999999999999999988775
No 271
>COG3967 DltE Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]
Probab=35.41 E-value=28 Score=36.76 Aligned_cols=69 Identities=25% Similarity=0.257 Sum_probs=46.6
Q ss_pred HHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHH
Q 040243 284 RETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQPVDEVLNEHKRQQLRE 359 (797)
Q Consensus 284 ~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~~~e~~n~~k~~Ql~e 359 (797)
+-||-.|.|-|-+|+=.-+..++.. ..-=.|.|+|+++++|+.|.+.+-.+...|-+..|..-+.+|.|
T Consensus 2 k~tgnTiLITGG~sGIGl~lak~f~-------elgN~VIi~gR~e~~L~e~~~~~p~~~t~v~Dv~d~~~~~~lve 70 (245)
T COG3967 2 KTTGNTILITGGASGIGLALAKRFL-------ELGNTVIICGRNEERLAEAKAENPEIHTEVCDVADRDSRRELVE 70 (245)
T ss_pred cccCcEEEEeCCcchhhHHHHHHHH-------HhCCEEEEecCcHHHHHHHHhcCcchheeeecccchhhHHHHHH
Confidence 4588999999988863211111100 00017999999999999999999999887766555555555544
No 272
>KOG3273 consensus Predicted RNA-binding protein Pno1p interacting with Nob1p and involved in 26S proteasome assembly [Posttranslational modification, protein turnover, chaperones]
Probab=34.38 E-value=23 Score=36.72 Aligned_cols=54 Identities=24% Similarity=0.294 Sum_probs=41.2
Q ss_pred ceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEEEEecCHHHHHHHHHHHHHhcCC
Q 040243 266 NFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVLVEAETQESLEGAAAMVEKLLQP 344 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~I~a~~~e~v~~A~~~I~~ll~~ 344 (797)
--||+|+|-+|+|--.||.-|.++|.|-+. .|||-|. .+.+.-|..-|-.||..
T Consensus 178 RAIGRiaGk~GkTkfaIEn~trtrIVlad~------------------------kIHiLG~-~~niriAR~avcsLIlG 231 (252)
T KOG3273|consen 178 RAIGRIAGKGGKTKFAIENVTRTRIVLADS------------------------KIHILGA-FQNIRIARDAVCSLILG 231 (252)
T ss_pred HHHHHhhcCCCcceeeeeccceeEEEecCc------------------------eEEEeec-chhhHHHHHhhHhhhcc
Confidence 468999999999999999999999999752 3444443 45677777666666653
No 273
>PRK09202 nusA transcription elongation factor NusA; Validated
Probab=33.81 E-value=24 Score=41.38 Aligned_cols=71 Identities=23% Similarity=0.330 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHh-CcEEEEec
Q 040243 217 RARERLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERET-GAKIVIRG 294 (797)
Q Consensus 217 r~~~~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eT-gakI~IrG 294 (797)
-++++|+.|--+|-+-+.++----+.|- ...||-|= ..-++++-||..||.+|..++.|.++. |=||.|--
T Consensus 203 ~l~~Lf~~EVPEI~~G~ieIk~iaR~pG------~RaKvAV~-s~d~~iDpvga~vG~~G~ri~~i~~el~ge~Idiv~ 274 (470)
T PRK09202 203 FLKKLFEQEVPEIADGLIEIKAIARDPG------SRAKIAVK-SNDPRIDPVGACVGMRGSRIQAISNELGGEKIDIIL 274 (470)
T ss_pred HHHHHHHHhCcccccCeEEEEEEeecCc------ceeEEEEE-cCCCCCChhHccCCCCCchHHHHHHHhCCCeEEEEE
Confidence 3667777777666665544322222221 22355444 355889999999999999999999999 88888764
No 274
>COG1837 Predicted RNA-binding protein (contains KH domain) [General function prediction only]
Probab=33.62 E-value=23 Score=31.34 Aligned_cols=29 Identities=21% Similarity=0.351 Sum_probs=21.2
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHH
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERE 285 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~e 285 (797)
++.+|.+-. .=+|+|||-+|.|++.|-.-
T Consensus 30 ~~~~l~v~~------~D~GkvIGk~GRti~AIRTl 58 (76)
T COG1837 30 VTIELRVAP------EDMGKVIGKQGRTIQAIRTL 58 (76)
T ss_pred EEEEEEECc------ccccceecCCChhHHHHHHH
Confidence 344555554 34799999999999999654
No 275
>KOG4634 consensus Mitochondrial F1F0-ATP synthase, subunit Cf6 (coupling factor 6) [Energy production and conversion]
Probab=33.48 E-value=70 Score=29.56 Aligned_cols=46 Identities=26% Similarity=0.365 Sum_probs=33.4
Q ss_pred cCCHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCCCCCcccCCCCcccChHHHHHHHHHHHHHHHHHHH
Q 040243 163 EFDPEIQALNSRLLEISRMLQSGLPLDDRPEGQRSPSPEPIYDNMGIRINTREYRARERLNKERQEIISQ 232 (797)
Q Consensus 163 ~~~~~~~~~~~r~~ei~~~l~~~~~~~~~~~~~rspsp~p~yd~~g~r~ntre~r~~~~le~er~~li~~ 232 (797)
.+|+.++..-.+|.|+.++--.|.++|..++ +.+.|++|-.+|-..
T Consensus 30 ~~DpIqqlFldKvREy~~ks~~Gklvds~pe------------------------~e~eLk~el~rla~q 75 (105)
T KOG4634|consen 30 ELDPIQQLFLDKVREYKKKSPAGKLVDSDPE------------------------YEQELKEELFRLAQQ 75 (105)
T ss_pred hhChHHHHHHHHHHHHHhcCCCCCCCCCCHH------------------------HHHHHHHHHHHHHHH
Confidence 5788888788999999999777887754332 456777777776544
No 276
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=33.29 E-value=57 Score=34.58 Aligned_cols=20 Identities=25% Similarity=0.351 Sum_probs=17.6
Q ss_pred hhHHHHHHHhCcEEEEeccc
Q 040243 277 NTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 277 ~t~K~le~eTgakI~IrGkG 296 (797)
..||+||++.|+++.+|...
T Consensus 40 ~~i~~LE~~lg~~Lf~R~~r 59 (294)
T PRK09986 40 IHIKELEDQLGTPLFIRHSR 59 (294)
T ss_pred HHHHHHHHHhCCeeEeeCCC
Confidence 56999999999999999743
No 277
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=33.21 E-value=30 Score=35.48 Aligned_cols=77 Identities=10% Similarity=0.091 Sum_probs=54.4
Q ss_pred CCcEEEEecCCCCCcH-----HHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecCHHHHHHHHHhcCceeeccc-eE
Q 040243 490 DDTNLYIGYLPPTLDD-----DGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYADIQMANNAIASMNGYRLEGR-TI 563 (797)
Q Consensus 490 ~~~tLfVgNLp~~vte-----~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s~e~A~~AI~~LnG~~l~Gr-~L 563 (797)
-.+++++-++...+-. .....+|.+|.+.....+++ +.++--|.|.+.+.|..|...+++..|.|+ .+
T Consensus 9 lp~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lr------sfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~ 82 (193)
T KOG4019|consen 9 LPTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLR------SFRRVRINFSNPEAAADARIKLHSTSFNGKNEL 82 (193)
T ss_pred ccceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHH------hhceeEEeccChhHHHHHHHHhhhcccCCCceE
Confidence 3456777787765432 34557777776655544443 334566899999999999999999999998 78
Q ss_pred EEEecCCCC
Q 040243 564 AVRVAGKPP 572 (797)
Q Consensus 564 ~V~~A~~~~ 572 (797)
+.-+|....
T Consensus 83 k~yfaQ~~~ 91 (193)
T KOG4019|consen 83 KLYFAQPGH 91 (193)
T ss_pred EEEEccCCC
Confidence 877776433
No 278
>PRK01064 hypothetical protein; Provisional
Probab=32.47 E-value=28 Score=30.91 Aligned_cols=32 Identities=28% Similarity=0.294 Sum_probs=23.2
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCc
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGA 288 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTga 288 (797)
+..+|.+.. .=+|+|||-+|.|++.|..-..+
T Consensus 30 ~~~~l~v~~------~D~g~vIGk~G~~i~air~l~~~ 61 (78)
T PRK01064 30 IIYELTVAK------PDIGKIIGKEGRTIKAIRTLLVS 61 (78)
T ss_pred EEEEEEECc------ccceEEECCCCccHHHHHHHHHH
Confidence 344455554 33699999999999999886543
No 279
>PF11598 COMP: Cartilage oligomeric matrix protein; InterPro: IPR024665 Thrombospondins are adhesive glycoproteins that mediate cell-to-cell and cell-to-matrix interactions. Cartilage oligomeric matrix protein may play a role in the structural integrity of cartilage via its interaction with other extracellular matrix proteins such as collagen and fibronectin [, ]. Thrombospondin 3 and 4 and cartilage oligomeric matrix proteins contain a five-stranded coiled-coil domain represented by this entry. This domain has a binding site between two internal rings formed by Leu37 and Thr40 [].; PDB: 1MZ9_D 1FBM_A 1VDF_E.
Probab=32.33 E-value=35 Score=27.23 Aligned_cols=41 Identities=34% Similarity=0.526 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHhhcCCcCccchhcccC
Q 040243 330 SLEGAAAMVEKLLQPVDEVLNEHKRQQLRELAALNGTIRDEEYCRLCG 377 (797)
Q Consensus 330 ~v~~A~~~I~~ll~~~~e~~n~~k~~Ql~ela~lnGt~r~~~~c~~cg 377 (797)
.+.+.+.....+|..+. +.-++|.+|.+.|..|+ ..|..||
T Consensus 5 ~l~~ql~~l~~~l~elk----~~l~~Q~kE~~~LRntI---~eC~aCg 45 (45)
T PF11598_consen 5 QLIKQLSELNQMLQELK----ELLRQQIKETRFLRNTI---MECQACG 45 (45)
T ss_dssp HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH---HT-TTG-
T ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH---HHhcccC
Confidence 34444555555554433 33456899999998886 3477775
No 280
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=31.56 E-value=91 Score=30.97 Aligned_cols=57 Identities=25% Similarity=0.243 Sum_probs=36.6
Q ss_pred HHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEe
Q 040243 231 SQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIR 293 (797)
Q Consensus 231 ~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~Ir 293 (797)
+.+.+++|.=....|..--.-+-.|+|=. ..-|++||-+|.|++.|-++||-+-.|.
T Consensus 56 ~~I~~ivP~ea~i~di~Fd~~tGEV~Iea------eKPG~ViGk~g~~~reI~~~tgW~p~vv 112 (145)
T cd02410 56 KIILEIVPEEAGITDIYFDDDTGEVIIEA------EKPGLVIGKGGSTLREITRETGWAPKVV 112 (145)
T ss_pred HHHHHhCCCccCceeeEecCCCcEEEEEE------cCCeEEEecCchhHHHHHHHhCCeeEEE
Confidence 34455565422222222112233566655 3449999999999999999999888776
No 281
>PRK12328 nusA transcription elongation factor NusA; Provisional
Probab=31.24 E-value=48 Score=37.76 Aligned_cols=91 Identities=20% Similarity=0.241 Sum_probs=55.2
Q ss_pred CCcccCCCCcccChHHH---HHHHHHHHHHHHHHHH------HHH--hCCCCCCCCCC--CCCceEEEEEecCCCCCCCc
Q 040243 200 PEPIYDNMGIRINTREY---RARERLNKERQEIISQ------IIK--RNPAFKPPADY--RPPKLQKKLYIPMKEYPGYN 266 (797)
Q Consensus 200 p~p~yd~~g~r~ntre~---r~~~~le~er~~li~~------~~~--~~p~~~pp~dy--~p~~~~~Ki~IP~~~~P~~N 266 (797)
..+.-|-.|.-|--+-. .+.+.|..|+-+||+. +.+ +.|.-. .+- ..-.....|+|+.++
T Consensus 246 ~d~~iDPvGacIG~~G~rI~~I~~eL~gEkIDvI~~s~D~~~fI~Nal~Pa~V--~~V~i~~~~~~~~V~V~~~q----- 318 (374)
T PRK12328 246 NNPNIDPIGATVGVKGVRINAVSKELNGENIDCIEYSNVPEIFIARALAPAII--SSVKIEEEEKKAIVTLLSDQ----- 318 (374)
T ss_pred CCCCCChHHhhcCCCcchHHHHHHHhCCCeEEEEEcCCCHHHHHHHhCCCcee--eEEEEcCCCcEEEEEEChHH-----
Confidence 34555655544333332 4556666666666543 211 122210 000 011235577777743
Q ss_pred eeeeeeCCCchhHHHHHHHhCcEEEEeccccc
Q 040243 267 FIGLIIGPRGNTQKRMERETGAKIVIRGKGSV 298 (797)
Q Consensus 267 fiG~iiGPrG~t~K~le~eTgakI~IrGkGS~ 298 (797)
+++.||-+|.++|..-+-||.+|.|+.-+|.
T Consensus 319 -lslAIGk~GqNvrLA~~LtGwkIDI~s~~~~ 349 (374)
T PRK12328 319 -KSKAIGKNGINIRLASMLTGYEIELNEIGSK 349 (374)
T ss_pred -hhhhhcCCChhHHHHHHHhCCEEEEEECCCC
Confidence 4799999999999999999999999988763
No 282
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.63 E-value=30 Score=33.67 Aligned_cols=12 Identities=25% Similarity=0.811 Sum_probs=8.7
Q ss_pred CccchhcccCCC
Q 040243 368 RDEEYCRLCGEP 379 (797)
Q Consensus 368 r~~~~c~~cg~~ 379 (797)
.+|..|.+|.++
T Consensus 63 ~ddatC~IC~KT 74 (169)
T KOG3799|consen 63 GDDATCGICHKT 74 (169)
T ss_pred CcCcchhhhhhc
Confidence 345689999875
No 283
>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]
Probab=30.60 E-value=29 Score=39.53 Aligned_cols=30 Identities=43% Similarity=0.881 Sum_probs=16.9
Q ss_pred HHhhcCCcCc--------cchhcccCCCCCccccCCCC
Q 040243 360 LAALNGTIRD--------EEYCRLCGEPGHRQYACPSR 389 (797)
Q Consensus 360 la~lnGt~r~--------~~~c~~cg~~gh~~~~cp~~ 389 (797)
|+.|||.... ...|..||.-|||--+||.-
T Consensus 552 L~~L~~~~E~~~~a~~~~~kGCayCgGLGHRItdCPKl 589 (610)
T KOG0341|consen 552 LAELAGPMEEETIADAGGEKGCAYCGGLGHRITDCPKL 589 (610)
T ss_pred HHHhCCCccccccccCCCccccccccCCCcccccCchh
Confidence 7888875432 12455555555555555544
No 284
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=30.29 E-value=26 Score=38.34 Aligned_cols=40 Identities=33% Similarity=0.772 Sum_probs=17.5
Q ss_pred chhcccCCC------------CCccccCCCC-CCCccccccceecCCCCCCcc
Q 040243 371 EYCRLCGEP------------GHRQYACPSR-TSTFKSDVLCKICGDGGHPTI 410 (797)
Q Consensus 371 ~~c~~cg~~------------gh~~~~cp~~-~~~~~~~v~Cr~CG~~gH~t~ 410 (797)
..|.+||.. |+|...|.-= ..+--..+.|-.||..+|...
T Consensus 173 g~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~~~~~l 225 (290)
T PF04216_consen 173 GYCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNTDHEKL 225 (290)
T ss_dssp SS-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---SS-EE
T ss_pred CcCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCCCCcce
Confidence 489999975 6777777432 222235778888887666543
No 285
>KOG2208 consensus Vigilin [Lipid transport and metabolism]
Probab=29.87 E-value=50 Score=41.16 Aligned_cols=59 Identities=22% Similarity=0.477 Sum_probs=42.0
Q ss_pred ceeeeeeCCCchhHHHHHHHhCcEEEEeccccccccccccccCCCCCCCCCCCceEE---EEecCHHHHHHHHHHHHHhc
Q 040243 266 NFIGLIIGPRGNTQKRMERETGAKIVIRGKGSVKEGRLQQKRDLKPDPSENEDLHVL---VEAETQESLEGAAAMVEKLL 342 (797)
Q Consensus 266 NfiG~iiGPrG~t~K~le~eTgakI~IrGkGS~k~g~~~~~~~~~~~~~~~e~LHv~---I~a~~~e~v~~A~~~I~~ll 342 (797)
.|..-|+|..|..+.+|++++.|+|.++-.|+... +|. +.+..+.+++.....+.+|+
T Consensus 356 ~~~~~v~GK~~~ni~ki~e~~~~~i~~~~~~~~~~-------------------~v~~~~~~~~~~ka~~~v~~~~~ei~ 416 (753)
T KOG2208|consen 356 EELKFVIGKKGANIEKIREESQVKIDLPKQGSNNK-------------------KVVITGVSANDEKAVEDVEKIIAEIL 416 (753)
T ss_pred HhhhhhcCCCCccHHHHHHhhhhceecccccCCCC-------------------CeEEeccccchhHHHHHHHHHHHhhh
Confidence 56778999999999999999999999996553211 333 34455555666666666666
Q ss_pred C
Q 040243 343 Q 343 (797)
Q Consensus 343 ~ 343 (797)
.
T Consensus 417 n 417 (753)
T KOG2208|consen 417 N 417 (753)
T ss_pred c
Confidence 5
No 286
>PF03420 Peptidase_U9: Prohead core protein protease This family belongs to family U9 of the peptidase classification.; InterPro: IPR005082 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This group of peptidases belongs to MEROPS peptidase family U9 (phage prohead processing peptidase family, clan U-), which play a role in the head assembly of Bacteriophage T4. The pathway of bacteriophage T4 head assembly begins with the formation of a prohead bound to the bacterial cell membrane which is later converted to the mature, DNA-containing head. During maturation, all but one of the prohead proteins are proteolytically processed by a phage-coded protease which is formed by autocatalytic cleavage of the product of gene 21 (gp21). Protease gp21 has been tentatively located in the centre of the prohead core [].
Probab=29.31 E-value=1.8e+02 Score=30.68 Aligned_cols=77 Identities=27% Similarity=0.387 Sum_probs=50.7
Q ss_pred HHHHHHHHHHHHHHHHHhCCCC----CCCCCC----CCCceEEEEEecCCCCCCCceeeee---eCCCchhHHHHHHHhC
Q 040243 219 RERLNKERQEIISQIIKRNPAF----KPPADY----RPPKLQKKLYIPMKEYPGYNFIGLI---IGPRGNTQKRMERETG 287 (797)
Q Consensus 219 ~~~le~er~~li~~~~~~~p~~----~pp~dy----~p~~~~~Ki~IP~~~~P~~NfiG~i---iGPrG~t~K~le~eTg 287 (797)
++-|++|-.+-+++.+++.-.+ .|+..+ +-..+.++++.- +-||+|++ =+|.|+.+|.|-++ |
T Consensus 59 k~vl~reV~~Y~~e~V~t~rAlGEL~HP~~~~vd~~~vsh~I~~l~we-----G~n~~G~a~vL~t~~G~~l~aLi~a-G 132 (213)
T PF03420_consen 59 KSVLEREVQRYIEEQVKTGRALGELNHPDRPNVDPDRVSHKIESLWWE-----GDNVMGRARVLETPMGDILAALIDA-G 132 (213)
T ss_pred HHHHHHHHHHHHHHHHhccceeeEcCCCCCCCCCHHHhhhheeEEEEe-----CCeeEEEEEEcCCcchHHHHHHHHc-C
Confidence 5778888888887777766554 221111 112345566653 44899864 58999999999887 7
Q ss_pred cEE--EEecccccccc
Q 040243 288 AKI--VIRGKGSVKEG 301 (797)
Q Consensus 288 akI--~IrGkGS~k~g 301 (797)
-++ +-||-||+|+.
T Consensus 133 ~~lGVSSRG~Gslk~~ 148 (213)
T PF03420_consen 133 WKLGVSSRGLGSLKKR 148 (213)
T ss_pred CccceecCCccccccC
Confidence 664 55777887754
No 287
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=28.32 E-value=33 Score=34.66 Aligned_cols=54 Identities=20% Similarity=0.297 Sum_probs=29.8
Q ss_pred eEEEEecCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHH---HhhcCCcCc-cchhcccCCC
Q 040243 320 HVLVEAETQESLEGAAAMVEKLLQPVDEVLNEHKRQQLREL---AALNGTIRD-EEYCRLCGEP 379 (797)
Q Consensus 320 Hv~I~a~~~e~v~~A~~~I~~ll~~~~e~~n~~k~~Ql~el---a~lnGt~r~-~~~c~~cg~~ 379 (797)
-|+|| .|.+-+.++..-+..++...++ -..||.|+ ..+.+.+.. ..+|..|+..
T Consensus 49 rIllT-RDr~L~~r~k~g~~~i~i~~~s-----~~~Ql~e~~~~~~l~~~~~~e~~RCp~CN~~ 106 (165)
T COG1656 49 RILLT-RDRELYKRAKLGIKAILIRSDS-----IEEQLAEFLARLGLKPRLFPEFSRCPECNGE 106 (165)
T ss_pred eEEEe-ccHHHHHHhhccCceEEEeCCC-----HHHHHHHHHHHhccchhcccccccCcccCCE
Confidence 34444 3455566662224444443221 22477776 556665544 4699999865
No 288
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=28.25 E-value=38 Score=41.93 Aligned_cols=41 Identities=29% Similarity=0.596 Sum_probs=31.6
Q ss_pred hhcccCCCCCccccCCCCCCC-----ccccccceecCCCCCCcccCCCCC
Q 040243 372 YCRLCGEPGHRQYACPSRTST-----FKSDVLCKICGDGGHPTIDCLVKG 416 (797)
Q Consensus 372 ~c~~cg~~gh~~~~cp~~~~~-----~~~~v~Cr~CG~~gH~t~dCp~k~ 416 (797)
.|..||. ..+||+=... .+....|+.||-...+...||-=+
T Consensus 437 ~C~~Cg~----v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cg 482 (730)
T COG1198 437 LCRDCGY----IAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECG 482 (730)
T ss_pred ecccCCC----cccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCC
Confidence 7888874 3789876532 357899999998889999998744
No 289
>COG5179 TAF1 Transcription initiation factor TFIID, subunit TAF1 [Transcription]
Probab=27.62 E-value=75 Score=38.21 Aligned_cols=21 Identities=29% Similarity=0.580 Sum_probs=15.7
Q ss_pred cccceecCCCCCCccc--CCCCC
Q 040243 396 DVLCKICGDGGHPTID--CLVKG 416 (797)
Q Consensus 396 ~v~Cr~CG~~gH~t~d--Cp~k~ 416 (797)
.-.|..||+.||+.+. ||.-+
T Consensus 937 tr~C~nCGQvGHmkTNK~CP~f~ 959 (968)
T COG5179 937 TRTCGNCGQVGHMKTNKACPKFS 959 (968)
T ss_pred ceecccccccccccccccCcccc
Confidence 4578999999998754 87644
No 290
>KOG4165 consensus Gamma-glutamyl phosphate reductase [Amino acid transport and metabolism]
Probab=27.21 E-value=65 Score=36.06 Aligned_cols=27 Identities=33% Similarity=0.738 Sum_probs=20.0
Q ss_pred ceeeeeeCCCchh--HHHHHHHhCcEEEEecc
Q 040243 266 NFIGLIIGPRGNT--QKRMERETGAKIVIRGK 295 (797)
Q Consensus 266 NfiG~iiGPrG~t--~K~le~eTgakI~IrGk 295 (797)
++|-||| |||++ +++|++.|. |-+.|.
T Consensus 190 ~~IDLvI-PRGSs~LVr~Ik~~tk--IPVLGH 218 (433)
T KOG4165|consen 190 DYIDLVI-PRGSSDLVRSIKDTTK--IPVLGH 218 (433)
T ss_pred hheeEEe-cCCcHHHHHHHhhccc--Cccccc
Confidence 6777776 88876 688888654 888873
No 291
>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]
Probab=27.09 E-value=2.1e+02 Score=32.16 Aligned_cols=85 Identities=16% Similarity=0.194 Sum_probs=50.8
Q ss_pred CcccCCCCcccChHHHHHHHHHHHHHHHHHHHHHHhCCCC--CCCCCCC--C---CceEEEEEecCCCCCCCceeeeeeC
Q 040243 201 EPIYDNMGIRINTREYRARERLNKERQEIISQIIKRNPAF--KPPADYR--P---PKLQKKLYIPMKEYPGYNFIGLIIG 273 (797)
Q Consensus 201 ~p~yd~~g~r~ntre~r~~~~le~er~~li~~~~~~~p~~--~pp~dy~--p---~~~~~Ki~IP~~~~P~~NfiG~iiG 273 (797)
+..|+++-. |.+.--.--+|-.|.+|++..-+-+|-- ....+|+ + ..++.+|..|.. -..-+|||
T Consensus 274 pW~y~a~i~---T~~s~e~l~~e~VReklLd~~pqEVPY~lq~~i~~w~e~~~g~l~I~~~v~~pK~-----s~~klliG 345 (379)
T KOG1423|consen 274 PWKYPADIV---TEESPEFLCSESVREKLLDHLPQEVPYNLQVRILSWKERPAGVLFIQVEVVCPKN-----SQKKLLIG 345 (379)
T ss_pred CCCCCcccc---cccCHHHHHHHHHHHHHHhhCccccCcceEEEEEEeeecCCcEEEEEEEEEcCCC-----cceeEEEc
Confidence 456665422 3333233556777888887765544421 2334553 2 235666666653 45578999
Q ss_pred CCchhHHHHHHH--------hCcEEEEe
Q 040243 274 PRGNTQKRMERE--------TGAKIVIR 293 (797)
Q Consensus 274 PrG~t~K~le~e--------TgakI~Ir 293 (797)
++|.-|++|-++ .+||+.||
T Consensus 346 kgG~ki~qI~~~a~~dL~~if~r~V~l~ 373 (379)
T KOG1423|consen 346 KGGKKISQIGTRANEDLEDIFQRKVFLR 373 (379)
T ss_pred CCCccHHHHHHHHHHHHHHHhhceeeEE
Confidence 999999998554 45666665
No 292
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=26.12 E-value=1.6e+02 Score=33.74 Aligned_cols=36 Identities=22% Similarity=0.414 Sum_probs=27.9
Q ss_pred CCcEEEEecCCCC-CcHHHHHHHhhcC----CCEEEEEEEe
Q 040243 490 DDTNLYIGYLPPT-LDDDGLIRLFSTF----GDIVMAKVIK 525 (797)
Q Consensus 490 ~~~tLfVgNLp~~-vte~dL~~~Fs~f----G~I~~v~v~~ 525 (797)
...+|-|-||.|. +...+|..+|+.| |.|.+|.|..
T Consensus 145 ~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iyp 185 (622)
T COG5638 145 PTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYP 185 (622)
T ss_pred cccceeEeecccccchHHHHHHHHHhhCCCCCccceeEech
Confidence 3457889999986 6778999999876 6888777643
No 293
>PRK14126 cell division protein ZapA; Provisional
Probab=25.62 E-value=54 Score=29.48 Aligned_cols=45 Identities=22% Similarity=0.296 Sum_probs=27.6
Q ss_pred eEEEEecCHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHhhc
Q 040243 320 HVLVEAETQESLEGAAAMVEKLLQPVDEVLNEHKRQQLRELAALN 364 (797)
Q Consensus 320 Hv~I~a~~~e~v~~A~~~I~~ll~~~~e~~n~~k~~Ql~ela~ln 364 (797)
+.++...+++.|..+++.|..-|..+.+....+--.++.=||.||
T Consensus 18 Y~i~~~e~ee~l~~vA~~vd~km~ei~~~~~~ls~~~iAVLaALN 62 (85)
T PRK14126 18 YTIVGDESTSHIRMVAAIVDDKMRELNEKNPSLDTSKLAVLTAVN 62 (85)
T ss_pred EEecCCCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 333434567889999999988887665433333334444566666
No 294
>COG1159 Era GTPase [General function prediction only]
Probab=25.26 E-value=1.5e+02 Score=32.78 Aligned_cols=68 Identities=19% Similarity=0.377 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHhCCCC--CCCCCCC-----CCceEEEEEecCCCCCCCceeeeeeCCCchhHHHH--------HHH
Q 040243 221 RLNKERQEIISQIIKRNPAF--KPPADYR-----PPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRM--------ERE 285 (797)
Q Consensus 221 ~le~er~~li~~~~~~~p~~--~pp~dy~-----p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~l--------e~e 285 (797)
..|--|.+|+..+.+-.|.- .....+. -.++...|||.-+.+- |-|||-+|..||+| |+-
T Consensus 192 ~aEiiREk~~~~l~eElPhsv~VeIe~~~~~~~~~~~I~a~I~Ver~sQK-----~IiIGk~G~~iK~IG~~AR~~ie~l 266 (298)
T COG1159 192 AAEIIREKLLLLLREELPHSVAVEIEEFEEREKGLLKIHATIYVERESQK-----GIIIGKNGAMIKKIGTAARKDIEKL 266 (298)
T ss_pred HHHHHHHHHHHhcccccCceEEEEEEEEEecCCCeEEEEEEEEEecCCcc-----ceEECCCcHHHHHHHHHHHHHHHHH
Confidence 44556666776666555542 2222222 2356677888877555 89999999999976 666
Q ss_pred hCcEEEEe
Q 040243 286 TGAKIVIR 293 (797)
Q Consensus 286 TgakI~Ir 293 (797)
.+|||.+.
T Consensus 267 ~~~kV~L~ 274 (298)
T COG1159 267 LGCKVYLE 274 (298)
T ss_pred hCCceEEE
Confidence 77777664
No 295
>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=24.93 E-value=80 Score=30.09 Aligned_cols=46 Identities=15% Similarity=0.343 Sum_probs=27.1
Q ss_pred CcHHHHHHHhhcCCCEEEEEEEecCCCCcccceEEEEecC-HHHHHHHHH
Q 040243 503 LDDDGLIRLFSTFGDIVMAKVIKDRVTGMSKGYGFVKYAD-IQMANNAIA 551 (797)
Q Consensus 503 vte~dL~~~Fs~fG~I~~v~v~~dk~TGksrGfaFV~F~s-~e~A~~AI~ 551 (797)
++.+.|++.|+.|..+. ++.+.++. -++|+++|+|.+ -.--..|+.
T Consensus 29 ~~~~~l~~~l~~f~p~k-v~~l~~~~--gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 29 MSNEELLDKLAEFNPLK-VKPLYGKQ--GHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp --SHHHHHHHHH---SE-EEEEEETT--EEEEEEEEE--SSHHHHHHHHH
T ss_pred cCHHHHHHHHHhcCCce-eEECcCCC--CCcEEEEEEECCChHHHHHHHH
Confidence 35578999999998764 66666652 578999999975 444444543
No 296
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=24.04 E-value=87 Score=34.71 Aligned_cols=45 Identities=22% Similarity=0.450 Sum_probs=28.2
Q ss_pred HHHhhcCCcCccchhcccCCCCCccccCCCCCC--CccccccceecC
Q 040243 359 ELAALNGTIRDEEYCRLCGEPGHRQYACPSRTS--TFKSDVLCKICG 403 (797)
Q Consensus 359 ela~lnGt~r~~~~c~~cg~~gh~~~~cp~~~~--~~~~~v~Cr~CG 403 (797)
+++...++..+...|..||...-..|+-..+.. ..+.-++|..||
T Consensus 247 ~~~~~~~~~t~~~~C~~C~~~~~~~~q~QtrsaDEpmT~f~~C~~Cg 293 (299)
T TIGR01385 247 QGAKIQKAVTDLFTCGKCKQKKCTYYQLQTRSADEPMTTFVTCEECG 293 (299)
T ss_pred HhhhhhcCCcccccCCCCCCccceEEEecccCCCCCCeEEEEcCCCC
Confidence 356677787888899999865544444333321 113456788887
No 297
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=23.48 E-value=3.8e+02 Score=30.70 Aligned_cols=179 Identities=13% Similarity=0.099 Sum_probs=84.6
Q ss_pred CCCCCccCcCCCCCCCCCCCCCCCccccccccccCCcccccccccc---CCCcccCCCCCCccc------hhhhhcccCC
Q 040243 43 AQNPQPASENGHDKNNENSCNNNNDVAAADYIKQKPLLSENGLTNT---HSGTDKDQSGGEEET------TSRRRRRSRW 113 (797)
Q Consensus 43 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~------~~~~~r~s~w 113 (797)
.|||...+-.-+.|+--++-.--.| .| |.|.+++.|++-.+-- --.+|-..|+.++-- +.+.-.++|.
T Consensus 64 TqNP~A~~~~~~~tlK~~~~~~H~~-~~--~~~S~~~~~~~~~Ns~~~~~P~~~~SSS~~~~~~r~L~~~~~~~~~~~~L 140 (507)
T COG5118 64 TQNPKADVIEDNVTLKPAPLQTHRD-QK--VPRSSRLASLSKDNSRPSFKPSFLDSSSNSNGTARRLSTISNKLPKKIRL 140 (507)
T ss_pred ccCCCcchhccCcccCcchhhhccC-Cc--ccccccchhcCcccCCccCCcccccccccchhHHHHHHHHhhcCcchhhc
Confidence 4666666666666665554443222 23 7788888887633211 001111111111110 1223356666
Q ss_pred CCCCCCCCCCCCCCCCCCCCCccCCCCCC-CCCCCcccCCccccccCC---------CCcCCHHHHHHHHHHHHHHHHHh
Q 040243 114 DPPPSESGGTEGNGDSGSGTRKRRSRWAD-DEPKPVIQLPDFMKDFTG---------GIEFDPEIQALNSRLLEISRMLQ 183 (797)
Q Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~r~srw~~-~~~~~~~~~p~~~~~~~~---------~~~~~~~~~~~~~r~~ei~~~l~ 183 (797)
+-..++++. .-+-+|.|++---. ...+-.|.+|+++.|-.. ...-|+-.-.+.+|+-+|-++|+
T Consensus 141 ~site~~~~------~~t~Kr~R~~~k~SS~Kk~aki~~~~~~TD~~~~N~S~~~~ts~~~D~~~~~~~~k~~di~K~v~ 214 (507)
T COG5118 141 GSITENDMN------LKTFKRHRVLGKPSSAKKPAKISPPTAMTDSLDRNFSSETSTSREADENENYVISKVKDIPKKVR 214 (507)
T ss_pred cccccCccc------chhhhhhhhcCCcccccCccccCCcccccchhhcccccccchhhccCCCcchhhHHHHhHHHHhh
Confidence 666555432 33335555432222 222235678888776321 11223333345688889999998
Q ss_pred cCC----CCCCCCCCCCCCCCCcccCCCCcccChHHHHHHHHHHHHHHHHHHH
Q 040243 184 SGL----PLDDRPEGQRSPSPEPIYDNMGIRINTREYRARERLNKERQEIISQ 232 (797)
Q Consensus 184 ~~~----~~~~~~~~~rspsp~p~yd~~g~r~ntre~r~~~~le~er~~li~~ 232 (797)
.|. +++.. .---+-+=.|.+|..-+. |-....+..+-.+|++++|..
T Consensus 215 d~~~AK~~~~e~-~~T~a~~~~~~~~~~I~e-~~~~S~m~~~~~~eKrrhv~~ 265 (507)
T COG5118 215 DGESAKYFIDEE-NFTMAELCKPNFPIQISE-NFEKSKMAKKAKLEKRRHVKF 265 (507)
T ss_pred cchhhHHHHhcc-ccchHhhcCCCCchhhcc-hhhHhhhhhcchHHHHHHHHH
Confidence 873 23221 112234456777764332 333333444444455555543
No 298
>KOG3794 consensus CBF1-interacting corepressor CIR and related proteins [Transcription]
Probab=23.47 E-value=37 Score=38.51 Aligned_cols=24 Identities=33% Similarity=0.661 Sum_probs=19.5
Q ss_pred ccccceecCCCCCCccc--CCCCCcC
Q 040243 395 SDVLCKICGDGGHPTID--CLVKGTT 418 (797)
Q Consensus 395 ~~v~Cr~CG~~gH~t~d--Cp~k~~~ 418 (797)
..|.|-.|+.-||++.| ||+.+..
T Consensus 123 RNVrC~kChkwGH~n~DreCplf~~~ 148 (453)
T KOG3794|consen 123 RNVRCLKCHKWGHINTDRECPLFGKS 148 (453)
T ss_pred eeeeEEeecccccccCCccCcchhhc
Confidence 57889999999999865 9987654
No 299
>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=23.09 E-value=1.1e+02 Score=33.62 Aligned_cols=84 Identities=12% Similarity=0.240 Sum_probs=59.9
Q ss_pred CCCCCcEEEEecCCCCCcHHHHHHHhhcCCCEEEEEEEecC-------CCCcccceEEEEecCHHHHHH----HHHhcCc
Q 040243 487 KELDDTNLYIGYLPPTLDDDGLIRLFSTFGDIVMAKVIKDR-------VTGMSKGYGFVKYADIQMANN----AIASMNG 555 (797)
Q Consensus 487 ~~~~~~tLfVgNLp~~vte~dL~~~Fs~fG~I~~v~v~~dk-------~TGksrGfaFV~F~s~e~A~~----AI~~LnG 555 (797)
++...+.|.+.||...++--.+...|.+||.|.+|+++.+. ...+......+.|-+++.+.. .++.|..
T Consensus 11 D~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsE 90 (309)
T PF10567_consen 11 DEYRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSE 90 (309)
T ss_pred ccceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHH
Confidence 44566789999999999888888999999999999999876 122233466788888776543 2333332
Q ss_pred --eeeccceEEEEecCC
Q 040243 556 --YRLEGRTIAVRVAGK 570 (797)
Q Consensus 556 --~~l~Gr~L~V~~A~~ 570 (797)
..|....|.|.|..-
T Consensus 91 fK~~L~S~~L~lsFV~l 107 (309)
T PF10567_consen 91 FKTKLKSESLTLSFVSL 107 (309)
T ss_pred HHHhcCCcceeEEEEEE
Confidence 346777788877653
No 300
>TIGR00269 conserved hypothetical protein TIGR00269.
Probab=22.40 E-value=44 Score=30.96 Aligned_cols=19 Identities=47% Similarity=1.120 Sum_probs=12.8
Q ss_pred chhcccCCCCCccccCCCCCCCccccccceecC
Q 040243 371 EYCRLCGEPGHRQYACPSRTSTFKSDVLCKICG 403 (797)
Q Consensus 371 ~~c~~cg~~gh~~~~cp~~~~~~~~~v~Cr~CG 403 (797)
..|..||... +.-+|+.|.
T Consensus 81 ~~C~~CG~ps--------------s~~iC~~C~ 99 (104)
T TIGR00269 81 RRCERCGEPT--------------SGRICKACK 99 (104)
T ss_pred CcCCcCcCcC--------------CccccHhhh
Confidence 4788888642 344788874
No 301
>TIGR03675 arCOG00543 arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein. This family of proteins is universal in the archaea and consistsof an N-terminal type-1 KH-domain (pfam00013) a central beta-lactamase-domain (pfam00753) with a C-terminal motif associated with RNA metabolism (pfam07521). KH-domains are associated with RNA-binding, so taken together, this protein is a likely metal-dependent RNAase. This family was defined in as arCOG01782.
Probab=21.92 E-value=1e+02 Score=37.76 Aligned_cols=58 Identities=24% Similarity=0.260 Sum_probs=37.2
Q ss_pred HHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEe
Q 040243 230 ISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIR 293 (797)
Q Consensus 230 i~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~Ir 293 (797)
++.+.+++|.=....|..--.-+--|+|-. ..=|++||-+|.|+++|-++||-+..|.
T Consensus 72 ~~~i~~~~~~~~~~~~~~f~~~~~~v~i~~------~~p~~~~~~~~~~~~~i~~~~~w~~~~~ 129 (630)
T TIGR03675 72 IEKIKEIVPEEAGITDIYFDDVTGEVIIEA------EKPGLVIGKGGSTLREITAETGWTPKVV 129 (630)
T ss_pred HHHHHHhCCCcCCceeEEecCCCceEEEEE------cCCeEEEecCcchHHHHHHHhCCeeeEE
Confidence 344555566532223322112233455655 3449999999999999999999887776
No 302
>TIGR01953 NusA transcription termination factor NusA. This model describes NusA, or N utilization substance protein A, a bacterial transcription termination factor. It binds to RNA polymerase alpha subunit and promotes termination at certain RNA hairpin structures. It is named for the interaction in E. coli of phage lambda antitermination protein N with the N-utilization substance, consisting of NusA, NusB, NusE (ribosomal protein S10), and nusG. This model represents a region of NusA shared in all bacterial forms, and including an S1 (pfam00575) and a KH (pfam00013) RNA binding domains. Proteobacterial forms have an additional C-terminal region, not included in this model, with two repeats of 50-residue domain rich in acidic amino acids.
Probab=21.80 E-value=87 Score=35.36 Aligned_cols=38 Identities=21% Similarity=0.344 Sum_probs=32.1
Q ss_pred eEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEec
Q 040243 251 LQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRG 294 (797)
Q Consensus 251 ~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrG 294 (797)
....|+|+.+ =.++.||-+|.++|..-+-||++|.|+-
T Consensus 301 ~~~~v~V~~~------~~~~aIGk~G~Nv~la~~l~g~~IdI~s 338 (341)
T TIGR01953 301 HSAEVVVPDD------QLSLAIGKGGQNVRLASKLTGWNIDVKT 338 (341)
T ss_pred cEEEEEEChH------HcchhhcCCChhHHHHHHHhCCEEEEEe
Confidence 3456777774 4579999999999999999999999983
No 303
>PRK14715 DNA polymerase II large subunit; Provisional
Probab=21.25 E-value=1.5e+02 Score=39.00 Aligned_cols=48 Identities=21% Similarity=0.374 Sum_probs=28.0
Q ss_pred chhcccCCCCCccccCCCCCCCccccccceecCCCCCCcccCCCCCcCCCCcchHHHHHHhhhcCC
Q 040243 371 EYCRLCGEPGHRQYACPSRTSTFKSDVLCKICGDGGHPTIDCLVKGTTGKKMDDEYQNFLAELGGT 436 (797)
Q Consensus 371 ~~c~~cg~~gh~~~~cp~~~~~~~~~v~Cr~CG~~gH~t~dCp~k~~~g~~ld~eY~~~m~Elg~~ 436 (797)
..|..||..+. ..+|-.|| .|...+|..+... .+.+.|.+-|+.++..
T Consensus 675 ~~Cp~Cg~~~~--------------~~~Cp~CG--~~~~~~~~~~~~i--~~~~~~~~A~~~v~~~ 722 (1627)
T PRK14715 675 FKCPKCGKVGL--------------YHVCPFCG--TRVELKPYARREI--PPKDYWYAALENLKIN 722 (1627)
T ss_pred eeCCCCCCccc--------------cccCcccC--CcccCCCccceec--CHHHHHHHHHHHhCCC
Confidence 47999987553 34688897 3544454332211 2455666666666653
No 304
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=21.01 E-value=2.1e+02 Score=33.64 Aligned_cols=29 Identities=28% Similarity=0.413 Sum_probs=21.7
Q ss_pred CcccChHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 040243 208 GIRINTREYRARERLNKERQEIISQIIKRNPA 239 (797)
Q Consensus 208 g~r~ntre~r~~~~le~er~~li~~~~~~~p~ 239 (797)
.++|||.++ +++..||.+|-.++.++++.
T Consensus 362 kq~Is~e~f---e~mn~Ere~L~reL~~i~~~ 390 (622)
T COG5185 362 KQGISTEQF---ELMNQEREKLTRELDKINIQ 390 (622)
T ss_pred hcCCCHHHH---HHHHHHHHHHHHHHHHhcch
Confidence 457888887 78888888887777666654
No 305
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=20.98 E-value=1.4e+02 Score=31.68 Aligned_cols=19 Identities=16% Similarity=0.352 Sum_probs=17.1
Q ss_pred hhHHHHHHHhCcEEEEecc
Q 040243 277 NTQKRMERETGAKIVIRGK 295 (797)
Q Consensus 277 ~t~K~le~eTgakI~IrGk 295 (797)
..||+||++.|+++.+|.+
T Consensus 34 ~~i~~LE~~lg~~Lf~R~~ 52 (296)
T PRK11242 34 QQIRQLEESLGVQLFDRSG 52 (296)
T ss_pred HHHHHHHHHhCCeeEeEcC
Confidence 5699999999999999964
No 306
>PF04908 SH3BGR: SH3-binding, glutamic acid-rich protein; InterPro: IPR006993 This family of proteins, which contains SH3BGRL3, is functionally uncharacterised. SH3BGRL3 is a highly conserved small protein, which is widely expressed and shows a significant similarity to glutaredoxin 1 (GRX1) of Escherichia coli which is predicted to belong to the thioredoxin superfamily. However, SH3BGRL3 lacks both conserved cysteine residues, which characterise the enzymatic active site of GRX. This structural feature raises the possibility that SH3BGRL3 and its homologues could function as endogenous modulators of GRX activity []. ; PDB: 1SJ6_A 1U6T_A 1WRY_A 1T1V_B 1J0F_A 2CT6_A.
Probab=20.56 E-value=56 Score=30.29 Aligned_cols=44 Identities=25% Similarity=0.335 Sum_probs=30.1
Q ss_pred CceEEEEecCHH-HHHHHHHHHHHhcCC-------ChHHHHHHHHHHHHHHH
Q 040243 318 DLHVLVEAETQE-SLEGAAAMVEKLLQP-------VDEVLNEHKRQQLRELA 361 (797)
Q Consensus 318 ~LHv~I~a~~~e-~v~~A~~~I~~ll~~-------~~e~~n~~k~~Ql~ela 361 (797)
.++|+++.-+-. +|.+-.+.|..||.. ++-..++..|+-+|+.+
T Consensus 2 ~I~vy~ss~sg~~~ikk~q~~v~~iL~a~kI~fe~vDIa~~e~~r~~mr~~~ 53 (99)
T PF04908_consen 2 VIKVYISSISGSREIKKRQQRVLMILEAKKIPFEEVDIAMDEEARQWMRENA 53 (99)
T ss_dssp SEEEEE-SS-SSHHHHHHHHHHHHHHHHTT--EEEEETTT-HHHHHHHHHHT
T ss_pred EEEEEEecccCCHHHHHHHHHHHHHHHHcCCCcEEEeCcCCHHHHHHHHHhc
Confidence 478999876554 688888888888863 33445777888888776
No 307
>PF08303 tRNA_lig_kinase: tRNA ligase kinase domain; InterPro: IPR015966 This entry represents a kinase domain found in fungal tRNA ligases []. Please see the following relevant references: [, ].; GO: 0003972 RNA ligase (ATP) activity, 0005524 ATP binding, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation
Probab=20.56 E-value=2.6e+02 Score=28.59 Aligned_cols=57 Identities=18% Similarity=0.387 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHhCCCCCCCCCCCCCceEEEEEecCCCCCCCceeeeeeCCCchhHHHHHHHhCcEEEEeccc
Q 040243 221 RLNKERQEIISQIIKRNPAFKPPADYRPPKLQKKLYIPMKEYPGYNFIGLIIGPRGNTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 221 ~le~er~~li~~~~~~~p~~~pp~dy~p~~~~~Ki~IP~~~~P~~NfiG~iiGPrG~t~K~le~eTgakI~IrGkG 296 (797)
-+..||.+|++.+.++.+.|.+.. .. +.||++-.-... ++..|-+-|--+|.-||..
T Consensus 65 h~~reR~ql~~~~~~~~~~yl~~~------~~------------~r~VaL~fv~~~-~~~~i~~it~~RV~~RGDN 121 (168)
T PF08303_consen 65 HQKRERKQLFEDVSQLKPDYLPYD------TN------------VRFVALNFVHDD-DLDEIRRITQDRVLARGDN 121 (168)
T ss_pred chHHHHHHHHHHHHHhcccccccC------CC------------eEEEEEEccCCC-CHHHHHHHHHHHHHhcCcC
Confidence 356789999999988887765422 11 234444444444 6888888888888888865
No 308
>PF00126 HTH_1: Bacterial regulatory helix-turn-helix protein, lysR family; InterPro: IPR000847 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family, the lysR family, groups together a range of proteins, including ampR, catM, catR, cynR, cysB, gltC, iciA, ilvY, irgB, lysR, metR, mkaC, mleR, nahR, nhaR, nodD, nolR, oxyR, pssR, rbcR, syrM, tcbR, tfdS and trpI [, , , , ]. The majority of these proteins appear to be transcription activators and most are known to negatively regulate their own expression. All possess a potential HTH DNA-binding motif towards their N-termini.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3T1B_D 3SZP_A 1O7L_C 1B9N_A 1B9M_A 3FZJ_J 3FXR_B 3FXQ_A 3FXU_A 2IJL_B ....
Probab=20.27 E-value=73 Score=26.14 Aligned_cols=20 Identities=25% Similarity=0.360 Sum_probs=16.4
Q ss_pred hhHHHHHHHhCcEEEEeccc
Q 040243 277 NTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 277 ~t~K~le~eTgakI~IrGkG 296 (797)
..||+||++.|+++.+|..+
T Consensus 32 ~~i~~LE~~lg~~Lf~r~~~ 51 (60)
T PF00126_consen 32 RQIKQLEEELGVPLFERSGR 51 (60)
T ss_dssp HHHHHHHHHHTS-SEEECSS
T ss_pred HHHHHHHHHhCCeEEEECCC
Confidence 46899999999999999654
No 309
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=20.27 E-value=1e+02 Score=39.98 Aligned_cols=26 Identities=27% Similarity=0.694 Sum_probs=20.8
Q ss_pred HHHHHhhcCCcCccchhcccCCCCCc
Q 040243 357 LRELAALNGTIRDEEYCRLCGEPGHR 382 (797)
Q Consensus 357 l~ela~lnGt~r~~~~c~~cg~~gh~ 382 (797)
+++++.|-..|.+.+.|.+||..-|-
T Consensus 490 ~~~~~~Lr~~L~~GePCPVCGS~~HP 515 (1047)
T PRK10246 490 IKDLEAQRAQLQAGQPCPLCGSTSHP 515 (1047)
T ss_pred HHHHHHHHHhCCCCCCcCCCCcccCc
Confidence 34566678888899999999998883
No 310
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=20.25 E-value=45 Score=26.64 Aligned_cols=17 Identities=41% Similarity=1.138 Sum_probs=15.5
Q ss_pred chhcccCCCCCccccCC
Q 040243 371 EYCRLCGEPGHRQYACP 387 (797)
Q Consensus 371 ~~c~~cg~~gh~~~~cp 387 (797)
.+|..||..||..-+|+
T Consensus 32 ~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECP 48 (49)
T ss_pred hhhcCCCCcCcCHhHcC
Confidence 48999999999998887
No 311
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=20.13 E-value=1.4e+02 Score=31.62 Aligned_cols=20 Identities=15% Similarity=0.182 Sum_probs=17.2
Q ss_pred hhHHHHHHHhCcEEEEeccc
Q 040243 277 NTQKRMERETGAKIVIRGKG 296 (797)
Q Consensus 277 ~t~K~le~eTgakI~IrGkG 296 (797)
..||+||++.|+++.+|...
T Consensus 36 ~~I~~LE~~lg~~Lf~R~~r 55 (290)
T PRK10837 36 AALTDLEGQLGVQLFDRVGK 55 (290)
T ss_pred HHHHHHHHHhCCccEeecCC
Confidence 45899999999999999643
Done!