Query 029462
Match_columns 193
No_of_seqs 276 out of 2416
Neff 9.0
Searched_HMMs 46136
Date Fri Mar 29 13:18:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029462.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029462hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0107 Alternative splicing f 99.9 1.6E-25 3.5E-30 162.0 15.1 78 20-102 10-87 (195)
2 KOG4207 Predicted splicing fac 99.9 3.2E-24 6.9E-29 159.1 14.0 85 17-101 10-94 (256)
3 PLN03134 glycine-rich RNA-bind 99.9 4E-22 8.8E-27 144.8 15.2 86 17-102 31-116 (144)
4 KOG0113 U1 small nuclear ribon 99.8 9.2E-20 2E-24 142.0 15.2 86 18-103 99-184 (335)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 4.5E-19 9.8E-24 146.5 11.3 80 22-101 271-350 (352)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.8 7.6E-19 1.7E-23 145.1 10.9 83 19-101 2-84 (352)
7 TIGR01659 sex-lethal sex-letha 99.8 7.2E-19 1.6E-23 144.5 10.3 83 18-100 105-187 (346)
8 PF00076 RRM_1: RNA recognitio 99.8 2E-18 4.3E-23 109.9 9.2 70 23-93 1-70 (70)
9 KOG0122 Translation initiation 99.8 1.1E-18 2.4E-23 132.7 9.0 84 17-100 186-269 (270)
10 TIGR01659 sex-lethal sex-letha 99.8 1.3E-17 2.9E-22 137.0 14.2 83 20-102 193-277 (346)
11 KOG0130 RNA-binding protein RB 99.8 3.4E-18 7.4E-23 119.2 8.7 81 21-101 73-153 (170)
12 KOG0117 Heterogeneous nuclear 99.7 2.5E-17 5.5E-22 134.5 10.0 96 5-100 68-164 (506)
13 KOG0121 Nuclear cap-binding pr 99.7 1.4E-17 3.1E-22 115.1 7.2 83 16-98 32-114 (153)
14 KOG0149 Predicted RNA-binding 99.7 9.8E-18 2.1E-22 127.0 6.5 80 19-99 11-90 (247)
15 PF14259 RRM_6: RNA recognitio 99.7 9.9E-17 2.1E-21 102.4 9.7 70 23-93 1-70 (70)
16 TIGR01645 half-pint poly-U bin 99.7 8.5E-17 1.8E-21 139.5 11.3 83 19-101 203-285 (612)
17 TIGR01648 hnRNP-R-Q heterogene 99.7 7.2E-17 1.6E-21 139.6 10.2 91 6-97 44-135 (578)
18 TIGR01645 half-pint poly-U bin 99.7 8E-17 1.7E-21 139.6 10.0 82 17-98 104-185 (612)
19 TIGR01642 U2AF_lg U2 snRNP aux 99.7 1.6E-16 3.5E-21 137.3 11.7 84 18-101 293-376 (509)
20 PLN03120 nucleic acid binding 99.7 1.7E-16 3.6E-21 123.7 10.5 77 20-100 4-80 (260)
21 KOG0126 Predicted RNA-binding 99.7 3.9E-18 8.4E-23 124.5 0.7 83 18-100 33-115 (219)
22 PLN03213 repressor of silencin 99.7 1.6E-16 3.5E-21 131.5 9.6 78 19-100 9-88 (759)
23 TIGR01622 SF-CC1 splicing fact 99.7 2.7E-16 5.8E-21 134.3 10.6 80 20-99 186-265 (457)
24 TIGR01648 hnRNP-R-Q heterogene 99.7 4.1E-16 8.8E-21 134.9 11.6 78 17-102 230-309 (578)
25 KOG0125 Ataxin 2-binding prote 99.7 2E-16 4.3E-21 125.0 8.5 82 17-100 93-174 (376)
26 KOG0105 Alternative splicing f 99.7 3.2E-16 7E-21 114.9 9.1 79 20-101 6-84 (241)
27 KOG0415 Predicted peptidyl pro 99.7 1E-16 2.2E-21 127.8 6.4 93 1-99 226-318 (479)
28 KOG0111 Cyclophilin-type pepti 99.7 9.3E-17 2E-21 120.7 5.0 86 20-105 10-95 (298)
29 TIGR01628 PABP-1234 polyadenyl 99.7 5.3E-16 1.2E-20 135.7 10.6 78 22-99 2-79 (562)
30 KOG0117 Heterogeneous nuclear 99.7 2.5E-16 5.4E-21 128.8 7.7 93 2-102 241-333 (506)
31 smart00362 RRM_2 RNA recogniti 99.6 1.7E-15 3.6E-20 95.8 9.1 72 22-95 1-72 (72)
32 KOG0131 Splicing factor 3b, su 99.6 3.4E-16 7.4E-21 114.4 6.2 81 18-98 7-87 (203)
33 KOG0148 Apoptosis-promoting RN 99.6 6.4E-16 1.4E-20 119.3 8.0 80 22-101 64-143 (321)
34 TIGR01622 SF-CC1 splicing fact 99.6 1.4E-15 3E-20 130.0 10.8 80 19-99 88-167 (457)
35 TIGR01628 PABP-1234 polyadenyl 99.6 1.8E-15 3.9E-20 132.4 10.7 82 19-101 284-365 (562)
36 KOG0114 Predicted RNA-binding 99.6 2.8E-15 6E-20 100.1 9.0 78 20-100 18-95 (124)
37 smart00360 RRM RNA recognition 99.6 2.9E-15 6.4E-20 94.3 8.0 71 25-95 1-71 (71)
38 KOG0145 RNA-binding protein EL 99.6 4.4E-15 9.5E-20 114.3 9.9 80 21-100 279-358 (360)
39 KOG0145 RNA-binding protein EL 99.6 3.1E-15 6.6E-20 115.1 8.4 82 20-101 41-122 (360)
40 COG0724 RNA-binding proteins ( 99.6 5.5E-15 1.2E-19 116.4 9.9 80 20-99 115-194 (306)
41 KOG0108 mRNA cleavage and poly 99.6 2.1E-15 4.7E-20 126.1 7.8 83 21-103 19-101 (435)
42 PLN03121 nucleic acid binding 99.6 8.3E-15 1.8E-19 112.7 10.3 75 20-98 5-79 (243)
43 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.6 1.1E-14 2.4E-19 125.2 11.8 78 19-101 274-352 (481)
44 cd00590 RRM RRM (RNA recogniti 99.6 2.3E-14 5E-19 91.0 9.7 74 22-96 1-74 (74)
45 KOG0148 Apoptosis-promoting RN 99.6 1.3E-14 2.8E-19 112.2 9.9 81 15-101 159-239 (321)
46 KOG0109 RNA-binding protein LA 99.5 7E-15 1.5E-19 114.6 5.7 72 21-100 3-74 (346)
47 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 3.6E-14 7.8E-19 122.0 10.3 75 20-100 2-78 (481)
48 KOG0144 RNA-binding protein CU 99.5 6.6E-15 1.4E-19 120.1 5.4 89 16-105 120-211 (510)
49 KOG0127 Nucleolar protein fibr 99.5 2.5E-14 5.4E-19 119.8 8.9 81 20-101 117-197 (678)
50 smart00361 RRM_1 RNA recogniti 99.5 4.8E-14 1E-18 90.1 7.8 61 34-94 2-69 (70)
51 PF13893 RRM_5: RNA recognitio 99.5 8.8E-14 1.9E-18 84.9 8.5 56 37-97 1-56 (56)
52 KOG0124 Polypyrimidine tract-b 99.5 1.3E-14 2.9E-19 116.3 4.9 80 17-96 110-189 (544)
53 KOG0144 RNA-binding protein CU 99.5 3.3E-14 7.2E-19 116.0 7.2 86 18-103 32-120 (510)
54 KOG0147 Transcriptional coacti 99.5 2.7E-14 5.9E-19 119.6 6.8 81 21-101 279-359 (549)
55 KOG0146 RNA-binding protein ET 99.5 5.2E-14 1.1E-18 108.8 5.6 85 17-101 282-366 (371)
56 KOG0127 Nucleolar protein fibr 99.5 1.9E-13 4.1E-18 114.6 8.8 84 18-101 290-379 (678)
57 KOG0131 Splicing factor 3b, su 99.4 1.8E-13 4E-18 100.2 6.5 87 17-103 93-180 (203)
58 KOG4212 RNA-binding protein hn 99.4 4.3E-13 9.2E-18 109.9 8.8 78 21-99 45-123 (608)
59 TIGR01642 U2AF_lg U2 snRNP aux 99.4 7.5E-13 1.6E-17 114.5 9.5 72 19-97 174-257 (509)
60 KOG0109 RNA-binding protein LA 99.4 4.2E-13 9.1E-18 104.8 5.5 82 18-107 76-157 (346)
61 KOG4206 Spliceosomal protein s 99.3 5.7E-12 1.2E-16 95.5 7.7 80 19-101 8-91 (221)
62 KOG0124 Polypyrimidine tract-b 99.3 2.9E-12 6.3E-17 103.1 6.1 84 17-100 207-290 (544)
63 KOG0123 Polyadenylate-binding 99.3 1.1E-11 2.5E-16 102.7 9.1 81 19-102 75-155 (369)
64 KOG4208 Nucleolar RNA-binding 99.3 1.3E-11 2.7E-16 92.3 8.4 80 21-100 50-130 (214)
65 KOG0116 RasGAP SH3 binding pro 99.3 2.8E-11 6.2E-16 101.0 11.2 83 18-101 286-368 (419)
66 KOG0106 Alternative splicing f 99.3 3E-12 6.5E-17 97.6 3.9 72 21-100 2-73 (216)
67 KOG4661 Hsp27-ERE-TATA-binding 99.3 1.6E-11 3.5E-16 103.7 7.8 80 22-101 407-486 (940)
68 KOG0132 RNA polymerase II C-te 99.2 1.8E-11 3.9E-16 106.3 7.7 75 21-101 422-496 (894)
69 KOG0153 Predicted RNA-binding 99.2 2.8E-11 6E-16 96.7 7.9 76 18-99 226-302 (377)
70 KOG0110 RNA-binding protein (R 99.2 3.7E-11 8E-16 103.6 8.9 78 21-98 516-596 (725)
71 KOG4205 RNA-binding protein mu 99.2 9.5E-12 2.1E-16 100.3 4.9 82 19-101 5-86 (311)
72 KOG0110 RNA-binding protein (R 99.2 9.6E-12 2.1E-16 107.1 4.9 83 19-101 612-694 (725)
73 KOG0533 RRM motif-containing p 99.2 5.1E-11 1.1E-15 92.7 8.4 80 21-101 84-163 (243)
74 KOG4212 RNA-binding protein hn 99.2 8.2E-11 1.8E-15 96.7 7.3 76 17-97 533-608 (608)
75 KOG0146 RNA-binding protein ET 99.2 4.7E-11 1E-15 92.6 5.3 83 19-102 18-103 (371)
76 KOG4205 RNA-binding protein mu 99.2 4.8E-11 1E-15 96.2 5.6 85 19-104 96-180 (311)
77 KOG0123 Polyadenylate-binding 99.1 1.5E-10 3.3E-15 96.1 8.1 74 21-100 2-75 (369)
78 KOG1457 RNA binding protein (c 99.1 5.7E-10 1.2E-14 84.6 9.6 84 19-102 33-120 (284)
79 KOG4209 Splicing factor RNPS1, 99.1 1.7E-10 3.6E-15 89.8 6.5 83 17-100 98-180 (231)
80 KOG4454 RNA binding protein (R 99.1 4.4E-11 9.5E-16 90.2 2.0 78 21-100 10-87 (267)
81 PF04059 RRM_2: RNA recognitio 99.0 2.8E-09 6.1E-14 71.8 9.0 80 21-100 2-87 (97)
82 KOG1548 Transcription elongati 99.0 1.8E-09 3.9E-14 86.4 7.9 82 19-101 133-222 (382)
83 KOG4660 Protein Mei2, essentia 99.0 6.2E-10 1.3E-14 93.9 4.4 71 18-93 73-143 (549)
84 KOG0106 Alternative splicing f 99.0 1.7E-09 3.6E-14 82.7 6.3 70 17-94 96-165 (216)
85 KOG0151 Predicted splicing reg 98.9 2.2E-09 4.7E-14 92.9 6.7 84 17-100 171-257 (877)
86 KOG0226 RNA-binding proteins [ 98.9 1.3E-09 2.8E-14 84.0 4.4 81 19-99 189-269 (290)
87 KOG0120 Splicing factor U2AF, 98.8 2.7E-09 5.9E-14 90.5 4.0 85 17-101 286-370 (500)
88 KOG1995 Conserved Zn-finger pr 98.8 3.4E-09 7.4E-14 85.4 4.3 85 17-101 63-155 (351)
89 KOG1190 Polypyrimidine tract-b 98.8 4.6E-08 9.9E-13 80.1 9.4 79 20-103 297-376 (492)
90 KOG4211 Splicing factor hnRNP- 98.7 9.5E-08 2.1E-12 79.9 8.3 75 21-99 11-85 (510)
91 KOG4206 Spliceosomal protein s 98.5 4.4E-07 9.6E-12 69.1 8.2 77 17-98 143-220 (221)
92 PF11608 Limkain-b1: Limkain b 98.5 3.7E-07 7.9E-12 59.1 6.5 70 21-100 3-77 (90)
93 KOG1457 RNA binding protein (c 98.5 1.2E-07 2.7E-12 72.0 3.9 64 21-88 211-274 (284)
94 KOG0105 Alternative splicing f 98.4 4.3E-06 9.2E-11 62.1 10.6 69 21-96 116-186 (241)
95 PF08777 RRM_3: RNA binding mo 98.4 9.2E-07 2E-11 60.7 6.6 70 22-97 3-77 (105)
96 KOG0147 Transcriptional coacti 98.4 1.3E-07 2.8E-12 80.0 2.1 79 21-100 180-258 (549)
97 KOG4849 mRNA cleavage factor I 98.4 4.1E-07 8.9E-12 73.3 4.5 74 22-95 82-157 (498)
98 KOG2314 Translation initiation 98.3 2.2E-06 4.8E-11 73.0 8.0 75 21-96 59-140 (698)
99 KOG4307 RNA binding protein RB 98.3 2.5E-06 5.5E-11 74.3 8.1 75 22-96 869-943 (944)
100 COG5175 MOT2 Transcriptional r 98.3 1.9E-06 4.2E-11 69.3 6.7 79 22-100 116-203 (480)
101 KOG4211 Splicing factor hnRNP- 98.3 2.2E-06 4.7E-11 72.0 6.6 76 21-98 104-180 (510)
102 KOG4676 Splicing factor, argin 98.3 5.5E-08 1.2E-12 79.2 -3.0 67 22-93 153-219 (479)
103 KOG4210 Nuclear localization s 98.3 1.4E-06 3.1E-11 70.0 5.0 80 21-101 185-265 (285)
104 KOG1456 Heterogeneous nuclear 98.2 9.1E-06 2E-10 66.3 8.6 79 18-101 285-364 (494)
105 PF14605 Nup35_RRM_2: Nup53/35 98.0 1.8E-05 3.9E-10 47.4 5.2 51 22-79 3-53 (53)
106 KOG0120 Splicing factor U2AF, 98.0 2.5E-05 5.5E-10 66.7 7.8 64 36-99 425-491 (500)
107 KOG3152 TBP-binding protein, a 98.0 4.2E-06 9E-11 64.9 2.8 73 19-91 73-157 (278)
108 KOG1548 Transcription elongati 98.0 2.8E-05 6.1E-10 62.8 7.3 76 20-99 265-351 (382)
109 KOG1190 Polypyrimidine tract-b 98.0 2.9E-05 6.4E-10 64.0 7.1 78 18-99 412-490 (492)
110 KOG0129 Predicted RNA-binding 97.9 4.1E-05 9E-10 64.8 7.9 66 16-81 366-432 (520)
111 KOG2202 U2 snRNP splicing fact 97.9 4.2E-06 9.1E-11 65.0 1.6 66 35-101 83-149 (260)
112 KOG1855 Predicted RNA-binding 97.9 1.5E-05 3.2E-10 66.0 4.6 86 8-94 220-318 (484)
113 PF05172 Nup35_RRM: Nup53/35/4 97.9 7.7E-05 1.7E-09 50.6 7.3 76 21-98 7-90 (100)
114 KOG1365 RNA-binding protein Fu 97.8 2.4E-05 5.2E-10 64.1 4.6 78 19-97 279-359 (508)
115 KOG1456 Heterogeneous nuclear 97.8 0.00011 2.4E-09 60.1 7.8 71 26-101 128-200 (494)
116 KOG2416 Acinus (induces apopto 97.7 2.7E-05 5.9E-10 66.9 3.5 73 20-98 444-520 (718)
117 KOG0112 Large RNA-binding prot 97.7 4.8E-05 1E-09 68.2 4.9 83 16-104 451-535 (975)
118 KOG1996 mRNA splicing factor [ 97.7 0.00011 2.3E-09 58.4 6.2 66 34-99 300-366 (378)
119 KOG2193 IGF-II mRNA-binding pr 97.7 3.3E-05 7.3E-10 64.0 3.4 75 21-102 2-78 (584)
120 KOG0129 Predicted RNA-binding 97.7 0.00024 5.2E-09 60.3 8.4 61 21-82 260-326 (520)
121 PF08952 DUF1866: Domain of un 97.6 0.00027 5.8E-09 50.9 6.4 57 36-101 52-108 (146)
122 KOG4676 Splicing factor, argin 97.6 0.00014 3E-09 59.8 5.4 73 22-95 9-84 (479)
123 KOG0128 RNA-binding protein SA 97.4 6.8E-05 1.5E-09 66.9 1.8 79 21-100 737-815 (881)
124 KOG1365 RNA-binding protein Fu 97.2 0.0012 2.6E-08 54.4 7.0 69 23-93 164-236 (508)
125 KOG2068 MOT2 transcription fac 97.2 0.00016 3.5E-09 58.4 1.5 78 23-100 80-163 (327)
126 KOG0128 RNA-binding protein SA 97.1 2.3E-05 5.1E-10 69.7 -4.8 68 21-88 668-735 (881)
127 KOG4307 RNA binding protein RB 97.1 0.00034 7.3E-09 61.5 2.3 78 19-97 433-511 (944)
128 PF08675 RNA_bind: RNA binding 97.0 0.0041 8.9E-08 40.4 6.7 54 23-84 11-64 (87)
129 PF03880 DbpA: DbpA RNA bindin 97.0 0.0045 9.7E-08 39.6 7.0 67 22-97 2-74 (74)
130 PF03467 Smg4_UPF3: Smg-4/UPF3 97.0 0.0021 4.7E-08 48.2 5.7 82 19-100 6-98 (176)
131 KOG4660 Protein Mei2, essentia 97.0 0.0014 3E-08 56.2 5.1 80 21-100 389-473 (549)
132 PF10309 DUF2414: Protein of u 96.9 0.0056 1.2E-07 37.7 6.2 54 21-82 6-62 (62)
133 KOG2135 Proteins containing th 96.7 0.00093 2E-08 56.3 2.1 72 21-99 373-445 (526)
134 KOG0115 RNA-binding protein p5 96.7 0.0031 6.7E-08 49.3 4.7 75 21-96 32-110 (275)
135 PF15023 DUF4523: Protein of u 96.6 0.012 2.5E-07 42.3 6.9 73 17-97 83-159 (166)
136 KOG4285 Mitotic phosphoprotein 96.6 0.0086 1.9E-07 48.0 6.7 69 23-99 200-269 (350)
137 PF04847 Calcipressin: Calcipr 96.6 0.0068 1.5E-07 45.8 5.8 63 33-101 8-72 (184)
138 KOG4207 Predicted splicing fac 96.5 0.068 1.5E-06 40.8 10.9 64 25-88 21-86 (256)
139 KOG0112 Large RNA-binding prot 96.5 0.00053 1.1E-08 61.8 -0.7 78 19-97 371-448 (975)
140 PF11767 SET_assoc: Histone ly 96.5 0.016 3.5E-07 36.1 6.1 54 32-94 12-65 (66)
141 KOG2253 U1 snRNP complex, subu 96.4 0.0021 4.6E-08 56.2 2.3 79 9-96 29-107 (668)
142 KOG2318 Uncharacterized conser 96.1 0.036 7.9E-07 48.1 8.2 81 17-97 171-305 (650)
143 KOG2591 c-Mpl binding protein, 96.1 0.013 2.9E-07 50.5 5.4 67 20-93 175-245 (684)
144 PF07576 BRAP2: BRCA1-associat 95.8 0.13 2.8E-06 35.6 8.7 65 23-89 16-81 (110)
145 KOG4574 RNA-binding protein (c 95.4 0.01 2.2E-07 53.6 2.2 73 24-102 302-376 (1007)
146 KOG2193 IGF-II mRNA-binding pr 94.0 0.0016 3.4E-08 54.4 -5.7 78 19-99 79-156 (584)
147 KOG4210 Nuclear localization s 93.8 0.034 7.4E-07 45.0 1.6 79 19-97 87-165 (285)
148 KOG4019 Calcineurin-mediated s 93.4 0.11 2.5E-06 38.7 3.7 75 21-101 11-91 (193)
149 PRK11634 ATP-dependent RNA hel 93.4 3.4 7.4E-05 37.3 13.7 71 20-99 486-562 (629)
150 smart00596 PRE_C2HC PRE_C2HC d 92.8 0.13 2.9E-06 32.2 2.8 61 35-98 2-63 (69)
151 KOG0804 Cytoplasmic Zn-finger 92.8 0.36 7.9E-06 41.0 6.2 67 20-89 74-142 (493)
152 PF07530 PRE_C2HC: Associated 91.4 0.4 8.6E-06 30.1 3.8 61 35-98 2-63 (68)
153 KOG4365 Uncharacterized conser 84.7 0.16 3.4E-06 43.0 -1.5 78 21-99 4-81 (572)
154 KOG0107 Alternative splicing f 84.7 7.4 0.00016 29.2 7.3 10 150-159 139-148 (195)
155 KOG4454 RNA binding protein (R 84.0 0.23 4.9E-06 38.3 -0.8 69 21-90 81-153 (267)
156 KOG4483 Uncharacterized conser 83.2 2.2 4.8E-05 35.9 4.5 53 22-81 393-446 (528)
157 KOG2891 Surface glycoprotein [ 82.7 0.53 1.2E-05 37.7 0.7 66 21-86 150-246 (445)
158 PF03468 XS: XS domain; Inter 82.5 2.1 4.6E-05 29.8 3.6 55 22-79 10-74 (116)
159 COG0724 RNA-binding proteins ( 82.1 1.9 4E-05 33.2 3.7 64 17-80 222-285 (306)
160 COG5638 Uncharacterized conser 81.1 4.7 0.0001 34.2 5.7 79 18-96 144-294 (622)
161 KOG4410 5-formyltetrahydrofola 81.0 3.4 7.4E-05 33.3 4.7 45 22-72 332-377 (396)
162 PRK14548 50S ribosomal protein 79.1 7.1 0.00015 25.5 5.0 58 22-82 22-81 (84)
163 KOG2888 Putative RNA binding p 77.6 1 2.2E-05 36.9 0.8 12 33-44 170-181 (453)
164 KOG1295 Nonsense-mediated deca 76.1 4.3 9.3E-05 33.9 4.1 69 20-88 7-78 (376)
165 KOG2295 C2H2 Zn-finger protein 75.8 0.38 8.2E-06 41.9 -2.2 73 18-90 229-301 (648)
166 TIGR03636 L23_arch archaeal ri 71.3 14 0.0003 23.8 4.7 58 22-82 15-74 (77)
167 PF15513 DUF4651: Domain of un 70.9 11 0.00025 23.0 4.0 19 35-53 9-27 (62)
168 KOG1847 mRNA splicing factor [ 69.5 3.4 7.3E-05 37.0 2.1 10 151-160 748-757 (878)
169 PRK11901 hypothetical protein; 67.9 10 0.00022 31.2 4.4 60 24-85 246-307 (327)
170 PF02714 DUF221: Domain of unk 67.2 8.1 0.00018 31.5 3.9 33 65-99 1-33 (325)
171 PF10567 Nab6_mRNP_bdg: RNA-re 67.1 16 0.00034 29.7 5.2 78 21-98 16-106 (309)
172 PF09707 Cas_Cas2CT1978: CRISP 62.6 15 0.00033 24.1 3.7 48 20-70 25-72 (86)
173 PRK10629 EnvZ/OmpR regulon mod 59.0 61 0.0013 22.9 7.7 70 21-98 36-109 (127)
174 PF03439 Spt5-NGN: Early trans 58.0 21 0.00045 23.1 3.8 35 46-85 33-67 (84)
175 PF08544 GHMP_kinases_C: GHMP 57.7 45 0.00097 20.9 5.4 44 35-83 37-80 (85)
176 KOG4008 rRNA processing protei 56.6 14 0.00031 28.9 3.2 33 18-50 38-70 (261)
177 KOG0156 Cytochrome P450 CYP2 s 56.5 22 0.00048 31.1 4.8 59 24-92 36-97 (489)
178 PF02426 MIase: Muconolactone 56.4 56 0.0012 21.7 7.2 57 27-87 10-76 (91)
179 PTZ00191 60S ribosomal protein 56.4 28 0.0006 25.3 4.5 56 23-81 84-141 (145)
180 PRK08559 nusG transcription an 54.1 45 0.00097 24.2 5.4 35 47-86 36-70 (153)
181 COG0030 KsgA Dimethyladenosine 50.1 18 0.0004 28.9 3.0 33 22-54 97-129 (259)
182 PF00403 HMA: Heavy-metal-asso 49.7 52 0.0011 19.3 5.9 53 23-81 2-58 (62)
183 PF11823 DUF3343: Protein of u 49.0 27 0.00059 21.8 3.2 25 63-87 2-26 (73)
184 PF08734 GYD: GYD domain; Int 48.9 75 0.0016 20.9 6.0 46 34-83 22-68 (91)
185 PF11411 DNA_ligase_IV: DNA li 48.9 12 0.00027 20.2 1.3 18 29-46 18-35 (36)
186 PRK11558 putative ssRNA endonu 48.8 28 0.00061 23.4 3.3 48 21-71 28-75 (97)
187 KOG3424 40S ribosomal protein 47.8 57 0.0012 22.8 4.7 45 31-76 34-83 (132)
188 COG2608 CopZ Copper chaperone 47.6 67 0.0014 19.9 5.2 55 21-81 4-62 (71)
189 PF14581 SseB_C: SseB protein 46.6 47 0.001 22.3 4.3 78 21-98 6-89 (108)
190 PF09902 DUF2129: Uncharacteri 46.0 56 0.0012 20.6 4.2 37 41-86 17-53 (71)
191 KOG3702 Nuclear polyadenylated 45.1 12 0.00025 33.7 1.3 72 22-94 513-584 (681)
192 COG5193 LHP1 La protein, small 44.6 13 0.00028 31.5 1.4 59 22-80 176-244 (438)
193 PF14893 PNMA: PNMA 44.2 22 0.00048 29.5 2.7 76 18-98 16-95 (331)
194 COG0225 MsrA Peptide methionin 43.7 1.3E+02 0.0028 22.6 6.4 76 22-100 59-138 (174)
195 COG0150 PurM Phosphoribosylami 43.3 9.4 0.0002 31.6 0.4 48 34-85 275-322 (345)
196 PF08156 NOP5NT: NOP5NT (NUC12 43.3 8.3 0.00018 24.0 0.1 39 35-83 27-65 (67)
197 PF12829 Mhr1: Transcriptional 43.0 94 0.002 20.6 5.1 52 28-83 20-72 (91)
198 PF05189 RTC_insert: RNA 3'-te 42.4 85 0.0019 20.9 5.0 47 23-69 13-64 (103)
199 smart00195 DSPc Dual specifici 42.0 1.1E+02 0.0025 21.0 6.6 71 22-96 7-85 (138)
200 KOG4213 RNA-binding protein La 41.6 67 0.0015 24.3 4.6 50 32-81 118-169 (205)
201 KOG4840 Predicted hydrolases o 41.2 43 0.00093 26.5 3.7 72 20-96 37-114 (299)
202 COG4009 Uncharacterized protei 41.0 25 0.00054 22.7 2.0 32 15-46 43-74 (88)
203 PF09869 DUF2096: Uncharacteri 40.8 1.3E+02 0.0028 22.4 5.9 47 27-83 118-164 (169)
204 COG4010 Uncharacterized protei 40.1 82 0.0018 22.9 4.7 47 27-83 118-164 (170)
205 PRK10905 cell division protein 39.4 49 0.0011 27.3 3.9 59 24-84 248-308 (328)
206 PF07292 NID: Nmi/IFP 35 domai 39.3 22 0.00048 23.5 1.6 23 19-41 51-73 (88)
207 CHL00123 rps6 ribosomal protei 39.2 1.2E+02 0.0025 20.2 6.1 59 21-81 9-81 (97)
208 PRK02886 hypothetical protein; 39.1 78 0.0017 20.8 4.1 37 41-86 21-57 (87)
209 COG5236 Uncharacterized conser 38.0 82 0.0018 26.4 5.0 51 34-92 264-314 (493)
210 COG5584 Predicted small secret 37.8 58 0.0013 21.8 3.4 32 27-58 29-60 (103)
211 PRK02302 hypothetical protein; 37.2 86 0.0019 20.7 4.1 37 41-86 23-59 (89)
212 TIGR01873 cas_CT1978 CRISPR-as 36.7 56 0.0012 21.5 3.2 49 20-71 25-74 (87)
213 PF15063 TC1: Thyroid cancer p 36.6 19 0.0004 23.0 0.9 27 22-48 27-53 (79)
214 PF01037 AsnC_trans_reg: AsnC 36.4 98 0.0021 18.6 6.3 44 34-81 12-55 (74)
215 COG5507 Uncharacterized conser 36.1 54 0.0012 22.1 3.1 22 61-82 65-86 (117)
216 PRK11230 glycolate oxidase sub 35.7 1.8E+02 0.0038 25.6 7.2 49 34-83 203-255 (499)
217 PRK01178 rps24e 30S ribosomal 35.6 1.3E+02 0.0029 20.2 5.0 46 31-77 30-80 (99)
218 COG3254 Uncharacterized conser 35.0 1.1E+02 0.0024 20.8 4.5 42 35-79 27-68 (105)
219 KOG4246 Predicted DNA-binding 34.4 25 0.00054 32.8 1.7 22 165-186 331-352 (1194)
220 PF13046 DUF3906: Protein of u 34.2 44 0.00095 20.6 2.2 33 33-67 31-63 (64)
221 PF14111 DUF4283: Domain of un 34.2 12 0.00027 26.6 -0.2 69 21-98 16-90 (153)
222 PTZ00071 40S ribosomal protein 34.0 1.4E+02 0.003 21.4 5.0 45 31-76 35-85 (132)
223 PF00398 RrnaAD: Ribosomal RNA 32.7 45 0.00097 26.4 2.8 28 20-47 97-126 (262)
224 KOG2146 Splicing coactivator S 32.3 2.8E+02 0.0061 22.7 7.3 7 65-71 89-95 (354)
225 cd01612 APG12_C Ubiquitin-like 32.2 81 0.0018 20.6 3.5 21 23-44 49-70 (87)
226 COG0045 SucC Succinyl-CoA synt 32.0 2.6E+02 0.0056 23.8 7.1 63 32-97 26-95 (387)
227 PRK00274 ksgA 16S ribosomal RN 31.5 47 0.001 26.5 2.7 22 22-43 107-128 (272)
228 PTZ00338 dimethyladenosine tra 31.3 45 0.00097 27.1 2.6 28 23-50 104-131 (294)
229 PRK05772 translation initiatio 30.9 1.6E+02 0.0036 24.8 5.9 50 32-83 3-57 (363)
230 TIGR00405 L26e_arch ribosomal 30.7 1.6E+02 0.0034 20.9 5.2 27 60-86 36-62 (145)
231 PF06130 PduL: Propanediol uti 30.4 1.4E+02 0.0031 18.7 4.3 30 23-52 4-33 (71)
232 KOG3671 Actin regulatory prote 30.4 1.1E+02 0.0025 26.9 4.9 49 31-85 89-138 (569)
233 COG5470 Uncharacterized conser 30.0 1.2E+02 0.0026 20.4 3.9 18 62-79 53-70 (96)
234 TIGR00755 ksgA dimethyladenosi 29.1 73 0.0016 25.0 3.4 24 22-45 96-119 (253)
235 COG2242 CobL Precorrin-6B meth 28.6 2.6E+02 0.0057 21.2 6.4 35 65-100 131-165 (187)
236 smart00650 rADc Ribosomal RNA 28.4 76 0.0016 23.0 3.2 22 22-43 79-100 (169)
237 KOG1999 RNA polymerase II tran 28.3 2.5E+02 0.0054 27.0 6.9 43 46-94 199-241 (1024)
238 KOG2187 tRNA uracil-5-methyltr 28.2 66 0.0014 28.4 3.2 39 62-100 63-101 (534)
239 cd00027 BRCT Breast Cancer Sup 27.4 1.3E+02 0.0028 17.2 4.8 25 22-46 3-27 (72)
240 PF11491 DUF3213: Protein of u 27.1 1.5E+02 0.0033 19.3 3.9 67 23-96 3-73 (88)
241 PF08442 ATP-grasp_2: ATP-gras 27.0 1.2E+02 0.0025 23.3 4.1 54 32-88 25-81 (202)
242 PF04127 DFP: DNA / pantothena 26.8 1.8E+02 0.0038 21.9 5.0 58 23-82 21-79 (185)
243 TIGR02045 P_fruct_ADP ADP-spec 26.5 1.4E+02 0.003 26.0 4.8 72 18-99 177-260 (446)
244 PF07237 DUF1428: Protein of u 26.5 2.1E+02 0.0045 19.5 4.7 47 36-82 24-85 (103)
245 TIGR03221 muco_delta muconolac 26.3 2E+02 0.0044 19.1 7.3 57 27-87 9-75 (90)
246 PF01071 GARS_A: Phosphoribosy 26.1 1.1E+02 0.0025 23.3 3.8 47 33-83 25-71 (194)
247 COG0018 ArgS Arginyl-tRNA synt 26.1 4.7E+02 0.01 23.7 8.2 64 34-104 60-131 (577)
248 cd04908 ACT_Bt0572_1 N-termina 26.1 1.5E+02 0.0033 17.6 8.1 47 34-85 15-62 (66)
249 smart00666 PB1 PB1 domain. Pho 25.8 1.7E+02 0.0037 18.1 5.6 56 23-83 12-69 (81)
250 PF09960 DUF2194: Uncharacteri 25.3 52 0.0011 29.6 2.1 52 31-82 286-337 (585)
251 PF11004 Kdo_hydroxy: 3-deoxy- 25.1 1E+02 0.0023 24.9 3.5 50 13-63 14-64 (281)
252 PF14657 Integrase_AP2: AP2-li 24.7 1.4E+02 0.003 16.6 3.2 30 54-83 9-38 (46)
253 COG1207 GlmU N-acetylglucosami 24.7 1.8E+02 0.0039 25.3 5.0 65 22-86 99-175 (460)
254 PF07876 Dabb: Stress responsi 24.6 2E+02 0.0043 18.4 5.9 55 23-77 4-69 (97)
255 TIGR01743 purR_Bsub pur operon 24.0 2.4E+02 0.0052 22.7 5.5 41 36-83 44-86 (268)
256 PF03389 MobA_MobL: MobA/MobL 23.9 2E+02 0.0043 22.2 4.9 49 20-71 67-123 (216)
257 PF10905 DUF2695: Protein of u 23.7 78 0.0017 18.7 2.0 23 32-54 30-52 (53)
258 PRK09213 pur operon repressor; 23.5 2.3E+02 0.005 22.8 5.3 41 36-83 46-88 (271)
259 PRK12450 foldase protein PrsA; 23.4 1.5E+02 0.0033 24.1 4.4 39 31-83 132-170 (309)
260 PRK14054 methionine sulfoxide 23.3 3.2E+02 0.007 20.4 6.1 75 21-98 55-133 (172)
261 PRK15464 cold shock-like prote 23.2 59 0.0013 20.3 1.5 38 62-100 16-59 (70)
262 PF00313 CSD: 'Cold-shock' DNA 23.0 68 0.0015 19.3 1.8 10 62-71 12-21 (66)
263 PF05036 SPOR: Sporulation rel 22.7 13 0.00027 22.8 -1.7 18 66-83 48-65 (76)
264 PF12623 Hen1_L: RNA repair, l 22.6 3.3E+02 0.0072 21.5 5.7 60 22-82 120-183 (245)
265 COG5353 Uncharacterized protei 22.3 3.2E+02 0.007 20.0 5.5 52 21-72 88-152 (161)
266 PF11061 DUF2862: Protein of u 22.2 2E+02 0.0044 17.7 3.9 39 26-71 10-51 (64)
267 TIGR00387 glcD glycolate oxida 22.1 1.9E+02 0.0041 24.6 4.9 49 34-83 146-198 (413)
268 PF08206 OB_RNB: Ribonuclease 21.7 66 0.0014 19.0 1.5 37 61-98 7-44 (58)
269 PF14268 YoaP: YoaP-like 21.5 67 0.0015 18.2 1.4 34 64-97 2-37 (44)
270 PRK09507 cspE cold shock prote 21.3 70 0.0015 19.8 1.6 10 62-71 15-24 (69)
271 PHA01632 hypothetical protein 21.2 81 0.0018 18.8 1.7 21 23-43 19-39 (64)
272 TIGR02381 cspD cold shock doma 21.0 77 0.0017 19.5 1.8 38 62-100 13-56 (68)
273 cd07996 WGR_MMR_like WGR domai 21.0 1.7E+02 0.0038 17.9 3.4 23 60-82 40-62 (74)
274 PRK15463 cold shock-like prote 21.0 71 0.0015 19.9 1.6 39 62-100 16-59 (70)
275 PRK09937 stationary phase/star 21.0 79 0.0017 20.0 1.8 9 62-70 13-21 (74)
276 PF11181 YflT: Heat induced st 21.0 1.2E+02 0.0025 20.3 2.8 29 67-95 4-32 (103)
277 PRK14998 cold shock-like prote 20.9 82 0.0018 19.8 1.9 10 62-71 13-22 (73)
278 KOG0113 U1 small nuclear ribon 20.8 4.2E+02 0.0091 21.9 6.1 13 33-45 152-164 (335)
279 KOG1232 Proteins containing th 20.8 1.5E+02 0.0032 25.5 3.7 53 26-79 230-286 (511)
280 PRK10943 cold shock-like prote 20.7 73 0.0016 19.7 1.6 38 62-100 15-58 (69)
281 KOG1719 Dual specificity phosp 20.6 3.7E+02 0.008 20.0 5.3 27 70-96 90-116 (183)
282 PF01282 Ribosomal_S24e: Ribos 20.5 2.5E+02 0.0055 18.1 6.1 45 32-77 13-62 (84)
283 COG0481 LepA Membrane GTPase L 20.4 1.2E+02 0.0027 26.8 3.3 45 21-66 298-343 (603)
284 PRK03979 ADP-specific phosphof 20.4 3.3E+02 0.0072 23.8 6.0 74 17-99 189-274 (463)
285 cd04880 ACT_AAAH-PDT-like ACT 20.3 2.2E+02 0.0047 17.3 5.5 50 34-84 13-66 (75)
286 PHA03008 hypothetical protein; 20.2 1.4E+02 0.003 23.0 3.2 32 22-53 23-54 (234)
No 1
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.94 E-value=1.6e-25 Score=162.04 Aligned_cols=78 Identities=24% Similarity=0.452 Sum_probs=73.5
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
.++|||+||+..+++.+|+.+|..||.|..|+|..++ .|||||||++..+|++|+..|||..|+|..|.||++..
T Consensus 10 ~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G 84 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTG 84 (195)
T ss_pred CceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceEEEEeecC
Confidence 5789999999999999999999999999999998755 89999999999999999999999999999999999976
Q ss_pred CCC
Q 029462 100 NRK 102 (193)
Q Consensus 100 ~~~ 102 (193)
...
T Consensus 85 ~~r 87 (195)
T KOG0107|consen 85 RPR 87 (195)
T ss_pred Ccc
Confidence 654
No 2
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.92 E-value=3.2e-24 Score=159.14 Aligned_cols=85 Identities=45% Similarity=0.694 Sum_probs=80.5
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
++.+..|.|.||.+.|+.++|..+|++||.|-+|.|+.|+.|+.++|||||-|.+..+|++||++|+|.+|+|+.|.|++
T Consensus 10 v~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ 89 (256)
T KOG4207|consen 10 VEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQM 89 (256)
T ss_pred cccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehh
Confidence 45567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecCC
Q 029462 97 AEENR 101 (193)
Q Consensus 97 a~~~~ 101 (193)
|+...
T Consensus 90 arygr 94 (256)
T KOG4207|consen 90 ARYGR 94 (256)
T ss_pred hhcCC
Confidence 97654
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.89 E-value=4e-22 Score=144.83 Aligned_cols=86 Identities=31% Similarity=0.398 Sum_probs=80.7
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
....++|||+||++.++|++|+++|.+||.|..|.|+.+..|++++|||||+|.+.++|++||+.||+.+|+|+.|+|++
T Consensus 31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~ 110 (144)
T PLN03134 31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNP 110 (144)
T ss_pred cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence 45567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecCCC
Q 029462 97 AEENRK 102 (193)
Q Consensus 97 a~~~~~ 102 (193)
+..+..
T Consensus 111 a~~~~~ 116 (144)
T PLN03134 111 ANDRPS 116 (144)
T ss_pred CCcCCC
Confidence 976554
No 4
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.84 E-value=9.2e-20 Score=142.01 Aligned_cols=86 Identities=27% Similarity=0.414 Sum_probs=80.7
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
++.++|||+-|+++++|..|+..|++||.|+.|.|+.++.||+++|||||+|+++.++..|.+..+|..|+|+.|.|.+.
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 66788999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred ecCCCC
Q 029462 98 EENRKK 103 (193)
Q Consensus 98 ~~~~~~ 103 (193)
.....+
T Consensus 179 RgRTvk 184 (335)
T KOG0113|consen 179 RGRTVK 184 (335)
T ss_pred cccccc
Confidence 655443
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.80 E-value=4.5e-19 Score=146.49 Aligned_cols=80 Identities=28% Similarity=0.414 Sum_probs=77.2
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecCC
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEENR 101 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~~ 101 (193)
.|||+|||+++++++|.++|++||.|..|.|+.+..||.++|||||+|.+.++|.+||..|||..|+|+.|+|.|+..+.
T Consensus 271 ~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~~ 350 (352)
T TIGR01661 271 CIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNKA 350 (352)
T ss_pred EEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCCC
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999987654
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.79 E-value=7.6e-19 Score=145.13 Aligned_cols=83 Identities=29% Similarity=0.542 Sum_probs=78.5
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
+.++|||+|||..+++++|+++|.+||+|..|.|+.++.+|+++|||||+|.+.++|++||..|||..|.|+.|.|+++.
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 35679999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred cCC
Q 029462 99 ENR 101 (193)
Q Consensus 99 ~~~ 101 (193)
+..
T Consensus 82 ~~~ 84 (352)
T TIGR01661 82 PSS 84 (352)
T ss_pred ccc
Confidence 554
No 7
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.79 E-value=7.2e-19 Score=144.51 Aligned_cols=83 Identities=24% Similarity=0.395 Sum_probs=78.2
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
...++|||+|||+++++++|+++|.+||+|+.|.|+.+..|++++|||||+|.++++|++||+.||+..|.+++|+|.++
T Consensus 105 ~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a 184 (346)
T TIGR01659 105 NSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYA 184 (346)
T ss_pred CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecc
Confidence 34568999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred ecC
Q 029462 98 EEN 100 (193)
Q Consensus 98 ~~~ 100 (193)
.+.
T Consensus 185 ~p~ 187 (346)
T TIGR01659 185 RPG 187 (346)
T ss_pred ccc
Confidence 653
No 8
>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=99.78 E-value=2e-18 Score=109.87 Aligned_cols=70 Identities=29% Similarity=0.502 Sum_probs=66.5
Q ss_pred EEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEE
Q 029462 23 LVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
|||+|||.++++++|.++|.+||.|..+.+..+ .++...++|||+|.+.++|+.|+..|||..|+|+.|+
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 799999999999999999999999999999877 5788899999999999999999999999999999885
No 9
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.78 E-value=1.1e-18 Score=132.69 Aligned_cols=84 Identities=29% Similarity=0.406 Sum_probs=80.0
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
-.+.+.|-|.||+.+++|++|+++|.+||.|..|.|..|+.||.++|||||.|.+.++|++||..|||.-++...|.|+|
T Consensus 186 R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEw 265 (270)
T KOG0122|consen 186 RDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEW 265 (270)
T ss_pred CCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEe
Confidence 34567799999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecC
Q 029462 97 AEEN 100 (193)
Q Consensus 97 a~~~ 100 (193)
+++.
T Consensus 266 skP~ 269 (270)
T KOG0122|consen 266 SKPS 269 (270)
T ss_pred cCCC
Confidence 9875
No 10
>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=99.76 E-value=1.3e-17 Score=137.02 Aligned_cols=83 Identities=29% Similarity=0.434 Sum_probs=76.7
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecC--cEEEEEEe
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG--RELTVVFA 97 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~l~v~~a 97 (193)
.++|||+|||..+++++|+++|++||+|+.|.|+.++.+++++|||||+|++.++|++||+.||+..|.+ +.|.|.+|
T Consensus 193 ~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a 272 (346)
T TIGR01659 193 DTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLA 272 (346)
T ss_pred cceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEEC
Confidence 4579999999999999999999999999999999999999999999999999999999999999999876 68899998
Q ss_pred ecCCC
Q 029462 98 EENRK 102 (193)
Q Consensus 98 ~~~~~ 102 (193)
.....
T Consensus 273 ~~~~~ 277 (346)
T TIGR01659 273 EEHGK 277 (346)
T ss_pred Ccccc
Confidence 76543
No 11
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.76 E-value=3.4e-18 Score=119.17 Aligned_cols=81 Identities=25% Similarity=0.334 Sum_probs=77.7
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
..|||.++...+|+++|.+.|..||+|++|.|..|..||..+|||+|+|++.++|++||..|||..|.|+.|.|.|+..+
T Consensus 73 wIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~ 152 (170)
T KOG0130|consen 73 WIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVK 152 (170)
T ss_pred EEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEec
Confidence 56999999999999999999999999999999999999999999999999999999999999999999999999998765
Q ss_pred C
Q 029462 101 R 101 (193)
Q Consensus 101 ~ 101 (193)
.
T Consensus 153 g 153 (170)
T KOG0130|consen 153 G 153 (170)
T ss_pred C
Confidence 4
No 12
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.72 E-value=2.5e-17 Score=134.51 Aligned_cols=96 Identities=19% Similarity=0.310 Sum_probs=87.4
Q ss_pred CCCCchhhccccccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCC
Q 029462 5 IAAPALEVTMAVVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG 84 (193)
Q Consensus 5 ~~~p~~~~~~~~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g 84 (193)
..+|+|.++.+....-+-|||+.||.++.|++|..+|++.|+|-.+.|++|+.+|.++|||||+|.+.++|+.||+.||+
T Consensus 68 ~ggPpP~weg~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn 147 (506)
T KOG0117|consen 68 YGGPPPGWEGPPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNN 147 (506)
T ss_pred cCCCCCcccCCCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhC
Confidence 35677777777777888899999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceec-CcEEEEEEeecC
Q 029462 85 YLLL-GRELTVVFAEEN 100 (193)
Q Consensus 85 ~~i~-g~~l~v~~a~~~ 100 (193)
.+|. |+.|.|+.+..+
T Consensus 148 ~Eir~GK~igvc~Svan 164 (506)
T KOG0117|consen 148 YEIRPGKLLGVCVSVAN 164 (506)
T ss_pred ccccCCCEeEEEEeeec
Confidence 9985 999999876543
No 13
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.72 E-value=1.4e-17 Score=115.06 Aligned_cols=83 Identities=23% Similarity=0.355 Sum_probs=78.1
Q ss_pred cccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 16 VVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 16 ~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
.....++|||+||++.++|++|.++|.+.|+|..|.|-.|+.+..+.|||||+|...++|+.||..|+|..++.+.|.|.
T Consensus 32 a~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D 111 (153)
T KOG0121|consen 32 ALRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRID 111 (153)
T ss_pred HHhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeee
Confidence 35566789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Eee
Q 029462 96 FAE 98 (193)
Q Consensus 96 ~a~ 98 (193)
|..
T Consensus 112 ~D~ 114 (153)
T KOG0121|consen 112 WDA 114 (153)
T ss_pred ccc
Confidence 864
No 14
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.72 E-value=9.8e-18 Score=127.01 Aligned_cols=80 Identities=25% Similarity=0.374 Sum_probs=73.5
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
..++|||+||+|++..++|.++|++||+|++..|+.|+.||+++|||||+|.+.+.|..|++. -+-+|+|++..+.+|-
T Consensus 11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNLAS 89 (247)
T ss_pred eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccchhh
Confidence 446899999999999999999999999999999999999999999999999999999999865 4578999999998875
Q ss_pred c
Q 029462 99 E 99 (193)
Q Consensus 99 ~ 99 (193)
-
T Consensus 90 l 90 (247)
T KOG0149|consen 90 L 90 (247)
T ss_pred h
Confidence 4
No 15
>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=99.71 E-value=9.9e-17 Score=102.40 Aligned_cols=70 Identities=30% Similarity=0.461 Sum_probs=64.6
Q ss_pred EEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEE
Q 029462 23 LVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
|||+|||+.+++++|.++|..||.|..+.+..++. +..+++|||+|.+.++|+.|+..+++..|+|+.|+
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 79999999999999999999999999999998876 88999999999999999999999999999999874
No 16
>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=99.71 E-value=8.5e-17 Score=139.47 Aligned_cols=83 Identities=20% Similarity=0.283 Sum_probs=78.6
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
...+|||+||+.++++++|+++|+.||.|..|.|+.++.+|..+|||||+|.+.++|++||..||+..|+|+.|.|.++.
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 34689999999999999999999999999999999999899999999999999999999999999999999999999987
Q ss_pred cCC
Q 029462 99 ENR 101 (193)
Q Consensus 99 ~~~ 101 (193)
..+
T Consensus 283 ~pP 285 (612)
T TIGR01645 283 TPP 285 (612)
T ss_pred CCc
Confidence 654
No 17
>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=99.70 E-value=7.2e-17 Score=139.56 Aligned_cols=91 Identities=20% Similarity=0.312 Sum_probs=78.6
Q ss_pred CCCchhhccccccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCc
Q 029462 6 AAPALEVTMAVVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 85 (193)
Q Consensus 6 ~~p~~~~~~~~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 85 (193)
+.|++.++.......+.|||+|||.+++|++|.++|++||.|..|.|+.| .+|+++|||||+|.+.++|++||+.||+.
T Consensus 44 g~Pp~~~~~~~p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~ 122 (578)
T TIGR01648 44 GGPPPGWSGVQPGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNY 122 (578)
T ss_pred CCCCCcccCCCCCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCC
Confidence 45666655555556688999999999999999999999999999999999 79999999999999999999999999999
Q ss_pred eec-CcEEEEEEe
Q 029462 86 LLL-GRELTVVFA 97 (193)
Q Consensus 86 ~i~-g~~l~v~~a 97 (193)
+|. |+.|.|.++
T Consensus 123 ~i~~Gr~l~V~~S 135 (578)
T TIGR01648 123 EIRPGRLLGVCIS 135 (578)
T ss_pred eecCCcccccccc
Confidence 885 666666543
No 18
>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=99.70 E-value=8e-17 Score=139.61 Aligned_cols=82 Identities=30% Similarity=0.475 Sum_probs=77.5
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
....++|||+||++.+++++|+++|.+||.|..|.|+.++.||+++|||||+|.+.++|+.||..|||..|+|+.|+|.+
T Consensus 104 ~~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r 183 (612)
T TIGR01645 104 LAIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 183 (612)
T ss_pred hcCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence 45667899999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred ee
Q 029462 97 AE 98 (193)
Q Consensus 97 a~ 98 (193)
..
T Consensus 184 p~ 185 (612)
T TIGR01645 184 PS 185 (612)
T ss_pred cc
Confidence 43
No 19
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.69 E-value=1.6e-16 Score=137.33 Aligned_cols=84 Identities=23% Similarity=0.288 Sum_probs=78.5
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
....+|||+|||..+++++|+++|+.||.|..|.|+.+..+|.++|||||+|.+.++|+.||..|||..|+|..|.|++|
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 34568999999999999999999999999999999999889999999999999999999999999999999999999998
Q ss_pred ecCC
Q 029462 98 EENR 101 (193)
Q Consensus 98 ~~~~ 101 (193)
....
T Consensus 373 ~~~~ 376 (509)
T TIGR01642 373 CVGA 376 (509)
T ss_pred ccCC
Confidence 6543
No 20
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.69 E-value=1.7e-16 Score=123.72 Aligned_cols=77 Identities=16% Similarity=0.266 Sum_probs=70.4
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
..+|||+||++.+++++|+++|+.||.|..|.|+.+.. .+|||||+|.+.++|+.|| .|||.+|.|+.|.|.++..
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 46799999999999999999999999999999987753 4799999999999999999 5999999999999999864
Q ss_pred C
Q 029462 100 N 100 (193)
Q Consensus 100 ~ 100 (193)
-
T Consensus 80 ~ 80 (260)
T PLN03120 80 Y 80 (260)
T ss_pred C
Confidence 3
No 21
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.69 E-value=3.9e-18 Score=124.53 Aligned_cols=83 Identities=27% Similarity=0.423 Sum_probs=77.5
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
.+..-|||+|||+++||.||..+|++||+|++|.|+.|+.||+++||||+.|++.....-|+..|||..|.|+.|+|.+.
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 34456999999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred ecC
Q 029462 98 EEN 100 (193)
Q Consensus 98 ~~~ 100 (193)
...
T Consensus 113 ~~Y 115 (219)
T KOG0126|consen 113 SNY 115 (219)
T ss_pred ccc
Confidence 443
No 22
>PLN03213 repressor of silencing 3; Provisional
Probab=99.68 E-value=1.6e-16 Score=131.54 Aligned_cols=78 Identities=18% Similarity=0.205 Sum_probs=71.6
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCH--HHHHHHHHHhCCceecCcEEEEEE
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDP--ADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~--~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
...+||||||++.+++++|..+|..||.|..|.|+ +.+| +|||||+|.+. .++++||..|||..|.|+.|+|+.
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNK 84 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEK 84 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEee
Confidence 44679999999999999999999999999999999 4567 99999999987 789999999999999999999999
Q ss_pred eecC
Q 029462 97 AEEN 100 (193)
Q Consensus 97 a~~~ 100 (193)
|++.
T Consensus 85 AKP~ 88 (759)
T PLN03213 85 AKEH 88 (759)
T ss_pred ccHH
Confidence 8754
No 23
>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=99.67 E-value=2.7e-16 Score=134.30 Aligned_cols=80 Identities=35% Similarity=0.619 Sum_probs=76.7
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
..+|||+|||..+++++|+++|++||.|..|.|+.+..+|.++|||||+|.+.++|+.||..|||..|.|+.|.|.|+..
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 56799999999999999999999999999999999998999999999999999999999999999999999999999863
No 24
>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=99.67 E-value=4.1e-16 Score=134.92 Aligned_cols=78 Identities=24% Similarity=0.371 Sum_probs=71.6
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccC--CceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQF--GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~--G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v 94 (193)
+...++|||+||++.+++++|+++|++| |.|+.|.++ ++||||+|++.++|++||+.||+.+|+|+.|+|
T Consensus 230 ~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V 301 (578)
T TIGR01648 230 MAKVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEV 301 (578)
T ss_pred cccccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEE
Confidence 4455779999999999999999999999 999999876 679999999999999999999999999999999
Q ss_pred EEeecCCC
Q 029462 95 VFAEENRK 102 (193)
Q Consensus 95 ~~a~~~~~ 102 (193)
.||++...
T Consensus 302 ~~Akp~~~ 309 (578)
T TIGR01648 302 TLAKPVDK 309 (578)
T ss_pred EEccCCCc
Confidence 99987653
No 25
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.67 E-value=2e-16 Score=124.98 Aligned_cols=82 Identities=30% Similarity=0.459 Sum_probs=74.2
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
.+..++|+|.|||+...+.||..+|++||.|.+|.|+.+. -.+||||||+|++.+||++|-++|||..|.|++|.|..
T Consensus 93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ 170 (376)
T KOG0125|consen 93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNN 170 (376)
T ss_pred CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEec
Confidence 3445689999999999999999999999999999998763 35699999999999999999999999999999999998
Q ss_pred eecC
Q 029462 97 AEEN 100 (193)
Q Consensus 97 a~~~ 100 (193)
|...
T Consensus 171 ATar 174 (376)
T KOG0125|consen 171 ATAR 174 (376)
T ss_pred cchh
Confidence 8643
No 26
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.67 E-value=3.2e-16 Score=114.91 Aligned_cols=79 Identities=32% Similarity=0.476 Sum_probs=72.0
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
.++|||+|||.++.+.+|+++|-+||.|..|.|...+ ...+||||+|++..+|+.||..-+|..++|..|.|+++..
T Consensus 6 ~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprg 82 (241)
T KOG0105|consen 6 SRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRG 82 (241)
T ss_pred cceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccC
Confidence 4679999999999999999999999999999987543 4478999999999999999999999999999999999876
Q ss_pred CC
Q 029462 100 NR 101 (193)
Q Consensus 100 ~~ 101 (193)
-.
T Consensus 83 gr 84 (241)
T KOG0105|consen 83 GR 84 (241)
T ss_pred CC
Confidence 54
No 27
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.67 E-value=1e-16 Score=127.79 Aligned_cols=93 Identities=25% Similarity=0.385 Sum_probs=83.8
Q ss_pred CCCCCCCCchhhccccccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHH
Q 029462 1 MAGDIAAPALEVTMAVVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKY 80 (193)
Q Consensus 1 ~~g~~~~p~~~~~~~~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~ 80 (193)
|.||++ ..+..++...|||..|.+-++.++|+-+|+.||.|..|.|+.|..||.+..||||+|++.++|++|..
T Consensus 226 mvGDlp------dAd~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyF 299 (479)
T KOG0415|consen 226 MVGDLP------DADVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYF 299 (479)
T ss_pred HhcCCc------ccccCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHh
Confidence 456654 33445666789999999999999999999999999999999999999999999999999999999999
Q ss_pred HhCCceecCcEEEEEEeec
Q 029462 81 HMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 81 ~l~g~~i~g~~l~v~~a~~ 99 (193)
+|++..|+++.|.|.|+..
T Consensus 300 KMdNvLIDDrRIHVDFSQS 318 (479)
T KOG0415|consen 300 KMDNVLIDDRRIHVDFSQS 318 (479)
T ss_pred hhcceeeccceEEeehhhh
Confidence 9999999999999999754
No 28
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.66 E-value=9.3e-17 Score=120.67 Aligned_cols=86 Identities=33% Similarity=0.459 Sum_probs=81.0
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
...|||++|..+|++..|...|-.||.|..|.++.|..+++.+|||||+|...|+|..||..||+.+|.|+.|.|.+|++
T Consensus 10 KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP 89 (298)
T KOG0111|consen 10 KRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKP 89 (298)
T ss_pred ceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCC
Confidence 35699999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCCCc
Q 029462 100 NRKKPS 105 (193)
Q Consensus 100 ~~~~~~ 105 (193)
.+.+..
T Consensus 90 ~kikeg 95 (298)
T KOG0111|consen 90 EKIKEG 95 (298)
T ss_pred ccccCC
Confidence 765543
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=99.66 E-value=5.3e-16 Score=135.73 Aligned_cols=78 Identities=24% Similarity=0.344 Sum_probs=75.1
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
.|||+|||.++||++|.++|.+||.|..|.|+.|..|++++|||||+|.+.++|++||..||+..|.|+.|.|.|+..
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 599999999999999999999999999999999999999999999999999999999999999999999999999753
No 30
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.66 E-value=2.5e-16 Score=128.78 Aligned_cols=93 Identities=25% Similarity=0.358 Sum_probs=84.8
Q ss_pred CCCCCCCchhhccccccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 029462 2 AGDIAAPALEVTMAVVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 81 (193)
Q Consensus 2 ~g~~~~p~~~~~~~~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 81 (193)
+.|++.|..+.+.+.+...+.|||.||+.+||++.|+++|.+||.|..|..+ +-||||.|.+.++|.+||+.
T Consensus 241 tVdWAep~~e~ded~ms~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~--------rDYaFVHf~eR~davkAm~~ 312 (506)
T KOG0117|consen 241 TVDWAEPEEEPDEDTMSKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKP--------RDYAFVHFAEREDAVKAMKE 312 (506)
T ss_pred eeeccCcccCCChhhhhheeeeeeeccchhhhHHHHHHHHHhccceEEeecc--------cceeEEeecchHHHHHHHHH
Confidence 4567778888888888888899999999999999999999999999999877 55999999999999999999
Q ss_pred hCCceecCcEEEEEEeecCCC
Q 029462 82 MDGYLLLGRELTVVFAEENRK 102 (193)
Q Consensus 82 l~g~~i~g~~l~v~~a~~~~~ 102 (193)
|||++|+|..|.|.+|++..+
T Consensus 313 ~ngkeldG~~iEvtLAKP~~k 333 (506)
T KOG0117|consen 313 TNGKELDGSPIEVTLAKPVDK 333 (506)
T ss_pred hcCceecCceEEEEecCChhh
Confidence 999999999999999987654
No 31
>smart00362 RRM_2 RNA recognition motif.
Probab=99.64 E-value=1.7e-15 Score=95.80 Aligned_cols=72 Identities=32% Similarity=0.523 Sum_probs=66.6
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
+|||.|||..+++++|+++|.+||.|..+.+..+. +.+.++|||+|.+.++|+.|+..|++..|.|..|.|+
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 48999999999999999999999999999988765 6778999999999999999999999999999998873
No 32
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.64 E-value=3.4e-16 Score=114.42 Aligned_cols=81 Identities=25% Similarity=0.256 Sum_probs=77.1
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
....+|||+||+..++++.|+++|-+.|.|.++.|+.|+.++..+|||||+|.++|+|+-||+.||...|.|++|+|..+
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka 86 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA 86 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence 34467999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred e
Q 029462 98 E 98 (193)
Q Consensus 98 ~ 98 (193)
.
T Consensus 87 s 87 (203)
T KOG0131|consen 87 S 87 (203)
T ss_pred c
Confidence 6
No 33
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.64 E-value=6.4e-16 Score=119.29 Aligned_cols=80 Identities=29% Similarity=0.449 Sum_probs=77.2
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecCC
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEENR 101 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~~ 101 (193)
-|||+.|..+++-++|++.|.+||+|.++.|++|..|++++|||||.|.+.++|+.||..|||..|+++.|+..||.-++
T Consensus 64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp 143 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKP 143 (321)
T ss_pred eEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence 49999999999999999999999999999999999999999999999999999999999999999999999999997655
No 34
>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=99.64 E-value=1.4e-15 Score=129.96 Aligned_cols=80 Identities=20% Similarity=0.363 Sum_probs=74.9
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
+..+|||+|||..+++++|+++|.+||.|..|.|+.++.+|+++|||||+|.+.++|++|| .|+|..|.|..|.|.++.
T Consensus 88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al-~l~g~~~~g~~i~v~~~~ 166 (457)
T TIGR01622 88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKAL-ALTGQMLLGRPIIVQSSQ 166 (457)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHH-HhCCCEECCeeeEEeecc
Confidence 3467999999999999999999999999999999999999999999999999999999999 589999999999998865
Q ss_pred c
Q 029462 99 E 99 (193)
Q Consensus 99 ~ 99 (193)
.
T Consensus 167 ~ 167 (457)
T TIGR01622 167 A 167 (457)
T ss_pred h
Confidence 4
No 35
>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=99.63 E-value=1.8e-15 Score=132.44 Aligned_cols=82 Identities=29% Similarity=0.406 Sum_probs=76.7
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
....|||+||+..+++++|+++|++||.|..|.|+.+ .+|.++|||||+|.+.++|++||..|||..|+|+.|.|.+|.
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~ 362 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQ 362 (562)
T ss_pred CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEecc
Confidence 4467999999999999999999999999999999988 589999999999999999999999999999999999999997
Q ss_pred cCC
Q 029462 99 ENR 101 (193)
Q Consensus 99 ~~~ 101 (193)
.+.
T Consensus 363 ~k~ 365 (562)
T TIGR01628 363 RKE 365 (562)
T ss_pred CcH
Confidence 543
No 36
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=2.8e-15 Score=100.11 Aligned_cols=78 Identities=29% Similarity=0.454 Sum_probs=70.8
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
+.-|||.|||+.+|.+++.++|.+||.|..|.|-..+ ..+|-|||.|++..+|.+|+..|+|..+++..|.|-+..+
T Consensus 18 nriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~ 94 (124)
T KOG0114|consen 18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQP 94 (124)
T ss_pred heeEEEecCCccccHHHHHHHhhcccceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCH
Confidence 3459999999999999999999999999999998765 4489999999999999999999999999999999987654
Q ss_pred C
Q 029462 100 N 100 (193)
Q Consensus 100 ~ 100 (193)
.
T Consensus 95 ~ 95 (124)
T KOG0114|consen 95 E 95 (124)
T ss_pred H
Confidence 3
No 37
>smart00360 RRM RNA recognition motif.
Probab=99.62 E-value=2.9e-15 Score=94.27 Aligned_cols=71 Identities=34% Similarity=0.499 Sum_probs=66.6
Q ss_pred EeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 25 FWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 25 V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
|+|||..+++++|+++|.+||.|..+.+..++.++.++|+|||+|.+.++|+.|+..|++..+.|+.|.|+
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 57999999999999999999999999999887788899999999999999999999999999999998873
No 38
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.61 E-value=4.4e-15 Score=114.29 Aligned_cols=80 Identities=29% Similarity=0.402 Sum_probs=76.2
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
..|||-||.+++.|..|+++|..||.|.+|+|+.|..|.+.+|||||++.+.++|..||..|||..+.++.|+|.|...+
T Consensus 279 ~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtnk 358 (360)
T KOG0145|consen 279 WCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTNK 358 (360)
T ss_pred eEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecCC
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999997543
No 39
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.60 E-value=3.1e-15 Score=115.13 Aligned_cols=82 Identities=30% Similarity=0.575 Sum_probs=78.2
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
.+.|+|.-||..+|+++|+.+|...|+|+.|+++.|+.+|.+.||+||.|.+++||++||..|||..+..+.|+|.+|.+
T Consensus 41 kTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARP 120 (360)
T KOG0145|consen 41 KTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARP 120 (360)
T ss_pred cceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccC
Confidence 34599999999999999999999999999999999999999999999999999999999999999999999999999976
Q ss_pred CC
Q 029462 100 NR 101 (193)
Q Consensus 100 ~~ 101 (193)
..
T Consensus 121 Ss 122 (360)
T KOG0145|consen 121 SS 122 (360)
T ss_pred Ch
Confidence 53
No 40
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.60 E-value=5.5e-15 Score=116.36 Aligned_cols=80 Identities=35% Similarity=0.480 Sum_probs=76.6
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
..+|||+|||..+++++|.++|.+||.|..|.|+.++.++..+|||||+|.+.++|+.|+..|++..|.|+.|.|.++..
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 47899999999999999999999999999999999988999999999999999999999999999999999999999653
No 41
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.60 E-value=2.1e-15 Score=126.13 Aligned_cols=83 Identities=28% Similarity=0.425 Sum_probs=79.1
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
..|||+|||+++++++|.++|+..|.|..+.++.|+.||+.+||||++|.+.++|+.|+..|||.++.|++|+|.|+...
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 67999999999999999999999999999999999999999999999999999999999999999999999999998765
Q ss_pred CCC
Q 029462 101 RKK 103 (193)
Q Consensus 101 ~~~ 103 (193)
+..
T Consensus 99 ~~~ 101 (435)
T KOG0108|consen 99 KNA 101 (435)
T ss_pred chh
Confidence 543
No 42
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.60 E-value=8.3e-15 Score=112.67 Aligned_cols=75 Identities=12% Similarity=0.076 Sum_probs=68.6
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
...|||+||++.+|+++|+++|+.||+|..|.|+.+. ...+||||+|.++++|+.|| .|+|.+|.++.|.|..+.
T Consensus 5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG 79 (243)
T ss_pred ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence 3569999999999999999999999999999999874 44689999999999999999 799999999999998764
No 43
>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=99.59 E-value=1.1e-14 Score=125.16 Aligned_cols=78 Identities=19% Similarity=0.261 Sum_probs=71.6
Q ss_pred CccEEEEeCCCC-CCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 19 EISRLVFWFATF-AMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 19 ~~~rl~V~nl~~-~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
..+.|||+||++ .+++++|+++|+.||.|..|.|+.++ +|||||+|.+.++|+.||..|||..|.|+.|.|.++
T Consensus 274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s 348 (481)
T TIGR01649 274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPS 348 (481)
T ss_pred CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEc
Confidence 556899999998 69999999999999999999998764 799999999999999999999999999999999998
Q ss_pred ecCC
Q 029462 98 EENR 101 (193)
Q Consensus 98 ~~~~ 101 (193)
+...
T Consensus 349 ~~~~ 352 (481)
T TIGR01649 349 KQQN 352 (481)
T ss_pred cccc
Confidence 6543
No 44
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=99.58 E-value=2.3e-14 Score=90.97 Aligned_cols=74 Identities=35% Similarity=0.512 Sum_probs=68.0
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
+|+|+|||..+++++|+++|+.||.|..+.+..++.+ ...++|||+|.+.++|+.|+..+++..+.|..|.|.+
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 4899999999999999999999999999999877644 6689999999999999999999999999999998864
No 45
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.58 E-value=1.3e-14 Score=112.16 Aligned_cols=81 Identities=17% Similarity=0.319 Sum_probs=74.7
Q ss_pred ccccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEE
Q 029462 15 AVVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 15 ~~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v 94 (193)
....+.+.|||+||+.-++|++|++.|..||.|.+|.|..+ +|||||.|++.|.|..||..||+.+|.|..+++
T Consensus 159 Qssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~VkC 232 (321)
T KOG0148|consen 159 QSSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRC 232 (321)
T ss_pred cCCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEEEE
Confidence 34667788999999999999999999999999999999976 899999999999999999999999999999999
Q ss_pred EEeecCC
Q 029462 95 VFAEENR 101 (193)
Q Consensus 95 ~~a~~~~ 101 (193)
.|-+...
T Consensus 233 sWGKe~~ 239 (321)
T KOG0148|consen 233 SWGKEGD 239 (321)
T ss_pred eccccCC
Confidence 9987554
No 46
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.55 E-value=7e-15 Score=114.63 Aligned_cols=72 Identities=25% Similarity=0.418 Sum_probs=68.9
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
.+|||+|||.++++.+|+.+|++||+|..|.|+ +.||||..++...|+.||..|||.+|+|..|+|+-++.+
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv--------KNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIV--------KNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeee--------cccceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 469999999999999999999999999999999 779999999999999999999999999999999998776
No 47
>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=99.54 E-value=3.6e-14 Score=122.05 Aligned_cols=75 Identities=11% Similarity=0.114 Sum_probs=68.0
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHh--CCceecCcEEEEEEe
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM--DGYLLLGRELTVVFA 97 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l--~g~~i~g~~l~v~~a 97 (193)
...|||+|||+.+++++|.++|++||.|..|.|+.+ ++||||+|++.++|+.||..| ++..|.|+.|.|.|+
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 457999999999999999999999999999998853 689999999999999999864 778999999999998
Q ss_pred ecC
Q 029462 98 EEN 100 (193)
Q Consensus 98 ~~~ 100 (193)
...
T Consensus 76 ~~~ 78 (481)
T TIGR01649 76 TSQ 78 (481)
T ss_pred CCc
Confidence 643
No 48
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=6.6e-15 Score=120.08 Aligned_cols=89 Identities=26% Similarity=0.414 Sum_probs=78.9
Q ss_pred cccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCce-ec--CcEE
Q 029462 16 VVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL-LL--GREL 92 (193)
Q Consensus 16 ~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~-i~--g~~l 92 (193)
.+.+..+|||+-|+..++|.+|+++|.+||.|++|.|+++. .+.++|||||.|.+.+-|..||+.|||.. +. ..+|
T Consensus 120 r~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PL 198 (510)
T KOG0144|consen 120 RIVEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPL 198 (510)
T ss_pred ccccchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCce
Confidence 34456779999999999999999999999999999999886 78999999999999999999999999974 54 5689
Q ss_pred EEEEeecCCCCCc
Q 029462 93 TVVFAEENRKKPS 105 (193)
Q Consensus 93 ~v~~a~~~~~~~~ 105 (193)
.|.||.+++.+..
T Consensus 199 VVkFADtqkdk~~ 211 (510)
T KOG0144|consen 199 VVKFADTQKDKDG 211 (510)
T ss_pred EEEecccCCCchH
Confidence 9999998876653
No 49
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.54 E-value=2.5e-14 Score=119.76 Aligned_cols=81 Identities=31% Similarity=0.509 Sum_probs=74.6
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
-.+|+|.|||+.+.+.+|+.+|+.||.|..|.|+..+ .|+.+|||||.|.+..+|..||+.||+..|+|++|.|.||-+
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~ 195 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVD 195 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecc
Confidence 5689999999999999999999999999999999665 455569999999999999999999999999999999999976
Q ss_pred CC
Q 029462 100 NR 101 (193)
Q Consensus 100 ~~ 101 (193)
+.
T Consensus 196 Kd 197 (678)
T KOG0127|consen 196 KD 197 (678)
T ss_pred cc
Confidence 54
No 50
>smart00361 RRM_1 RNA recognition motif.
Probab=99.53 E-value=4.8e-14 Score=90.12 Aligned_cols=61 Identities=26% Similarity=0.404 Sum_probs=54.9
Q ss_pred HHHHHHhhc----cCCceEEEE-EcCCCCC--CCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEE
Q 029462 34 VEDLRGPFG----QFGRLKDIY-LPRDYYT--GEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 34 ~~~l~~~F~----~~G~i~~v~-i~~~~~~--g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v 94 (193)
+++|+++|. +||.|..|. |+.++.+ +.++|||||+|.+.++|++|+..|||..|.|+.|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 578888888 999999995 6666656 899999999999999999999999999999999976
No 51
>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=99.53 E-value=8.8e-14 Score=84.91 Aligned_cols=56 Identities=36% Similarity=0.603 Sum_probs=50.8
Q ss_pred HHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 37 LRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 37 l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
|.++|++||+|..+.+..+. .++|||+|.+.++|+.|+..|||..|+|++|+|+||
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 67899999999999997542 599999999999999999999999999999999986
No 52
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=1.3e-14 Score=116.32 Aligned_cols=80 Identities=31% Similarity=0.485 Sum_probs=76.2
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
+.-+++|||+.|.+++.|+.|+..|..||.|+.|.+.+|+.|++++|||||+|+-+|.|+-|++.|||..++|+.|+|..
T Consensus 110 LaiMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr 189 (544)
T KOG0124|consen 110 LAIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR 189 (544)
T ss_pred HHHhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence 34468999999999999999999999999999999999999999999999999999999999999999999999999974
No 53
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=3.3e-14 Score=116.03 Aligned_cols=86 Identities=26% Similarity=0.400 Sum_probs=76.7
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCce-ecC--cEEEE
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL-LLG--RELTV 94 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~-i~g--~~l~v 94 (193)
.+..+|||+-||..++|.||+++|++||.|..|.|++|+.|+.++|||||.|.+.++|.+|+.+||+.. |-| ..|+|
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqv 111 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQV 111 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceee
Confidence 445579999999999999999999999999999999999999999999999999999999999998864 544 57899
Q ss_pred EEeecCCCC
Q 029462 95 VFAEENRKK 103 (193)
Q Consensus 95 ~~a~~~~~~ 103 (193)
.+|.....+
T Consensus 112 k~Ad~E~er 120 (510)
T KOG0144|consen 112 KYADGERER 120 (510)
T ss_pred cccchhhhc
Confidence 998765543
No 54
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.51 E-value=2.7e-14 Score=119.57 Aligned_cols=81 Identities=32% Similarity=0.600 Sum_probs=76.2
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
.+|||+||.+++++++|..+|+.||.|..|.+++|..||.++|||||+|.+.++|.+|++.|||.+|.|+.|+|......
T Consensus 279 ~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r 358 (549)
T KOG0147|consen 279 RRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTER 358 (549)
T ss_pred hhhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeee
Confidence 34999999999999999999999999999999999999999999999999999999999999999999999999876554
Q ss_pred C
Q 029462 101 R 101 (193)
Q Consensus 101 ~ 101 (193)
-
T Consensus 359 ~ 359 (549)
T KOG0147|consen 359 V 359 (549)
T ss_pred c
Confidence 3
No 55
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.48 E-value=5.2e-14 Score=108.78 Aligned_cols=85 Identities=24% Similarity=0.293 Sum_probs=80.3
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
-++.+.|||-.||.+..+.+|..+|-.||.|+..+|..|+.|..+++|+||.|+|+..|+.||..|||..|+-++|+|.+
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQL 361 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQL 361 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhh
Confidence 45678899999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred eecCC
Q 029462 97 AEENR 101 (193)
Q Consensus 97 a~~~~ 101 (193)
..++.
T Consensus 362 KRPkd 366 (371)
T KOG0146|consen 362 KRPKD 366 (371)
T ss_pred cCccc
Confidence 77665
No 56
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.47 E-value=1.9e-13 Score=114.56 Aligned_cols=84 Identities=29% Similarity=0.407 Sum_probs=75.8
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHh-----CC-ceecCcE
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM-----DG-YLLLGRE 91 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l-----~g-~~i~g~~ 91 (193)
.....|||.|||+++|+++|.++|.+||+|..+.|+.++.|+.++|.|||.|.+..+|++||... .| ..|+|+.
T Consensus 290 ~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~ 369 (678)
T KOG0127|consen 290 TEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRL 369 (678)
T ss_pred cccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccE
Confidence 34467999999999999999999999999999999999999999999999999999999999876 23 5689999
Q ss_pred EEEEEeecCC
Q 029462 92 LTVVFAEENR 101 (193)
Q Consensus 92 l~v~~a~~~~ 101 (193)
|+|..|.+..
T Consensus 370 Lkv~~Av~Rk 379 (678)
T KOG0127|consen 370 LKVTLAVTRK 379 (678)
T ss_pred EeeeeccchH
Confidence 9999986553
No 57
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.45 E-value=1.8e-13 Score=100.20 Aligned_cols=87 Identities=29% Similarity=0.360 Sum_probs=78.7
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEE-EEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDI-YLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v-~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
+....+|||+||.++++|..|.++|+.||.|... .++.+..||.++|||||.|.+.+.+.+||..|||+.++.++|.|.
T Consensus 93 l~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ 172 (203)
T KOG0131|consen 93 LDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVS 172 (203)
T ss_pred ccccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEE
Confidence 4445689999999999999999999999998754 788899999999999999999999999999999999999999999
Q ss_pred EeecCCCC
Q 029462 96 FAEENRKK 103 (193)
Q Consensus 96 ~a~~~~~~ 103 (193)
++..+..+
T Consensus 173 ya~k~~~k 180 (203)
T KOG0131|consen 173 YAFKKDTK 180 (203)
T ss_pred EEEecCCC
Confidence 99766543
No 58
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.44 E-value=4.3e-13 Score=109.90 Aligned_cols=78 Identities=23% Similarity=0.359 Sum_probs=72.2
Q ss_pred cEEEEeCCCCCCCHHHHHHhhc-cCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 21 SRLVFWFATFAMIVEDLRGPFG-QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
..+||.|||+++.|++|+++|. +.|+|+.|.|..|. .|+++|+|.|+|+++|.+++|++.||.+.+.|++|.|+....
T Consensus 45 R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 45 RSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD 123 (608)
T ss_pred ceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence 3499999999999999999996 68999999999885 899999999999999999999999999999999999987543
No 59
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.42 E-value=7.5e-13 Score=114.54 Aligned_cols=72 Identities=14% Similarity=0.194 Sum_probs=60.3
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccC------------CceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCce
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQF------------GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 86 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~------------G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 86 (193)
...+|||+|||+.+|+++|.++|.++ +.|..+.+. ..+|||||+|.+.++|+.|| .|||..
T Consensus 174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~------~~kg~afVeF~~~e~A~~Al-~l~g~~ 246 (509)
T TIGR01642 174 QARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN------KEKNFAFLEFRTVEEATFAM-ALDSII 246 (509)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC------CCCCEEEEEeCCHHHHhhhh-cCCCeE
Confidence 34579999999999999999999874 244445444 34899999999999999999 699999
Q ss_pred ecCcEEEEEEe
Q 029462 87 LLGRELTVVFA 97 (193)
Q Consensus 87 i~g~~l~v~~a 97 (193)
|.|..|+|...
T Consensus 247 ~~g~~l~v~r~ 257 (509)
T TIGR01642 247 YSNVFLKIRRP 257 (509)
T ss_pred eeCceeEecCc
Confidence 99999998644
No 60
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.39 E-value=4.2e-13 Score=104.82 Aligned_cols=82 Identities=17% Similarity=0.317 Sum_probs=73.6
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
...++|+|+||.+.++.++|+..|++||.|.+|.|+ ++|+||.|+-.++|..||..|||.+|.|+.++|.++
T Consensus 76 k~stkl~vgNis~tctn~ElRa~fe~ygpviecdiv--------kdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~s 147 (346)
T KOG0109|consen 76 KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIV--------KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLS 147 (346)
T ss_pred CCccccccCCCCccccCHHHhhhhcccCCceeeeee--------cceeEEEEeeccchHHHHhcccccccccceeeeeee
Confidence 345679999999999999999999999999999999 789999999999999999999999999999999998
Q ss_pred ecCCCCCccc
Q 029462 98 EENRKKPSEM 107 (193)
Q Consensus 98 ~~~~~~~~~~ 107 (193)
...-.....|
T Consensus 148 tsrlrtapgm 157 (346)
T KOG0109|consen 148 TSRLRTAPGM 157 (346)
T ss_pred ccccccCCCC
Confidence 7665444333
No 61
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.32 E-value=5.7e-12 Score=95.46 Aligned_cols=80 Identities=23% Similarity=0.382 Sum_probs=72.5
Q ss_pred CccEEEEeCCCCCCCHHHHHH----hhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEE
Q 029462 19 EISRLVFWFATFAMIVEDLRG----PFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~----~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v 94 (193)
+..+|||.||+..+..++|+. +|++||.|..|.... |.+.+|-|||.|.+.+.|-.|+..|+|..+.|+.++|
T Consensus 8 pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mri 84 (221)
T KOG4206|consen 8 PNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRI 84 (221)
T ss_pred CCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhhe
Confidence 344899999999999988877 999999999998774 6688999999999999999999999999999999999
Q ss_pred EEeecCC
Q 029462 95 VFAEENR 101 (193)
Q Consensus 95 ~~a~~~~ 101 (193)
.+|+.+.
T Consensus 85 qyA~s~s 91 (221)
T KOG4206|consen 85 QYAKSDS 91 (221)
T ss_pred ecccCcc
Confidence 9998664
No 62
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.32 E-value=2.9e-12 Score=103.05 Aligned_cols=84 Identities=20% Similarity=0.289 Sum_probs=77.7
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
.....+|||..+.++++++||+.+|+.||+|..|.+..++.++.++||+||+|.+.+....||..||-+.++|..|.|-.
T Consensus 207 Ak~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk 286 (544)
T KOG0124|consen 207 AKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGK 286 (544)
T ss_pred HHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccc
Confidence 44567899999999999999999999999999999999999999999999999999999999999999999999999976
Q ss_pred eecC
Q 029462 97 AEEN 100 (193)
Q Consensus 97 a~~~ 100 (193)
+...
T Consensus 287 ~vTP 290 (544)
T KOG0124|consen 287 CVTP 290 (544)
T ss_pred ccCC
Confidence 6443
No 63
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.30 E-value=1.1e-11 Score=102.71 Aligned_cols=81 Identities=23% Similarity=0.374 Sum_probs=72.9
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
+...|||.||++.++..+|.++|+.||+|..|.|..+. .| .+|| ||+|+++++|++||..|||..+.|+.|.|....
T Consensus 75 d~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~-~g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~ 151 (369)
T KOG0123|consen 75 DPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDE-NG-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFE 151 (369)
T ss_pred CCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcC-CC-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeecc
Confidence 33449999999999999999999999999999999875 44 8999 999999999999999999999999999998876
Q ss_pred cCCC
Q 029462 99 ENRK 102 (193)
Q Consensus 99 ~~~~ 102 (193)
.+..
T Consensus 152 ~~~e 155 (369)
T KOG0123|consen 152 RKEE 155 (369)
T ss_pred chhh
Confidence 6544
No 64
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.30 E-value=1.3e-11 Score=92.31 Aligned_cols=80 Identities=23% Similarity=0.347 Sum_probs=73.4
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccC-CceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQF-GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
.-+||..+|.-+.+..|..+|.+| |.|..+.+..++.||.++|||||+|++.+.|+-|-+.||+..|.++-|.|.+-.+
T Consensus 50 g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmpp 129 (214)
T KOG4208|consen 50 GVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPP 129 (214)
T ss_pred cceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCc
Confidence 458999999999999999999988 7778888889999999999999999999999999999999999999999988755
Q ss_pred C
Q 029462 100 N 100 (193)
Q Consensus 100 ~ 100 (193)
.
T Consensus 130 e 130 (214)
T KOG4208|consen 130 E 130 (214)
T ss_pred h
Confidence 4
No 65
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.29 E-value=2.8e-11 Score=101.01 Aligned_cols=83 Identities=20% Similarity=0.182 Sum_probs=68.5
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
.....|||.|||.++++.+|+++|..||.|+...|..-...++..+||||+|.+.++++.||.+ +-..|++++|.|+..
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 3334599999999999999999999999999876654322344459999999999999999977 577899999999987
Q ss_pred ecCC
Q 029462 98 EENR 101 (193)
Q Consensus 98 ~~~~ 101 (193)
....
T Consensus 365 ~~~~ 368 (419)
T KOG0116|consen 365 RPGF 368 (419)
T ss_pred cccc
Confidence 6544
No 66
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.27 E-value=3e-12 Score=97.59 Aligned_cols=72 Identities=32% Similarity=0.509 Sum_probs=67.6
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
.+|||++||+.+.+.+|+.+|..||+|..|.|. .||+||+|++..+|..||..||+++|+|..+.|+++...
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 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 579999999999999999999999999999887 789999999999999999999999999999999998754
No 67
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.26 E-value=1.6e-11 Score=103.69 Aligned_cols=80 Identities=21% Similarity=0.274 Sum_probs=74.4
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecCC
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEENR 101 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~~ 101 (193)
.|||.+|...+...+|+.||++||+|+...|+.+..+...++|+||+|.+.++|.+||..|+..+|.|+.|.|+.++..+
T Consensus 407 NlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNEp 486 (940)
T KOG4661|consen 407 NLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNEP 486 (940)
T ss_pred ceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccCc
Confidence 59999999999999999999999999999999887777789999999999999999999999999999999999887543
No 68
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.25 E-value=1.8e-11 Score=106.34 Aligned_cols=75 Identities=21% Similarity=0.342 Sum_probs=69.9
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
++|||++|+..+++.+|..+|+.||+|..|.|+. ++++|||.+....+|.+||.+|++..+.++.|+|.||..+
T Consensus 422 rTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~ 495 (894)
T KOG0132|consen 422 RTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP------PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGK 495 (894)
T ss_pred eeeeeccccchhhHHHHHHHHHhcccceeEeecc------CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccC
Confidence 4699999999999999999999999999999884 3899999999999999999999999999999999999655
Q ss_pred C
Q 029462 101 R 101 (193)
Q Consensus 101 ~ 101 (193)
-
T Consensus 496 G 496 (894)
T KOG0132|consen 496 G 496 (894)
T ss_pred C
Confidence 4
No 69
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.24 E-value=2.8e-11 Score=96.74 Aligned_cols=76 Identities=20% Similarity=0.340 Sum_probs=66.4
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHH-hCCceecCcEEEEEE
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH-MDGYLLLGRELTVVF 96 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-l~g~~i~g~~l~v~~ 96 (193)
...+.|||++|...+++.+|.++|.+||+|..+.+... +++|||+|.+.+.|+.|.+. +|...|+|.+|.|.|
T Consensus 226 ~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~W 299 (377)
T KOG0153|consen 226 TSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKW 299 (377)
T ss_pred cceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecceEEEEEe
Confidence 34456999999999999999999999999999988744 77999999999999988764 455578999999999
Q ss_pred eec
Q 029462 97 AEE 99 (193)
Q Consensus 97 a~~ 99 (193)
..+
T Consensus 300 g~~ 302 (377)
T KOG0153|consen 300 GRP 302 (377)
T ss_pred CCC
Confidence 887
No 70
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.23 E-value=3.7e-11 Score=103.61 Aligned_cols=78 Identities=27% Similarity=0.445 Sum_probs=69.6
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCC---CcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTG---EPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g---~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
++|||.||+++++.++|+.+|.+.|.|..|.|...+... .+.|||||+|.+.++|+.|+..|+|+.|+|+.|.|.++
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S 595 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKIS 595 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEec
Confidence 449999999999999999999999999999887654221 23499999999999999999999999999999999998
Q ss_pred e
Q 029462 98 E 98 (193)
Q Consensus 98 ~ 98 (193)
.
T Consensus 596 ~ 596 (725)
T KOG0110|consen 596 E 596 (725)
T ss_pred c
Confidence 7
No 71
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.23 E-value=9.5e-12 Score=100.30 Aligned_cols=82 Identities=30% Similarity=0.397 Sum_probs=73.8
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
+.++|||++|+++++++.|+++|.+||+|..|.++.++.++..+||+||+|++.+.+..+|.. ..+.|+|+.|.++.|.
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 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNA-RTHKLDGRSVEPKRAV 83 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecc-cccccCCccccceecc
Confidence 668899999999999999999999999999999999999999999999999998888888743 5678999999888876
Q ss_pred cCC
Q 029462 99 ENR 101 (193)
Q Consensus 99 ~~~ 101 (193)
+..
T Consensus 84 ~r~ 86 (311)
T KOG4205|consen 84 SRE 86 (311)
T ss_pred Ccc
Confidence 554
No 72
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.22 E-value=9.6e-12 Score=107.13 Aligned_cols=83 Identities=29% Similarity=0.556 Sum_probs=76.2
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
.+++|+|.|||+.++..+|+++|..||.|..|.|+.....+.++|||||+|-+..+|..|+.+|....|.|+.|.++||.
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 35689999999999999999999999999999998776667789999999999999999999999889999999999997
Q ss_pred cCC
Q 029462 99 ENR 101 (193)
Q Consensus 99 ~~~ 101 (193)
...
T Consensus 692 ~d~ 694 (725)
T KOG0110|consen 692 SDN 694 (725)
T ss_pred cch
Confidence 543
No 73
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.22 E-value=5.1e-11 Score=92.70 Aligned_cols=80 Identities=24% Similarity=0.348 Sum_probs=74.2
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
.+|+|.||++.|+++||+++|..||.++.+.|.+++ +|.+.|.|-|.|...++|..||+.|||..++|..|+++.....
T Consensus 84 ~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~ 162 (243)
T KOG0533|consen 84 TKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSP 162 (243)
T ss_pred ceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCc
Confidence 569999999999999999999999999999999886 8899999999999999999999999999999999999887554
Q ss_pred C
Q 029462 101 R 101 (193)
Q Consensus 101 ~ 101 (193)
.
T Consensus 163 ~ 163 (243)
T KOG0533|consen 163 S 163 (243)
T ss_pred c
Confidence 3
No 74
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.16 E-value=8.2e-11 Score=96.70 Aligned_cols=76 Identities=24% Similarity=0.420 Sum_probs=68.2
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
....++|||.|||+++||+.|++-|..||.|..+.|+. .|+.+| .|.|.++++|+.|+..|||..|+|+.|+|.+
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y 607 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTY 607 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeee
Confidence 44557799999999999999999999999999998853 566666 9999999999999999999999999999987
Q ss_pred e
Q 029462 97 A 97 (193)
Q Consensus 97 a 97 (193)
.
T Consensus 608 ~ 608 (608)
T KOG4212|consen 608 F 608 (608)
T ss_pred C
Confidence 3
No 75
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.15 E-value=4.7e-11 Score=92.58 Aligned_cols=83 Identities=24% Similarity=0.416 Sum_probs=72.9
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCce-ecC--cEEEEE
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL-LLG--RELTVV 95 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~-i~g--~~l~v~ 95 (193)
+..+|||+-|...-.|+|+..+|..||.|.+|.+.... .|.++|+|||.|.+..+|+.||..|||.. +-| ..|.|+
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 44679999999999999999999999999999998765 78899999999999999999999999975 444 468899
Q ss_pred EeecCCC
Q 029462 96 FAEENRK 102 (193)
Q Consensus 96 ~a~~~~~ 102 (193)
++...++
T Consensus 97 ~ADTdkE 103 (371)
T KOG0146|consen 97 FADTDKE 103 (371)
T ss_pred eccchHH
Confidence 9876553
No 76
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.15 E-value=4.8e-11 Score=96.25 Aligned_cols=85 Identities=22% Similarity=0.283 Sum_probs=76.8
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
.+.+|||++|+.++++++|+++|.+||.|..+.+++|..+...+||+||+|.+++.+.+++ .+.-+.|+|+.+.|..|.
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~vevkrA~ 174 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVT-LQKFHDFNGKKVEVKRAI 174 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceec-ccceeeecCceeeEeecc
Confidence 3557999999999999999999999999999999999999999999999999999888887 457889999999999998
Q ss_pred cCCCCC
Q 029462 99 ENRKKP 104 (193)
Q Consensus 99 ~~~~~~ 104 (193)
++....
T Consensus 175 pk~~~~ 180 (311)
T KOG4205|consen 175 PKEVMQ 180 (311)
T ss_pred chhhcc
Confidence 776443
No 77
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.14 E-value=1.5e-10 Score=96.10 Aligned_cols=74 Identities=24% Similarity=0.355 Sum_probs=69.1
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
..|||| ++||+..|.++|..+|.|..+.|+.|. | +.|||||.|.++++|+.||..||...|.|++|.|-|+...
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 358998 889999999999999999999999998 6 8999999999999999999999999999999999997543
No 78
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=99.12 E-value=5.7e-10 Score=84.55 Aligned_cols=84 Identities=15% Similarity=0.132 Sum_probs=69.4
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCC-CCCCCcceEEEEEeCCHHHHHHHHHHhCCceec---CcEEEE
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRD-YYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL---GRELTV 94 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~---g~~l~v 94 (193)
...+|||.+||.++...+|..+|..|---+.+.|.+. +.....+-+|||+|.+.++|++|+..|||..|+ +..|.|
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 3567999999999999999999999876666666442 222233579999999999999999999999986 889999
Q ss_pred EEeecCCC
Q 029462 95 VFAEENRK 102 (193)
Q Consensus 95 ~~a~~~~~ 102 (193)
++|+.+.+
T Consensus 113 ElAKSNtK 120 (284)
T KOG1457|consen 113 ELAKSNTK 120 (284)
T ss_pred eehhcCcc
Confidence 99987664
No 79
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=99.11 E-value=1.7e-10 Score=89.83 Aligned_cols=83 Identities=19% Similarity=0.400 Sum_probs=76.8
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
..+...+||+|+.+.+|.++++.+|+.+|.|..+.|+.++.+|.++|||||+|.+.+.++.|+. ||+..|.|..|.|.+
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL 176 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence 3445679999999999999999999999999999999999999999999999999999999997 999999999999998
Q ss_pred eecC
Q 029462 97 AEEN 100 (193)
Q Consensus 97 a~~~ 100 (193)
....
T Consensus 177 ~r~~ 180 (231)
T KOG4209|consen 177 KRTN 180 (231)
T ss_pred eeee
Confidence 8765
No 80
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=99.08 E-value=4.4e-11 Score=90.23 Aligned_cols=78 Identities=19% Similarity=0.115 Sum_probs=70.0
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
.+|||+||...|+|+.|.++|-+.|.|..|.|..++ .++.+ ||||.|.++...+-|+..|||..+.+..|+|.+-...
T Consensus 10 rtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~ 87 (267)
T KOG4454|consen 10 RTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGN 87 (267)
T ss_pred hHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhcccccCC
Confidence 459999999999999999999999999999998765 55556 9999999999999999999999999999999875443
No 81
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=99.03 E-value=2.8e-09 Score=71.76 Aligned_cols=80 Identities=18% Similarity=0.238 Sum_probs=69.8
Q ss_pred cEEEEeCCCCCCCHHHHHHhhcc--CCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec----CcEEEE
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQ--FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL----GRELTV 94 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~--~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~----g~~l~v 94 (193)
++|.|.|||...+.++|.+++.. .|..-.+.|+.|..++.+.|||||.|.+++.|..-...++|..+. .+.+.|
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 56999999999999999988865 367778899999999999999999999999999999999999875 566788
Q ss_pred EEeecC
Q 029462 95 VFAEEN 100 (193)
Q Consensus 95 ~~a~~~ 100 (193)
.+|.-+
T Consensus 82 ~yAriQ 87 (97)
T PF04059_consen 82 SYARIQ 87 (97)
T ss_pred ehhHhh
Confidence 887643
No 82
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.99 E-value=1.8e-09 Score=86.44 Aligned_cols=82 Identities=20% Similarity=0.190 Sum_probs=72.7
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceE--------EEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCc
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLK--------DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGR 90 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~--------~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 90 (193)
..+.|||.|||.++|.+++.++|.++|.|. .|.|..+. .|+.+|-|+|.|...+.+.-|+..|++..|.|.
T Consensus 133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~ 211 (382)
T KOG1548|consen 133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELRGK 211 (382)
T ss_pred cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccccCc
Confidence 445699999999999999999999999875 46777665 599999999999999999999999999999999
Q ss_pred EEEEEEeecCC
Q 029462 91 ELTVVFAEENR 101 (193)
Q Consensus 91 ~l~v~~a~~~~ 101 (193)
.|+|+.|+-..
T Consensus 212 ~~rVerAkfq~ 222 (382)
T KOG1548|consen 212 KLRVERAKFQM 222 (382)
T ss_pred EEEEehhhhhh
Confidence 99999986443
No 83
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.95 E-value=6.2e-10 Score=93.92 Aligned_cols=71 Identities=23% Similarity=0.377 Sum_probs=64.0
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEE
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
..+..|+|.|||..|++++|..+|+.||+|..|..... ..|..||+|.+..+|+.|+++|++.+|.|+.|+
T Consensus 73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~-----~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN-----KRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred CccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc-----cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 34456999999999999999999999999999766543 389999999999999999999999999999887
No 84
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.95 E-value=1.7e-09 Score=82.67 Aligned_cols=70 Identities=27% Similarity=0.409 Sum_probs=62.5
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v 94 (193)
....++|+|.+|+..+.+++|.++|.++|++....+. .+++||+|+..++|..||..|++..+.++.|.+
T Consensus 96 ~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~--------~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 96 SRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR--------RNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred ccccceeeeccchhhhhHHHHhhhhcccCCCchhhhh--------ccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 3445679999999999999999999999999554442 789999999999999999999999999999998
No 85
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.93 E-value=2.2e-09 Score=92.87 Aligned_cols=84 Identities=20% Similarity=0.286 Sum_probs=74.2
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCC---CCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYY---TGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~---~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
.+.++.|||+||++.++++.|-..|+.||+|..|.|++... ......+|||.|-+..+|+.|++.|+|..|.+..++
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 45667799999999999999999999999999999988652 234567999999999999999999999999999999
Q ss_pred EEEeecC
Q 029462 94 VVFAEEN 100 (193)
Q Consensus 94 v~~a~~~ 100 (193)
+-|++..
T Consensus 251 ~gWgk~V 257 (877)
T KOG0151|consen 251 LGWGKAV 257 (877)
T ss_pred ecccccc
Confidence 9998543
No 86
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.91 E-value=1.3e-09 Score=84.01 Aligned_cols=81 Identities=26% Similarity=0.331 Sum_probs=73.8
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
...+||++.|..+++.+.|-..|.+|-......++.++.||+++||+||.|.+.+++..|+..|||..++.+.|++..+.
T Consensus 189 ~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS~ 268 (290)
T KOG0226|consen 189 DDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKSE 268 (290)
T ss_pred ccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhhh
Confidence 33579999999999999999999999888888999999999999999999999999999999999999999999876544
Q ss_pred c
Q 029462 99 E 99 (193)
Q Consensus 99 ~ 99 (193)
.
T Consensus 269 w 269 (290)
T KOG0226|consen 269 W 269 (290)
T ss_pred H
Confidence 3
No 87
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.83 E-value=2.7e-09 Score=90.50 Aligned_cols=85 Identities=24% Similarity=0.359 Sum_probs=78.6
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
.....+|||++||..+++.++.+++..||.+....++.+..+|.++||||.+|.+......|+..|||+.+++.+|.|..
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 44456799999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred eecCC
Q 029462 97 AEENR 101 (193)
Q Consensus 97 a~~~~ 101 (193)
|....
T Consensus 366 A~~g~ 370 (500)
T KOG0120|consen 366 AIVGA 370 (500)
T ss_pred hhccc
Confidence 86554
No 88
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.83 E-value=3.4e-09 Score=85.35 Aligned_cols=85 Identities=27% Similarity=0.332 Sum_probs=76.0
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceE--------EEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLK--------DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL 88 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~--------~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 88 (193)
.....+|||.+|+..+++++|.++|.++|.|. .|+|..++.|+++++-|.|+|++...|+.||..++++.|.
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~ 142 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC 142 (351)
T ss_pred ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence 34445699999999999999999999999875 4678888899999999999999999999999999999999
Q ss_pred CcEEEEEEeecCC
Q 029462 89 GRELTVVFAEENR 101 (193)
Q Consensus 89 g~~l~v~~a~~~~ 101 (193)
|..|+|.+|....
T Consensus 143 gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 143 GNTIKVSLAERRT 155 (351)
T ss_pred CCCchhhhhhhcc
Confidence 9999998886544
No 89
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.78 E-value=4.6e-08 Score=80.12 Aligned_cols=79 Identities=20% Similarity=0.260 Sum_probs=70.1
Q ss_pred ccEEEEeCCCC-CCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 20 ISRLVFWFATF-AMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 20 ~~rl~V~nl~~-~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
+..|.|.||.. .+|.+.|..+|.-||.|..|.|..++ +--|+|.|.+...|+-|+..|+|+.|.|+.|.|.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 35688889865 49999999999999999999999875 5789999999999999999999999999999999987
Q ss_pred cCCCC
Q 029462 99 ENRKK 103 (193)
Q Consensus 99 ~~~~~ 103 (193)
-....
T Consensus 372 H~~vq 376 (492)
T KOG1190|consen 372 HTNVQ 376 (492)
T ss_pred Ccccc
Confidence 65543
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.67 E-value=9.5e-08 Score=79.89 Aligned_cols=75 Identities=17% Similarity=0.265 Sum_probs=63.7
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
.-|-+.+|||.+|+++|.++|+.+ .|.++.+.. .+|++.|-|||+|++++++++|+++ +-..+..+-|.|..+..
T Consensus 11 ~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~Alkk-dR~~mg~RYIEVf~~~~ 85 (510)
T KOG4211|consen 11 FEVRLRGLPWSATEKEILDFFSNC-GIENLEIPR--RNGRPSGEAYVEFTSEEDVEKALKK-DRESMGHRYIEVFTAGG 85 (510)
T ss_pred eEEEecCCCccccHHHHHHHHhcC-ceeEEEEec--cCCCcCcceEEEeechHHHHHHHHh-hHHHhCCceEEEEccCC
Confidence 447888999999999999999997 577766654 4799999999999999999999955 77888888898877643
No 91
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.55 E-value=4.4e-07 Score=69.09 Aligned_cols=77 Identities=22% Similarity=0.314 Sum_probs=67.7
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec-CcEEEEE
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL-GRELTVV 95 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~-g~~l~v~ 95 (193)
..+...||+.|||.+++.+.|..+|.+|.....|.++... .+.|||+|.+...|..|...|++..|- ...++|.
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~ 217 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQIT 217 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceeccCceEEec
Confidence 4556679999999999999999999999988888887543 789999999999999999999999886 8888888
Q ss_pred Eee
Q 029462 96 FAE 98 (193)
Q Consensus 96 ~a~ 98 (193)
++.
T Consensus 218 ~a~ 220 (221)
T KOG4206|consen 218 FAK 220 (221)
T ss_pred ccC
Confidence 764
No 92
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.54 E-value=3.7e-07 Score=59.14 Aligned_cols=70 Identities=20% Similarity=0.255 Sum_probs=47.9
Q ss_pred cEEEEeCCCCCCCHHH----HHHhhccCC-ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 21 SRLVFWFATFAMIVED----LRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~----l~~~F~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
+-|+|.|||.+.+... |+.++..+| .|..| . .+.|+|-|.+.+.|..|.+.|+|..+.|.+|.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~--------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S--------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e--------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 3599999999888655 556666775 55554 2 5789999999999999999999999999999999
Q ss_pred EeecC
Q 029462 96 FAEEN 100 (193)
Q Consensus 96 ~a~~~ 100 (193)
+....
T Consensus 73 ~~~~~ 77 (90)
T PF11608_consen 73 FSPKN 77 (90)
T ss_dssp SS--S
T ss_pred EcCCc
Confidence 97543
No 93
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.49 E-value=1.2e-07 Score=72.04 Aligned_cols=64 Identities=17% Similarity=0.214 Sum_probs=53.3
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL 88 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 88 (193)
.+|||.||..+++|++|+.+|..|-...-+.|... ..-..|||+|++.+.|.+||..|+|..|.
T Consensus 211 stlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~----~g~~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR----GGMPVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred hhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC----CCcceEeecHHHHHHHHHHHHHhhcceec
Confidence 35999999999999999999999976665555421 22568999999999999999999987763
No 94
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.43 E-value=4.3e-06 Score=62.06 Aligned_cols=69 Identities=22% Similarity=0.221 Sum_probs=59.2
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec--CcEEEEEE
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL--GRELTVVF 96 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~--g~~l~v~~ 96 (193)
-+|+|.+||...+|++|++++.+.|.|+...+..| |++.|+|...|+++-||..|+...+. |....+.+
T Consensus 116 ~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~seGe~~yirv 186 (241)
T KOG0105|consen 116 YRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFRSEGETAYIRV 186 (241)
T ss_pred eeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhccccccCcCcEeeEEe
Confidence 46999999999999999999999999999888764 58999999999999999999887654 54444444
No 95
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.43 E-value=9.2e-07 Score=60.74 Aligned_cols=70 Identities=24% Similarity=0.330 Sum_probs=44.9
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCc-----eecCcEEEEEE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY-----LLLGRELTVVF 96 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~-----~i~g~~l~v~~ 96 (193)
.|.|.+++..++.++|+++|.+||.|..|.+... -..|||-|.+.+.|+.|+..+.-. .|.+..+.++.
T Consensus 3 il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G------~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~v 76 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG------DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEV 76 (105)
T ss_dssp EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE-
T ss_pred EEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC------CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEE
Confidence 4788899999999999999999999999988743 568999999999999999877533 56677776665
Q ss_pred e
Q 029462 97 A 97 (193)
Q Consensus 97 a 97 (193)
-
T Consensus 77 L 77 (105)
T PF08777_consen 77 L 77 (105)
T ss_dssp -
T ss_pred C
Confidence 3
No 96
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.39 E-value=1.3e-07 Score=80.04 Aligned_cols=79 Identities=20% Similarity=0.308 Sum_probs=72.7
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
..||+.-|...+++.+|+++|..+|.|..|.|+.|..++.++|.|||+|.+.+....|| .|.|.-+.|.+|.|......
T Consensus 180 Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~sEae 258 (549)
T KOG0147|consen 180 RTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQLSEAE 258 (549)
T ss_pred HHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEecccHHH
Confidence 34888889999999999999999999999999999999999999999999999999999 88999999999999876443
No 97
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.38 E-value=4.1e-07 Score=73.34 Aligned_cols=74 Identities=14% Similarity=0.147 Sum_probs=65.0
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCC--ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFG--RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
.+||+||.|.+|++||.+.+...| .|.++++..+..+|.++|||+|...+....++.|+.|-.++|.|+.-.|.
T Consensus 82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~ 157 (498)
T KOG4849|consen 82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL 157 (498)
T ss_pred EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence 389999999999999998888766 56677788888999999999999999999999999999999999865553
No 98
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.33 E-value=2.2e-06 Score=72.98 Aligned_cols=75 Identities=27% Similarity=0.331 Sum_probs=61.5
Q ss_pred cEEEEeCCCCCCCH------HHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec-CcEEE
Q 029462 21 SRLVFWFATFAMIV------EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL-GRELT 93 (193)
Q Consensus 21 ~rl~V~nl~~~~t~------~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~-g~~l~ 93 (193)
..|+|.|+|.--.. .-|..+|+++|+|.++.++.+..+| .+||.|++|++..+|+.|++.|||+.|+ ++++.
T Consensus 59 ~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~ 137 (698)
T KOG2314|consen 59 SVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFF 137 (698)
T ss_pred eEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccceEE
Confidence 45899999863221 2356789999999999999887665 8999999999999999999999999886 56666
Q ss_pred EEE
Q 029462 94 VVF 96 (193)
Q Consensus 94 v~~ 96 (193)
|..
T Consensus 138 v~~ 140 (698)
T KOG2314|consen 138 VRL 140 (698)
T ss_pred eeh
Confidence 654
No 99
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.31 E-value=2.5e-06 Score=74.27 Aligned_cols=75 Identities=20% Similarity=0.237 Sum_probs=65.1
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
.|-|.|+|++++-+||.++|..|-.+-.-.++.-.+.|+..|-|.|.|++.++|..|...|+++.|..++|.|.+
T Consensus 869 V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred EEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 688999999999999999999997665433334446899999999999999999999999999999999998764
No 100
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.30 E-value=1.9e-06 Score=69.28 Aligned_cols=79 Identities=24% Similarity=0.350 Sum_probs=61.3
Q ss_pred EEEEeCCCCCCCHHH----H--HHhhccCCceEEEEEcCCCCC-CCcce-E-EEEEeCCHHHHHHHHHHhCCceecCcEE
Q 029462 22 RLVFWFATFAMIVED----L--RGPFGQFGRLKDIYLPRDYYT-GEPRG-F-GFVQYIDPADAADAKYHMDGYLLLGREL 92 (193)
Q Consensus 22 rl~V~nl~~~~t~~~----l--~~~F~~~G~i~~v~i~~~~~~-g~~~g-~-afV~f~~~~~a~~Ai~~l~g~~i~g~~l 92 (193)
-+||-+|++.+..++ | .++|++||.|..|.|...... .-..+ + .||+|.+.++|..||..++|..++|+.|
T Consensus 116 LvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~l 195 (480)
T COG5175 116 LVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVL 195 (480)
T ss_pred eeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceE
Confidence 389999998877655 2 478999999999877543211 11122 2 3999999999999999999999999999
Q ss_pred EEEEeecC
Q 029462 93 TVVFAEEN 100 (193)
Q Consensus 93 ~v~~a~~~ 100 (193)
+..+...+
T Consensus 196 katYGTTK 203 (480)
T COG5175 196 KATYGTTK 203 (480)
T ss_pred eeecCchH
Confidence 99886543
No 101
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.27 E-value=2.2e-06 Score=71.96 Aligned_cols=76 Identities=25% Similarity=0.246 Sum_probs=61.9
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEE-EEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKD-IYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~-v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
..|-+.+||+.+|++||.++|+-.--|.. |.++.+. .+.+.|-|||.|++.+.|++||.. |...|..+-|.|..+.
T Consensus 104 ~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~Ss 180 (510)
T KOG4211|consen 104 GVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFRSS 180 (510)
T ss_pred ceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeehhH
Confidence 45888999999999999999997744444 4455554 567899999999999999999965 7778888888887653
No 102
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=98.25 E-value=5.5e-08 Score=79.21 Aligned_cols=67 Identities=9% Similarity=-0.057 Sum_probs=52.6
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
+|+|++|+..+...++-++|..+|+|....+. .+....+|.|+|........|+. ++|.++.-+...
T Consensus 153 t~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~a----sk~~s~~c~~sf~~qts~~halr-~~gre~k~qhsr 219 (479)
T KOG4676|consen 153 TREVQSLISAAILPESGESFERKGEVSYAHTA----SKSRSSSCSHSFRKQTSSKHALR-SHGRERKRQHSR 219 (479)
T ss_pred hhhhhcchhhhcchhhhhhhhhcchhhhhhhh----ccCCCcchhhhHhhhhhHHHHHH-hcchhhhhhhhh
Confidence 49999999999999999999999999877665 33446678899998888888884 577776633333
No 103
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.25 E-value=1.4e-06 Score=70.04 Aligned_cols=80 Identities=21% Similarity=0.330 Sum_probs=72.3
Q ss_pred cEEE-EeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 21 SRLV-FWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 21 ~rl~-V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
..+| |++|++.+++++|+.+|..+|.|..+.++.+..++..+|||||+|.+...++.++.. +...+.+..+.|+...+
T Consensus 185 ~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 263 (285)
T KOG4210|consen 185 DTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEP 263 (285)
T ss_pred ccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCC
Confidence 3455 999999999999999999999999999999999999999999999999999999876 78889999999988765
Q ss_pred CC
Q 029462 100 NR 101 (193)
Q Consensus 100 ~~ 101 (193)
..
T Consensus 264 ~~ 265 (285)
T KOG4210|consen 264 RP 265 (285)
T ss_pred Cc
Confidence 54
No 104
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.20 E-value=9.1e-06 Score=66.27 Aligned_cols=79 Identities=18% Similarity=0.249 Sum_probs=69.4
Q ss_pred cCccEEEEeCCCCC-CCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 18 EEISRLVFWFATFA-MIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 18 ~~~~rl~V~nl~~~-~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
.+.+.+.|-+|... ++-+.|..+|..||.|..|.+++.+ .|.|+|++.+..+.+.||..||+..+.|.+|.|++
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~ 359 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCV 359 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEee
Confidence 34567899999765 5667899999999999999998754 78999999999999999999999999999999999
Q ss_pred eecCC
Q 029462 97 AEENR 101 (193)
Q Consensus 97 a~~~~ 101 (193)
++..-
T Consensus 360 SkQ~~ 364 (494)
T KOG1456|consen 360 SKQNF 364 (494)
T ss_pred ccccc
Confidence 87554
No 105
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=98.01 E-value=1.8e-05 Score=47.42 Aligned_cols=51 Identities=24% Similarity=0.410 Sum_probs=41.6
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHH
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAK 79 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai 79 (193)
-|-|.+.+.+.. +.|..+|..||+|..+.+.. ...+.||.|.+..+|++||
T Consensus 3 wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~------~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 3 WISVSGFPPDLA-EEVLEHFASFGEIVDIYVPE------STNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred EEEEEeECchHH-HHHHHHHHhcCCEEEEEcCC------CCcEEEEEECCHHHHHhhC
Confidence 478889987655 44556899999999988862 2679999999999999985
No 106
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.00 E-value=2.5e-05 Score=66.73 Aligned_cols=64 Identities=25% Similarity=0.475 Sum_probs=52.1
Q ss_pred HHHHhhccCCceEEEEEcCCC---CCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 36 DLRGPFGQFGRLKDIYLPRDY---YTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 36 ~l~~~F~~~G~i~~v~i~~~~---~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
+|+..+.+||.|..|.++.+. ...-..|-.||+|.+.++|+.|++.|+|..|.|+.|...|...
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyde 491 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDE 491 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCH
Confidence 344557889999999998772 2223467789999999999999999999999999998887543
No 107
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=98.00 E-value=4.2e-06 Score=64.94 Aligned_cols=73 Identities=18% Similarity=0.209 Sum_probs=61.2
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCC--------CCcce----EEEEEeCCHHHHHHHHHHhCCce
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYT--------GEPRG----FGFVQYIDPADAADAKYHMDGYL 86 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~--------g~~~g----~afV~f~~~~~a~~Ai~~l~g~~ 86 (193)
.+..||+++||+.+...-|+++|..||+|-.|.|.....+ |.+.+ -|+|+|.+...|+.+...||+..
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 3456999999999999999999999999999988765433 22222 36899999999999999999999
Q ss_pred ecCcE
Q 029462 87 LLGRE 91 (193)
Q Consensus 87 i~g~~ 91 (193)
|+|+.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99865
No 108
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.98 E-value=2.8e-05 Score=62.78 Aligned_cols=76 Identities=21% Similarity=0.277 Sum_probs=60.2
Q ss_pred ccEEEEeCCCC----CCC-------HHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec
Q 029462 20 ISRLVFWFATF----AMI-------VEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL 88 (193)
Q Consensus 20 ~~rl~V~nl~~----~~t-------~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 88 (193)
.+.|+|.||-. ..+ .++|.+-..+||.|..|.|.- ..+.|.+-|.|.+.++|..||..|+|..|+
T Consensus 265 ~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d----~hPdGvvtV~f~n~eeA~~ciq~m~GR~fd 340 (382)
T KOG1548|consen 265 DRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCIQTMDGRWFD 340 (382)
T ss_pred CcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHHHHhcCeeec
Confidence 35688888722 233 245566688999999998762 366899999999999999999999999999
Q ss_pred CcEEEEEEeec
Q 029462 89 GRELTVVFAEE 99 (193)
Q Consensus 89 g~~l~v~~a~~ 99 (193)
|++|..+....
T Consensus 341 gRql~A~i~DG 351 (382)
T KOG1548|consen 341 GRQLTASIWDG 351 (382)
T ss_pred ceEEEEEEeCC
Confidence 99999877543
No 109
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.96 E-value=2.9e-05 Score=63.99 Aligned_cols=78 Identities=18% Similarity=0.135 Sum_probs=64.7
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCc-EEEEEE
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGR-ELTVVF 96 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~-~l~v~~ 96 (193)
+++..|.+.|+|..++|++|+++|..-|...+..... ++.+.+|++.+++.|+|..|+..|+++.+++. .|+|.|
T Consensus 412 PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff----~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSF 487 (492)
T KOG1190|consen 412 PPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF----QKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSF 487 (492)
T ss_pred CchhheeeccCCcccchhHHHHhhhcCCceEEeeeec----CCCcceeecccCChhHhhhhccccccccCCCCceEEEEe
Confidence 5556799999999999999999999988665543332 23477999999999999999999999998755 889999
Q ss_pred eec
Q 029462 97 AEE 99 (193)
Q Consensus 97 a~~ 99 (193)
++.
T Consensus 488 Sks 490 (492)
T KOG1190|consen 488 SKS 490 (492)
T ss_pred ecc
Confidence 864
No 110
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.94 E-value=4.1e-05 Score=64.79 Aligned_cols=66 Identities=15% Similarity=0.107 Sum_probs=60.5
Q ss_pred cccCccEEEEeCCCCCCCHHHHHHhhc-cCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 029462 16 VVEEISRLVFWFATFAMIVEDLRGPFG-QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 81 (193)
Q Consensus 16 ~~~~~~rl~V~nl~~~~t~~~l~~~F~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 81 (193)
.++...+||||+||--++.++|-.+|. -||.|+-+.|-.|++-+.++|-|=|+|.+...-.+||.+
T Consensus 366 ~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 366 PIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred ccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 466777899999999999999999999 699999999999988889999999999999999999865
No 111
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.92 E-value=4.2e-06 Score=64.97 Aligned_cols=66 Identities=15% Similarity=0.274 Sum_probs=53.3
Q ss_pred HHHHHhhc-cCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecCC
Q 029462 35 EDLRGPFG-QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEENR 101 (193)
Q Consensus 35 ~~l~~~F~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~~ 101 (193)
++|...|+ +||+|+.+.|..+. .-...|-+||.|..+++|++|+..||+-.|.|++|..++.....
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~ 149 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTD 149 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCc
Confidence 34445555 89999998776543 33457899999999999999999999999999999999876544
No 112
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.91 E-value=1.5e-05 Score=66.05 Aligned_cols=86 Identities=20% Similarity=0.162 Sum_probs=63.2
Q ss_pred CchhhccccccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCC---CCC--CC--------cceEEEEEeCCHHH
Q 029462 8 PALEVTMAVVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRD---YYT--GE--------PRGFGFVQYIDPAD 74 (193)
Q Consensus 8 p~~~~~~~~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~---~~~--g~--------~~g~afV~f~~~~~ 74 (193)
|+++...+. .+...|.+.|||.+-.-+.|.+||..+|.|+.|.|+.. +.+ +. .+-+|||+|+..+.
T Consensus 220 Plp~~~~ee-l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~ 298 (484)
T KOG1855|consen 220 PLPEFDEEE-LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEA 298 (484)
T ss_pred CCCCccccc-cccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHH
Confidence 444444332 34466999999999888999999999999999999876 322 11 24579999999999
Q ss_pred HHHHHHHhCCceecCcEEEE
Q 029462 75 AADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 75 a~~Ai~~l~g~~i~g~~l~v 94 (193)
|.+|.+.||...-+-..|+|
T Consensus 299 A~KA~e~~~~e~~wr~glkv 318 (484)
T KOG1855|consen 299 ARKARELLNPEQNWRMGLKV 318 (484)
T ss_pred HHHHHHhhchhhhhhhcchh
Confidence 99999988765543333333
No 113
>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []. This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.
Probab=97.90 E-value=7.7e-05 Score=50.59 Aligned_cols=76 Identities=14% Similarity=0.212 Sum_probs=50.1
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEE-EcCCC------CCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEE-
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIY-LPRDY------YTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL- 92 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~-i~~~~------~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l- 92 (193)
.-|.|-++|+. ....|.++|++||.|.... +..+. ......+...|+|.+..+|++||.. ||..|.|..+
T Consensus 7 ~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~-NG~i~~g~~mv 84 (100)
T PF05172_consen 7 TWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK-NGTIFSGSLMV 84 (100)
T ss_dssp CEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT-TTEEETTCEEE
T ss_pred eEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh-CCeEEcCcEEE
Confidence 44888899987 4566778999999998764 11000 0012367899999999999999955 9999988654
Q ss_pred EEEEee
Q 029462 93 TVVFAE 98 (193)
Q Consensus 93 ~v~~a~ 98 (193)
-|.+.+
T Consensus 85 GV~~~~ 90 (100)
T PF05172_consen 85 GVKPCD 90 (100)
T ss_dssp EEEE-H
T ss_pred EEEEcH
Confidence 466654
No 114
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.83 E-value=2.4e-05 Score=64.07 Aligned_cols=78 Identities=19% Similarity=0.265 Sum_probs=65.0
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCc-eE--EEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGR-LK--DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~-i~--~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
....|-+.+||+..+.++|.++|..|.. |. .|.|+.+. .|.+.|-|||+|.+.|.|..|....+.+....+.|.|.
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 3456999999999999999999998863 33 37777653 68889999999999999999999988888778888886
Q ss_pred Ee
Q 029462 96 FA 97 (193)
Q Consensus 96 ~a 97 (193)
-+
T Consensus 358 p~ 359 (508)
T KOG1365|consen 358 PC 359 (508)
T ss_pred ec
Confidence 55
No 115
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.79 E-value=0.00011 Score=60.14 Aligned_cols=71 Identities=18% Similarity=0.229 Sum_probs=59.6
Q ss_pred eCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec-C-cEEEEEEeecCC
Q 029462 26 WFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL-G-RELTVVFAEENR 101 (193)
Q Consensus 26 ~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~-g-~~l~v~~a~~~~ 101 (193)
-|--+.+|.+-|..+....|+|..|.|... +.--|.|||++.+.|++|...|||..|. | -+|+|++|++.+
T Consensus 128 lNp~YpItvDVly~Icnp~GkVlRIvIfkk-----ngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~r 200 (494)
T KOG1456|consen 128 LNPQYPITVDVLYTICNPQGKVLRIVIFKK-----NGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTR 200 (494)
T ss_pred ecCccccchhhhhhhcCCCCceEEEEEEec-----cceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCcce
Confidence 355566889999999999999999988753 2456899999999999999999999875 3 479999998765
No 116
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=97.72 E-value=2.7e-05 Score=66.91 Aligned_cols=73 Identities=15% Similarity=0.235 Sum_probs=60.6
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhcc-CCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCcee---cCcEEEEE
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQ-FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL---LGRELTVV 95 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~-~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i---~g~~l~v~ 95 (193)
+..|+|.||-.-+|..+|+++++. .|.|..+|| | +.+..|||.|.+.++|.+.+.+|||..| +++.|.|.
T Consensus 444 SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--D----kIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~ad 517 (718)
T KOG2416|consen 444 SNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--D----KIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIAD 517 (718)
T ss_pred cceEeeecccccchHHHHHHHHhhccCchHHHHH--H----HhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEee
Confidence 356999999988999999999995 556666533 3 4478899999999999999999999986 56788888
Q ss_pred Eee
Q 029462 96 FAE 98 (193)
Q Consensus 96 ~a~ 98 (193)
|+.
T Consensus 518 f~~ 520 (718)
T KOG2416|consen 518 FVR 520 (718)
T ss_pred ecc
Confidence 875
No 117
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.71 E-value=4.8e-05 Score=68.19 Aligned_cols=83 Identities=27% Similarity=0.285 Sum_probs=71.1
Q ss_pred cccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecC--cEEE
Q 029462 16 VVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG--RELT 93 (193)
Q Consensus 16 ~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~l~ 93 (193)
....++++||++|..++....|..+|..||.|..|.+- +..-||+|.|++...|+.|+..|-|..|++ +.|.
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~------hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~r 524 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYR------HGQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLR 524 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeecc------cCCcceeeecccCccchhhHHHHhcCcCCCCCcccc
Confidence 45566789999999999999999999999999998765 336799999999999999999999999985 5689
Q ss_pred EEEeecCCCCC
Q 029462 94 VVFAEENRKKP 104 (193)
Q Consensus 94 v~~a~~~~~~~ 104 (193)
|.||.+....+
T Consensus 525 vdla~~~~~~P 535 (975)
T KOG0112|consen 525 VDLASPPGATP 535 (975)
T ss_pred cccccCCCCCh
Confidence 99987655433
No 118
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.70 E-value=0.00011 Score=58.36 Aligned_cols=66 Identities=15% Similarity=0.212 Sum_probs=52.7
Q ss_pred HHHHHHhhccCCceEEEEEcCCCCCCCc-ceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 34 VEDLRGPFGQFGRLKDIYLPRDYYTGEP-RGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 34 ~~~l~~~F~~~G~i~~v~i~~~~~~g~~-~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
++++++.+++||.|..|.|...+..... .---||+|+..++|.+|+--|||..|+|+.+..+|...
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ 366 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNL 366 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccH
Confidence 3567788899999999987665422222 23469999999999999999999999999999888653
No 119
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.69 E-value=3.3e-05 Score=63.98 Aligned_cols=75 Identities=21% Similarity=0.251 Sum_probs=60.1
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCc-eEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCc-eecCcEEEEEEee
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGR-LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY-LLLGRELTVVFAE 98 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~-~i~g~~l~v~~a~ 98 (193)
.++||+||.+.++..+|+.+|...-- ...-.|+. .|||||.+.+...|.+|++.|+|+ ++.|..+.|++..
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k-------~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv 74 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK-------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSV 74 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeee-------cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchh
Confidence 56999999999999999999986421 11112221 789999999999999999999997 4889999999876
Q ss_pred cCCC
Q 029462 99 ENRK 102 (193)
Q Consensus 99 ~~~~ 102 (193)
++..
T Consensus 75 ~kkq 78 (584)
T KOG2193|consen 75 PKKQ 78 (584)
T ss_pred hHHH
Confidence 6543
No 120
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.68 E-value=0.00024 Score=60.31 Aligned_cols=61 Identities=18% Similarity=0.348 Sum_probs=46.3
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCC---CCCCcce---EEEEEeCCHHHHHHHHHHh
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDY---YTGEPRG---FGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~---~~g~~~g---~afV~f~~~~~a~~Ai~~l 82 (193)
.+||||+||++++|+.|...|..||.+. |.++... .--.++| |+|+.|+++..++..|.++
T Consensus 260 ~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 260 RKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred cceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 5699999999999999999999999865 3444211 1112356 9999999988888777654
No 121
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.59 E-value=0.00027 Score=50.92 Aligned_cols=57 Identities=23% Similarity=0.346 Sum_probs=45.1
Q ss_pred HHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecCC
Q 029462 36 DLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEENR 101 (193)
Q Consensus 36 ~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~~ 101 (193)
+|.+.|..||+|.-+.++ .+.-+|+|.+-+.|.+|+ .|+|.+|+|+.|+|.+..+..
T Consensus 52 ~ll~~~~~~GevvLvRfv--------~~~mwVTF~dg~sALaal-s~dg~~v~g~~l~i~LKtpdW 108 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFV--------GDTMWVTFRDGQSALAAL-SLDGIQVNGRTLKIRLKTPDW 108 (146)
T ss_dssp HHHHHHHCCS-ECEEEEE--------TTCEEEEESSCHHHHHHH-HGCCSEETTEEEEEEE-----
T ss_pred HHHHHHHhCCceEEEEEe--------CCeEEEEECccHHHHHHH-ccCCcEECCEEEEEEeCCccH
Confidence 567788899999988887 446799999999999998 789999999999999876654
No 122
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.58 E-value=0.00014 Score=59.83 Aligned_cols=73 Identities=15% Similarity=0.266 Sum_probs=57.0
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCC---CCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYT---GEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
.|.|.||.+.++.++++.||..+|+|..+.|+....+ ....-.|||.|.+...+..|. +|.++.|-+..|.|-
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~ 84 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVR 84 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEE
Confidence 6999999999999999999999999999987653311 234568999999998888886 556666555555544
No 123
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.41 E-value=6.8e-05 Score=66.87 Aligned_cols=79 Identities=19% Similarity=0.155 Sum_probs=69.0
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
..|||.|+|+..|.+.|+.+|.++|.+..+.++..+ .|+++|.|||.|.++.+|..++..++...+.-..+.|....+.
T Consensus 737 ~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp~ 815 (881)
T KOG0128|consen 737 ISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNPE 815 (881)
T ss_pred hhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCCc
Confidence 459999999999999999999999999998877654 7899999999999999999999888888887777777775543
No 124
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.24 E-value=0.0012 Score=54.40 Aligned_cols=69 Identities=20% Similarity=0.174 Sum_probs=50.6
Q ss_pred EEEeCCCCCCCHHHHHHhhccC----CceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEE
Q 029462 23 LVFWFATFAMIVEDLRGPFGQF----GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~----G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
|-+.+||+++++.++.++|..- |.++.|.++.. .+|+..|-|||.|..+++|+.||.+ |...|+-+-|.
T Consensus 164 vRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~r-pdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIE 236 (508)
T KOG1365|consen 164 VRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTR-PDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIE 236 (508)
T ss_pred EEecCCCCCcchHHHHHhcCCCCcccCCccceEEEEC-CCCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHH
Confidence 5667999999999999999742 23344544433 3788899999999999999999965 44444444443
No 125
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=97.19 E-value=0.00016 Score=58.40 Aligned_cols=78 Identities=21% Similarity=0.313 Sum_probs=59.6
Q ss_pred EEEeCCCCCCCHHH-HH--HhhccCCceEEEEEcCCCC--CC-CcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 23 LVFWFATFAMIVED-LR--GPFGQFGRLKDIYLPRDYY--TG-EPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 23 l~V~nl~~~~t~~~-l~--~~F~~~G~i~~v~i~~~~~--~g-~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
+||.+|+..+..+. |+ +.|.+||.|..|.+..+.. .+ ....-++|+|+..++|..||...+|..++|+.|+..+
T Consensus 80 vyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~~ 159 (327)
T KOG2068|consen 80 VYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKASL 159 (327)
T ss_pred hhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHHhh
Confidence 78888887765444 43 5799999999998877651 11 1122379999999999999999999999999988777
Q ss_pred eecC
Q 029462 97 AEEN 100 (193)
Q Consensus 97 a~~~ 100 (193)
...+
T Consensus 160 gttk 163 (327)
T KOG2068|consen 160 GTTK 163 (327)
T ss_pred CCCc
Confidence 6544
No 126
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.05 E-value=2.3e-05 Score=69.72 Aligned_cols=68 Identities=19% Similarity=0.234 Sum_probs=58.7
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL 88 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 88 (193)
+++||.||+..+.+.+|...|..+|.|..+.+.....++..+|+|||+|...++|.+||...+.+.++
T Consensus 668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 46899999999999999999999999888877766678899999999999999999999665554444
No 127
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.05 E-value=0.00034 Score=61.47 Aligned_cols=78 Identities=19% Similarity=0.093 Sum_probs=62.7
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEE-EEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKD-IYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~-v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
-...|||..||..+++.++.++|...-.|++ |.|..-+ +++..+.|||+|.+++++..|+..-+.+.++.+.|+|.-.
T Consensus 433 ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si 511 (944)
T KOG4307|consen 433 AGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSI 511 (944)
T ss_pred ccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEEEeech
Confidence 3457999999999999999999998777776 6665544 6778899999999999998887665666667778888643
No 128
>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN). ; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.
Probab=97.04 E-value=0.0041 Score=40.43 Aligned_cols=54 Identities=13% Similarity=0.136 Sum_probs=41.1
Q ss_pred EEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCC
Q 029462 23 LVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG 84 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g 84 (193)
||.-.+|..+...||.++|..||.|.--+|- -.-|||...+.+.|..|+..+.-
T Consensus 11 VFhltFPkeWK~~DI~qlFspfG~I~VsWi~--------dTSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 11 VFHLTFPKEWKTSDIYQLFSPFGQIYVSWIN--------DTSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp EEEEE--TT--HHHHHHHCCCCCCEEEEEEC--------TTEEEEEECCCHHHHHHHHHHTT
T ss_pred EEEEeCchHhhhhhHHHHhccCCcEEEEEEc--------CCcEEEEeecHHHHHHHHHHhcc
Confidence 5555699999999999999999998644443 34799999999999999988863
No 129
>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=97.04 E-value=0.0045 Score=39.58 Aligned_cols=67 Identities=19% Similarity=0.207 Sum_probs=40.3
Q ss_pred EEEEe-CCCCCCCHHHHHHhhccCC-----ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 22 RLVFW-FATFAMIVEDLRGPFGQFG-----RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 22 rl~V~-nl~~~~t~~~l~~~F~~~G-----~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
+|||. +--..++..+|..+|...+ .|-.|.|. ..|+||+... +.|+.++..|++..+.|+.|.|+
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 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIF--------DNFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE---------SS-EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEe--------eeEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence 34553 2234578888888888764 45577776 5689999864 68999999999999999999998
Q ss_pred Ee
Q 029462 96 FA 97 (193)
Q Consensus 96 ~a 97 (193)
.|
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 75
No 130
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=96.96 E-value=0.0021 Score=48.19 Aligned_cols=82 Identities=12% Similarity=0.144 Sum_probs=51.0
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhcc-CCce---EEEEEcCCC--CCCCcceEEEEEeCCHHHHHHHHHHhCCceecC---
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQ-FGRL---KDIYLPRDY--YTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG--- 89 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~-~G~i---~~v~i~~~~--~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--- 89 (193)
+..+|.|.+||+.+|++++.+.+.. ++.. ..+.-.... .......-|||.|.+.+++..-+..++|+.|.+
T Consensus 6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg 85 (176)
T PF03467_consen 6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKG 85 (176)
T ss_dssp ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS
T ss_pred cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCC
Confidence 3458999999999999999987776 6654 233211111 111224568999999999999999999987643
Q ss_pred --cEEEEEEeecC
Q 029462 90 --RELTVVFAEEN 100 (193)
Q Consensus 90 --~~l~v~~a~~~ 100 (193)
....|++|.-+
T Consensus 86 ~~~~~~VE~Apyq 98 (176)
T PF03467_consen 86 NEYPAVVEFAPYQ 98 (176)
T ss_dssp -EEEEEEEE-SS-
T ss_pred CCcceeEEEcchh
Confidence 23567777553
No 131
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=96.96 E-value=0.0014 Score=56.21 Aligned_cols=80 Identities=15% Similarity=0.184 Sum_probs=57.4
Q ss_pred cEEEEeCCCCCCCHHHHHHhhc-cCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec----CcEEEEE
Q 029462 21 SRLVFWFATFAMIVEDLRGPFG-QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL----GRELTVV 95 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~-~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~----g~~l~v~ 95 (193)
+.+.|.|++...|-..|.+.-+ ..|.-..+.++.|..+..+.|||||.|.+.+++..+.+++||+.++ .+.+.|.
T Consensus 389 tt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~it 468 (549)
T KOG4660|consen 389 TTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASIT 468 (549)
T ss_pred hhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeee
Confidence 3466666666555444433322 2556667888888888889999999999999999999999999753 3445677
Q ss_pred EeecC
Q 029462 96 FAEEN 100 (193)
Q Consensus 96 ~a~~~ 100 (193)
||.-+
T Consensus 469 YArIQ 473 (549)
T KOG4660|consen 469 YARIQ 473 (549)
T ss_pred hhhhh
Confidence 76533
No 132
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.91 E-value=0.0056 Score=37.66 Aligned_cols=54 Identities=17% Similarity=0.095 Sum_probs=43.0
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccC---CceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHh
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQF---GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~---G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l 82 (193)
.+|+|.|+.. ++.++|+.+|..| .....|.++-|. -|-|.|.+.+.|..||.+|
T Consensus 6 eavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 6 EAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 5699999975 7778899999988 234577777653 4778999999999999764
No 133
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.70 E-value=0.00093 Score=56.30 Aligned_cols=72 Identities=24% Similarity=0.370 Sum_probs=57.2
Q ss_pred cEEEEeCCCCCC-CHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 21 SRLVFWFATFAM-IVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 21 ~rl~V~nl~~~~-t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
+-|-+.-.++.. +-++|..+|.+||+|..|.|-+. ---|.|+|.+..+|-.|. ..++..|+++.|+|.|-++
T Consensus 373 s~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~whnp 445 (526)
T KOG2135|consen 373 SPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLFWHNP 445 (526)
T ss_pred chhhhhccCCCCchHhhhhhhhhhcCccccccccCc------hhhheeeeeccccccchh-ccccceecCceeEEEEecC
Confidence 334444444443 46889999999999999998754 457899999999997776 4689999999999999876
No 134
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.68 E-value=0.0031 Score=49.31 Aligned_cols=75 Identities=20% Similarity=0.186 Sum_probs=59.5
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCc----eecCcEEEEEE
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY----LLLGRELTVVF 96 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~----~i~g~~l~v~~ 96 (193)
..|+|.||...+.-+.|...|..||+|....++.|. .++..+-++|.|.+.-.|.+|+..++-. ++.+...-|+.
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP 110 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEP 110 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCCh
Confidence 569999999999999999999999999866555443 5777889999999999999999887432 34455555544
No 135
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=96.63 E-value=0.012 Score=42.26 Aligned_cols=73 Identities=21% Similarity=0.263 Sum_probs=54.1
Q ss_pred ccCccEEEEeCCCCCCC-HHHHH---HhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEE
Q 029462 17 VEEISRLVFWFATFAMI-VEDLR---GPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL 92 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t-~~~l~---~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l 92 (193)
.+.+.+|.|.=|..++. .+||+ ..++.||+|..|.++- +.-|.|.|.+...|=+|+.+++. ..-|..+
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG-------rqsavVvF~d~~SAC~Av~Af~s-~~pgtm~ 154 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG-------RQSAVVVFKDITSACKAVSAFQS-RAPGTMF 154 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC-------CceEEEEehhhHHHHHHHHhhcC-CCCCceE
Confidence 45566788876666544 24444 4467899999998763 67899999999999999999875 4556677
Q ss_pred EEEEe
Q 029462 93 TVVFA 97 (193)
Q Consensus 93 ~v~~a 97 (193)
+..|-
T Consensus 155 qCsWq 159 (166)
T PF15023_consen 155 QCSWQ 159 (166)
T ss_pred Eeecc
Confidence 77664
No 136
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=96.59 E-value=0.0086 Score=47.96 Aligned_cols=69 Identities=14% Similarity=0.177 Sum_probs=52.1
Q ss_pred EEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEE-EEEEeec
Q 029462 23 LVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL-TVVFAEE 99 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l-~v~~a~~ 99 (193)
|-|-++++. ....|..+|.+||.|.+.... ....+-+|.|.+..+|++||.. ||..|+|..+ -|.-...
T Consensus 200 VTVfGFppg-~~s~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALsk-ng~ii~g~vmiGVkpCtD 269 (350)
T KOG4285|consen 200 VTVFGFPPG-QVSIVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALSK-NGTIIDGDVMIGVKPCTD 269 (350)
T ss_pred EEEeccCcc-chhHHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhhh-cCeeeccceEEeeeecCC
Confidence 556677764 446677899999999886554 2367899999999999999965 9999988754 4554433
No 137
>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=96.56 E-value=0.0068 Score=45.75 Aligned_cols=63 Identities=17% Similarity=0.210 Sum_probs=46.3
Q ss_pred CHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC--CceecCcEEEEEEeecCC
Q 029462 33 IVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD--GYLLLGRELTVVFAEENR 101 (193)
Q Consensus 33 t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~--g~~i~g~~l~v~~a~~~~ 101 (193)
..+.|+++|..|+.+..+.+... -+=..|.|.+.++|..|...|+ +..+.|..|+|.++....
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~ 72 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTP 72 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS
T ss_pred hHHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccccc
Confidence 45789999999998888777632 4567999999999999999999 899999999999985443
No 138
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=96.54 E-value=0.068 Score=40.80 Aligned_cols=64 Identities=19% Similarity=0.054 Sum_probs=36.5
Q ss_pred EeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHH--HhCCceec
Q 029462 25 FWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKY--HMDGYLLL 88 (193)
Q Consensus 25 V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~--~l~g~~i~ 88 (193)
+.+-...-+---|++-+...|.|---.-......-...=+-|-.=.+.|+|.+||. .|+|.+|-
T Consensus 21 LTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 21 LTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred eeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 33333333455666777777766422211122222223345666678899999985 67898874
No 139
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.48 E-value=0.00053 Score=61.75 Aligned_cols=78 Identities=13% Similarity=0.240 Sum_probs=63.2
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
.+..||++||+..+++.+|...|..+|.|..|.|.... -+....||||.|.+...+-.|+..|.+..|....+++-+.
T Consensus 371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG 448 (975)
T KOG0112|consen 371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLG 448 (975)
T ss_pred hhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccccCccccccc
Confidence 34569999999999999999999999999999887553 2334679999999999999999898888776545554443
No 140
>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=96.47 E-value=0.016 Score=36.14 Aligned_cols=54 Identities=22% Similarity=0.434 Sum_probs=42.6
Q ss_pred CCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEE
Q 029462 32 MIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 32 ~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v 94 (193)
++-++|+..+.+|+- ..| ..++ .|| ||.|.+..+|+.+....+|..+.+..|.+
T Consensus 12 ~~v~d~K~~Lr~y~~-~~I--~~d~-----tGf-YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 12 VTVEDFKKRLRKYRW-DRI--RDDR-----TGF-YIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred ccHHHHHHHHhcCCc-ceE--EecC-----CEE-EEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 678999999999964 233 3332 444 89999999999999999999988887765
No 141
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=96.38 E-value=0.0021 Score=56.24 Aligned_cols=79 Identities=9% Similarity=0.112 Sum_probs=65.7
Q ss_pred chhhccccccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec
Q 029462 9 ALEVTMAVVEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL 88 (193)
Q Consensus 9 ~~~~~~~~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 88 (193)
+..+...+.+....|||+|+...+..+-+..++...|.|..+... + |||.+|..+.-+..|+..|+-..++
T Consensus 29 p~qp~~~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~--------~-fgf~~f~~~~~~~ra~r~~t~~~~~ 99 (668)
T KOG2253|consen 29 PIQPVFQPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRD--------K-FGFCEFLKHIGDLRASRLLTELNID 99 (668)
T ss_pred CCcccccCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhh--------h-hcccchhhHHHHHHHHHHhcccCCC
Confidence 334444556666789999999999999999999999998877654 2 9999999999999999999999999
Q ss_pred CcEEEEEE
Q 029462 89 GRELTVVF 96 (193)
Q Consensus 89 g~~l~v~~ 96 (193)
|..+.+..
T Consensus 100 ~~kl~~~~ 107 (668)
T KOG2253|consen 100 DQKLIENV 107 (668)
T ss_pred cchhhccc
Confidence 98877655
No 142
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=96.10 E-value=0.036 Score=48.13 Aligned_cols=81 Identities=20% Similarity=0.199 Sum_probs=60.4
Q ss_pred ccCccEEEEeCCCCC-CCHHHHHHhhccC----CceEEEEEcCCC----------CCCC---------------------
Q 029462 17 VEEISRLVFWFATFA-MIVEDLRGPFGQF----GRLKDIYLPRDY----------YTGE--------------------- 60 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~-~t~~~l~~~F~~~----G~i~~v~i~~~~----------~~g~--------------------- 60 (193)
-..+.+|-|.||.|+ +...+|..+|..| |.|..|.|.... .+|.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 456678999999997 7788999888766 588888765321 1121
Q ss_pred ----------------cceEEEEEeCCHHHHHHHHHHhCCceecC--cEEEEEEe
Q 029462 61 ----------------PRGFGFVQYIDPADAADAKYHMDGYLLLG--RELTVVFA 97 (193)
Q Consensus 61 ----------------~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~l~v~~a 97 (193)
..=||.|+|.+++.|.+....++|.+|.. ..|-+.|.
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFI 305 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRFI 305 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeeec
Confidence 12379999999999999999999999874 44555544
No 143
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.06 E-value=0.013 Score=50.54 Aligned_cols=67 Identities=9% Similarity=0.103 Sum_probs=51.0
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhcc--CCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCC--ceecCcEEE
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQ--FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG--YLLLGRELT 93 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~--~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g--~~i~g~~l~ 93 (193)
-+.|++.-||..+..++|+.||.. +-++..|.+..+ .-=||+|++.+||+.|.+.|.- ++|-|+.|.
T Consensus 175 RcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N-------~nWyITfesd~DAQqAykylreevk~fqgKpIm 245 (684)
T KOG2591|consen 175 RCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHN-------DNWYITFESDTDAQQAYKYLREEVKTFQGKPIM 245 (684)
T ss_pred eeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeec-------CceEEEeecchhHHHHHHHHHHHHHhhcCcchh
Confidence 345888999999999999999975 567888877643 1349999999999999877643 245565543
No 144
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=95.84 E-value=0.13 Score=35.56 Aligned_cols=65 Identities=14% Similarity=0.085 Sum_probs=46.2
Q ss_pred EEEeCCCCCCCHHHHHHhhccC-CceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecC
Q 029462 23 LVFWFATFAMIVEDLRGPFGQF-GRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLG 89 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g 89 (193)
+.+...|..++.++|..+...+ ..|..+.|+.+. ..++-.+++.|.+.+.|..-...+||+.++-
T Consensus 16 ~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 16 CCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred EEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 4444445555556676555554 356678888763 2346678999999999999999999998753
No 145
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=95.36 E-value=0.01 Score=53.56 Aligned_cols=73 Identities=16% Similarity=0.176 Sum_probs=60.5
Q ss_pred EEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCcee--cCcEEEEEEeecCC
Q 029462 24 VFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL--LGRELTVVFAEENR 101 (193)
Q Consensus 24 ~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i--~g~~l~v~~a~~~~ 101 (193)
++.|.+-..+-..|-.+|.+||.|...+...+ -..|.|+|...+.|..|+.+|+|+++ .|-+.+|.+|+...
T Consensus 302 ~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~------~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~ 375 (1007)
T KOG4574|consen 302 SLENNAVNLTSSSLATLCSDYGSVASAWTLRD------LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLP 375 (1007)
T ss_pred hhhcccccchHHHHHHHHHhhcchhhheeccc------ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccccc
Confidence 44455555666778899999999999998865 67899999999999999999999974 58889999987655
Q ss_pred C
Q 029462 102 K 102 (193)
Q Consensus 102 ~ 102 (193)
.
T Consensus 376 ~ 376 (1007)
T KOG4574|consen 376 M 376 (1007)
T ss_pred c
Confidence 3
No 146
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=93.97 E-value=0.0016 Score=54.36 Aligned_cols=78 Identities=14% Similarity=0.141 Sum_probs=63.4
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
...+|.|.|+|+...|+-|..++.+||.|..|..+.. .--....-|+|...+.+..||..|+|..+....++|.|-.
T Consensus 79 rsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt---~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiP 155 (584)
T KOG2193|consen 79 RSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNT---DSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIP 155 (584)
T ss_pred HhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhcc---chHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCc
Confidence 3456899999999999999999999999999865431 1112344578889999999999999999999999998864
Q ss_pred c
Q 029462 99 E 99 (193)
Q Consensus 99 ~ 99 (193)
.
T Consensus 156 d 156 (584)
T KOG2193|consen 156 D 156 (584)
T ss_pred h
Confidence 3
No 147
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=93.78 E-value=0.034 Score=44.96 Aligned_cols=79 Identities=10% Similarity=-0.125 Sum_probs=61.6
Q ss_pred CccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEe
Q 029462 19 EISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
..+.+|++++.+.+.+.++..+|..+|.+..+.+.........+++++|.|...+.+..|+.......+.+..+...+.
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~ 165 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLN 165 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccc
Confidence 3566999999999888888888999998887766665567788999999999999999999654445666655544443
No 148
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=93.40 E-value=0.11 Score=38.71 Aligned_cols=75 Identities=19% Similarity=0.222 Sum_probs=55.9
Q ss_pred cEEEEeCCCCCCCH-----HHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCc-EEEE
Q 029462 21 SRLVFWFATFAMIV-----EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGR-ELTV 94 (193)
Q Consensus 21 ~rl~V~nl~~~~t~-----~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~-~l~v 94 (193)
+.|++.+++..+.. ...+.+|.+|.+.....+. ++.++.-|.|.+.+.|..|...++...|.|. .++.
T Consensus 11 ~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~l------rsfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~ 84 (193)
T KOG4019|consen 11 TAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLL------RSFRRVRINFSNPEAAADARIKLHSTSFNGKNELKL 84 (193)
T ss_pred ceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHH------HhhceeEEeccChhHHHHHHHHhhhcccCCCceEEE
Confidence 45788888776442 2345677777776666666 2356667899999999999999999999988 8888
Q ss_pred EEeecCC
Q 029462 95 VFAEENR 101 (193)
Q Consensus 95 ~~a~~~~ 101 (193)
.++.+..
T Consensus 85 yfaQ~~~ 91 (193)
T KOG4019|consen 85 YFAQPGH 91 (193)
T ss_pred EEccCCC
Confidence 8876543
No 149
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=93.36 E-value=3.4 Score=37.28 Aligned_cols=71 Identities=10% Similarity=0.109 Sum_probs=51.5
Q ss_pred ccEEEEe-CCCCCCCHHHHHHhhccCCceE-----EEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEE
Q 029462 20 ISRLVFW-FATFAMIVEDLRGPFGQFGRLK-----DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 20 ~~rl~V~-nl~~~~t~~~l~~~F~~~G~i~-----~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
+.++||. +-...++..+|..++..-+.|. .|.|. ..|.||+.. ...|...+..|++..+.|+.|.
T Consensus 486 ~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~--------~~~s~v~~~-~~~~~~~~~~~~~~~~~~~~~~ 556 (629)
T PRK11634 486 MQLYRIEVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLF--------ASHSTIELP-KGMPGEVLQHFTRTRILNKPMN 556 (629)
T ss_pred CEEEEEecccccCCCHHHHHHHHHhhcCCChhhCCcEEEe--------CCceEEEcC-hhhHHHHHHHhccccccCCceE
Confidence 3445553 2244578888888777655443 45555 568999986 4678889999999999999999
Q ss_pred EEEeec
Q 029462 94 VVFAEE 99 (193)
Q Consensus 94 v~~a~~ 99 (193)
|+.+..
T Consensus 557 ~~~~~~ 562 (629)
T PRK11634 557 MQLLGD 562 (629)
T ss_pred EEECCC
Confidence 998753
No 150
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=92.82 E-value=0.13 Score=32.16 Aligned_cols=61 Identities=16% Similarity=0.139 Sum_probs=45.0
Q ss_pred HHHHHhhccCC-ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 35 EDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 35 ~~l~~~F~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
.+|++.|.++| ++..+..+....+..+..+-||+.....+... .|+-+.|+|..|.|+-..
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~ 63 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPH 63 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCc
Confidence 35777788887 77788888777777778888998876544444 456678899998887643
No 151
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=92.80 E-value=0.36 Score=40.96 Aligned_cols=67 Identities=24% Similarity=0.255 Sum_probs=55.4
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccC-CceEEEEEcCCCCCCCc-ceEEEEEeCCHHHHHHHHHHhCCceecC
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQF-GRLKDIYLPRDYYTGEP-RGFGFVQYIDPADAADAKYHMDGYLLLG 89 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~-~g~afV~f~~~~~a~~Ai~~l~g~~i~g 89 (193)
...|+|-.+|..++-.||..|+..+ -.|.++.|+.|. .+ +=.++|.|.+.++|..-...+||+.|..
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~---~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG---MPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC---CCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 4569999999999999999888765 467888888753 33 4457899999999999999999998764
No 152
>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=91.42 E-value=0.4 Score=30.09 Aligned_cols=61 Identities=18% Similarity=0.188 Sum_probs=43.3
Q ss_pred HHHHHhhccCC-ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 35 EDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 35 ~~l~~~F~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
++|.+.|...| .|..+.-+....++.+...-||+.+...+. .+.++-..|++..|.|+...
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~---k~i~~Ik~l~~~~V~vE~~~ 63 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNN---KEIYKIKTLCGQRVKVERPR 63 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccc---cceeehHhhCCeEEEEecCC
Confidence 35666677666 677777777766777788889988765543 33456677889999888754
No 153
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.71 E-value=0.16 Score=42.97 Aligned_cols=78 Identities=3% Similarity=-0.237 Sum_probs=60.5
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
.+.|+..|+..+++.++.-+|+.||-|..+.+..-...|...-.+||...+ .+|+.+|..+.-.++.|..+.|.++..
T Consensus 4 ~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 4 MKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred hhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhhhhhhcCch
Confidence 346788899999999999999999999888776554556667778887654 567777777766777888888887754
No 154
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=84.66 E-value=7.4 Score=29.18 Aligned_cols=10 Identities=40% Similarity=0.212 Sum_probs=4.5
Q ss_pred CCCCCCCCCC
Q 029462 150 RGRDSRSISP 159 (193)
Q Consensus 150 ~~~~~rs~s~ 159 (193)
+++++|++++
T Consensus 139 srs~SRs~s~ 148 (195)
T KOG0107|consen 139 SRSRSRSRSR 148 (195)
T ss_pred cccccccCCC
Confidence 4444444443
No 155
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=83.96 E-value=0.23 Score=38.34 Aligned_cols=69 Identities=26% Similarity=0.298 Sum_probs=54.4
Q ss_pred cEEEEeC----CCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCc
Q 029462 21 SRLVFWF----ATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGR 90 (193)
Q Consensus 21 ~rl~V~n----l~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 90 (193)
.+++.|+ |...++++.+.+.|...|.|..+.+..+. +|.+..++|+++.-....-.|+...++..+.-+
T Consensus 81 ~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y~~l~~~~~ 153 (267)
T KOG4454|consen 81 RTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLYQGLELFQK 153 (267)
T ss_pred cccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhhcccCcCCC
Confidence 3477787 77788999999999999999999888776 478899999999877777777776666554333
No 156
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.20 E-value=2.2 Score=35.88 Aligned_cols=53 Identities=21% Similarity=0.125 Sum_probs=42.9
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCc-eEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGR-LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 81 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 81 (193)
.|-|-++|.....+||...|+.|+. -..|.|+-+ ..||..|.+..-|..||..
T Consensus 393 VlEIydfp~efkteDll~~f~~yq~kgfdIkWvDd-------thalaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 393 VLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDD-------THALAVFSSVNRAAEALTL 446 (528)
T ss_pred eeEeccCchhhccHHHHHHHHHhhcCCceeEEeec-------ceeEEeecchHHHHHHhhc
Confidence 4788999999888999999999964 345666643 4799999999999999854
No 157
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=82.70 E-value=0.53 Score=37.65 Aligned_cols=66 Identities=26% Similarity=0.434 Sum_probs=40.0
Q ss_pred cEEEEeCCCCC------------CCHHHHHHhhccCCceEEEEEcC-CC----CCCCc-----ceEEE---------EEe
Q 029462 21 SRLVFWFATFA------------MIVEDLRGPFGQFGRLKDIYLPR-DY----YTGEP-----RGFGF---------VQY 69 (193)
Q Consensus 21 ~rl~V~nl~~~------------~t~~~l~~~F~~~G~i~~v~i~~-~~----~~g~~-----~g~af---------V~f 69 (193)
.+|++.+||-. .+++-|...|+.||.|..|.|+. |+ -+|+. .||+| |.|
T Consensus 150 dti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayvqf 229 (445)
T KOG2891|consen 150 DTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYVQF 229 (445)
T ss_pred CceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHHHH
Confidence 34666666543 34677999999999999998753 33 23443 33333 333
Q ss_pred CCHHHHHHHHHHhCCce
Q 029462 70 IDPADAADAKYHMDGYL 86 (193)
Q Consensus 70 ~~~~~a~~Ai~~l~g~~ 86 (193)
-.......||..|.|..
T Consensus 230 meykgfa~amdalr~~k 246 (445)
T KOG2891|consen 230 MEYKGFAQAMDALRGMK 246 (445)
T ss_pred HHHHhHHHHHHHHhcch
Confidence 33344456666776664
No 158
>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=82.51 E-value=2.1 Score=29.77 Aligned_cols=55 Identities=16% Similarity=0.075 Sum_probs=28.0
Q ss_pred EEEEeCCCCCC---------CHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCC-HHHHHHHH
Q 029462 22 RLVFWFATFAM---------IVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYID-PADAADAK 79 (193)
Q Consensus 22 rl~V~nl~~~~---------t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~-~~~a~~Ai 79 (193)
.++|-|++... +.+.|.+.|..|..++. ..+.+.. .+.|+++|+|.. ..-...|+
T Consensus 10 mgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv-~~l~~~~--gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 10 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKV-KPLYGKQ--GHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SEE-EEEEETT--EEEEEEEEE--SSHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCcee-EECcCCC--CCcEEEEEEECCChHHHHHHH
Confidence 35666775433 44779999999987753 3334432 457999999975 33444444
No 159
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=82.14 E-value=1.9 Score=33.21 Aligned_cols=64 Identities=20% Similarity=0.191 Sum_probs=43.7
Q ss_pred ccCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHH
Q 029462 17 VEEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKY 80 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~ 80 (193)
......+++.+++..++..++..+|..+|.+....+...........+.++.+.....+..++.
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 (306)
T COG0724 222 LEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNS 285 (306)
T ss_pred ccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhc
Confidence 4455669999999999999999999999999777766554333334444444444444444443
No 160
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=81.10 E-value=4.7 Score=34.18 Aligned_cols=79 Identities=19% Similarity=0.237 Sum_probs=54.7
Q ss_pred cCccEEEEeCCCCC-CCHHHHHHhhccC----CceEEEEEcCCCC-----------------------------------
Q 029462 18 EEISRLVFWFATFA-MIVEDLRGPFGQF----GRLKDIYLPRDYY----------------------------------- 57 (193)
Q Consensus 18 ~~~~rl~V~nl~~~-~t~~~l~~~F~~~----G~i~~v~i~~~~~----------------------------------- 57 (193)
..+.+|-|-||.|+ +...+|..+|..| |.|..|.|.....
T Consensus 144 ~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iypsefGkeRm~~e~vqGpprdif~~~d~~~ssqk~~~dn~ 223 (622)
T COG5638 144 NPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYPSEFGKERMAAEHVQGPPRDIFTPADNQPSSQKFGDDNV 223 (622)
T ss_pred CcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEechhhhhHHHHhHhhccCCchhhccccccCcchhccCCccc
Confidence 45577999999996 7778898888765 5666666532110
Q ss_pred -----CC-------------------------CcceEEEEEeCCHHHHHHHHHHhCCceecC--cEEEEEE
Q 029462 58 -----TG-------------------------EPRGFGFVQYIDPADAADAKYHMDGYLLLG--RELTVVF 96 (193)
Q Consensus 58 -----~g-------------------------~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g--~~l~v~~ 96 (193)
.| ...-||+|+|.+.+.++.....++|.++.. ..+.+.|
T Consensus 224 ~sd~d~g~d~~~Egd~g~e~d~~~lrqyqlerlryYyAvvec~d~~tsK~iY~~CDG~Eye~san~~DLRf 294 (622)
T COG5638 224 FSDRDAGEDALIEGDRGNEFDMVKLRQYQLERLRYYYAVVECEDIETSKNIYSACDGVEYENSANVLDLRF 294 (622)
T ss_pred hhhhhcchhhhhhcccccchhHHHHHHHHhhhheeEEEEEEeccchhhHHHHhccCccccccccceeeeee
Confidence 00 002379999999999999999999998764 3344444
No 161
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=81.04 E-value=3.4 Score=33.28 Aligned_cols=45 Identities=13% Similarity=0.091 Sum_probs=34.8
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCce-EEEEEcCCCCCCCcceEEEEEeCCH
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRL-KDIYLPRDYYTGEPRGFGFVQYIDP 72 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i-~~v~i~~~~~~g~~~g~afV~f~~~ 72 (193)
-|+++||+.++...||+..+.+.+.+ ..+.+. .+.|-||+.|.+.
T Consensus 332 di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk------g~~~k~flh~~~~ 377 (396)
T KOG4410|consen 332 DIKLTNLSRDIRVKDLKSELRKRECTPMSISWK------GHFGKCFLHFGNR 377 (396)
T ss_pred ceeeccCccccchHHHHHHHHhcCCCceeEeee------cCCcceeEecCCc
Confidence 39999999999999999999887643 344443 2367899999764
No 162
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=79.13 E-value=7.1 Score=25.54 Aligned_cols=58 Identities=9% Similarity=0.157 Sum_probs=39.7
Q ss_pred EEEEeCCCCCCCHHHHHHhhcc-CC-ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHh
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQ-FG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l 82 (193)
..|+--++..++..+|+..++. || .|..|..+.-+ ...-=|||++..-.+|.+....|
T Consensus 22 n~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~---~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 22 NKLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP---KGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCcEEEEEEeCCCCcHHHHHHhh
Confidence 3455567788898888888876 55 56666554332 22456999999888888775544
No 163
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=77.59 E-value=1 Score=36.89 Aligned_cols=12 Identities=17% Similarity=0.197 Sum_probs=7.4
Q ss_pred CHHHHHHhhccC
Q 029462 33 IVEDLRGPFGQF 44 (193)
Q Consensus 33 t~~~l~~~F~~~ 44 (193)
...+|++.|+.|
T Consensus 170 pp~dLw~WyEpy 181 (453)
T KOG2888|consen 170 PPADLWDWYEPY 181 (453)
T ss_pred ChhHHHHHhhhh
Confidence 345666666665
No 164
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=76.14 E-value=4.3 Score=33.94 Aligned_cols=69 Identities=14% Similarity=0.292 Sum_probs=47.1
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCc-eEEEEEcCCCC--CCCcceEEEEEeCCHHHHHHHHHHhCCceec
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGR-LKDIYLPRDYY--TGEPRGFGFVQYIDPADAADAKYHMDGYLLL 88 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~-i~~v~i~~~~~--~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 88 (193)
..+|.|.+||+..++.+|.+.+..|-. |....+..... -..-.+.|||.|.+.++...-...++|++|.
T Consensus 7 ~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 7 KVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred ceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 456999999999999988877776532 22222221110 0112567899999999988888888988753
No 165
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=75.83 E-value=0.38 Score=41.90 Aligned_cols=73 Identities=10% Similarity=0.034 Sum_probs=52.9
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCc
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGR 90 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~ 90 (193)
..++.|||.|++++++-++|+.++..+--+..+.+-.........-+++|+|.--.+...|+.+||+..+...
T Consensus 229 hke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s~ 301 (648)
T KOG2295|consen 229 HKECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRSN 301 (648)
T ss_pred hHHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccccc
Confidence 3445699999999999999999999886666655543322223356788999877777788888887765443
No 166
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=71.28 E-value=14 Score=23.75 Aligned_cols=58 Identities=7% Similarity=0.122 Sum_probs=39.4
Q ss_pred EEEEeCCCCCCCHHHHHHhhcc-CC-ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHh
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQ-FG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l 82 (193)
.-|+-.++..++..+|+..++. || .|..|..+.-+ ...-=|||++..-+.|.+.-..|
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~---~~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP---RGEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCceEEEEEECCCCcHHHHHHhh
Confidence 3566678888999999988876 55 55666544322 22456999998877777765443
No 167
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=70.89 E-value=11 Score=23.03 Aligned_cols=19 Identities=26% Similarity=0.623 Sum_probs=16.1
Q ss_pred HHHHHhhccCCceEEEEEc
Q 029462 35 EDLRGPFGQFGRLKDIYLP 53 (193)
Q Consensus 35 ~~l~~~F~~~G~i~~v~i~ 53 (193)
++|+++|+.+|+|.-+.+.
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 6799999999999877664
No 168
>KOG1847 consensus mRNA splicing factor [RNA processing and modification]
Probab=69.53 E-value=3.4 Score=36.98 Aligned_cols=10 Identities=60% Similarity=0.630 Sum_probs=4.0
Q ss_pred CCCCCCCCCC
Q 029462 151 GRDSRSISPR 160 (193)
Q Consensus 151 ~~~~rs~s~~ 160 (193)
++++|++|++
T Consensus 748 r~rsRsrSpr 757 (878)
T KOG1847|consen 748 RGRSRSRSPR 757 (878)
T ss_pred ccccccCCch
Confidence 3334444443
No 169
>PRK11901 hypothetical protein; Reviewed
Probab=67.86 E-value=10 Score=31.21 Aligned_cols=60 Identities=13% Similarity=0.014 Sum_probs=37.4
Q ss_pred EEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEE--EEeCCHHHHHHHHHHhCCc
Q 029462 24 VFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGF--VQYIDPADAADAKYHMDGY 85 (193)
Q Consensus 24 ~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~af--V~f~~~~~a~~Ai~~l~g~ 85 (193)
|.--|--...++.|..|..+++ +..++|..-...|+ .-|.+ -.|.+.++|+.||..|-..
T Consensus 246 YTLQL~Aas~~~~L~~f~~~~~-L~~~~VYqT~RnGk-pWYVVvyG~Y~Sr~eAk~Ai~sLPa~ 307 (327)
T PRK11901 246 YTLQLSSASRSDTLNAYAKKQN-LSHYHVYETKRDGK-PWYVLVSGNYASSAEAKRAIATLPAE 307 (327)
T ss_pred eEEEeecCCCHHHHHHHHHHcC-cCceEEEEEEECCc-eEEEEEecCcCCHHHHHHHHHhCCHH
Confidence 3333433456888888887775 44555544333333 23443 3688999999999988643
No 170
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=67.24 E-value=8.1 Score=31.50 Aligned_cols=33 Identities=21% Similarity=0.053 Sum_probs=24.6
Q ss_pred EEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeec
Q 029462 65 GFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEE 99 (193)
Q Consensus 65 afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~ 99 (193)
|||+|.+..+|+.|++.+....- ..+.|+.|.+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~--~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRP--NSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCC--CCceEeeCCC
Confidence 79999999999999986655443 4456666643
No 171
>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=67.13 E-value=16 Score=29.69 Aligned_cols=78 Identities=17% Similarity=0.231 Sum_probs=54.4
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCC-------CCCCcceEEEEEeCCHHHHHHH----HHHhCC--cee
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDY-------YTGEPRGFGFVQYIDPADAADA----KYHMDG--YLL 87 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~-------~~g~~~g~afV~f~~~~~a~~A----i~~l~g--~~i 87 (193)
..|.+.|+...++--.+...|.+||+|+.|.++.+. ...+...-..+.|-+.+.|..- +..|.- ..+
T Consensus 16 RSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~~L 95 (309)
T PF10567_consen 16 RSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKTKL 95 (309)
T ss_pred HHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHHhc
Confidence 348889999888888888889999999999998664 1123345678888888777643 223322 235
Q ss_pred cCcEEEEEEee
Q 029462 88 LGRELTVVFAE 98 (193)
Q Consensus 88 ~g~~l~v~~a~ 98 (193)
.-..|.|.|..
T Consensus 96 ~S~~L~lsFV~ 106 (309)
T PF10567_consen 96 KSESLTLSFVS 106 (309)
T ss_pred CCcceeEEEEE
Confidence 56667776654
No 172
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=62.59 E-value=15 Score=24.11 Aligned_cols=48 Identities=10% Similarity=-0.026 Sum_probs=29.7
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeC
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYI 70 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~ 70 (193)
..-|||+|++..+-+.-.+.+.+..+.-.-+-+..+. ...||+|-++-
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~~---neqG~~~~t~G 72 (86)
T PF09707_consen 25 RPGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSDN---NEQGFDFRTLG 72 (86)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEccC---CCCCEEEEEeC
Confidence 3459999999888776555555544433333333222 25899998873
No 173
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=59.01 E-value=61 Score=22.89 Aligned_cols=70 Identities=17% Similarity=0.058 Sum_probs=47.3
Q ss_pred cEEEEeCCCCC---CCHHHHHHhhccCC-ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 21 SRLVFWFATFA---MIVEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 21 ~rl~V~nl~~~---~t~~~l~~~F~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
..|.|...... .+...++..+.+-| .++.+... .+-..|.|.+.++-.+|.+.|....-++..|.+..
T Consensus 36 pavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~--------~~~~~irf~~~~~Ql~Ak~vL~~~L~~~y~VAlnl 107 (127)
T PRK10629 36 STLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPE--------NDSLLIRFDSPEQSAAAKEVLDRTLPHGYIIAQQD 107 (127)
T ss_pred ceEEEecCCCCCccchHHHHHHHHHHCCCCcceEEee--------CCEEEEEECCHHHHHHHHHHHHHHcCCCCEEEEec
Confidence 44667665332 45567777777766 44455443 34678999999999999888876655566777666
Q ss_pred ee
Q 029462 97 AE 98 (193)
Q Consensus 97 a~ 98 (193)
+.
T Consensus 108 ~p 109 (127)
T PRK10629 108 DN 109 (127)
T ss_pred CC
Confidence 54
No 174
>PF03439 Spt5-NGN: Early transcription elongation factor of RNA pol II, NGN section; InterPro: IPR005100 Spt5p and prokaryotic NusG are shown to contain a novel 'NGN' domain. The combined NGN and KOW motif regions of Spt5 form the binding domain with Spt4 []. Spt5 complexes with Spt4 as a 1:1 heterodimer snf this Spt5-Spt4 complex regulates early transcription elongation by RNA polymerase II and has an imputed role in pre-mRNA processing via its physical association with mRNA capping enzymes. The Schizosaccharomyces pombe core Spt5-Spt4 complex is a heterodimer bearing a trypsin-resistant Spt4-binding domain within the Spt5 subunit []. ; PDB: 3H7H_B 3QQC_D 3P8B_B 2EXU_A.
Probab=58.04 E-value=21 Score=23.11 Aligned_cols=35 Identities=17% Similarity=0.329 Sum_probs=24.0
Q ss_pred ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCc
Q 029462 46 RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 85 (193)
Q Consensus 46 ~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 85 (193)
.|..+.... ..+||-|||=.+..++..|+..+.+.
T Consensus 33 ~I~Si~~~~-----~lkGyIyVEA~~~~~V~~ai~gi~~i 67 (84)
T PF03439_consen 33 NIYSIFAPD-----SLKGYIYVEAERESDVKEAIRGIRHI 67 (84)
T ss_dssp ---EEEE-T-----TSTSEEEEEESSHHHHHHHHTT-TTE
T ss_pred ceEEEEEeC-----CCceEEEEEeCCHHHHHHHHhcccce
Confidence 455665553 34999999999999999999776654
No 175
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=57.66 E-value=45 Score=20.87 Aligned_cols=44 Identities=14% Similarity=0.102 Sum_probs=28.7
Q ss_pred HHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 35 EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 35 ~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.+|.+++.++| +..+.|.- + ...++.|+.+.+.+.+++++..|.
T Consensus 37 ~~~~~~~~~~G-a~~~~~sG---s-G~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSG---S-GGGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEET---T-SSSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCC---C-CCCCeEEEEECCHHHHHHHHHHHH
Confidence 45667777888 44444431 1 114677888889999888887764
No 176
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=56.57 E-value=14 Score=28.95 Aligned_cols=33 Identities=18% Similarity=0.257 Sum_probs=26.8
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhccCCceEEE
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQFGRLKDI 50 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v 50 (193)
.+...||+.|+|..+|++.|..+..+.|-+..+
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 344569999999999999999999988855443
No 177
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=56.47 E-value=22 Score=31.12 Aligned_cols=59 Identities=10% Similarity=-0.024 Sum_probs=43.0
Q ss_pred EEeCCCCCCC---HHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEE
Q 029462 24 VFWFATFAMI---VEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL 92 (193)
Q Consensus 24 ~V~nl~~~~t---~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l 92 (193)
+||||+.-.. ...+.++=.+||.|-.+++-. .-.|...+.+.|++|+.. |+..+.++..
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~---------~~~Vviss~~~akE~l~~-~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS---------VPVVVISSYEAAKEVLVK-QDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC---------ceEEEECCHHHHHHHHHh-CCccccCCCC
Confidence 6777765433 345666666899999777642 236777889999999965 8888888875
No 178
>PF02426 MIase: Muconolactone delta-isomerase; InterPro: IPR003464 This small enzyme forms a homodecameric complex, that catalyses the third step in the catabolism of catechol to succinate- and acetyl-coa in the beta-ketoadipate pathway (5.3.3.4 from EC). The protein has a ferredoxin-like fold according to SCOP.; GO: 0006725 cellular aromatic compound metabolic process
Probab=56.40 E-value=56 Score=21.66 Aligned_cols=57 Identities=9% Similarity=0.098 Sum_probs=42.3
Q ss_pred CCCCCCCHHHHHHh----------hccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCcee
Q 029462 27 FATFAMIVEDLRGP----------FGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL 87 (193)
Q Consensus 27 nl~~~~t~~~l~~~----------F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i 87 (193)
++|.+++.+++.++ ++.-|.+..++-+ .|...++++++-++.++..+.|..|--..+
T Consensus 10 ~~P~~~~~~~~~~~~a~E~~~a~eLq~~G~~~~lWr~----~G~~~n~~Ifdv~d~~eLh~lL~sLPL~p~ 76 (91)
T PF02426_consen 10 NVPPDMPPEEVDRLKAREKARAQELQRQGKWRHLWRV----VGRYANVSIFDVEDNDELHELLSSLPLFPY 76 (91)
T ss_pred eCCCCCCHHHHHHHHHHHHHHHHHHHHCCeeeEEEEe----cCCcceEEEEECCCHHHHHHHHHhCCCccc
Confidence 77888887765443 4556899888765 466688999999999999988877665443
No 179
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=56.40 E-value=28 Score=25.27 Aligned_cols=56 Identities=5% Similarity=0.094 Sum_probs=34.4
Q ss_pred EEEeCCCCCCCHHHHHHhhcc-CC-ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 029462 23 LVFWFATFAMIVEDLRGPFGQ-FG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 81 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~-~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 81 (193)
.|+.-+....+..+|++.+++ |+ .|..|..+.-+ ...-=|||.+....+|.+....
T Consensus 84 ~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p---~g~KKA~V~L~~~~~aidva~k 141 (145)
T PTZ00191 84 TLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITP---DGLKKAYIRLSPDVDALDVANK 141 (145)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcC---CCceEEEEEECCCCcHHHHHHh
Confidence 445556677888888888876 44 55566444322 1234689999776665544333
No 180
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=54.07 E-value=45 Score=24.24 Aligned_cols=35 Identities=14% Similarity=0.199 Sum_probs=26.9
Q ss_pred eEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCce
Q 029462 47 LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 86 (193)
Q Consensus 47 i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 86 (193)
|..|.++.. ..||.||+....+++..+|..+.+..
T Consensus 36 i~~i~vp~~-----fpGYVfVe~~~~~~~~~~i~~v~~v~ 70 (153)
T PRK08559 36 IYAILAPPE-----LKGYVLVEAESKGAVEEAIRGIPHVR 70 (153)
T ss_pred EEEEEccCC-----CCcEEEEEEEChHHHHHHHhcCCCEe
Confidence 666666543 48999999998888888888777643
No 181
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=50.13 E-value=18 Score=28.87 Aligned_cols=33 Identities=12% Similarity=-0.084 Sum_probs=25.1
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcC
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPR 54 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~ 54 (193)
-..|+|||++++..-|..++...-.+....++.
T Consensus 97 ~~vVaNlPY~Isspii~kll~~~~~~~~~v~M~ 129 (259)
T COG0030 97 YKVVANLPYNISSPILFKLLEEKFIIQDMVLMV 129 (259)
T ss_pred CEEEEcCCCcccHHHHHHHHhccCccceEEEEe
Confidence 478999999999999999888755554444443
No 182
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=49.69 E-value=52 Score=19.30 Aligned_cols=53 Identities=9% Similarity=-0.010 Sum_probs=38.6
Q ss_pred EEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCH----HHHHHHHHH
Q 029462 23 LVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDP----ADAADAKYH 81 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~----~~a~~Ai~~ 81 (193)
|.|.||.-..-...|+..+...-.|..+.+-.. .+-+-|+|... ++..++|..
T Consensus 2 ~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~------~~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 2 FKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLE------TKTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEESTTSHHHHHHHHHHHHTSTTEEEEEEETT------TTEEEEEESTTTSCHHHHHHHHHH
T ss_pred EEECCcccHHHHHHHHHHHhcCCCCcEEEEECC------CCEEEEEEecCCCCHHHHHHHHHH
Confidence 677788776667889999999888888877643 46778888643 566666655
No 183
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=48.95 E-value=27 Score=21.78 Aligned_cols=25 Identities=12% Similarity=0.177 Sum_probs=20.3
Q ss_pred eEEEEEeCCHHHHHHHHHHhCCcee
Q 029462 63 GFGFVQYIDPADAADAKYHMDGYLL 87 (193)
Q Consensus 63 g~afV~f~~~~~a~~Ai~~l~g~~i 87 (193)
.+.+|+|.+..+|.+|-..|....|
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi 26 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGI 26 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCC
Confidence 3689999999999999888775544
No 184
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=48.95 E-value=75 Score=20.86 Aligned_cols=46 Identities=28% Similarity=0.329 Sum_probs=31.6
Q ss_pred HHHHHHhhccCC-ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 34 VEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 34 ~~~l~~~F~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.+.++++++++| ++..+.+.. |.-=.+..+++.+.+.|.++.-.+.
T Consensus 22 ~~a~~~~~e~~Gg~l~~~y~t~----G~yD~v~i~eaPD~~~a~~~~l~i~ 68 (91)
T PF08734_consen 22 AEAVRALIEALGGKLKSFYWTL----GEYDFVVIVEAPDDETAAAASLAIR 68 (91)
T ss_pred HHHHHHHHHHcCCEEEEEEEec----CCCCEEEEEEcCCHHHHHHHHHHHH
Confidence 355777777765 788887764 3334567788889888887765543
No 185
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=48.87 E-value=12 Score=20.20 Aligned_cols=18 Identities=17% Similarity=0.283 Sum_probs=10.9
Q ss_pred CCCCCHHHHHHhhccCCc
Q 029462 29 TFAMIVEDLRGPFGQFGR 46 (193)
Q Consensus 29 ~~~~t~~~l~~~F~~~G~ 46 (193)
-.++++++|+++|.+...
T Consensus 18 ~~Dtd~~~Lk~vF~~i~~ 35 (36)
T PF11411_consen 18 TVDTDEDQLKEVFNRIKK 35 (36)
T ss_dssp SS---HHHHHHHHHCS--
T ss_pred cccCCHHHHHHHHHHhcc
Confidence 346889999999987653
No 186
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=48.82 E-value=28 Score=23.41 Aligned_cols=48 Identities=6% Similarity=-0.108 Sum_probs=27.5
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCC
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYID 71 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~ 71 (193)
.-|||++++..+-+...+.+-+.++.-.-+-+..+ + ...||+|-++.+
T Consensus 28 ~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~~~--~-~eqG~~~~t~G~ 75 (97)
T PRK11558 28 AGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAWAT--N-TESGFEFQTFGE 75 (97)
T ss_pred CCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEEcC--C-CCCCcEEEecCC
Confidence 45999999887776544444444433222222222 2 335999998764
No 187
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=47.76 E-value=57 Score=22.81 Aligned_cols=45 Identities=13% Similarity=0.275 Sum_probs=25.9
Q ss_pred CCCHHHHHHhhcc-CC----ceEEEEEcCCCCCCCcceEEEEEeCCHHHHH
Q 029462 31 AMIVEDLRGPFGQ-FG----RLKDIYLPRDYYTGEPRGFGFVQYIDPADAA 76 (193)
Q Consensus 31 ~~t~~~l~~~F~~-~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~ 76 (193)
.++.++|++-+.+ |- .|.-..+-....+|++.|||.| |.+.+.|.
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~ak 83 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAK 83 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHH
Confidence 3667777765554 22 2222234444466788889988 55555554
No 188
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=47.55 E-value=67 Score=19.89 Aligned_cols=55 Identities=11% Similarity=0.075 Sum_probs=38.9
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCC----HHHHHHHHHH
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYID----PADAADAKYH 81 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~----~~~a~~Ai~~ 81 (193)
..|.|-++.-..-...++..+.....|..+.+-.+ .+-++|+|.+ .++...||..
T Consensus 4 ~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~------~~~~~V~~d~~~~~~~~i~~ai~~ 62 (71)
T COG2608 4 TTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLE------KGTATVTFDSNKVDIEAIIEAIED 62 (71)
T ss_pred EEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcc------cCeEEEEEcCCcCCHHHHHHHHHH
Confidence 34777777766667788888888887888887654 5669999987 3444455544
No 189
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=46.64 E-value=47 Score=22.33 Aligned_cols=78 Identities=13% Similarity=0.054 Sum_probs=42.2
Q ss_pred cEEEEeCCCCCCC--HHHHHHhhccCCceEEEEEcCCCCCCCcceE-EEEEeCC--HHHHHHHHHHhCCceec-CcEEEE
Q 029462 21 SRLVFWFATFAMI--VEDLRGPFGQFGRLKDIYLPRDYYTGEPRGF-GFVQYID--PADAADAKYHMDGYLLL-GRELTV 94 (193)
Q Consensus 21 ~rl~V~nl~~~~t--~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~-afV~f~~--~~~a~~Ai~~l~g~~i~-g~~l~v 94 (193)
.+|.++-.....+ .+.|.++|.+.+.|..+++..-...+....+ -.|+|.. .+....+|..+....+. +..|.+
T Consensus 6 ~~v~l~~P~~~p~~l~~aL~~~~~~~~~V~~Ayl~~~~~~~~~~~~li~vd~~~~~~~~~~~~i~~~~~~~~~~~~~vd~ 85 (108)
T PF14581_consen 6 EKVLLGEPEEEPTDLLAALSEYFKQHKNVRAAYLALMQDEDEQPSLLIGVDFDGEDIEEIFQEIGRAARPYLPDGWPVDF 85 (108)
T ss_pred CEEEecCCccCHHHHHHHHHHHHhhCccHHHhHHHHhhccCCCceEEEEEeccChhHHHHHHHHHHHhhhcCCCCceEEE
Confidence 4566654433222 3678899999999987766543332333444 4566765 33344444443333333 366666
Q ss_pred EEee
Q 029462 95 VFAE 98 (193)
Q Consensus 95 ~~a~ 98 (193)
....
T Consensus 86 ~~~~ 89 (108)
T PF14581_consen 86 VLLD 89 (108)
T ss_pred EEcc
Confidence 5543
No 190
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=45.97 E-value=56 Score=20.60 Aligned_cols=37 Identities=11% Similarity=0.250 Sum_probs=25.6
Q ss_pred hccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCce
Q 029462 41 FGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 86 (193)
Q Consensus 41 F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 86 (193)
+.+||.|..+.=. ..|+. .|.|.++++..++.|....
T Consensus 17 L~kfG~i~Y~Skk--------~kYvv-lYvn~~~~e~~~~kl~~l~ 53 (71)
T PF09902_consen 17 LRKFGDIHYVSKK--------MKYVV-LYVNEEDVEEIIEKLKKLK 53 (71)
T ss_pred HhhcccEEEEECC--------ccEEE-EEECHHHHHHHHHHHhcCC
Confidence 4789998766321 34554 4678899999998887543
No 191
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=45.10 E-value=12 Score=33.73 Aligned_cols=72 Identities=11% Similarity=0.033 Sum_probs=54.1
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v 94 (193)
.||+.|-....+..-+..++..++++....++.....+...+-||++|.....|+.|. .|.+..+....+++
T Consensus 513 ~i~~~~~~~~s~~~s~s~~s~~~~~ltk~k~l~~Cky~~~Ct~a~Ce~~HPtaa~~~~-s~p~k~fa~~~~ks 584 (681)
T KOG3702|consen 513 TIFVANGHGGSNPDSLSRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENAK-SLPNKKFASKCLKS 584 (681)
T ss_pred ceecccccccCCCcchhhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhhh-ccccccccccceec
Confidence 5777777777777788888888998888777666666777778999999988887775 55666665554443
No 192
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=44.61 E-value=13 Score=31.49 Aligned_cols=59 Identities=20% Similarity=0.085 Sum_probs=44.5
Q ss_pred EEEEeCCCCCCCH--------HHHHHhhcc--CCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHH
Q 029462 22 RLVFWFATFAMIV--------EDLRGPFGQ--FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKY 80 (193)
Q Consensus 22 rl~V~nl~~~~t~--------~~l~~~F~~--~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~ 80 (193)
.+|+.++...... +++..+|.. .+.+..+.+-.+.......|..|++|...+.|+.++.
T Consensus 176 ~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 176 DVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 3777777655443 488889988 5677777766665566778889999999999998873
No 193
>PF14893 PNMA: PNMA
Probab=44.16 E-value=22 Score=29.47 Aligned_cols=76 Identities=13% Similarity=0.112 Sum_probs=41.0
Q ss_pred cCccEEEEeCCCCCCCHHHHHHhhcc----CCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEE
Q 029462 18 EEISRLVFWFATFAMIVEDLRGPFGQ----FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~t~~~l~~~F~~----~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
+....|.|.+||.++++++|++.+.. .|...-+.-+..+. .+...|+|+|...-+-...-..+-| .|...+
T Consensus 16 ~~~r~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~--~~~~aalve~~e~~n~~~iP~~i~g---~gg~W~ 90 (331)
T PF14893_consen 16 DPQRALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRRE--ENAKAALVEFAEDVNYSLIPREIPG---KGGPWR 90 (331)
T ss_pred ChhhhheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhhh--cccceeeeecccccchhhCchhcCC---CCCceE
Confidence 33456999999999999998887653 34322221111111 2255788888743322222122221 345666
Q ss_pred EEEee
Q 029462 94 VVFAE 98 (193)
Q Consensus 94 v~~a~ 98 (193)
|-+..
T Consensus 91 Vv~~p 95 (331)
T PF14893_consen 91 VVFKP 95 (331)
T ss_pred EEecC
Confidence 65543
No 194
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=43.74 E-value=1.3e+02 Score=22.57 Aligned_cols=76 Identities=9% Similarity=0.075 Sum_probs=39.0
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEE-EEeCCHH---HHHHHHHHhCCceecCcEEEEEEe
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGF-VQYIDPA---DAADAKYHMDGYLLLGRELTVVFA 97 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~af-V~f~~~~---~a~~Ai~~l~g~~i~g~~l~v~~a 97 (193)
.|.|.--|..++-++|.++|-+.-.... +..+ .+-....|-= |-+.+.+ .|++.+..+....+.+.+|.+++.
T Consensus 59 ~V~V~yDp~~isy~~LL~~ff~ihDPT~--~nrQ-GnD~GtqYRs~Iy~~~~~q~~~a~~~~~~~q~~~~~~~~IvteI~ 135 (174)
T COG0225 59 AVEVTYDPKVISYEELLEVFFEIHDPTS--LNRQ-GNDRGTQYRSAIYYTNEEQKAIAEASIEELQASGYFKKPIVTEIE 135 (174)
T ss_pred EEEEEeCCccccHHHHHHHHheecCCCC--CCcc-CCcccccceeEEEEcCHHHHHHHHHHHHHHHHhccCCCCeEEEee
Confidence 4777777778887777777644321111 1111 0011122322 3334444 445556666655566777877765
Q ss_pred ecC
Q 029462 98 EEN 100 (193)
Q Consensus 98 ~~~ 100 (193)
...
T Consensus 136 p~~ 138 (174)
T COG0225 136 PAK 138 (174)
T ss_pred ccc
Confidence 433
No 195
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=43.31 E-value=9.4 Score=31.64 Aligned_cols=48 Identities=17% Similarity=0.108 Sum_probs=35.9
Q ss_pred HHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCc
Q 029462 34 VEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 85 (193)
Q Consensus 34 ~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 85 (193)
...|.+++++.|.|..-.+..- -+-|.+||.+...++++++++.|.+.
T Consensus 275 ~p~iF~~i~~~G~v~~~EM~rt----FNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 275 PPPIFKWLQKAGNVEREEMYRT----FNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CcHHHHHHHHhcCCCHHHHHHH----hcCccceEEEEcHHHHHHHHHHHHhc
Confidence 4567777888887765555432 22678888889999999999998865
No 196
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=43.27 E-value=8.3 Score=23.98 Aligned_cols=39 Identities=13% Similarity=0.280 Sum_probs=26.6
Q ss_pred HHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 35 EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 35 ~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
++|++.|..+.....+. +-.+|.-|.+.++|..++..+.
T Consensus 27 ~~v~~~~~~~~~f~k~v----------kL~aF~pF~s~~~ALe~~~ais 65 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKIV----------KLKAFSPFKSAEEALENANAIS 65 (67)
T ss_pred HHHHHHHcCHHHHhhhh----------hhhhccCCCCHHHHHHHHHHhh
Confidence 57777777655443321 3358999999998888876653
No 197
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=42.96 E-value=94 Score=20.63 Aligned_cols=52 Identities=19% Similarity=0.143 Sum_probs=32.7
Q ss_pred CCCCCCHHHHHHhhccCCce-EEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 28 ATFAMIVEDLRGPFGQFGRL-KDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 28 l~~~~t~~~l~~~F~~~G~i-~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
+.+.++...|...|..-|.- +...+-.|- =+.+|.|+|.+.+.+..|...|.
T Consensus 20 ~~p~l~~~~i~~Q~~~~gkk~~pp~lRkD~----W~pm~vv~f~~~~~g~~~yq~Lr 72 (91)
T PF12829_consen 20 QTPNLDNNQILKQFPFPGKKNKPPSLRKDY----WRPMCVVNFPNYEVGVSAYQKLR 72 (91)
T ss_pred cCcccChhHHHHhccCCCcccCCchhcccc----ceEeEEEECCChHHHHHHHHHHH
Confidence 44456677777666655531 111222222 16799999999999999887664
No 198
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=42.45 E-value=85 Score=20.91 Aligned_cols=47 Identities=11% Similarity=-0.065 Sum_probs=28.2
Q ss_pred EEEeCCCCCCCHHH---HHHhhccCCceEEEEE--cCCCCCCCcceEEEEEe
Q 029462 23 LVFWFATFAMIVED---LRGPFGQFGRLKDIYL--PRDYYTGEPRGFGFVQY 69 (193)
Q Consensus 23 l~V~nl~~~~t~~~---l~~~F~~~G~i~~v~i--~~~~~~g~~~g~afV~f 69 (193)
.|+.|||.++.+.. ++..|.++..-..|.+ ......+...|++.+.+
T Consensus 13 a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~ 64 (103)
T PF05189_consen 13 AFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLV 64 (103)
T ss_dssp EEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEE
T ss_pred EEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEE
Confidence 68899999888754 4566777765444443 22234555677765544
No 199
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=42.05 E-value=1.1e+02 Score=21.04 Aligned_cols=71 Identities=13% Similarity=0.068 Sum_probs=35.5
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeC--C------HHHHHHHHHHhCCceecCcEEE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYI--D------PADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~--~------~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
.||||++|.....+.|++. .+..|.++.-... .....++-++.|. + .+....++..++...-.|.+|.
T Consensus 7 ~l~~G~~~~~~~~~~l~~~--gi~~Vi~l~~~~~--~~~~~~~~~~~ipi~D~~~~~~~~~~~~~~~~i~~~~~~~~~Vl 82 (138)
T smart00195 7 HLYLGSYSSALNLALLKKL--GITHVINVTNEVP--NLNKKGFTYLGVPILDNTETKISPYFPEAVEFIEDAEKKGGKVL 82 (138)
T ss_pred CeEECChhHcCCHHHHHHc--CCCEEEEccCCCC--CCCCCCCEEEEEECCCCCCCChHHHHHHHHHHHHHHhcCCCeEE
Confidence 4999999876665555442 3445555432211 1122444444432 2 1233455555554444566666
Q ss_pred EEE
Q 029462 94 VVF 96 (193)
Q Consensus 94 v~~ 96 (193)
|.-
T Consensus 83 VHC 85 (138)
T smart00195 83 VHC 85 (138)
T ss_pred EEC
Confidence 654
No 200
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=41.56 E-value=67 Score=24.28 Aligned_cols=50 Identities=12% Similarity=0.024 Sum_probs=32.7
Q ss_pred CCHHHHHHhhccC-CceEEEEEcCCC-CCCCcceEEEEEeCCHHHHHHHHHH
Q 029462 32 MIVEDLRGPFGQF-GRLKDIYLPRDY-YTGEPRGFGFVQYIDPADAADAKYH 81 (193)
Q Consensus 32 ~t~~~l~~~F~~~-G~i~~v~i~~~~-~~g~~~g~afV~f~~~~~a~~Ai~~ 81 (193)
.|+++|.++.... |++.+|.+-... .....+|-.||+|.+.+.|.+.+..
T Consensus 118 ~td~ql~~l~qw~~~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~ 169 (205)
T KOG4213|consen 118 ITDDQLDDLNQWASGKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDT 169 (205)
T ss_pred CCHHHHHHHHHHhcccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhhh
Confidence 4556665555433 578777664322 1124578889999999999887754
No 201
>KOG4840 consensus Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=41.16 E-value=43 Score=26.47 Aligned_cols=72 Identities=13% Similarity=0.009 Sum_probs=37.7
Q ss_pred ccEEEEeCCCCCCCH----HHHHHhhccCC-ceEEEEEcCCCCCCCcceEEEEEe-CCHHHHHHHHHHhCCceecCcEEE
Q 029462 20 ISRLVFWFATFAMIV----EDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQY-IDPADAADAKYHMDGYLLLGRELT 93 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~----~~l~~~F~~~G-~i~~v~i~~~~~~g~~~g~afV~f-~~~~~a~~Ai~~l~g~~i~g~~l~ 93 (193)
...||||+|..-.-. +.|-..+.+.+ .++.+.+-.. ..||+.-.. .+.|+.+.+|+++.+..+.-..+.
T Consensus 37 ~~vvfiGGLgdgLl~~~y~~~L~~~lde~~wslVq~q~~Ss-----y~G~Gt~slk~D~edl~~l~~Hi~~~~fSt~vVL 111 (299)
T KOG4840|consen 37 VKVVFIGGLGDGLLICLYTTMLNRYLDENSWSLVQPQLRSS-----YNGYGTFSLKDDVEDLKCLLEHIQLCGFSTDVVL 111 (299)
T ss_pred EEEEEEcccCCCccccccHHHHHHHHhhccceeeeeecccc-----ccccccccccccHHHHHHHHHHhhccCcccceEE
Confidence 445999998654332 33333333322 3444433321 134553333 467888888887776665444444
Q ss_pred EEE
Q 029462 94 VVF 96 (193)
Q Consensus 94 v~~ 96 (193)
|-.
T Consensus 112 ~Gh 114 (299)
T KOG4840|consen 112 VGH 114 (299)
T ss_pred Eec
Confidence 443
No 202
>COG4009 Uncharacterized protein conserved in archaea [Function unknown]
Probab=41.00 E-value=25 Score=22.69 Aligned_cols=32 Identities=16% Similarity=0.128 Sum_probs=22.0
Q ss_pred ccccCccEEEEeCCCCCCCHHHHHHhhccCCc
Q 029462 15 AVVEEISRLVFWFATFAMIVEDLRGPFGQFGR 46 (193)
Q Consensus 15 ~~~~~~~rl~V~nl~~~~t~~~l~~~F~~~G~ 46 (193)
-.+..+..-+|--|....++++|+..|+..|.
T Consensus 43 fnI~gT~Sy~V~Fl~~~~s~eev~~ele~mga 74 (88)
T COG4009 43 FNIEGTSSYYVVFLEEVESEEEVERELEDMGA 74 (88)
T ss_pred EEecCceeEEEEEEeccCCHHHHHHHHHHhCc
Confidence 34455555666667777788888888877763
No 203
>PF09869 DUF2096: Uncharacterized protein conserved in archaea (DUF2096); InterPro: IPR017098 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=40.84 E-value=1.3e+02 Score=22.40 Aligned_cols=47 Identities=13% Similarity=-0.063 Sum_probs=37.7
Q ss_pred CCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 27 FATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 27 nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
+|+..+.++-|.++-+.+|.|... - -..-.+.|.+.+..+.|++.|-
T Consensus 118 ~l~~~i~~erl~ei~E~~gvI~Ef--e--------e~~~V~I~Gdke~Ik~aLKe~s 164 (169)
T PF09869_consen 118 KLKKPIQEERLQEISEWHGVIFEF--E--------EDDKVVIEGDKERIKKALKEFS 164 (169)
T ss_pred ecCccchHHHHHHHHHHhceeEEe--c--------CCcEEEEeccHHHHHHHHHHHH
Confidence 788899999999999999988765 1 1234778899999999998763
No 204
>COG4010 Uncharacterized protein conserved in archaea [Function unknown]
Probab=40.13 E-value=82 Score=22.89 Aligned_cols=47 Identities=15% Similarity=0.072 Sum_probs=36.1
Q ss_pred CCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 27 FATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 27 nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.|+..+.++-|+++.+..|.|.... .+| -.+.|.+.+..+.|++.+.
T Consensus 118 ~L~epl~~eRlqDi~E~hgvIiE~~-E~D---------~V~i~Gd~drVk~aLke~~ 164 (170)
T COG4010 118 HLREPLAEERLQDIAETHGVIIEFE-EYD---------LVAIYGDSDRVKKALKEIG 164 (170)
T ss_pred ecCchhHHHHHHHHHHhhheeEEee-ecc---------EEEEeccHHHHHHHHHHHH
Confidence 5777788899999999888887654 222 3567889999999998753
No 205
>PRK10905 cell division protein DamX; Validated
Probab=39.36 E-value=49 Score=27.28 Aligned_cols=59 Identities=14% Similarity=0.034 Sum_probs=35.1
Q ss_pred EEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEE--EEEeCCHHHHHHHHHHhCC
Q 029462 24 VFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFG--FVQYIDPADAADAKYHMDG 84 (193)
Q Consensus 24 ~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~a--fV~f~~~~~a~~Ai~~l~g 84 (193)
|+--|--..+++.|.+|..++| +....+.....+|+ .-|- +-.|.+.++|+.||..|-.
T Consensus 248 YTLQL~A~Ss~~~l~~fakKlg-L~~y~vy~TtRnGk-pWYVV~yG~YaSraeAk~AiakLPa 308 (328)
T PRK10905 248 YTLQLSSSSNYDNLNGWAKKEN-LKNYVVYETTRNGQ-PWYVLVSGVYASKEEAKRAVSTLPA 308 (328)
T ss_pred eEEEEEecCCHHHHHHHHHHcC-CCceEEEEeccCCc-eEEEEEecCCCCHHHHHHHHHHCCH
Confidence 3333333456788888887775 33333333322333 1333 3378899999999998864
No 206
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=39.29 E-value=22 Score=23.45 Aligned_cols=23 Identities=13% Similarity=0.023 Sum_probs=18.9
Q ss_pred CccEEEEeCCCCCCCHHHHHHhh
Q 029462 19 EISRLVFWFATFAMIVEDLRGPF 41 (193)
Q Consensus 19 ~~~rl~V~nl~~~~t~~~l~~~F 41 (193)
...+|.|.|||....+++|++.+
T Consensus 51 s~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 51 SKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred cCCEEEEeCCCCCCChhhheeeE
Confidence 44569999999999999998754
No 207
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=39.22 E-value=1.2e+02 Score=20.24 Aligned_cols=59 Identities=7% Similarity=-0.009 Sum_probs=30.6
Q ss_pred cEEEEeCCCCCCCHHHHHHh-------hccC-CceEEEEEcCCC-----CCCCcce-EEEEEeCCHHHHHHHHHH
Q 029462 21 SRLVFWFATFAMIVEDLRGP-------FGQF-GRLKDIYLPRDY-----YTGEPRG-FGFVQYIDPADAADAKYH 81 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~-------F~~~-G~i~~v~i~~~~-----~~g~~~g-~afV~f~~~~~a~~Ai~~ 81 (193)
..+|| |.++++++++..+ +... |.|..+...-.+ ..+...| |.++.|.-..++.+.++.
T Consensus 9 E~~~I--l~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~eler 81 (97)
T CHL00123 9 ETMYL--LKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEK 81 (97)
T ss_pred eEEEE--ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHHH
Confidence 34555 3445566555444 4444 466655422111 1233455 578888866666666643
No 208
>PRK02886 hypothetical protein; Provisional
Probab=39.11 E-value=78 Score=20.85 Aligned_cols=37 Identities=16% Similarity=0.284 Sum_probs=25.6
Q ss_pred hccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCce
Q 029462 41 FGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 86 (193)
Q Consensus 41 F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 86 (193)
+.+||.|..+.=- ..|+ |.|.|.++|++.++.|....
T Consensus 21 LrkyG~I~Y~Skr--------~kYv-vlYvn~~~~e~~~~kl~~l~ 57 (87)
T PRK02886 21 LRKFGNVHYVSKR--------LKYA-VLYCDMEQVEDIMNKLSSLP 57 (87)
T ss_pred HhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcCC
Confidence 4789998765321 3454 44778899999998887654
No 209
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=37.96 E-value=82 Score=26.39 Aligned_cols=51 Identities=12% Similarity=-0.075 Sum_probs=37.9
Q ss_pred HHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEE
Q 029462 34 VEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGREL 92 (193)
Q Consensus 34 ~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l 92 (193)
-++|+..|..-.-+..++...+ --||.|.++.+.++-|..+++..+.|..+
T Consensus 264 Y~~Le~HF~~~hy~ct~qtc~~--------~k~~vf~~~~el~~h~~~~h~~~~~~~~~ 314 (493)
T COG5236 264 YEDLEAHFRNAHYCCTFQTCRV--------GKCYVFPYHTELLEHLTRFHKVNARLSEI 314 (493)
T ss_pred HHHHHHHhhcCceEEEEEEEec--------CcEEEeccHHHHHHHHHHHhhcccccCcC
Confidence 4678888887666666655533 24888999999999998889888777654
No 210
>COG5584 Predicted small secreted protein [Function unknown]
Probab=37.85 E-value=58 Score=21.85 Aligned_cols=32 Identities=13% Similarity=0.131 Sum_probs=24.8
Q ss_pred CCCCCCCHHHHHHhhccCCceEEEEEcCCCCC
Q 029462 27 FATFAMIVEDLRGPFGQFGRLKDIYLPRDYYT 58 (193)
Q Consensus 27 nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~ 58 (193)
|+..+..-.-+++.|.++|.|..-+|.+.+..
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~pe~ 60 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEPEV 60 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEeccc
Confidence 55655556778899999999999888776643
No 211
>PRK02302 hypothetical protein; Provisional
Probab=37.24 E-value=86 Score=20.74 Aligned_cols=37 Identities=11% Similarity=0.194 Sum_probs=25.5
Q ss_pred hccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCce
Q 029462 41 FGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYL 86 (193)
Q Consensus 41 F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~ 86 (193)
+.+||.|..+.=. ..|+ |.|.|.++|++.++.|....
T Consensus 23 LrkfG~I~Y~Skk--------~kYv-vlYvn~~~~e~~~~kl~~l~ 59 (89)
T PRK02302 23 LSKYGDIVYHSKR--------SRYL-VLYVNKEDVEQKLEELSKLK 59 (89)
T ss_pred HhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcCC
Confidence 3789998765321 3454 44778999999998887543
No 212
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=36.74 E-value=56 Score=21.49 Aligned_cols=49 Identities=6% Similarity=-0.086 Sum_probs=26.0
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhcc-CCceEEEEEcCCCCCCCcceEEEEEeCC
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFGQ-FGRLKDIYLPRDYYTGEPRGFGFVQYID 71 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~~-~G~i~~v~i~~~~~~g~~~g~afV~f~~ 71 (193)
..-|||++++..+-+...+.+-+. .++- .+.++.. +....||+|-++..
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~~G-~avm~~~--~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 25 RAGVYVGGVSASVRERIWDYLAQHCPPKG-SLVITWS--SNTCPGFEFFTLGE 74 (87)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCCc-cEEEEEe--CCCCCCcEEEecCC
Confidence 345999999887765433333232 2221 2222222 12346798887754
No 213
>PF15063 TC1: Thyroid cancer protein 1
Probab=36.62 E-value=19 Score=23.01 Aligned_cols=27 Identities=15% Similarity=0.033 Sum_probs=23.0
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceE
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLK 48 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~ 48 (193)
+--+.||-.+++...|..+|+.-|..+
T Consensus 27 KkasaNIFe~vn~~qlqrLF~~sGD~k 53 (79)
T PF15063_consen 27 KKASANIFENVNLDQLQRLFQKSGDKK 53 (79)
T ss_pred hhhhhhhhhccCHHHHHHHHHHccchh
Confidence 356789999999999999999999754
No 214
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=36.42 E-value=98 Score=18.60 Aligned_cols=44 Identities=14% Similarity=0.108 Sum_probs=36.4
Q ss_pred HHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHH
Q 029462 34 VEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYH 81 (193)
Q Consensus 34 ~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~ 81 (193)
.+++.+.+...-.|..|..+ +|..-=.+.|.+.+.++....+..
T Consensus 12 ~~~~~~~l~~~p~V~~~~~v----tG~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 12 YDEFAEALAEIPEVVECYSV----TGEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHHHHTSTTEEEEEEE----SSSSSEEEEEEESSHHHHHHHHHH
T ss_pred HHHHHHHHHcCCCEEEEEEE----eCCCCEEEEEEECCHHHHHHHHHH
Confidence 56788888899999999887 666667788999999999988655
No 215
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=36.10 E-value=54 Score=22.11 Aligned_cols=22 Identities=18% Similarity=0.255 Sum_probs=17.5
Q ss_pred cceEEEEEeCCHHHHHHHHHHh
Q 029462 61 PRGFGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 61 ~~g~afV~f~~~~~a~~Ai~~l 82 (193)
.--|.+++|.+.+.+.+|...|
T Consensus 65 ~VvFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 65 EVVFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEEEEcCchhHHHHHHHHh
Confidence 3568899999999888887654
No 216
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=35.72 E-value=1.8e+02 Score=25.63 Aligned_cols=49 Identities=12% Similarity=-0.038 Sum_probs=34.6
Q ss_pred HHHHHHhhc----cCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 34 VEDLRGPFG----QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 34 ~~~l~~~F~----~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.-+|..+|. .+|-|+.+.|...+.. ......++.|.+.++|..|+..|.
T Consensus 203 g~dl~~l~~Gs~GtlGIIt~atlkl~p~p-~~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 203 GFDLLALFTGSEGMLGVVTEVTVKLLPKP-PVARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred ccchHhhhccCCCccEEEEEEEEEEEcCC-cceEEEEEECCCHHHHHHHHHHHH
Confidence 346666665 6788888877554432 234567889999999999987764
No 217
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=35.59 E-value=1.3e+02 Score=20.20 Aligned_cols=46 Identities=22% Similarity=0.371 Sum_probs=22.9
Q ss_pred CCCHHHHHHhhc-cCCceEEEEEc----CCCCCCCcceEEEEEeCCHHHHHH
Q 029462 31 AMIVEDLRGPFG-QFGRLKDIYLP----RDYYTGEPRGFGFVQYIDPADAAD 77 (193)
Q Consensus 31 ~~t~~~l~~~F~-~~G~i~~v~i~----~~~~~g~~~g~afV~f~~~~~a~~ 77 (193)
..+..+|++-+. .|+.-.++.++ .....|.+.|||.| |.+.+.|++
T Consensus 30 tpsr~eirekLa~~~~~~~~~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~kk 80 (99)
T PRK01178 30 TPSRKDVRKKLAAMLNADKELVVVRKIKTEYGMGKSKGYAKV-YDDKERARK 80 (99)
T ss_pred CCCHHHHHHHHHHHHCcCCCEEEEEccCccCCCceEEEEEEE-ECCHHHHHh
Confidence 345666665554 35532222222 22234566677766 566555543
No 218
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=35.01 E-value=1.1e+02 Score=20.83 Aligned_cols=42 Identities=17% Similarity=0.185 Sum_probs=25.7
Q ss_pred HHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHH
Q 029462 35 EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAK 79 (193)
Q Consensus 35 ~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai 79 (193)
.+|.+++.+.| |.+-.|..+..+ +.-||++++.+.+..-++|
T Consensus 27 PE~~a~lk~ag-i~nYSIfLde~~--n~lFgy~E~~d~~a~m~~~ 68 (105)
T COG3254 27 PELLALLKEAG-IRNYSIFLDEEE--NLLFGYWEYEDFEADMAKM 68 (105)
T ss_pred HHHHHHHHHcC-CceeEEEecCCc--ccEEEEEEEcChHHHHHHH
Confidence 35666777776 555555554322 3679999999655544444
No 219
>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]
Probab=34.39 E-value=25 Score=32.78 Aligned_cols=22 Identities=50% Similarity=0.605 Sum_probs=10.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCCC
Q 029462 165 RERSYSRSPYGSRSYSPSRSRS 186 (193)
Q Consensus 165 ~~rs~srs~~~~r~r~rs~~r~ 186 (193)
+.+++.|||-+.+++-+|+.|.
T Consensus 331 r~r~RERspqr~rsr~rs~rRE 352 (1194)
T KOG4246|consen 331 RERDRERSPQRERSRQRSRRRE 352 (1194)
T ss_pred hhhhhhcccccccccccccchh
Confidence 3444455554444444444433
No 220
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=34.23 E-value=44 Score=20.60 Aligned_cols=33 Identities=21% Similarity=0.350 Sum_probs=23.0
Q ss_pred CHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEE
Q 029462 33 IVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFV 67 (193)
Q Consensus 33 t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV 67 (193)
-+.+|+.+|-+.-+|..+.|...+.-+ +|-|||
T Consensus 31 ~e~eler~fl~~P~v~e~~l~EKKri~--~G~gyV 63 (64)
T PF13046_consen 31 VEVELERHFLPLPEVKEVALYEKKRIR--KGAGYV 63 (64)
T ss_pred HHHHhhhhccCCCCceEEEEEEEEeee--CCceeE
Confidence 356788888888899998887655444 455555
No 221
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=34.22 E-value=12 Score=26.61 Aligned_cols=69 Identities=12% Similarity=-0.006 Sum_probs=42.0
Q ss_pred cEEEEeCCC--CCCCHHHHHHhhcc----CCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEE
Q 029462 21 SRLVFWFAT--FAMIVEDLRGPFGQ----FGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 21 ~rl~V~nl~--~~~t~~~l~~~F~~----~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v 94 (193)
....|+.+. ...+...|...+.+ .|.+.-..+- .++..+.|.+.++++.++.. ....++|..|.+
T Consensus 16 ~~~lVg~~l~~~~~~~~~l~~~l~~~W~~~~~~~i~~l~--------~~~fl~~F~~~~d~~~vl~~-~p~~~~~~~~~l 86 (153)
T PF14111_consen 16 QLCLVGRVLSPKPISLSALEQELAKIWKLKGGVKIRDLG--------DNLFLFQFESEEDRQRVLKG-GPWNFNGHFLIL 86 (153)
T ss_pred CeEEEEEECCCCCCCHHHHHHHHHHHhCCCCcEEEEEeC--------CCeEEEEEEeccceeEEEec-ccccccccchhh
Confidence 345555542 23555666655544 3444333332 68899999999999999853 445677776666
Q ss_pred EEee
Q 029462 95 VFAE 98 (193)
Q Consensus 95 ~~a~ 98 (193)
+.-.
T Consensus 87 ~~W~ 90 (153)
T PF14111_consen 87 QRWS 90 (153)
T ss_pred hhhc
Confidence 5443
No 222
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=33.99 E-value=1.4e+02 Score=21.37 Aligned_cols=45 Identities=16% Similarity=0.364 Sum_probs=22.7
Q ss_pred CCCHHHHHHhhcc-CC-ceEEEEE----cCCCCCCCcceEEEEEeCCHHHHH
Q 029462 31 AMIVEDLRGPFGQ-FG-RLKDIYL----PRDYYTGEPRGFGFVQYIDPADAA 76 (193)
Q Consensus 31 ~~t~~~l~~~F~~-~G-~i~~v~i----~~~~~~g~~~g~afV~f~~~~~a~ 76 (193)
..+..+|.+-+.+ |+ .-.++.+ ......|.+.|||.| |++.+.|.
T Consensus 35 TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~I-Yds~e~~k 85 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLI-YDNLAALK 85 (132)
T ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEE-ECCHHHHH
Confidence 4556777766554 44 1122222 222334566677776 55555543
No 223
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=32.66 E-value=45 Score=26.42 Aligned_cols=28 Identities=25% Similarity=0.286 Sum_probs=21.9
Q ss_pred ccEEEEeCCCCCCCHHHHHHhhc--cCCce
Q 029462 20 ISRLVFWFATFAMIVEDLRGPFG--QFGRL 47 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~l~~~F~--~~G~i 47 (193)
..-++|+|||+.++..-|..++. .||.+
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~~~~~g~~ 126 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLELYRFGRV 126 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHHHGGGCEE
T ss_pred CceEEEEEecccchHHHHHHHhhccccccc
Confidence 44589999999999998888886 34443
No 224
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=32.31 E-value=2.8e+02 Score=22.68 Aligned_cols=7 Identities=29% Similarity=0.567 Sum_probs=3.3
Q ss_pred EEEEeCC
Q 029462 65 GFVQYID 71 (193)
Q Consensus 65 afV~f~~ 71 (193)
||++=.+
T Consensus 89 GFLngrn 95 (354)
T KOG2146|consen 89 GFLNGRN 95 (354)
T ss_pred hhccccc
Confidence 4555433
No 225
>cd01612 APG12_C Ubiquitin-like domain of APG12. APG12_C The carboxy-terminal ubiquitin-like domain of APG12. Autophagy is a process in which cytoplasmic components are delivered to the lysosome/vacuole for degradation. Autophagy requires a ubiquitin-like protein conjugation system, in which APG12 is covalently bound to APG5.
Probab=32.22 E-value=81 Score=20.62 Aligned_cols=21 Identities=14% Similarity=0.028 Sum_probs=9.2
Q ss_pred EEEeCC-CCCCCHHHHHHhhccC
Q 029462 23 LVFWFA-TFAMIVEDLRGPFGQF 44 (193)
Q Consensus 23 l~V~nl-~~~~t~~~l~~~F~~~ 44 (193)
|||+|. .+ ..++.+.+++..|
T Consensus 49 lyvnn~f~p-~~d~~~g~LY~~~ 70 (87)
T cd01612 49 LYINNSFAP-SPDENVGNLYRCF 70 (87)
T ss_pred EEECCccCC-CchhHHHHHHHhc
Confidence 556552 22 2234444444444
No 226
>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=32.01 E-value=2.6e+02 Score=23.83 Aligned_cols=63 Identities=16% Similarity=0.182 Sum_probs=41.3
Q ss_pred CCHHHHHHhhccCC--c-eEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCC----ceecCcEEEEEEe
Q 029462 32 MIVEDLRGPFGQFG--R-LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDG----YLLLGRELTVVFA 97 (193)
Q Consensus 32 ~t~~~l~~~F~~~G--~-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g----~~i~g~~l~v~~a 97 (193)
.+.+++..+-.++| . |.+.++.. -|..+.-+...-.+.++|..+.+.|=| ..+.|..+..-+.
T Consensus 26 ~s~eea~~~a~~lg~~~~VvKaQV~a---GGRGKaGGVk~~~s~~ea~~~a~~~lg~~~q~~~~G~~v~~vlv 95 (387)
T COG0045 26 TSPEEAEEAAKELGGGPVVVKAQVHA---GGRGKAGGVKLAKSPEEAKEAAEEILGKNYQTDIKGEPVNKVLV 95 (387)
T ss_pred eCHHHHHHHHHHhCCCcEEEEeeeee---cCccccCceEEeCCHHHHHHHHHHHhCcccccCcCCceeeEEEE
Confidence 46777887777776 2 34555543 234444444445689999999998888 6778877654443
No 227
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=31.47 E-value=47 Score=26.47 Aligned_cols=22 Identities=9% Similarity=-0.094 Sum_probs=18.4
Q ss_pred EEEEeCCCCCCCHHHHHHhhcc
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQ 43 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~ 43 (193)
-++|+|+|+.++...|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 4789999999998888888754
No 228
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=31.27 E-value=45 Score=27.13 Aligned_cols=28 Identities=0% Similarity=-0.139 Sum_probs=20.7
Q ss_pred EEEeCCCCCCCHHHHHHhhccCCceEEE
Q 029462 23 LVFWFATFAMIVEDLRGPFGQFGRLKDI 50 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~G~i~~v 50 (193)
+.|.|||+.++...|..++.....+...
T Consensus 104 ~VvaNlPY~Istpil~~ll~~~~~~~~~ 131 (294)
T PTZ00338 104 VCVANVPYQISSPLVFKLLAHRPLFRCA 131 (294)
T ss_pred EEEecCCcccCcHHHHHHHhcCCCCcee
Confidence 7889999999998888887643333333
No 229
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=30.89 E-value=1.6e+02 Score=24.80 Aligned_cols=50 Identities=16% Similarity=0.091 Sum_probs=32.5
Q ss_pred CCHHHHHHhhccCC-ceE----EEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 32 MIVEDLRGPFGQFG-RLK----DIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 32 ~t~~~l~~~F~~~G-~i~----~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.|..+++++|..-- .|. .+.|+- .+-.+.-+-||++.+.+++-.||+.|.
T Consensus 3 ~~~~~~~~~~~~~~~~i~~~~~~l~~lD--q~~lP~~~~~~~~~~~~~v~~aI~~M~ 57 (363)
T PRK05772 3 LTVKEVKELFKPKLLPIIWKDNTLTLLD--QSLLPFETVYVDLKTVEEVALAIRNMQ 57 (363)
T ss_pred chHHHHHHHhCCCCceEEecCCEEEEEe--cCCCCCeEEEEEeCCHHHHHHHHHhCc
Confidence 45677888887521 111 122322 134556788999999999999998764
No 230
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=30.68 E-value=1.6e+02 Score=20.91 Aligned_cols=27 Identities=11% Similarity=0.082 Sum_probs=21.3
Q ss_pred CcceEEEEEeCCHHHHHHHHHHhCCce
Q 029462 60 EPRGFGFVQYIDPADAADAKYHMDGYL 86 (193)
Q Consensus 60 ~~~g~afV~f~~~~~a~~Ai~~l~g~~ 86 (193)
...||-||++....+...++..+.|..
T Consensus 36 ~fpGYvFV~~~~~~~~~~~i~~~~gv~ 62 (145)
T TIGR00405 36 SLKGYILVEAETKIDMRNPIIGVPHVR 62 (145)
T ss_pred CCCcEEEEEEECcHHHHHHHhCCCCEE
Confidence 358999999998777788887776643
No 231
>PF06130 PduL: Propanediol utilisation protein PduL; InterPro: IPR008300 Salmonella enterica subsp. enterica serovar Typhimurium degrades 1,2-propanediol by a pathway that requires coenzyme B12, adenosylcobalamin (AdoCbl). Proteins required for 1,2-propanediol degradation are encoded by the pdu operon []. PduL functions in this pathway, but its exact role is not yet determined. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilization of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilization (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and coregulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR010254 from INTERPRO and IPR009204 from INTERPRO for more details on the propanediol utilization pathway and the pdu operon.; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups
Probab=30.43 E-value=1.4e+02 Score=18.73 Aligned_cols=30 Identities=23% Similarity=0.291 Sum_probs=25.9
Q ss_pred EEEeCCCCCCCHHHHHHhhccCCceEEEEE
Q 029462 23 LVFWFATFAMIVEDLRGPFGQFGRLKDIYL 52 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i 52 (193)
|.|.+=.-.++.++++.+|.+-|+...+.+
T Consensus 4 viva~RHIHms~~da~~l~~~dg~~v~ve~ 33 (71)
T PF06130_consen 4 VIVAARHIHMSPEDAEKLFGQDGQFVSVEV 33 (71)
T ss_pred EEEEccccCCCHHHHHHhCCCCCCEEEEEE
Confidence 567777778999999999999999888877
No 232
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=30.43 E-value=1.1e+02 Score=26.85 Aligned_cols=49 Identities=8% Similarity=0.007 Sum_probs=30.5
Q ss_pred CCCHHHHHHhhccCCceEEE-EEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCc
Q 029462 31 AMIVEDLRGPFGQFGRLKDI-YLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 85 (193)
Q Consensus 31 ~~t~~~l~~~F~~~G~i~~v-~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 85 (193)
-+.+++|..-|.-+-.-..+ .+..+ .|++=+.|.+++||++-.+.+...
T Consensus 89 liWdqELY~nf~y~q~r~ffhtFegd------dc~aGLnF~~E~EA~~F~k~V~~r 138 (569)
T KOG3671|consen 89 LIWDQELYQNFEYRQPRTFFHTFEGD------DCQAGLNFASEEEAQKFRKKVQDR 138 (569)
T ss_pred eeehHHhhhhceeccCccceeeeccc------cceeeecccCHHHHHHHHHHHHHH
Confidence 35566777777654432222 22222 567778899999999887766543
No 233
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=29.98 E-value=1.2e+02 Score=20.35 Aligned_cols=18 Identities=11% Similarity=0.051 Sum_probs=14.3
Q ss_pred ceEEEEEeCCHHHHHHHH
Q 029462 62 RGFGFVQYIDPADAADAK 79 (193)
Q Consensus 62 ~g~afV~f~~~~~a~~Ai 79 (193)
.....|+|.+.+.|..+.
T Consensus 53 tr~vviEFps~~~ar~~y 70 (96)
T COG5470 53 TRNVVIEFPSLEAARDCY 70 (96)
T ss_pred ccEEEEEcCCHHHHHHHh
Confidence 567899999988887653
No 234
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=29.15 E-value=73 Score=24.99 Aligned_cols=24 Identities=4% Similarity=-0.196 Sum_probs=20.1
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCC
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFG 45 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G 45 (193)
-++|+|||+.++...|..++..+|
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 378999999999999999986444
No 235
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=28.62 E-value=2.6e+02 Score=21.20 Aligned_cols=35 Identities=11% Similarity=-0.074 Sum_probs=19.2
Q ss_pred EEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 65 GFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 65 afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
-.+.+.+.|.+..|++.|...-+. ..++|.++...
T Consensus 131 lV~naitlE~~~~a~~~~~~~g~~-ei~~v~is~~~ 165 (187)
T COG2242 131 LVANAITLETLAKALEALEQLGGR-EIVQVQISRGK 165 (187)
T ss_pred EEEEeecHHHHHHHHHHHHHcCCc-eEEEEEeecce
Confidence 344455566666666655544333 55666666544
No 236
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=28.42 E-value=76 Score=23.04 Aligned_cols=22 Identities=9% Similarity=-0.105 Sum_probs=18.2
Q ss_pred EEEEeCCCCCCCHHHHHHhhcc
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQ 43 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~ 43 (193)
-++|+|+|+.++.+.|..++..
T Consensus 79 d~vi~n~Py~~~~~~i~~~l~~ 100 (169)
T smart00650 79 YKVVGNLPYNISTPILFKLLEE 100 (169)
T ss_pred CEEEECCCcccHHHHHHHHHhc
Confidence 3778999999988888888764
No 237
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=28.28 E-value=2.5e+02 Score=27.01 Aligned_cols=43 Identities=14% Similarity=0.244 Sum_probs=30.1
Q ss_pred ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceecCcEEEE
Q 029462 46 RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLLGRELTV 94 (193)
Q Consensus 46 ~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v 94 (193)
+|..|...- .-+||-|||=.....++.||+.|-+.... +.+.|
T Consensus 199 qI~Sv~a~D-----~lkGyIYIEA~KqshV~~Ai~gv~niy~~-~~~lV 241 (1024)
T KOG1999|consen 199 QIKSVFAKD-----HLKGYIYIEADKQSHVKEAIEGVRNIYAN-RILLV 241 (1024)
T ss_pred eEEEEEecc-----ccceeEEEEechhHHHHHHHhhhhhheec-cEEEE
Confidence 455554432 33899999999999999999888776555 44333
No 238
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=28.24 E-value=66 Score=28.44 Aligned_cols=39 Identities=28% Similarity=0.452 Sum_probs=33.6
Q ss_pred ceEEEEEeCCHHHHHHHHHHhCCceecCcEEEEEEeecC
Q 029462 62 RGFGFVQYIDPADAADAKYHMDGYLLLGRELTVVFAEEN 100 (193)
Q Consensus 62 ~g~afV~f~~~~~a~~Ai~~l~g~~i~g~~l~v~~a~~~ 100 (193)
..+++++|++...+.+|+..++|..+.+..+.|..+...
T Consensus 63 ~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~~ 101 (534)
T KOG2187|consen 63 PKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGATE 101 (534)
T ss_pred CCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhcccc
Confidence 679999999999999999999999988888777766443
No 239
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=27.40 E-value=1.3e+02 Score=17.17 Aligned_cols=25 Identities=12% Similarity=0.066 Sum_probs=20.1
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCc
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGR 46 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~ 46 (193)
.++|.+.......++|++++..+|.
T Consensus 3 ~~~i~g~~~~~~~~~l~~~i~~~Gg 27 (72)
T cd00027 3 TFVITGDLPSEERDELKELIEKLGG 27 (72)
T ss_pred EEEEEecCCCcCHHHHHHHHHHcCC
Confidence 4677777656788999999999886
No 240
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=27.06 E-value=1.5e+02 Score=19.32 Aligned_cols=67 Identities=16% Similarity=0.096 Sum_probs=25.8
Q ss_pred EEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeC----CHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 23 LVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYI----DPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~----~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
|-+++|.++-. -+++--+++-..|-.+.|. |. ...|||.|. ..++...+++.|....+.-+.|.|+.
T Consensus 3 lkfg~It~eeA-~~~QYeLsk~~~vyRvFiN-----gY-ar~g~VifDe~kl~~e~lL~~le~~kpEVi~ek~lTveE 73 (88)
T PF11491_consen 3 LKFGNITPEEA-MVKQYELSKNEAVYRVFIN-----GY-ARNGFVIFDESKLSKEELLEMLEEFKPEVIEEKELTVEE 73 (88)
T ss_dssp EE--S-TTTTT-HHHHHTTTTTTTB-----------TT-SS--EEE--B-S-SHHHH---HHHTTT-SS-------SS
T ss_pred cccCCCCHHHH-HHHHHHhhcccceeeeeec-----cc-ccceEEEECcccCCHHHHHHHHHhcChhheeeccccHHH
Confidence 34467755422 2344445565666655552 22 335899997 45788888999998888888887753
No 241
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=26.99 E-value=1.2e+02 Score=23.31 Aligned_cols=54 Identities=20% Similarity=0.189 Sum_probs=35.0
Q ss_pred CCHHHHHHhhccCCc---eEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCceec
Q 029462 32 MIVEDLRGPFGQFGR---LKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLLL 88 (193)
Q Consensus 32 ~t~~~l~~~F~~~G~---i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i~ 88 (193)
.+.+++.+...++|. |...++.. .|..++-+.....+.++|..+...|=|.+|.
T Consensus 25 ~s~eea~~~~~~l~~~~~VvKaQvl~---GgRGK~GgVk~~~s~~ea~~~a~~mlg~~l~ 81 (202)
T PF08442_consen 25 TSPEEAREAAKELGGKPLVVKAQVLA---GGRGKAGGVKIAKSPEEAKEAAKEMLGKTLK 81 (202)
T ss_dssp SSHHHHHHHHHHHTTSSEEEEE-SSS---STTTTTTCEEEESSHHHHHHHHHTTTTSEEE
T ss_pred CCHHHHHHHHHHhCCCcEEEEEeEee---cCcccCCceeecCCHHHHHHHHHHHhCCceE
Confidence 456777777766553 55555553 3344443344456899999999999888876
No 242
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=26.76 E-value=1.8e+02 Score=21.93 Aligned_cols=58 Identities=10% Similarity=0.044 Sum_probs=36.6
Q ss_pred EEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCC-CCcceEEEEEeCCHHHHHHHHHHh
Q 029462 23 LVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYT-GEPRGFGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~-g~~~g~afV~f~~~~~a~~Ai~~l 82 (193)
=||+|.+.-.+-..|-+.|...|.- |.++..+.. ..+.++-+|.|.+.++..+++..+
T Consensus 21 R~ItN~SSG~~G~~lA~~~~~~Ga~--V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~ 79 (185)
T PF04127_consen 21 RFITNRSSGKMGAALAEEAARRGAE--VTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKEL 79 (185)
T ss_dssp EEEEES--SHHHHHHHHHHHHTT-E--EEEEE-TTS----TTEEEEE-SSHHHHHHHHHHH
T ss_pred eEecCCCcCHHHHHHHHHHHHCCCE--EEEEecCccccccccceEEEecchhhhhhhhccc
Confidence 4899998887778888888777742 222222211 224688999999999999988765
No 243
>TIGR02045 P_fruct_ADP ADP-specific phosphofructokinase. Phosphofructokinase is a key enzyme of glycolysis. The phosphate group donor for different subtypes of phosphofructokinase can be ATP, ADP, or pyrophosphate. This family consists of ADP-dependent phosphofructokinases. Members are more similar to ADP-dependent glucokinases (excluded from this family) than to other phosphofructokinases.
Probab=26.51 E-value=1.4e+02 Score=25.98 Aligned_cols=72 Identities=14% Similarity=0.078 Sum_probs=43.9
Q ss_pred cCccEEEEeCCCCCC---CHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEe--C-------CHHHHHHHHHHhCCc
Q 029462 18 EEISRLVFWFATFAM---IVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQY--I-------DPADAADAKYHMDGY 85 (193)
Q Consensus 18 ~~~~rl~V~nl~~~~---t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f--~-------~~~~a~~Ai~~l~g~ 85 (193)
+..+++++.+=+.+. ..++|++++.+.|...++.|+ .||-.++- . -.+.+...+..|..
T Consensus 177 PRaNRfI~s~D~~n~~l~~~~~l~~~~~~i~~~~d~~vl--------SG~q~m~~~y~dg~~~~~~~er~~~~i~~L~~- 247 (446)
T TIGR02045 177 PRSGRFIVSSRPESLRIETKDQLRKFLPEIGEPVDGAIL--------SGYQGIKEEYSDGKTAKYYLERAKEDIELLKK- 247 (446)
T ss_pred cCCCeEEEecCCccccceecHHHHHhhhhhhhcccEEEE--------EchhhhhhhccCCccHhHHHHHHHHHHHHHhh-
Confidence 444566665544443 457788888888776666665 44444432 1 24566677766633
Q ss_pred eecCcEEEEEEeec
Q 029462 86 LLLGRELTVVFAEE 99 (193)
Q Consensus 86 ~i~g~~l~v~~a~~ 99 (193)
..+-++++++|.-
T Consensus 248 -~~~i~iH~E~As~ 260 (446)
T TIGR02045 248 -NKDLKIHVEFASI 260 (446)
T ss_pred -CCCCeEEEEeccc
Confidence 2677788888753
No 244
>PF07237 DUF1428: Protein of unknown function (DUF1428); InterPro: IPR009874 This family consists of several hypothetical bacterial and one archaeal sequence of around 120 residues in length. The function of this family is unknown.; PDB: 2OKQ_A.
Probab=26.47 E-value=2.1e+02 Score=19.50 Aligned_cols=47 Identities=17% Similarity=0.180 Sum_probs=29.4
Q ss_pred HHHHhhccCCceEEEEEcC-----CC----------CCCCcceEEEEEeCCHHHHHHHHHHh
Q 029462 36 DLRGPFGQFGRLKDIYLPR-----DY----------YTGEPRGFGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 36 ~l~~~F~~~G~i~~v~i~~-----~~----------~~g~~~g~afV~f~~~~~a~~Ai~~l 82 (193)
..-++|..||.+.-+...- .+ ..+..--|.+|+|.+.+...++...+
T Consensus 24 ~a~~vf~e~GAl~~vE~wgdDvp~G~~TsF~~Av~a~~~E~VVFSWi~wpska~rD~~~~k~ 85 (103)
T PF07237_consen 24 KAAEVFKEHGALRVVECWGDDVPDGKVTSFPRAVKAKPDETVVFSWIEWPSKATRDAANAKM 85 (103)
T ss_dssp HHHHHHHHTT-SEEEEEEEEE----SS--HHHHTT--TTEEEEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHHHhCCEEEEEeecCcCCcCccCCHHHHhcCCCCCEEEEEEEEcCCHHHHHHHHHHh
Confidence 3457888999665443221 11 12344558999999999888887665
No 245
>TIGR03221 muco_delta muconolactone delta-isomerase. Members of this protein family are muconolactone delta-isomerase (EC 5.3.3.4), the CatC protein of the ortho cleavage pathway for metabolizing aromatic compounds by way of catechol.
Probab=26.27 E-value=2e+02 Score=19.05 Aligned_cols=57 Identities=9% Similarity=0.095 Sum_probs=43.2
Q ss_pred CCCCCCCHHHHHHh----------hccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCcee
Q 029462 27 FATFAMIVEDLRGP----------FGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGYLL 87 (193)
Q Consensus 27 nl~~~~t~~~l~~~----------F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~i 87 (193)
++|.++..+++.++ ++.-|.+..++-+ .|.-..+++..-++.++..+.|..|--..+
T Consensus 9 ~~P~~~~~~~~~~i~a~Eka~a~eLq~~Gk~~~lWRv----~G~~~n~sifdv~s~~eLh~iL~sLPL~p~ 75 (90)
T TIGR03221 9 NLPVDMPAEKAAAIKAREKAYAQELQREGKWRHLWRV----AGEYANYSIFDVESNDELHTLLSGLPLFPY 75 (90)
T ss_pred eCCCCCCHHHHHHHHHHHHHHHHHHHhCCceEEEEEe----cCCceeEEEEEcCCHHHHHHHHHhCCCCcc
Confidence 78888887665543 4566899988765 566788999999999999998877765544
No 246
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=26.10 E-value=1.1e+02 Score=23.26 Aligned_cols=47 Identities=19% Similarity=0.106 Sum_probs=29.3
Q ss_pred CHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 33 IVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 33 t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
+.++..+++..++.-. +.|.. .|...|-+.+.+.+.++|..|+..|-
T Consensus 25 ~~~~A~~~l~~~~~p~-~ViKa---dGla~GKGV~i~~~~~eA~~~l~~~~ 71 (194)
T PF01071_consen 25 DYEEALEYLEEQGYPY-VVIKA---DGLAAGKGVVIADDREEALEALREIF 71 (194)
T ss_dssp SHHHHHHHHHHHSSSE-EEEEE---SSSCTTTSEEEESSHHHHHHHHHHHH
T ss_pred CHHHHHHHHHhcCCCc-eEEcc---CCCCCCCEEEEeCCHHHHHHHHHHhc
Confidence 5566667776665433 22322 23444455667799999999998763
No 247
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=26.07 E-value=4.7e+02 Score=23.67 Aligned_cols=64 Identities=13% Similarity=0.127 Sum_probs=36.8
Q ss_pred HHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC--Cce-----e-cCcEEEEEEeecCCCCC
Q 029462 34 VEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD--GYL-----L-LGRELTVVFAEENRKKP 104 (193)
Q Consensus 34 ~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~--g~~-----i-~g~~l~v~~a~~~~~~~ 104 (193)
.++|.+.|..-+.|..|.+.. .||-++.+....-+...+..+. +.. + .|++|.|++..+++.++
T Consensus 60 A~~i~~~l~~~~~~~~veiaG-------pgfINf~l~~~~~~~~~~~~l~~~~~~~G~~~~~~~~kV~iE~sSaNptkp 131 (577)
T COG0018 60 AEEIAEKLDTDEIIEKVEIAG-------PGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGKGKKVVIEYSSANPTGP 131 (577)
T ss_pred HHHHHHhccccCcEeEEEEcC-------CCEEEEEECHHHHHHHHHHHHHhcccccCccccCCCCEEEEEEeCCCCCCC
Confidence 345555566555677777752 3555555554333333333333 122 2 47899999998887655
No 248
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=26.06 E-value=1.5e+02 Score=17.57 Aligned_cols=47 Identities=17% Similarity=0.302 Sum_probs=28.9
Q ss_pred HHHHHHhhccCC-ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhCCc
Q 029462 34 VEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMDGY 85 (193)
Q Consensus 34 ~~~l~~~F~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~ 85 (193)
-.+|-++|.+.| .|..+.+... +. +++.-+.+.+.+.|.++|.. +|.
T Consensus 15 La~v~~~l~~~~inI~~i~~~~~---~~-~~~~rl~~~~~~~~~~~L~~-~G~ 62 (66)
T cd04908 15 LAAVTEILSEAGINIRALSIADT---SE-FGILRLIVSDPDKAKEALKE-AGF 62 (66)
T ss_pred HHHHHHHHHHCCCCEEEEEEEec---CC-CCEEEEEECCHHHHHHHHHH-CCC
Confidence 456777787765 6777665332 12 45656667777777777755 443
No 249
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=25.77 E-value=1.7e+02 Score=18.11 Aligned_cols=56 Identities=21% Similarity=0.193 Sum_probs=34.2
Q ss_pred EEEeCCCCCCCHHHHHHhhc-cCCce-EEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 23 LVFWFATFAMIVEDLRGPFG-QFGRL-KDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~-~~G~i-~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
++.-.++..++-++|...+. .|+.. ..+.|.+....| -+|...+.++.+.|+..+.
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedg-----d~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDG-----DLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCC-----CEEEecCHHHHHHHHHHHH
Confidence 34445666788777766554 34421 234443322112 2899999999999997654
No 250
>PF09960 DUF2194: Uncharacterized protein conserved in bacteria (DUF2194); InterPro: IPR018695 This family of prokaryotic proteins has no known function; however it may be a membrane protein.
Probab=25.32 E-value=52 Score=29.63 Aligned_cols=52 Identities=12% Similarity=0.098 Sum_probs=34.2
Q ss_pred CCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHh
Q 029462 31 AMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 31 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l 82 (193)
++-|.+++++-++||---...++.+..+.....|.|+++.+.+....+...|
T Consensus 286 ~IWWpDM~~la~~y~ikyTg~~I~~Y~~~~~~pf~~~~~~~~~~~~~~g~~L 337 (585)
T PF09960_consen 286 KIWWPDMKKLAKKYGIKYTGVMIENYNDQTNPPFEFLEQEDTDRFIYFGREL 337 (585)
T ss_pred hcccHHHHHHHHHcCCeEEEEEccccCCCCCCCcccccccchhhHHHHHHHH
Confidence 4556777888888875444455555444444568999998877777665544
No 251
>PF11004 Kdo_hydroxy: 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; InterPro: IPR021266 This bacterial family of proteins has no known function.
Probab=25.08 E-value=1e+02 Score=24.86 Aligned_cols=50 Identities=20% Similarity=0.158 Sum_probs=31.5
Q ss_pred ccccccCccEEEEeCCCCCCCHHHHHHhhcc-CCceEEEEEcCCCCCCCcce
Q 029462 13 TMAVVEEISRLVFWFATFAMIVEDLRGPFGQ-FGRLKDIYLPRDYYTGEPRG 63 (193)
Q Consensus 13 ~~~~~~~~~rl~V~nl~~~~t~~~l~~~F~~-~G~i~~v~i~~~~~~g~~~g 63 (193)
....++..+.||+-+|++.+++++. .++.. +-....-.|.+++.+|.-+|
T Consensus 14 ~~~~LE~G~VL~fP~l~F~l~~~E~-~fL~p~~~d~k~KNIs~~p~~~~l~G 64 (281)
T PF11004_consen 14 AIEALEQGKVLYFPQLRFPLSPEER-AFLDPAIVDPKRKNISYRPNTGSLRG 64 (281)
T ss_pred HHHHhhCCCEEEeCCCCCCCChhHH-hhcChhhhCCCCCceeecCCCCceec
Confidence 3455777888999999999888776 44443 32222223444555666666
No 252
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=24.69 E-value=1.4e+02 Score=16.63 Aligned_cols=30 Identities=17% Similarity=0.106 Sum_probs=20.1
Q ss_pred CCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 54 RDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 54 ~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.++.+|+.+-.----|.+..+|+.++..|.
T Consensus 9 ~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~ 38 (46)
T PF14657_consen 9 YDDETGKRKQKTKRGFKTKKEAEKALAKIE 38 (46)
T ss_pred EECCCCCEEEEEcCCCCcHHHHHHHHHHHH
Confidence 444566655444444889999999887654
No 253
>COG1207 GlmU N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]
Probab=24.65 E-value=1.8e+02 Score=25.28 Aligned_cols=65 Identities=14% Similarity=0.048 Sum_probs=40.5
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCC----ceEEEEEcCCCCCCC--------cceEEEEEeCCHHHHHHHHHHhCCce
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFG----RLKDIYLPRDYYTGE--------PRGFGFVQYIDPADAADAKYHMDGYL 86 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G----~i~~v~i~~~~~~g~--------~~g~afV~f~~~~~a~~Ai~~l~g~~ 86 (193)
.|.+.+=.+-++.+.|++++.... .+.-+.+..+.-+|. ..-.++||..+..++++.|..+|...
T Consensus 99 vLVl~GD~PLit~~TL~~L~~~~~~~~~~~tvLt~~~~dP~GYGRIvr~~~g~V~~IVE~KDA~~eek~I~eiNtGi 175 (460)
T COG1207 99 VLVLYGDVPLITAETLEELLAAHPAHGAAATVLTAELDDPTGYGRIVRDGNGEVTAIVEEKDASEEEKQIKEINTGI 175 (460)
T ss_pred EEEEeCCcccCCHHHHHHHHHhhhhcCCceEEEEEEcCCCCCcceEEEcCCCcEEEEEEcCCCCHHHhcCcEEeeeE
Confidence 456666666789999997776552 333233222222332 23368899999889998887777543
No 254
>PF07876 Dabb: Stress responsive A/B Barrel Domain; InterPro: IPR013097 The stress-response A/B barrel domain is found in a class of stress-response proteins in plants. It is also found in some bacterial fructose-bisphosphate aldolase such as at the C terminus of a fructose 1,6-bisphosphate aldolase from Hydrogenophilus thermoluteolus (Q9ZA13 from SWISSPROT) []. Q93NG5 from SWISSPROT is found in the pA01 plasmid, which encodes genes for molybdopterin uptake and degradation of plant alkaloid nicotine. The stress-response A/B barrel domain forms a very stable dimer. This dimer belongs to the superfamily of dimeric alpha+beta barrels in which the two beta-sheets form a beta-barrel. The two molecules in the dimer are related by a 2-fold axis parallel to helix H1 and beta-strands B3 and B4. C-terminal residues extending from the beta4 strand of each monomer wrap around and connect with the beta2 strand and alpha1 helix of the opposing monomer to form the dimer interface [, , ].The outer surface of the beta-sheets of the two molecules forms a beta-barrel-like structure defining a central pore. The function of the stress-response A/B barrel domain is unknown [, , ], but it is upregulated in response to salt stress in Populus balsamifera (balsam poplar) []. Some proteins known to contain a stress response A/B barrel domain are listed below: - Arabidopsis thaliana At3g17210 - Arabidopsis thaliana At5g22580 -Populus tremula stable protein 1 (SP-1)(Populus species), a thermostable stress-responsive protein. - Pseudomonas hydrogenothermophila fructose 1,6-bisphosphate aldolase (cbbA). The structure of one of these proteins has been solved (Q9LUV2 from SWISSPROT) and the domain forms an alpha-beta barrel dimer [].; PDB: 3BB5_E 3FMB_A 3BDE_B 2QYC_A 1Q53_B 2Q3P_A 1Q4R_A 3BN7_A 3BGU_B 1RJJ_B ....
Probab=24.60 E-value=2e+02 Score=18.38 Aligned_cols=55 Identities=7% Similarity=0.131 Sum_probs=31.2
Q ss_pred EEEeCCCCCCCHHHHHHhh-------ccCCceEEEEEcCCCCCC---CcceEE-EEEeCCHHHHHH
Q 029462 23 LVFWFATFAMIVEDLRGPF-------GQFGRLKDIYLPRDYYTG---EPRGFG-FVQYIDPADAAD 77 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F-------~~~G~i~~v~i~~~~~~g---~~~g~a-fV~f~~~~~a~~ 77 (193)
|.+-.|...++++++.+++ .+...|..+.+-.+.... ++-.++ +++|.+.++.+.
T Consensus 4 ivlfklk~~~~~~~~~~~~~~l~~l~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~~~l~~ 69 (97)
T PF07876_consen 4 IVLFKLKPDATEEEIEEVLEALRALKDKIPGIVSFEVGRNFSPEDLAKGYDHALVSTFESEEDLDA 69 (97)
T ss_dssp EEEEEESTTTCHHHHHHHHHHHHHHHHHSTTECEEEEEEESSTSSTSTT-SEEEEEEESSHHHHHH
T ss_pred EEEEEECCCCCHHHHHHHHHHHHhcccCCCceEEEEEEcccCcccccCCCcEEEEEEECCHHHHHH
Confidence 5556677888887775543 234456666654433221 233444 568888777654
No 255
>TIGR01743 purR_Bsub pur operon repressor, Bacillus subtilis type. This model represents the puring operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.
Probab=24.04 E-value=2.4e+02 Score=22.71 Aligned_cols=41 Identities=20% Similarity=0.438 Sum_probs=30.8
Q ss_pred HHHHhhccCC--ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 36 DLRGPFGQFG--RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 36 ~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.|++.|+++| .|+.+ .|...|.-||-+...++|+..+..|.
T Consensus 44 i~~~~~~~~~~g~~~t~-------~ga~ggv~~~p~~~~~~~~~~~~~l~ 86 (268)
T TIGR01743 44 IIKETFEKFGIGKLLTV-------PGAAGGVKYIPKMSQAEAEEFVEELC 86 (268)
T ss_pred HHHHHHHhcCCceEEEe-------CCCCCCeEEEeCCCHHHHHHHHHHHH
Confidence 4788898765 44332 57778999999999999998877664
No 256
>PF03389 MobA_MobL: MobA/MobL family; InterPro: IPR005053 This entry represents a domain found at the N terminus of MobA in Escherichia coli, and MobL in Thiobacillus ferrooxidans (Acidithiobacillus ferrooxidans), as well as in conjugal transfer protein TraA. MobA and MobL are mobilisation proteins, which are essential for specific plasmid transfer.; GO: 0009291 unidirectional conjugation; PDB: 2NS6_A.
Probab=23.88 E-value=2e+02 Score=22.21 Aligned_cols=49 Identities=12% Similarity=0.176 Sum_probs=27.4
Q ss_pred ccEEEEeCCCCCCCHHH--------HHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCC
Q 029462 20 ISRLVFWFATFAMIVED--------LRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYID 71 (193)
Q Consensus 20 ~~rl~V~nl~~~~t~~~--------l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~ 71 (193)
..+=|+-.||.+++.++ ++++|..+|-+..+.|..+. ...-.|.|.|.+
T Consensus 67 ~are~~iALP~EL~~eq~~~L~~~f~~~~~~~~G~~~d~aIH~d~---~~NpHaHim~t~ 123 (216)
T PF03389_consen 67 LAREFEIALPRELTLEQNIELVREFAQENFVDYGMAADVAIHDDG---PRNPHAHIMFTT 123 (216)
T ss_dssp -EEEEEEE--TTS-HHHHHHHHHHHHHHHHTTTT--EEEEEEEET---TTEEEEEEEE--
T ss_pred EeeeeeeeCCccCCHHHHHHHHHHHHHHHhhccceEEEEEEecCC---CCCCEEEEEeec
Confidence 34557779999998665 34456678889888887532 234567777764
No 257
>PF10905 DUF2695: Protein of unknown function (DUF2695); InterPro: IPR024248 This bacterial family of proteins has no known function.
Probab=23.67 E-value=78 Score=18.73 Aligned_cols=23 Identities=17% Similarity=-0.005 Sum_probs=18.7
Q ss_pred CCHHHHHHhhccCCceEEEEEcC
Q 029462 32 MIVEDLRGPFGQFGRLKDIYLPR 54 (193)
Q Consensus 32 ~t~~~l~~~F~~~G~i~~v~i~~ 54 (193)
+..++|.+.|.+.|-..+|.|+.
T Consensus 30 ~~~~~vl~~l~~nGg~CDCEVl~ 52 (53)
T PF10905_consen 30 LDWEDVLEWLRENGGYCDCEVLY 52 (53)
T ss_pred CCHHHHHHHHHHcCCCcceeeec
Confidence 45588999999999888888764
No 258
>PRK09213 pur operon repressor; Provisional
Probab=23.48 E-value=2.3e+02 Score=22.82 Aligned_cols=41 Identities=17% Similarity=0.351 Sum_probs=31.0
Q ss_pred HHHHhhccCC--ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 36 DLRGPFGQFG--RLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 36 ~l~~~F~~~G--~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.|++.|+++| .|+.+ .|...|.-||-+...++|+..+..|.
T Consensus 46 i~~~~~~~~~~g~~~t~-------~ga~ggv~~~p~~~~~~a~~~~~~L~ 88 (271)
T PRK09213 46 IIKETFEKQGIGTLETV-------PGAAGGVKYIPSISEEEAREFVEELC 88 (271)
T ss_pred HHHHHHHhcCCceEEEe-------CCCCCCeEEEcCCCHHHHHHHHHHHH
Confidence 4688898764 44332 57778999999999999998887664
No 259
>PRK12450 foldase protein PrsA; Reviewed
Probab=23.44 E-value=1.5e+02 Score=24.14 Aligned_cols=39 Identities=15% Similarity=0.249 Sum_probs=29.4
Q ss_pred CCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 31 AMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 31 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.+|+++|+.+|..|.+ .+ ...+|.+.+.+.|+.++..|.
T Consensus 132 ~Vtd~evk~~y~~~~~--~~------------~~~~I~~~~~~~A~~i~~~l~ 170 (309)
T PRK12450 132 TISKKDYRQAYDAYTP--TM------------TAEIMQFEKEEDAKAALEAVK 170 (309)
T ss_pred CCCHHHHHHHHHHhCc--cc------------eeEEEEeCCHHHHHHHHHHHH
Confidence 3799999999988632 11 123577889999999999985
No 260
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=23.31 E-value=3.2e+02 Score=20.38 Aligned_cols=75 Identities=11% Similarity=0.084 Sum_probs=37.1
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccCCceEEEEEcCCCCCCCcceEE-EEEeCCHHHHHHH---HHHhCCceecCcEEEEEE
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFG-FVQYIDPADAADA---KYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~a-fV~f~~~~~a~~A---i~~l~g~~i~g~~l~v~~ 96 (193)
..|.|.--|..++-++|.++|-..-..... ..+- .-....|- -|-|.+.++.+.| +..+......+.+|.+++
T Consensus 55 E~V~V~yDp~~isy~~Ll~~f~~~hDPt~~--~~Qg-~D~G~qYRS~If~~~~~q~~~a~~~~~~~~~~~~~~~~i~Tei 131 (172)
T PRK14054 55 EAVEITYDPAVISYRELLELFFQIHDPTTL--NRQG-NDRGTQYRSAIFYHDEEQKEIAEASIAELQASGLFDKPIVTEV 131 (172)
T ss_pred EEEEEEECCCcCCHHHHHHHHHHhCCCCcc--CCCC-CCCCcCceeEEEeCCHHHHHHHHHHHHHHHHhcccCCCcEEEE
Confidence 347777777788888877776543222111 1000 00123343 4445565555444 444443333456666665
Q ss_pred ee
Q 029462 97 AE 98 (193)
Q Consensus 97 a~ 98 (193)
..
T Consensus 132 ~~ 133 (172)
T PRK14054 132 EP 133 (172)
T ss_pred ec
Confidence 43
No 261
>PRK15464 cold shock-like protein CspH; Provisional
Probab=23.16 E-value=59 Score=20.32 Aligned_cols=38 Identities=18% Similarity=0.156 Sum_probs=19.9
Q ss_pred ceEEEEEeCCH-HHHH---HHHHHhCCc--eecCcEEEEEEeecC
Q 029462 62 RGFGFVQYIDP-ADAA---DAKYHMDGY--LLLGRELTVVFAEEN 100 (193)
Q Consensus 62 ~g~afV~f~~~-~~a~---~Ai~~l~g~--~i~g~~l~v~~a~~~ 100 (193)
+||+||+=.+- +++- .||.. ++. ...|..|..++....
T Consensus 16 KGfGFI~~~~g~~DvFvH~s~l~~-~g~~~l~~G~~V~f~v~~~~ 59 (70)
T PRK15464 16 SGKGFIIPSDGRKEVQVHISAFTP-RDAEVLIPGLRVEFCRVNGL 59 (70)
T ss_pred CCeEEEccCCCCccEEEEehhehh-cCCCCCCCCCEEEEEEEECC
Confidence 89999975541 1221 23322 222 345777777766543
No 262
>PF00313 CSD: 'Cold-shock' DNA-binding domain; InterPro: IPR002059 When Escherichia coli is exposed to a temperature drop from 37 to 10 degrees centigrade, a 4-5 hour lag phase occurs, after which growth is resumed at a reduced rate []. During the lag phase, the expression of around 13 proteins, which contain specific DNA-binding regions [], is increased 2-10 fold. These so-called 'cold shock' proteins are thought to help the cell to survive in temperatures lower than optimum growth temperature, by contrast with heat shock proteins, which help the cell to survive in temperatures greater than the optimum, possibly by condensation of the chromosome and organisation of the prokaryotic nucleoid []. A conserved domain of about 70 amino acids has been found in prokaryotic and eukaryotic DNA-binding proteins [, , ]. This domain is known as the 'cold-shock domain' (CSD), part of which is highly similar [] to the RNP-1 RNA-binding motif.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1HZC_A 1I5F_A 1HZ9_B 1C9O_B 1HZB_B 1HZA_A 2HAX_B 2L15_A 2LSS_A 3I2Z_B ....
Probab=22.96 E-value=68 Score=19.27 Aligned_cols=10 Identities=40% Similarity=1.002 Sum_probs=8.4
Q ss_pred ceEEEEEeCC
Q 029462 62 RGFGFVQYID 71 (193)
Q Consensus 62 ~g~afV~f~~ 71 (193)
+|||||+-.+
T Consensus 12 kgyGFI~~~~ 21 (66)
T PF00313_consen 12 KGYGFITSDD 21 (66)
T ss_dssp TTEEEEEETT
T ss_pred CCceEEEEcc
Confidence 7899998865
No 263
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=22.72 E-value=13 Score=22.81 Aligned_cols=18 Identities=11% Similarity=0.126 Sum_probs=15.0
Q ss_pred EEEeCCHHHHHHHHHHhC
Q 029462 66 FVQYIDPADAADAKYHMD 83 (193)
Q Consensus 66 fV~f~~~~~a~~Ai~~l~ 83 (193)
+-.|.+.++|+.++..|.
T Consensus 48 ~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 48 VGPFSSREEAEAALRKLK 65 (76)
T ss_dssp ECCECTCCHHHHHHHHHH
T ss_pred ECCCCCHHHHHHHHHHHh
Confidence 347889999999998887
No 264
>PF12623 Hen1_L: RNA repair, ligase-Pnkp-associating, region of Hen1; InterPro: IPR024740 This entry represents the N-terminal domain of the bacterial Hen1 protein, which is a 3' terminal RNA ribose 2'-O-methyltransferase that is involved in bacterial RNA repair []. Hen1 forms a heterotetramer with Pnkp. The heterotetramer has been shown to repair transfer RNAs cleaved by ribotoxins in vitro []. The N-terminal domain of Hen1 contributes to the ligase activity of the heterotetramer.
Probab=22.56 E-value=3.3e+02 Score=21.52 Aligned_cols=60 Identities=18% Similarity=0.104 Sum_probs=39.5
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCc-eEEEEEcCCCC---CCCcceEEEEEeCCHHHHHHHHHHh
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGR-LKDIYLPRDYY---TGEPRGFGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~-i~~v~i~~~~~---~g~~~g~afV~f~~~~~a~~Ai~~l 82 (193)
.|-|.-||-.-.++-++.+|+..|= |.-..+..|.. =|. ..|..|+..-..-.++|+..|
T Consensus 120 ~v~~p~lp~rGg~~l~~rLFePLGw~V~a~~~~Ld~~fP~WG~-S~y~~l~L~g~~rl~daL~HL 183 (245)
T PF12623_consen 120 EVRLPALPCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGD-SRYVDLTLTGTVRLADALNHL 183 (245)
T ss_pred EEEeeeeecCCcHHHHHHhhcCcCceEEeEeccCCccCccccC-CcceEEEEeeeEEHHHHHhhh
Confidence 4677788888889999999999994 44334555542 133 346667776655566666554
No 265
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.30 E-value=3.2e+02 Score=20.01 Aligned_cols=52 Identities=21% Similarity=0.201 Sum_probs=35.4
Q ss_pred cEEEEeCCCCCCCHHHHHHhhccC---CceEEEEEcCCCCC---------CCcce-EEEEEeCCH
Q 029462 21 SRLVFWFATFAMIVEDLRGPFGQF---GRLKDIYLPRDYYT---------GEPRG-FGFVQYIDP 72 (193)
Q Consensus 21 ~rl~V~nl~~~~t~~~l~~~F~~~---G~i~~v~i~~~~~~---------g~~~g-~afV~f~~~ 72 (193)
.+|++..+..-+++++..++..+= +++..|.+-+.+.. ...+. |-+|.|++=
T Consensus 88 ~KI~~k~asqGISe~~a~~~i~kE~~~~e~~~V~Lg~e~~~PiWEV~y~dkeg~~s~~~vdFetG 152 (161)
T COG5353 88 GKIYSKKASQGISEEDARAIISKEKAVKEIKSVTLGREKEKPIWEVTYLDKEGRLSFYYVDFETG 152 (161)
T ss_pred CeEEEEehhcCCCHHHHHHHHhhhccccceeEEEEEeeCCceeEEEeecCccCcceEEEEEeccc
Confidence 579999999999999888887753 56666665443311 12233 778888763
No 266
>PF11061 DUF2862: Protein of unknown function (DUF2862); InterPro: IPR021291 This family of proteins has no known function.
Probab=22.19 E-value=2e+02 Score=17.71 Aligned_cols=39 Identities=23% Similarity=0.404 Sum_probs=23.0
Q ss_pred eCCCCCCCHHHHHHhhcc--CCceEEEEEcCCCCCCCcceEE-EEEeCC
Q 029462 26 WFATFAMIVEDLRGPFGQ--FGRLKDIYLPRDYYTGEPRGFG-FVQYID 71 (193)
Q Consensus 26 ~nl~~~~t~~~l~~~F~~--~G~i~~v~i~~~~~~g~~~g~a-fV~f~~ 71 (193)
.-+-..+.++ |.+.+.+ .|.|....|.- | .|.+ +|+|.+
T Consensus 10 ~~irDRi~~~-l~~~l~~~~~g~I~~fKmtD----G--~giG~vv~~~n 51 (64)
T PF11061_consen 10 SRIRDRIPKE-LVDKLGKNPIGTIKGFKMTD----G--SGIGVVVEFSN 51 (64)
T ss_pred hhhhhhccHH-HHHHhccCCcEEEEEEEEec----C--CcEEEEEEecC
Confidence 3333334444 4455566 88899888872 2 5655 566654
No 267
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=22.15 E-value=1.9e+02 Score=24.59 Aligned_cols=49 Identities=20% Similarity=0.123 Sum_probs=33.5
Q ss_pred HHHHHHhhc----cCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHHHHhC
Q 029462 34 VEDLRGPFG----QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAKYHMD 83 (193)
Q Consensus 34 ~~~l~~~F~----~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~ 83 (193)
.-+|..+|. .+|-|+.+.|...+.. ....+.++.|.+.++|.+|+..+.
T Consensus 146 g~dl~~l~~Gs~GtlGiit~~~lkl~p~p-~~~~~~~~~f~~~~~~~~~~~~~~ 198 (413)
T TIGR00387 146 GYDLTGLFVGSEGTLGIVTEATLKLLPKP-ENIVVALAFFDSIEKAMQAVYDII 198 (413)
T ss_pred CCChhhhcccCCccceEEEEEEEEeecCC-CccEEEEEECCCHHHHHHHHHHHH
Confidence 345666664 3788888877555432 234566789999999999986553
No 268
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=21.74 E-value=66 Score=19.04 Aligned_cols=37 Identities=27% Similarity=0.372 Sum_probs=18.4
Q ss_pred cceEEEEEeCC-HHHHHHHHHHhCCceecCcEEEEEEee
Q 029462 61 PRGFGFVQYID-PADAADAKYHMDGYLLLGRELTVVFAE 98 (193)
Q Consensus 61 ~~g~afV~f~~-~~~a~~Ai~~l~g~~i~g~~l~v~~a~ 98 (193)
.+|||||...+ .++.--.-..|+ .-++|-.+.|....
T Consensus 7 ~~GfGFv~~~~~~~DifIp~~~l~-~A~~gD~V~v~i~~ 44 (58)
T PF08206_consen 7 PKGFGFVIPDDGGEDIFIPPRNLN-GAMDGDKVLVRITP 44 (58)
T ss_dssp SSS-EEEEECT-TEEEEE-HHHHT-TS-TT-EEEEEEEE
T ss_pred cCCCEEEEECCCCCCEEECHHHHC-CCCCCCEEEEEEec
Confidence 38999999886 111111222333 23456677777665
No 269
>PF14268 YoaP: YoaP-like
Probab=21.53 E-value=67 Score=18.21 Aligned_cols=34 Identities=18% Similarity=0.211 Sum_probs=24.9
Q ss_pred EEEEEeCCHHHHHHHHHHhCCce--ecCcEEEEEEe
Q 029462 64 FGFVQYIDPADAADAKYHMDGYL--LLGRELTVVFA 97 (193)
Q Consensus 64 ~afV~f~~~~~a~~Ai~~l~g~~--i~g~~l~v~~a 97 (193)
+-+|.+++.|+|+.|-.-++..- ++|.-|.+++-
T Consensus 2 ~~~i~i~t~e~Aq~~P~pft~yalFYnGkfiT~eil 37 (44)
T PF14268_consen 2 FKLIKIDTLEKAQNAPCPFTTYALFYNGKFITNEIL 37 (44)
T ss_pred cEEEEeccHHHHhcCCCceeEEEEEECCEEEEeecc
Confidence 34788889999998876666543 57888887763
No 270
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=21.32 E-value=70 Score=19.81 Aligned_cols=10 Identities=50% Similarity=1.062 Sum_probs=7.6
Q ss_pred ceEEEEEeCC
Q 029462 62 RGFGFVQYID 71 (193)
Q Consensus 62 ~g~afV~f~~ 71 (193)
+||+||+=.+
T Consensus 15 kGyGFI~~~~ 24 (69)
T PRK09507 15 KGFGFITPED 24 (69)
T ss_pred CCcEEEecCC
Confidence 8999997543
No 271
>PHA01632 hypothetical protein
Probab=21.19 E-value=81 Score=18.85 Aligned_cols=21 Identities=14% Similarity=0.082 Sum_probs=16.5
Q ss_pred EEEeCCCCCCCHHHHHHhhcc
Q 029462 23 LVFWFATFAMIVEDLRGPFGQ 43 (193)
Q Consensus 23 l~V~nl~~~~t~~~l~~~F~~ 43 (193)
|.|..+|..-|+++|+..+.+
T Consensus 19 ilieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 19 ILIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred EehhhcCCCCCHHHHHHHHHH
Confidence 455688999999999877654
No 272
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=21.03 E-value=77 Score=19.50 Aligned_cols=38 Identities=24% Similarity=0.370 Sum_probs=20.2
Q ss_pred ceEEEEEeCC-HHHHH---HHHHHhCC-c-eecCcEEEEEEeecC
Q 029462 62 RGFGFVQYID-PADAA---DAKYHMDG-Y-LLLGRELTVVFAEEN 100 (193)
Q Consensus 62 ~g~afV~f~~-~~~a~---~Ai~~l~g-~-~i~g~~l~v~~a~~~ 100 (193)
+||+||+=.+ .+++- .+|.. ++ . .-.|..|..+.....
T Consensus 13 kGfGFI~~~~g~~dvfvH~s~~~~-~g~~~l~~G~~V~f~~~~~~ 56 (68)
T TIGR02381 13 KGFGFICPEGVDGDIFAHYSTIQM-DGYRTLKAGQKVQFEVVQGP 56 (68)
T ss_pred CCeEEEecCCCCccEEEEHHHhhh-cCCCCCCCCCEEEEEEEECC
Confidence 8999997654 22221 23321 23 2 235777777666544
No 273
>cd07996 WGR_MMR_like WGR domain of molybdate metabolism regulator and related proteins. The WGR domain is found in the putative Escherichia coli molybdate metabolism regulator and related bacterial proteins, as well as in various other bacterial proteins of unknown function. It has been called WGR after the most conserved central motif of the domain. The domain appears to occur in single-domain proteins and in a variety of domain architectures, together with ATP-dependent DNA ligase domains, WD40 repeats, leucine-rich repeats, and other domains. It has been proposed to function as a nucleic acid binding domain.
Probab=21.02 E-value=1.7e+02 Score=17.91 Aligned_cols=23 Identities=9% Similarity=-0.026 Sum_probs=17.7
Q ss_pred CcceEEEEEeCCHHHHHHHHHHh
Q 029462 60 EPRGFGFVQYIDPADAADAKYHM 82 (193)
Q Consensus 60 ~~~g~afV~f~~~~~a~~Ai~~l 82 (193)
...+.-...|.+.++|+++++.|
T Consensus 40 ~~Gq~~~~~~~s~~~A~~~~~k~ 62 (74)
T cd07996 40 TKGQSRTKTFDSEEEALKAAEKL 62 (74)
T ss_pred CCCceEEEECCCHHHHHHHHHHH
Confidence 33455678899999999998765
No 274
>PRK15463 cold shock-like protein CspF; Provisional
Probab=21.00 E-value=71 Score=19.89 Aligned_cols=39 Identities=21% Similarity=0.144 Sum_probs=19.8
Q ss_pred ceEEEEEeCCH-HHHH---HHHHHhCC-ceecCcEEEEEEeecC
Q 029462 62 RGFGFVQYIDP-ADAA---DAKYHMDG-YLLLGRELTVVFAEEN 100 (193)
Q Consensus 62 ~g~afV~f~~~-~~a~---~Ai~~l~g-~~i~g~~l~v~~a~~~ 100 (193)
+||+||+=.+- +++- .||..-.. ..-.|..|..++....
T Consensus 16 kGfGFI~~~~g~~DvFvH~sal~~~g~~~l~~G~~V~f~v~~~~ 59 (70)
T PRK15463 16 SGKGLITPSDGRKDVQVHISALNLRDAEELTTGLRVEFCRINGL 59 (70)
T ss_pred CceEEEecCCCCccEEEEehhhhhcCCCCCCCCCEEEEEEEECC
Confidence 89999976542 1221 33322111 2235777777665543
No 275
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=21.00 E-value=79 Score=19.96 Aligned_cols=9 Identities=44% Similarity=0.918 Sum_probs=7.0
Q ss_pred ceEEEEEeC
Q 029462 62 RGFGFVQYI 70 (193)
Q Consensus 62 ~g~afV~f~ 70 (193)
+||+||+=.
T Consensus 13 KGfGFI~~~ 21 (74)
T PRK09937 13 KGFGFICPE 21 (74)
T ss_pred CCeEEEeeC
Confidence 899998654
No 276
>PF11181 YflT: Heat induced stress protein YflT
Probab=20.99 E-value=1.2e+02 Score=20.29 Aligned_cols=29 Identities=17% Similarity=0.096 Sum_probs=21.9
Q ss_pred EEeCCHHHHHHHHHHhCCceecCcEEEEE
Q 029462 67 VQYIDPADAADAKYHMDGYLLLGRELTVV 95 (193)
Q Consensus 67 V~f~~~~~a~~Ai~~l~g~~i~g~~l~v~ 95 (193)
-.|.+.++|..||+.|...=+....|.|-
T Consensus 4 gv~~~~~E~~~~I~~L~~~Gy~~ddI~Vv 32 (103)
T PF11181_consen 4 GVYDNEEEALSAIEELKAQGYSEDDIYVV 32 (103)
T ss_pred EEECCHHHHHHHHHHHHHcCCCcccEEEE
Confidence 46889999999999987665555556553
No 277
>PRK14998 cold shock-like protein CspD; Provisional
Probab=20.88 E-value=82 Score=19.82 Aligned_cols=10 Identities=40% Similarity=0.830 Sum_probs=7.4
Q ss_pred ceEEEEEeCC
Q 029462 62 RGFGFVQYID 71 (193)
Q Consensus 62 ~g~afV~f~~ 71 (193)
+||+||+=.+
T Consensus 13 kGfGFI~~~~ 22 (73)
T PRK14998 13 KGFGFICPEG 22 (73)
T ss_pred CceEEEecCC
Confidence 8999986543
No 278
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=20.80 E-value=4.2e+02 Score=21.87 Aligned_cols=13 Identities=8% Similarity=0.258 Sum_probs=6.9
Q ss_pred CHHHHHHhhccCC
Q 029462 33 IVEDLRGPFGQFG 45 (193)
Q Consensus 33 t~~~l~~~F~~~G 45 (193)
.+.+++..|...+
T Consensus 152 ~erdm~~AYK~ad 164 (335)
T KOG0113|consen 152 HERDMKAAYKDAD 164 (335)
T ss_pred cHHHHHHHHHhcc
Confidence 3455666565543
No 279
>KOG1232 consensus Proteins containing the FAD binding domain [Energy production and conversion]
Probab=20.80 E-value=1.5e+02 Score=25.47 Aligned_cols=53 Identities=11% Similarity=0.001 Sum_probs=37.2
Q ss_pred eCCCCCCCHHHHHHhhc----cCCceEEEEEcCCCCCCCcceEEEEEeCCHHHHHHHH
Q 029462 26 WFATFAMIVEDLRGPFG----QFGRLKDIYLPRDYYTGEPRGFGFVQYIDPADAADAK 79 (193)
Q Consensus 26 ~nl~~~~t~~~l~~~F~----~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai 79 (193)
.+|-.+-|--+|+.+|- ..|.|+.|.|...+ ..++-..||+-.++.+++++++
T Consensus 230 ~slRKDNTgydlkhLFIGSEGtlGVvT~vSil~~~-kpksvn~af~gi~sf~~v~k~f 286 (511)
T KOG1232|consen 230 SSLRKDNTGYDLKHLFIGSEGTLGVVTKVSILAPP-KPKSVNVAFIGIESFDDVQKVF 286 (511)
T ss_pred hhhcccCccccchhheecCCceeeEEeeEEEeecC-CCcceeEEEEccccHHHHHHHH
Confidence 34555566677888884 46888888887654 2345678999888888887654
No 280
>PRK10943 cold shock-like protein CspC; Provisional
Probab=20.66 E-value=73 Score=19.73 Aligned_cols=38 Identities=26% Similarity=0.448 Sum_probs=19.1
Q ss_pred ceEEEEEeCCH-HHHH---HHHHHhCC-c-eecCcEEEEEEeecC
Q 029462 62 RGFGFVQYIDP-ADAA---DAKYHMDG-Y-LLLGRELTVVFAEEN 100 (193)
Q Consensus 62 ~g~afV~f~~~-~~a~---~Ai~~l~g-~-~i~g~~l~v~~a~~~ 100 (193)
+||+||+=.+- ++.- .||.. .+ . ...|..|..+.....
T Consensus 15 kGfGFI~~~~g~~dvFvH~s~l~~-~g~~~l~~G~~V~f~~~~~~ 58 (69)
T PRK10943 15 KGFGFITPADGSKDVFVHFSAIQG-NGFKTLAEGQNVEFEIQDGQ 58 (69)
T ss_pred CCcEEEecCCCCeeEEEEhhHccc-cCCCCCCCCCEEEEEEEECC
Confidence 89999975431 1211 22221 12 1 235677776665543
No 281
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=20.55 E-value=3.7e+02 Score=20.02 Aligned_cols=27 Identities=15% Similarity=0.076 Sum_probs=22.3
Q ss_pred CCHHHHHHHHHHhCCceecCcEEEEEE
Q 029462 70 IDPADAADAKYHMDGYLLLGRELTVVF 96 (193)
Q Consensus 70 ~~~~~a~~Ai~~l~g~~i~g~~l~v~~ 96 (193)
.+.++.++|++.++.....|+.+.|.-
T Consensus 90 Ps~~~i~~aVeFi~k~asLGktvYVHC 116 (183)
T KOG1719|consen 90 PSLENIQKAVEFIHKNASLGKTVYVHC 116 (183)
T ss_pred CCHHHHHHHHHHHHhccccCCeEEEEe
Confidence 468899999998888888898888764
No 282
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=20.54 E-value=2.5e+02 Score=18.12 Aligned_cols=45 Identities=11% Similarity=0.235 Sum_probs=23.0
Q ss_pred CCHHHHHHhhcc-CC----ceEEEEEcCCCCCCCcceEEEEEeCCHHHHHH
Q 029462 32 MIVEDLRGPFGQ-FG----RLKDIYLPRDYYTGEPRGFGFVQYIDPADAAD 77 (193)
Q Consensus 32 ~t~~~l~~~F~~-~G----~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~ 77 (193)
.+..+|++.+.. |+ .|.-..|......+.+.|||.| |.+.+.+++
T Consensus 13 psr~ei~~klA~~~~~~~~~ivv~~~~t~fG~~~s~g~a~I-Yd~~e~~kk 62 (84)
T PF01282_consen 13 PSRKEIREKLAAMLNVDPDLIVVFGIKTEFGGGKSTGFAKI-YDSAEALKK 62 (84)
T ss_dssp --HHHHHHHHHHHHTSTGCCEEEEEEEESSSSSEEEEEEEE-ESSHHHHHH
T ss_pred CCHHHHHHHHHHHhCCCCCeEEEeccEecCCCceEEEEEEE-eCCHHHHHH
Confidence 455666665553 33 2222234444445566777777 666666653
No 283
>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]
Probab=20.39 E-value=1.2e+02 Score=26.78 Aligned_cols=45 Identities=27% Similarity=0.338 Sum_probs=33.6
Q ss_pred cEEEEeCCCCCCCH-HHHHHhhccCCceEEEEEcCCCCCCCcceEEE
Q 029462 21 SRLVFWFATFAMIV-EDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGF 66 (193)
Q Consensus 21 ~rl~V~nl~~~~t~-~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~af 66 (193)
..||+|-.|-+..+ ++|++.+++. .+.+..+.+.+.|....||||
T Consensus 298 P~Vf~GlyPid~~dye~LrdAleKL-~LNDasl~~E~EtS~ALGfGf 343 (603)
T COG0481 298 PMVFAGLYPVDSDDYEDLRDALEKL-QLNDASLTYEPETSQALGFGF 343 (603)
T ss_pred ceEEEeecccChhHHHHHHHHHHhc-ccccceeeeccccchhccCce
Confidence 45899888887665 7888888886 556666777777777777776
No 284
>PRK03979 ADP-specific phosphofructokinase; Provisional
Probab=20.36 E-value=3.3e+02 Score=23.84 Aligned_cols=74 Identities=15% Similarity=0.130 Sum_probs=41.7
Q ss_pred ccCccEEEEeCCCCCC---CHHHHHHhhccCCceEEEEEcCCCCCCCcceEEEEEe--C---C----HHHHHHHHHHhCC
Q 029462 17 VEEISRLVFWFATFAM---IVEDLRGPFGQFGRLKDIYLPRDYYTGEPRGFGFVQY--I---D----PADAADAKYHMDG 84 (193)
Q Consensus 17 ~~~~~rl~V~nl~~~~---t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f--~---~----~~~a~~Ai~~l~g 84 (193)
.+...++++.+=+.+. ..+++.+++.+.|...++.|+ .||-.++- . + .+.+...+..|..
T Consensus 189 aPRaNRfI~s~D~~n~~l~~~eef~~~L~ei~~~~D~avl--------SG~q~i~~~y~dg~~~~~~l~r~~~~i~~L~~ 260 (463)
T PRK03979 189 VPRSNRFIVSSRPEWLRIEIKDELKEFLPEIGKMVDGAIL--------SGYQGIKEEYSDGKTAEYYLKRAKEDIKLLKK 260 (463)
T ss_pred cCCCCeEEEecCCCCccceecHHHHHHHHhhccCCCEEEE--------echhhhhccccccccHHHHHHHHHHHHHHHhh
Confidence 3444566776554443 456788888887766666665 34443322 1 1 3445555555532
Q ss_pred ceecCcEEEEEEeec
Q 029462 85 YLLLGRELTVVFAEE 99 (193)
Q Consensus 85 ~~i~g~~l~v~~a~~ 99 (193)
. =.+-++++++|.-
T Consensus 261 ~-~~~i~iH~E~As~ 274 (463)
T PRK03979 261 K-NKDIKIHVEFASI 274 (463)
T ss_pred C-CCCceEEEEeccc
Confidence 1 1356788888743
No 285
>cd04880 ACT_AAAH-PDT-like ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH). ACT domain of the nonheme iron-dependent, aromatic amino acid hydroxylases (AAAH): Phenylalanine hydroxylases (PAH), tyrosine hydroxylases (TH) and tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. This family of enzymes shares a common catalytic mechanism, in which dioxygen is used by an active site containing a single, reduced iron atom to hydroxylate an unactivated aromatic substrate, concomitant with a two-electron oxidation of tetrahydropterin (BH4) cofactor to its quinonoid dihydropterin form. Eukaryotic AAAHs have an N-terminal ACT (regulatory) domain, a middle catalytic domain and a C-terminal domain which is responsible for the oligomeric state of the enzyme forming a domain-swapped tetrameric coiled-coil. The PAH, TH, and TPH enzymes contain highly conserved catalytic domains but distinct N-terminal ACT domains and differ in their mech
Probab=20.26 E-value=2.2e+02 Score=17.29 Aligned_cols=50 Identities=18% Similarity=0.113 Sum_probs=27.9
Q ss_pred HHHHHHhhccCC-ceEEEEEcCCCCCCCcceEEEEEeCC---HHHHHHHHHHhCC
Q 029462 34 VEDLRGPFGQFG-RLKDIYLPRDYYTGEPRGFGFVQYID---PADAADAKYHMDG 84 (193)
Q Consensus 34 ~~~l~~~F~~~G-~i~~v~i~~~~~~g~~~g~afV~f~~---~~~a~~Ai~~l~g 84 (193)
-.++.+.|..+| .|..+.-.... .....-.-||++.. ....+.+++.|..
T Consensus 13 L~~vL~~f~~~~vni~~I~Srp~~-~~~~~~~f~id~~~~~~~~~~~~~l~~l~~ 66 (75)
T cd04880 13 LAKALKVFAERGINLTKIESRPSR-KGLWEYEFFVDFEGHIDDPDVKEALEELKR 66 (75)
T ss_pred HHHHHHHHHHCCCCEEEEEeeecC-CCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 456777888876 55555322111 11223445788874 5566677776653
No 286
>PHA03008 hypothetical protein; Provisional
Probab=20.22 E-value=1.4e+02 Score=22.99 Aligned_cols=32 Identities=13% Similarity=0.036 Sum_probs=27.5
Q ss_pred EEEEeCCCCCCCHHHHHHhhccCCceEEEEEc
Q 029462 22 RLVFWFATFAMIVEDLRGPFGQFGRLKDIYLP 53 (193)
Q Consensus 22 rl~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~ 53 (193)
-+||.|+..--....++-+|.+|..+..+.++
T Consensus 23 ~~~~snit~~h~~n~i~~ff~~~d~~~~~ifv 54 (234)
T PHA03008 23 IAFISNITHIHDHNIIKIFFDKFDDFDEIIFV 54 (234)
T ss_pred EEEEecccccccccHHHHHHhhccccceEEEc
Confidence 38999999888888999999999988887665
Done!