Query 021599
Match_columns 310
No_of_seqs 468 out of 2489
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 04:14:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021599.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021599hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0107 Alternative splicing f 100.0 4.7E-27 1E-31 195.0 16.8 114 1-118 1-117 (195)
2 KOG4207 Predicted splicing fac 99.8 3.7E-18 8E-23 145.5 18.6 77 6-82 9-93 (256)
3 PLN03134 glycine-rich RNA-bind 99.7 2.9E-17 6.3E-22 136.8 13.0 79 7-85 31-117 (144)
4 KOG0109 RNA-binding protein LA 99.7 8E-18 1.7E-22 150.0 6.5 104 8-120 76-179 (346)
5 KOG0105 Alternative splicing f 99.7 3.5E-17 7.5E-22 137.4 8.5 75 9-83 5-84 (241)
6 KOG0109 RNA-binding protein LA 99.7 6.9E-17 1.5E-21 144.1 7.6 72 11-82 3-74 (346)
7 TIGR01659 sex-lethal sex-letha 99.6 2.8E-15 6.1E-20 141.7 8.6 111 6-133 103-221 (346)
8 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.6 2.3E-14 5E-19 135.6 11.1 75 9-83 268-350 (352)
9 PF00076 RRM_1: RNA recognitio 99.5 1.6E-14 3.5E-19 104.1 7.0 63 13-75 1-70 (70)
10 KOG0121 Nuclear cap-binding pr 99.5 2.8E-14 6E-19 113.4 7.3 73 9-81 35-115 (153)
11 TIGR01648 hnRNP-R-Q heterogene 99.5 1.5E-13 3.2E-18 136.9 13.3 76 9-84 232-309 (578)
12 TIGR01659 sex-lethal sex-letha 99.5 2E-13 4.4E-18 129.1 12.5 75 8-82 191-275 (346)
13 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 7.9E-14 1.7E-18 132.0 9.7 75 9-83 2-84 (352)
14 PLN03120 nucleic acid binding 99.5 1.1E-13 2.4E-18 124.0 9.6 71 10-81 4-79 (260)
15 KOG0125 Ataxin 2-binding prote 99.5 7.1E-14 1.5E-18 126.7 7.2 76 7-82 93-174 (376)
16 PLN03121 nucleic acid binding 99.5 3E-13 6.4E-18 119.5 9.7 72 8-80 3-79 (243)
17 KOG0122 Translation initiation 99.4 2.3E-13 4.9E-18 119.1 8.2 77 6-82 185-269 (270)
18 KOG0130 RNA-binding protein RB 99.4 1.5E-13 3.2E-18 110.1 6.1 74 9-82 71-152 (170)
19 KOG0117 Heterogeneous nuclear 99.4 1.8E-13 3.9E-18 128.5 7.3 74 10-83 259-332 (506)
20 KOG0113 U1 small nuclear ribon 99.4 3.8E-12 8.3E-17 114.3 15.0 75 8-82 99-181 (335)
21 PLN03213 repressor of silencin 99.4 4.2E-13 9.1E-18 127.3 9.3 76 6-81 6-87 (759)
22 KOG0149 Predicted RNA-binding 99.4 4.4E-13 9.4E-18 116.9 7.1 73 8-81 10-90 (247)
23 KOG0148 Apoptosis-promoting RN 99.4 7.3E-13 1.6E-17 117.4 8.2 77 7-83 161-239 (321)
24 PF14259 RRM_6: RNA recognitio 99.4 9.6E-13 2.1E-17 95.4 6.8 63 13-75 1-70 (70)
25 smart00362 RRM_2 RNA recogniti 99.4 1.9E-12 4.2E-17 92.3 8.1 66 12-77 1-72 (72)
26 KOG0114 Predicted RNA-binding 99.4 2.4E-12 5.1E-17 98.8 7.8 75 7-81 15-94 (124)
27 TIGR01622 SF-CC1 splicing fact 99.4 2.2E-12 4.8E-17 126.4 9.3 71 10-80 186-264 (457)
28 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 3.2E-12 6.9E-17 126.4 10.3 75 8-82 273-351 (481)
29 TIGR01645 half-pint poly-U bin 99.3 3.2E-12 6.9E-17 127.8 9.7 75 9-83 203-285 (612)
30 TIGR01642 U2AF_lg U2 snRNP aux 99.3 4.6E-12 1E-16 125.8 10.3 74 9-82 294-375 (509)
31 KOG0131 Splicing factor 3b, su 99.3 2E-12 4.3E-17 108.7 6.3 75 6-80 5-87 (203)
32 cd00590 RRM RRM (RNA recogniti 99.3 1.4E-11 3.1E-16 88.2 8.5 67 12-78 1-74 (74)
33 TIGR01628 PABP-1234 polyadenyl 99.3 8.9E-12 1.9E-16 125.5 9.8 76 7-82 282-364 (562)
34 TIGR01645 half-pint poly-U bin 99.3 8.2E-12 1.8E-16 124.9 8.9 73 8-80 105-185 (612)
35 TIGR01648 hnRNP-R-Q heterogene 99.3 9.8E-12 2.1E-16 124.0 9.3 72 8-79 56-135 (578)
36 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.3 1.3E-11 2.9E-16 122.0 9.7 73 10-82 2-78 (481)
37 TIGR01622 SF-CC1 splicing fact 99.3 1.6E-11 3.5E-16 120.3 9.7 73 8-81 87-167 (457)
38 smart00360 RRM RNA recognition 99.3 2E-11 4.3E-16 86.6 7.6 63 15-77 1-71 (71)
39 TIGR01628 PABP-1234 polyadenyl 99.3 1.3E-11 2.9E-16 124.1 9.1 71 11-81 1-79 (562)
40 KOG0106 Alternative splicing f 99.3 1.4E-11 3.1E-16 107.7 8.0 73 11-83 2-74 (216)
41 KOG0111 Cyclophilin-type pepti 99.3 3.4E-12 7.4E-17 110.2 3.6 77 8-84 8-92 (298)
42 KOG0415 Predicted peptidyl pro 99.3 8.5E-12 1.8E-16 114.3 6.3 82 1-82 230-319 (479)
43 PF13893 RRM_5: RNA recognitio 99.2 2.5E-11 5.3E-16 84.4 6.7 53 27-79 1-56 (56)
44 COG0724 RNA-binding proteins ( 99.2 3.2E-11 6.9E-16 107.5 9.1 71 10-80 115-193 (306)
45 KOG0117 Heterogeneous nuclear 99.2 3.4E-11 7.4E-16 113.3 8.2 75 8-82 81-164 (506)
46 KOG0126 Predicted RNA-binding 99.2 1.7E-12 3.6E-17 109.1 -1.0 73 8-80 33-113 (219)
47 KOG4212 RNA-binding protein hn 99.2 1.1E-10 2.5E-15 109.5 9.4 70 12-81 46-123 (608)
48 KOG0127 Nucleolar protein fibr 99.2 6.5E-11 1.4E-15 113.8 7.5 73 10-82 117-196 (678)
49 KOG0148 Apoptosis-promoting RN 99.1 6.8E-11 1.5E-15 105.1 6.5 74 11-84 63-144 (321)
50 KOG0145 RNA-binding protein EL 99.1 1.9E-10 4.2E-15 101.7 8.4 74 8-81 276-357 (360)
51 KOG0145 RNA-binding protein EL 99.1 3.8E-10 8.3E-15 99.8 7.9 76 8-83 39-122 (360)
52 KOG0146 RNA-binding protein ET 99.0 2.3E-10 4.9E-15 101.6 5.6 78 6-83 281-366 (371)
53 TIGR01642 U2AF_lg U2 snRNP aux 99.0 4.7E-10 1E-14 111.4 8.4 71 9-80 174-258 (509)
54 KOG0144 RNA-binding protein CU 99.0 1.8E-10 3.9E-15 108.1 5.0 74 10-83 124-207 (510)
55 KOG0108 mRNA cleavage and poly 99.0 5.7E-10 1.2E-14 107.6 7.5 72 11-82 19-98 (435)
56 KOG4206 Spliceosomal protein s 99.0 1.3E-09 2.7E-14 95.0 8.3 75 8-82 7-90 (221)
57 KOG0153 Predicted RNA-binding 99.0 8.8E-10 1.9E-14 101.1 7.4 74 8-81 226-302 (377)
58 KOG0144 RNA-binding protein CU 99.0 1.2E-09 2.5E-14 102.7 7.3 75 8-82 32-117 (510)
59 KOG0147 Transcriptional coacti 99.0 6.2E-10 1.3E-14 107.4 5.1 69 13-81 281-357 (549)
60 KOG0124 Polypyrimidine tract-b 99.0 4.5E-10 9.9E-15 103.4 3.9 70 10-79 113-190 (544)
61 KOG0132 RNA polymerase II C-te 98.9 1.3E-09 2.9E-14 108.6 7.2 72 10-81 421-494 (894)
62 KOG4212 RNA-binding protein hn 98.9 1.1E-09 2.4E-14 103.0 6.3 71 9-79 535-608 (608)
63 KOG4661 Hsp27-ERE-TATA-binding 98.9 1.3E-09 2.8E-14 105.3 6.9 75 10-84 405-487 (940)
64 smart00361 RRM_1 RNA recogniti 98.9 2.2E-09 4.7E-14 78.2 6.2 54 24-77 2-70 (70)
65 KOG0116 RasGAP SH3 binding pro 98.9 3.7E-09 8E-14 101.6 9.6 79 6-85 284-370 (419)
66 KOG0127 Nucleolar protein fibr 98.9 1.5E-09 3.3E-14 104.6 6.9 77 8-84 3-87 (678)
67 KOG0106 Alternative splicing f 98.9 2.4E-09 5.2E-14 93.8 5.6 69 8-76 97-165 (216)
68 KOG0110 RNA-binding protein (R 98.8 7.5E-09 1.6E-13 102.6 7.7 72 11-82 516-598 (725)
69 KOG4205 RNA-binding protein mu 98.8 4.5E-09 9.7E-14 97.5 4.9 76 7-83 3-86 (311)
70 KOG0123 Polyadenylate-binding 98.8 1.4E-08 3.1E-13 96.8 7.8 70 11-81 77-152 (369)
71 KOG0533 RRM motif-containing p 98.8 2E-08 4.4E-13 89.8 7.6 73 9-81 82-161 (243)
72 KOG0124 Polypyrimidine tract-b 98.8 1.7E-08 3.6E-13 93.3 7.0 71 10-80 210-288 (544)
73 KOG4454 RNA binding protein (R 98.7 5E-09 1.1E-13 90.7 2.6 74 8-81 7-86 (267)
74 KOG0110 RNA-binding protein (R 98.7 1.6E-08 3.4E-13 100.3 5.4 74 8-81 611-692 (725)
75 KOG0131 Splicing factor 3b, su 98.7 3.6E-08 7.8E-13 83.3 6.2 74 9-82 95-177 (203)
76 KOG1457 RNA binding protein (c 98.7 6.6E-08 1.4E-12 84.1 7.8 80 6-85 30-121 (284)
77 KOG4676 Splicing factor, argin 98.7 1.6E-07 3.4E-12 87.6 10.8 67 11-78 8-85 (479)
78 KOG0151 Predicted splicing reg 98.7 2.9E-08 6.3E-13 98.3 6.2 78 4-81 167-256 (877)
79 KOG4208 Nucleolar RNA-binding 98.6 1.1E-07 2.4E-12 81.9 7.6 77 6-82 45-130 (214)
80 KOG4205 RNA-binding protein mu 98.6 1.5E-07 3.2E-12 87.5 7.7 73 10-83 97-177 (311)
81 PF08777 RRM_3: RNA binding mo 98.6 1.2E-07 2.6E-12 74.7 5.9 70 10-79 1-77 (105)
82 KOG0105 Alternative splicing f 98.6 5.4E-07 1.2E-11 76.4 9.9 64 8-71 113-177 (241)
83 PF11608 Limkain-b1: Limkain b 98.5 4.9E-07 1.1E-11 67.2 7.9 68 11-80 3-75 (90)
84 KOG1548 Transcription elongati 98.5 2.1E-07 4.5E-12 85.7 7.2 77 8-84 132-223 (382)
85 KOG0146 RNA-binding protein ET 98.5 1.2E-07 2.5E-12 84.5 5.2 74 9-82 18-101 (371)
86 KOG4209 Splicing factor RNPS1, 98.4 6.3E-07 1.4E-11 80.2 7.3 76 6-82 97-180 (231)
87 KOG0123 Polyadenylate-binding 98.4 6.3E-07 1.4E-11 85.7 7.6 69 11-82 2-75 (369)
88 KOG4660 Protein Mei2, essentia 98.4 2.9E-07 6.4E-12 89.3 4.0 67 9-75 74-143 (549)
89 KOG1190 Polypyrimidine tract-b 98.2 2.7E-06 5.9E-11 79.9 7.6 72 10-81 297-372 (492)
90 PF04059 RRM_2: RNA recognitio 98.2 7.5E-06 1.6E-10 63.3 8.0 72 11-82 2-87 (97)
91 KOG1457 RNA binding protein (c 98.2 1.1E-06 2.3E-11 76.7 3.5 60 10-69 210-273 (284)
92 KOG1995 Conserved Zn-finger pr 98.1 8.4E-06 1.8E-10 75.7 7.1 77 7-83 63-155 (351)
93 KOG4211 Splicing factor hnRNP- 98.0 1.8E-05 3.8E-10 76.2 8.5 74 6-81 6-85 (510)
94 KOG1456 Heterogeneous nuclear 98.0 2.7E-05 5.9E-10 72.6 8.5 76 6-81 283-362 (494)
95 KOG4206 Spliceosomal protein s 97.9 2.9E-05 6.2E-10 68.0 7.5 75 6-80 142-220 (221)
96 COG5175 MOT2 Transcriptional r 97.9 1.7E-05 3.7E-10 73.0 6.2 70 11-80 115-201 (480)
97 PF14605 Nup35_RRM_2: Nup53/35 97.9 3.9E-05 8.5E-10 52.7 5.8 50 11-61 2-53 (53)
98 KOG4676 Splicing factor, argin 97.8 2.8E-06 6E-11 79.4 -1.0 74 10-84 151-228 (479)
99 KOG0120 Splicing factor U2AF, 97.8 1.4E-05 3E-10 78.3 3.7 75 9-83 288-370 (500)
100 KOG1855 Predicted RNA-binding 97.8 2.3E-05 5.1E-10 74.2 4.3 67 2-68 222-310 (484)
101 KOG4211 Splicing factor hnRNP- 97.8 5.8E-05 1.3E-09 72.7 7.0 70 9-79 102-179 (510)
102 KOG0226 RNA-binding proteins [ 97.7 4.8E-05 1.1E-09 67.7 5.1 74 7-80 187-268 (290)
103 KOG2202 U2 snRNP splicing fact 97.6 2.9E-05 6.3E-10 69.2 2.2 57 25-81 83-147 (260)
104 PF05172 Nup35_RRM: Nup53/35/4 97.6 0.00023 4.9E-09 55.5 6.9 72 7-80 3-90 (100)
105 KOG2416 Acinus (induces apopto 97.6 6.2E-05 1.4E-09 73.9 4.5 75 6-80 440-520 (718)
106 KOG1456 Heterogeneous nuclear 97.6 0.00024 5.2E-09 66.4 7.8 80 4-83 114-200 (494)
107 KOG0147 Transcriptional coacti 97.6 0.00012 2.6E-09 71.4 5.8 56 25-80 468-526 (549)
108 KOG1548 Transcription elongati 97.5 0.00029 6.3E-09 65.3 7.5 72 9-80 264-350 (382)
109 KOG3152 TBP-binding protein, a 97.5 6.7E-05 1.5E-09 66.8 2.9 64 10-73 74-157 (278)
110 PF08952 DUF1866: Domain of un 97.5 0.00038 8.2E-09 57.5 7.1 56 26-82 52-107 (146)
111 KOG1190 Polypyrimidine tract-b 97.4 0.00027 5.8E-09 66.8 6.4 74 8-81 412-490 (492)
112 KOG4210 Nuclear localization s 97.4 0.00015 3.4E-09 67.0 4.6 76 9-85 183-267 (285)
113 KOG0129 Predicted RNA-binding 97.4 0.00059 1.3E-08 66.3 8.4 55 8-62 368-431 (520)
114 KOG0112 Large RNA-binding prot 97.3 0.00025 5.3E-09 72.8 5.0 75 8-82 453-531 (975)
115 KOG0120 Splicing factor U2AF, 97.2 0.00066 1.4E-08 66.7 6.2 54 27-80 426-490 (500)
116 KOG4849 mRNA cleavage factor I 97.1 0.00055 1.2E-08 63.5 4.1 67 10-76 80-156 (498)
117 KOG2193 IGF-II mRNA-binding pr 97.1 0.00058 1.3E-08 64.8 4.2 72 11-82 2-76 (584)
118 KOG1996 mRNA splicing factor [ 97.0 0.0014 3.1E-08 59.5 6.1 57 24-80 300-365 (378)
119 PF03880 DbpA: DbpA RNA bindin 97.0 0.0033 7.1E-08 46.1 7.0 67 12-79 2-74 (74)
120 KOG2314 Translation initiation 96.9 0.0026 5.5E-08 62.6 7.4 71 8-78 56-140 (698)
121 KOG4307 RNA binding protein RB 96.9 0.0025 5.4E-08 64.0 7.3 68 11-78 868-943 (944)
122 KOG0129 Predicted RNA-binding 96.8 0.0027 5.8E-08 61.8 6.4 53 10-62 259-324 (520)
123 PF10309 DUF2414: Protein of u 96.8 0.0084 1.8E-07 42.4 7.1 54 10-64 5-62 (62)
124 KOG2068 MOT2 transcription fac 96.7 0.00063 1.4E-08 63.0 0.9 71 11-81 78-162 (327)
125 KOG4207 Predicted splicing fac 96.6 0.055 1.2E-06 47.2 12.4 67 2-71 8-87 (256)
126 KOG0112 Large RNA-binding prot 96.6 0.00052 1.1E-08 70.5 -0.3 77 3-79 365-448 (975)
127 KOG1365 RNA-binding protein Fu 96.5 0.0024 5.3E-08 60.0 3.5 71 10-80 280-360 (508)
128 KOG4307 RNA binding protein RB 96.3 0.0022 4.8E-08 64.4 2.5 73 6-78 430-510 (944)
129 KOG2135 Proteins containing th 96.2 0.0028 6E-08 61.1 2.5 74 9-83 371-447 (526)
130 PF03467 Smg4_UPF3: Smg-4/UPF3 96.1 0.0033 7.1E-08 54.1 2.3 74 7-80 4-96 (176)
131 KOG2253 U1 snRNP complex, subu 96.1 0.0047 1E-07 61.8 3.2 75 4-79 34-108 (668)
132 PF00098 zf-CCHC: Zinc knuckle 95.9 0.0057 1.2E-07 32.3 1.7 17 103-119 2-18 (18)
133 KOG1365 RNA-binding protein Fu 95.6 0.016 3.6E-07 54.6 4.7 69 7-76 158-237 (508)
134 PF08675 RNA_bind: RNA binding 95.5 0.036 7.7E-07 41.5 5.2 54 11-65 10-63 (87)
135 KOG2591 c-Mpl binding protein, 95.4 0.025 5.3E-07 55.8 5.2 69 8-76 173-246 (684)
136 PF15023 DUF4523: Protein of u 95.4 0.084 1.8E-06 43.5 7.5 71 8-79 84-159 (166)
137 KOG0119 Splicing factor 1/bran 95.3 0.014 2.9E-07 56.8 3.1 86 46-142 206-304 (554)
138 PF04847 Calcipressin: Calcipr 95.3 0.043 9.2E-07 47.5 5.9 60 23-82 8-71 (184)
139 PF07576 BRAP2: BRCA1-associat 95.3 0.13 2.8E-06 40.7 8.1 64 8-71 10-81 (110)
140 COG5082 AIR1 Arginine methyltr 95.1 0.015 3.2E-07 50.1 2.3 39 102-140 61-114 (190)
141 KOG0128 RNA-binding protein SA 95.0 0.002 4.2E-08 66.1 -3.6 61 10-70 667-735 (881)
142 KOG0115 RNA-binding protein p5 94.9 0.028 6.1E-07 50.4 3.7 55 11-65 32-93 (275)
143 KOG4285 Mitotic phosphoprotein 94.8 0.11 2.3E-06 47.8 7.3 63 10-74 197-261 (350)
144 PTZ00368 universal minicircle 94.7 0.029 6.3E-07 46.7 3.2 38 103-140 105-146 (148)
145 KOG4019 Calcineurin-mediated s 94.6 0.041 9E-07 46.9 3.8 83 1-83 1-91 (193)
146 KOG0128 RNA-binding protein SA 94.5 0.021 4.4E-07 58.9 2.2 72 10-81 736-814 (881)
147 KOG4574 RNA-binding protein (c 94.4 0.028 6E-07 57.9 2.8 71 13-83 301-375 (1007)
148 KOG0804 Cytoplasmic Zn-finger 94.4 0.13 2.9E-06 49.6 7.1 62 10-71 74-142 (493)
149 KOG0107 Alternative splicing f 94.2 0.3 6.4E-06 41.7 8.0 16 126-141 103-118 (195)
150 PTZ00368 universal minicircle 93.9 0.084 1.8E-06 43.9 4.4 39 103-141 54-95 (148)
151 COG5082 AIR1 Arginine methyltr 93.2 0.068 1.5E-06 46.1 2.6 41 102-142 98-139 (190)
152 KOG4400 E3 ubiquitin ligase in 92.4 0.098 2.1E-06 47.8 2.7 41 102-143 144-184 (261)
153 PF11767 SET_assoc: Histone ly 92.3 0.52 1.1E-05 33.8 5.8 55 21-76 11-65 (66)
154 KOG2318 Uncharacterized conser 92.3 0.56 1.2E-05 46.8 7.8 69 8-76 172-300 (650)
155 KOG4660 Protein Mei2, essentia 92.1 0.17 3.7E-06 50.0 4.1 73 10-82 388-473 (549)
156 KOG2193 IGF-II mRNA-binding pr 91.9 0.01 2.3E-07 56.6 -4.3 70 10-79 80-154 (584)
157 PF00098 zf-CCHC: Zinc knuckle 91.8 0.14 3.1E-06 26.9 1.8 17 125-141 2-18 (18)
158 PRK11634 ATP-dependent RNA hel 90.0 2.9 6.3E-05 43.1 11.0 62 19-81 496-562 (629)
159 KOG4210 Nuclear localization s 89.1 0.3 6.4E-06 45.3 2.6 73 9-81 87-167 (285)
160 KOG2891 Surface glycoprotein [ 88.9 0.16 3.5E-06 46.2 0.7 60 10-69 149-247 (445)
161 PF13917 zf-CCHC_3: Zinc knuck 84.1 0.65 1.4E-05 30.2 1.4 19 101-119 4-22 (42)
162 KOG4483 Uncharacterized conser 83.6 2.9 6.2E-05 40.1 6.0 55 8-62 389-445 (528)
163 KOG1295 Nonsense-mediated deca 83.5 1.4 3E-05 42.0 3.9 63 8-70 5-78 (376)
164 PRK10629 EnvZ/OmpR regulon mod 80.4 13 0.00029 30.1 8.1 72 9-80 34-109 (127)
165 PF13696 zf-CCHC_2: Zinc knuck 79.4 1.4 3.1E-05 26.8 1.6 20 101-120 8-27 (32)
166 KOG4400 E3 ubiquitin ligase in 78.9 1.6 3.5E-05 39.7 2.7 42 101-142 118-162 (261)
167 PF14787 zf-CCHC_5: GAG-polypr 78.6 1.7 3.7E-05 27.1 1.8 20 102-121 3-22 (36)
168 PF10567 Nab6_mRNP_bdg: RNA-re 78.1 4.1 8.8E-05 37.6 4.9 80 1-80 6-106 (309)
169 PF03468 XS: XS domain; Inter 75.9 3 6.5E-05 33.3 3.1 50 12-61 10-74 (116)
170 KOG4410 5-formyltetrahydrofola 75.6 7.9 0.00017 35.7 6.0 45 10-54 330-377 (396)
171 cd06405 PB1_Mekk2_3 The PB1 do 74.1 32 0.00069 25.2 7.8 60 17-77 15-75 (79)
172 KOG2548 SWAP mRNA splicing reg 72.3 1.9 4.2E-05 42.6 1.4 14 46-59 229-242 (653)
173 smart00343 ZnF_C2HC zinc finge 68.8 2.9 6.4E-05 23.7 1.1 17 103-119 1-17 (26)
174 PRK14548 50S ribosomal protein 68.6 17 0.00038 27.2 5.6 51 14-64 24-81 (84)
175 TIGR03636 L23_arch archaeal ri 68.6 19 0.0004 26.6 5.6 52 13-64 16-74 (77)
176 COG5638 Uncharacterized conser 68.3 21 0.00045 34.6 7.2 36 7-42 143-183 (622)
177 KOG2295 C2H2 Zn-finger protein 66.3 1.5 3.3E-05 43.6 -0.7 63 9-71 230-300 (648)
178 PF00403 HMA: Heavy-metal-asso 64.8 38 0.00081 23.0 6.5 52 12-63 1-58 (62)
179 cd00027 BRCT Breast Cancer Sup 64.5 22 0.00048 23.7 5.3 47 10-56 1-47 (72)
180 KOG4008 rRNA processing protei 63.6 5.6 0.00012 35.6 2.4 35 9-43 39-73 (261)
181 KOG4365 Uncharacterized conser 62.0 1.3 2.8E-05 43.0 -2.0 70 10-80 3-80 (572)
182 PF08734 GYD: GYD domain; Int 59.9 33 0.00072 25.9 5.8 40 24-63 22-66 (91)
183 COG0150 PurM Phosphoribosylami 57.2 3.7 7.9E-05 38.8 0.1 45 23-67 274-322 (345)
184 CHL00123 rps6 ribosomal protei 55.8 47 0.001 25.4 6.1 49 12-62 10-80 (97)
185 PRK11901 hypothetical protein; 53.8 37 0.00081 31.9 6.1 57 8-68 243-308 (327)
186 COG0724 RNA-binding proteins ( 53.2 15 0.00032 31.8 3.4 37 7-43 222-258 (306)
187 PTZ00191 60S ribosomal protein 52.5 38 0.00082 28.1 5.3 47 15-61 86-139 (145)
188 PF13721 SecD-TM1: SecD export 52.1 1E+02 0.0022 23.8 7.5 57 11-67 32-92 (101)
189 KOG2146 Splicing coactivator S 51.6 1.2E+02 0.0026 28.2 8.8 32 48-79 56-88 (354)
190 PF09902 DUF2129: Uncharacteri 51.5 31 0.00066 25.1 4.1 38 30-68 16-53 (71)
191 cd04904 ACT_AAAH ACT domain of 48.5 97 0.0021 22.1 7.0 45 22-66 12-65 (74)
192 KOG0835 Cyclin L [General func 48.4 36 0.00077 32.1 5.0 6 47-52 176-181 (367)
193 PF09180 ProRS-C_1: Prolyl-tRN 48.0 24 0.00051 25.2 3.1 38 25-72 2-39 (68)
194 smart00596 PRE_C2HC PRE_C2HC d 47.8 25 0.00053 25.4 3.1 53 25-80 2-63 (69)
195 PF01037 AsnC_trans_reg: AsnC 47.8 91 0.002 21.5 7.5 41 23-63 11-55 (74)
196 TIGR01033 DNA-binding regulato 46.9 72 0.0016 28.7 6.8 45 8-52 92-143 (238)
197 PF14392 zf-CCHC_4: Zinc knuck 46.6 8.4 0.00018 25.6 0.5 17 102-118 32-48 (49)
198 PF14111 DUF4283: Domain of un 45.0 7.9 0.00017 31.6 0.2 67 13-80 18-90 (153)
199 PRK02886 hypothetical protein; 43.8 46 0.00099 25.2 4.1 51 10-68 7-57 (87)
200 KOG4840 Predicted hydrolases o 43.7 85 0.0018 28.4 6.4 62 10-71 37-107 (299)
201 PF15513 DUF4651: Domain of un 43.5 28 0.00062 24.5 2.8 18 25-42 9-26 (62)
202 COG5236 Uncharacterized conser 42.9 48 0.001 31.5 5.0 52 23-74 263-314 (493)
203 COG2608 CopZ Copper chaperone 42.7 86 0.0019 22.3 5.4 44 10-53 3-48 (71)
204 PF07237 DUF1428: Protein of u 42.2 75 0.0016 24.8 5.3 39 26-64 24-85 (103)
205 PF07530 PRE_C2HC: Associated 42.1 41 0.00089 24.1 3.6 53 25-80 2-63 (68)
206 PF14893 PNMA: PNMA 41.7 25 0.00053 33.4 3.0 49 8-56 16-74 (331)
207 PRK00110 hypothetical protein; 41.6 93 0.002 28.2 6.6 45 8-52 92-143 (245)
208 PRK02302 hypothetical protein; 41.5 52 0.0011 25.0 4.1 38 30-68 22-59 (89)
209 PF12829 Mhr1: Transcriptional 39.1 48 0.001 25.3 3.7 48 18-65 20-72 (91)
210 TIGR00100 hypA hydrogenase nic 38.8 1.4E+02 0.0031 23.5 6.6 71 35-133 24-96 (115)
211 PRK12380 hydrogenase nickel in 38.0 1.3E+02 0.0027 23.7 6.2 43 36-81 25-69 (113)
212 KOG3116 Predicted C3H1-type Zn 37.8 7.9 0.00017 32.1 -0.8 21 101-121 27-47 (177)
213 COG3254 Uncharacterized conser 37.4 1E+02 0.0022 24.2 5.2 38 24-61 26-68 (105)
214 COG0375 HybF Zn finger protein 37.4 1.6E+02 0.0035 23.4 6.6 53 27-81 14-69 (115)
215 PF14026 DUF4242: Protein of u 37.1 1.6E+02 0.0035 21.4 7.3 56 13-69 3-71 (77)
216 PRK00762 hypA hydrogenase nick 37.0 1.6E+02 0.0035 23.6 6.7 44 35-81 24-69 (124)
217 KOG4454 RNA binding protein (R 35.1 8.7 0.00019 34.1 -1.0 61 9-69 79-150 (267)
218 PRK12378 hypothetical protein; 34.8 1.1E+02 0.0025 27.4 6.0 45 8-52 89-140 (235)
219 PF05036 SPOR: Sporulation rel 34.8 17 0.00036 25.5 0.6 57 9-65 3-65 (76)
220 cd04905 ACT_CM-PDT C-terminal 34.2 1.7E+02 0.0037 20.9 6.0 44 23-66 14-68 (80)
221 cd04458 CSP_CDS Cold-Shock Pro 34.1 22 0.00048 24.7 1.1 48 34-81 2-54 (65)
222 PF02714 DUF221: Domain of unk 33.9 42 0.00091 31.1 3.3 32 47-80 1-32 (325)
223 COG5222 Uncharacterized conser 33.8 20 0.00044 33.2 1.1 25 96-120 171-195 (427)
224 smart00457 MACPF membrane-atta 33.7 74 0.0016 27.3 4.6 37 16-52 31-69 (194)
225 cd04903 ACT_LSD C-terminal ACT 33.7 1.5E+02 0.0032 19.8 6.6 30 13-42 2-32 (71)
226 PF01782 RimM: RimM N-terminal 33.5 67 0.0014 23.4 3.7 31 37-68 47-77 (84)
227 PF00276 Ribosomal_L23: Riboso 32.8 93 0.002 23.5 4.5 29 14-42 23-53 (91)
228 KOG2985 Uncharacterized conser 32.3 42 0.00091 30.4 2.8 19 102-120 82-100 (306)
229 COG0360 RpsF Ribosomal protein 31.8 1.5E+02 0.0032 23.5 5.5 62 18-79 9-95 (112)
230 PF09869 DUF2096: Uncharacteri 31.4 2.3E+02 0.0049 24.1 6.8 47 17-65 118-164 (169)
231 PF04127 DFP: DNA / pantothena 30.9 1.1E+02 0.0024 26.3 5.2 53 12-64 20-79 (185)
232 PRK00453 rpsF 30S ribosomal pr 30.6 2E+02 0.0042 22.2 6.1 45 18-62 10-76 (108)
233 KOG0635 Adenosine 5'-phosphosu 30.5 81 0.0018 26.8 4.0 35 7-41 28-65 (207)
234 cd06404 PB1_aPKC PB1 domain is 30.3 2.4E+02 0.0051 21.2 6.7 54 12-65 10-69 (83)
235 smart00292 BRCT breast cancer 30.3 1.7E+02 0.0037 19.6 5.6 45 9-53 4-49 (80)
236 TIGR02381 cspD cold shock doma 29.7 31 0.00067 24.5 1.3 48 34-81 3-55 (68)
237 COG5227 SMT3 Ubiquitin-like pr 29.6 1.3E+02 0.0029 22.9 4.6 59 8-67 32-101 (103)
238 COG1207 GlmU N-acetylglucosami 29.5 1.2E+02 0.0027 29.8 5.6 64 3-66 90-173 (460)
239 cd04931 ACT_PAH ACT domain of 29.2 2.5E+02 0.0054 21.1 7.5 43 23-65 27-79 (90)
240 cd01201 Neurobeachin Neurobeac 29.2 2.9E+02 0.0062 21.8 6.7 53 13-65 49-106 (108)
241 smart00666 PB1 PB1 domain. Pho 28.9 2.2E+02 0.0047 20.3 7.0 53 13-65 12-69 (81)
242 KOG2187 tRNA uracil-5-methyltr 28.8 48 0.001 33.3 2.8 65 17-81 32-100 (534)
243 COG5507 Uncharacterized conser 28.6 65 0.0014 25.0 2.9 19 46-64 68-86 (117)
244 PF08544 GHMP_kinases_C: GHMP 28.6 2.2E+02 0.0047 20.2 6.0 40 25-65 37-80 (85)
245 PRK10905 cell division protein 28.5 98 0.0021 29.2 4.6 56 9-67 246-309 (328)
246 PF06804 Lipoprotein_18: NlpB/ 28.0 1.1E+02 0.0023 28.5 4.9 49 9-57 197-246 (303)
247 PF07292 NID: Nmi/IFP 35 domai 27.7 25 0.00055 26.6 0.6 24 9-32 51-74 (88)
248 KOG0156 Cytochrome P450 CYP2 s 27.6 1.2E+02 0.0026 30.3 5.5 59 14-74 36-97 (489)
249 PF11411 DNA_ligase_IV: DNA li 27.5 42 0.00091 21.0 1.4 17 20-36 19-35 (36)
250 PF01762 Galactosyl_T: Galacto 27.2 73 0.0016 27.2 3.5 55 9-63 20-77 (195)
251 PF12623 Hen1_L: RNA repair, l 27.0 1.2E+02 0.0025 27.4 4.6 55 10-64 118-183 (245)
252 COG4274 Uncharacterized conser 26.7 2.1E+02 0.0046 22.2 5.4 36 25-60 33-73 (104)
253 cd04929 ACT_TPH ACT domain of 26.4 2.5E+02 0.0054 20.2 7.3 44 23-66 13-65 (74)
254 COG1278 CspC Cold shock protei 26.4 20 0.00043 25.7 -0.2 48 34-81 3-55 (67)
255 PRK15464 cold shock-like prote 26.4 41 0.0009 24.2 1.5 47 34-80 6-57 (70)
256 TIGR00110 ilvD dihydroxy-acid 26.3 97 0.0021 31.4 4.5 32 49-82 387-418 (535)
257 COG0079 HisC Histidinol-phosph 26.1 81 0.0018 30.1 3.8 43 9-53 145-191 (356)
258 COG4029 Uncharacterized protei 25.7 3.6E+02 0.0079 21.8 7.9 63 10-75 5-67 (142)
259 PRK00564 hypA hydrogenase nick 25.6 3.4E+02 0.0073 21.4 6.7 44 35-81 24-70 (117)
260 PF11823 DUF3343: Protein of u 25.6 64 0.0014 23.0 2.4 25 45-69 2-26 (73)
261 cd04883 ACT_AcuB C-terminal AC 25.5 2.3E+02 0.0049 19.4 7.8 41 23-63 14-63 (72)
262 PRK09937 stationary phase/star 25.4 50 0.0011 24.0 1.7 47 34-80 3-54 (74)
263 PF07521 RMMBL: RNA-metabolisi 25.3 1.9E+02 0.0041 18.4 4.7 33 10-43 6-38 (43)
264 PF03802 CitX: Apo-citrate lya 25.1 3.8E+02 0.0082 22.7 7.4 35 46-80 82-117 (170)
265 COG0735 Fur Fe2+/Zn2+ uptake r 25.0 2E+02 0.0043 23.6 5.5 52 26-77 60-133 (145)
266 PF00398 RrnaAD: Ribosomal RNA 24.7 83 0.0018 28.4 3.5 31 9-39 96-128 (262)
267 PRK15463 cold shock-like prote 24.7 47 0.001 23.8 1.5 47 34-80 6-57 (70)
268 KOG4213 RNA-binding protein La 24.6 87 0.0019 27.1 3.2 42 22-63 118-169 (205)
269 PRK09507 cspE cold shock prote 24.6 49 0.0011 23.6 1.6 20 34-53 5-24 (69)
270 PRK14998 cold shock-like prote 24.6 53 0.0012 23.8 1.8 47 34-80 3-54 (73)
271 cd04880 ACT_AAAH-PDT-like ACT 24.4 2.5E+02 0.0055 19.6 6.4 44 22-65 11-65 (75)
272 cd04879 ACT_3PGDH-like ACT_3PG 24.4 2.2E+02 0.0047 18.8 6.1 31 13-43 2-33 (71)
273 cd00862 ProRS_anticodon_zinc P 24.3 1.5E+02 0.0032 25.8 4.8 23 45-67 145-167 (202)
274 PF00313 CSD: 'Cold-shock' DNA 24.0 55 0.0012 22.7 1.7 21 35-55 3-23 (66)
275 PF03439 Spt5-NGN: Early trans 23.9 1.5E+02 0.0031 21.9 4.1 33 36-68 33-68 (84)
276 PRK11230 glycolate oxidase sub 23.5 1.5E+02 0.0033 29.6 5.4 55 10-64 189-254 (499)
277 PRK10943 cold shock-like prote 23.5 53 0.0012 23.4 1.6 48 34-81 5-57 (69)
278 smart00195 DSPc Dual specifici 23.1 1.6E+02 0.0034 23.3 4.5 27 12-40 7-33 (138)
279 COG0217 Uncharacterized conser 23.0 3.1E+02 0.0067 24.8 6.6 54 8-61 92-156 (241)
280 cd04894 ACT_ACR-like_1 ACT dom 23.0 2.2E+02 0.0048 20.3 4.4 37 17-53 6-46 (69)
281 PF15063 TC1: Thyroid cancer p 22.9 50 0.0011 24.2 1.3 49 12-64 27-78 (79)
282 COG0030 KsgA Dimethyladenosine 22.9 1.1E+02 0.0023 28.1 3.8 28 10-37 95-122 (259)
283 PF00533 BRCT: BRCA1 C Terminu 22.8 1.2E+02 0.0025 21.0 3.3 37 8-45 6-42 (78)
284 KOG0119 Splicing factor 1/bran 22.6 2.7E+02 0.0058 28.0 6.5 21 103-123 287-307 (554)
285 PF05711 TylF: Macrocin-O-meth 22.5 39 0.00084 30.7 0.8 57 21-77 139-211 (248)
286 cd04930 ACT_TH ACT domain of t 22.2 3.9E+02 0.0086 21.0 6.7 43 23-65 54-105 (115)
287 PRK09890 cold shock protein Cs 22.2 56 0.0012 23.4 1.5 20 34-53 6-25 (70)
288 PRK12450 foldase protein PrsA; 22.2 1.6E+02 0.0035 27.4 4.9 39 21-65 132-170 (309)
289 cd06408 PB1_NoxR The PB1 domai 21.9 2.9E+02 0.0063 20.8 5.3 51 13-63 13-66 (86)
290 PF01823 MACPF: MAC/Perforin d 21.9 1E+02 0.0022 26.3 3.3 31 15-45 53-86 (212)
291 COG0002 ArgC Acetylglutamate s 21.8 1.6E+02 0.0035 28.1 4.8 31 11-42 247-278 (349)
292 PF09078 CheY-binding: CheY bi 21.8 3.1E+02 0.0066 19.6 6.8 63 12-76 2-64 (65)
293 PHA03008 hypothetical protein; 21.7 1.2E+02 0.0027 26.5 3.7 36 10-45 21-56 (234)
294 PF08156 NOP5NT: NOP5NT (NUC12 21.6 35 0.00077 24.3 0.3 55 8-64 8-64 (67)
295 KOG2854 Possible pfkB family c 21.5 1.1E+02 0.0023 29.1 3.5 52 11-62 161-230 (343)
296 PF06014 DUF910: Bacterial pro 21.3 68 0.0015 22.6 1.7 18 23-40 3-20 (62)
297 PF13193 AMP-binding_C: AMP-bi 21.2 2.9E+02 0.0063 19.1 5.2 44 26-70 1-54 (73)
298 PRK10354 RNA chaperone/anti-te 21.0 61 0.0013 23.1 1.5 20 34-53 6-25 (70)
299 TIGR03124 ctirate_citX holo-AC 20.9 3.9E+02 0.0083 22.6 6.5 33 46-78 80-113 (165)
300 PF02829 3H: 3H domain; Inter 20.9 3.2E+02 0.007 21.0 5.6 46 21-66 8-58 (98)
301 cd04902 ACT_3PGDH-xct C-termin 20.6 2.8E+02 0.0062 18.7 5.9 53 14-66 3-64 (73)
302 COG4010 Uncharacterized protei 20.4 2.6E+02 0.0057 23.3 5.1 47 17-65 118-164 (170)
303 CHL00030 rpl23 ribosomal prote 20.3 1.4E+02 0.0029 22.9 3.3 30 13-42 21-52 (93)
304 KOG3671 Actin regulatory prote 20.3 1.5E+02 0.0032 29.7 4.3 46 21-66 89-137 (569)
305 COG3102 Uncharacterized protei 20.3 1.1E+02 0.0023 26.2 3.0 29 54-82 123-151 (185)
306 PF14084 DUF4264: Protein of u 20.2 1.3E+02 0.0027 20.5 2.7 35 46-81 5-39 (52)
307 PRK06131 dihydroxy-acid dehydr 20.1 1.7E+02 0.0037 29.9 4.8 31 49-81 405-437 (571)
No 1
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.95 E-value=4.7e-27 Score=195.00 Aligned_cols=114 Identities=55% Similarity=1.008 Sum_probs=92.3
Q ss_pred CCCCCCCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC---CeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 1 MPRYDDRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR---DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 1 m~~~~~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~---~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
||.+++.+.+++|||+||+..+++.||+.+|..||.|..|.|.. +||||||++..||++|+..|||..|+|..|.||
T Consensus 1 m~r~~~~~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE 80 (195)
T KOG0107|consen 1 MPRYRDRNGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVE 80 (195)
T ss_pred CCcccccCCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceEEeccCcccHHHHHhhcCCccccCceEEEE
Confidence 99999999999999999999999999999999999999998854 699999999999999999999999999999999
Q ss_pred eccCCCCCCCCCCCccCCCCCCCCCCCccCCCCCCCCccCC
Q 021599 78 FARGGPRGPGGSREYLGRGPPPGSGRCFNCGIDGHWARDCK 118 (310)
Q Consensus 78 ~ak~~~~~~~g~~~~~grg~~~~~~rc~~~G~~g~~~rdc~ 118 (310)
+.+..+++..++ +.. ++.+...|+.||..|||..+|.
T Consensus 81 ~S~G~~r~~r~g---g~~-~~~g~~~~~r~G~rg~~~r~~~ 117 (195)
T KOG0107|consen 81 LSTGRPRGSRRG---GSR-PPRGRGFCYRCGERGHIGRNCK 117 (195)
T ss_pred eecCCccccccC---CCC-CcccccccccCCCccccccccc
Confidence 999887753321 111 2222233555555555554443
No 2
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.80 E-value=3.7e-18 Score=145.50 Aligned_cols=77 Identities=45% Similarity=0.708 Sum_probs=71.6
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
+-++.+.|.|-||.+.|+.++|..+|++||.|.+|.|++ +||||.|.+..||++||+.|+|.+|+|+.|.|+
T Consensus 9 dv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq 88 (256)
T KOG4207|consen 9 DVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQ 88 (256)
T ss_pred CcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeeh
Confidence 335679999999999999999999999999999999975 499999999999999999999999999999999
Q ss_pred eccCC
Q 021599 78 FARGG 82 (310)
Q Consensus 78 ~ak~~ 82 (310)
+|+-.
T Consensus 89 ~aryg 93 (256)
T KOG4207|consen 89 MARYG 93 (256)
T ss_pred hhhcC
Confidence 99854
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.74 E-value=2.9e-17 Score=136.79 Aligned_cols=79 Identities=30% Similarity=0.570 Sum_probs=72.3
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeee
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 78 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ 78 (310)
....++|||+||++.++|++|+++|.+||+|+.|.|+ ++||||+|.+.++|+.||+.||+++|+|+.|+|++
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 3457899999999999999999999999999999886 35999999999999999999999999999999999
Q ss_pred ccCCCCC
Q 021599 79 ARGGPRG 85 (310)
Q Consensus 79 ak~~~~~ 85 (310)
+...+..
T Consensus 111 a~~~~~~ 117 (144)
T PLN03134 111 ANDRPSA 117 (144)
T ss_pred CCcCCCC
Confidence 9866543
No 4
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.71 E-value=8e-18 Score=149.99 Aligned_cols=104 Identities=29% Similarity=0.676 Sum_probs=92.3
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCCCCCCC
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGPRGPG 87 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~~~~~~ 87 (310)
...++|+|+||.+.++.+||++.|++||.|++|+|+++|+||.|...++|..||..||+++|.|+.|+|++.+.+-+...
T Consensus 76 k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrtap 155 (346)
T KOG0109|consen 76 KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRTAP 155 (346)
T ss_pred CCccccccCCCCccccCHHHhhhhcccCCceeeeeecceeEEEEeeccchHHHHhcccccccccceeeeeeeccccccCC
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999987644322
Q ss_pred CCCCccCCCCCCCCCCCccCCCCCCCCccCCCC
Q 021599 88 GSREYLGRGPPPGSGRCFNCGIDGHWARDCKAG 120 (310)
Q Consensus 88 g~~~~~grg~~~~~~rc~~~G~~g~~~rdc~~~ 120 (310)
|. +..-.||.||+.|||.++|+..
T Consensus 156 gm---------gDq~~cyrcGkeghwskEcP~~ 179 (346)
T KOG0109|consen 156 GM---------GDQSGCYRCGKEGHWSKECPVD 179 (346)
T ss_pred CC---------CCHHHheeccccccccccCCcc
Confidence 21 1234699999999999999964
No 5
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.70 E-value=3.5e-17 Score=137.42 Aligned_cols=75 Identities=52% Similarity=1.014 Sum_probs=70.2
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-----CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCCC
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-----DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 83 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-----~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~~ 83 (310)
..++|||+|||.+|.+.||++||.+||.|.+|+|.. .||||+|++..||+.||..-||..++|..|.|+|+....
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr 84 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGR 84 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCC
Confidence 568999999999999999999999999999999853 399999999999999999999999999999999998764
No 6
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.68 E-value=6.9e-17 Score=144.05 Aligned_cols=72 Identities=28% Similarity=0.628 Sum_probs=69.7
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~ 82 (310)
.+|||||||.++++++|+.+|++||+|++|+|+++||||..++...++.||..|||.+|+|..|.|+.++.+
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecccceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 579999999999999999999999999999999999999999999999999999999999999999998866
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=99.59 E-value=2.8e-15 Score=141.66 Aligned_cols=111 Identities=25% Similarity=0.374 Sum_probs=87.2
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
+....++|||+||++++++++|+++|.+||+|+.|+|+. +||||+|.++++|+.||+.||+++|.++.|+|.
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 455789999999999999999999999999999999863 499999999999999999999999999999999
Q ss_pred eccCCCCCCCCCCCccCCCCCCCCCCCccCCCCCCCCccCCCCCCCcccccCCCCC
Q 021599 78 FARGGPRGPGGSREYLGRGPPPGSGRCFNCGIDGHWARDCKAGDWKNKCYRCGERG 133 (310)
Q Consensus 78 ~ak~~~~~~~g~~~~~grg~~~~~~rc~~~G~~g~~~rdc~~~~~~~~~~~cg~~~ 133 (310)
++++..... ....+|..+ +..++.+.+++..+..||+..
T Consensus 183 ~a~p~~~~~-------------~~~~lfV~n----Lp~~vtee~L~~~F~~fG~V~ 221 (346)
T TIGR01659 183 YARPGGESI-------------KDTNLYVTN----LPRTITDDQLDTIFGKYGQIV 221 (346)
T ss_pred ccccccccc-------------ccceeEEeC----CCCcccHHHHHHHHHhcCCEE
Confidence 987532110 112355544 444455556666666666553
No 8
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.55 E-value=2.3e-14 Score=135.60 Aligned_cols=75 Identities=24% Similarity=0.428 Sum_probs=69.4
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
.+.+|||+||++.+++++|+++|.+||.|+.|.|+ +|||||+|.+.++|..||..|||..|+|+.|.|.|+.
T Consensus 268 ~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~ 347 (352)
T TIGR01661 268 AGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKT 347 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcc
Confidence 34579999999999999999999999999999986 4599999999999999999999999999999999987
Q ss_pred CCC
Q 021599 81 GGP 83 (310)
Q Consensus 81 ~~~ 83 (310)
.+.
T Consensus 348 ~~~ 350 (352)
T TIGR01661 348 NKA 350 (352)
T ss_pred CCC
Confidence 553
No 9
>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=99.54 E-value=1.6e-14 Score=104.11 Aligned_cols=63 Identities=38% Similarity=0.778 Sum_probs=59.2
Q ss_pred EEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCcccCCCcee
Q 021599 13 LYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRDVDGSRII 75 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~ 75 (310)
|||+|||..+++++|+++|.+||.|..+.|.. +||||+|.+.++|+.||+.|||..|+|+.|+
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 89999999999999999999999999998864 3999999999999999999999999998874
No 10
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.52 E-value=2.8e-14 Score=113.37 Aligned_cols=73 Identities=33% Similarity=0.561 Sum_probs=68.1
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
..++|||+||+..|+|++|.+||.++|+|..|.|- .+||||+|-..++|+.||..++|+.|+.+.|.|.|..
T Consensus 35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~ 114 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA 114 (153)
T ss_pred hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccc
Confidence 47999999999999999999999999999998873 3599999999999999999999999999999999986
Q ss_pred C
Q 021599 81 G 81 (310)
Q Consensus 81 ~ 81 (310)
+
T Consensus 115 G 115 (153)
T KOG0121|consen 115 G 115 (153)
T ss_pred c
Confidence 4
No 11
>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=99.51 E-value=1.5e-13 Score=136.94 Aligned_cols=76 Identities=37% Similarity=0.567 Sum_probs=72.1
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhc--CCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCCCC
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRY--GRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGPR 84 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~--G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~~~ 84 (310)
...+|||+||++.+++++|+++|++| |+|+.|.++++||||+|++.++|++||+.|||.+|+|+.|+|.|+++...
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~~ 309 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIRDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVDK 309 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeecCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCCc
Confidence 35789999999999999999999999 99999999999999999999999999999999999999999999987644
No 12
>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=99.50 E-value=2e-13 Score=129.07 Aligned_cols=75 Identities=31% Similarity=0.498 Sum_probs=67.8
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCC--Cceeee
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDG--SRIIVE 77 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~G--r~I~V~ 77 (310)
...++|||+||++.|+|++|+++|.+||+|+.|.|+. +||||+|.+.++|++||+.||++.|++ ..|.|.
T Consensus 191 ~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~ 270 (346)
T TIGR01659 191 IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVR 270 (346)
T ss_pred cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEE
Confidence 3467899999999999999999999999999998863 499999999999999999999999876 678898
Q ss_pred eccCC
Q 021599 78 FARGG 82 (310)
Q Consensus 78 ~ak~~ 82 (310)
++...
T Consensus 271 ~a~~~ 275 (346)
T TIGR01659 271 LAEEH 275 (346)
T ss_pred ECCcc
Confidence 88754
No 13
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.49 E-value=7.9e-14 Score=131.95 Aligned_cols=75 Identities=29% Similarity=0.527 Sum_probs=69.8
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
..++|||+|||..+++++|+++|.+||+|..|.|+. +||||+|.+.++|+.||+.|||..|.|+.|.|++++
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 468999999999999999999999999999999963 499999999999999999999999999999999997
Q ss_pred CCC
Q 021599 81 GGP 83 (310)
Q Consensus 81 ~~~ 83 (310)
+..
T Consensus 82 ~~~ 84 (352)
T TIGR01661 82 PSS 84 (352)
T ss_pred ccc
Confidence 643
No 14
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.49 E-value=1.1e-13 Score=123.96 Aligned_cols=71 Identities=28% Similarity=0.464 Sum_probs=66.8
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-----CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-----DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-----~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
.++|||+||++.+++++|++||..||+|+.|.|+. +||||+|.+.++|+.|| .|||..|.|+.|.|.++..
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 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITPAED 79 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEeccC
Confidence 57999999999999999999999999999999963 59999999999999999 6999999999999999864
No 15
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.47 E-value=7.1e-14 Score=126.71 Aligned_cols=76 Identities=36% Similarity=0.611 Sum_probs=70.6
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
.+.-.+|+|.|||+...+.||+.+|++||.|.+|+|+ ||||||+|++.+||++|-++|||..|+|++|+|..|+
T Consensus 93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~AT 172 (376)
T KOG0125|consen 93 KDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNAT 172 (376)
T ss_pred CCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccc
Confidence 3456899999999999999999999999999999996 5699999999999999999999999999999999987
Q ss_pred CC
Q 021599 81 GG 82 (310)
Q Consensus 81 ~~ 82 (310)
.+
T Consensus 173 ar 174 (376)
T KOG0125|consen 173 AR 174 (376)
T ss_pred hh
Confidence 54
No 16
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.46 E-value=3e-13 Score=119.52 Aligned_cols=72 Identities=26% Similarity=0.397 Sum_probs=67.0
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-----CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-----DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-----~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
..+++|||+||++.+++++|++||..||+|.+|.|+. +||||+|.++++|+.|| .|+|..|.++.|.|....
T Consensus 3 ~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 3 PGGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG 79 (243)
T ss_pred CCceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence 4579999999999999999999999999999999976 39999999999999999 899999999999988754
No 17
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.45 E-value=2.3e-13 Score=119.10 Aligned_cols=77 Identities=34% Similarity=0.509 Sum_probs=72.1
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
.+.+.++|-|.||+.++++++|++||..||.|..|.|. +|||||.|...++|+.||..|||+-++...|.|+
T Consensus 185 ~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvE 264 (270)
T KOG0122|consen 185 ERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVE 264 (270)
T ss_pred cCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEE
Confidence 45688999999999999999999999999999999885 4599999999999999999999999999999999
Q ss_pred eccCC
Q 021599 78 FARGG 82 (310)
Q Consensus 78 ~ak~~ 82 (310)
|+++.
T Consensus 265 wskP~ 269 (270)
T KOG0122|consen 265 WSKPS 269 (270)
T ss_pred ecCCC
Confidence 99975
No 18
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.44 E-value=1.5e-13 Score=110.14 Aligned_cols=74 Identities=23% Similarity=0.499 Sum_probs=68.8
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEE--------eCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDM--------KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i--------~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
.++.|||+++...+++++|.+.|..||+|++|.| +++||+|+|++.++|+.||+.|||..|.|+.|.|.|+-
T Consensus 71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~F 150 (170)
T KOG0130|consen 71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCF 150 (170)
T ss_pred eeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEE
Confidence 4689999999999999999999999999999987 46799999999999999999999999999999999976
Q ss_pred CC
Q 021599 81 GG 82 (310)
Q Consensus 81 ~~ 82 (310)
..
T Consensus 151 v~ 152 (170)
T KOG0130|consen 151 VK 152 (170)
T ss_pred ec
Confidence 43
No 19
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.44 E-value=1.8e-13 Score=128.49 Aligned_cols=74 Identities=35% Similarity=0.582 Sum_probs=71.2
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCCC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 83 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~~ 83 (310)
-..|||.||+.+||++.|+++|.+||+|+.|+.+++||||.|.+.++|.+||+.|||++|+|..|.|.+|++..
T Consensus 259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~ 332 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVD 332 (506)
T ss_pred eeeeeeeccchhhhHHHHHHHHHhccceEEeecccceeEEeecchHHHHHHHHHhcCceecCceEEEEecCChh
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999753
No 20
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.43 E-value=3.8e-12 Score=114.27 Aligned_cols=75 Identities=33% Similarity=0.606 Sum_probs=69.8
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
++-+||||+-|+.+|+|..|+..|+.||.|+.|.|+. |||||+|+++.+++.|.+..+|.+|+|+.|.|.+.
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 4568999999999999999999999999999999864 59999999999999999999999999999999987
Q ss_pred cCC
Q 021599 80 RGG 82 (310)
Q Consensus 80 k~~ 82 (310)
..+
T Consensus 179 RgR 181 (335)
T KOG0113|consen 179 RGR 181 (335)
T ss_pred ccc
Confidence 654
No 21
>PLN03213 repressor of silencing 3; Provisional
Probab=99.43 E-value=4.2e-13 Score=127.31 Aligned_cols=76 Identities=33% Similarity=0.495 Sum_probs=70.0
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC----CeEEEEECCH--HHHHHHHHhcCCcccCCCceeeeec
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR----DFAFVEFSDP--RDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~----~~afV~F~~~--eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
....+.+||||||++.|+++||..+|..||.|..|.|++ +||||+|... .++.+||..|||.+++|+.|+|+.|
T Consensus 6 s~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKA 85 (759)
T PLN03213 6 SGGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRTKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKA 85 (759)
T ss_pred cCCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeec
Confidence 345678999999999999999999999999999999985 5999999987 7899999999999999999999998
Q ss_pred cC
Q 021599 80 RG 81 (310)
Q Consensus 80 k~ 81 (310)
++
T Consensus 86 KP 87 (759)
T PLN03213 86 KE 87 (759)
T ss_pred cH
Confidence 64
No 22
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.41 E-value=4.4e-13 Score=116.87 Aligned_cols=73 Identities=27% Similarity=0.409 Sum_probs=65.2
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
..-|+||||+|+|+|..++|+.+|++||+|+++.|+ +|||||+|.+.+.|..|++..| -.|+|++..|.+|
T Consensus 10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA 88 (247)
T KOG0149|consen 10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLA 88 (247)
T ss_pred ceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC-Ccccccccccchh
Confidence 345899999999999999999999999999999886 4599999999999999996654 7899999999887
Q ss_pred cC
Q 021599 80 RG 81 (310)
Q Consensus 80 k~ 81 (310)
--
T Consensus 89 ~l 90 (247)
T KOG0149|consen 89 SL 90 (247)
T ss_pred hh
Confidence 54
No 23
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.40 E-value=7.3e-13 Score=117.44 Aligned_cols=77 Identities=26% Similarity=0.489 Sum_probs=72.3
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCCC
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 83 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~~ 83 (310)
..++|+||||||+..++|++|+++|..||.|.+|.|.+ +|+||.|.+.|.|..||..||+.+|.|..+++.|-+...
T Consensus 161 sp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~~ 239 (321)
T KOG0148|consen 161 SPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKDQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEGD 239 (321)
T ss_pred CCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecccceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccCC
Confidence 46789999999999999999999999999999999976 599999999999999999999999999999999987653
No 24
>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=99.38 E-value=9.6e-13 Score=95.45 Aligned_cols=63 Identities=40% Similarity=0.740 Sum_probs=56.8
Q ss_pred EEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCcccCCCcee
Q 021599 13 LYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRDVDGSRII 75 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~ 75 (310)
|||+|||+.+++++|.++|..||.|..+.+.. ++|||+|.+.++|..|++.+++..|+|+.|.
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 79999999999999999999999999998853 4999999999999999999999999998874
No 25
>smart00362 RRM_2 RNA recognition motif.
Probab=99.38 E-value=1.9e-12 Score=92.33 Aligned_cols=66 Identities=41% Similarity=0.736 Sum_probs=61.2
Q ss_pred EEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC------CeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 12 RLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
+|||.|||..+++++|+++|.+||.|..+.+.. ++|||+|.+.++|+.|+..|++..|.|..|.|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 589999999999999999999999999988753 699999999999999999999999999988773
No 26
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.36 E-value=2.4e-12 Score=98.82 Aligned_cols=75 Identities=29% Similarity=0.482 Sum_probs=68.8
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe-----CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK-----RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~-----~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
...+..|||.|||..+|.+++.++|.+||.|..|.|- +|.|||.|++..+|.+|+++|+|..+++..|.|-+-.+
T Consensus 15 pevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~ 94 (124)
T KOG0114|consen 15 PEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQP 94 (124)
T ss_pred hhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCH
Confidence 3457789999999999999999999999999999984 46999999999999999999999999999999987654
No 27
>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=99.35 E-value=2.2e-12 Score=126.43 Aligned_cols=71 Identities=34% Similarity=0.655 Sum_probs=67.4
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
.++|||+||+..+++++|+++|.+||.|..|.|+ ++||||+|.+.++|+.||+.|||+.|.|+.|.|.|+.
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~ 264 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ 264 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence 5899999999999999999999999999999886 3599999999999999999999999999999999976
No 28
>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=99.35 E-value=3.2e-12 Score=126.43 Aligned_cols=75 Identities=27% Similarity=0.377 Sum_probs=69.6
Q ss_pred CCCcEEEEccCCC-CCcHHHHHHHHHhcCCeeEEEEe---CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCC
Q 021599 8 YGGTRLYVGRLAS-RTRSRDLEEIFSRYGRIRDVDMK---RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 8 ~~~~~l~V~nL~~-~~te~dL~~~F~~~G~V~~v~i~---~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~ 82 (310)
..+++|||+||++ .+++++|+++|+.||.|..|.|+ ++||||+|.+.++|+.||..|||..|.|+.|.|.+++..
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~ 351 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNKKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQ 351 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccc
Confidence 4678999999998 69999999999999999999987 469999999999999999999999999999999998653
No 29
>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=99.34 E-value=3.2e-12 Score=127.81 Aligned_cols=75 Identities=21% Similarity=0.428 Sum_probs=69.6
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
..++|||+||+..+++++|+++|+.||+|+.|.|+ +|||||+|.+.++|..||+.||+++|+|+.|.|.++.
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 45799999999999999999999999999999885 3599999999999999999999999999999999988
Q ss_pred CCC
Q 021599 81 GGP 83 (310)
Q Consensus 81 ~~~ 83 (310)
..+
T Consensus 283 ~pP 285 (612)
T TIGR01645 283 TPP 285 (612)
T ss_pred CCc
Confidence 644
No 30
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.33 E-value=4.6e-12 Score=125.76 Aligned_cols=74 Identities=27% Similarity=0.558 Sum_probs=68.5
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
..++|||+|||..+++++|+++|..||.|..+.|+ +|||||+|.+.++|+.||+.|||+.|.|..|.|+++.
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC 373 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence 35799999999999999999999999999998885 3599999999999999999999999999999999987
Q ss_pred CC
Q 021599 81 GG 82 (310)
Q Consensus 81 ~~ 82 (310)
..
T Consensus 374 ~~ 375 (509)
T TIGR01642 374 VG 375 (509)
T ss_pred cC
Confidence 54
No 31
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.33 E-value=2e-12 Score=108.73 Aligned_cols=75 Identities=31% Similarity=0.441 Sum_probs=70.7
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
+.....+|||+||+..++++.|.++|-+.|.|+.+.|++ |||||+|.++|+|+.||+.||...|-|+.|+|.
T Consensus 5 ~rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ 84 (203)
T KOG0131|consen 5 ERNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVN 84 (203)
T ss_pred ccCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEE
Confidence 667889999999999999999999999999999999864 599999999999999999999999999999998
Q ss_pred ecc
Q 021599 78 FAR 80 (310)
Q Consensus 78 ~ak 80 (310)
.+.
T Consensus 85 kas 87 (203)
T KOG0131|consen 85 KAS 87 (203)
T ss_pred ecc
Confidence 887
No 32
>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=99.30 E-value=1.4e-11 Score=88.22 Aligned_cols=67 Identities=43% Similarity=0.817 Sum_probs=62.3
Q ss_pred EEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeee
Q 021599 12 RLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 78 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ 78 (310)
+|+|+|||..+++++|+++|..||.|..+.+.. ++|||+|.+.++|..|++.|++..+.|..|.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 489999999999999999999999999988863 5999999999999999999999999999998864
No 33
>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=99.29 E-value=8.9e-12 Score=125.45 Aligned_cols=76 Identities=32% Similarity=0.550 Sum_probs=70.3
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
...+++|||+||+..+++++|+++|.+||+|+.|.|+. +||||+|.+.++|++||..|||..|+|+.|.|.++
T Consensus 282 ~~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a 361 (562)
T TIGR01628 282 KAQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALA 361 (562)
T ss_pred ccCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEec
Confidence 45678899999999999999999999999999999863 59999999999999999999999999999999998
Q ss_pred cCC
Q 021599 80 RGG 82 (310)
Q Consensus 80 k~~ 82 (310)
..+
T Consensus 362 ~~k 364 (562)
T TIGR01628 362 QRK 364 (562)
T ss_pred cCc
Confidence 753
No 34
>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=99.28 E-value=8.2e-12 Score=124.87 Aligned_cols=73 Identities=30% Similarity=0.504 Sum_probs=67.6
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
...++|||+||++.+++++|+++|.+||.|..|.|+ +|||||+|.+.++|+.||+.|||..|+|+.|.|.+.
T Consensus 105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp 184 (612)
T TIGR01645 105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 184 (612)
T ss_pred cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence 356899999999999999999999999999999985 469999999999999999999999999999999865
Q ss_pred c
Q 021599 80 R 80 (310)
Q Consensus 80 k 80 (310)
.
T Consensus 185 ~ 185 (612)
T TIGR01645 185 S 185 (612)
T ss_pred c
Confidence 4
No 35
>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=99.28 E-value=9.8e-12 Score=123.99 Aligned_cols=72 Identities=24% Similarity=0.433 Sum_probs=64.2
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCcccC-CCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRDVD-GSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~l~-Gr~I~V~~a 79 (310)
..+++|||+|||++++|++|+++|++||.|..|.|++ +||||+|.+.++|+.||+.||+.+|. |+.|.|.++
T Consensus 56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 4469999999999999999999999999999999863 49999999999999999999999885 677666544
No 36
>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=99.27 E-value=1.3e-11 Score=122.00 Aligned_cols=73 Identities=21% Similarity=0.212 Sum_probs=67.4
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--CeEEEEECCHHHHHHHHHh--cCCcccCCCceeeeeccCC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--DFAFVEFSDPRDADDARYS--LNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--~~afV~F~~~eda~~Ai~~--lng~~l~Gr~I~V~~ak~~ 82 (310)
..+|||+|||+.+++++|+++|.+||+|..|.|++ +||||+|.+.++|+.||+. +++..|.|+.|.|+|+...
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~ 78 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPGKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQ 78 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECCCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCc
Confidence 57899999999999999999999999999999875 5999999999999999986 4789999999999998754
No 37
>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=99.26 E-value=1.6e-11 Score=120.34 Aligned_cols=73 Identities=36% Similarity=0.539 Sum_probs=67.0
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
....+|||+|||..+++++|++||.+||+|..|.|++ +||||+|.+.++|++|| .|+|..|.|..|.|+++
T Consensus 87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al-~l~g~~~~g~~i~v~~~ 165 (457)
T TIGR01622 87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKAL-ALTGQMLLGRPIIVQSS 165 (457)
T ss_pred cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHH-HhCCCEECCeeeEEeec
Confidence 3467999999999999999999999999999999963 59999999999999999 59999999999999887
Q ss_pred cC
Q 021599 80 RG 81 (310)
Q Consensus 80 k~ 81 (310)
..
T Consensus 166 ~~ 167 (457)
T TIGR01622 166 QA 167 (457)
T ss_pred ch
Confidence 54
No 38
>smart00360 RRM RNA recognition motif.
Probab=99.26 E-value=2e-11 Score=86.59 Aligned_cols=63 Identities=41% Similarity=0.771 Sum_probs=58.1
Q ss_pred EccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 15 VGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 15 V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
|+||+..+++++|+++|.+||.|..+.+.. ++|||+|.+.++|..|+..|++..|.|..|.|+
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 689999999999999999999999998853 499999999999999999999999999998874
No 39
>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=99.26 E-value=1.3e-11 Score=124.15 Aligned_cols=71 Identities=27% Similarity=0.549 Sum_probs=66.2
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
.+|||+||+.+++|++|.++|.+||.|+.|.|.+ +||||+|.+.++|+.||+.||+..|.|+.|.|.|+..
T Consensus 1 ~sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~ 79 (562)
T TIGR01628 1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQR 79 (562)
T ss_pred CeEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccc
Confidence 4799999999999999999999999999999863 4999999999999999999999999999999998753
No 40
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.26 E-value=1.4e-11 Score=107.74 Aligned_cols=73 Identities=55% Similarity=0.981 Sum_probs=69.6
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCCC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 83 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~~ 83 (310)
..|||++|++.+.+.+|+.||..||+|..|.|..+|+||+|++.-+|..||..||+.+|.|..|.|++++...
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~ 74 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKR 74 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceeecccceeccCchhhhhcccchhcCceecceeeeeecccccc
Confidence 5799999999999999999999999999999999999999999999999999999999999999999998643
No 41
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.25 E-value=3.4e-12 Score=110.16 Aligned_cols=77 Identities=32% Similarity=0.527 Sum_probs=70.9
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
..-.+||||+|..++++.-|...|-.||.|+.|.|+ ++||||+|...|||..||+.||+.+|.|+.|.|.+|
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A 87 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA 87 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence 345799999999999999999999999999999985 459999999999999999999999999999999999
Q ss_pred cCCCC
Q 021599 80 RGGPR 84 (310)
Q Consensus 80 k~~~~ 84 (310)
++..-
T Consensus 88 kP~ki 92 (298)
T KOG0111|consen 88 KPEKI 92 (298)
T ss_pred CCccc
Confidence 87543
No 42
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.25 E-value=8.5e-12 Score=114.29 Aligned_cols=82 Identities=33% Similarity=0.598 Sum_probs=76.0
Q ss_pred CCCCCCCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC--------eEEEEECCHHHHHHHHHhcCCcccCCC
Q 021599 1 MPRYDDRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD--------FAFVEFSDPRDADDARYSLNGRDVDGS 72 (310)
Q Consensus 1 m~~~~~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~--------~afV~F~~~eda~~Ai~~lng~~l~Gr 72 (310)
||.-+..++.+.|||..|.+.|+.+||..+|..||.|..|.|+++ ||||+|++.+++++|..+|++..|+.+
T Consensus 230 lpdAd~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDr 309 (479)
T KOG0415|consen 230 LPDADVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDR 309 (479)
T ss_pred CcccccCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccc
Confidence 456667788999999999999999999999999999999999875 999999999999999999999999999
Q ss_pred ceeeeeccCC
Q 021599 73 RIIVEFARGG 82 (310)
Q Consensus 73 ~I~V~~ak~~ 82 (310)
.|.|.|++.-
T Consensus 310 RIHVDFSQSV 319 (479)
T KOG0415|consen 310 RIHVDFSQSV 319 (479)
T ss_pred eEEeehhhhh
Confidence 9999998653
No 43
>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=99.24 E-value=2.5e-11 Score=84.42 Aligned_cols=53 Identities=38% Similarity=0.738 Sum_probs=49.3
Q ss_pred HHHHHHhcCCeeEEEEeC---CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 27 LEEIFSRYGRIRDVDMKR---DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 27 L~~~F~~~G~V~~v~i~~---~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
|.++|++||+|..+.+.. ++|||+|.+.++|+.|+..|||..|.|+.|.|+|+
T Consensus 1 L~~~f~~fG~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 689999999999999976 79999999999999999999999999999999986
No 44
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.23 E-value=3.2e-11 Score=107.53 Aligned_cols=71 Identities=35% Similarity=0.675 Sum_probs=66.8
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
.++|||+||+..+++++|.++|.+||.|..|.|+ ++||||+|.+.++|..||+.|+|..|.|+.|.|.++.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 5999999999999999999999999999888774 3599999999999999999999999999999999975
No 45
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.21 E-value=3.4e-11 Score=113.34 Aligned_cols=75 Identities=23% Similarity=0.443 Sum_probs=68.4
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCccc-CCCceeeee
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDV-DGSRIIVEF 78 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l-~Gr~I~V~~ 78 (310)
.-+|-||||.||.++.|++|..||++.|+|-++.|+. +||||+|.+.++|+.||+.||+++| .|+.|.|++
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~ 160 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCV 160 (506)
T ss_pred CCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEE
Confidence 4589999999999999999999999999999999874 4999999999999999999999998 589999888
Q ss_pred ccCC
Q 021599 79 ARGG 82 (310)
Q Consensus 79 ak~~ 82 (310)
+..+
T Consensus 161 Svan 164 (506)
T KOG0117|consen 161 SVAN 164 (506)
T ss_pred eeec
Confidence 7643
No 46
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.20 E-value=1.7e-12 Score=109.09 Aligned_cols=73 Identities=32% Similarity=0.510 Sum_probs=67.9
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
.++.-|||||||+++||.||..+|.+||+|++|.|++ ||||+.|+++-....||+.|||+.|.|+.|.|...
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 3567899999999999999999999999999999975 49999999999999999999999999999999875
Q ss_pred c
Q 021599 80 R 80 (310)
Q Consensus 80 k 80 (310)
.
T Consensus 113 ~ 113 (219)
T KOG0126|consen 113 S 113 (219)
T ss_pred c
Confidence 4
No 47
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.16 E-value=1.1e-10 Score=109.50 Aligned_cols=70 Identities=26% Similarity=0.496 Sum_probs=64.9
Q ss_pred EEEEccCCCCCcHHHHHHHHH-hcCCeeEEEEe-------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 12 RLYVGRLASRTRSRDLEEIFS-RYGRIRDVDMK-------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~-~~G~V~~v~i~-------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
.|||+|||+++.|++|++||. +.|+|++|.|+ +++|.|+|+++|.+++|++.||.+++.|+.|+|+....
T Consensus 46 ~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 46 SVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD 123 (608)
T ss_pred eEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence 499999999999999999994 68999999986 45999999999999999999999999999999988765
No 48
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.16 E-value=6.5e-11 Score=113.80 Aligned_cols=73 Identities=32% Similarity=0.622 Sum_probs=69.3
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~ 82 (310)
-.+|+|.|||+.|...+|+.+|..||.|.+|.|++ |||||+|.+..+|..||+.||+.+|+|+.|-|.||-..
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~K 196 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDK 196 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeeccc
Confidence 68999999999999999999999999999999964 59999999999999999999999999999999999754
No 49
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.14 E-value=6.8e-11 Score=105.05 Aligned_cols=74 Identities=27% Similarity=0.544 Sum_probs=69.4
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~ 82 (310)
..|||+.|...|+.++|++.|.+||+|.+++|++ +|+||.|.+.++|+.||+.|||.+|.++.|...||.-+
T Consensus 63 fhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRK 142 (321)
T KOG0148|consen 63 FHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRK 142 (321)
T ss_pred eeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccC
Confidence 4699999999999999999999999999999975 49999999999999999999999999999999999866
Q ss_pred CC
Q 021599 83 PR 84 (310)
Q Consensus 83 ~~ 84 (310)
+.
T Consensus 143 p~ 144 (321)
T KOG0148|consen 143 PS 144 (321)
T ss_pred cc
Confidence 63
No 50
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.12 E-value=1.9e-10 Score=101.67 Aligned_cols=74 Identities=27% Similarity=0.419 Sum_probs=69.3
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
..++.|||-||.++++|..|+++|..||.|..|+|++ +||||++.+.++|..||..|||..|.++.|.|.|.
T Consensus 276 ~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFK 355 (360)
T KOG0145|consen 276 GGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFK 355 (360)
T ss_pred CCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEe
Confidence 4579999999999999999999999999999999975 49999999999999999999999999999999987
Q ss_pred cC
Q 021599 80 RG 81 (310)
Q Consensus 80 k~ 81 (310)
..
T Consensus 356 tn 357 (360)
T KOG0145|consen 356 TN 357 (360)
T ss_pred cC
Confidence 64
No 51
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.07 E-value=3.8e-10 Score=99.82 Aligned_cols=76 Identities=30% Similarity=0.533 Sum_probs=70.8
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC--------eEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD--------FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~--------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
+.-+.|+|.-||+.+|++||+.+|...|+|+.|+++++ |+||.|.+++||++||..|||..|..+.|+|.+|
T Consensus 39 ~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyA 118 (360)
T KOG0145|consen 39 ESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYA 118 (360)
T ss_pred cccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEec
Confidence 45578999999999999999999999999999999864 9999999999999999999999999999999999
Q ss_pred cCCC
Q 021599 80 RGGP 83 (310)
Q Consensus 80 k~~~ 83 (310)
++-.
T Consensus 119 RPSs 122 (360)
T KOG0145|consen 119 RPSS 122 (360)
T ss_pred cCCh
Confidence 8653
No 52
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=2.3e-10 Score=101.61 Aligned_cols=78 Identities=26% Similarity=0.450 Sum_probs=71.9
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC--------eEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD--------FAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~--------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
+-.++|.|||-.||.+..+.||.++|..||.|+..+|+.+ |+||.|.+...++.||..|||+.|+-+.|+|+
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQ 360 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQ 360 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhh
Confidence 4467999999999999999999999999999999888643 99999999999999999999999999999999
Q ss_pred eccCCC
Q 021599 78 FARGGP 83 (310)
Q Consensus 78 ~ak~~~ 83 (310)
+.+++.
T Consensus 361 LKRPkd 366 (371)
T KOG0146|consen 361 LKRPKD 366 (371)
T ss_pred hcCccc
Confidence 988654
No 53
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.04 E-value=4.7e-10 Score=111.42 Aligned_cols=71 Identities=21% Similarity=0.378 Sum_probs=60.2
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhc------------CCeeEEEEe--CCeEEEEECCHHHHHHHHHhcCCcccCCCce
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRY------------GRIRDVDMK--RDFAFVEFSDPRDADDARYSLNGRDVDGSRI 74 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~------------G~V~~v~i~--~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I 74 (310)
...+|||+|||+.|++++|++||.+| +.|..+.+. ++||||+|.+.++|..|| .|||+.|.|..|
T Consensus 174 ~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~kg~afVeF~~~e~A~~Al-~l~g~~~~g~~l 252 (509)
T TIGR01642 174 QARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAM-ALDSIIYSNVFL 252 (509)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCCCCEEEEEeCCHHHHhhhh-cCCCeEeeCcee
Confidence 35789999999999999999999975 245555554 469999999999999999 699999999999
Q ss_pred eeeecc
Q 021599 75 IVEFAR 80 (310)
Q Consensus 75 ~V~~ak 80 (310)
.|....
T Consensus 253 ~v~r~~ 258 (509)
T TIGR01642 253 KIRRPH 258 (509)
T ss_pred EecCcc
Confidence 987543
No 54
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.04 E-value=1.8e-10 Score=108.08 Aligned_cols=74 Identities=36% Similarity=0.610 Sum_probs=67.0
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCcc-cCC--Cceeeeec
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRD-VDG--SRIIVEFA 79 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~-l~G--r~I~V~~a 79 (310)
+.+|||+.|+..++|.||+++|.+||.|++|.|++ |||||.|.+.|.|..||+.|||.. +.| ..|.|.||
T Consensus 124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFA 203 (510)
T KOG0144|consen 124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFA 203 (510)
T ss_pred chhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEec
Confidence 67899999999999999999999999999999976 499999999999999999999864 555 68999999
Q ss_pred cCCC
Q 021599 80 RGGP 83 (310)
Q Consensus 80 k~~~ 83 (310)
.++.
T Consensus 204 Dtqk 207 (510)
T KOG0144|consen 204 DTQK 207 (510)
T ss_pred ccCC
Confidence 7654
No 55
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.02 E-value=5.7e-10 Score=107.65 Aligned_cols=72 Identities=28% Similarity=0.547 Sum_probs=68.2
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~ 82 (310)
+.||||||++++++++|.++|.+.|.|..++++ +||||++|.+.++|..|+..|||.++.|++|+|.|+...
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 899999999999999999999999999999985 459999999999999999999999999999999998654
No 56
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.00 E-value=1.3e-09 Score=94.97 Aligned_cols=75 Identities=27% Similarity=0.507 Sum_probs=68.3
Q ss_pred CCCcEEEEccCCCCCcHHHHHH----HHHhcCCeeEEEEe-----CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeee
Q 021599 8 YGGTRLYVGRLASRTRSRDLEE----IFSRYGRIRDVDMK-----RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 78 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~----~F~~~G~V~~v~i~-----~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ 78 (310)
..+.||||-||+..+..++|+. +|++||+|..|.+. +|-|||.|.+.+.|-.|+..|+|+.|-|+.+.|++
T Consensus 7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqy 86 (221)
T KOG4206|consen 7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQY 86 (221)
T ss_pred CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhheec
Confidence 3444999999999999999877 99999999999885 47999999999999999999999999999999999
Q ss_pred ccCC
Q 021599 79 ARGG 82 (310)
Q Consensus 79 ak~~ 82 (310)
|+..
T Consensus 87 A~s~ 90 (221)
T KOG4206|consen 87 AKSD 90 (221)
T ss_pred ccCc
Confidence 9854
No 57
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.99 E-value=8.8e-10 Score=101.08 Aligned_cols=74 Identities=28% Similarity=0.505 Sum_probs=66.5
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--CeEEEEECCHHHHHHHHH-hcCCcccCCCceeeeeccC
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--DFAFVEFSDPRDADDARY-SLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--~~afV~F~~~eda~~Ai~-~lng~~l~Gr~I~V~~ak~ 81 (310)
..-++|||++|...+++++|.++|.+||+|..|.+.. ++|||+|.+.+.|+.|.+ .+|...|+|..|.|.|..+
T Consensus 226 ~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 226 TSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred cceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 4468999999999999999999999999999998864 599999999999999886 5566778999999999987
No 58
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.97 E-value=1.2e-09 Score=102.70 Aligned_cols=75 Identities=27% Similarity=0.646 Sum_probs=65.6
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC--------eEEEEECCHHHHHHHHHhcCCcc-cCC--Cceee
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD--------FAFVEFSDPRDADDARYSLNGRD-VDG--SRIIV 76 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~--------~afV~F~~~eda~~Ai~~lng~~-l~G--r~I~V 76 (310)
.+..+|||+-||..++|.||+++|++||.|.+|.|+++ ||||.|.+.++|.+||..||+.+ |.| ..|.|
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 44578999999999999999999999999999999865 99999999999999999998764 545 66788
Q ss_pred eeccCC
Q 021599 77 EFARGG 82 (310)
Q Consensus 77 ~~ak~~ 82 (310)
.+|...
T Consensus 112 k~Ad~E 117 (510)
T KOG0144|consen 112 KYADGE 117 (510)
T ss_pred cccchh
Confidence 888654
No 59
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.96 E-value=6.2e-10 Score=107.38 Aligned_cols=69 Identities=33% Similarity=0.574 Sum_probs=64.4
Q ss_pred EEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 13 LYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
|||+||.+++++++|+.+|+.||.|+.|.+++ +|+||+|.+.++|.+|++.|||++|.|+.|+|.....
T Consensus 281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~ 357 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTE 357 (549)
T ss_pred hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeee
Confidence 89999999999999999999999999998864 4999999999999999999999999999999876643
No 60
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.95 E-value=4.5e-10 Score=103.45 Aligned_cols=70 Identities=31% Similarity=0.559 Sum_probs=65.4
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
.|+||||.|.+++.|+.|+..|..||.|+.|+|. ++||||+|+-+|.|+.|++.|||..|+|+.|+|..-
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP 190 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 190 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC
Confidence 4899999999999999999999999999999984 469999999999999999999999999999998743
No 61
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.95 E-value=1.3e-09 Score=108.58 Aligned_cols=72 Identities=26% Similarity=0.511 Sum_probs=67.8
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
.+|||||+|+..++++||..+|+.||+|..|.|+ +++|||.+....+|++||.+|....|.++.|+|.|+..
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g 494 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVG 494 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeecc
Confidence 5899999999999999999999999999999886 46999999999999999999999999999999999853
No 62
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.95 E-value=1.1e-09 Score=102.99 Aligned_cols=71 Identities=24% Similarity=0.356 Sum_probs=65.7
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC---CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR---DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~---~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
..|+|||.|||.++||+.|++-|..||.|.+++|+. ..+.|.|.++++|+.|+..|+|..|+|+.|.|.|.
T Consensus 535 Ka~qIiirNlP~dfTWqmlrDKfre~G~v~yadime~GkskGVVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~ 608 (608)
T KOG4212|consen 535 KACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIMENGKSKGVVRFFSPEDAERACALMNGSRLDGRNIKVTYF 608 (608)
T ss_pred cccEEEEecCCccccHHHHHHHHHhccceehhhhhccCCccceEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence 358899999999999999999999999999999853 37799999999999999999999999999999874
No 63
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.95 E-value=1.3e-09 Score=105.32 Aligned_cols=75 Identities=32% Similarity=0.579 Sum_probs=69.6
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC--------eEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD--------FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~--------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
+..|||.+|...|...||+.||.+||+|+-++|+.+ |+||+|.+.++|.+||.+|+-++|.|+.|.|+.++.
T Consensus 405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN 484 (940)
T KOG4661|consen 405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN 484 (940)
T ss_pred ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence 468999999999999999999999999999998754 999999999999999999999999999999999986
Q ss_pred CCC
Q 021599 82 GPR 84 (310)
Q Consensus 82 ~~~ 84 (310)
.+.
T Consensus 485 Ep~ 487 (940)
T KOG4661|consen 485 EPG 487 (940)
T ss_pred Ccc
Confidence 554
No 64
>smart00361 RRM_1 RNA recognition motif.
Probab=98.94 E-value=2.2e-09 Score=78.22 Aligned_cols=54 Identities=31% Similarity=0.586 Sum_probs=47.3
Q ss_pred HHHHHHHHH----hcCCeeEEE-E--e--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 24 SRDLEEIFS----RYGRIRDVD-M--K--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 24 e~dL~~~F~----~~G~V~~v~-i--~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
+++|+++|. +||+|..|. | . ++||||+|.+.++|.+||..|||..|+|+.|.+.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 578999998 999999884 3 1 3599999999999999999999999999998763
No 65
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.94 E-value=3.7e-09 Score=101.56 Aligned_cols=79 Identities=29% Similarity=0.542 Sum_probs=67.1
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--C------CeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--R------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--~------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
......+|||.|||.++++.+|+++|..||.|+...|. . .||||+|.+.++++.||++ +-..|++++|.|+
T Consensus 284 ~~~~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Ve 362 (419)
T KOG0116|consen 284 PRADGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVE 362 (419)
T ss_pred eeecccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEE
Confidence 33455679999999999999999999999999876653 2 4999999999999999965 4788999999999
Q ss_pred eccCCCCC
Q 021599 78 FARGGPRG 85 (310)
Q Consensus 78 ~ak~~~~~ 85 (310)
..++...+
T Consensus 363 ek~~~~~g 370 (419)
T KOG0116|consen 363 EKRPGFRG 370 (419)
T ss_pred eccccccc
Confidence 98875544
No 66
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.94 E-value=1.5e-09 Score=104.57 Aligned_cols=77 Identities=30% Similarity=0.446 Sum_probs=70.7
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
..+.||||.+||+.++.++|.++|..+|.|..+.++ +||+||+|.-.+|++.||..+++..|.|+.|.|.+|
T Consensus 3 ~~g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A 82 (678)
T KOG0127|consen 3 KSGATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPA 82 (678)
T ss_pred CCCceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccc
Confidence 345899999999999999999999999999999886 359999999999999999999999999999999999
Q ss_pred cCCCC
Q 021599 80 RGGPR 84 (310)
Q Consensus 80 k~~~~ 84 (310)
+.+.+
T Consensus 83 ~~R~r 87 (678)
T KOG0127|consen 83 KKRAR 87 (678)
T ss_pred ccccc
Confidence 86544
No 67
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.88 E-value=2.4e-09 Score=93.84 Aligned_cols=69 Identities=41% Similarity=0.605 Sum_probs=65.4
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceee
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIV 76 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V 76 (310)
-..+.|+|.+|+..+.|++|.++|.+||++.++.+..+++||+|.++++|..||..|++..|.++.|.|
T Consensus 97 ~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 97 RTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDARRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred cccceeeeccchhhhhHHHHhhhhcccCCCchhhhhccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 357899999999999999999999999999888888899999999999999999999999999999999
No 68
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.83 E-value=7.5e-09 Score=102.58 Aligned_cols=72 Identities=32% Similarity=0.603 Sum_probs=66.4
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe-----------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK-----------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~-----------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
++|||.||++.++.++|..+|...|.|..+.|. .|||||+|.+.++|+.|++.|+|+.|+|+.|.|.++
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 449999999999999999999999999998773 269999999999999999999999999999999998
Q ss_pred cCC
Q 021599 80 RGG 82 (310)
Q Consensus 80 k~~ 82 (310)
...
T Consensus 596 ~~k 598 (725)
T KOG0110|consen 596 ENK 598 (725)
T ss_pred cCc
Confidence 833
No 69
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.80 E-value=4.5e-09 Score=97.47 Aligned_cols=76 Identities=26% Similarity=0.462 Sum_probs=67.5
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeee
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 78 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ 78 (310)
..+.++|||++|+|+++++.|+++|.+||+|.+|.|++ +|+||+|++.+.+..+| ....+.|+|+.|.++.
T Consensus 3 ~~~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl-~~~~h~~dgr~ve~k~ 81 (311)
T KOG4205|consen 3 SGESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVL-NARTHKLDGRSVEPKR 81 (311)
T ss_pred ccCCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheee-cccccccCCcccccee
Confidence 34789999999999999999999999999999999987 59999999999988888 4455889999999988
Q ss_pred ccCCC
Q 021599 79 ARGGP 83 (310)
Q Consensus 79 ak~~~ 83 (310)
|.+..
T Consensus 82 av~r~ 86 (311)
T KOG4205|consen 82 AVSRE 86 (311)
T ss_pred ccCcc
Confidence 87654
No 70
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.78 E-value=1.4e-08 Score=96.81 Aligned_cols=70 Identities=24% Similarity=0.465 Sum_probs=64.5
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
+.|||.||++.++..+|.++|..||+|..|+|.. +| ||+|++++.|.+||+.|||..+.|++|.|.+...
T Consensus 77 ~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~ 152 (369)
T KOG0123|consen 77 SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFER 152 (369)
T ss_pred ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccc
Confidence 3399999999999999999999999999999964 48 9999999999999999999999999999977653
No 71
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.76 E-value=2e-08 Score=89.82 Aligned_cols=73 Identities=27% Similarity=0.434 Sum_probs=66.2
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
..++|+|.||+..|+++||++||.+||+++.+.|+. +.|-|.|...+||+.||+.|+|+.|+|..|++++...
T Consensus 82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~ 161 (243)
T KOG0533|consen 82 RSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISS 161 (243)
T ss_pred CcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecC
Confidence 348899999999999999999999999988888863 4999999999999999999999999999999887653
No 72
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.76 E-value=1.7e-08 Score=93.30 Aligned_cols=71 Identities=21% Similarity=0.434 Sum_probs=65.8
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
-++|||..+.++++++||+..|+.||+|.+|.+. +||+||+|.+......||..||=+.|+|..|.|..+-
T Consensus 210 fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v 288 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 288 (544)
T ss_pred hheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence 4789999999999999999999999999999994 5699999999999999999999999999999986554
No 73
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.73 E-value=5e-09 Score=90.75 Aligned_cols=74 Identities=23% Similarity=0.274 Sum_probs=68.2
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC------eEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD------FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
+...+|||+||...++|+-|.++|-+.|.|..|.|..+ ||||+|.++..+..|++.|||..|.+..|.|++-.+
T Consensus 7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G 86 (267)
T KOG4454|consen 7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCG 86 (267)
T ss_pred chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhcccccC
Confidence 45679999999999999999999999999999999754 999999999999999999999999999999887654
No 74
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.70 E-value=1.6e-08 Score=100.30 Aligned_cols=74 Identities=28% Similarity=0.652 Sum_probs=69.1
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
...+.|+|.|||+..+..+|+++|..||+|..|.|+ +|||||+|.++.+|..|+++|..+-|.|+.|+++||
T Consensus 611 k~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA 690 (725)
T KOG0110|consen 611 KKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWA 690 (725)
T ss_pred cccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehh
Confidence 447899999999999999999999999999999985 359999999999999999999999999999999999
Q ss_pred cC
Q 021599 80 RG 81 (310)
Q Consensus 80 k~ 81 (310)
+.
T Consensus 691 ~~ 692 (725)
T KOG0110|consen 691 KS 692 (725)
T ss_pred cc
Confidence 74
No 75
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.68 E-value=3.6e-08 Score=83.25 Aligned_cols=74 Identities=26% Similarity=0.433 Sum_probs=65.6
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEE-EEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDV-DMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v-~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
.+..|||+||.+.++|..|.+.|..||.|... .|+ ++||||.|...+.+.+||..|||+.+..++|.|.++
T Consensus 95 vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya 174 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYA 174 (203)
T ss_pred ccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEE
Confidence 45789999999999999999999999987653 332 349999999999999999999999999999999999
Q ss_pred cCC
Q 021599 80 RGG 82 (310)
Q Consensus 80 k~~ 82 (310)
...
T Consensus 175 ~k~ 177 (203)
T KOG0131|consen 175 FKK 177 (203)
T ss_pred Eec
Confidence 744
No 76
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.68 E-value=6.6e-08 Score=84.09 Aligned_cols=80 Identities=25% Similarity=0.410 Sum_probs=67.2
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe---------CCeEEEEECCHHHHHHHHHhcCCcccC---CCc
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK---------RDFAFVEFSDPRDADDARYSLNGRDVD---GSR 73 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~---------~~~afV~F~~~eda~~Ai~~lng~~l~---Gr~ 73 (310)
+...-.||||.+||.++...+|..+|..|--.+.+.|. +.+|||+|.+..+|.+|+..|||..|+ +..
T Consensus 30 ~~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~st 109 (284)
T KOG1457|consen 30 EPGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGST 109 (284)
T ss_pred cccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCce
Confidence 44557899999999999999999999988655544442 239999999999999999999999996 678
Q ss_pred eeeeeccCCCCC
Q 021599 74 IIVEFARGGPRG 85 (310)
Q Consensus 74 I~V~~ak~~~~~ 85 (310)
|.|++|+...+.
T Consensus 110 LhiElAKSNtK~ 121 (284)
T KOG1457|consen 110 LHIELAKSNTKR 121 (284)
T ss_pred eEeeehhcCccc
Confidence 999999876553
No 77
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=98.67 E-value=1.6e-07 Score=87.59 Aligned_cols=67 Identities=16% Similarity=0.334 Sum_probs=55.5
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC-----------eEEEEECCHHHHHHHHHhcCCcccCCCceeeee
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD-----------FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 78 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~-----------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ 78 (310)
-.|.|.||.+.++.++|+.||...|+|.++.|... .|||.|.+...+..|. +|.+++|-+..|.|..
T Consensus 8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~p 85 (479)
T KOG4676|consen 8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVRP 85 (479)
T ss_pred ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEEe
Confidence 38999999999999999999999999999887532 9999999999999997 5666666665555443
No 78
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.67 E-value=2.9e-08 Score=98.29 Aligned_cols=78 Identities=28% Similarity=0.436 Sum_probs=70.4
Q ss_pred CCC-CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-----------CeEEEEECCHHHHHHHHHhcCCcccCC
Q 021599 4 YDD-RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-----------DFAFVEFSDPRDADDARYSLNGRDVDG 71 (310)
Q Consensus 4 ~~~-~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-----------~~afV~F~~~eda~~Ai~~lng~~l~G 71 (310)
||+ .+..+.|||+||++.++++.|...|..||.|..|+|+. .+|||.|.+..||+.|++.|+|..|.+
T Consensus 167 fDdgDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~ 246 (877)
T KOG0151|consen 167 FDDGDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVME 246 (877)
T ss_pred CCCCCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeee
Confidence 444 45578999999999999999999999999999999864 399999999999999999999999999
Q ss_pred CceeeeeccC
Q 021599 72 SRIIVEFARG 81 (310)
Q Consensus 72 r~I~V~~ak~ 81 (310)
..|++.|.++
T Consensus 247 ~e~K~gWgk~ 256 (877)
T KOG0151|consen 247 YEMKLGWGKA 256 (877)
T ss_pred eeeeeccccc
Confidence 9999998854
No 79
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.62 E-value=1.1e-07 Score=81.89 Aligned_cols=77 Identities=16% Similarity=0.233 Sum_probs=67.2
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhc-CCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceee
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRY-GRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIV 76 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~-G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V 76 (310)
.......+||..|+..+.+.+|..+|.+| |.|..+.+. ++||||+|++.+.|+.|.+.||+..|.++.|.|
T Consensus 45 ~~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c 124 (214)
T KOG4208|consen 45 EQEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLEC 124 (214)
T ss_pred ccCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeee
Confidence 34456788999999999999999999998 677777773 359999999999999999999999999999999
Q ss_pred eeccCC
Q 021599 77 EFARGG 82 (310)
Q Consensus 77 ~~ak~~ 82 (310)
.+..+.
T Consensus 125 ~vmppe 130 (214)
T KOG4208|consen 125 HVMPPE 130 (214)
T ss_pred EEeCch
Confidence 887654
No 80
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.58 E-value=1.5e-07 Score=87.46 Aligned_cols=73 Identities=26% Similarity=0.506 Sum_probs=64.9
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
..+|||++|+..+++++|+++|++||.|..+.++ ++|+||+|.+++.+++++ .+.-++|+|+.+.|..|.+
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~vevkrA~p 175 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVT-LQKFHDFNGKKVEVKRAIP 175 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceec-ccceeeecCceeeEeeccc
Confidence 4599999999999999999999999998888775 359999999999999988 5677899999999999886
Q ss_pred CC
Q 021599 82 GP 83 (310)
Q Consensus 82 ~~ 83 (310)
+.
T Consensus 176 k~ 177 (311)
T KOG4205|consen 176 KE 177 (311)
T ss_pred hh
Confidence 54
No 81
>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=98.57 E-value=1.2e-07 Score=74.69 Aligned_cols=70 Identities=29% Similarity=0.484 Sum_probs=45.6
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC--eEEEEECCHHHHHHHHHhcCC-----cccCCCceeeeec
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD--FAFVEFSDPRDADDARYSLNG-----RDVDGSRIIVEFA 79 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~--~afV~F~~~eda~~Ai~~lng-----~~l~Gr~I~V~~a 79 (310)
++.|+|.+|...++.++|+++|.+||.|.+|++..| .|||-|.+.++|+.|+..+.. ..|.+..+.+++-
T Consensus 1 G~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vL 77 (105)
T PF08777_consen 1 GCILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVL 77 (105)
T ss_dssp --EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE--
T ss_pred CeEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEEC
Confidence 478999999999999999999999999999999987 999999999999999986643 3566666666553
No 82
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.56 E-value=5.4e-07 Score=76.43 Aligned_cols=64 Identities=22% Similarity=0.286 Sum_probs=58.8
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC-eEEEEECCHHHHHHHHHhcCCcccCC
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD-FAFVEFSDPRDADDARYSLNGRDVDG 71 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~-~afV~F~~~eda~~Ai~~lng~~l~G 71 (310)
-...+|+|.+||...+||||++++.+.|.|++.++.++ +++|+|...|||+.||.+|+.+.+.-
T Consensus 113 rSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rDg~GvV~~~r~eDMkYAvr~ld~~~~~s 177 (241)
T KOG0105|consen 113 RSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRDGVGVVEYLRKEDMKYAVRKLDDQKFRS 177 (241)
T ss_pred ccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecccceeeeeeehhhHHHHHHhhccccccC
Confidence 35689999999999999999999999999999999875 99999999999999999999877643
No 83
>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=98.53 E-value=4.9e-07 Score=67.24 Aligned_cols=68 Identities=26% Similarity=0.462 Sum_probs=49.3
Q ss_pred cEEEEccCCCCCcHHH----HHHHHHhcC-CeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 11 TRLYVGRLASRTRSRD----LEEIFSRYG-RIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 11 ~~l~V~nL~~~~te~d----L~~~F~~~G-~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
+.|||.|||.+.+... |+.++..+| +|..| ..+.|+|-|.+++.|..|++.|+|..+.|.+|.|.|..
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~ 75 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSP 75 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE----TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS-
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcC
Confidence 5799999999887655 567777776 67776 46899999999999999999999999999999999975
No 84
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.53 E-value=2.1e-07 Score=85.65 Aligned_cols=77 Identities=21% Similarity=0.254 Sum_probs=67.1
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeE--------EEE-------eCCeEEEEECCHHHHHHHHHhcCCcccCCC
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRD--------VDM-------KRDFAFVEFSDPRDADDARYSLNGRDVDGS 72 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~--------v~i-------~~~~afV~F~~~eda~~Ai~~lng~~l~Gr 72 (310)
..++.|||.|||.++|.+++.++|.+||.|.. |+| ++|-|+|.|-..+.+..||..|++..|.|.
T Consensus 132 ~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~ 211 (382)
T KOG1548|consen 132 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGK 211 (382)
T ss_pred ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCc
Confidence 34788999999999999999999999998753 333 356899999999999999999999999999
Q ss_pred ceeeeeccCCCC
Q 021599 73 RIIVEFARGGPR 84 (310)
Q Consensus 73 ~I~V~~ak~~~~ 84 (310)
.|.|+.|+-+.+
T Consensus 212 ~~rVerAkfq~K 223 (382)
T KOG1548|consen 212 KLRVERAKFQMK 223 (382)
T ss_pred EEEEehhhhhhc
Confidence 999999985543
No 85
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.52 E-value=1.2e-07 Score=84.54 Aligned_cols=74 Identities=31% Similarity=0.596 Sum_probs=65.4
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCcc-cCC--Cceeeee
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRD-VDG--SRIIVEF 78 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~-l~G--r~I~V~~ 78 (310)
+..+||||.|...-.|+|++.+|..||+|++|.+.+ |+|||.|....+|+.||..|+|.. +-| ..|.|+|
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ 97 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKF 97 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEe
Confidence 568999999999999999999999999999999964 599999999999999999999965 444 5688999
Q ss_pred ccCC
Q 021599 79 ARGG 82 (310)
Q Consensus 79 ak~~ 82 (310)
+...
T Consensus 98 ADTd 101 (371)
T KOG0146|consen 98 ADTD 101 (371)
T ss_pred ccch
Confidence 8643
No 86
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.42 E-value=6.3e-07 Score=80.21 Aligned_cols=76 Identities=26% Similarity=0.433 Sum_probs=67.7
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
...+...|||+||...++.++|+.+|+.||.|..+.|+ ++|+||+|.+.+.++.||. |||..|.|..|.|.
T Consensus 97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt 175 (231)
T KOG4209|consen 97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVT 175 (231)
T ss_pred hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceee
Confidence 34567899999999999999999999999999866664 3499999999999999996 99999999999999
Q ss_pred eccCC
Q 021599 78 FARGG 82 (310)
Q Consensus 78 ~ak~~ 82 (310)
+.+..
T Consensus 176 ~~r~~ 180 (231)
T KOG4209|consen 176 LKRTN 180 (231)
T ss_pred eeeee
Confidence 88765
No 87
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.41 E-value=6.3e-07 Score=85.66 Aligned_cols=69 Identities=28% Similarity=0.454 Sum_probs=63.6
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-----CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-----DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-----~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~ 82 (310)
..|||| +++|+..|.++|..+|.|..|.|.+ +||||.|.++++|+.||+.||...|.|+.|.|-|....
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd 75 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDATSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRD 75 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecCCccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccC
Confidence 468999 8999999999999999999998865 49999999999999999999999999999999998644
No 88
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.36 E-value=2.9e-07 Score=89.34 Aligned_cols=67 Identities=39% Similarity=0.572 Sum_probs=61.9
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe---CCeEEEEECCHHHHHHHHHhcCCcccCCCcee
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK---RDFAFVEFSDPRDADDARYSLNGRDVDGSRII 75 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~---~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~ 75 (310)
..-+|+|.||+..|++++|..+|+.||+|..|..- .+.+||+|-+.-+|+.|++.|++.+|.|+.|+
T Consensus 74 ~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 74 NQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNKRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred ccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 45789999999999999999999999999997663 46999999999999999999999999999988
No 89
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.25 E-value=2.7e-06 Score=79.92 Aligned_cols=72 Identities=25% Similarity=0.403 Sum_probs=66.3
Q ss_pred CcEEEEccCCC-CCcHHHHHHHHHhcCCeeEEEEe---CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 10 GTRLYVGRLAS-RTRSRDLEEIFSRYGRIRDVDMK---RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 10 ~~~l~V~nL~~-~~te~dL~~~F~~~G~V~~v~i~---~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
++.|.|.||.+ .+|.+.|..+|.-||+|..|+|+ ++.|+|.|.+...|+.|+++|+|+.|.|++|+|.+.+-
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH 372 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKH 372 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCcceeeeecchhHHHHHHHHhhcceecCceEEEeeccC
Confidence 68899999975 57999999999999999999996 35999999999999999999999999999999999874
No 90
>PF04059 RRM_2: RNA recognition motif 2; InterPro: IPR007201 This RNA recognition motif 2 is found in Meiosis protein mei2. It is found C-terminal to the RNA-binding region RNP-1 (IPR000504 from INTERPRO).
Probab=98.21 E-value=7.5e-06 Score=63.32 Aligned_cols=72 Identities=19% Similarity=0.292 Sum_probs=59.1
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhc--CCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccC----CCceee
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRY--GRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVD----GSRIIV 76 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~--G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~----Gr~I~V 76 (310)
|||.|.|||...+.++|.+++... |+...+.|+ .|||||.|.+++.|....+.++|..+. .+.+.|
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 799999999999999999988653 566666554 359999999999999999999999886 355677
Q ss_pred eeccCC
Q 021599 77 EFARGG 82 (310)
Q Consensus 77 ~~ak~~ 82 (310)
.+|+-+
T Consensus 82 ~yAriQ 87 (97)
T PF04059_consen 82 SYARIQ 87 (97)
T ss_pred ehhHhh
Confidence 887744
No 91
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.20 E-value=1.1e-06 Score=76.67 Aligned_cols=60 Identities=23% Similarity=0.468 Sum_probs=51.8
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--CC--eEEEEECCHHHHHHHHHhcCCccc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--RD--FAFVEFSDPRDADDARYSLNGRDV 69 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--~~--~afV~F~~~eda~~Ai~~lng~~l 69 (310)
-.+|||.||..+|+|++|+.+|..|--..-++|. .| +|||+|++.+.|..||..|.|..|
T Consensus 210 cstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~~g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRARGGMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecCCCcceEeecHHHHHHHHHHHHHhhccee
Confidence 3689999999999999999999999766555553 33 899999999999999999998765
No 92
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.08 E-value=8.4e-06 Score=75.65 Aligned_cols=77 Identities=22% Similarity=0.333 Sum_probs=66.2
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeE--------EEE--------eCCeEEEEECCHHHHHHHHHhcCCcccC
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRD--------VDM--------KRDFAFVEFSDPRDADDARYSLNGRDVD 70 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~--------v~i--------~~~~afV~F~~~eda~~Ai~~lng~~l~ 70 (310)
...+.+|||-+|+..+++++|.++|.++|.|.. |.| .++-|.|+|.+...|+.||+.+++..|.
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 456789999999999999999999999998843 222 2459999999999999999999999999
Q ss_pred CCceeeeeccCCC
Q 021599 71 GSRIIVEFARGGP 83 (310)
Q Consensus 71 Gr~I~V~~ak~~~ 83 (310)
+..|+|.+|....
T Consensus 143 gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 143 GNTIKVSLAERRT 155 (351)
T ss_pred CCCchhhhhhhcc
Confidence 9999998886443
No 93
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.04 E-value=1.8e-05 Score=76.17 Aligned_cols=74 Identities=22% Similarity=0.334 Sum_probs=60.0
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
+-.....|-+.+|||.+|++||.+||..++ |+.+.+.+ +.|||+|++++++++|| ++|-..+..+-|.|-.+
T Consensus 6 e~~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Al-kkdR~~mg~RYIEVf~~ 83 (510)
T KOG4211|consen 6 EGSTAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKAL-KKDRESMGHRYIEVFTA 83 (510)
T ss_pred CCCcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHH-HhhHHHhCCceEEEEcc
Confidence 334566788899999999999999999876 56666643 49999999999999999 55777788888888766
Q ss_pred cC
Q 021599 80 RG 81 (310)
Q Consensus 80 k~ 81 (310)
..
T Consensus 84 ~~ 85 (510)
T KOG4211|consen 84 GG 85 (510)
T ss_pred CC
Confidence 43
No 94
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.99 E-value=2.7e-05 Score=72.57 Aligned_cols=76 Identities=22% Similarity=0.289 Sum_probs=67.7
Q ss_pred CCCCCcEEEEccCCCC-CcHHHHHHHHHhcCCeeEEEEeC---CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 6 DRYGGTRLYVGRLASR-TRSRDLEEIFSRYGRIRDVDMKR---DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~-~te~dL~~~F~~~G~V~~v~i~~---~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
....++.+.|-+|... ++.+.|..+|..||.|+.|++++ +.|+|++.+..+++.||.+||+..|-|.+|.|.+.+.
T Consensus 283 g~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ 362 (494)
T KOG1456|consen 283 GGAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQ 362 (494)
T ss_pred CCCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecccceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccc
Confidence 3456899999999865 46677999999999999998875 5999999999999999999999999999999999874
No 95
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.95 E-value=2.9e-05 Score=68.00 Aligned_cols=75 Identities=23% Similarity=0.440 Sum_probs=64.7
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe---CCeEEEEECCHHHHHHHHHhcCCcccC-CCceeeeecc
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK---RDFAFVEFSDPRDADDARYSLNGRDVD-GSRIIVEFAR 80 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~---~~~afV~F~~~eda~~Ai~~lng~~l~-Gr~I~V~~ak 80 (310)
....+..||+.|||.+++.+.|..+|.+|.-..+|.++ .+.|||+|.+...+..|...|+|..|- ...|.|.+++
T Consensus 142 ~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~ 220 (221)
T KOG4206|consen 142 MAPPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPRSGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK 220 (221)
T ss_pred CCCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCCCceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence 35678899999999999999999999999877777664 569999999999999999999998886 7777777764
No 96
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=97.94 E-value=1.7e-05 Score=73.00 Aligned_cols=70 Identities=20% Similarity=0.465 Sum_probs=59.7
Q ss_pred cEEEEccCCCCCcHHH----H--HHHHHhcCCeeEEEEeCC-----------eEEEEECCHHHHHHHHHhcCCcccCCCc
Q 021599 11 TRLYVGRLASRTRSRD----L--EEIFSRYGRIRDVDMKRD-----------FAFVEFSDPRDADDARYSLNGRDVDGSR 73 (310)
Q Consensus 11 ~~l~V~nL~~~~te~d----L--~~~F~~~G~V~~v~i~~~-----------~afV~F~~~eda~~Ai~~lng~~l~Gr~ 73 (310)
+-|||-+|++.+..++ | .+||.+||+|..|.|.+. -.||+|...+||..||..++|..++|+.
T Consensus 115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~ 194 (480)
T COG5175 115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRV 194 (480)
T ss_pred ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCce
Confidence 4689999998886665 3 389999999999988542 2399999999999999999999999999
Q ss_pred eeeeecc
Q 021599 74 IIVEFAR 80 (310)
Q Consensus 74 I~V~~ak 80 (310)
|+..+..
T Consensus 195 lkatYGT 201 (480)
T COG5175 195 LKATYGT 201 (480)
T ss_pred EeeecCc
Confidence 9988765
No 97
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.88 E-value=3.9e-05 Score=52.70 Aligned_cols=50 Identities=20% Similarity=0.450 Sum_probs=42.6
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--CCeEEEEECCHHHHHHHH
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--RDFAFVEFSDPRDADDAR 61 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--~~~afV~F~~~eda~~Ai 61 (310)
+.|-|.+.+....+ +|..+|..||+|..+.+. ..+.||.|.+..+|+.||
T Consensus 2 ~wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~~~~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLAE-EVLEHFASFGEIVDIYVPESTNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHHH-HHHHHHHhcCCEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence 56889999877654 455689999999999998 569999999999999985
No 98
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.82 E-value=2.8e-06 Score=79.43 Aligned_cols=74 Identities=15% Similarity=0.110 Sum_probs=61.1
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC----eEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCCCC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD----FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGPR 84 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~----~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~~~ 84 (310)
..+|+|++|...+...+|.++|..+|+|.+..+.-+ +|.|+|........|+ .++|.++.-+...+.+.++..+
T Consensus 151 rRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask~~s~~c~~sf~~qts~~hal-r~~gre~k~qhsr~ai~kP~kK 228 (479)
T KOG4676|consen 151 RRTREVQSLISAAILPESGESFERKGEVSYAHTASKSRSSSCSHSFRKQTSSKHAL-RSHGRERKRQHSRRAIIKPHKK 228 (479)
T ss_pred HhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhccCCCcchhhhHhhhhhHHHHH-HhcchhhhhhhhhhhhcCcccc
Confidence 357999999999999999999999999999887543 8999999999999998 6678888866666666555433
No 99
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.82 E-value=1.4e-05 Score=78.28 Aligned_cols=75 Identities=25% Similarity=0.528 Sum_probs=67.7
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
..+.|||++|+..+++.+|++++..||.+....+++ +|||.+|.+......||..|||..+.+..|.|+.|.
T Consensus 288 ~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~ 367 (500)
T KOG0120|consen 288 SPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAI 367 (500)
T ss_pred ccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhh
Confidence 457899999999999999999999999998777653 499999999999999999999999999999999987
Q ss_pred CCC
Q 021599 81 GGP 83 (310)
Q Consensus 81 ~~~ 83 (310)
...
T Consensus 368 ~g~ 370 (500)
T KOG0120|consen 368 VGA 370 (500)
T ss_pred ccc
Confidence 543
No 100
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.77 E-value=2.3e-05 Score=74.18 Aligned_cols=67 Identities=24% Similarity=0.444 Sum_probs=56.6
Q ss_pred CCCCCC-CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC---------------------CeEEEEECCHHHHHH
Q 021599 2 PRYDDR-YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR---------------------DFAFVEFSDPRDADD 59 (310)
Q Consensus 2 ~~~~~~-~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~---------------------~~afV~F~~~eda~~ 59 (310)
|.+++. -...+|.+.|||.+-.-+.|.++|..||.|..|.|.+ .+|||+|++.+.|.+
T Consensus 222 p~~~~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~K 301 (484)
T KOG1855|consen 222 PEFDEEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARK 301 (484)
T ss_pred CCccccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHH
Confidence 445443 5788999999999988899999999999999999842 189999999999999
Q ss_pred HHHhcCCcc
Q 021599 60 ARYSLNGRD 68 (310)
Q Consensus 60 Ai~~lng~~ 68 (310)
|.+.|+...
T Consensus 302 A~e~~~~e~ 310 (484)
T KOG1855|consen 302 ARELLNPEQ 310 (484)
T ss_pred HHHhhchhh
Confidence 998886543
No 101
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.77 E-value=5.8e-05 Score=72.70 Aligned_cols=70 Identities=19% Similarity=0.184 Sum_probs=55.3
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeE-EEEe-------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRD-VDMK-------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~-v~i~-------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
....|-+.+||+.|+++||.+||+..-.|.. |.|+ .+.|||.|++++.|++||.. |...|..+-|.|-.+
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFRS 179 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeehh
Confidence 5678889999999999999999987655544 3333 24999999999999999954 557777777877544
No 102
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=97.72 E-value=4.8e-05 Score=67.66 Aligned_cols=74 Identities=23% Similarity=0.421 Sum_probs=64.6
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeee
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 78 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ 78 (310)
..+..+||.|.|..+++.+.|-..|.+|-.....++++ +|+||.|.+.+|+..|+..|||.-++.+.|++..
T Consensus 187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK 266 (290)
T ss_pred ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence 35678999999999999999999999998766666653 5999999999999999999999999999998765
Q ss_pred cc
Q 021599 79 AR 80 (310)
Q Consensus 79 ak 80 (310)
..
T Consensus 267 S~ 268 (290)
T KOG0226|consen 267 SE 268 (290)
T ss_pred hh
Confidence 44
No 103
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.61 E-value=2.9e-05 Score=69.17 Aligned_cols=57 Identities=26% Similarity=0.399 Sum_probs=47.9
Q ss_pred HHHHHHHH-hcCCeeEEEEe-------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 25 RDLEEIFS-RYGRIRDVDMK-------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 25 ~dL~~~F~-~~G~V~~v~i~-------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
+||...|+ +||+|++++|- .+.+||.|...++|++|++.||+-+|.|++|.+++...
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pv 147 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPV 147 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCc
Confidence 34444444 89999998774 45899999999999999999999999999999998754
No 104
>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=97.61 E-value=0.00023 Score=55.46 Aligned_cols=72 Identities=21% Similarity=0.250 Sum_probs=51.7
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEE-------------Ee--CCeEEEEECCHHHHHHHHHhcCCcccCC
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVD-------------MK--RDFAFVEFSDPRDADDARYSLNGRDVDG 71 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~-------------i~--~~~afV~F~~~eda~~Ai~~lng~~l~G 71 (310)
+...+-|.|-+.|+. ....|.++|++||+|.+.. +. .++..|+|.+..+|++|| ..||..|.|
T Consensus 3 ~~~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL-~~NG~i~~g 80 (100)
T PF05172_consen 3 QDSETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRAL-QKNGTIFSG 80 (100)
T ss_dssp -GGCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHH-TTTTEEETT
T ss_pred CcCCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHH-HhCCeEEcC
Confidence 445677889999988 4566778999999998774 33 348999999999999999 669999998
Q ss_pred Cce-eeeecc
Q 021599 72 SRI-IVEFAR 80 (310)
Q Consensus 72 r~I-~V~~ak 80 (310)
..| -|.+.+
T Consensus 81 ~~mvGV~~~~ 90 (100)
T PF05172_consen 81 SLMVGVKPCD 90 (100)
T ss_dssp CEEEEEEE-H
T ss_pred cEEEEEEEcH
Confidence 655 455553
No 105
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=97.60 E-value=6.2e-05 Score=73.90 Aligned_cols=75 Identities=20% Similarity=0.344 Sum_probs=63.5
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHh-cCCeeEEEE--eCCeEEEEECCHHHHHHHHHhcCCccc---CCCceeeeec
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSR-YGRIRDVDM--KRDFAFVEFSDPRDADDARYSLNGRDV---DGSRIIVEFA 79 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~-~G~V~~v~i--~~~~afV~F~~~eda~~Ai~~lng~~l---~Gr~I~V~~a 79 (310)
-+...+.|||.||-.-.|..+|+.||.. .|.|+.++| ++-.|||.|.+.++|...+.+|||..+ +.+.|.|.|+
T Consensus 440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDkIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~ 519 (718)
T KOG2416|consen 440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDKIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFV 519 (718)
T ss_pred CCCccceEeeecccccchHHHHHHHHhhccCchHHHHHHHhhcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeec
Confidence 4567899999999999999999999984 566766644 567999999999999999999999887 4677888887
Q ss_pred c
Q 021599 80 R 80 (310)
Q Consensus 80 k 80 (310)
.
T Consensus 520 ~ 520 (718)
T KOG2416|consen 520 R 520 (718)
T ss_pred c
Confidence 5
No 106
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.58 E-value=0.00024 Score=66.45 Aligned_cols=80 Identities=21% Similarity=0.236 Sum_probs=65.5
Q ss_pred CCCCCCCcEEEEccCC--CCCcHHHHHHHHHhcCCeeEEEEeCC---eEEEEECCHHHHHHHHHhcCCcccC--CCceee
Q 021599 4 YDDRYGGTRLYVGRLA--SRTRSRDLEEIFSRYGRIRDVDMKRD---FAFVEFSDPRDADDARYSLNGRDVD--GSRIIV 76 (310)
Q Consensus 4 ~~~~~~~~~l~V~nL~--~~~te~dL~~~F~~~G~V~~v~i~~~---~afV~F~~~eda~~Ai~~lng~~l~--Gr~I~V 76 (310)
.+....+..|.++=|. .-||.+-|..+....|+|..|.|++. .|+|||++.+.|++|.+.|||..|- -..|+|
T Consensus 114 ~es~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKI 193 (494)
T KOG1456|consen 114 DESATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKI 193 (494)
T ss_pred CCCCCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHHHHHHHhhcccccccccceeEEE
Confidence 3444556666666554 56788999999999999999988764 8999999999999999999999884 368999
Q ss_pred eeccCCC
Q 021599 77 EFARGGP 83 (310)
Q Consensus 77 ~~ak~~~ 83 (310)
++|++..
T Consensus 194 eyAkP~r 200 (494)
T KOG1456|consen 194 EYAKPTR 200 (494)
T ss_pred EecCcce
Confidence 9998753
No 107
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.56 E-value=0.00012 Score=71.41 Aligned_cols=56 Identities=20% Similarity=0.319 Sum_probs=49.5
Q ss_pred HHHHHHHHhcCCeeEEEEeC---CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 25 RDLEEIFSRYGRIRDVDMKR---DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 25 ~dL~~~F~~~G~V~~v~i~~---~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
+||.+-..+||.|..|.|.+ ++.||.|.+.++|..|+..|||.+|.|+.|.+.|-.
T Consensus 468 edV~Eec~k~g~v~hi~vd~ns~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~ 526 (549)
T KOG0147|consen 468 EDVIEECGKHGKVCHIFVDKNSAGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLP 526 (549)
T ss_pred HHHHHHHHhcCCeeEEEEccCCCceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEee
Confidence 45666668999999999866 489999999999999999999999999999988764
No 108
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.53 E-value=0.00029 Score=65.29 Aligned_cols=72 Identities=19% Similarity=0.374 Sum_probs=58.9
Q ss_pred CCcEEEEccCCC----CCc-------HHHHHHHHHhcCCeeEEEEe----CCeEEEEECCHHHHHHHHHhcCCcccCCCc
Q 021599 9 GGTRLYVGRLAS----RTR-------SRDLEEIFSRYGRIRDVDMK----RDFAFVEFSDPRDADDARYSLNGRDVDGSR 73 (310)
Q Consensus 9 ~~~~l~V~nL~~----~~t-------e~dL~~~F~~~G~V~~v~i~----~~~afV~F~~~eda~~Ai~~lng~~l~Gr~ 73 (310)
..++|+|.||=. ..+ .++|.+-..+||.|..|.|. .|.+.|.|.+.++|..||+.|+|..|+|+.
T Consensus 264 ~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRq 343 (382)
T KOG1548|consen 264 ADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQ 343 (382)
T ss_pred CCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecceE
Confidence 467899998832 223 24555667899999999884 469999999999999999999999999999
Q ss_pred eeeeecc
Q 021599 74 IIVEFAR 80 (310)
Q Consensus 74 I~V~~ak 80 (310)
|..++-.
T Consensus 344 l~A~i~D 350 (382)
T KOG1548|consen 344 LTASIWD 350 (382)
T ss_pred EEEEEeC
Confidence 9988765
No 109
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.50 E-value=6.7e-05 Score=66.81 Aligned_cols=64 Identities=25% Similarity=0.408 Sum_probs=57.2
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC--------------------eEEEEECCHHHHHHHHHhcCCccc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD--------------------FAFVEFSDPRDADDARYSLNGRDV 69 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~--------------------~afV~F~~~eda~~Ai~~lng~~l 69 (310)
.-.|||++||+.+...-|+++|.+||+|-.|.|... .|+|+|.....|+.+.+.||+..|
T Consensus 74 ~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~I 153 (278)
T KOG3152|consen 74 TGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPI 153 (278)
T ss_pred ceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCcc
Confidence 357999999999999999999999999999988321 688999999999999999999999
Q ss_pred CCCc
Q 021599 70 DGSR 73 (310)
Q Consensus 70 ~Gr~ 73 (310)
.|.+
T Consensus 154 ggkk 157 (278)
T KOG3152|consen 154 GGKK 157 (278)
T ss_pred CCCC
Confidence 8865
No 110
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.50 E-value=0.00038 Score=57.51 Aligned_cols=56 Identities=29% Similarity=0.449 Sum_probs=47.6
Q ss_pred HHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCC
Q 021599 26 DLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 26 dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~ 82 (310)
+|.+.|.+||+|.-|.++.+.-+|+|.+-..|.+|+ .|+|.+|.|+.|+|.+..+.
T Consensus 52 ~ll~~~~~~GevvLvRfv~~~mwVTF~dg~sALaal-s~dg~~v~g~~l~i~LKtpd 107 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFVGDTMWVTFRDGQSALAAL-SLDGIQVNGRTLKIRLKTPD 107 (146)
T ss_dssp HHHHHHHCCS-ECEEEEETTCEEEEESSCHHHHHHH-HGCCSEETTEEEEEEE----
T ss_pred HHHHHHHhCCceEEEEEeCCeEEEEECccHHHHHHH-ccCCcEECCEEEEEEeCCcc
Confidence 577888899999999999999999999999999999 78999999999999998754
No 111
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.45 E-value=0.00027 Score=66.83 Aligned_cols=74 Identities=16% Similarity=0.278 Sum_probs=62.3
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeE-EEEe-CC--eEEEEECCHHHHHHHHHhcCCcccCCC-ceeeeeccC
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRD-VDMK-RD--FAFVEFSDPRDADDARYSLNGRDVDGS-RIIVEFARG 81 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~-v~i~-~~--~afV~F~~~eda~~Ai~~lng~~l~Gr-~I~V~~ak~ 81 (310)
++..+|++.|||..++||+|+.+|.+.|.+.. ..+. ++ +|++.|++.|+|..|+..|+.+.+.+. .|.|.|.+.
T Consensus 412 PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFSks 490 (492)
T KOG1190|consen 412 PPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFSKS 490 (492)
T ss_pred CchhheeeccCCcccchhHHHHhhhcCCceEEeeeecCCCcceeecccCChhHhhhhccccccccCCCCceEEEEeecc
Confidence 45679999999999999999999999886544 4443 23 999999999999999999999998764 889999874
No 112
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.43 E-value=0.00015 Score=66.95 Aligned_cols=76 Identities=26% Similarity=0.418 Sum_probs=65.8
Q ss_pred CCcEEE-EccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 9 GGTRLY-VGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 9 ~~~~l~-V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
...+|| |++|+..+++++|+.+|..+|+|..+.++. +||||+|.+...+..++.. +...+.+..|.|++.
T Consensus 183 ~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 261 (285)
T KOG4210|consen 183 PSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEED 261 (285)
T ss_pred ccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccC
Confidence 344555 999999999999999999999999998853 4999999999999999876 788899999999999
Q ss_pred cCCCCC
Q 021599 80 RGGPRG 85 (310)
Q Consensus 80 k~~~~~ 85 (310)
.+.+..
T Consensus 262 ~~~~~~ 267 (285)
T KOG4210|consen 262 EPRPKS 267 (285)
T ss_pred CCCccc
Confidence 877654
No 113
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.41 E-value=0.00059 Score=66.30 Aligned_cols=55 Identities=20% Similarity=0.262 Sum_probs=48.9
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHH-hcCCeeEEEEe--------CCeEEEEECCHHHHHHHHH
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFS-RYGRIRDVDMK--------RDFAFVEFSDPRDADDARY 62 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~-~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~ 62 (310)
++..|||||+||--++.++|-.+|. .||.|.+|-|- +|-|=|+|.+.....+||.
T Consensus 368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs 431 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS 431 (520)
T ss_pred CccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence 4568999999999999999999998 79999998773 4688899999999999986
No 114
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.33 E-value=0.00025 Score=72.79 Aligned_cols=75 Identities=28% Similarity=0.514 Sum_probs=68.6
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC--eEEEEECCHHHHHHHHHhcCCcccCC--CceeeeeccCC
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD--FAFVEFSDPRDADDARYSLNGRDVDG--SRIIVEFARGG 82 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~--~afV~F~~~eda~~Ai~~lng~~l~G--r~I~V~~ak~~ 82 (310)
..++.|||++|..++....|...|..||.|..|++-++ ||+|.|++...++.|++.|-|+.|.+ +.|.|.|+...
T Consensus 453 t~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hgq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~ 531 (975)
T KOG0112|consen 453 TPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHGQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPP 531 (975)
T ss_pred ccceeeccCCCCCCChHHHHHHHhhccCcceeeecccCCcceeeecccCccchhhHHHHhcCcCCCCCcccccccccCC
Confidence 46789999999999999999999999999999999877 99999999999999999999999986 67889888653
No 115
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.20 E-value=0.00066 Score=66.68 Aligned_cols=54 Identities=26% Similarity=0.542 Sum_probs=46.0
Q ss_pred HHHHHHhcCCeeEEEEeCC-----------eEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 27 LEEIFSRYGRIRDVDMKRD-----------FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 27 L~~~F~~~G~V~~v~i~~~-----------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
|+.-+.+||.|..|.|+.. ..||+|.+.++++.|++.|+|.+|.++.|...|.-
T Consensus 426 vr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd 490 (500)
T KOG0120|consen 426 VRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD 490 (500)
T ss_pred HHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence 3444558999999998642 78999999999999999999999999999888754
No 116
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=97.08 E-value=0.00055 Score=63.54 Aligned_cols=67 Identities=19% Similarity=0.281 Sum_probs=55.0
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcC--CeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceee
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYG--RIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIV 76 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G--~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V 76 (310)
-..+|||||-|.+|++||.+.+...| .|.+++++ ++||+|.......+++.++.|...+|.|+.-.|
T Consensus 80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V 156 (498)
T KOG4849|consen 80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTV 156 (498)
T ss_pred eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCee
Confidence 46799999999999999998888766 34444442 569999999999999999999999999976544
No 117
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=97.07 E-value=0.00058 Score=64.84 Aligned_cols=72 Identities=29% Similarity=0.480 Sum_probs=61.0
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhc--CCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCc-ccCCCceeeeeccCC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRY--GRIRDVDMKRDFAFVEFSDPRDADDARYSLNGR-DVDGSRIIVEFARGG 82 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~--G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~-~l~Gr~I~V~~ak~~ 82 (310)
+.|||+||.+.++..||..+|... +--..+.|..+|+||++.+..+|.+|++.|+|. ++.|..+.|+..-++
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~k 76 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPK 76 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceeeecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhH
Confidence 579999999999999999999754 344556667789999999999999999999986 578999999887543
No 118
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.02 E-value=0.0014 Score=59.54 Aligned_cols=57 Identities=28% Similarity=0.362 Sum_probs=48.7
Q ss_pred HHHHHHHHHhcCCeeEEEEeCC---------eEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 24 SRDLEEIFSRYGRIRDVDMKRD---------FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 24 e~dL~~~F~~~G~V~~v~i~~~---------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
++++++.+++||+|..|.|+-. -.||+|+..+.|.+|+..|||..|+|+.+...|..
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 3467788899999999887532 67999999999999999999999999998877754
No 119
>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=97.01 E-value=0.0033 Score=46.13 Aligned_cols=67 Identities=27% Similarity=0.466 Sum_probs=42.6
Q ss_pred EEEEc-cCCCCCcHHHHHHHHHhcC-----CeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 12 RLYVG-RLASRTRSRDLEEIFSRYG-----RIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 12 ~l~V~-nL~~~~te~dL~~~F~~~G-----~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
+|||. +--..++..+|..+|...+ .|-.|+|...|+||+... +.|+.++..|++..+.|+.|.|+.|
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFDNFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS-EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEeeeEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence 45553 2235678899999998764 467889999999999886 4788899999999999999999875
No 120
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=96.93 E-value=0.0026 Score=62.57 Aligned_cols=71 Identities=27% Similarity=0.404 Sum_probs=55.8
Q ss_pred CCCcEEEEccCCCCCcH------HHHHHHHHhcCCeeEEEEe-------CCeEEEEECCHHHHHHHHHhcCCcccCC-Cc
Q 021599 8 YGGTRLYVGRLASRTRS------RDLEEIFSRYGRIRDVDMK-------RDFAFVEFSDPRDADDARYSLNGRDVDG-SR 73 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te------~dL~~~F~~~G~V~~v~i~-------~~~afV~F~~~eda~~Ai~~lng~~l~G-r~ 73 (310)
.-.+.|+|.|+|.--.. .-|..+|+++|+|..+.++ +||.|++|++..+|+.|++.|||+.|+- +.
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHt 135 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHT 135 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccce
Confidence 44578899999853321 2366889999999999886 4599999999999999999999998864 45
Q ss_pred eeeee
Q 021599 74 IIVEF 78 (310)
Q Consensus 74 I~V~~ 78 (310)
+.|..
T Consensus 136 f~v~~ 140 (698)
T KOG2314|consen 136 FFVRL 140 (698)
T ss_pred EEeeh
Confidence 55543
No 121
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.92 E-value=0.0025 Score=64.05 Aligned_cols=68 Identities=16% Similarity=0.291 Sum_probs=58.2
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCee-EEEE-------eCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeee
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIR-DVDM-------KRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEF 78 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~-~v~i-------~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ 78 (310)
+.|-|.|+|++++.+||.+||..|-.+- .|.+ +.+.|.|.|++.++|..|+..|++..|..++|.|.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 4778999999999999999999987543 3333 345999999999999999999999999999988865
No 122
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=96.81 E-value=0.0027 Score=61.83 Aligned_cols=53 Identities=17% Similarity=0.415 Sum_probs=43.4
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeE-EE---------EeCC---eEEEEECCHHHHHHHHH
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRD-VD---------MKRD---FAFVEFSDPRDADDARY 62 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~-v~---------i~~~---~afV~F~~~eda~~Ai~ 62 (310)
..+||||+||+.++|++|...|..||.|.. .- .++| |+|+.|+++..++.-|.
T Consensus 259 S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~ 324 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLS 324 (520)
T ss_pred ccceeecCCCccccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHH
Confidence 578999999999999999999999997632 11 1345 99999999888776654
No 123
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=96.76 E-value=0.0084 Score=42.38 Aligned_cols=54 Identities=20% Similarity=0.239 Sum_probs=43.3
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhc---CCeeEEEEeCC-eEEEEECCHHHHHHHHHhc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRY---GRIRDVDMKRD-FAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~---G~V~~v~i~~~-~afV~F~~~eda~~Ai~~l 64 (310)
-..|+|.||. +++.+||+.||..| .....|.++.+ -|-|.|.+.+.|..||.+|
T Consensus 5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDtScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDTSCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCCcEEEEECCHHHHHHHHHcC
Confidence 3579999996 47889999999998 13456666665 7899999999999999765
No 124
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.66 E-value=0.00063 Score=63.02 Aligned_cols=71 Identities=24% Similarity=0.431 Sum_probs=58.6
Q ss_pred cEEEEccCCCCCcHHH-HH--HHHHhcCCeeEEEEeCC-----------eEEEEECCHHHHHHHHHhcCCcccCCCceee
Q 021599 11 TRLYVGRLASRTRSRD-LE--EIFSRYGRIRDVDMKRD-----------FAFVEFSDPRDADDARYSLNGRDVDGSRIIV 76 (310)
Q Consensus 11 ~~l~V~nL~~~~te~d-L~--~~F~~~G~V~~v~i~~~-----------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V 76 (310)
.-+||-+|+..+..++ |+ ++|.+||.|..|.+.++ -++|+|+..++|..||...+|+.++|+.|++
T Consensus 78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lka 157 (327)
T KOG2068|consen 78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALKA 157 (327)
T ss_pred hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhHH
Confidence 4578888987775554 43 78999999999888653 5799999999999999999999999999888
Q ss_pred eeccC
Q 021599 77 EFARG 81 (310)
Q Consensus 77 ~~ak~ 81 (310)
.+...
T Consensus 158 ~~gtt 162 (327)
T KOG2068|consen 158 SLGTT 162 (327)
T ss_pred hhCCC
Confidence 77654
No 125
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=96.61 E-value=0.055 Score=47.20 Aligned_cols=67 Identities=22% Similarity=0.223 Sum_probs=42.7
Q ss_pred CCCCCCCCCcEEEEccCCCCCcHHHHHHHHHhcCCee-----------EEEEeCCeEEEEECCHHHHHHHHH--hcCCcc
Q 021599 2 PRYDDRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIR-----------DVDMKRDFAFVEFSDPRDADDARY--SLNGRD 68 (310)
Q Consensus 2 ~~~~~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~-----------~v~i~~~~afV~F~~~eda~~Ai~--~lng~~ 68 (310)
|+++....-...-|++-..--+..-|.+-+...|.|- -+.+ +-|-+=.++++|++||+ .|+|.+
T Consensus 8 Pdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaF---Vrf~~k~daedA~damDG~~ldgRe 84 (256)
T KOG4207|consen 8 PDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAF---VRFHDKRDAEDALDAMDGAVLDGRE 84 (256)
T ss_pred CCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeE---EEeeecchHHHHHHhhcceeeccce
Confidence 3455555545555555555556666777777777651 1222 24667788899999987 789998
Q ss_pred cCC
Q 021599 69 VDG 71 (310)
Q Consensus 69 l~G 71 (310)
|--
T Consensus 85 lrV 87 (256)
T KOG4207|consen 85 LRV 87 (256)
T ss_pred eee
Confidence 843
No 126
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.56 E-value=0.00052 Score=70.48 Aligned_cols=77 Identities=21% Similarity=0.441 Sum_probs=64.0
Q ss_pred CCCCCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC-------eEEEEECCHHHHHHHHHhcCCcccCCCcee
Q 021599 3 RYDDRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD-------FAFVEFSDPRDADDARYSLNGRDVDGSRII 75 (310)
Q Consensus 3 ~~~~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~-------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~ 75 (310)
..|+.-.+-+||++||...+++.+|...|..+|.|..|.|..- ||||.|.+...+..|+..|.+..|..-.+.
T Consensus 365 ~~DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r 444 (975)
T KOG0112|consen 365 KLDDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHR 444 (975)
T ss_pred cccchhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCccc
Confidence 3456677899999999999999999999999999999988532 999999999999999988888777544444
Q ss_pred eeec
Q 021599 76 VEFA 79 (310)
Q Consensus 76 V~~a 79 (310)
+.+.
T Consensus 445 ~glG 448 (975)
T KOG0112|consen 445 IGLG 448 (975)
T ss_pred cccc
Confidence 4433
No 127
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.47 E-value=0.0024 Score=60.03 Aligned_cols=71 Identities=17% Similarity=0.175 Sum_probs=58.6
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCC-eeE--EEEe-------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGR-IRD--VDMK-------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~-V~~--v~i~-------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
...|-+.+||+..+.+||.+||..|.. |.. |.|+ .|.|||+|.++++|..|..+.+.+.++.+.|+|-.+
T Consensus 280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~ 359 (508)
T KOG1365|consen 280 KDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPC 359 (508)
T ss_pred CCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeec
Confidence 456888999999999999999999874 444 5553 249999999999999999988888888888888655
Q ss_pred c
Q 021599 80 R 80 (310)
Q Consensus 80 k 80 (310)
.
T Consensus 360 S 360 (508)
T KOG1365|consen 360 S 360 (508)
T ss_pred c
Confidence 3
No 128
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=96.33 E-value=0.0022 Score=64.39 Aligned_cols=73 Identities=23% Similarity=0.171 Sum_probs=58.1
Q ss_pred CCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeE-EEEeC-------CeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 6 DRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRD-VDMKR-------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 6 ~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~-v~i~~-------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
....+..|||..||..+++.++.++|...-.|++ |.|.. ..|||+|..++++..|+..-+.+-+..+.|.|.
T Consensus 430 P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~ 509 (944)
T KOG4307|consen 430 PGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVD 509 (944)
T ss_pred CCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCCcccccchhhheeccccccchhhhcccccccCceEEEee
Confidence 3456889999999999999999999998887776 66632 399999999888888876656556666777775
Q ss_pred e
Q 021599 78 F 78 (310)
Q Consensus 78 ~ 78 (310)
-
T Consensus 510 s 510 (944)
T KOG4307|consen 510 S 510 (944)
T ss_pred c
Confidence 3
No 129
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.23 E-value=0.0028 Score=61.14 Aligned_cols=74 Identities=19% Similarity=0.291 Sum_probs=60.1
Q ss_pred CCcEEEEccCCCCC-cHHHHHHHHHhcCCeeEEEEeC--CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccCCC
Q 021599 9 GGTRLYVGRLASRT-RSRDLEEIFSRYGRIRDVDMKR--DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARGGP 83 (310)
Q Consensus 9 ~~~~l~V~nL~~~~-te~dL~~~F~~~G~V~~v~i~~--~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~~ 83 (310)
+.+.|-+.-++..+ +.++|..+|.+||+|..|.|-- ..|.|+|.+..+|-.|. ..++..|+++.|+|-|-++.+
T Consensus 371 dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~whnps~ 447 (526)
T KOG2135|consen 371 DHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSLHAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLFWHNPSP 447 (526)
T ss_pred ccchhhhhccCCCCchHhhhhhhhhhcCccccccccCchhhheeeeeccccccchh-ccccceecCceeEEEEecCCc
Confidence 34555566666655 5688999999999999988754 48999999999997775 778999999999999988643
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=96.13 E-value=0.0033 Score=54.10 Aligned_cols=74 Identities=24% Similarity=0.306 Sum_probs=48.2
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHh-cCCe---eEEEEeC----------CeEEEEECCHHHHHHHHHhcCCcccCCC
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSR-YGRI---RDVDMKR----------DFAFVEFSDPRDADDARYSLNGRDVDGS 72 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~-~G~V---~~v~i~~----------~~afV~F~~~eda~~Ai~~lng~~l~Gr 72 (310)
....++|.|.+||+.+|++++.+.+.. ++.. .++.-.. .-|||.|.+.+++...+..++|+.|.+.
T Consensus 4 ~~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~ 83 (176)
T PF03467_consen 4 EKEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDS 83 (176)
T ss_dssp -----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-T
T ss_pred cccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECC
Confidence 456789999999999999999886665 5544 3332111 1899999999999999999999877442
Q ss_pred -----ceeeeecc
Q 021599 73 -----RIIVEFAR 80 (310)
Q Consensus 73 -----~I~V~~ak 80 (310)
...|++|-
T Consensus 84 kg~~~~~~VE~Ap 96 (176)
T PF03467_consen 84 KGNEYPAVVEFAP 96 (176)
T ss_dssp TS-EEEEEEEE-S
T ss_pred CCCCcceeEEEcc
Confidence 23466664
No 131
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=96.06 E-value=0.0047 Score=61.83 Aligned_cols=75 Identities=16% Similarity=0.260 Sum_probs=65.9
Q ss_pred CCCCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 4 YDDRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 4 ~~~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
+....+..+|||+||...+..+-++.++..+|.|..+...+ |||.+|..+..+..|+..|+-..++|..|.+...
T Consensus 34 ~~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~-fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d 108 (668)
T KOG2253|consen 34 FQPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK-FGFCEFLKHIGDLRASRLLTELNIDDQKLIENVD 108 (668)
T ss_pred ccCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh-hcccchhhHHHHHHHHHHhcccCCCcchhhccch
Confidence 44556778999999999999999999999999998887766 9999999999999999999988999988876653
No 132
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=95.92 E-value=0.0057 Score=32.32 Aligned_cols=17 Identities=65% Similarity=1.425 Sum_probs=14.1
Q ss_pred CCccCCCCCCCCccCCC
Q 021599 103 RCFNCGIDGHWARDCKA 119 (310)
Q Consensus 103 rc~~~G~~g~~~rdc~~ 119 (310)
.||+||..||++.+|+.
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 58899999999888873
No 133
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=95.61 E-value=0.016 Score=54.62 Aligned_cols=69 Identities=19% Similarity=0.133 Sum_probs=47.7
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcC----CeeEEEE-e------CCeEEEEECCHHHHHHHHHhcCCcccCCCcee
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYG----RIRDVDM-K------RDFAFVEFSDPRDADDARYSLNGRDVDGSRII 75 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G----~V~~v~i-~------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~ 75 (310)
+.+.-.|-+.+||+++++.||.+||.... .++.|.+ . .|-|||.|..+++|+.||.+ |...|+-+.|+
T Consensus 158 k~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIE 236 (508)
T KOG1365|consen 158 KENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIE 236 (508)
T ss_pred cccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHH
Confidence 34455677889999999999999997332 2223322 2 25999999999999999964 43444444444
Q ss_pred e
Q 021599 76 V 76 (310)
Q Consensus 76 V 76 (310)
|
T Consensus 237 l 237 (508)
T KOG1365|consen 237 L 237 (508)
T ss_pred H
Confidence 3
No 134
>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=95.51 E-value=0.036 Score=41.48 Aligned_cols=54 Identities=19% Similarity=0.282 Sum_probs=41.8
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~ln 65 (310)
..+||+ +|.++...||.++|..||.|.--.|--.-|||...+.+.|..|+..+.
T Consensus 10 HVFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~dTSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 10 HVFHLT-FPKEWKTSDIYQLFSPFGQIYVSWINDTSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CEEEEE---TT--HHHHHHHCCCCCCEEEEEECTTEEEEEECCCHHHHHHHHHHT
T ss_pred eEEEEe-CchHhhhhhHHHHhccCCcEEEEEEcCCcEEEEeecHHHHHHHHHHhc
Confidence 455565 999999999999999999886655655699999999999999987765
No 135
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=95.40 E-value=0.025 Score=55.77 Aligned_cols=69 Identities=14% Similarity=0.250 Sum_probs=53.7
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHh--cCCeeEEEEe-CCeEEEEECCHHHHHHHHHhcCC--cccCCCceee
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSR--YGRIRDVDMK-RDFAFVEFSDPRDADDARYSLNG--RDVDGSRIIV 76 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~--~G~V~~v~i~-~~~afV~F~~~eda~~Ai~~lng--~~l~Gr~I~V 76 (310)
..-|.|+|.-|+..+-+++|+.||.. +-+++.|.+. .+-=||+|++.+||+.|.+.|.. .+|-|+.|..
T Consensus 173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~nWyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 173 HKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDNWYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred cceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 34588999999999999999999964 5678888775 45679999999999999865542 3455655543
No 136
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.39 E-value=0.084 Score=43.48 Aligned_cols=71 Identities=21% Similarity=0.259 Sum_probs=52.0
Q ss_pred CCCcEEEEccCCCCCc-HHH---HHHHHHhcCCeeEEEEe-CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 8 YGGTRLYVGRLASRTR-SRD---LEEIFSRYGRIRDVDMK-RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~t-e~d---L~~~F~~~G~V~~v~i~-~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
.+..+|.|.=|..++. .+| |...+..||.|..|.+. +.-|.|.|.+...|-.|+.++.. ...|..+.+.|-
T Consensus 84 pPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGrqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWq 159 (166)
T PF15023_consen 84 PPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGRQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQ 159 (166)
T ss_pred CCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCCceEEEEehhhHHHHHHHHhhcC-CCCCceEEeecc
Confidence 4567888876665552 234 45566789999999875 45999999999999999988874 555666666553
No 137
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=95.31 E-value=0.014 Score=56.84 Aligned_cols=86 Identities=24% Similarity=0.407 Sum_probs=57.6
Q ss_pred eEEEEECCHHHHHHHHHhcCCcccCC----------Ccee-eeeccCCCCCCCCCCCccCCCCCCCCCCCccCCCCCCCC
Q 021599 46 FAFVEFSDPRDADDARYSLNGRDVDG----------SRII-VEFARGGPRGPGGSREYLGRGPPPGSGRCFNCGIDGHWA 114 (310)
Q Consensus 46 ~afV~F~~~eda~~Ai~~lng~~l~G----------r~I~-V~~ak~~~~~~~g~~~~~grg~~~~~~rc~~~G~~g~~~ 114 (310)
+|+|+-+++|.+++||+.+....... .++. .+++.-.+.. .-.....|.+||..||.+
T Consensus 206 H~~Isadt~eki~~Ai~vienli~~av~~~e~~n~l~~~Qlrela~lNgt~-----------r~~d~~~c~~cg~~~H~q 274 (554)
T KOG0119|consen 206 HCLISADTQEKIKKAIAVIENLIQSAVSVPEGQNDLKRLQLRELARLNGTL-----------RDDDNRACRNCGSTGHKQ 274 (554)
T ss_pred eEEEecchHHHHHHHHHHHHHHHHhhccCccccccccHHHHHHHHHhCCCC-----------CccccccccccCCCcccc
Confidence 99999999999999987554332211 0111 1122211100 011124699999999999
Q ss_pred ccCCCC--CCCcccccCCCCCcccccCCCC
Q 021599 115 RDCKAG--DWKNKCYRCGERGHIERNCQNS 142 (310)
Q Consensus 115 rdc~~~--~~~~~~~~cg~~~h~~~~~~~~ 142 (310)
.+|+.. .+...|..||..+|+..+|...
T Consensus 275 ~~cp~r~~~~~n~c~~cg~~gH~~~dc~~~ 304 (554)
T KOG0119|consen 275 YDCPGRIPNTTNVCKICGPLGHISIDCKVN 304 (554)
T ss_pred ccCCcccccccccccccCCcccccccCCCc
Confidence 999976 2344899999999999999876
No 138
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=95.30 E-value=0.043 Score=47.54 Aligned_cols=60 Identities=30% Similarity=0.423 Sum_probs=45.6
Q ss_pred cHHHHHHHHHhcCCeeEEEEeCC--eEEEEECCHHHHHHHHHhcC--CcccCCCceeeeeccCC
Q 021599 23 RSRDLEEIFSRYGRIRDVDMKRD--FAFVEFSDPRDADDARYSLN--GRDVDGSRIIVEFARGG 82 (310)
Q Consensus 23 te~dL~~~F~~~G~V~~v~i~~~--~afV~F~~~eda~~Ai~~ln--g~~l~Gr~I~V~~ak~~ 82 (310)
..+.|+++|..|+.+..+.+++. -..|.|.+.++|..|...|+ +..|.|..|.|.|+...
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKSFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETTTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred hHHHHHHHHHhcCCceEEEEcCCCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 45789999999999888888776 56899999999999999999 99999999999988543
No 139
>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=95.26 E-value=0.13 Score=40.74 Aligned_cols=64 Identities=20% Similarity=0.246 Sum_probs=45.9
Q ss_pred CCCcEEEE-ccCCCCCcHHHHHHHHHhcC-CeeEEEEeCC------eEEEEECCHHHHHHHHHhcCCcccCC
Q 021599 8 YGGTRLYV-GRLASRTRSRDLEEIFSRYG-RIRDVDMKRD------FAFVEFSDPRDADDARYSLNGRDVDG 71 (310)
Q Consensus 8 ~~~~~l~V-~nL~~~~te~dL~~~F~~~G-~V~~v~i~~~------~afV~F~~~eda~~Ai~~lng~~l~G 71 (310)
..++.|.| ..++..++.++|..+.+.+- .|..+.|+++ .++|.|.+.++|..-...+||+.|+-
T Consensus 10 ~~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 10 ERRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred CCCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 33444544 44455555566665555554 5677888765 78899999999999999999998764
No 140
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=95.05 E-value=0.015 Score=50.11 Aligned_cols=39 Identities=54% Similarity=1.280 Sum_probs=31.7
Q ss_pred CCCccCCCCCCCCccCC---------CC------CCCcccccCCCCCcccccCC
Q 021599 102 GRCFNCGIDGHWARDCK---------AG------DWKNKCYRCGERGHIERNCQ 140 (310)
Q Consensus 102 ~rc~~~G~~g~~~rdc~---------~~------~~~~~~~~cg~~~h~~~~~~ 140 (310)
..||+||..||..+||+ .. .+..+|+.||+.||+..+|.
T Consensus 61 ~~C~nCg~~GH~~~DCP~~iC~~C~~~~H~s~~C~~~~~C~~Cg~~GH~~~dC~ 114 (190)
T COG5082 61 PVCFNCGQNGHLRRDCPHSICYNCSWDGHRSNHCPKPKKCYNCGETGHLSRDCN 114 (190)
T ss_pred cccchhcccCcccccCChhHhhhcCCCCcccccCCcccccccccccCccccccC
Confidence 45899999999999988 11 23468999999999999994
No 141
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=95.04 E-value=0.002 Score=66.08 Aligned_cols=61 Identities=30% Similarity=0.367 Sum_probs=52.1
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEE--------eCCeEEEEECCHHHHHHHHHhcCCcccC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDM--------KRDFAFVEFSDPRDADDARYSLNGRDVD 70 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i--------~~~~afV~F~~~eda~~Ai~~lng~~l~ 70 (310)
.+++||.||+..+.+.+|..+|..+|.|..+.| ++|+|||+|...+++.+||...+++.++
T Consensus 667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 468999999999999999999999998776655 3569999999999999999776666555
No 142
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=94.89 E-value=0.028 Score=50.42 Aligned_cols=55 Identities=29% Similarity=0.366 Sum_probs=47.4
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcC
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~ln 65 (310)
..|||.||...+..+.|...|..||.|....+.. +.++|+|...-.+.+|+..+.
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~ 93 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCR 93 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhc
Confidence 7899999999999999999999999987665542 388999999999999987663
No 143
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.82 E-value=0.11 Score=47.82 Aligned_cols=63 Identities=22% Similarity=0.291 Sum_probs=49.0
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--CeEEEEECCHHHHHHHHHhcCCcccCCCce
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--DFAFVEFSDPRDADDARYSLNGRDVDGSRI 74 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--~~afV~F~~~eda~~Ai~~lng~~l~Gr~I 74 (310)
.+=|.|-++++.. ...|..+|.+||+|+...... +|-+|.|.+..+|++|| ..||+.|+|..|
T Consensus 197 D~WVTVfGFppg~-~s~vL~~F~~cG~Vvkhv~~~ngNwMhirYssr~~A~KAL-skng~ii~g~vm 261 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQ-VSIVLNLFSRCGEVVKHVTPSNGNWMHIRYSSRTHAQKAL-SKNGTIIDGDVM 261 (350)
T ss_pred cceEEEeccCccc-hhHHHHHHHhhCeeeeeecCCCCceEEEEecchhHHHHhh-hhcCeeeccceE
Confidence 4556666777653 345678899999998877654 38999999999999999 558999988654
No 144
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=94.70 E-value=0.029 Score=46.67 Aligned_cols=38 Identities=45% Similarity=1.218 Sum_probs=19.1
Q ss_pred CCccCCCCCCCCccCCCC----CCCcccccCCCCCcccccCC
Q 021599 103 RCFNCGIDGHWARDCKAG----DWKNKCYRCGERGHIERNCQ 140 (310)
Q Consensus 103 rc~~~G~~g~~~rdc~~~----~~~~~~~~cg~~~h~~~~~~ 140 (310)
.||+|+..||++.+|+.. .....||.|++.+|++.+|+
T Consensus 105 ~C~~Cg~~gH~~~~C~~~~~~~~~~~~C~~Cg~~gH~~~dCp 146 (148)
T PTZ00368 105 ACYNCGGEGHISRDCPNAGKRPGGDKTCYNCGQTGHLSRDCP 146 (148)
T ss_pred hhcccCcCCcchhcCCCccccCCCCCccccCCCcCcccccCC
Confidence 455555555555555542 12235555555555555554
No 145
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=94.61 E-value=0.041 Score=46.93 Aligned_cols=83 Identities=22% Similarity=0.296 Sum_probs=63.0
Q ss_pred CCCCCCCCCCcEEEEccCCCCCcH-----HHHHHHHHhcCCeeEEEEeCC--eEEEEECCHHHHHHHHHhcCCcccCCC-
Q 021599 1 MPRYDDRYGGTRLYVGRLASRTRS-----RDLEEIFSRYGRIRDVDMKRD--FAFVEFSDPRDADDARYSLNGRDVDGS- 72 (310)
Q Consensus 1 m~~~~~~~~~~~l~V~nL~~~~te-----~dL~~~F~~~G~V~~v~i~~~--~afV~F~~~eda~~Ai~~lng~~l~Gr- 72 (310)
|+..+-.+--++|++.+|...+-. ...+.+|.+|-+...+.+++. +.-|.|.+.+.|..|...+++..|.|.
T Consensus 1 ~~~v~~~dlp~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrsfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~ 80 (193)
T KOG4019|consen 1 MGEVDTDDLPTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRSFRRVRINFSNPEAAADARIKLHSTSFNGKN 80 (193)
T ss_pred CCccccccccceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHhhceeEEeccChhHHHHHHHHhhhcccCCCc
Confidence 455555566788999999876522 234567777777777777766 445799999999999999999999998
Q ss_pred ceeeeeccCCC
Q 021599 73 RIIVEFARGGP 83 (310)
Q Consensus 73 ~I~V~~ak~~~ 83 (310)
.|++-++.+..
T Consensus 81 ~~k~yfaQ~~~ 91 (193)
T KOG4019|consen 81 ELKLYFAQPGH 91 (193)
T ss_pred eEEEEEccCCC
Confidence 88888887553
No 146
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=94.55 E-value=0.021 Score=58.87 Aligned_cols=72 Identities=13% Similarity=0.148 Sum_probs=63.7
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe-------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK-------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~-------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
...|||.|+|+..|.++|+.+|..+|.++.+.++ ++.|||.|.++.++..++..++...+.-..+.|.+..+
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 4679999999999999999999999999888653 56899999999999999999998888888888888654
No 147
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=94.40 E-value=0.028 Score=57.90 Aligned_cols=71 Identities=31% Similarity=0.359 Sum_probs=59.4
Q ss_pred EEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC--eEEEEECCHHHHHHHHHhcCCccc--CCCceeeeeccCCC
Q 021599 13 LYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD--FAFVEFSDPRDADDARYSLNGRDV--DGSRIIVEFARGGP 83 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~--~afV~F~~~eda~~Ai~~lng~~l--~Gr~I~V~~ak~~~ 83 (310)
.++.|..-.++...|..+|.+||+|..+...++ .|.|+|...+.|..|+++|+|+++ .|-..+|.+|+.-+
T Consensus 301 ~~~~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 301 QSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLP 375 (1007)
T ss_pred hhhhcccccchHHHHHHHHHhhcchhhheecccccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccccc
Confidence 334445556667778999999999999998776 899999999999999999999886 57889999998654
No 148
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=94.36 E-value=0.13 Score=49.59 Aligned_cols=62 Identities=26% Similarity=0.430 Sum_probs=55.7
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcC-CeeEEEEeCC------eEEEEECCHHHHHHHHHhcCCcccCC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYG-RIRDVDMKRD------FAFVEFSDPRDADDARYSLNGRDVDG 71 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G-~V~~v~i~~~------~afV~F~~~eda~~Ai~~lng~~l~G 71 (310)
++.|+|-.+|..++--||..|+..|- .|..|.|+++ .++|.|.+.++|....+.+||..|..
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 78999999999999999999998765 6888988875 77899999999999999999998865
No 149
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=94.18 E-value=0.3 Score=41.67 Aligned_cols=16 Identities=81% Similarity=1.869 Sum_probs=14.8
Q ss_pred cccCCCCCcccccCCC
Q 021599 126 CYRCGERGHIERNCQN 141 (310)
Q Consensus 126 ~~~cg~~~h~~~~~~~ 141 (310)
|+.||+.+|+.+.|.+
T Consensus 103 ~~r~G~rg~~~r~~~~ 118 (195)
T KOG0107|consen 103 CYRCGERGHIGRNCKD 118 (195)
T ss_pred cccCCCcccccccccc
Confidence 9999999999998876
No 150
>PTZ00368 universal minicircle sequence binding protein (UMSBP); Provisional
Probab=93.95 E-value=0.084 Score=43.88 Aligned_cols=39 Identities=46% Similarity=1.193 Sum_probs=17.4
Q ss_pred CCccCCCCCCCCccCCCCC---CCcccccCCCCCcccccCCC
Q 021599 103 RCFNCGIDGHWARDCKAGD---WKNKCYRCGERGHIERNCQN 141 (310)
Q Consensus 103 rc~~~G~~g~~~rdc~~~~---~~~~~~~cg~~~h~~~~~~~ 141 (310)
.||+|+..||++.+|+... ....|+.|+..+|+..+|+.
T Consensus 54 ~C~~Cg~~GH~~~~Cp~~~~~~~~~~C~~Cg~~GH~~~~C~~ 95 (148)
T PTZ00368 54 SCYNCGKTGHLSRECPEAPPGSGPRSCYNCGQTGHISRECPN 95 (148)
T ss_pred ccCCCCCcCcCcccCCCcccCCCCcccCcCCCCCcccccCCC
Confidence 3444444444444444321 12234445555555544443
No 151
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=93.16 E-value=0.068 Score=46.09 Aligned_cols=41 Identities=34% Similarity=0.972 Sum_probs=36.7
Q ss_pred CCCccCCCCCCCCccC-CCCCCCcccccCCCCCcccccCCCC
Q 021599 102 GRCFNCGIDGHWARDC-KAGDWKNKCYRCGERGHIERNCQNS 142 (310)
Q Consensus 102 ~rc~~~G~~g~~~rdc-~~~~~~~~~~~cg~~~h~~~~~~~~ 142 (310)
..|++||..||+..|| +.......|+.|....|+..+|+.-
T Consensus 98 ~~C~~Cg~~GH~~~dC~P~~~~~~~C~~C~s~~H~s~~Cp~~ 139 (190)
T COG5082 98 KKCYNCGETGHLSRDCNPSKDQQKSCFDCNSTRHSSEDCPSI 139 (190)
T ss_pred cccccccccCccccccCcccccCcceeccCCCccccccCccc
Confidence 4699999999999999 6777777999999999999999864
No 152
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=92.39 E-value=0.098 Score=47.76 Aligned_cols=41 Identities=37% Similarity=1.027 Sum_probs=35.2
Q ss_pred CCCccCCCCCCCCccCCCCCCCcccccCCCCCcccccCCCCC
Q 021599 102 GRCFNCGIDGHWARDCKAGDWKNKCYRCGERGHIERNCQNSP 143 (310)
Q Consensus 102 ~rc~~~G~~g~~~rdc~~~~~~~~~~~cg~~~h~~~~~~~~~ 143 (310)
..||+||..|||..+|++. ....|+.|+..+|+..+|+...
T Consensus 144 ~~Cy~Cg~~GH~s~~C~~~-~~~~c~~c~~~~h~~~~C~~~~ 184 (261)
T KOG4400|consen 144 AKCYSCGEQGHISDDCPEN-KGGTCFRCGKVGHGSRDCPSKQ 184 (261)
T ss_pred CccCCCCcCCcchhhCCCC-CCCccccCCCcceecccCCccc
Confidence 4599999999999999977 5678999999999999997754
No 153
>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=92.29 E-value=0.52 Score=33.75 Aligned_cols=55 Identities=15% Similarity=0.237 Sum_probs=43.1
Q ss_pred CCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceee
Q 021599 21 RTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIV 76 (310)
Q Consensus 21 ~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V 76 (310)
.++-+||+..|..|+- ..|...+.-=||.|.+..+|+.+....+|..+.+-.|.+
T Consensus 11 ~~~v~d~K~~Lr~y~~-~~I~~d~tGfYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRW-DRIRDDRTGFYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcCCc-ceEEecCCEEEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 4678999999999883 333344444589999999999999999999887766654
No 154
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=92.26 E-value=0.56 Score=46.75 Aligned_cols=69 Identities=23% Similarity=0.308 Sum_probs=55.6
Q ss_pred CCCcEEEEccCCCC-CcHHHHHHHHHhc----CCeeEEEEe----------------C----------------C-----
Q 021599 8 YGGTRLYVGRLASR-TRSRDLEEIFSRY----GRIRDVDMK----------------R----------------D----- 45 (310)
Q Consensus 8 ~~~~~l~V~nL~~~-~te~dL~~~F~~~----G~V~~v~i~----------------~----------------~----- 45 (310)
..+.+|-|.||.|. +...||..+|..| |.|..|.|- . +
T Consensus 172 ~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~ 251 (650)
T KOG2318|consen 172 EETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEE 251 (650)
T ss_pred cccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhh
Confidence 45789999999986 6788999998866 578888771 0 0
Q ss_pred ------------------eEEEEECCHHHHHHHHHhcCCcccCCCceee
Q 021599 46 ------------------FAFVEFSDPRDADDARYSLNGRDVDGSRIIV 76 (310)
Q Consensus 46 ------------------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V 76 (310)
||.|+|.+.+.|......++|++|...-+.|
T Consensus 252 ~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~ 300 (650)
T KOG2318|consen 252 DVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKL 300 (650)
T ss_pred hHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceecccccee
Confidence 8999999999999999999999997544433
No 155
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=92.12 E-value=0.17 Score=49.99 Aligned_cols=73 Identities=16% Similarity=0.226 Sum_probs=46.6
Q ss_pred CcEEEEccCCCCCcHHHHHHHHH-hcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccC---C-Cceee
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFS-RYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVD---G-SRIIV 76 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~-~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~---G-r~I~V 76 (310)
-+++.|.|++...|...|.+..+ ..|....+.++ .|||||.|.+.+++..+.+++||+.++ + +.+.|
T Consensus 388 rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~i 467 (549)
T KOG4660|consen 388 RTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASI 467 (549)
T ss_pred hhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeee
Confidence 35555666665555444443332 24555555553 249999999999999999999998653 3 33456
Q ss_pred eeccCC
Q 021599 77 EFARGG 82 (310)
Q Consensus 77 ~~ak~~ 82 (310)
.||.-+
T Consensus 468 tYArIQ 473 (549)
T KOG4660|consen 468 TYARIQ 473 (549)
T ss_pred ehhhhh
Confidence 666543
No 156
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=91.94 E-value=0.01 Score=56.56 Aligned_cols=70 Identities=14% Similarity=0.360 Sum_probs=60.5
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC-----eEEEEECCHHHHHHHHHhcCCcccCCCceeeeec
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD-----FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFA 79 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~-----~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~a 79 (310)
...|.|.||++...|+-|..|+.+||.|+.|.++.. ..-|+|...+.+..||++|+|..|+...++|.|-
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~Yi 154 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYI 154 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccC
Confidence 356889999999999999999999999998876432 4457888999999999999999999999988775
No 157
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=91.79 E-value=0.14 Score=26.93 Aligned_cols=17 Identities=59% Similarity=1.497 Sum_probs=15.3
Q ss_pred ccccCCCCCcccccCCC
Q 021599 125 KCYRCGERGHIERNCQN 141 (310)
Q Consensus 125 ~~~~cg~~~h~~~~~~~ 141 (310)
.||.|++.+|++.+|+.
T Consensus 2 ~C~~C~~~GH~~~~Cp~ 18 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCPK 18 (18)
T ss_dssp BCTTTSCSSSCGCTSSS
T ss_pred cCcCCCCcCcccccCcc
Confidence 69999999999999863
No 158
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=90.04 E-value=2.9 Score=43.10 Aligned_cols=62 Identities=6% Similarity=0.127 Sum_probs=50.4
Q ss_pred CCCCcHHHHHHHHHhcCC-----eeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 19 ASRTRSRDLEEIFSRYGR-----IRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 19 ~~~~te~dL~~~F~~~G~-----V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
...++..+|..++..-+. |-.|+|...|.||+... +.+...+..|++..+.|+.|.|+.+..
T Consensus 496 ~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~~~~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 562 (629)
T PRK11634 496 DDGVEVRHIVGAIANEGDISSRYIGNIKLFASHSTIELPK-GMPGEVLQHFTRTRILNKPMNMQLLGD 562 (629)
T ss_pred ccCCCHHHHHHHHHhhcCCChhhCCcEEEeCCceEEEcCh-hhHHHHHHHhccccccCCceEEEECCC
Confidence 356788888888876654 45678888899999886 457888889999999999999998753
No 159
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=89.07 E-value=0.3 Score=45.30 Aligned_cols=73 Identities=15% Similarity=0.161 Sum_probs=57.6
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--------CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--------RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--------~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
..+++||+++.+.+.+.++..+|..+|.+..+.+. +++++|.|+..+.+..||.......+.+..+...+..
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~ 166 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNT 166 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCcccc
Confidence 56899999999999999999999999977666552 4599999999999999995444456666666655554
Q ss_pred C
Q 021599 81 G 81 (310)
Q Consensus 81 ~ 81 (310)
.
T Consensus 167 ~ 167 (285)
T KOG4210|consen 167 R 167 (285)
T ss_pred c
Confidence 3
No 160
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=88.90 E-value=0.16 Score=46.22 Aligned_cols=60 Identities=22% Similarity=0.387 Sum_probs=41.1
Q ss_pred CcEEEEccCCCCC------------cHHHHHHHHHhcCCeeEEEEeC------------------C---------eEEEE
Q 021599 10 GTRLYVGRLASRT------------RSRDLEEIFSRYGRIRDVDMKR------------------D---------FAFVE 50 (310)
Q Consensus 10 ~~~l~V~nL~~~~------------te~dL~~~F~~~G~V~~v~i~~------------------~---------~afV~ 50 (310)
.-|||+.+||-.| +++-|...|+.||+|..|+|+- + .|||.
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayvq 228 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYVQ 228 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHHH
Confidence 3578888887432 4567999999999999988741 1 24456
Q ss_pred ECCHHHHHHHHHhcCCccc
Q 021599 51 FSDPRDADDARYSLNGRDV 69 (310)
Q Consensus 51 F~~~eda~~Ai~~lng~~l 69 (310)
|...-....|+..|.|..+
T Consensus 229 fmeykgfa~amdalr~~k~ 247 (445)
T KOG2891|consen 229 FMEYKGFAQAMDALRGMKL 247 (445)
T ss_pred HHHHHhHHHHHHHHhcchH
Confidence 6555556666666666543
No 161
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=84.07 E-value=0.65 Score=30.16 Aligned_cols=19 Identities=42% Similarity=1.165 Sum_probs=16.0
Q ss_pred CCCCccCCCCCCCCccCCC
Q 021599 101 SGRCFNCGIDGHWARDCKA 119 (310)
Q Consensus 101 ~~rc~~~G~~g~~~rdc~~ 119 (310)
...|.+|+..|||..+|+.
T Consensus 4 ~~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 4 RVRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CCcCcccCCCCcchhhCCC
Confidence 4579999999999999885
No 162
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=83.57 E-value=2.9 Score=40.13 Aligned_cols=55 Identities=22% Similarity=0.203 Sum_probs=44.3
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCe-eEEEEeCC-eEEEEECCHHHHHHHHH
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRI-RDVDMKRD-FAFVEFSDPRDADDARY 62 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V-~~v~i~~~-~afV~F~~~eda~~Ai~ 62 (310)
+--+.|-|.++|.....+||..+|+.|++- ..|.++-+ .||-.|.....|..||.
T Consensus 389 dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdthalaVFss~~~AaeaLt 445 (528)
T KOG4483|consen 389 DLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDTHALAVFSSVNRAAEALT 445 (528)
T ss_pred cccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecceeEEeecchHHHHHHhh
Confidence 345788999999999999999999999852 34444433 89999999999999983
No 163
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=83.46 E-value=1.4 Score=41.99 Aligned_cols=63 Identities=17% Similarity=0.299 Sum_probs=49.0
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcC-CeeEEEEeC----------CeEEEEECCHHHHHHHHHhcCCcccC
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYG-RIRDVDMKR----------DFAFVEFSDPRDADDARYSLNGRDVD 70 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G-~V~~v~i~~----------~~afV~F~~~eda~~Ai~~lng~~l~ 70 (310)
..-+.|.|-+||+.+++++|.+.+..|- .|.+..+.. ..|||.|..++++......++|++|.
T Consensus 5 ~~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 5 EAKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred ccceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 4557899999999999999888777654 344444432 38899999999999988899998764
No 164
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=80.44 E-value=13 Score=30.13 Aligned_cols=72 Identities=14% Similarity=0.181 Sum_probs=54.0
Q ss_pred CCcEEEEccCCCC---CcHHHHHHHHHhcC-CeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 9 GGTRLYVGRLASR---TRSRDLEEIFSRYG-RIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 9 ~~~~l~V~nL~~~---~te~dL~~~F~~~G-~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
+...|.|...... .+...|.+++.+-| .++.+....+-..|.|.+.++-..|.+.|....-++..|.+.++.
T Consensus 34 edpavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~~~~~~irf~~~~~Ql~Ak~vL~~~L~~~y~VAlnl~p 109 (127)
T PRK10629 34 QESTLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPENDSLLIRFDSPEQSAAAKEVLDRTLPHGYIIAQQDDN 109 (127)
T ss_pred CCceEEEecCCCCCccchHHHHHHHHHHCCCCcceEEeeCCEEEEEECCHHHHHHHHHHHHHHcCCCCEEEEecCC
Confidence 3456777766333 46678899999988 678888888899999999999999988887555455566666554
No 165
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=79.39 E-value=1.4 Score=26.79 Aligned_cols=20 Identities=40% Similarity=1.114 Sum_probs=16.1
Q ss_pred CCCCccCCCCCCCCccCCCC
Q 021599 101 SGRCFNCGIDGHWARDCKAG 120 (310)
Q Consensus 101 ~~rc~~~G~~g~~~rdc~~~ 120 (310)
.-.|+.|+..|||..||+..
T Consensus 8 ~Y~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 8 GYVCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred CCEeecCCCCCccHhHCCCC
Confidence 44688899999999998873
No 166
>KOG4400 consensus E3 ubiquitin ligase interacting with arginine methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=78.92 E-value=1.6 Score=39.74 Aligned_cols=42 Identities=40% Similarity=0.978 Sum_probs=31.3
Q ss_pred CCCCccCCCCCCCC-ccCCCCC--CCcccccCCCCCcccccCCCC
Q 021599 101 SGRCFNCGIDGHWA-RDCKAGD--WKNKCYRCGERGHIERNCQNS 142 (310)
Q Consensus 101 ~~rc~~~G~~g~~~-rdc~~~~--~~~~~~~cg~~~h~~~~~~~~ 142 (310)
...||.|+..+|+. .++...+ +..+||.||+.+|+..+|+..
T Consensus 118 ~~~~~~c~~~gh~~~~~~~~~~~~~~~~Cy~Cg~~GH~s~~C~~~ 162 (261)
T KOG4400|consen 118 ETSCYSCGKTGHRGCPDADPVDGPKPAKCYSCGEQGHISDDCPEN 162 (261)
T ss_pred cceeeccCCCccccCcccccccCCCCCccCCCCcCCcchhhCCCC
Confidence 34578888888888 4444322 236799999999999999964
No 167
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=78.60 E-value=1.7 Score=27.10 Aligned_cols=20 Identities=40% Similarity=1.042 Sum_probs=12.3
Q ss_pred CCCccCCCCCCCCccCCCCC
Q 021599 102 GRCFNCGIDGHWARDCKAGD 121 (310)
Q Consensus 102 ~rc~~~G~~g~~~rdc~~~~ 121 (310)
+-|+.|++..||+.+|....
T Consensus 3 ~~CprC~kg~Hwa~~C~sk~ 22 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSKT 22 (36)
T ss_dssp -C-TTTSSSCS-TTT---TC
T ss_pred ccCcccCCCcchhhhhhhhh
Confidence 46999999999999998654
No 168
>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=78.11 E-value=4.1 Score=37.61 Aligned_cols=80 Identities=15% Similarity=0.286 Sum_probs=59.8
Q ss_pred CCCCCCCCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC---------------eEEEEECCHHHHHHH----H
Q 021599 1 MPRYDDRYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD---------------FAFVEFSDPRDADDA----R 61 (310)
Q Consensus 1 m~~~~~~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~---------------~afV~F~~~eda~~A----i 61 (310)
+|.=+|.+-+..|.+.||...++--.+...|.+||.|+.|.++.+ -..+-|-+.+.|... +
T Consensus 6 LPkGdD~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvL 85 (309)
T PF10567_consen 6 LPKGDDEYRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVL 85 (309)
T ss_pred cCCCCccceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHH
Confidence 577788888899999999999998888899999999999999754 467888887776553 2
Q ss_pred HhcCC--cccCCCceeeeecc
Q 021599 62 YSLNG--RDVDGSRIIVEFAR 80 (310)
Q Consensus 62 ~~lng--~~l~Gr~I~V~~ak 80 (310)
+.|.. +.|.-..|.|.|..
T Consensus 86 QrLsEfK~~L~S~~L~lsFV~ 106 (309)
T PF10567_consen 86 QRLSEFKTKLKSESLTLSFVS 106 (309)
T ss_pred HHHHHHHHhcCCcceeEEEEE
Confidence 23322 23556667666554
No 169
>PF03468 XS: XS domain; InterPro: IPR005380 The XS (rice gene X and SGS3) domain is found in a family of plant proteins including gene X Q9SBW2 from SWISSPROT and SGS3 Q9LDX1 from SWISSPROT. SGS3 is thought to be involved in post-transcriptional gene silencing (PTGS). This domain contains a conserved aspartate residue that may be functionally important. The XS domain containing proteins contain coiled-coils, which suggests that they will oligomerise. Most coiled-coil proteins form either a dimeric or a trimeric structure. It is possible that different members of the XS domain family could oligomerise via their coiled-coils forming a variety of complexes [].; PDB: 4E8U_C.
Probab=75.86 E-value=3 Score=33.29 Aligned_cols=50 Identities=14% Similarity=0.228 Sum_probs=26.3
Q ss_pred EEEEccCCCC---------CcHHHHHHHHHhcCCeeEEEEe-----CCeEEEEECC-HHHHHHHH
Q 021599 12 RLYVGRLASR---------TRSRDLEEIFSRYGRIRDVDMK-----RDFAFVEFSD-PRDADDAR 61 (310)
Q Consensus 12 ~l~V~nL~~~---------~te~dL~~~F~~~G~V~~v~i~-----~~~afV~F~~-~eda~~Ai 61 (310)
+++|.|++.. ++.++|.+.|..|..++-..+. .++++|+|.. ..-...|+
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 MGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPLYGKQGHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp EEEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEEEETTEEEEEEEEE--SSHHHHHHHH
T ss_pred EEEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEECcCCCCCcEEEEEEECCChHHHHHHH
Confidence 5677888543 3557899999999876543332 3499999984 45556665
No 170
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=75.60 E-value=7.9 Score=35.65 Aligned_cols=45 Identities=16% Similarity=0.251 Sum_probs=36.0
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCe-eEEEE--eCCeEEEEECCH
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRI-RDVDM--KRDFAFVEFSDP 54 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V-~~v~i--~~~~afV~F~~~ 54 (310)
.+-|||+||+.++.-.||+..+.+.+.+ ..+.+ +.+-||+.|.+.
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswkg~~~k~flh~~~~ 377 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWKGHFGKCFLHFGNR 377 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEeeecCCcceeEecCCc
Confidence 4679999999999999999999888754 34443 346899999874
No 171
>cd06405 PB1_Mekk2_3 The PB1 domain is present in the two mitogen-activated protein kinase kinases MEKK2 and MEKK3 which are two members of the signaling kinase cascade involved in angiogenesis and early cardiovascular development. The PB1 domain of MEKK2 (and/or MEKK3) interacts with the PB1 domain of another member of the kinase cascade Map2k5. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, f
Probab=74.13 E-value=32 Score=25.23 Aligned_cols=60 Identities=13% Similarity=0.241 Sum_probs=44.1
Q ss_pred cCCCCCcHHHHHHHH-HhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 17 RLASRTRSRDLEEIF-SRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 17 nL~~~~te~dL~~~F-~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
.++.-+.-+||.... ..||.-.++......-.|-..+++|..+||+.|+. ...-+-|+|-
T Consensus 15 ~f~RPvkf~dl~~kv~~afGq~mdl~ytn~eL~iPl~~Q~DLDkAie~ld~-s~~~ksLRil 75 (79)
T cd06405 15 QFPRPVKFKDLQQKVTTAFGQPMDLHYTNNELLIPLKNQEDLDRAIELLDR-SPHMKSLRIL 75 (79)
T ss_pred ecCCCccHHHHHHHHHHHhCCeeeEEEecccEEEeccCHHHHHHHHHHHcc-CccccceeEe
Confidence 356666777776544 57999988888887888999999999999998875 3333344443
No 172
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=72.31 E-value=1.9 Score=42.59 Aligned_cols=14 Identities=21% Similarity=0.420 Sum_probs=5.5
Q ss_pred eEEEEECCHHHHHH
Q 021599 46 FAFVEFSDPRDADD 59 (310)
Q Consensus 46 ~afV~F~~~eda~~ 59 (310)
|+++.-.+.++|.+
T Consensus 229 fv~mlkkdkeea~a 242 (653)
T KOG2548|consen 229 FVYMLKKDKEEAKA 242 (653)
T ss_pred HHHHhhhhHHHHHH
Confidence 33333344444433
No 173
>smart00343 ZnF_C2HC zinc finger.
Probab=68.76 E-value=2.9 Score=23.74 Aligned_cols=17 Identities=59% Similarity=1.466 Sum_probs=13.5
Q ss_pred CCccCCCCCCCCccCCC
Q 021599 103 RCFNCGIDGHWARDCKA 119 (310)
Q Consensus 103 rc~~~G~~g~~~rdc~~ 119 (310)
.|+.||..||+..+|+.
T Consensus 1 ~C~~CG~~GH~~~~C~~ 17 (26)
T smart00343 1 KCYNCGKEGHIARDCPK 17 (26)
T ss_pred CCccCCCCCcchhhCCc
Confidence 37888888888888873
No 174
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=68.64 E-value=17 Score=27.23 Aligned_cols=51 Identities=16% Similarity=0.328 Sum_probs=36.8
Q ss_pred EEccCCCCCcHHHHHHHHHh-cC-CeeEEEEe---CC--eEEEEECCHHHHHHHHHhc
Q 021599 14 YVGRLASRTRSRDLEEIFSR-YG-RIRDVDMK---RD--FAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 14 ~V~nL~~~~te~dL~~~F~~-~G-~V~~v~i~---~~--~afV~F~~~eda~~Ai~~l 64 (310)
|+-.++...+..+|++.++. || +|..|... .+ -|||+|...++|.+....|
T Consensus 24 y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 24 LTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPKGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred EEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCcEEEEEEeCCCCcHHHHHHhh
Confidence 33346678899999999987 66 56666553 23 8999999888877765443
No 175
>TIGR03636 L23_arch archaeal ribosomal protein L23. This model describes the archaeal ribosomal protein L23P and rigorously excludes the bacterial counterpart L23. In order to capture every known instance of archaeal L23P, the trusted cutoff is set lower than a few of the highest scoring eukaryotic cytosolic ribosomal counterparts.
Probab=68.64 E-value=19 Score=26.59 Aligned_cols=52 Identities=13% Similarity=0.290 Sum_probs=36.9
Q ss_pred EEEccCCCCCcHHHHHHHHHh-cC-CeeEEEEe---CC--eEEEEECCHHHHHHHHHhc
Q 021599 13 LYVGRLASRTRSRDLEEIFSR-YG-RIRDVDMK---RD--FAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~-~G-~V~~v~i~---~~--~afV~F~~~eda~~Ai~~l 64 (310)
-|+-.++...+..+|+..+++ || +|..|..+ .+ -|||++...+.|.+.-..|
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPRGEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCCCceEEEEEECCCCcHHHHHHhh
Confidence 444557788999999999987 56 56666543 22 8999998877777664443
No 176
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=68.27 E-value=21 Score=34.61 Aligned_cols=36 Identities=28% Similarity=0.438 Sum_probs=26.7
Q ss_pred CCCCcEEEEccCCCC-CcHHHHHHHHHhc----CCeeEEEE
Q 021599 7 RYGGTRLYVGRLASR-TRSRDLEEIFSRY----GRIRDVDM 42 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~-~te~dL~~~F~~~----G~V~~v~i 42 (310)
-.....|-|-||.|. +...+|..+|..| |.|..|.|
T Consensus 143 G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~i 183 (622)
T COG5638 143 GNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKI 183 (622)
T ss_pred CCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEe
Confidence 345678999999985 6778888888765 46666665
No 177
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=66.34 E-value=1.5 Score=43.60 Aligned_cols=63 Identities=14% Similarity=0.232 Sum_probs=49.9
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCC
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDG 71 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~G 71 (310)
..|.|||.||.++++-.+|..++..+--+..+.+-. .+++|+|.--.++..|+.+||++.+.-
T Consensus 230 ke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s 300 (648)
T KOG2295|consen 230 KECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRS 300 (648)
T ss_pred HHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhccccc
Confidence 357899999999999999999888776555554422 388899998888888888888876644
No 178
>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=64.84 E-value=38 Score=22.97 Aligned_cols=52 Identities=12% Similarity=0.180 Sum_probs=39.1
Q ss_pred EEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--CCeEEEEECCH----HHHHHHHHh
Q 021599 12 RLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--RDFAFVEFSDP----RDADDARYS 63 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--~~~afV~F~~~----eda~~Ai~~ 63 (310)
+|.|.||.-..-...|+..+...-.|..+.+. .+.+.|+|... +++..+|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLETKTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTTTEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCCCEEEEEEecCCCCHHHHHHHHHH
Confidence 57888888777788899999998878777664 46888888744 556666654
No 179
>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=64.55 E-value=22 Score=23.73 Aligned_cols=47 Identities=11% Similarity=0.177 Sum_probs=32.3
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHH
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRD 56 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~ed 56 (310)
+..+||.+.......++|.+++..+|......+....-+|.+.+.+.
T Consensus 1 ~~~~~i~g~~~~~~~~~l~~~i~~~Gg~v~~~~~~~~thvI~~~~~~ 47 (72)
T cd00027 1 GLTFVITGDLPSEERDELKELIEKLGGKVTSSVSKKTTHVIVGSDAG 47 (72)
T ss_pred CCEEEEEecCCCcCHHHHHHHHHHcCCEEeccccCCceEEEECCCCC
Confidence 35788888776788899999999999644444444455555555444
No 180
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=63.59 E-value=5.6 Score=35.58 Aligned_cols=35 Identities=11% Similarity=0.261 Sum_probs=29.7
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK 43 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~ 43 (310)
..-+||+-|||..++++.|..+..++|-+..+.+.
T Consensus 39 eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~~y~ 73 (261)
T KOG4008|consen 39 EKDCLFLVNVPLLSTEEHLKRFVSQLGHVQELLYN 73 (261)
T ss_pred cccceeeecccccccHHHHHHHHHHhhhhhheecc
Confidence 44689999999999999999999999977666553
No 181
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=62.04 E-value=1.3 Score=42.96 Aligned_cols=70 Identities=6% Similarity=-0.107 Sum_probs=52.9
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC---C-----eEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR---D-----FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~---~-----~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
.++.|+..|+..+++.+|..+|+-||.|..+++.. + .+||+... .++..+|..|--..+.|..+.|.++.
T Consensus 3 s~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~~r~~~~~ 80 (572)
T KOG4365|consen 3 SMKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQDRKAVSP 80 (572)
T ss_pred chhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhhhhhhcCc
Confidence 45678889999999999999999999998887742 2 66776654 45666776666566777777777765
No 182
>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=59.88 E-value=33 Score=25.92 Aligned_cols=40 Identities=15% Similarity=0.270 Sum_probs=29.9
Q ss_pred HHHHHHHHHhcC-CeeEEEEeCC----eEEEEECCHHHHHHHHHh
Q 021599 24 SRDLEEIFSRYG-RIRDVDMKRD----FAFVEFSDPRDADDARYS 63 (310)
Q Consensus 24 e~dL~~~F~~~G-~V~~v~i~~~----~afV~F~~~eda~~Ai~~ 63 (310)
++.++++++.+| +|+.+.+..| +..+++.+.+.|.++.-.
T Consensus 22 ~~a~~~~~e~~Gg~l~~~y~t~G~yD~v~i~eaPD~~~a~~~~l~ 66 (91)
T PF08734_consen 22 AEAVRALIEALGGKLKSFYWTLGEYDFVVIVEAPDDETAAAASLA 66 (91)
T ss_pred HHHHHHHHHHcCCEEEEEEEecCCCCEEEEEEcCCHHHHHHHHHH
Confidence 455778888887 7888888766 667888888877766533
No 183
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=57.24 E-value=3.7 Score=38.79 Aligned_cols=45 Identities=16% Similarity=0.181 Sum_probs=36.7
Q ss_pred cHHHHHHHHHhcCCeeEEEEe----CCeEEEEECCHHHHHHHHHhcCCc
Q 021599 23 RSRDLEEIFSRYGRIRDVDMK----RDFAFVEFSDPRDADDARYSLNGR 67 (310)
Q Consensus 23 te~dL~~~F~~~G~V~~v~i~----~~~afV~F~~~eda~~Ai~~lng~ 67 (310)
+...|.+++++.|+|..-.|. .+.+||.+..+++++++++.|.+.
T Consensus 274 ~~p~iF~~i~~~G~v~~~EM~rtFNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 274 PPPPIFKWLQKAGNVEREEMYRTFNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CCcHHHHHHHHhcCCCHHHHHHHhcCccceEEEEcHHHHHHHHHHHHhc
Confidence 357889999999988765553 368899999999999999988765
No 184
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=55.84 E-value=47 Score=25.44 Aligned_cols=49 Identities=12% Similarity=0.241 Sum_probs=29.3
Q ss_pred EEEEccCCCCCcHHHHHHHHH-------hcC-CeeEEEEe---------C----C-eEEEEECCHHHHHHHHH
Q 021599 12 RLYVGRLASRTRSRDLEEIFS-------RYG-RIRDVDMK---------R----D-FAFVEFSDPRDADDARY 62 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~-------~~G-~V~~v~i~---------~----~-~afV~F~~~eda~~Ai~ 62 (310)
++|| |.++++++++.+++. ..| +|..+... + | |.++.|....++...|+
T Consensus 10 ~~~I--l~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~ele 80 (97)
T CHL00123 10 TMYL--LKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLE 80 (97)
T ss_pred EEEE--ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHH
Confidence 4444 455666666555444 444 66665531 1 1 78889997777777765
No 185
>PRK11901 hypothetical protein; Reviewed
Probab=53.77 E-value=37 Score=31.94 Aligned_cols=57 Identities=14% Similarity=0.203 Sum_probs=37.8
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEE----eCC---eEEE--EECCHHHHHHHHHhcCCcc
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDM----KRD---FAFV--EFSDPRDADDARYSLNGRD 68 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i----~~~---~afV--~F~~~eda~~Ai~~lng~~ 68 (310)
...++|.|..+ ..++.|..|..+++. ..+.| ..| |.+| +|.+.++|..||..|-...
T Consensus 243 ~~~YTLQL~Aa---s~~~~L~~f~~~~~L-~~~~VYqT~RnGkpWYVVvyG~Y~Sr~eAk~Ai~sLPa~l 308 (327)
T PRK11901 243 ASHYTLQLSSA---SRSDTLNAYAKKQNL-SHYHVYETKRDGKPWYVLVSGNYASSAEAKRAIATLPAEV 308 (327)
T ss_pred CCCeEEEeecC---CCHHHHHHHHHHcCc-CceEEEEEEECCceEEEEEecCcCCHHHHHHHHHhCCHHH
Confidence 34567777665 357888888887762 22332 223 4443 7899999999999887543
No 186
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=53.18 E-value=15 Score=31.85 Aligned_cols=37 Identities=27% Similarity=0.472 Sum_probs=32.4
Q ss_pred CCCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe
Q 021599 7 RYGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK 43 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~ 43 (310)
......+++.+++..++..++..+|..+|.|..+.+.
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 258 (306)
T COG0724 222 LEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLP 258 (306)
T ss_pred ccccceeeccccccccchhHHHHhccccccceeeecc
Confidence 3567889999999999999999999999999777664
No 187
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=52.47 E-value=38 Score=28.13 Aligned_cols=47 Identities=19% Similarity=0.299 Sum_probs=31.7
Q ss_pred EccCCCCCcHHHHHHHHHh-cC-CeeEEEEe---CC--eEEEEECCHHHHHHHH
Q 021599 15 VGRLASRTRSRDLEEIFSR-YG-RIRDVDMK---RD--FAFVEFSDPRDADDAR 61 (310)
Q Consensus 15 V~nL~~~~te~dL~~~F~~-~G-~V~~v~i~---~~--~afV~F~~~eda~~Ai 61 (310)
|--++...+..+|++.+++ |+ +|..|..+ .+ -|||.+....+|.+..
T Consensus 86 vF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~g~KKA~V~L~~~~~aidva 139 (145)
T PTZ00191 86 VFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPDGLKKAYIRLSPDVDALDVA 139 (145)
T ss_pred EEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCCCceEEEEEECCCCcHHHHH
Confidence 3346678899999999987 55 45555443 23 8999998766654443
No 188
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=52.09 E-value=1e+02 Score=23.79 Aligned_cols=57 Identities=11% Similarity=0.228 Sum_probs=42.0
Q ss_pred cEEEEccCCCCC---cHHHHHHHHHhcC-CeeEEEEeCCeEEEEECCHHHHHHHHHhcCCc
Q 021599 11 TRLYVGRLASRT---RSRDLEEIFSRYG-RIRDVDMKRDFAFVEFSDPRDADDARYSLNGR 67 (310)
Q Consensus 11 ~~l~V~nL~~~~---te~dL~~~F~~~G-~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~ 67 (310)
-.|.|......+ +.++|..++.+-| .++.+....+.-.|.|.+.++-..|.+.|...
T Consensus 32 pAvqIs~~~~~~~~~~~~~v~~~L~~~~I~~k~i~~~~~~llirf~~~~~Ql~Ak~~L~~~ 92 (101)
T PF13721_consen 32 PAVQISASSAGVQLPDAFQVEQALKAAGIAVKSIEQEGDSLLIRFDSTDQQLKAKDVLSKA 92 (101)
T ss_pred CcEEEecCCCCccCChHHHHHHHHHHCCCCcceEEeeCCEEEEEECCHHHHHHHHHHHHHH
Confidence 456666543222 2357899999988 67788887889999999999988888777643
No 189
>KOG2146 consensus Splicing coactivator SRm160/300, subunit SRm160 (contains PWI domain) [RNA processing and modification; General function prediction only]
Probab=51.58 E-value=1.2e+02 Score=28.17 Aligned_cols=32 Identities=13% Similarity=0.280 Sum_probs=15.4
Q ss_pred EEEECCHHHHHHHHHhcCC-cccCCCceeeeec
Q 021599 48 FVEFSDPRDADDARYSLNG-RDVDGSRIIVEFA 79 (310)
Q Consensus 48 fV~F~~~eda~~Ai~~lng-~~l~Gr~I~V~~a 79 (310)
+|-|++..-++-++..|.. ..++-+.|.|.+.
T Consensus 56 ilgfEDdVViefvynqLee~k~ldpkkmQiNlT 88 (354)
T KOG2146|consen 56 ILGFEDDVVIEFVYNQLEEAKNLDPKKMQINLT 88 (354)
T ss_pred hhccccchhHHHHHHHHhhhcCCCchheeeeee
Confidence 4455554444444444444 4444455555443
No 190
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=51.54 E-value=31 Score=25.06 Aligned_cols=38 Identities=16% Similarity=0.352 Sum_probs=28.2
Q ss_pred HHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcc
Q 021599 30 IFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRD 68 (310)
Q Consensus 30 ~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~ 68 (310)
-+.+||.|.++.=...|+++ |.+.++++..++.|....
T Consensus 16 ~L~kfG~i~Y~Skk~kYvvl-Yvn~~~~e~~~~kl~~l~ 53 (71)
T PF09902_consen 16 QLRKFGDIHYVSKKMKYVVL-YVNEEDVEEIIEKLKKLK 53 (71)
T ss_pred hHhhcccEEEEECCccEEEE-EECHHHHHHHHHHHhcCC
Confidence 46789999998765556654 677888888888776543
No 191
>cd04904 ACT_AAAH 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. PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe; TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines; and TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxy
Probab=48.48 E-value=97 Score=22.06 Aligned_cols=45 Identities=22% Similarity=0.376 Sum_probs=27.8
Q ss_pred CcHHHHHHHHHhcC-CeeEEEEe--C----C-eEEEEEC-CHHHHHHHHHhcCC
Q 021599 22 TRSRDLEEIFSRYG-RIRDVDMK--R----D-FAFVEFS-DPRDADDARYSLNG 66 (310)
Q Consensus 22 ~te~dL~~~F~~~G-~V~~v~i~--~----~-~afV~F~-~~eda~~Ai~~lng 66 (310)
..-.++.+.|..+| .++.|.-- + . +-||+|. ..++++.||+.|..
T Consensus 12 G~L~~vL~~f~~~~iNlt~IeSRP~~~~~~~y~Ffvd~~~~~~~~~~~l~~L~~ 65 (74)
T cd04904 12 GALARALKLFEEFGVNLTHIESRPSRRNGSEYEFFVDCEVDRGDLDQLISSLRR 65 (74)
T ss_pred cHHHHHHHHHHHCCCcEEEEECCCCCCCCceEEEEEEEEcChHHHHHHHHHHHH
Confidence 34567778888888 55665431 1 1 4467776 55566777777653
No 192
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=48.41 E-value=36 Score=32.14 Aligned_cols=6 Identities=50% Similarity=1.010 Sum_probs=2.8
Q ss_pred EEEEEC
Q 021599 47 AFVEFS 52 (310)
Q Consensus 47 afV~F~ 52 (310)
.||-|.
T Consensus 176 v~vry~ 181 (367)
T KOG0835|consen 176 VFVRYS 181 (367)
T ss_pred eeeecC
Confidence 444444
No 193
>PF09180 ProRS-C_1: Prolyl-tRNA synthetase, C-terminal; InterPro: IPR016061 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Prolyl tRNA synthetase (6.1.1.15 from EC) exists in two forms, which are loosely related. The first form is present in the majority of eubacteria species. The second one, present in some eubacteria, is essentially present in archaea and eukaryota. Prolyl-tRNA synthetase belongs to class IIa. This domain is found at the C-terminal in archaeal and eukaryotic enzymes, as well as in certain bacterial ones.; GO: 0000166 nucleotide binding, 0004827 proline-tRNA ligase activity, 0005524 ATP binding, 0006433 prolyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1NJ6_A 1NJ2_A 1NJ5_A 1NJ1_A 1H4T_C 1H4S_A 1HC7_C 1H4Q_B 3IAL_B.
Probab=48.04 E-value=24 Score=25.21 Aligned_cols=38 Identities=13% Similarity=0.328 Sum_probs=25.2
Q ss_pred HHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCC
Q 021599 25 RDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGS 72 (310)
Q Consensus 25 ~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr 72 (310)
++|++.+ .-| +|+.|-|...++++..|+.+-|..+.+.
T Consensus 2 eE~k~~i-~~g---------g~v~~pwcg~~ece~~ike~t~at~rci 39 (68)
T PF09180_consen 2 EEFKEAI-EKG---------GFVLVPWCGDEECEEKIKEETGATIRCI 39 (68)
T ss_dssp HHHHHHH-HTS---------SEEEEEES-SHHHHHHHHHHHS-EEEEE
T ss_pred hHHHHHH-hCC---------CEEEEEccCCHHHHHHHHHhcCCcEeEe
Confidence 5667666 433 4777888888999999987766554443
No 194
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=47.84 E-value=25 Score=25.40 Aligned_cols=53 Identities=21% Similarity=0.291 Sum_probs=35.6
Q ss_pred HHHHHHHHhcC-CeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 25 RDLEEIFSRYG-RIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 25 ~dL~~~F~~~G-~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
.+|++.|...| +|.+|..+. +.-||+.....+... .|+=..|+|..|.|+-..
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 46788888999 677776543 256777766544444 345567888888888643
No 195
>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=47.79 E-value=91 Score=21.54 Aligned_cols=41 Identities=7% Similarity=0.045 Sum_probs=34.4
Q ss_pred cHHHHHHHHHhcCCeeEEEEeCC----eEEEEECCHHHHHHHHHh
Q 021599 23 RSRDLEEIFSRYGRIRDVDMKRD----FAFVEFSDPRDADDARYS 63 (310)
Q Consensus 23 te~dL~~~F~~~G~V~~v~i~~~----~afV~F~~~eda~~Ai~~ 63 (310)
..+++.+++..+-+|.+|....| ...|.+.+.+++...+..
T Consensus 11 ~~~~~~~~l~~~p~V~~~~~vtG~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 11 AYDEFAEALAEIPEVVECYSVTGEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHHHHHTSTTEEEEEEESSSSSEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCEEEEEEEeCCCCEEEEEEECCHHHHHHHHHH
Confidence 46778888999999999998877 778899999999988543
No 196
>TIGR01033 DNA-binding regulatory protein, YebC/PmpR family. This model describes a minimally characterized protein family, restricted to bacteria excepting for some eukaryotic sequences that have possible transit peptides. YebC from E. coli is crystallized, and PA0964 from Pseudomonas aeruginosa has been shown to be a sequence-specific DNA-binding regulatory protein.
Probab=46.94 E-value=72 Score=28.74 Aligned_cols=45 Identities=18% Similarity=0.307 Sum_probs=31.8
Q ss_pred CCCcEEEEccCCCCC--cHHHHHHHHHhcCCee----EEE-EeCCeEEEEEC
Q 021599 8 YGGTRLYVGRLASRT--RSRDLEEIFSRYGRIR----DVD-MKRDFAFVEFS 52 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~--te~dL~~~F~~~G~V~----~v~-i~~~~afV~F~ 52 (310)
+.+..|+|.-|..+. +..+|+.+|.++|-.. .|. ++...|+|+|.
T Consensus 92 P~GvaiiVe~lTDN~nRt~~~ir~~f~K~gg~l~~~gsv~~~Fe~kG~i~~~ 143 (238)
T TIGR01033 92 PGGVAIIVECLTDNKNRTASEVRSAFNKNGGSLGEPGSVSYLFSRKGVIEVP 143 (238)
T ss_pred CCceEEEEEEecCCHHhHHHHHHHHHHHcCCeeCCCCceeeeeecceEEEEC
Confidence 456788888887765 6789999999987422 132 33447888885
No 197
>PF14392 zf-CCHC_4: Zinc knuckle
Probab=46.57 E-value=8.4 Score=25.59 Aligned_cols=17 Identities=41% Similarity=1.032 Sum_probs=15.0
Q ss_pred CCCccCCCCCCCCccCC
Q 021599 102 GRCFNCGIDGHWARDCK 118 (310)
Q Consensus 102 ~rc~~~G~~g~~~rdc~ 118 (310)
.-|+.||..||...+|+
T Consensus 32 ~~C~~C~~~gH~~~~C~ 48 (49)
T PF14392_consen 32 RFCFHCGRIGHSDKECP 48 (49)
T ss_pred hhhcCCCCcCcCHhHcC
Confidence 45999999999999886
No 198
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=44.97 E-value=7.9 Score=31.63 Aligned_cols=67 Identities=16% Similarity=0.258 Sum_probs=44.4
Q ss_pred EEEccC-C-CCCcHHHHHHHHHh----cCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 13 LYVGRL-A-SRTRSRDLEEIFSR----YGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 13 l~V~nL-~-~~~te~dL~~~F~~----~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
..|+.+ . ..++...|...+.+ .|.+.-..+..++..+.|.+.+++..++. .....|++..|.++.-.
T Consensus 18 ~lVg~~l~~~~~~~~~l~~~l~~~W~~~~~~~i~~l~~~~fl~~F~~~~d~~~vl~-~~p~~~~~~~~~l~~W~ 90 (153)
T PF14111_consen 18 CLVGRVLSPKPISLSALEQELAKIWKLKGGVKIRDLGDNLFLFQFESEEDRQRVLK-GGPWNFNGHFLILQRWS 90 (153)
T ss_pred EEEEEECCCCCCCHHHHHHHHHHHhCCCCcEEEEEeCCCeEEEEEEeccceeEEEe-cccccccccchhhhhhc
Confidence 344544 2 23566667666654 34566666677899999999999999884 44566777666665443
No 199
>PRK02886 hypothetical protein; Provisional
Probab=43.80 E-value=46 Score=25.18 Aligned_cols=51 Identities=16% Similarity=0.377 Sum_probs=33.6
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRD 68 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~ 68 (310)
+-.||+-+|- ++ ..+.+||.|.++.=...|+++ |.+.++++..++.|....
T Consensus 7 glIVyl~~~k------~~-r~LrkyG~I~Y~Skr~kYvvl-Yvn~~~~e~~~~kl~~l~ 57 (87)
T PRK02886 7 GIIVWLHSLK------QA-KQLRKFGNVHYVSKRLKYAVL-YCDMEQVEDIMNKLSSLP 57 (87)
T ss_pred EEEEEEeecH------hH-HHHhhcCcEEEEeccccEEEE-EECHHHHHHHHHHHhcCC
Confidence 3456665442 22 335789999998655556654 677888888888776543
No 200
>KOG4840 consensus Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=43.73 E-value=85 Score=28.37 Aligned_cols=62 Identities=8% Similarity=0.126 Sum_probs=36.3
Q ss_pred CcEEEEccCCCCC----cHHHHHHHHHhcC-CeeEEEEe---CCeEEEEE-CCHHHHHHHHHhcCCcccCC
Q 021599 10 GTRLYVGRLASRT----RSRDLEEIFSRYG-RIRDVDMK---RDFAFVEF-SDPRDADDARYSLNGRDVDG 71 (310)
Q Consensus 10 ~~~l~V~nL~~~~----te~dL~~~F~~~G-~V~~v~i~---~~~afV~F-~~~eda~~Ai~~lng~~l~G 71 (310)
...||||+|...+ -.+.|..++-+.+ .|+.+.+- .||+.-.. .+.++.+.+|+++.+..+--
T Consensus 37 ~~vvfiGGLgdgLl~~~y~~~L~~~lde~~wslVq~q~~Ssy~G~Gt~slk~D~edl~~l~~Hi~~~~fSt 107 (299)
T KOG4840|consen 37 VKVVFIGGLGDGLLICLYTTMLNRYLDENSWSLVQPQLRSSYNGYGTFSLKDDVEDLKCLLEHIQLCGFST 107 (299)
T ss_pred EEEEEEcccCCCccccccHHHHHHHHhhccceeeeeeccccccccccccccccHHHHHHHHHHhhccCccc
Confidence 4579999997654 2345555554444 44444442 23553333 36778888888776665443
No 201
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=43.47 E-value=28 Score=24.52 Aligned_cols=18 Identities=22% Similarity=0.497 Sum_probs=15.1
Q ss_pred HHHHHHHHhcCCeeEEEE
Q 021599 25 RDLEEIFSRYGRIRDVDM 42 (310)
Q Consensus 25 ~dL~~~F~~~G~V~~v~i 42 (310)
++|+++|+..|+|.-+.|
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 679999999999876654
No 202
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=42.94 E-value=48 Score=31.50 Aligned_cols=52 Identities=15% Similarity=-0.001 Sum_probs=37.7
Q ss_pred cHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCce
Q 021599 23 RSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRI 74 (310)
Q Consensus 23 te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I 74 (310)
+-++|.++|..---|..+..-..--||.|.++.+++.-|..++|..+.|..|
T Consensus 263 ~Y~~Le~HF~~~hy~ct~qtc~~~k~~vf~~~~el~~h~~~~h~~~~~~~~~ 314 (493)
T COG5236 263 SYEDLEAHFRNAHYCCTFQTCRVGKCYVFPYHTELLEHLTRFHKVNARLSEI 314 (493)
T ss_pred CHHHHHHHhhcCceEEEEEEEecCcEEEeccHHHHHHHHHHHhhcccccCcC
Confidence 3467778887766555555555566889999999999888888877766554
No 203
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=42.73 E-value=86 Score=22.32 Aligned_cols=44 Identities=20% Similarity=0.290 Sum_probs=34.4
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe--CCeEEEEECC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK--RDFAFVEFSD 53 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~--~~~afV~F~~ 53 (310)
..+|+|.++.-..-...+...+.....|..+.+. .+.++|+|.+
T Consensus 3 ~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~~~~~V~~d~ 48 (71)
T COG2608 3 KTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEKGTATVTFDS 48 (71)
T ss_pred eEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcccCeEEEEEcC
Confidence 3578888888776777889999888877776664 4569999998
No 204
>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=42.23 E-value=75 Score=24.81 Aligned_cols=39 Identities=23% Similarity=0.448 Sum_probs=27.3
Q ss_pred HHHHHHHhcCCeeEEEEe-----CC------------------eEEEEECCHHHHHHHHHhc
Q 021599 26 DLEEIFSRYGRIRDVDMK-----RD------------------FAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 26 dL~~~F~~~G~V~~v~i~-----~~------------------~afV~F~~~eda~~Ai~~l 64 (310)
..-.+|..||.+..+... .| |.+|+|.+.+....+..+|
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 345789999987666541 11 9999999998888876543
No 205
>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=42.11 E-value=41 Score=24.06 Aligned_cols=53 Identities=21% Similarity=0.391 Sum_probs=35.2
Q ss_pred HHHHHHHHhcC-CeeEEEEeC--------CeEEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 25 RDLEEIFSRYG-RIRDVDMKR--------DFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 25 ~dL~~~F~~~G-~V~~v~i~~--------~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
++|.+.|...| +|.+|.-+. ..-||+++...+... .|+=..|.+..|+|+...
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 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKE---IYKIKTLCGQRVKVERPR 63 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccc---eeehHhhCCeEEEEecCC
Confidence 46788888888 677765432 267888777655333 344467788888888654
No 206
>PF14893 PNMA: PNMA
Probab=41.70 E-value=25 Score=33.38 Aligned_cols=49 Identities=18% Similarity=0.243 Sum_probs=31.6
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHh-cCCeeEEEEe-----C----CeEEEEECCHHH
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSR-YGRIRDVDMK-----R----DFAFVEFSDPRD 56 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~-~G~V~~v~i~-----~----~~afV~F~~~ed 56 (310)
+.-..|.|.+||.++++++|++.+.. +-.+-...|. + ..|+|+|...-+
T Consensus 16 ~~~r~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~~~~~~aalve~~e~~n 74 (331)
T PF14893_consen 16 DPQRALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRREENAKAALVEFAEDVN 74 (331)
T ss_pred ChhhhheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhhhcccceeeeecccccc
Confidence 44567899999999999999887764 2222222221 1 267888876433
No 207
>PRK00110 hypothetical protein; Validated
Probab=41.62 E-value=93 Score=28.18 Aligned_cols=45 Identities=20% Similarity=0.342 Sum_probs=31.6
Q ss_pred CCCcEEEEccCCCCC--cHHHHHHHHHhcCC-ee---EEE-EeCCeEEEEEC
Q 021599 8 YGGTRLYVGRLASRT--RSRDLEEIFSRYGR-IR---DVD-MKRDFAFVEFS 52 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~--te~dL~~~F~~~G~-V~---~v~-i~~~~afV~F~ 52 (310)
+.+..|+|.-|..+. |..+|+.+|.++|- +. .|. ++...|+|+|.
T Consensus 92 P~GvaiiVe~lTDN~nRt~~~vR~~f~K~gG~l~~~Gsv~~~Fe~kG~i~~~ 143 (245)
T PRK00110 92 PGGVAIIVEALTDNRNRTAAEVRHAFSKNGGNLGETGSVSYMFDRKGVIVIE 143 (245)
T ss_pred CCCeEEEEEEecCCHHHHHHHHHHHHHhcCceeCCCcceEEEeccceEEEeC
Confidence 456788888887765 67899999999864 31 232 34447888886
No 208
>PRK02302 hypothetical protein; Provisional
Probab=41.53 E-value=52 Score=25.01 Aligned_cols=38 Identities=16% Similarity=0.306 Sum_probs=27.8
Q ss_pred HHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcc
Q 021599 30 IFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRD 68 (310)
Q Consensus 30 ~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~ 68 (310)
-+.+||.|.++.=...|+++ |.+.++++..+++|....
T Consensus 22 ~LrkfG~I~Y~Skk~kYvvl-Yvn~~~~e~~~~kl~~l~ 59 (89)
T PRK02302 22 KLSKYGDIVYHSKRSRYLVL-YVNKEDVEQKLEELSKLK 59 (89)
T ss_pred HHhhcCcEEEEeccccEEEE-EECHHHHHHHHHHHhcCC
Confidence 35789999998655556654 777888888888776543
No 209
>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=39.10 E-value=48 Score=25.28 Aligned_cols=48 Identities=15% Similarity=0.228 Sum_probs=31.7
Q ss_pred CCCCCcHHHHHHHHHhcCC-eeEEEEeCC----eEEEEECCHHHHHHHHHhcC
Q 021599 18 LASRTRSRDLEEIFSRYGR-IRDVDMKRD----FAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 18 L~~~~te~dL~~~F~~~G~-V~~v~i~~~----~afV~F~~~eda~~Ai~~ln 65 (310)
+.+.+++..|..-|-.-|. -+-..+-++ +|.|+|.+.+.+..|.+.|-
T Consensus 20 ~~p~l~~~~i~~Q~~~~gkk~~pp~lRkD~W~pm~vv~f~~~~~g~~~yq~Lr 72 (91)
T PF12829_consen 20 QTPNLDNNQILKQFPFPGKKNKPPSLRKDYWRPMCVVNFPNYEVGVSAYQKLR 72 (91)
T ss_pred cCcccChhHHHHhccCCCcccCCchhccccceEeEEEECCChHHHHHHHHHHH
Confidence 4456666666665655553 233333333 99999999999999887663
No 210
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=38.84 E-value=1.4e+02 Score=23.52 Aligned_cols=71 Identities=15% Similarity=0.232 Sum_probs=42.9
Q ss_pred CCeeEEEEeCC-eEEEEECCHHHHHHHHHhc-CCcccCCCceeeeeccCCCCCCCCCCCccCCCCCCCCCCCccCCCCCC
Q 021599 35 GRIRDVDMKRD-FAFVEFSDPRDADDARYSL-NGRDVDGSRIIVEFARGGPRGPGGSREYLGRGPPPGSGRCFNCGIDGH 112 (310)
Q Consensus 35 G~V~~v~i~~~-~afV~F~~~eda~~Ai~~l-ng~~l~Gr~I~V~~ak~~~~~~~g~~~~~grg~~~~~~rc~~~G~~g~ 112 (310)
.+|..|.|.-| +.-| +++.++.|++.+ .|+.+.|..|.|+..... ..|..||....
T Consensus 24 ~~V~~V~l~iG~ls~V---~p~~L~faf~~~~~~t~~ega~L~I~~~p~~-------------------~~C~~Cg~~~~ 81 (115)
T TIGR00100 24 KKVTRVTLEIGELSCV---NPSQLQFAFEVVREGTVAEGAKLNIEDEPVE-------------------CECEDCSEEVS 81 (115)
T ss_pred CeEEEEEEEEcccccc---CHHHHHHHHHHHhCCCccCCCEEEEEeeCcE-------------------EEcccCCCEEe
Confidence 46777777543 4444 455566665533 477888999998876533 45888874332
Q ss_pred CCccCCCCCCCcccccCCCCC
Q 021599 113 WARDCKAGDWKNKCYRCGERG 133 (310)
Q Consensus 113 ~~rdc~~~~~~~~~~~cg~~~ 133 (310)
.. .....|..||...
T Consensus 82 ~~------~~~~~CP~Cgs~~ 96 (115)
T TIGR00100 82 PE------IDLYRCPKCHGIM 96 (115)
T ss_pred cC------CcCccCcCCcCCC
Confidence 21 1134577777654
No 211
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=38.00 E-value=1.3e+02 Score=23.75 Aligned_cols=43 Identities=12% Similarity=0.183 Sum_probs=28.6
Q ss_pred CeeEEEEeCC-eEEEEECCHHHHHHHHHhc-CCcccCCCceeeeeccC
Q 021599 36 RIRDVDMKRD-FAFVEFSDPRDADDARYSL-NGRDVDGSRIIVEFARG 81 (310)
Q Consensus 36 ~V~~v~i~~~-~afV~F~~~eda~~Ai~~l-ng~~l~Gr~I~V~~ak~ 81 (310)
.|..|.|.-| ++-| .++..+.|++.+ .|+.+.|..|.|+....
T Consensus 25 rV~~V~l~iG~ls~v---~pe~L~f~f~~~~~~T~~egA~L~I~~vp~ 69 (113)
T PRK12380 25 RVTAVWLEIGALSCV---EESAVRFSFEIVCHGTVAQGCDLHIVYKPA 69 (113)
T ss_pred eEEEEEEEEcCcccc---CHHHHHHHHHHHhCCCccCCCEEEEEeeCc
Confidence 6777777543 3333 455566665533 57889999999988764
No 212
>KOG3116 consensus Predicted C3H1-type Zn-finger protein [General function prediction only]
Probab=37.77 E-value=7.9 Score=32.12 Aligned_cols=21 Identities=43% Similarity=1.004 Sum_probs=18.2
Q ss_pred CCCCccCCCCCCCCccCCCCC
Q 021599 101 SGRCFNCGIDGHWARDCKAGD 121 (310)
Q Consensus 101 ~~rc~~~G~~g~~~rdc~~~~ 121 (310)
..+|..|...|||..+|.+..
T Consensus 27 ~~rCQKClq~GHWtYECk~kR 47 (177)
T KOG3116|consen 27 SARCQKCLQAGHWTYECKNKR 47 (177)
T ss_pred chhHHHHHhhccceeeecCce
Confidence 457999999999999999764
No 213
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=37.36 E-value=1e+02 Score=24.16 Aligned_cols=38 Identities=13% Similarity=0.115 Sum_probs=24.3
Q ss_pred HHHHHHHHHhcCCeeEEEEeC---C--eEEEEECCHHHHHHHH
Q 021599 24 SRDLEEIFSRYGRIRDVDMKR---D--FAFVEFSDPRDADDAR 61 (310)
Q Consensus 24 e~dL~~~F~~~G~V~~v~i~~---~--~afV~F~~~eda~~Ai 61 (310)
|.+|.+++.++|.-.+--++. + ||++++.+.+....+|
T Consensus 26 WPE~~a~lk~agi~nYSIfLde~~n~lFgy~E~~d~~a~m~~~ 68 (105)
T COG3254 26 WPELLALLKEAGIRNYSIFLDEEENLLFGYWEYEDFEADMAKM 68 (105)
T ss_pred cHHHHHHHHHcCCceeEEEecCCcccEEEEEEEcChHHHHHHH
Confidence 457888899988544332222 2 9999999655544444
No 214
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=37.36 E-value=1.6e+02 Score=23.44 Aligned_cols=53 Identities=19% Similarity=0.231 Sum_probs=36.4
Q ss_pred HHHHHHhcC--CeeEEEEeCCeEEEEECCHHHHHHHHHh-cCCcccCCCceeeeeccC
Q 021599 27 LEEIFSRYG--RIRDVDMKRDFAFVEFSDPRDADDARYS-LNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 27 L~~~F~~~G--~V~~v~i~~~~afV~F~~~eda~~Ai~~-lng~~l~Gr~I~V~~ak~ 81 (310)
+.+++.+.| +|+.|.|. .|-...-+++...-|++. ..|+.+.|..|.|++...
T Consensus 14 i~~~A~~~~a~~V~~V~l~--IG~ls~v~~~~l~FaFev~~egT~aega~l~Ie~~p~ 69 (115)
T COG0375 14 IEEQAEKHGAKRVTAVWLE--IGELSCVEPEALRFAFEVVAEGTIAEGAELHIEEEPA 69 (115)
T ss_pred HHHHHHHcCCceEEEEEEE--EcceeccCHHHHHHHHHHHhccCcccCCEEEEEEecc
Confidence 456666666 46666664 344455567777878774 468888999999988764
No 215
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=37.14 E-value=1.6e+02 Score=21.40 Aligned_cols=56 Identities=11% Similarity=0.157 Sum_probs=35.7
Q ss_pred EEEccCCCCCcHHHHHHHHHh-------cCCeeEEEE--e--CC--eEEEEECCHHHHHHHHHhcCCccc
Q 021599 13 LYVGRLASRTRSRDLEEIFSR-------YGRIRDVDM--K--RD--FAFVEFSDPRDADDARYSLNGRDV 69 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~-------~G~V~~v~i--~--~~--~afV~F~~~eda~~Ai~~lng~~l 69 (310)
|...+||..++.++|.++..+ +..|.++.. . .+ ||+.+=.+++.+.++-+. .|..+
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~d~~k~~Cly~Ap~~eaV~~~~~~-aG~p~ 71 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSEDDGKIFCLYEAPDEEAVREHARR-AGLPA 71 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEecCCCeEEEEEECCCHHHHHHHHHH-cCCCc
Confidence 556788888999998876653 334444432 2 23 777777788877777644 35443
No 216
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=37.03 E-value=1.6e+02 Score=23.59 Aligned_cols=44 Identities=14% Similarity=0.217 Sum_probs=28.7
Q ss_pred CCeeEEEEeCC-eEEEEECCHHHHHHHHH-hcCCcccCCCceeeeeccC
Q 021599 35 GRIRDVDMKRD-FAFVEFSDPRDADDARY-SLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 35 G~V~~v~i~~~-~afV~F~~~eda~~Ai~-~lng~~l~Gr~I~V~~ak~ 81 (310)
..|..|.|.-| +.-|+ ++.++.|++ ...|+.+.|..|.|+....
T Consensus 24 ~rV~~V~l~IG~ls~V~---pe~L~faf~~~~~gT~~egA~L~I~~vp~ 69 (124)
T PRK00762 24 TEVTEVTLEIGRLTMLN---PEQLRFMLDVLAEGTIAEDADLIVEMIPV 69 (124)
T ss_pred CeEEEEEEEECCccccC---HHHHHHHHHHHhCCCCcCCCEEEEEecCe
Confidence 36777777544 45554 444555544 2367888999999988763
No 217
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=35.10 E-value=8.7 Score=34.12 Aligned_cols=61 Identities=26% Similarity=0.349 Sum_probs=42.4
Q ss_pred CCcEEEEcc----CCCCCcHHHHHHHHHhcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhcCCccc
Q 021599 9 GGTRLYVGR----LASRTRSRDLEEIFSRYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSLNGRDV 69 (310)
Q Consensus 9 ~~~~l~V~n----L~~~~te~dL~~~F~~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~lng~~l 69 (310)
...+++.|+ |...++++.+...|...|.|..+.+.. +++||++.-....-.++..+++..+
T Consensus 79 ~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~~~~qr~~~~P~~~~~y~~l~~ 150 (267)
T KOG4454|consen 79 EQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGFVTYQRLCAVPFALDLYQGLEL 150 (267)
T ss_pred hhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccccCCccCccchhhhhhhcCcHHhhhhcccCc
Confidence 345566666 666777777788888888777766642 3888888877777777766665544
No 218
>PRK12378 hypothetical protein; Provisional
Probab=34.76 E-value=1.1e+02 Score=27.44 Aligned_cols=45 Identities=18% Similarity=0.262 Sum_probs=30.8
Q ss_pred CCCcEEEEccCCCCC--cHHHHHHHHHhcCC-ee---EEE-EeCCeEEEEEC
Q 021599 8 YGGTRLYVGRLASRT--RSRDLEEIFSRYGR-IR---DVD-MKRDFAFVEFS 52 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~--te~dL~~~F~~~G~-V~---~v~-i~~~~afV~F~ 52 (310)
+.+..|+|.-|..+. |..+|+.+|.++|- +. .|. ++.-.|+|+|.
T Consensus 89 PgGvaiiVe~lTDN~nRt~~~vr~~f~K~gg~l~~~gsv~~~Fe~kG~i~i~ 140 (235)
T PRK12378 89 PNGVMVIVECLTDNVNRTVANVRSAFNKNGGNLGTSGSVAFMFDHKGVFVFE 140 (235)
T ss_pred CCCcEEEEEECCCCHHHHHHHHHHHHhhcCCeECCCCceeeeeecceEEEeC
Confidence 457888899888766 67899999999864 31 132 33336666664
No 219
>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=34.76 E-value=17 Score=25.52 Aligned_cols=57 Identities=21% Similarity=0.232 Sum_probs=31.4
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeE-EEEeCC----eEE-EEECCHHHHHHHHHhcC
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRD-VDMKRD----FAF-VEFSDPRDADDARYSLN 65 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~-v~i~~~----~af-V~F~~~eda~~Ai~~ln 65 (310)
....|.|+.+...-..+.+..-|...|.-.. +.+..+ ..+ -.|.+.++|+.++..|.
T Consensus 3 ~~y~vQv~s~~~~~~A~~~~~~l~~~g~~~~~~~~~~~~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 3 SGYYVQVGSFSSEENAERLLAKLKKKGPDAYVVQVSKGGPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp -EEEEEEEEES-HHHHHHHHHHHHHHT-----EEEEEETTCEEEEECCECTCCHHHHHHHHHH
T ss_pred CcEEEEEEEcCCHHHHHHHHHHHHhcCCCcceEEEecCCceEEEEECCCCCHHHHHHHHHHHh
Confidence 3467888877654444555555555554322 222221 223 37889999999988776
No 220
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=34.22 E-value=1.7e+02 Score=20.90 Aligned_cols=44 Identities=16% Similarity=0.357 Sum_probs=27.8
Q ss_pred cHHHHHHHHHhcC-CeeEEEEeC---C----eEEEEECC---HHHHHHHHHhcCC
Q 021599 23 RSRDLEEIFSRYG-RIRDVDMKR---D----FAFVEFSD---PRDADDARYSLNG 66 (310)
Q Consensus 23 te~dL~~~F~~~G-~V~~v~i~~---~----~afV~F~~---~eda~~Ai~~lng 66 (310)
.-.+|.++|.++| .|..+.... + .-||+++. .+++..+++.|..
T Consensus 14 ~L~~il~~f~~~~ini~~i~s~p~~~~~~~~~f~vd~~~~~~~~~~~~~l~~l~~ 68 (80)
T cd04905 14 ALYDVLGVFAERGINLTKIESRPSKGGLWEYVFFIDFEGHIEDPNVAEALEELKR 68 (80)
T ss_pred HHHHHHHHHHHCCcCEEEEEEEEcCCCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 4567888998987 566665421 1 34566663 5667777776654
No 221
>cd04458 CSP_CDS Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein. CSP expression is up-regulated by an abrupt drop in growth temperature. CSP's are also expressed under normal condition at lower level. The function of cold-shock proteins is not fully understood. They preferentially bind poly-pyrimidine region of single-stranded RNA and DNA. CSP's are thought to bind mRNA and regulate ribosomal translation, mRNA degradation, and the rate of transcription termination. The human Y-box protein, which contains a CSD, regulates transcription and translation of genes that contain the Y-box sequence in their promoters. This specific ssDNA-binding properties of CSD are required for the binding of Y-box protein to the promoter's Y-box sequence, thereby regulating transcription.
Probab=34.09 E-value=22 Score=24.66 Aligned_cols=48 Identities=25% Similarity=0.383 Sum_probs=28.3
Q ss_pred cCCeeEEEEeCCeEEEEECC-HHHHHHHHHhcCC----cccCCCceeeeeccC
Q 021599 34 YGRIRDVDMKRDFAFVEFSD-PRDADDARYSLNG----RDVDGSRIIVEFARG 81 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~-~eda~~Ai~~lng----~~l~Gr~I~V~~ak~ 81 (310)
.|.|+.+...++|+||+-.+ .+++--.+..|.+ ....|..|..++...
T Consensus 2 ~G~Vk~~~~~kGfGFI~~~~~g~diffh~~~~~~~~~~~~~~G~~V~f~~~~~ 54 (65)
T cd04458 2 TGTVKWFDDEKGFGFITPDDGGEDVFVHISALEGDGFRSLEEGDRVEFELEEG 54 (65)
T ss_pred cEEEEEEECCCCeEEEecCCCCcCEEEEhhHhhccCCCcCCCCCEEEEEEEEC
Confidence 47788888888999998776 3333222222222 234566666666553
No 222
>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=33.88 E-value=42 Score=31.14 Aligned_cols=32 Identities=28% Similarity=0.210 Sum_probs=23.6
Q ss_pred EEEEECCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 47 AFVEFSDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 47 afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
|||+|.+..+|+.|++.+.... ...+.|+.|-
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~AP 32 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAP 32 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCC
Confidence 7999999999999998655443 3445666654
No 223
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=33.75 E-value=20 Score=33.21 Aligned_cols=25 Identities=40% Similarity=1.194 Sum_probs=19.4
Q ss_pred CCCCCCCCCccCCCCCCCCccCCCC
Q 021599 96 GPPPGSGRCFNCGIDGHWARDCKAG 120 (310)
Q Consensus 96 g~~~~~~rc~~~G~~g~~~rdc~~~ 120 (310)
++++.+--||.||.-|||-..|+..
T Consensus 171 kppPpgY~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 171 KPPPPGYVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred CCCCCceeEEecCCCCchhhcCCCC
Confidence 3444455699999999999999853
No 224
>smart00457 MACPF membrane-attack complex / perforin.
Probab=33.67 E-value=74 Score=27.29 Aligned_cols=37 Identities=11% Similarity=0.314 Sum_probs=24.8
Q ss_pred ccCCCCCcHHHHHHHHHhcCC--eeEEEEeCCeEEEEEC
Q 021599 16 GRLASRTRSRDLEEIFSRYGR--IRDVDMKRDFAFVEFS 52 (310)
Q Consensus 16 ~nL~~~~te~dL~~~F~~~G~--V~~v~i~~~~afV~F~ 52 (310)
.+||...+..++..||..||+ |..+.+---+..+.+.
T Consensus 31 ~~Lp~~~~~~~~~~fi~~yGTH~i~s~~~Gg~~~~~~~~ 69 (194)
T smart00457 31 RDLPDQYNRGAYARFIDKYGTHYITSATLGGEYSLLLVL 69 (194)
T ss_pred HhCccccCHHHHHHHHHHhCCeEEEeeeeeeeEEEEEEE
Confidence 477888888899999999997 4555553323333333
No 225
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.67 E-value=1.5e+02 Score=19.80 Aligned_cols=30 Identities=10% Similarity=0.048 Sum_probs=18.3
Q ss_pred EEEccCCCCCcHHHHHHHHHhcC-CeeEEEE
Q 021599 13 LYVGRLASRTRSRDLEEIFSRYG-RIRDVDM 42 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~~G-~V~~v~i 42 (310)
|.|......-...+|-.+|.++| .|..+.+
T Consensus 2 l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~ 32 (71)
T cd04903 2 LIVVHKDKPGAIAKVTSVLADHEINIAFMRV 32 (71)
T ss_pred EEEEeCCCCChHHHHHHHHHHcCcCeeeeEE
Confidence 33433333345677888888887 5666654
No 226
>PF01782 RimM: RimM N-terminal domain; InterPro: IPR002676 The RimM protein is essential for efficient processing of 16S rRNA []. The RimM protein was shown to have affinity for free ribosomal 30S subunits but not for 30S subunits in the 70S ribosomes [].; GO: 0006364 rRNA processing; PDB: 2QGG_A 3A1P_C 2DOG_A 2DYI_A 3H9N_A 2F1L_A.
Probab=33.48 E-value=67 Score=23.42 Aligned_cols=31 Identities=23% Similarity=0.352 Sum_probs=20.6
Q ss_pred eeEEEEeCCeEEEEECCHHHHHHHHHhcCCcc
Q 021599 37 IRDVDMKRDFAFVEFSDPRDADDARYSLNGRD 68 (310)
Q Consensus 37 V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~ 68 (310)
|+.+.+..+..+|.|+..++.+.|. .|.|..
T Consensus 47 v~~~~~~~~~~i~~~~gi~~r~~Ae-~l~g~~ 77 (84)
T PF01782_consen 47 VESVRPHGKSLIVKFEGIDDREAAE-ALRGCE 77 (84)
T ss_dssp EEEEEEETTEEEEEETT--SHHHHH-TTTT-E
T ss_pred EEEEEEeCCEEEEEEcCCCCHHHHH-hhCCCE
Confidence 4445556679999999999999886 555544
No 227
>PF00276 Ribosomal_L23: Ribosomal protein L23; InterPro: IPR013025 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This domain is found in both eukaryotic L25 and prokaryotic and eukaryotic L23 proteins.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3DF4_T 3DF2_T 4A1E_R 4A1A_R 4A1C_R 4A17_R 2HGU_W 2HGQ_W 1N88_A 2HGJ_W ....
Probab=32.81 E-value=93 Score=23.48 Aligned_cols=29 Identities=21% Similarity=0.595 Sum_probs=21.1
Q ss_pred EEccCCCCCcHHHHHHHHHh-cC-CeeEEEE
Q 021599 14 YVGRLASRTRSRDLEEIFSR-YG-RIRDVDM 42 (310)
Q Consensus 14 ~V~nL~~~~te~dL~~~F~~-~G-~V~~v~i 42 (310)
|+-.++..++..||+++|++ || .|..|..
T Consensus 23 ~tF~V~~~atK~~Ik~aie~iy~V~V~~Vnt 53 (91)
T PF00276_consen 23 YTFEVDPRATKTEIKEAIEKIYGVKVKKVNT 53 (91)
T ss_dssp EEEEETTTSTHHHHHHHHHHHHTSEEEEEEE
T ss_pred EEEEEeCCCCHHHHHHHHHhhcCCCeeEEEE
Confidence 44456788999999999976 66 4656554
No 228
>KOG2985 consensus Uncharacterized conserved protein [Function unknown]
Probab=32.35 E-value=42 Score=30.45 Aligned_cols=19 Identities=37% Similarity=0.817 Sum_probs=16.5
Q ss_pred CCCccCCCCCCCCccCCCC
Q 021599 102 GRCFNCGIDGHWARDCKAG 120 (310)
Q Consensus 102 ~rc~~~G~~g~~~rdc~~~ 120 (310)
+-|-.||+.||+..+|.+.
T Consensus 82 g~ckRcg~~ghl~fqcRn~ 100 (306)
T KOG2985|consen 82 GSCKRCGRVGHLTFQCRNF 100 (306)
T ss_pred cchhhccccchhhHHHhhh
Confidence 5699999999999999865
No 229
>COG0360 RpsF Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]
Probab=31.82 E-value=1.5e+02 Score=23.53 Aligned_cols=62 Identities=18% Similarity=0.246 Sum_probs=35.1
Q ss_pred CCCCCcHHHHHHHHHhc--------CCeeEEEEe---------C----C-eEEEEECCHHHHHHHHH---hcCCcccCCC
Q 021599 18 LASRTRSRDLEEIFSRY--------GRIRDVDMK---------R----D-FAFVEFSDPRDADDARY---SLNGRDVDGS 72 (310)
Q Consensus 18 L~~~~te~dL~~~F~~~--------G~V~~v~i~---------~----~-~afV~F~~~eda~~Ai~---~lng~~l~Gr 72 (310)
|.++++++++..++++| |+|..+... + + |.++.|.....+..-|+ .||...|---
T Consensus 9 v~p~~see~~~~~ve~~~~~l~~~gg~i~~~e~wG~R~LAY~IkK~~~g~Y~l~~f~~~~~~i~Eler~~rin~~VlR~l 88 (112)
T COG0360 9 VRPDLSEEQVAALVEKYKGVLTNNGGEIHKVEDWGKRRLAYPIKKLREGHYVLMNFEAEPAAIAELERLLRINEDVLRHL 88 (112)
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEehhhhhhhhcceecccceEEEEEEEEEcCHHHHHHHHHHhccchhhheee
Confidence 45677777666666554 455555431 1 1 88889988766666655 3344444333
Q ss_pred ceeeeec
Q 021599 73 RIIVEFA 79 (310)
Q Consensus 73 ~I~V~~a 79 (310)
.|+++..
T Consensus 89 iik~~~~ 95 (112)
T COG0360 89 IIKVEKA 95 (112)
T ss_pred EEEechh
Confidence 4444433
No 230
>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=31.41 E-value=2.3e+02 Score=24.15 Aligned_cols=47 Identities=21% Similarity=0.187 Sum_probs=39.3
Q ss_pred cCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcC
Q 021599 17 RLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 17 nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~ln 65 (310)
+|+..+.++-|.++-+-+|-|.+. --+.-.+.|.+.+.++.||+.|.
T Consensus 118 ~l~~~i~~erl~ei~E~~gvI~Ef--ee~~~V~I~Gdke~Ik~aLKe~s 164 (169)
T PF09869_consen 118 KLKKPIQEERLQEISEWHGVIFEF--EEDDKVVIEGDKERIKKALKEFS 164 (169)
T ss_pred ecCccchHHHHHHHHHHhceeEEe--cCCcEEEEeccHHHHHHHHHHHH
Confidence 789999999999999999988776 23355788999999999998764
No 231
>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=30.88 E-value=1.1e+02 Score=26.29 Aligned_cols=53 Identities=13% Similarity=0.130 Sum_probs=37.4
Q ss_pred EEEEccCCCCCcHHHHHHHHHhcC-CeeEEEE------eCCeEEEEECCHHHHHHHHHhc
Q 021599 12 RLYVGRLASRTRSRDLEEIFSRYG-RIRDVDM------KRDFAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~~~G-~V~~v~i------~~~~afV~F~~~eda~~Ai~~l 64 (310)
.=||+|.+....-..|-+.|...| +|+.|.= +.++-+|.|.+.+++..++..+
T Consensus 20 VR~ItN~SSG~~G~~lA~~~~~~Ga~V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~ 79 (185)
T PF04127_consen 20 VRFITNRSSGKMGAALAEEAARRGAEVTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKEL 79 (185)
T ss_dssp SEEEEES--SHHHHHHHHHHHHTT-EEEEEE-TTS----TTEEEEE-SSHHHHHHHHHHH
T ss_pred ceEecCCCcCHHHHHHHHHHHHCCCEEEEEecCccccccccceEEEecchhhhhhhhccc
Confidence 347889888888889999998888 4554432 2357799999999999998644
No 232
>PRK00453 rpsF 30S ribosomal protein S6; Reviewed
Probab=30.59 E-value=2e+02 Score=22.23 Aligned_cols=45 Identities=18% Similarity=0.353 Sum_probs=26.5
Q ss_pred CCCCCcHHHHHHHHHhc--------CCeeEEEEe---------C----C-eEEEEECCHHHHHHHHH
Q 021599 18 LASRTRSRDLEEIFSRY--------GRIRDVDMK---------R----D-FAFVEFSDPRDADDARY 62 (310)
Q Consensus 18 L~~~~te~dL~~~F~~~--------G~V~~v~i~---------~----~-~afV~F~~~eda~~Ai~ 62 (310)
|.+.++++++.+++..+ |.|..+... + | |.++.|.....+...|+
T Consensus 10 l~~~~~~~~~~~~~~~~~~~i~~~gg~i~~~~~~G~r~LAY~I~k~~~G~Y~~~~f~~~~~~i~el~ 76 (108)
T PRK00453 10 LRPDLSEEQVKALVERFKGVITENGGTIHKVEDWGRRRLAYPINKLRKGHYVLLNFEAPPAAIAELE 76 (108)
T ss_pred ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEecccccccceEcCCCcEEEEEEEEEEeCHHHHHHHH
Confidence 45666666665555433 355554421 1 1 77888887777776665
No 233
>KOG0635 consensus Adenosine 5'-phosphosulfate kinase [Inorganic ion transport and metabolism]
Probab=30.54 E-value=81 Score=26.76 Aligned_cols=35 Identities=14% Similarity=0.278 Sum_probs=27.4
Q ss_pred CCCCcEEEEccCCCC---CcHHHHHHHHHhcCCeeEEE
Q 021599 7 RYGGTRLYVGRLASR---TRSRDLEEIFSRYGRIRDVD 41 (310)
Q Consensus 7 ~~~~~~l~V~nL~~~---~te~dL~~~F~~~G~V~~v~ 41 (310)
++.+++|||++|+-. +-...|.+++.+-|.+.++.
T Consensus 28 ~qkGcviWiTGLSgSGKStlACaL~q~L~qrgkl~Y~L 65 (207)
T KOG0635|consen 28 KQKGCVIWITGLSGSGKSTLACALSQALLQRGKLTYIL 65 (207)
T ss_pred cCCCcEEEEeccCCCCchhHHHHHHHHHHhcCceEEEe
Confidence 367899999999854 44567888888889887764
No 234
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=30.34 E-value=2.4e+02 Score=21.17 Aligned_cols=54 Identities=6% Similarity=-0.015 Sum_probs=33.7
Q ss_pred EEEEccCCCCCcHHHHHHHHHh-cC----CeeEEEEeCC-eEEEEECCHHHHHHHHHhcC
Q 021599 12 RLYVGRLASRTRSRDLEEIFSR-YG----RIRDVDMKRD-FAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~~-~G----~V~~v~i~~~-~afV~F~~~eda~~Ai~~ln 65 (310)
-|+|..++..++-++|.+.+.. |. ..-.++++-. --.|+|.+.++.+.|+..+.
T Consensus 10 di~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~DEEGDp~tiSS~~EL~EA~rl~~ 69 (83)
T cd06404 10 DIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWIDEEGDPCTISSQMELEEAFRLYE 69 (83)
T ss_pred cEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEECCCCCceeecCHHHHHHHHHHHH
Confidence 4678888888887776554432 11 1222333322 34688899999999987543
No 235
>smart00292 BRCT breast cancer carboxy-terminal domain.
Probab=30.26 E-value=1.7e+02 Score=19.60 Aligned_cols=45 Identities=11% Similarity=0.175 Sum_probs=29.6
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeC-CeEEEEECC
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKR-DFAFVEFSD 53 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~-~~afV~F~~ 53 (310)
.+.+++|.+-......++|..++..+|......+.. ...+|.+.+
T Consensus 4 ~g~~~~~~g~~~~~~~~~l~~~i~~~Gg~~~~~~~~~~~thvi~~~ 49 (80)
T smart00292 4 KGKVFVITGKFDKNERDELKELIEALGGKVTSSLSSKTTTHVIVGS 49 (80)
T ss_pred CCeEEEEeCCCCCccHHHHHHHHHHcCCEEecccCccceeEEEEcC
Confidence 467888887334556788999999999765555544 444444444
No 236
>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=29.71 E-value=31 Score=24.53 Aligned_cols=48 Identities=17% Similarity=0.273 Sum_probs=29.4
Q ss_pred cCCeeEEEEeCCeEEEEECCH-HHHHHHHHhc--CC--cccCCCceeeeeccC
Q 021599 34 YGRIRDVDMKRDFAFVEFSDP-RDADDARYSL--NG--RDVDGSRIIVEFARG 81 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~~-eda~~Ai~~l--ng--~~l~Gr~I~V~~ak~ 81 (310)
.|.|++.+..++|+||+-.+. +++---+..| +| ....|..|..++...
T Consensus 3 ~G~Vk~f~~~kGfGFI~~~~g~~dvfvH~s~~~~~g~~~l~~G~~V~f~~~~~ 55 (68)
T TIGR02381 3 IGIVKWFNNAKGFGFICPEGVDGDIFAHYSTIQMDGYRTLKAGQKVQFEVVQG 55 (68)
T ss_pred CeEEEEEeCCCCeEEEecCCCCccEEEEHHHhhhcCCCCCCCCCEEEEEEEEC
Confidence 488999999999999977652 3332222222 23 234567777666553
No 237
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=29.62 E-value=1.3e+02 Score=22.88 Aligned_cols=59 Identities=20% Similarity=0.382 Sum_probs=36.7
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHh-cCC-eeEEEEeCC---------eEEEEECCHHHHHHHHHhcCCc
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSR-YGR-IRDVDMKRD---------FAFVEFSDPRDADDARYSLNGR 67 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~-~G~-V~~v~i~~~---------~afV~F~~~eda~~Ai~~lng~ 67 (310)
++++.||+ +|...++-..|.++|.. .|+ ...+.+..+ -+-+.|++-+.++...+.+.|.
T Consensus 32 qd~telfF-kiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~eQvGG~ 101 (103)
T COG5227 32 QDGTELFF-KIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVTEQVGGA 101 (103)
T ss_pred CCCCEEEE-EEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHHHHhcCc
Confidence 45566655 67777887888888863 564 344444221 4556777777777777666554
No 238
>COG1207 GlmU N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]
Probab=29.55 E-value=1.2e+02 Score=29.82 Aligned_cols=64 Identities=20% Similarity=0.277 Sum_probs=40.5
Q ss_pred CCCCCCCCcEEEEccCCCCCcHHHHHHHHHhcC----C--eeEEEEe---------C--C---eEEEEECCHHHHHHHHH
Q 021599 3 RYDDRYGGTRLYVGRLASRTRSRDLEEIFSRYG----R--IRDVDMK---------R--D---FAFVEFSDPRDADDARY 62 (310)
Q Consensus 3 ~~~~~~~~~~l~V~nL~~~~te~dL~~~F~~~G----~--V~~v~i~---------~--~---~afV~F~~~eda~~Ai~ 62 (310)
-+.+.+.+..|.+.+=.+-++.+-|++++.... . |..+.+. + + .++||..+..++++.|.
T Consensus 90 ~l~~~~~g~vLVl~GD~PLit~~TL~~L~~~~~~~~~~~tvLt~~~~dP~GYGRIvr~~~g~V~~IVE~KDA~~eek~I~ 169 (460)
T COG1207 90 ALADDYDGDVLVLYGDVPLITAETLEELLAAHPAHGAAATVLTAELDDPTGYGRIVRDGNGEVTAIVEEKDASEEEKQIK 169 (460)
T ss_pred hhhcCCCCcEEEEeCCcccCCHHHHHHHHHhhhhcCCceEEEEEEcCCCCCcceEEEcCCCcEEEEEEcCCCCHHHhcCc
Confidence 343455566777766667788888887776552 2 2222221 1 1 77888888888888776
Q ss_pred hcCC
Q 021599 63 SLNG 66 (310)
Q Consensus 63 ~lng 66 (310)
..|.
T Consensus 170 eiNt 173 (460)
T COG1207 170 EINT 173 (460)
T ss_pred EEee
Confidence 6664
No 239
>cd04931 ACT_PAH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, phenylalanine hydroxylases (PAH). PAH catalyzes the hydroxylation of L-Phe to L-Tyr, the first step in the catabolic degradation of L-Phe. In PAH, an autoregulatory sequence, N-terminal of the ACT domain, extends across the catalytic domain active site and regulates the enzyme by intrasteric regulation. It appears that the activation by L-Phe induces a conformational change that converts the enzyme to a high-affinity and high-activity state. Modulation of activity is achieved through inhibition by BH4 and activation by phosphorylation of serine residues of the autoregulatory region. The molecular basis for the cooperative activation process is not fully understood yet. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.21 E-value=2.5e+02 Score=21.10 Aligned_cols=43 Identities=12% Similarity=0.224 Sum_probs=25.8
Q ss_pred cHHHHHHHHHhcC-CeeEEEEe------CC-eEEEEECC--HHHHHHHHHhcC
Q 021599 23 RSRDLEEIFSRYG-RIRDVDMK------RD-FAFVEFSD--PRDADDARYSLN 65 (310)
Q Consensus 23 te~dL~~~F~~~G-~V~~v~i~------~~-~afV~F~~--~eda~~Ai~~ln 65 (310)
.-.++...|..+| .++.|.-- .. +-||+|+. .+.++.||+.|.
T Consensus 27 sL~~vL~~Fa~~~INLt~IeSRP~~~~~~~Y~FfVDieg~~~~~~~~~l~~L~ 79 (90)
T cd04931 27 ALAKVLRLFEEKDINLTHIESRPSRLNKDEYEFFINLDKKSAPALDPIIKSLR 79 (90)
T ss_pred HHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEcCCCHHHHHHHHHHH
Confidence 4566778888888 45665431 11 44677774 345566776664
No 240
>cd01201 Neurobeachin Neurobeachin Pleckstrin homology-like domain. Neurobeachin Pleckstrin homology-like domain. This domain is found in the large multi-domain eukaryotic protein Nerubeachin, N-terminal to the BEACH domain. This PH-like domain interacts with the BEACH domain in the same manner used by other PH-like domains to bind peptides.
Probab=29.18 E-value=2.9e+02 Score=21.79 Aligned_cols=53 Identities=23% Similarity=0.360 Sum_probs=35.4
Q ss_pred EEEccCCCCCcHHHHHHHHHh-cC---CeeEEEEeC-CeEEEEECCHHHHHHHHHhcC
Q 021599 13 LYVGRLASRTRSRDLEEIFSR-YG---RIRDVDMKR-DFAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~-~G---~V~~v~i~~-~~afV~F~~~eda~~Ai~~ln 65 (310)
.|..++...+.-.+|+++|.. |- .-.+|.+.. .-.|+.|.+.+.+++.+..|.
T Consensus 49 ~~~~~~~~~w~ls~Ir~v~~RRylLr~~alEiF~~d~~~~f~~F~~~~~~k~vv~~lp 106 (108)
T cd01201 49 SYCEELHGKWPFSEIRAIFSRRYLLQNTALELFLASRTSIFFAFPDQNAVKKVVYALP 106 (108)
T ss_pred eccccccceeeHHHHHHHHHHhhhcccceEEEEEeCCceEEEEeCcHHHHHHHHhhcC
Confidence 344566667778888888863 43 123333333 467999999999988887653
No 241
>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=28.89 E-value=2.2e+02 Score=20.29 Aligned_cols=53 Identities=15% Similarity=0.157 Sum_probs=35.2
Q ss_pred EEEccCCCCCcHHHHHHHHH-hcCCe---eEEEEeC-CeEEEEECCHHHHHHHHHhcC
Q 021599 13 LYVGRLASRTRSRDLEEIFS-RYGRI---RDVDMKR-DFAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~-~~G~V---~~v~i~~-~~afV~F~~~eda~~Ai~~ln 65 (310)
+++-.|+..++.++|...+. .|+.. ..+...- +--+|.+.+.+++..|+..+.
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedgd~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDGDLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCCCEEEecCHHHHHHHHHHHH
Confidence 44445777889988877664 45532 2222222 244999999999999997654
No 242
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=28.80 E-value=48 Score=33.28 Aligned_cols=65 Identities=17% Similarity=0.307 Sum_probs=44.1
Q ss_pred cCCCCCcHHHH-HHHHHhcCCeeEE-EEe--CCeEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 17 RLASRTRSRDL-EEIFSRYGRIRDV-DMK--RDFAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 17 nL~~~~te~dL-~~~F~~~G~V~~v-~i~--~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
+++..+-..++ +.++..++.+... .+. ..+++++|++...+.+|+..++|..+.+..+.|+.+..
T Consensus 32 ~~~~~~~q~~~~k~~~~~~~~~~s~tk~~~~~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~ 100 (534)
T KOG2187|consen 32 MIPTFIGQKQLNKVLLKILRDVKSKTKLPKMPKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGAT 100 (534)
T ss_pred ccCchhhhhHHHhhhhhhcccccccCCCCCCCCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhccc
Confidence 34444433333 3444444443332 222 24999999999999999999999999998888877653
No 243
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=28.63 E-value=65 Score=24.96 Aligned_cols=19 Identities=21% Similarity=0.520 Sum_probs=15.4
Q ss_pred eEEEEECCHHHHHHHHHhc
Q 021599 46 FAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 46 ~afV~F~~~eda~~Ai~~l 64 (310)
|..++|.+.+....|..+|
T Consensus 68 FsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 68 FSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEcCchhHHHHHHHHh
Confidence 8899999998888777544
No 244
>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=28.60 E-value=2.2e+02 Score=20.18 Aligned_cols=40 Identities=23% Similarity=0.263 Sum_probs=28.2
Q ss_pred HHHHHHHHhcCCeeEEEEe----CCeEEEEECCHHHHHHHHHhcC
Q 021599 25 RDLEEIFSRYGRIRDVDMK----RDFAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 25 ~dL~~~F~~~G~V~~v~i~----~~~afV~F~~~eda~~Ai~~ln 65 (310)
.+|.+++.++| +..+.|. -++.|+.|.+.++++.+++.|.
T Consensus 37 ~~~~~~~~~~G-a~~~~~sGsG~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSGSGGGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEETTSSSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCCCCCCCeEEEEECCHHHHHHHHHHHH
Confidence 45677778888 5455553 2388888888888888877653
No 245
>PRK10905 cell division protein DamX; Validated
Probab=28.45 E-value=98 Score=29.17 Aligned_cols=56 Identities=9% Similarity=0.090 Sum_probs=37.0
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcCC---eeEEEEeCC---eEE--EEECCHHHHHHHHHhcCCc
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYGR---IRDVDMKRD---FAF--VEFSDPRDADDARYSLNGR 67 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G~---V~~v~i~~~---~af--V~F~~~eda~~Ai~~lng~ 67 (310)
..++|.|+.+. +++.|.+|..+.|. +.+..+..| |.+ =.|.+.++|+.||..|-..
T Consensus 246 ~~YTLQL~A~S---s~~~l~~fakKlgL~~y~vy~TtRnGkpWYVV~yG~YaSraeAk~AiakLPa~ 309 (328)
T PRK10905 246 SHYTLQLSSSS---NYDNLNGWAKKENLKNYVVYETTRNGQPWYVLVSGVYASKEEAKRAVSTLPAD 309 (328)
T ss_pred CceEEEEEecC---CHHHHHHHHHHcCCCceEEEEeccCCceEEEEEecCCCCHHHHHHHHHHCCHH
Confidence 45777777665 55778888877753 222233334 332 3789999999999988743
No 246
>PF06804 Lipoprotein_18: NlpB/DapX lipoprotein; InterPro: IPR010653 This entry consists of a number of bacterial lipoproteins often known as NlpB or DapX. This lipoprotein is detected in outer membrane vesicles in Escherichia coli and appears to be non-essential [].; PDB: 2YH6_A 3TGO_D 2YH5_A 2LAF_A 2LAE_A 3SNS_A.
Probab=28.02 E-value=1.1e+02 Score=28.54 Aligned_cols=49 Identities=20% Similarity=0.327 Sum_probs=37.4
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHHhcC-CeeEEEEeCCeEEEEECCHHHH
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFSRYG-RIRDVDMKRDFAFVEFSDPRDA 57 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~~~G-~V~~v~i~~~~afV~F~~~eda 57 (310)
.+..++|-+.+++..|..|-..|.+.| +|++.+-..|.-||.|...++-
T Consensus 197 ~g~~~l~~~~~fd~aW~rl~~aL~~~gf~V~d~drs~G~~~v~y~~~~~~ 246 (303)
T PF06804_consen 197 NGQPALILRAPFDRAWRRLGLALDRLGFTVEDRDRSQGVYYVRYKPPDSE 246 (303)
T ss_dssp TS-EEEEEES-HHHHHHHHHHHHHHTTEEEEEEETTTTEEEEEE----HH
T ss_pred CCceEEEECCcHHHHHHHHHHHHHhCCCEEEecccccEEEEEEEcCCChh
Confidence 456778888999999999999999999 7888888889999999876543
No 247
>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=27.75 E-value=25 Score=26.59 Aligned_cols=24 Identities=8% Similarity=0.196 Sum_probs=20.4
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHH
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFS 32 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~ 32 (310)
...+|.|.|||..+.+++|++.++
T Consensus 51 s~rtVlvsgip~~l~ee~l~D~Le 74 (88)
T PF07292_consen 51 SKRTVLVSGIPDVLDEEELRDKLE 74 (88)
T ss_pred cCCEEEEeCCCCCCChhhheeeEE
Confidence 457899999999999999988664
No 248
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=27.62 E-value=1.2e+02 Score=30.30 Aligned_cols=59 Identities=14% Similarity=0.207 Sum_probs=42.5
Q ss_pred EEccCCCCCc---HHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCce
Q 021599 14 YVGRLASRTR---SRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRI 74 (310)
Q Consensus 14 ~V~nL~~~~t---e~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I 74 (310)
+||||.+-.. ...|..+-.+||.|..+.+-. .-.|...+.+.|+.|+ .-++..+.++..
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~-~~~Vviss~~~akE~l-~~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS-VPVVVISSYEAAKEVL-VKQDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC-ceEEEECCHHHHHHHH-HhCCccccCCCC
Confidence 5788875433 345666667999999766632 3467778889999998 447888888876
No 249
>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=27.46 E-value=42 Score=20.99 Aligned_cols=17 Identities=29% Similarity=0.532 Sum_probs=10.3
Q ss_pred CCCcHHHHHHHHHhcCC
Q 021599 20 SRTRSRDLEEIFSRYGR 36 (310)
Q Consensus 20 ~~~te~dL~~~F~~~G~ 36 (310)
..+++++|++.|.+.+.
T Consensus 19 ~Dtd~~~Lk~vF~~i~~ 35 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIKK 35 (36)
T ss_dssp S---HHHHHHHHHCS--
T ss_pred ccCCHHHHHHHHHHhcc
Confidence 46789999999987653
No 250
>PF01762 Galactosyl_T: Galactosyltransferase; InterPro: IPR002659 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 31 (GH31 from CAZY) comprises enzymes with a number of known activities; N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase (2.4.1.149 from EC); beta-1,3-galactosyltransferase (2.4.1 from EC); fucose-specific beta-1,3-N-acetylglucosaminyltransferase (2.4.1 from EC); globotriosylceramide beta-1,3-GalNAc transferase (2.4.1.79 from EC) [, ].; GO: 0008378 galactosyltransferase activity, 0006486 protein glycosylation, 0016020 membrane
Probab=27.17 E-value=73 Score=27.16 Aligned_cols=55 Identities=15% Similarity=0.133 Sum_probs=33.5
Q ss_pred CCcEEEEccCCC--CCc-HHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHh
Q 021599 9 GGTRLYVGRLAS--RTR-SRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYS 63 (310)
Q Consensus 9 ~~~~l~V~nL~~--~~t-e~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~ 63 (310)
.-..+||-+.+. +.. .+.|.+...+||.|..+++.-.|.-+++.....++-+.+.
T Consensus 20 ~~~~~FvvG~~~~~~~~~~~~l~~E~~~y~Dil~~d~~D~y~nlt~K~~~~~~w~~~~ 77 (195)
T PF01762_consen 20 RVKVVFVVGESPNSDSDLQEALQEEAEKYGDILQGDFVDSYRNLTLKTLAGLKWASKH 77 (195)
T ss_pred cEEEEEEEecCCCCcHHHHHHhhhhhhhcCceEeeecccccchhhHHHHHHHHHHHhh
Confidence 345677777776 322 3347777889999998887554444444444444444433
No 251
>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=27.03 E-value=1.2e+02 Score=27.37 Aligned_cols=55 Identities=13% Similarity=0.167 Sum_probs=40.4
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcC-CeeEEEEeC-------C---eEEEEECCHHHHHHHHHhc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYG-RIRDVDMKR-------D---FAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G-~V~~v~i~~-------~---~afV~F~~~eda~~Ai~~l 64 (310)
--+|.|.-||-...++-|+.+|+..| +|.-..+.- | |..|+.....-+.+|+.+|
T Consensus 118 pL~v~~p~lp~rGg~~l~~rLFePLGw~V~a~~~~Ld~~fP~WG~S~y~~l~L~g~~rl~daL~HL 183 (245)
T PF12623_consen 118 PLEVRLPALPCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGDSRYVDLTLTGTVRLADALNHL 183 (245)
T ss_pred ceEEEeeeeecCCcHHHHHHhhcCcCceEEeEeccCCccCccccCCcceEEEEeeeEEHHHHHhhh
Confidence 45788888998889999999999999 443333321 1 7778888777777777655
No 252
>COG4274 Uncharacterized conserved protein [Function unknown]
Probab=26.70 E-value=2.1e+02 Score=22.22 Aligned_cols=36 Identities=17% Similarity=0.236 Sum_probs=23.2
Q ss_pred HHHHHHHHhcC-CeeEEEEeCC----eEEEEECCHHHHHHH
Q 021599 25 RDLEEIFSRYG-RIRDVDMKRD----FAFVEFSDPRDADDA 60 (310)
Q Consensus 25 ~dL~~~F~~~G-~V~~v~i~~~----~afV~F~~~eda~~A 60 (310)
+.++++|+.+| +++++.+..| .+++|-.+...+..+
T Consensus 33 ~av~~~les~G~k~~~~y~T~GeYD~V~i~EapDda~~~~~ 73 (104)
T COG4274 33 AAVRALLESMGGKVKEQYWTLGEYDVVAIVEAPDDAVATRF 73 (104)
T ss_pred HHHHHHHHHcCcEEEEEEEeeccccEEEEEecCCHHHHHHH
Confidence 45788999998 6788777665 344455554444443
No 253
>cd04929 ACT_TPH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tryptophan hydroxylases (TPH), both peripheral (TPH1) and neuronal (TPH2) enzymes. TPH catalyses the hydroxylation of L-Trp to 5-hydroxytryptophan, the rate limiting step in the biosynthesis of 5-hydroxytryptamine (serotonin) and the first reaction in the synthesis of melatonin. Very little is known about the role of the ACT domain in TPH, which appears to be regulated by phosphorylation but not by its substrate or cofactor. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=26.39 E-value=2.5e+02 Score=20.17 Aligned_cols=44 Identities=18% Similarity=0.342 Sum_probs=26.9
Q ss_pred cHHHHHHHHHhcC-CeeEEEEeC------C-eEEEEEC-CHHHHHHHHHhcCC
Q 021599 23 RSRDLEEIFSRYG-RIRDVDMKR------D-FAFVEFS-DPRDADDARYSLNG 66 (310)
Q Consensus 23 te~dL~~~F~~~G-~V~~v~i~~------~-~afV~F~-~~eda~~Ai~~lng 66 (310)
.-.++...|..+| .+..+.--. . +-||+++ +.+.++.||+.|..
T Consensus 13 ~L~~iL~~f~~~~inl~~IeSRP~~~~~~~y~F~id~e~~~~~i~~~l~~l~~ 65 (74)
T cd04929 13 GLAKALKLFQELGINVVHIESRKSKRRSSEFEIFVDCECDQRRLDELVQLLKR 65 (74)
T ss_pred HHHHHHHHHHHCCCCEEEEEeccCCCCCceEEEEEEEEcCHHHHHHHHHHHHH
Confidence 4566778888887 566664421 1 4467766 33466777776643
No 254
>COG1278 CspC Cold shock proteins [Transcription]
Probab=26.38 E-value=20 Score=25.75 Aligned_cols=48 Identities=19% Similarity=0.349 Sum_probs=28.9
Q ss_pred cCCeeEEEEeCCeEEEEECCH-HHHHHHHHhc--CC--cccCCCceeeeeccC
Q 021599 34 YGRIRDVDMKRDFAFVEFSDP-RDADDARYSL--NG--RDVDGSRIIVEFARG 81 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~~-eda~~Ai~~l--ng--~~l~Gr~I~V~~ak~ 81 (310)
-|.|++.+-.++|+||+=++- +|+-.-+..+ +| ....|+++..++...
T Consensus 3 ~GtVKwfn~~KGfGFI~p~~G~~DvFVH~Sai~~~g~~~L~eGQ~V~f~~~~g 55 (67)
T COG1278 3 TGTVKWFNATKGFGFITPEDGGKDVFVHISAIQRAGFRTLREGQKVEFEVEQG 55 (67)
T ss_pred cceEEEeeCCCcceEcCCCCCCcCEEEEeeeeccCCCcccCCCCEEEEEEecC
Confidence 377888888889999977765 3433222222 23 234577776666553
No 255
>PRK15464 cold shock-like protein CspH; Provisional
Probab=26.37 E-value=41 Score=24.18 Aligned_cols=47 Identities=17% Similarity=0.172 Sum_probs=28.7
Q ss_pred cCCeeEEEEeCCeEEEEECCH-HHHHHHHHhc--CCc--ccCCCceeeeecc
Q 021599 34 YGRIRDVDMKRDFAFVEFSDP-RDADDARYSL--NGR--DVDGSRIIVEFAR 80 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~~-eda~~Ai~~l--ng~--~l~Gr~I~V~~ak 80 (310)
.|.|++.+-.+||+||+-.+- +|+-.-+..| ++. ...|..|..++..
T Consensus 6 ~G~Vk~fn~~KGfGFI~~~~g~~DvFvH~s~l~~~g~~~l~~G~~V~f~v~~ 57 (70)
T PRK15464 6 TGIVKTFDRKSGKGFIIPSDGRKEVQVHISAFTPRDAEVLIPGLRVEFCRVN 57 (70)
T ss_pred eEEEEEEECCCCeEEEccCCCCccEEEEehhehhcCCCCCCCCCEEEEEEEE
Confidence 488999998999999976652 2332112222 222 3457777777665
No 256
>TIGR00110 ilvD dihydroxy-acid dehydratase. This model generates scores of up to 150 bits vs. 6-phosphogluconate dehydratase, a homologous enzyme.
Probab=26.28 E-value=97 Score=31.40 Aligned_cols=32 Identities=16% Similarity=0.323 Sum_probs=23.5
Q ss_pred EEECCHHHHHHHHHhcCCcccCCCceeeeeccCC
Q 021599 49 VEFSDPRDADDARYSLNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 49 V~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~~ 82 (310)
+.|+++++|..||. ++..-.|..|.|.+.-|+
T Consensus 387 ~VF~see~a~~ai~--~g~i~~gdVvViRyeGPk 418 (535)
T TIGR00110 387 KVFESEEEALEAIL--GGKIKEGDVVVIRYEGPK 418 (535)
T ss_pred EEECCHHHHHHHHh--cCCCCCCeEEEEeCCCCC
Confidence 46999999999985 455666777777766543
No 257
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=26.12 E-value=81 Score=30.10 Aligned_cols=43 Identities=14% Similarity=0.164 Sum_probs=32.3
Q ss_pred CCcEEEEccCCC----CCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECC
Q 021599 9 GGTRLYVGRLAS----RTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSD 53 (310)
Q Consensus 9 ~~~~l~V~nL~~----~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~ 53 (310)
....|||.|=+. .++.++|..++..... .+.|+-+.||++|..
T Consensus 145 ~~~lv~i~nPNNPTG~~~~~~~l~~l~~~~~~--~~~vVvDEAY~eF~~ 191 (356)
T COG0079 145 KTKLVFLCNPNNPTGTLLPREELRALLEALPE--GGLVVIDEAYIEFSP 191 (356)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHhCCC--CcEEEEeCchhhcCC
Confidence 356788886542 4578999999988766 445556799999999
No 258
>COG4029 Uncharacterized protein conserved in archaea [Function unknown]
Probab=25.67 E-value=3.6e+02 Score=21.82 Aligned_cols=63 Identities=13% Similarity=0.133 Sum_probs=35.4
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCcee
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRII 75 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~ 75 (310)
-++++|-.-..-++..+|.+++...+.-..|+- .-|+.|.-..++++.++++.+ ..+++..|.
T Consensus 5 vtk~ivlapsa~vsp~elv~~l~~~~~PvtiKe-TCfGaii~G~Ed~v~klveri--R~~d~~~IF 67 (142)
T COG4029 5 VTKYIVLAPSAGVSPKELVQKLLELSPPVTIKE-TCFGAIIDGPEDEVRKLVERI--RELDGNAIF 67 (142)
T ss_pred ceEEEEEcCccCcChHHHHHHHHhcCCCeEeee-eeeeeeecCcHHHHHHHHHHH--HHhccCcee
Confidence 355666555667788888888877665422221 125545555566666666543 234444443
No 259
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=25.60 E-value=3.4e+02 Score=21.44 Aligned_cols=44 Identities=9% Similarity=-0.105 Sum_probs=28.6
Q ss_pred CCeeEEEEeCC-eEEEEECCHHHHHHHHHhc-CCc-ccCCCceeeeeccC
Q 021599 35 GRIRDVDMKRD-FAFVEFSDPRDADDARYSL-NGR-DVDGSRIIVEFARG 81 (310)
Q Consensus 35 G~V~~v~i~~~-~afV~F~~~eda~~Ai~~l-ng~-~l~Gr~I~V~~ak~ 81 (310)
..|..|.|.-| ++.| +++.++.|++.+ .|+ .+.|..|.|+....
T Consensus 24 ~~V~~V~l~IG~ls~V---~pe~L~faf~~~~~~T~~~ega~L~Ie~vp~ 70 (117)
T PRK00564 24 HKIEKVVVGIGERSGM---DKSLFVSAFETFREESLVCKDAILDIVDEKV 70 (117)
T ss_pred CeEEEEEEEEccccCc---CHHHHHHHHHHHhcCCcccCCCEEEEEecCC
Confidence 46777777543 4444 455666665533 466 67899999988764
No 260
>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=25.58 E-value=64 Score=23.03 Aligned_cols=25 Identities=20% Similarity=0.367 Sum_probs=19.9
Q ss_pred CeEEEEECCHHHHHHHHHhcCCccc
Q 021599 45 DFAFVEFSDPRDADDARYSLNGRDV 69 (310)
Q Consensus 45 ~~afV~F~~~eda~~Ai~~lng~~l 69 (310)
.+.+|+|.+..+|.+|-+.|....|
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi 26 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGI 26 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCC
Confidence 3689999999999999877765544
No 261
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.47 E-value=2.3e+02 Score=19.35 Aligned_cols=41 Identities=22% Similarity=0.271 Sum_probs=23.6
Q ss_pred cHHHHHHHHHhcC-CeeEEEEeC----CeEE--EEEC--CHHHHHHHHHh
Q 021599 23 RSRDLEEIFSRYG-RIRDVDMKR----DFAF--VEFS--DPRDADDARYS 63 (310)
Q Consensus 23 te~dL~~~F~~~G-~V~~v~i~~----~~af--V~F~--~~eda~~Ai~~ 63 (310)
.-..|.++|.++| .|..+.... ++++ |.+. +.+++.++|..
T Consensus 14 ~l~~i~~~l~~~~inI~~i~~~~~~~~~~~~v~i~v~~~~~~~~~~~L~~ 63 (72)
T cd04883 14 QLADIAAIFKDRGVNIVSVLVYPSKEEDNKILVFRVQTMNPRPIIEDLRR 63 (72)
T ss_pred HHHHHHHHHHHcCCCEEEEEEeccCCCCeEEEEEEEecCCHHHHHHHHHH
Confidence 4567888898888 576664422 3443 3443 44455555543
No 262
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=25.39 E-value=50 Score=24.04 Aligned_cols=47 Identities=13% Similarity=0.216 Sum_probs=27.0
Q ss_pred cCCeeEEEEeCCeEEEEECCH-HHHHHHHHhc--CC--cccCCCceeeeecc
Q 021599 34 YGRIRDVDMKRDFAFVEFSDP-RDADDARYSL--NG--RDVDGSRIIVEFAR 80 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~~-eda~~Ai~~l--ng--~~l~Gr~I~V~~ak 80 (310)
.|.|++.+..++|+||+-.+- +++-.-+..| .| ....|..|..++..
T Consensus 3 ~G~Vkwfn~~KGfGFI~~~~gg~dVFvH~s~i~~~g~~~l~~G~~V~f~~~~ 54 (74)
T PRK09937 3 KGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVQFDVHQ 54 (74)
T ss_pred CeEEEEEeCCCCeEEEeeCCCCccEEEEEeeccccCCCCCCCCCEEEEEEEE
Confidence 488899888999999965542 2221111111 12 23456667666655
No 263
>PF07521 RMMBL: RNA-metabolising metallo-beta-lactamase; InterPro: IPR011108 The metallo-beta-lactamase fold contains five sequence motifs. The first four motifs are found in IPR001279 from INTERPRO and are common to all metallo-beta-lactamases. The fifth motif appears to be specific to function. This entry represents the fifth motif from metallo-beta-lactamases involved in RNA metabolism [].; PDB: 3ZQ4_D 2I7T_A 2I7V_A 2YCB_B 3BK1_A 3T3N_A 3BK2_A 3T3O_A 3AF5_A 3AF6_A ....
Probab=25.33 E-value=1.9e+02 Score=18.39 Aligned_cols=33 Identities=15% Similarity=0.187 Sum_probs=23.8
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEe
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMK 43 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~ 43 (310)
.+.|+.-+++-..+.++|.+|+..+.. ..+.++
T Consensus 6 ~a~v~~~~fSgHad~~~L~~~i~~~~p-~~vilV 38 (43)
T PF07521_consen 6 RARVEQIDFSGHADREELLEFIEQLNP-RKVILV 38 (43)
T ss_dssp -SEEEESGCSSS-BHHHHHHHHHHHCS-SEEEEE
T ss_pred EEEEEEEeecCCCCHHHHHHHHHhcCC-CEEEEe
Confidence 456766678888999999999998865 555544
No 264
>PF03802 CitX: Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; InterPro: IPR005551 Members of this protein family are annotated as CitX, containing the CitX domain, the domain is also found in the CitXG bifunctional protein, of the citrate lyase system. CitX transfers the prosthetic group 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA to the citrate lyase gamma chain, an acyl carrier protein. This enzyme may be designated holo-ACP synthase, holo-citrate lyase synthase, or apo-citrate lyase phosphoribosyl-dephospho-CoA transferase. In a few genera, including Haemophilus, this protein occurs as a fusion protein with CitG (2.7.8.25 from EC), an enzyme involved in prosthetic group biosynthesis. This CitX family is easily separated from the holo-ACP synthases of other enzyme systems.; GO: 0051191 prosthetic group biosynthetic process
Probab=25.12 E-value=3.8e+02 Score=22.71 Aligned_cols=35 Identities=11% Similarity=0.139 Sum_probs=23.9
Q ss_pred eEEEEE-CCHHHHHHHHHhcCCcccCCCceeeeecc
Q 021599 46 FAFVEF-SDPRDADDARYSLNGRDVDGSRIIVEFAR 80 (310)
Q Consensus 46 ~afV~F-~~~eda~~Ai~~lng~~l~Gr~I~V~~ak 80 (310)
++|+.+ .+...++.++-.+......|+-+-+..-.
T Consensus 82 e~~~~v~~~a~~vK~~~i~iEe~hplGRL~DiDV~~ 117 (170)
T PF03802_consen 82 EAFLVVDGDAEEVKRIMIEIEESHPLGRLFDIDVLD 117 (170)
T ss_pred eeeEEeCCCHHHHHHHHHHHHccCcchheEEEeeec
Confidence 555444 46777777777777777788887776653
No 265
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=25.00 E-value=2e+02 Score=23.63 Aligned_cols=52 Identities=10% Similarity=0.168 Sum_probs=35.9
Q ss_pred HHHHHHHhcCCeeEEEEeCC--------------------eEEEEECCH--HHHHHHHHhcCCcccCCCceeee
Q 021599 26 DLEEIFSRYGRIRDVDMKRD--------------------FAFVEFSDP--RDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 26 dL~~~F~~~G~V~~v~i~~~--------------------~afV~F~~~--eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
-..++|...|-|..+.+..+ -.+++|.+. +.++.++....|+.+....|.|.
T Consensus 60 r~L~~l~e~Glv~~~~~~~~~~~y~~~~~~~H~HliC~~CG~v~e~~~~~i~~~~~~~~~~~Gf~i~~~~l~~~ 133 (145)
T COG0735 60 RTLKLLEEAGLVHRLEFEGGKTRYELNSEPHHHHLICLDCGKVIEFEDDEIEALQEEIAKKLGFKLKDHTLEIY 133 (145)
T ss_pred HHHHHHHHCCCEEEEEeCCCEEEEecCCCCcccEEEecCCCCEEEecchhHHHHHHHHHHhcCCeeeeeEEEEE
Confidence 34467788888877766332 225677765 67777777888888888777664
No 266
>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=24.72 E-value=83 Score=28.42 Aligned_cols=31 Identities=32% Similarity=0.500 Sum_probs=24.0
Q ss_pred CCcEEEEccCCCCCcHHHHHHHHH--hcCCeeE
Q 021599 9 GGTRLYVGRLASRTRSRDLEEIFS--RYGRIRD 39 (310)
Q Consensus 9 ~~~~l~V~nL~~~~te~dL~~~F~--~~G~V~~ 39 (310)
....++|+|||..++..-|..++. .||.+.-
T Consensus 96 ~~~~~vv~NlPy~is~~il~~ll~~~~~g~~~~ 128 (262)
T PF00398_consen 96 NQPLLVVGNLPYNISSPILRKLLELYRFGRVRM 128 (262)
T ss_dssp SSEEEEEEEETGTGHHHHHHHHHHHGGGCEEEE
T ss_pred CCceEEEEEecccchHHHHHHHhhcccccccce
Confidence 356789999999999999998887 4554433
No 267
>PRK15463 cold shock-like protein CspF; Provisional
Probab=24.70 E-value=47 Score=23.82 Aligned_cols=47 Identities=19% Similarity=0.129 Sum_probs=28.4
Q ss_pred cCCeeEEEEeCCeEEEEECCH-HHHH---HHHHhc-CCcccCCCceeeeecc
Q 021599 34 YGRIRDVDMKRDFAFVEFSDP-RDAD---DARYSL-NGRDVDGSRIIVEFAR 80 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~~-eda~---~Ai~~l-ng~~l~Gr~I~V~~ak 80 (310)
.|.|++.+..++|+||+-.+- +|+- .||... ......|..|..++..
T Consensus 6 ~G~Vk~fn~~kGfGFI~~~~g~~DvFvH~sal~~~g~~~l~~G~~V~f~v~~ 57 (70)
T PRK15463 6 TGIVKTFDGKSGKGLITPSDGRKDVQVHISALNLRDAEELTTGLRVEFCRIN 57 (70)
T ss_pred eEEEEEEeCCCceEEEecCCCCccEEEEehhhhhcCCCCCCCCCEEEEEEEE
Confidence 588999998999999976552 2222 233221 1123356777766655
No 268
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=24.61 E-value=87 Score=27.07 Aligned_cols=42 Identities=17% Similarity=0.234 Sum_probs=27.4
Q ss_pred CcHHHHHHHHH-hcCCeeEEEEe---------CCeEEEEECCHHHHHHHHHh
Q 021599 22 TRSRDLEEIFS-RYGRIRDVDMK---------RDFAFVEFSDPRDADDARYS 63 (310)
Q Consensus 22 ~te~dL~~~F~-~~G~V~~v~i~---------~~~afV~F~~~eda~~Ai~~ 63 (310)
+++++|.++.. +-|++..|.+. +|-.||+|...+.|.+.++.
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 34444443332 12788888773 34679999999998887753
No 269
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=24.57 E-value=49 Score=23.59 Aligned_cols=20 Identities=20% Similarity=0.454 Sum_probs=16.8
Q ss_pred cCCeeEEEEeCCeEEEEECC
Q 021599 34 YGRIRDVDMKRDFAFVEFSD 53 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~ 53 (310)
.|.|++.+..++|+||+=.+
T Consensus 5 ~G~Vk~f~~~kGyGFI~~~~ 24 (69)
T PRK09507 5 KGNVKWFNESKGFGFITPED 24 (69)
T ss_pred ceEEEEEeCCCCcEEEecCC
Confidence 48888988889999997665
No 270
>PRK14998 cold shock-like protein CspD; Provisional
Probab=24.56 E-value=53 Score=23.79 Aligned_cols=47 Identities=13% Similarity=0.214 Sum_probs=27.6
Q ss_pred cCCeeEEEEeCCeEEEEECCH-HHHHHHHHhc--CC--cccCCCceeeeecc
Q 021599 34 YGRIRDVDMKRDFAFVEFSDP-RDADDARYSL--NG--RDVDGSRIIVEFAR 80 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~~-eda~~Ai~~l--ng--~~l~Gr~I~V~~ak 80 (310)
.|.|++.+..++|+||+-.+- +++-.-+..| +| ....|..|..++..
T Consensus 3 ~G~Vkwfn~~kGfGFI~~~~g~~dVFvH~s~l~~~g~~~l~~G~~V~f~~~~ 54 (73)
T PRK14998 3 TGTVKWFNNAKGFGFICPEGGGEDIFAHYSTIQMDGYRTLKAGQSVRFDVHQ 54 (73)
T ss_pred CeEEEEEeCCCceEEEecCCCCccEEEEeeeecccCCCCCCCCCEEEEEEEE
Confidence 488999999999999976542 2222111122 22 23356666666655
No 271
>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=24.38 E-value=2.5e+02 Score=19.56 Aligned_cols=44 Identities=18% Similarity=0.311 Sum_probs=28.1
Q ss_pred CcHHHHHHHHHhcC-CeeEEEEe---C--C--eEEEEECC---HHHHHHHHHhcC
Q 021599 22 TRSRDLEEIFSRYG-RIRDVDMK---R--D--FAFVEFSD---PRDADDARYSLN 65 (310)
Q Consensus 22 ~te~dL~~~F~~~G-~V~~v~i~---~--~--~afV~F~~---~eda~~Ai~~ln 65 (310)
-.-.+|.++|..+| .|..+.-. . + .-||+|.. ...++.+++.|.
T Consensus 11 G~L~~vL~~f~~~~vni~~I~Srp~~~~~~~~~f~id~~~~~~~~~~~~~l~~l~ 65 (75)
T cd04880 11 GALAKALKVFAERGINLTKIESRPSRKGLWEYEFFVDFEGHIDDPDVKEALEELK 65 (75)
T ss_pred CHHHHHHHHHHHCCCCEEEEEeeecCCCCceEEEEEEEECCCCCHHHHHHHHHHH
Confidence 35677888999987 56666432 1 1 55677774 556666776664
No 272
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=24.35 E-value=2.2e+02 Score=18.78 Aligned_cols=31 Identities=13% Similarity=0.144 Sum_probs=20.5
Q ss_pred EEEccCCCCCcHHHHHHHHHhcC-CeeEEEEe
Q 021599 13 LYVGRLASRTRSRDLEEIFSRYG-RIRDVDMK 43 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~~G-~V~~v~i~ 43 (310)
|+|..........+|-.+|.++| .|..+.+.
T Consensus 2 l~v~~~d~~g~l~~i~~~l~~~~~nI~~~~~~ 33 (71)
T cd04879 2 LLIVHKDVPGVIGKVGTILGEHGINIAAMQVG 33 (71)
T ss_pred EEEEecCCCCHHHHHHHHHHhcCCCeeeEEEe
Confidence 44544444456778889998887 67776653
No 273
>cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs.
Probab=24.29 E-value=1.5e+02 Score=25.82 Aligned_cols=23 Identities=0% Similarity=0.124 Sum_probs=15.1
Q ss_pred CeEEEEECCHHHHHHHHHhcCCc
Q 021599 45 DFAFVEFSDPRDADDARYSLNGR 67 (310)
Q Consensus 45 ~~afV~F~~~eda~~Ai~~lng~ 67 (310)
+|+.+-|....+++..|+...+.
T Consensus 145 ~~v~~~wcg~~~~e~~ik~~~~a 167 (202)
T cd00862 145 GIVLAPWCGEEECEEEIKEETAA 167 (202)
T ss_pred CEEEEEecCCHHHHHHHHHhhCC
Confidence 46677777767777777665543
No 274
>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=23.97 E-value=55 Score=22.69 Aligned_cols=21 Identities=19% Similarity=0.449 Sum_probs=17.0
Q ss_pred CCeeEEEEeCCeEEEEECCHH
Q 021599 35 GRIRDVDMKRDFAFVEFSDPR 55 (310)
Q Consensus 35 G~V~~v~i~~~~afV~F~~~e 55 (310)
|.|+.++..++||||+-.+..
T Consensus 3 G~V~~~~~~kgyGFI~~~~~~ 23 (66)
T PF00313_consen 3 GTVKWFDDEKGYGFITSDDGG 23 (66)
T ss_dssp EEEEEEETTTTEEEEEETTSS
T ss_pred EEEEEEECCCCceEEEEcccc
Confidence 678888878899999988654
No 275
>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=23.90 E-value=1.5e+02 Score=21.94 Aligned_cols=33 Identities=15% Similarity=0.209 Sum_probs=22.9
Q ss_pred CeeEEEE---eCCeEEEEECCHHHHHHHHHhcCCcc
Q 021599 36 RIRDVDM---KRDFAFVEFSDPRDADDARYSLNGRD 68 (310)
Q Consensus 36 ~V~~v~i---~~~~afV~F~~~eda~~Ai~~lng~~ 68 (310)
.|..+.+ .+||-|||=.+..++..||..+.+..
T Consensus 33 ~I~Si~~~~~lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 33 NIYSIFAPDSLKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp ---EEEE-TTSTSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred ceEEEEEeCCCceEEEEEeCCHHHHHHHHhccccee
Confidence 3455544 36799999999999999998776543
No 276
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=23.52 E-value=1.5e+02 Score=29.62 Aligned_cols=55 Identities=24% Similarity=0.292 Sum_probs=35.1
Q ss_pred CcEEEEccCCCCCcHHHHHHHHH----hcCCeeEEEEeC-------CeEEEEECCHHHHHHHHHhc
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFS----RYGRIRDVDMKR-------DFAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~----~~G~V~~v~i~~-------~~afV~F~~~eda~~Ai~~l 64 (310)
+..|.++.-....+..+|..+|. .+|-|+.+.|.. ...++.|.+.+++..|+..|
T Consensus 189 G~i~~~~~~~~~~~g~dl~~l~~Gs~GtlGIIt~atlkl~p~p~~~~~~~~~f~~~~~a~~~~~~~ 254 (499)
T PRK11230 189 GEALTLGSDALDSPGFDLLALFTGSEGMLGVVTEVTVKLLPKPPVARVLLASFDSVEKAGLAVGDI 254 (499)
T ss_pred CcEEEeCCccCCCCccchHhhhccCCCccEEEEEEEEEEEcCCcceEEEEEECCCHHHHHHHHHHH
Confidence 34444443222233456777775 577788877631 26678899999999988765
No 277
>PRK10943 cold shock-like protein CspC; Provisional
Probab=23.47 E-value=53 Score=23.41 Aligned_cols=48 Identities=19% Similarity=0.349 Sum_probs=28.8
Q ss_pred cCCeeEEEEeCCeEEEEECCH-HHHHHHHHhcC--C--cccCCCceeeeeccC
Q 021599 34 YGRIRDVDMKRDFAFVEFSDP-RDADDARYSLN--G--RDVDGSRIIVEFARG 81 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~~-eda~~Ai~~ln--g--~~l~Gr~I~V~~ak~ 81 (310)
-|.|++.+-.+||+||+=.+- +++---+..|. + ....|..|..++...
T Consensus 5 ~G~Vk~f~~~kGfGFI~~~~g~~dvFvH~s~l~~~g~~~l~~G~~V~f~~~~~ 57 (69)
T PRK10943 5 KGQVKWFNESKGFGFITPADGSKDVFVHFSAIQGNGFKTLAEGQNVEFEIQDG 57 (69)
T ss_pred ceEEEEEeCCCCcEEEecCCCCeeEEEEhhHccccCCCCCCCCCEEEEEEEEC
Confidence 588899888899999976542 23322222222 2 234567777666553
No 278
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=23.14 E-value=1.6e+02 Score=23.30 Aligned_cols=27 Identities=22% Similarity=0.358 Sum_probs=15.8
Q ss_pred EEEEccCCCCCcHHHHHHHHHhcCCeeEE
Q 021599 12 RLYVGRLASRTRSRDLEEIFSRYGRIRDV 40 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~~~G~V~~v 40 (310)
.||||+++.....+.|+++ .+..|..+
T Consensus 7 ~l~~G~~~~~~~~~~l~~~--gi~~Vi~l 33 (138)
T smart00195 7 HLYLGSYSSALNLALLKKL--GITHVINV 33 (138)
T ss_pred CeEECChhHcCCHHHHHHc--CCCEEEEc
Confidence 4999999876654444331 33345444
No 279
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=23.03 E-value=3.1e+02 Score=24.79 Aligned_cols=54 Identities=17% Similarity=0.279 Sum_probs=34.1
Q ss_pred CCCcEEEEccCCCCC--cHHHHHHHHHhcCC-ee---EEEE-eCCeEEEEEC----CHHHHHHHH
Q 021599 8 YGGTRLYVGRLASRT--RSRDLEEIFSRYGR-IR---DVDM-KRDFAFVEFS----DPRDADDAR 61 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~--te~dL~~~F~~~G~-V~---~v~i-~~~~afV~F~----~~eda~~Ai 61 (310)
+.+.-|+|.-|..+. |..+|+.+|.+.|- +. .|.+ +...|+|+|. +++++..++
T Consensus 92 P~GvaiiVe~LTDN~NRTas~vR~~F~K~GG~lg~~GSV~~mF~~kGvi~~~~~~~~ed~l~e~~ 156 (241)
T COG0217 92 PGGVAIIVEALTDNRNRTASNVRSAFNKNGGNLGEPGSVSYMFDRKGVIVVEKNEIDEDELLEAA 156 (241)
T ss_pred CCceEEEEEeccCCcchhHHHHHHHHHhcCCccCCCceEEEEEeccEEEEECCCCCCHHHHHHHH
Confidence 457889999997655 67899999998863 22 2333 2235566665 444444443
No 280
>cd04894 ACT_ACR-like_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.95 E-value=2.2e+02 Score=20.28 Aligned_cols=37 Identities=24% Similarity=0.361 Sum_probs=24.7
Q ss_pred cCCCCC-cHHHHHHHHHhcC-CeeEEEEeCC--eEEEEECC
Q 021599 17 RLASRT-RSRDLEEIFSRYG-RIRDVDMKRD--FAFVEFSD 53 (310)
Q Consensus 17 nL~~~~-te~dL~~~F~~~G-~V~~v~i~~~--~afV~F~~ 53 (310)
|.|..+ --.||-.++-.|| .|...++..+ .|||.|--
T Consensus 6 nCPDktGLgcdlcr~il~fGl~i~rgd~sTDGkWCyiv~wV 46 (69)
T cd04894 6 NCPDKTGLGCDLCRIILEFGLNITRGDDSTDGRWCYIVFWV 46 (69)
T ss_pred eCCCccCcccHHHHHHHHhceEEEecccccCCcEEEEEEEE
Confidence 555544 3467877788899 4666666554 88888763
No 281
>PF15063 TC1: Thyroid cancer protein 1
Probab=22.94 E-value=50 Score=24.24 Aligned_cols=49 Identities=14% Similarity=0.224 Sum_probs=31.0
Q ss_pred EEEEccCCCCCcHHHHHHHHHhcCCee---EEEEeCCeEEEEECCHHHHHHHHHhc
Q 021599 12 RLYVGRLASRTRSRDLEEIFSRYGRIR---DVDMKRDFAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~~~G~V~---~v~i~~~~afV~F~~~eda~~Ai~~l 64 (310)
+--+.||=.+++...|+.||..-|..+ .+.|+. -...+.++...||..|
T Consensus 27 KkasaNIFe~vn~~qlqrLF~~sGD~kAEeRA~iI~----~~~~d~ee~a~AL~~L 78 (79)
T PF15063_consen 27 KKASANIFENVNLDQLQRLFQKSGDKKAEERARIIW----ECAQDPEEKARALMAL 78 (79)
T ss_pred hhhhhhhhhccCHHHHHHHHHHccchhHHHHHHHHH----hhCCCHHHHHHHHHhc
Confidence 334678888999999999999999642 222221 1224555555665443
No 282
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=22.90 E-value=1.1e+02 Score=28.06 Aligned_cols=28 Identities=18% Similarity=-0.013 Sum_probs=23.0
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCe
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRI 37 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V 37 (310)
.....|+|||++++..-|..++...-.+
T Consensus 95 ~~~~vVaNlPY~Isspii~kll~~~~~~ 122 (259)
T COG0030 95 QPYKVVANLPYNISSPILFKLLEEKFII 122 (259)
T ss_pred CCCEEEEcCCCcccHHHHHHHHhccCcc
Confidence 3467799999999999999998776555
No 283
>PF00533 BRCT: BRCA1 C Terminus (BRCT) domain; InterPro: IPR001357 The BRCT domain (after the C_terminal domain of a breast cancer susceptibility protein) is found predominantly in proteins involved in cell cycle checkpoint functions responsive to DNA damage [], for example as found in the breast cancer DNA-repair protein BRCA1. The domain is an approximately 100 amino acid tandem repeat, which appears to act as a phospho-protein binding domain []. A chitin biosynthesis protein from yeast also seems to belong to this group. ; GO: 0005622 intracellular; PDB: 3L46_A 3AL3_A 3AL2_A 1WF6_A 3II6_X 2NTE_B 3FA2_A 2R1Z_A 2COK_A 2K7F_A ....
Probab=22.79 E-value=1.2e+02 Score=21.02 Aligned_cols=37 Identities=11% Similarity=0.363 Sum_probs=25.5
Q ss_pred CCCcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC
Q 021599 8 YGGTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD 45 (310)
Q Consensus 8 ~~~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~ 45 (310)
..+++++|.++ .....++|..+...+|-.....+...
T Consensus 6 F~g~~f~i~~~-~~~~~~~l~~~i~~~GG~v~~~~~~~ 42 (78)
T PF00533_consen 6 FEGCTFCISGF-DSDEREELEQLIKKHGGTVSNSFSKK 42 (78)
T ss_dssp TTTEEEEESST-SSSHHHHHHHHHHHTTEEEESSSSTT
T ss_pred CCCEEEEEccC-CCCCHHHHHHHHHHcCCEEEeecccC
Confidence 46789999444 45677889999999996554333333
No 284
>KOG0119 consensus Splicing factor 1/branch point binding protein (RRM superfamily) [RNA processing and modification]
Probab=22.60 E-value=2.7e+02 Score=27.96 Aligned_cols=21 Identities=43% Similarity=0.759 Sum_probs=18.4
Q ss_pred CCccCCCCCCCCccCCCCCCC
Q 021599 103 RCFNCGIDGHWARDCKAGDWK 123 (310)
Q Consensus 103 rc~~~G~~g~~~rdc~~~~~~ 123 (310)
.|+.||-.||+..||...+..
T Consensus 287 ~c~~cg~~gH~~~dc~~~~q~ 307 (554)
T KOG0119|consen 287 VCKICGPLGHISIDCKVNDQQ 307 (554)
T ss_pred cccccCCcccccccCCCcccc
Confidence 799999999999999987443
No 285
>PF05711 TylF: Macrocin-O-methyltransferase (TylF); InterPro: IPR008884 This family consists of bacterial macrocin O-methyltransferase (TylF) proteins. TylF is responsible for the methylation of macrocin to produce tylosin. Tylosin is a macrolide antibiotic used in veterinary medicine to treat infections caused by Gram-positive bacteria and as an animal growth promoter in the Sus scrofa (Pig) industry. It is produced by several Streptomyces species. As with other macrolides, the antibiotic activity of tylosin is due to the inhibition of protein biosynthesis by a mechanism that involves the binding of tylosin to the ribosome, preventing the formation of the mRNA-aminoacyl-tRNA-ribosome complex [].; PDB: 3TOS_D 2WK1_A.
Probab=22.47 E-value=39 Score=30.70 Aligned_cols=57 Identities=23% Similarity=0.313 Sum_probs=37.3
Q ss_pred CCcHHHHHHHHHhcCCee-EEEEeCC---------------eEEEEECCHHHHHHHHHhcCCcccCCCceeee
Q 021599 21 RTRSRDLEEIFSRYGRIR-DVDMKRD---------------FAFVEFSDPRDADDARYSLNGRDVDGSRIIVE 77 (310)
Q Consensus 21 ~~te~dL~~~F~~~G~V~-~v~i~~~---------------~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~ 77 (310)
.++.+++++.|.+||-+. .|.+++| +++|+..-.+....||+.|-.....|-.|.+.
T Consensus 139 ~~s~e~V~~n~~~~gl~~~~v~~vkG~F~dTLp~~p~~~IAll~lD~DlYesT~~aLe~lyprl~~GGiIi~D 211 (248)
T PF05711_consen 139 AVSLEEVRENFARYGLLDDNVRFVKGWFPDTLPDAPIERIALLHLDCDLYESTKDALEFLYPRLSPGGIIIFD 211 (248)
T ss_dssp THHHHHHHHCCCCTTTSSTTEEEEES-HHHHCCC-TT--EEEEEE---SHHHHHHHHHHHGGGEEEEEEEEES
T ss_pred ccCHHHHHHHHHHcCCCcccEEEECCcchhhhccCCCccEEEEEEeccchHHHHHHHHHHHhhcCCCeEEEEe
Confidence 346788889999998432 4555443 55667777888888998877776666665553
No 286
>cd04930 ACT_TH ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). ACT domain of the nonheme iron-dependent aromatic amino acid hydroxylase, tyrosine hydroxylases (TH). TH catalyses the hydroxylation of L-Tyr to 3,4-dihydroxyphenylalanine, the rate limiting step in the biosynthesis of catecholamines (dopamine, noradrenaline and adrenaline), functioning as hormones and neurotransmitters. The enzyme is not regulated by its amino acid substrate, but instead by phosphorylation at several serine residues located N-terminal of the ACT domain, and by feedback inhibition by catecholamines at the active site. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.23 E-value=3.9e+02 Score=21.01 Aligned_cols=43 Identities=16% Similarity=0.251 Sum_probs=24.4
Q ss_pred cHHHHHHHHHhcC-CeeEEEEe------CC-eEEEEEC-CHHHHHHHHHhcC
Q 021599 23 RSRDLEEIFSRYG-RIRDVDMK------RD-FAFVEFS-DPRDADDARYSLN 65 (310)
Q Consensus 23 te~dL~~~F~~~G-~V~~v~i~------~~-~afV~F~-~~eda~~Ai~~ln 65 (310)
.-.++...|..+| .++.|.-- .. +-||+|. +.++++.||+.|.
T Consensus 54 sL~~iL~~Fa~~gINLt~IESRP~~~~~~eY~FfIdieg~~~~~~~aL~~L~ 105 (115)
T cd04930 54 SLSRILKVFETFEAKIHHLESRPSRKEGGDLEVLVRCEVHRSDLLQLISSLR 105 (115)
T ss_pred HHHHHHHHHHHCCCCEEEEECCcCCCCCceEEEEEEEEeCHHHHHHHHHHHH
Confidence 4456677777777 45555431 11 3355555 3446677777664
No 287
>PRK09890 cold shock protein CspG; Provisional
Probab=22.17 E-value=56 Score=23.37 Aligned_cols=20 Identities=20% Similarity=0.449 Sum_probs=17.1
Q ss_pred cCCeeEEEEeCCeEEEEECC
Q 021599 34 YGRIRDVDMKRDFAFVEFSD 53 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~ 53 (310)
.|.|++.+-.++|+||+=.+
T Consensus 6 ~G~Vk~f~~~kGfGFI~~~~ 25 (70)
T PRK09890 6 TGLVKWFNADKGFGFITPDD 25 (70)
T ss_pred eEEEEEEECCCCcEEEecCC
Confidence 58899988889999998765
No 288
>PRK12450 foldase protein PrsA; Reviewed
Probab=22.16 E-value=1.6e+02 Score=27.44 Aligned_cols=39 Identities=15% Similarity=0.342 Sum_probs=29.9
Q ss_pred CCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcC
Q 021599 21 RTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 21 ~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~ln 65 (310)
.+|+++|+++|..|-. .+.+ .+|.|.+.+.|+.++..|.
T Consensus 132 ~Vtd~evk~~y~~~~~--~~~~----~~I~~~~~~~A~~i~~~l~ 170 (309)
T PRK12450 132 TISKKDYRQAYDAYTP--TMTA----EIMQFEKEEDAKAALEAVK 170 (309)
T ss_pred CCCHHHHHHHHHHhCc--ccee----EEEEeCCHHHHHHHHHHHH
Confidence 4799999999998743 2222 3578899999999998885
No 289
>cd06408 PB1_NoxR The PB1 domain is present in the Epichloe festucae NoxR protein (NADPH oxidase regulator), a key regulator of NADPH oxidase isoform, NoxA. NoxA is essential for growth control of the fungal endophyte in plant tissue in the process of symbiotic interaction between a fungi and its plant host. The Epichloe festucae p67(phox)-like regulator, NoxR, dispensable in culture but essential in plants for the symbiotic interaction. Plants infected with a noxR deletion mutant show severe stunting and premature senescence, whereas hyphae in the meristematic tissues show increased branching leading to increased fungal colonization of pseudostem and leaf blade tissue. The PB1 domain is a modular domain mediating specific protein-protein interactions which a play role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is
Probab=21.95 E-value=2.9e+02 Score=20.79 Aligned_cols=51 Identities=22% Similarity=0.232 Sum_probs=33.4
Q ss_pred EEEccCCCCCcHHHHHHHH-HhcCC--eeEEEEeCCeEEEEECCHHHHHHHHHh
Q 021599 13 LYVGRLASRTRSRDLEEIF-SRYGR--IRDVDMKRDFAFVEFSDPRDADDARYS 63 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F-~~~G~--V~~v~i~~~~afV~F~~~eda~~Ai~~ 63 (310)
|++-.|+..++-++|.+-+ ..|+- ...+++.-.-.+|+..+.+|.+.||..
T Consensus 13 v~~i~v~~~i~f~dL~~kIrdkf~~~~~~~iKykDEGD~iti~sq~DLd~Ai~~ 66 (86)
T cd06408 13 TRYIMIGPDTGFADFEDKIRDKFGFKRRLKIKMKDDGDMITMGDQDDLDMAIDT 66 (86)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHhCCCCceEEEEEcCCCCccccCHHHHHHHHHH
Confidence 4445688888888776554 34553 223333333458999999999999864
No 290
>PF01823 MACPF: MAC/Perforin domain; InterPro: IPR020864 The membrane attack complex/perforin (MACPF) domain is conserved in bacteria, fungi, mammals and plants. It was originally identified and named as being common to five complement components (C6, C7, C8-alpha, C8-beta, and C9) and perforin. These molecules perform critical functions in innate and adaptive immunity. The MAC family proteins and perforin are known to participate in lytic pore formation. In response to pathogen infection, a sequential and highly specific interaction between the constituent elements occurs to form transmembrane channels which are known as the membrane-attack complex (MAC).Only a few other MACPF proteins have been characterised and several are thought to form pores for invasion or protection [, , ]. Examples are proteins from malarial parasites [], the cytolytic toxins from sea anemones [], and proteins that provide plant immunity [, ]. Functionally uncharacterised MACPF proteins are also evident in pathogenic bacteria such as Chlamydia spp [] and Photorhabdus luminescens (Xenorhabdus luminescens) []. The MACPF domain is commonly found to be associated with other N- and C-terminal domains, such as TSP1 (see PDOC50092 from PROSITEDOC), LDLRA (see PDOC00929 from PROSITEDOC), EGF-like (see PDOC00021 from PROSITEDOC),Sushi/CCP/SCR (see PDOC50923 from PROSITEDOC), FIMAC or C2 (see PDOC00380 from PROSITEDOC). They probably control or target MACPF function [, ]. The MACPF domain oligomerizes, undergoes conformational change, and is required for lytic activity. The MACPF domain consists of a central kinked four-stranded antiparallel beta sheet surrounded by alpha helices and beta strands, forming two structural segments. Overall, the MACPF domain has a thin L-shaped appearance. MACPF domains exhibit limited sequence similarity but contain a signature [YW]-G-[TS]-H-[FY]-x(6)-G-G motif [, , ]. Some proteins known to contain a MACPF domain are listed below: Vertebrate complement proteins C6 to C9. Complement factors C6 to C9 assemble to form a scaffold, the membrane attack complex (MAC), that permits C9 polymerisation into pores that lyse Gram-negative pathogens [, ]. Vertebrate perforin. It is delivered by natural killer cells and cytotoxic T lymphocytes and forms oligomeric pores (12 to 18 monomers) in the plasma membrane of either virus-infected or transformed cells. Arabidopsis thaliana (Mouse-ear cress) constitutively activated cell death 1 (CAD1) protein. It is likely to act as a mediator that recognises plant signals for pathogen infection []. Arabidopsis thaliana (Mouse-ear cress) necrotic spotted lesions 1 (NSL1) protein []. Venomous sea anemone Phyllodiscus semoni (Night anemone) toxins PsTX-60A and PsTX-60B []. Venomous sea anemone Actineria villosa (Okinawan sea anemone) toxin AvTX-60A []. Plasmodium sporozoite microneme protein essential for cell traversal 2 (SPECT2). It is essential for the membrane-wounding activity of the sporozoite and is involved in its traversal of the sinusoidal cell layer prior to hepatocyte-infection []. P. luminescens Plu-MACPF. Although nonlytic, it was shown to bind to cell membranes []. Chlamydial putative uncharacterised protein CT153 []. ; PDB: 2QP2_A 3OJY_B 3NSJ_A 4E0S_B 3T5O_A 4A5W_B 2QQH_A 2RD7_A.
Probab=21.93 E-value=1e+02 Score=26.30 Aligned_cols=31 Identities=16% Similarity=0.283 Sum_probs=18.9
Q ss_pred EccCCCCCcHHH---HHHHHHhcCCeeEEEEeCC
Q 021599 15 VGRLASRTRSRD---LEEIFSRYGRIRDVDMKRD 45 (310)
Q Consensus 15 V~nL~~~~te~d---L~~~F~~~G~V~~v~i~~~ 45 (310)
|.+||...+..+ +.+||..||...-..+..|
T Consensus 53 l~~L~~~~~~~~~~~y~~f~~~yGTH~v~~~~lG 86 (212)
T PF01823_consen 53 LNALPAEYNSDNTDEYYRFFDKYGTHYVTSVTLG 86 (212)
T ss_dssp HHTSHSS--HHHHHHHHHHHHHH-SEEEEEEEEE
T ss_pred HHhhCcccCccchHHHHHHHHHhCcEEEEEEEEc
Confidence 446777776666 7789999998555544444
No 291
>COG0002 ArgC Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=21.82 E-value=1.6e+02 Score=28.09 Aligned_cols=31 Identities=13% Similarity=0.310 Sum_probs=19.4
Q ss_pred cEEEEccCCCCCcHHHHHHHHHhc-CCeeEEEE
Q 021599 11 TRLYVGRLASRTRSRDLEEIFSRY-GRIRDVDM 42 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~~~-G~V~~v~i 42 (310)
++|++ .|...++.+||.++|.+| ..-..|.|
T Consensus 247 ~Ti~~-~l~~~~t~~~i~~~y~~~Y~~epfVrv 278 (349)
T COG0002 247 ATIYL-KLKDLVTLEELHAAYEEFYAGEPFVRV 278 (349)
T ss_pred EEEEE-ecCCCCCHHHHHHHHHHHhCCCCeEEE
Confidence 34444 345568999999999764 44444444
No 292
>PF09078 CheY-binding: CheY binding; InterPro: IPR015162 The CheY binding domain is found in the response regulator histidine kinase CheA. It adopts a secondary structure consisting of an open-face beta/alpha sandwich, with four antiparallel beta-strands and two alpha-helices. It binds to a corresponding domain on CheY, with subsequent phosphorylation of the CheY Asp57 residue, and activation of CheY, which then affects flagellar rotation []. ; PDB: 1FWP_A 1EAY_C 1A0O_D 1FFG_B 1FFS_B 1FFW_D.
Probab=21.78 E-value=3.1e+02 Score=19.56 Aligned_cols=63 Identities=21% Similarity=0.164 Sum_probs=31.8
Q ss_pred EEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcCCcccCCCceee
Q 021599 12 RLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLNGRDVDGSRIIV 76 (310)
Q Consensus 12 ~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V 76 (310)
+|.+.+|... ..+-|.+-+...|+|.......+---|+..+...+...+.-|- +.|+-..|.+
T Consensus 2 rI~L~~l~~k-d~~lL~eELgnLG~v~~~~~~~~~l~~~L~T~~s~DDI~AV~C-FVid~dQI~i 64 (65)
T PF09078_consen 2 RITLSGLKEK-DVDLLLEELGNLGTVSDQEKGGDSLEVWLETSVSADDIIAVCC-FVIDPDQISI 64 (65)
T ss_dssp EEEEES--TT-HHHHHHHHHHHHS--EEEEEESSEEEEEE-STSSHHHHHHHHT-TTS-GGGEEE
T ss_pred eEEecCCCHH-HHHHHHHHHhcCccEEEEecCCCeEEEEECCCCChhhEEEEEE-EEEcHHHeEE
Confidence 3455555432 3445778888999999887766644445544444443332222 4555555544
No 293
>PHA03008 hypothetical protein; Provisional
Probab=21.70 E-value=1.2e+02 Score=26.54 Aligned_cols=36 Identities=3% Similarity=0.178 Sum_probs=30.6
Q ss_pred CcEEEEccCCCCCcHHHHHHHHHhcCCeeEEEEeCC
Q 021599 10 GTRLYVGRLASRTRSRDLEEIFSRYGRIRDVDMKRD 45 (310)
Q Consensus 10 ~~~l~V~nL~~~~te~dL~~~F~~~G~V~~v~i~~~ 45 (310)
.-.+||.|+..--...-|+.||.+|..+.++-++.|
T Consensus 21 ~d~~~~snit~~h~~n~i~~ff~~~d~~~~~ifvpg 56 (234)
T PHA03008 21 CDIAFISNITHIHDHNIIKIFFDKFDDFDEIIFVPG 56 (234)
T ss_pred ccEEEEecccccccccHHHHHHhhccccceEEEccC
Confidence 456889999888888899999999999988877665
No 294
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=21.64 E-value=35 Score=24.30 Aligned_cols=55 Identities=16% Similarity=0.246 Sum_probs=30.8
Q ss_pred CCCcEEEEcc-CCCCCcH-HHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhc
Q 021599 8 YGGTRLYVGR-LASRTRS-RDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSL 64 (310)
Q Consensus 8 ~~~~~l~V~n-L~~~~te-~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~l 64 (310)
..++.||--. --..+.. ++|++.|..+..... +++-.+|.-|.+.++|..++..+
T Consensus 8 aaGyaLF~v~~~~~~~~~~~~v~~~~~~~~~f~k--~vkL~aF~pF~s~~~ALe~~~ai 64 (67)
T PF08156_consen 8 AAGYALFKVKDEKDEIGSDEEVQKSFSDPEKFSK--IVKLKAFSPFKSAEEALENANAI 64 (67)
T ss_pred CCeeeeeEEechhhhhccHHHHHHHHcCHHHHhh--hhhhhhccCCCCHHHHHHHHHHh
Confidence 4456666433 2222211 577777764433222 22236899999988888777654
No 295
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=21.47 E-value=1.1e+02 Score=29.11 Aligned_cols=52 Identities=12% Similarity=0.197 Sum_probs=29.8
Q ss_pred cEEEEccCCCCCcHHHHHHHHH---hcCCe--eEEEEe-------------CCeEEEEECCHHHHHHHHH
Q 021599 11 TRLYVGRLASRTRSRDLEEIFS---RYGRI--RDVDMK-------------RDFAFVEFSDPRDADDARY 62 (310)
Q Consensus 11 ~~l~V~nL~~~~te~dL~~~F~---~~G~V--~~v~i~-------------~~~afV~F~~~eda~~Ai~ 62 (310)
..+||+++-..+..+.|..+-+ ..-.+ .++.++ -.|++|.|.++++|..-.+
T Consensus 161 ~v~yv~Gffltv~p~ai~~v~qh~~e~~r~~~lnlsapfI~q~~~~~l~~v~~y~DiifgNe~EA~af~~ 230 (343)
T KOG2854|consen 161 KVFYVAGFFLTVSPDAIRKVAQHAAENNRVFTLNLSAPFISQFFKDALDKVLPYADIIFGNEDEAAAFAR 230 (343)
T ss_pred eEEEEEEEEEEeChHHHHHHHHHHHHhcchhheeccchhHHHHHHHHHHhhcCcceEEEcCHHHHHHHHH
Confidence 4567777777765555443332 22221 111111 1389999999998877653
No 296
>PF06014 DUF910: Bacterial protein of unknown function (DUF910); InterPro: IPR009256 This family consists of several short bacterial proteins of unknown function.; PDB: 2NN4_A.
Probab=21.31 E-value=68 Score=22.64 Aligned_cols=18 Identities=22% Similarity=0.462 Sum_probs=11.1
Q ss_pred cHHHHHHHHHhcCCeeEE
Q 021599 23 RSRDLEEIFSRYGRIRDV 40 (310)
Q Consensus 23 te~dL~~~F~~~G~V~~v 40 (310)
|--||.+++.+||.++++
T Consensus 3 tlyDVqQLLK~fG~~IY~ 20 (62)
T PF06014_consen 3 TLYDVQQLLKKFGIIIYV 20 (62)
T ss_dssp SHHHHHHHHHTTS-----
T ss_pred cHHHHHHHHHHCCEEEEe
Confidence 446899999999986664
No 297
>PF13193 AMP-binding_C: AMP-binding enzyme C-terminal domain; PDB: 3L8C_B 2VSQ_A 3R44_A 3RG2_B 3A9U_A 3A9V_A 3NI2_A 1V26_B 1ULT_B 1V25_B ....
Probab=21.16 E-value=2.9e+02 Score=19.11 Aligned_cols=44 Identities=18% Similarity=0.255 Sum_probs=27.9
Q ss_pred HHHHHHHhcCCeeEEEEeC------C---eEEEEECCHHHHHHHHH-hcCCcccC
Q 021599 26 DLEEIFSRYGRIRDVDMKR------D---FAFVEFSDPRDADDARY-SLNGRDVD 70 (310)
Q Consensus 26 dL~~~F~~~G~V~~v~i~~------~---~afV~F~~~eda~~Ai~-~lng~~l~ 70 (310)
+|++.+.++..|.++.+.- + +|||.. +.+++...+. .|..+++-
T Consensus 1 EIE~~l~~~~~V~~~~V~~~~d~~~g~~l~a~vv~-~~~~i~~~~~~~l~~~~~P 54 (73)
T PF13193_consen 1 EIESVLRQHPGVAEAAVVGVPDEDWGERLVAFVVL-DEEEIRDHLRDKLPPYMVP 54 (73)
T ss_dssp HHHHHHHTSTTEEEEEEEEEEETTTEEEEEEEEEE-HHHHHHHHHHHHS-GGGS-
T ss_pred CHHHHHhcCCCccEEEEEEEEcccccccceeEEEe-eecccccchhhhCCCccee
Confidence 5778888888888876631 1 888888 4455555554 46666655
No 298
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=21.04 E-value=61 Score=23.13 Aligned_cols=20 Identities=20% Similarity=0.446 Sum_probs=16.6
Q ss_pred cCCeeEEEEeCCeEEEEECC
Q 021599 34 YGRIRDVDMKRDFAFVEFSD 53 (310)
Q Consensus 34 ~G~V~~v~i~~~~afV~F~~ 53 (310)
.|.|++.+-.++|+||+-.+
T Consensus 6 ~G~Vk~f~~~kGfGFI~~~~ 25 (70)
T PRK10354 6 TGIVKWFNADKGFGFITPDD 25 (70)
T ss_pred eEEEEEEeCCCCcEEEecCC
Confidence 58888888889999998654
No 299
>TIGR03124 ctirate_citX holo-ACP synthase CitX. Members of this protein family are the CitX protein, or CitX domain of the CitXG bifunctional protein, of the citrate lyase system. CitX transfers the prosthetic group 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA to the citrate lyase gamma chain, an acyl carrier protein. This enzyme may be designated holo-ACP synthase, holo-citrate lyase synthase, or apo-citrate lyase phosphoribosyl-dephospho-CoA transferase. In a few genera, including Haemophilus, this protein occurs as a fusion protein with CitG (2.7.8.25), an enzyme involved in prosthetic group biosynthesis. This CitX family is easily separated from the holo-ACP synthases of other enzyme systems.
Probab=20.88 E-value=3.9e+02 Score=22.64 Aligned_cols=33 Identities=15% Similarity=0.025 Sum_probs=22.2
Q ss_pred eEE-EEECCHHHHHHHHHhcCCcccCCCceeeee
Q 021599 46 FAF-VEFSDPRDADDARYSLNGRDVDGSRIIVEF 78 (310)
Q Consensus 46 ~af-V~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ 78 (310)
.+| |.-.+..+++.++-.+....-.|+-+-+..
T Consensus 80 E~~~~v~~~a~~vK~~~i~iEe~hplGRL~DlDV 113 (165)
T TIGR03124 80 EAFLVVDAPALELKRLMIKLEESHPLGRLWDIDV 113 (165)
T ss_pred EEEEEeCCCHHHHHHHHHHHHhCCchhhheehee
Confidence 554 444567777777777776667777777763
No 300
>PF02829 3H: 3H domain; InterPro: IPR004173 The 3H domain is named after its three highly conserved histidine residues. The 3H domain appears to be a small molecule-binding domain, based on its occurrence with other domains []. Several proteins carrying this domain are transcriptional regulators from the biotin repressor family. The transcription regulator TM1602 from Thermotoga maritima is a DNA-binding protein thought to belong to a family of de novo NAD synthesis pathway regulators. TM1602 has an N-terminal DNA-binding domain and a C-terminal 3H regulatory domain. The N-terminal domain appears to bind to the NAD promoter region and repress the de novo NAD biosynthesis operon, while the C-terminal 3H domain may bind to nicotinamide, nicotinic acid, or other substrate/products []. The 3H domain has a 2-layer alpha/beta sandwich fold.; GO: 0005488 binding; PDB: 1J5Y_A.
Probab=20.87 E-value=3.2e+02 Score=20.98 Aligned_cols=46 Identities=26% Similarity=0.268 Sum_probs=32.2
Q ss_pred CCcHHHHHHHHHhcCCeeEEEEeCC-----eEEEEECCHHHHHHHHHhcCC
Q 021599 21 RTRSRDLEEIFSRYGRIRDVDMKRD-----FAFVEFSDPRDADDARYSLNG 66 (310)
Q Consensus 21 ~~te~dL~~~F~~~G~V~~v~i~~~-----~afV~F~~~eda~~Ai~~lng 66 (310)
+-.+++|..+...=|.|.+|.+... .|.+...+..|++..|+.|+.
T Consensus 8 ~~~~~EL~~IVd~Gg~V~DV~veHp~YG~i~~~L~i~sr~Dv~~Fi~~l~~ 58 (98)
T PF02829_consen 8 DEIEDELEIIVDNGGRVLDVIVEHPVYGEITGNLNISSRRDVDKFIEKLEK 58 (98)
T ss_dssp GGHHHHHHHHHHTT-EEEEEEEEETTTEEEEEEEEE-SHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCEEEEEEEeCCCCcEEEEEEecCCHHHHHHHHHHHhc
Confidence 3356777777775568888888533 567788899999999887753
No 301
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=20.61 E-value=2.8e+02 Score=18.74 Aligned_cols=53 Identities=19% Similarity=0.253 Sum_probs=29.1
Q ss_pred EEccCCCCCcHHHHHHHHHhcC-CeeEEEEeC----CeEEEEEC--C--HHHHHHHHHhcCC
Q 021599 14 YVGRLASRTRSRDLEEIFSRYG-RIRDVDMKR----DFAFVEFS--D--PRDADDARYSLNG 66 (310)
Q Consensus 14 ~V~nL~~~~te~dL~~~F~~~G-~V~~v~i~~----~~afV~F~--~--~eda~~Ai~~lng 66 (310)
+|..-...-.-.+|-++|.++| .|.++.+.. +.+++.|. + ..++..+|..+.|
T Consensus 3 ~v~~~d~~G~l~~i~~~l~~~~inI~~~~~~~~~~~~~~~~~i~v~~~~~~~~~~~l~~~~~ 64 (73)
T cd04902 3 VVRNTDRPGVIGKVGTILGEAGINIAGMQVGRDEPGGEALMVLSVDEPVPDEVLEELRALPG 64 (73)
T ss_pred EEEeCCCCCHHHHHHHHHHHcCcChhheEeeccCCCCEEEEEEEeCCCCCHHHHHHHHcCCC
Confidence 3433344445667888898888 566655422 35544443 2 2345555555554
No 302
>COG4010 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.37 E-value=2.6e+02 Score=23.26 Aligned_cols=47 Identities=17% Similarity=0.222 Sum_probs=35.8
Q ss_pred cCCCCCcHHHHHHHHHhcCCeeEEEEeCCeEEEEECCHHHHHHHHHhcC
Q 021599 17 RLASRTRSRDLEEIFSRYGRIRDVDMKRDFAFVEFSDPRDADDARYSLN 65 (310)
Q Consensus 17 nL~~~~te~dL~~~F~~~G~V~~v~i~~~~afV~F~~~eda~~Ai~~ln 65 (310)
.|+..+.++-|+++.+-.|-|.+..- .+ -.+.|.+.+.+.+||..+.
T Consensus 118 ~L~epl~~eRlqDi~E~hgvIiE~~E-~D-~V~i~Gd~drVk~aLke~~ 164 (170)
T COG4010 118 HLREPLAEERLQDIAETHGVIIEFEE-YD-LVAIYGDSDRVKKALKEIG 164 (170)
T ss_pred ecCchhHHHHHHHHHHhhheeEEeee-cc-EEEEeccHHHHHHHHHHHH
Confidence 46777888999999999998877651 11 2456889999999997653
No 303
>CHL00030 rpl23 ribosomal protein L23
Probab=20.28 E-value=1.4e+02 Score=22.88 Aligned_cols=30 Identities=13% Similarity=0.312 Sum_probs=21.9
Q ss_pred EEEccCCCCCcHHHHHHHHHh-cC-CeeEEEE
Q 021599 13 LYVGRLASRTRSRDLEEIFSR-YG-RIRDVDM 42 (310)
Q Consensus 13 l~V~nL~~~~te~dL~~~F~~-~G-~V~~v~i 42 (310)
.|+--++..++..+|++.|+. || +|..|..
T Consensus 21 ~y~F~V~~~anK~eIK~avE~lf~VkV~~VNt 52 (93)
T CHL00030 21 QYTFDVDSGSTKTEIKHWIELFFGVKVIAVNS 52 (93)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCeEEEEEE
Confidence 444456788999999999987 66 5666654
No 304
>KOG3671 consensus Actin regulatory protein (Wiskott-Aldrich syndrome protein) [Signal transduction mechanisms; Cytoskeleton]
Probab=20.27 E-value=1.5e+02 Score=29.73 Aligned_cols=46 Identities=13% Similarity=0.028 Sum_probs=28.8
Q ss_pred CCcHHHHHHHHHhcCCeeEEEEe---CCeEEEEECCHHHHHHHHHhcCC
Q 021599 21 RTRSRDLEEIFSRYGRIRDVDMK---RDFAFVEFSDPRDADDARYSLNG 66 (310)
Q Consensus 21 ~~te~dL~~~F~~~G~V~~v~i~---~~~afV~F~~~eda~~Ai~~lng 66 (310)
-|-+++|.+-|.-+-.-.++..+ .+++=+.|.++++|++.++++..
T Consensus 89 liWdqELY~nf~y~q~r~ffhtFegddc~aGLnF~~E~EA~~F~k~V~~ 137 (569)
T KOG3671|consen 89 LIWDQELYQNFEYRQPRTFFHTFEGDDCQAGLNFASEEEAQKFRKKVQD 137 (569)
T ss_pred eeehHHhhhhceeccCccceeeeccccceeeecccCHHHHHHHHHHHHH
Confidence 34556777777654433333222 23666789999999988776553
No 305
>COG3102 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.26 E-value=1.1e+02 Score=26.18 Aligned_cols=29 Identities=17% Similarity=-0.060 Sum_probs=19.2
Q ss_pred HHHHHHHHHhcCCcccCCCceeeeeccCC
Q 021599 54 PRDADDARYSLNGRDVDGSRIIVEFARGG 82 (310)
Q Consensus 54 ~eda~~Ai~~lng~~l~Gr~I~V~~ak~~ 82 (310)
++-...|+..++...+..--|.|+.+.++
T Consensus 123 eel~~~~~~l~~~~~l~~~gi~vk~ssp~ 151 (185)
T COG3102 123 EELNARALALLNDEFLWELGISVKLSSPQ 151 (185)
T ss_pred HHHHHHHHhhcchhhcccCceEEEecCCC
Confidence 45555677777766665555888887755
No 306
>PF14084 DUF4264: Protein of unknown function (DUF4264)
Probab=20.17 E-value=1.3e+02 Score=20.50 Aligned_cols=35 Identities=17% Similarity=0.228 Sum_probs=29.0
Q ss_pred eEEEEECCHHHHHHHHHhcCCcccCCCceeeeeccC
Q 021599 46 FAFVEFSDPRDADDARYSLNGRDVDGSRIIVEFARG 81 (310)
Q Consensus 46 ~afV~F~~~eda~~Ai~~lng~~l~Gr~I~V~~ak~ 81 (310)
.|.++|...+++-+.++.|| ..|.+..|...+++.
T Consensus 5 iat~~~~~~~dlYKvVDfLN-ktLK~~~lmFGLs~d 39 (52)
T PF14084_consen 5 IATKEFEYNDDLYKVVDFLN-KTLKDKNLMFGLSKD 39 (52)
T ss_pred EEEEEecCCccHHHHHHHHh-hhhhhccEEEEEeec
Confidence 47889999999999999998 677888887777763
No 307
>PRK06131 dihydroxy-acid dehydratase; Validated
Probab=20.07 E-value=1.7e+02 Score=29.94 Aligned_cols=31 Identities=16% Similarity=0.108 Sum_probs=21.4
Q ss_pred EEECCHHHHHHHHHhcCCcc-c-CCCceeeeeccC
Q 021599 49 VEFSDPRDADDARYSLNGRD-V-DGSRIIVEFARG 81 (310)
Q Consensus 49 V~F~~~eda~~Ai~~lng~~-l-~Gr~I~V~~ak~ 81 (310)
+.|+++++|.+||. +|.. | .|..|.|.+.-|
T Consensus 405 ~VF~see~a~~ai~--~g~i~i~~gdVvVIRyeGP 437 (571)
T PRK06131 405 VVFEGYEDYKARID--DPDLDVDEDTVLVLRNAGP 437 (571)
T ss_pred EEECCHHHHHHHHh--CCCcCCCCCeEEEEeCCCC
Confidence 56999999999983 4443 2 566666666553
Done!