Query 036035
Match_columns 190
No_of_seqs 268 out of 2479
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 08:47:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036035.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036035hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4207 Predicted splicing fac 99.9 1.1E-22 2.4E-27 154.7 14.4 67 1-67 29-95 (256)
2 KOG0107 Alternative splicing f 99.8 2.2E-19 4.8E-24 133.4 14.5 62 1-67 26-87 (195)
3 PLN03134 glycine-rich RNA-bind 99.7 1.1E-16 2.3E-21 118.8 11.2 69 1-69 50-118 (144)
4 KOG0113 U1 small nuclear ribon 99.6 3.6E-14 7.8E-19 113.5 14.3 67 1-67 117-183 (335)
5 KOG0122 Translation initiation 99.6 1E-14 2.2E-19 113.8 7.3 65 1-65 205-269 (270)
6 smart00361 RRM_1 RNA recogniti 99.5 2.7E-14 5.9E-19 93.1 7.9 59 1-59 4-69 (70)
7 PF13893 RRM_5: RNA recognitio 99.5 4.3E-14 9.2E-19 88.0 8.5 56 2-62 1-56 (56)
8 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 2.9E-14 6.2E-19 119.6 8.8 65 1-65 285-349 (352)
9 KOG0130 RNA-binding protein RB 99.5 2.8E-14 6.2E-19 102.2 5.8 66 1-66 88-153 (170)
10 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 9.5E-14 2.1E-18 116.5 7.9 65 1-65 19-83 (352)
11 TIGR01659 sex-lethal sex-letha 99.5 7.8E-14 1.7E-18 117.0 7.3 65 1-65 123-187 (346)
12 KOG0125 Ataxin 2-binding prote 99.5 1.1E-13 2.4E-18 112.0 6.9 63 1-65 112-174 (376)
13 TIGR01659 sex-lethal sex-letha 99.5 4.5E-13 9.7E-18 112.5 10.7 66 1-66 209-276 (346)
14 KOG0148 Apoptosis-promoting RN 99.4 1.9E-13 4.1E-18 108.2 5.6 66 1-66 78-143 (321)
15 PF00076 RRM_1: RNA recognitio 99.4 6.2E-13 1.3E-17 85.6 6.8 57 1-58 14-70 (70)
16 KOG0126 Predicted RNA-binding 99.4 4.9E-14 1.1E-18 105.7 0.1 65 1-65 51-115 (219)
17 smart00360 RRM RNA recognition 99.4 1.7E-12 3.6E-17 82.6 7.2 60 1-60 12-71 (71)
18 KOG0111 Cyclophilin-type pepti 99.4 4E-13 8.6E-18 103.7 4.4 67 2-68 27-93 (298)
19 KOG0105 Alternative splicing f 99.4 4E-12 8.6E-17 95.8 8.9 63 1-66 22-84 (241)
20 TIGR01645 half-pint poly-U bin 99.4 2.5E-12 5.5E-17 114.1 8.5 66 1-66 220-285 (612)
21 KOG0121 Nuclear cap-binding pr 99.3 3E-12 6.4E-17 91.1 6.4 64 1-64 52-115 (153)
22 KOG0149 Predicted RNA-binding 99.3 1.4E-12 3.1E-17 101.4 5.0 63 1-64 28-90 (247)
23 KOG0117 Heterogeneous nuclear 99.3 3.8E-12 8.2E-17 106.8 7.5 65 1-65 99-164 (506)
24 TIGR01622 SF-CC1 splicing fact 99.3 5E-12 1.1E-16 109.7 8.2 64 1-64 202-265 (457)
25 TIGR01642 U2AF_lg U2 snRNP aux 99.3 6.6E-12 1.4E-16 110.3 9.0 65 1-65 311-375 (509)
26 TIGR01645 half-pint poly-U bin 99.3 4.8E-12 1E-16 112.3 7.2 63 1-63 123-185 (612)
27 PF14259 RRM_6: RNA recognitio 99.3 9.9E-12 2.1E-16 80.5 6.7 57 1-58 14-70 (70)
28 KOG0145 RNA-binding protein EL 99.3 5E-12 1.1E-16 99.8 5.9 65 1-65 57-121 (360)
29 smart00362 RRM_2 RNA recogniti 99.3 1.8E-11 3.8E-16 78.1 7.3 58 1-60 15-72 (72)
30 KOG0131 Splicing factor 3b, su 99.3 4.2E-12 9.1E-17 95.3 4.9 62 2-63 26-87 (203)
31 PLN03120 nucleic acid binding 99.3 1.5E-11 3.3E-16 98.2 8.2 61 1-65 20-80 (260)
32 TIGR01622 SF-CC1 splicing fact 99.3 1.7E-11 3.6E-16 106.5 8.0 63 1-64 105-167 (457)
33 TIGR01628 PABP-1234 polyadenyl 99.2 1.7E-11 3.7E-16 109.2 7.9 64 1-65 301-364 (562)
34 TIGR01628 PABP-1234 polyadenyl 99.2 2E-11 4.4E-16 108.7 8.2 64 1-64 16-79 (562)
35 KOG0127 Nucleolar protein fibr 99.2 1.8E-11 3.8E-16 105.1 7.3 65 1-66 133-197 (678)
36 KOG0415 Predicted peptidyl pro 99.2 9.1E-12 2E-16 102.0 5.1 64 1-64 255-318 (479)
37 PLN03213 repressor of silencin 99.2 3.7E-11 8E-16 102.3 6.9 61 1-65 26-88 (759)
38 PLN03121 nucleic acid binding 99.2 5.8E-11 1.2E-15 93.6 7.6 60 1-64 21-80 (243)
39 KOG0145 RNA-binding protein EL 99.2 6.3E-11 1.4E-15 93.7 7.7 63 2-64 295-357 (360)
40 TIGR01642 U2AF_lg U2 snRNP aux 99.2 5.7E-11 1.2E-15 104.4 8.1 64 1-64 435-501 (509)
41 KOG0148 Apoptosis-promoting RN 99.2 6.2E-11 1.3E-15 94.1 6.4 60 1-66 180-239 (321)
42 KOG0109 RNA-binding protein LA 99.2 4.1E-11 8.9E-16 95.9 5.2 57 1-65 18-74 (346)
43 cd00590 RRM RRM (RNA recogniti 99.2 2.1E-10 4.5E-15 73.4 7.7 60 1-61 15-74 (74)
44 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.2 9.2E-11 2E-15 102.8 7.9 60 1-65 292-351 (481)
45 COG0724 RNA-binding proteins ( 99.2 1.1E-10 2.3E-15 92.7 7.5 63 1-63 131-193 (306)
46 TIGR01648 hnRNP-R-Q heterogene 99.1 6.5E-11 1.4E-15 104.9 6.5 61 1-62 74-135 (578)
47 KOG0124 Polypyrimidine tract-b 99.1 4.9E-11 1.1E-15 98.2 4.9 61 2-62 130-190 (544)
48 KOG0108 mRNA cleavage and poly 99.1 8.1E-11 1.8E-15 100.8 6.4 67 1-67 34-100 (435)
49 KOG4208 Nucleolar RNA-binding 99.1 1.4E-10 3E-15 88.8 6.0 64 2-65 66-130 (214)
50 TIGR01648 hnRNP-R-Q heterogene 99.1 3.3E-10 7.1E-15 100.4 9.0 58 1-66 249-308 (578)
51 KOG0146 RNA-binding protein ET 99.1 4.9E-11 1.1E-15 94.6 3.3 66 1-66 301-366 (371)
52 KOG0144 RNA-binding protein CU 99.1 1.3E-10 2.9E-15 97.3 5.8 66 1-66 50-118 (510)
53 KOG0147 Transcriptional coacti 99.1 1.8E-10 3.9E-15 99.0 6.1 65 1-65 294-358 (549)
54 KOG0144 RNA-binding protein CU 99.1 1.7E-10 3.6E-15 96.7 5.2 67 1-68 140-209 (510)
55 KOG0117 Heterogeneous nuclear 99.1 3.3E-10 7.2E-15 95.3 6.7 57 2-66 276-332 (506)
56 KOG0114 Predicted RNA-binding 99.0 1.6E-09 3.4E-14 74.6 6.7 62 1-65 34-95 (124)
57 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.0 1.4E-09 2.9E-14 95.4 7.7 59 1-65 18-78 (481)
58 KOG4661 Hsp27-ERE-TATA-binding 99.0 9.3E-10 2E-14 95.2 6.2 66 1-66 421-486 (940)
59 KOG0109 RNA-binding protein LA 99.0 7.5E-10 1.6E-14 88.8 4.9 60 1-68 94-153 (346)
60 KOG0124 Polypyrimidine tract-b 98.9 1.3E-09 2.9E-14 89.9 5.6 65 1-65 226-290 (544)
61 KOG0123 Polyadenylate-binding 98.8 1.3E-08 2.9E-13 86.2 6.8 63 1-66 92-154 (369)
62 KOG0127 Nucleolar protein fibr 98.8 7E-09 1.5E-13 89.4 4.9 66 1-66 21-86 (678)
63 KOG0106 Alternative splicing f 98.8 3.2E-09 7E-14 82.9 2.5 57 1-65 17-73 (216)
64 KOG4206 Spliceosomal protein s 98.8 1.5E-08 3.3E-13 78.7 6.0 61 2-65 30-90 (221)
65 KOG0131 Splicing factor 3b, su 98.8 1.4E-08 3E-13 76.6 5.3 65 2-66 113-178 (203)
66 KOG4212 RNA-binding protein hn 98.7 2.1E-08 4.5E-13 84.6 6.6 63 1-64 60-123 (608)
67 KOG0110 RNA-binding protein (R 98.7 5.6E-09 1.2E-13 92.2 3.4 66 1-66 629-694 (725)
68 KOG0123 Polyadenylate-binding 98.7 2.7E-08 5.8E-13 84.4 6.5 63 1-66 14-76 (369)
69 KOG0110 RNA-binding protein (R 98.7 3.8E-08 8.3E-13 87.1 7.5 63 1-63 531-596 (725)
70 KOG4209 Splicing factor RNPS1, 98.6 5.1E-08 1.1E-12 77.5 4.7 64 1-65 117-180 (231)
71 KOG0146 RNA-binding protein ET 98.6 9.4E-08 2E-12 76.2 5.3 65 1-66 35-102 (371)
72 KOG4454 RNA binding protein (R 98.5 1E-07 2.2E-12 73.9 4.5 62 2-65 26-87 (267)
73 KOG0153 Predicted RNA-binding 98.5 1.6E-07 3.5E-12 77.1 5.9 58 1-64 244-302 (377)
74 KOG0132 RNA polymerase II C-te 98.5 1.9E-07 4.2E-12 83.5 6.3 63 1-69 437-499 (894)
75 KOG0533 RRM motif-containing p 98.5 4.3E-07 9.2E-12 72.4 6.5 64 1-65 99-162 (243)
76 KOG4205 RNA-binding protein mu 98.4 1.5E-07 3.3E-12 77.7 3.6 67 1-68 113-179 (311)
77 KOG4205 RNA-binding protein mu 98.4 1.9E-07 4.1E-12 77.1 3.1 64 1-65 22-85 (311)
78 KOG0147 Transcriptional coacti 98.4 3.8E-07 8.2E-12 78.8 4.3 65 1-66 195-259 (549)
79 KOG0116 RasGAP SH3 binding pro 98.4 1.4E-06 3E-11 74.6 7.6 64 1-65 304-367 (419)
80 KOG1190 Polypyrimidine tract-b 98.4 1.7E-06 3.7E-11 72.6 7.8 61 2-67 315-375 (492)
81 KOG2314 Translation initiation 98.3 1E-06 2.2E-11 76.6 6.3 60 2-62 81-141 (698)
82 KOG2202 U2 snRNP splicing fact 98.2 6.2E-07 1.3E-11 71.0 2.0 65 1-66 84-149 (260)
83 KOG1457 RNA binding protein (c 98.2 6.8E-06 1.5E-10 64.2 7.5 69 1-69 50-122 (284)
84 KOG0226 RNA-binding proteins [ 98.1 1.9E-06 4.2E-11 68.2 3.1 59 2-60 207-265 (290)
85 KOG0120 Splicing factor U2AF, 98.1 8E-06 1.7E-10 71.1 7.1 63 1-63 425-490 (500)
86 KOG0106 Alternative splicing f 98.1 1.3E-06 2.8E-11 68.4 1.7 51 1-59 115-165 (216)
87 KOG1995 Conserved Zn-finger pr 98.1 1.9E-06 4.2E-11 71.2 2.6 65 1-65 82-154 (351)
88 PF04059 RRM_2: RNA recognitio 98.1 1.6E-05 3.5E-10 54.8 6.4 57 9-65 27-87 (97)
89 KOG4660 Protein Mei2, essentia 98.0 1.4E-06 3E-11 75.6 1.1 53 1-58 91-143 (549)
90 COG5175 MOT2 Transcriptional r 98.0 1.2E-05 2.6E-10 66.2 6.0 62 3-64 138-202 (480)
91 KOG1548 Transcription elongati 98.0 1.7E-05 3.6E-10 65.5 6.8 60 1-64 292-351 (382)
92 KOG1456 Heterogeneous nuclear 98.0 1.9E-05 4.1E-10 65.9 6.6 60 2-66 305-364 (494)
93 KOG0120 Splicing factor U2AF, 97.9 6.5E-06 1.4E-10 71.7 3.3 66 1-66 305-370 (500)
94 KOG1548 Transcription elongati 97.9 1.8E-05 3.9E-10 65.3 5.6 65 1-66 150-222 (382)
95 PF11608 Limkain-b1: Limkain b 97.9 3.6E-05 7.8E-10 51.2 5.6 53 2-64 23-76 (90)
96 PF05172 Nup35_RRM: Nup53/35/4 97.9 5.2E-05 1.1E-09 52.6 6.4 62 2-64 22-91 (100)
97 PF08952 DUF1866: Domain of un 97.9 5.6E-05 1.2E-09 55.6 6.6 56 1-65 52-107 (146)
98 PF08777 RRM_3: RNA binding mo 97.9 1.8E-05 4E-10 55.4 4.0 56 1-62 17-77 (105)
99 KOG0151 Predicted splicing reg 97.8 2.9E-05 6.2E-10 69.4 4.5 64 2-65 191-257 (877)
100 KOG1996 mRNA splicing factor [ 97.7 7.2E-05 1.6E-09 60.6 6.0 63 1-63 302-365 (378)
101 PF14605 Nup35_RRM_2: Nup53/35 97.6 9.2E-05 2E-09 45.3 4.0 37 2-44 17-53 (53)
102 KOG4211 Splicing factor hnRNP- 97.6 0.0001 2.2E-09 63.4 5.6 60 1-64 26-85 (510)
103 KOG4676 Splicing factor, argin 97.5 2.1E-05 4.5E-10 65.9 -0.1 54 1-59 167-220 (479)
104 KOG4207 Predicted splicing fac 97.3 0.011 2.4E-07 46.0 12.3 52 2-53 33-86 (256)
105 KOG4210 Nuclear localization s 97.3 0.00022 4.7E-09 58.6 3.0 65 1-66 201-265 (285)
106 KOG0105 Alternative splicing f 97.2 0.0015 3.3E-08 49.9 7.1 54 1-61 131-186 (241)
107 KOG1456 Heterogeneous nuclear 97.2 0.0011 2.4E-08 55.6 6.3 61 2-67 139-201 (494)
108 KOG4206 Spliceosomal protein s 97.2 0.0011 2.4E-08 51.9 5.8 57 2-63 163-220 (221)
109 KOG4307 RNA binding protein RB 97.0 0.001 2.3E-08 59.7 5.0 61 1-61 883-943 (944)
110 KOG4211 Splicing factor hnRNP- 96.9 0.0012 2.5E-08 57.1 4.4 60 1-62 119-179 (510)
111 KOG4212 RNA-binding protein hn 96.8 0.0016 3.5E-08 55.6 4.6 38 23-62 571-608 (608)
112 PF04847 Calcipressin: Calcipr 96.8 0.0043 9.3E-08 47.8 6.6 58 2-65 12-71 (184)
113 PF03880 DbpA: DbpA RNA bindin 96.8 0.0042 9.1E-08 40.6 5.5 52 2-62 18-74 (74)
114 KOG2068 MOT2 transcription fac 96.7 0.00066 1.4E-08 56.1 1.1 61 4-65 99-163 (327)
115 KOG4285 Mitotic phosphoprotein 96.7 0.004 8.6E-08 50.9 5.5 58 2-66 213-271 (350)
116 KOG2135 Proteins containing th 96.6 0.0013 2.8E-08 56.6 2.1 57 1-64 389-445 (526)
117 KOG4849 mRNA cleavage factor I 96.5 0.0018 3.9E-08 53.9 2.7 62 1-62 96-159 (498)
118 KOG1190 Polypyrimidine tract-b 96.4 0.0054 1.2E-07 52.1 4.6 57 2-63 167-226 (492)
119 KOG2416 Acinus (induces apopto 96.1 0.0022 4.8E-08 56.7 1.2 59 1-65 460-522 (718)
120 KOG0112 Large RNA-binding prot 96.1 0.0057 1.2E-07 56.4 3.7 63 2-70 472-536 (975)
121 KOG1855 Predicted RNA-binding 96.1 0.0054 1.2E-07 52.3 3.1 52 2-53 248-312 (484)
122 PF08675 RNA_bind: RNA binding 96.0 0.019 4.1E-07 38.3 4.7 40 1-48 24-63 (87)
123 KOG1365 RNA-binding protein Fu 95.8 0.0061 1.3E-07 51.4 2.5 62 1-63 296-360 (508)
124 KOG4676 Splicing factor, argin 95.7 0.013 2.8E-07 49.5 3.9 62 1-62 23-87 (479)
125 KOG4660 Protein Mei2, essentia 95.5 0.028 6.1E-07 49.4 5.4 58 8-65 412-473 (549)
126 smart00596 PRE_C2HC PRE_C2HC d 95.4 0.026 5.6E-07 36.2 3.5 60 1-63 3-63 (69)
127 PF11767 SET_assoc: Histone ly 95.0 0.082 1.8E-06 33.7 5.2 51 1-60 16-66 (66)
128 KOG4574 RNA-binding protein (c 94.9 0.021 4.5E-07 52.6 2.9 59 2-66 315-375 (1007)
129 KOG0128 RNA-binding protein SA 94.8 0.012 2.7E-07 54.0 1.3 64 1-65 752-815 (881)
130 KOG3152 TBP-binding protein, a 94.6 0.019 4.1E-07 46.0 1.7 55 2-56 91-157 (278)
131 PF10309 DUF2414: Protein of u 94.5 0.082 1.8E-06 33.3 4.1 40 1-47 20-62 (62)
132 PF15023 DUF4523: Protein of u 94.5 0.15 3.2E-06 37.6 6.0 54 2-63 107-160 (166)
133 PF07530 PRE_C2HC: Associated 94.5 0.087 1.9E-06 33.8 4.3 60 1-63 3-63 (68)
134 KOG0129 Predicted RNA-binding 93.8 0.12 2.5E-06 45.3 5.0 46 1-46 386-432 (520)
135 KOG0128 RNA-binding protein SA 93.8 0.012 2.6E-07 54.0 -1.0 53 1-53 683-735 (881)
136 KOG1365 RNA-binding protein Fu 92.8 0.21 4.5E-06 42.5 4.8 45 1-46 177-225 (508)
137 KOG2193 IGF-II mRNA-binding pr 92.4 0.076 1.7E-06 45.5 1.8 39 27-65 37-76 (584)
138 PF07576 BRAP2: BRCA1-associat 91.7 1.5 3.2E-05 30.9 7.4 41 11-53 40-80 (110)
139 KOG4307 RNA binding protein RB 91.3 0.12 2.6E-06 46.9 2.0 60 1-61 450-510 (944)
140 KOG4019 Calcineurin-mediated s 89.6 0.27 5.9E-06 37.5 2.3 58 3-66 33-91 (193)
141 KOG2591 c-Mpl binding protein, 89.2 0.27 6E-06 43.6 2.3 51 2-59 192-246 (684)
142 KOG0112 Large RNA-binding prot 88.6 0.2 4.3E-06 46.7 1.1 61 1-62 388-448 (975)
143 PRK11634 ATP-dependent RNA hel 87.5 7.5 0.00016 35.7 10.6 36 28-64 527-562 (629)
144 KOG4210 Nuclear localization s 87.1 0.36 7.8E-06 39.8 1.7 62 2-63 105-166 (285)
145 KOG0115 RNA-binding protein p5 86.9 0.56 1.2E-05 37.8 2.6 60 2-62 48-111 (275)
146 KOG1457 RNA binding protein (c 84.0 0.62 1.3E-05 36.9 1.6 25 28-52 249-273 (284)
147 KOG0804 Cytoplasmic Zn-finger 80.6 2.4 5.1E-05 36.9 3.9 51 1-53 90-141 (493)
148 PF08206 OB_RNB: Ribonuclease 80.4 0.88 1.9E-05 28.0 1.0 37 26-63 7-44 (58)
149 KOG2891 Surface glycoprotein [ 78.0 0.53 1.2E-05 38.5 -0.7 51 2-52 178-247 (445)
150 KOG2253 U1 snRNP complex, subu 77.1 1.2 2.6E-05 40.4 1.2 51 3-62 58-108 (668)
151 PRK08559 nusG transcription an 74.1 11 0.00023 28.1 5.5 34 12-50 36-69 (153)
152 PF03439 Spt5-NGN: Early trans 73.0 7.5 0.00016 25.8 4.0 25 26-50 43-67 (84)
153 PF15513 DUF4651: Domain of un 70.2 6.9 0.00015 24.6 3.0 17 1-17 10-26 (62)
154 KOG0107 Alternative splicing f 68.1 53 0.0011 25.3 8.8 11 127-137 140-150 (195)
155 KOG0129 Predicted RNA-binding 67.7 15 0.00032 32.6 5.6 43 2-45 276-324 (520)
156 PF09902 DUF2129: Uncharacteri 67.3 16 0.00035 23.6 4.4 37 5-50 16-52 (71)
157 KOG4365 Uncharacterized conser 66.6 1.4 3.1E-05 38.2 -0.7 63 1-64 19-81 (572)
158 PF02714 DUF221: Domain of unk 65.6 7 0.00015 32.3 3.3 32 30-63 1-32 (325)
159 KOG4483 Uncharacterized conser 62.6 12 0.00026 32.3 4.0 38 1-45 407-445 (528)
160 PRK02886 hypothetical protein; 61.6 22 0.00048 23.9 4.4 38 5-51 20-57 (87)
161 COG0150 PurM Phosphoribosylami 60.2 3.9 8.5E-05 34.4 0.8 45 2-50 278-322 (345)
162 PRK02302 hypothetical protein; 59.9 25 0.00053 23.8 4.4 38 5-51 22-59 (89)
163 PF12687 DUF3801: Protein of u 59.1 16 0.00036 28.5 4.1 50 3-54 48-97 (204)
164 cd04904 ACT_AAAH ACT domain of 58.7 44 0.00096 21.2 5.5 46 2-49 17-65 (74)
165 cd06405 PB1_Mekk2_3 The PB1 do 56.3 54 0.0012 21.4 6.1 46 7-61 31-76 (79)
166 PF03468 XS: XS domain; Inter 56.1 13 0.00027 26.4 2.7 42 1-45 33-75 (116)
167 PF11823 DUF3343: Protein of u 53.5 19 0.00041 23.0 3.0 28 28-55 2-29 (73)
168 KOG2193 IGF-II mRNA-binding pr 53.3 0.97 2.1E-05 39.0 -3.9 58 2-63 97-155 (584)
169 KOG1999 RNA polymerase II tran 52.1 43 0.00092 32.3 6.0 33 26-59 209-241 (1024)
170 COG3254 Uncharacterized conser 51.5 25 0.00054 24.5 3.5 46 1-52 28-73 (105)
171 PRK11230 glycolate oxidase sub 49.8 39 0.00084 30.2 5.3 47 1-48 205-255 (499)
172 TIGR00405 L26e_arch ribosomal 49.3 55 0.0012 23.7 5.4 25 26-50 37-61 (145)
173 COG5507 Uncharacterized conser 48.6 21 0.00046 24.6 2.7 21 27-47 66-86 (117)
174 cd04880 ACT_AAAH-PDT-like ACT 48.1 67 0.0015 20.1 5.3 47 2-49 16-66 (75)
175 PF03467 Smg4_UPF3: Smg-4/UPF3 47.2 60 0.0013 24.7 5.4 39 27-65 55-98 (176)
176 KOG4454 RNA binding protein (R 46.6 6.1 0.00013 31.4 -0.2 55 3-58 102-156 (267)
177 cd04909 ACT_PDH-BS C-terminal 46.5 66 0.0014 19.6 5.1 44 2-47 18-62 (69)
178 smart00738 NGN In Spt5p, this 45.7 46 0.001 22.3 4.2 23 28-50 60-82 (106)
179 cd04931 ACT_PAH ACT domain of 45.3 72 0.0016 21.4 5.0 45 2-48 31-79 (90)
180 PF14111 DUF4283: Domain of un 44.4 9.1 0.0002 27.7 0.5 35 27-62 55-89 (153)
181 cd04908 ACT_Bt0572_1 N-termina 43.6 75 0.0016 19.3 6.0 40 2-45 18-58 (66)
182 PRK10629 EnvZ/OmpR regulon mod 42.4 84 0.0018 22.6 5.2 36 28-63 74-109 (127)
183 KOG0862 Synaptobrevin/VAMP-lik 41.8 13 0.00027 29.4 0.9 11 26-36 108-118 (216)
184 TIGR03636 L23_arch archaeal ri 41.6 56 0.0012 21.4 3.8 13 30-42 57-69 (77)
185 PF07237 DUF1428: Protein of u 41.5 87 0.0019 21.8 4.9 45 3-47 26-85 (103)
186 KOG0835 Cyclin L [General func 41.4 63 0.0014 27.3 4.9 7 29-35 175-181 (367)
187 TIGR00387 glcD glycolate oxida 40.9 54 0.0012 28.3 4.8 46 1-47 148-197 (413)
188 cd04883 ACT_AcuB C-terminal AC 40.5 86 0.0019 19.1 6.3 48 2-52 18-68 (72)
189 KOG2943 Predicted glyoxalase [ 40.4 49 0.0011 26.8 4.0 30 23-52 205-238 (299)
190 PF06014 DUF910: Bacterial pro 39.6 13 0.00028 23.4 0.5 15 1-15 6-20 (62)
191 KOG3702 Nuclear polyadenylated 39.5 15 0.00033 33.6 1.2 55 3-58 529-583 (681)
192 PF01037 AsnC_trans_reg: AsnC 39.3 91 0.002 19.1 5.9 41 2-46 15-55 (74)
193 PF08544 GHMP_kinases_C: GHMP 38.5 1E+02 0.0022 19.5 4.9 42 2-48 39-80 (85)
194 PRK14548 50S ribosomal protein 37.4 80 0.0017 21.0 4.1 17 29-45 63-79 (84)
195 PF07292 NID: Nmi/IFP 35 domai 36.6 54 0.0012 22.1 3.2 32 30-62 1-34 (88)
196 PF13291 ACT_4: ACT domain; PD 36.3 1E+02 0.0022 19.5 4.5 49 1-49 22-71 (80)
197 PLN02805 D-lactate dehydrogena 36.2 1E+02 0.0022 28.1 5.8 47 1-48 282-332 (555)
198 KOG2318 Uncharacterized conser 35.5 63 0.0014 29.4 4.3 34 29-62 270-305 (650)
199 PF14581 SseB_C: SseB protein 35.2 42 0.00091 23.0 2.7 61 2-62 24-88 (108)
200 PF10567 Nab6_mRNP_bdg: RNA-re 34.8 1.2E+02 0.0025 25.3 5.4 61 3-63 33-106 (309)
201 PF08734 GYD: GYD domain; Int 34.0 1.4E+02 0.0031 19.8 5.6 43 2-48 25-68 (91)
202 PF13193 AMP-binding_C: AMP-bi 33.9 91 0.002 19.3 4.0 51 1-53 1-54 (73)
203 PF06919 Phage_T4_Gp30_7: Phag 33.8 62 0.0013 22.5 3.2 41 9-63 29-69 (121)
204 cd04905 ACT_CM-PDT C-terminal 33.7 1.3E+02 0.0027 19.1 5.5 47 2-49 18-68 (80)
205 PF00585 Thr_dehydrat_C: C-ter 33.7 1.3E+02 0.0027 20.1 4.8 48 2-49 24-73 (91)
206 cd04930 ACT_TH ACT domain of t 33.3 1.6E+02 0.0034 20.7 5.4 46 2-49 58-106 (115)
207 PF13037 DUF3898: Domain of un 33.1 55 0.0012 22.0 2.7 47 1-47 35-89 (91)
208 PRK01178 rps24e 30S ribosomal 32.8 1.3E+02 0.0027 20.8 4.6 10 23-32 62-71 (99)
209 cd04458 CSP_CDS Cold-Shock Pro 32.7 31 0.00068 21.2 1.6 38 27-64 12-54 (65)
210 cd04894 ACT_ACR-like_1 ACT dom 32.6 57 0.0012 20.6 2.6 29 1-35 16-45 (69)
211 KOG1847 mRNA splicing factor [ 32.5 43 0.00093 30.9 2.8 10 127-136 748-757 (878)
212 KOG2187 tRNA uracil-5-methyltr 32.4 26 0.00055 31.4 1.4 38 27-64 63-100 (534)
213 COG5236 Uncharacterized conser 32.3 73 0.0016 27.2 4.0 49 1-57 266-314 (493)
214 TIGR02381 cspD cold shock doma 31.0 39 0.00084 21.3 1.8 38 27-65 13-56 (68)
215 PF01782 RimM: RimM N-terminal 31.0 96 0.0021 20.0 3.8 24 27-51 54-77 (84)
216 cd04489 ExoVII_LU_OBF ExoVII_L 31.0 21 0.00045 22.6 0.5 23 9-38 5-27 (78)
217 PRK15464 cold shock-like prote 30.8 34 0.00074 21.9 1.5 38 27-65 16-59 (70)
218 PF08156 NOP5NT: NOP5NT (NUC12 30.8 9.6 0.00021 24.2 -1.1 19 29-47 46-64 (67)
219 PF14657 Integrase_AP2: AP2-li 30.7 72 0.0016 18.2 2.8 30 19-48 9-38 (46)
220 PTZ00071 40S ribosomal protein 30.6 1.2E+02 0.0026 22.1 4.4 10 23-32 68-77 (132)
221 PF11910 NdhO: Cyanobacterial 30.3 48 0.001 21.0 2.0 21 5-35 31-51 (67)
222 TIGR00358 3_prime_RNase VacB a 29.3 17 0.00037 33.6 -0.2 37 24-61 23-61 (654)
223 KOG1232 Proteins containing th 29.2 83 0.0018 27.4 3.9 43 1-44 240-286 (511)
224 PRK09937 stationary phase/star 28.1 46 0.00099 21.5 1.8 38 27-65 13-56 (74)
225 PRK15463 cold shock-like prote 28.0 42 0.00091 21.4 1.5 39 27-65 16-59 (70)
226 PF04026 SpoVG: SpoVG; InterP 28.0 1E+02 0.0022 20.5 3.4 26 11-36 2-27 (84)
227 PRK09507 cspE cold shock prote 27.5 43 0.00094 21.2 1.5 37 27-64 15-57 (69)
228 COG0858 RbfA Ribosome-binding 26.9 67 0.0014 22.8 2.6 36 11-50 35-72 (118)
229 COG5193 LHP1 La protein, small 26.6 39 0.00083 29.3 1.5 44 1-44 198-243 (438)
230 COG5470 Uncharacterized conser 26.6 1.4E+02 0.003 20.5 3.9 18 27-44 53-70 (96)
231 PRK14998 cold shock-like prote 26.5 52 0.0011 21.2 1.8 38 27-65 13-56 (73)
232 KOG4213 RNA-binding protein La 26.3 1.2E+02 0.0026 23.4 4.0 36 10-45 132-168 (205)
233 PRK10943 cold shock-like prote 26.2 47 0.001 21.0 1.5 38 27-65 15-58 (69)
234 COG1098 VacB Predicted RNA bin 26.1 1.3E+02 0.0029 21.7 3.9 33 29-61 20-60 (129)
235 COG5594 Uncharacterized integr 26.0 81 0.0018 29.9 3.5 35 27-62 357-391 (827)
236 TIGR01638 Atha_cystat_rel Arab 25.7 79 0.0017 21.5 2.6 40 11-50 33-72 (92)
237 PRK09890 cold shock protein Cs 25.7 47 0.001 21.1 1.4 10 27-36 16-25 (70)
238 PF09180 ProRS-C_1: Prolyl-tRN 25.4 63 0.0014 20.4 2.0 31 27-57 11-41 (68)
239 PF10567 Nab6_mRNP_bdg: RNA-re 25.3 2.2E+02 0.0047 23.8 5.5 38 12-49 174-213 (309)
240 PF01842 ACT: ACT domain; Int 25.3 1.5E+02 0.0033 17.3 4.5 43 2-47 17-61 (66)
241 COG0018 ArgS Arginyl-tRNA synt 24.9 3E+02 0.0065 25.2 6.9 16 53-68 115-130 (577)
242 PF00313 CSD: 'Cold-shock' DNA 24.6 57 0.0012 20.0 1.7 12 27-38 12-23 (66)
243 cd04879 ACT_3PGDH-like ACT_3PG 24.5 1.6E+02 0.0034 17.2 4.0 18 2-19 16-34 (71)
244 cd02116 ACT ACT domains are co 24.4 1.3E+02 0.0027 16.0 5.6 44 2-47 15-59 (60)
245 COG0724 RNA-binding proteins ( 24.3 49 0.0011 25.3 1.7 44 2-45 242-285 (306)
246 PRK10354 RNA chaperone/anti-te 24.2 51 0.0011 20.9 1.4 10 27-36 16-25 (70)
247 COG5584 Predicted small secret 24.1 1.3E+02 0.0027 20.7 3.3 22 2-23 39-60 (103)
248 PF14268 YoaP: YoaP-like 23.7 59 0.0013 18.9 1.5 34 29-62 2-37 (44)
249 cd04878 ACT_AHAS N-terminal AC 23.3 1.7E+02 0.0037 17.2 5.0 17 2-18 17-34 (72)
250 PRK13259 regulatory protein Sp 23.3 1.3E+02 0.0028 20.5 3.3 26 11-36 2-27 (94)
251 cd04903 ACT_LSD C-terminal ACT 23.3 1.7E+02 0.0037 17.2 4.0 43 2-47 16-59 (71)
252 COG4483 Uncharacterized protei 23.2 45 0.00097 21.1 0.9 14 1-14 6-19 (68)
253 PRK00911 dihydroxy-acid dehydr 23.2 2.1E+02 0.0046 26.0 5.5 37 26-65 397-433 (552)
254 PF12829 Mhr1: Transcriptional 23.0 1E+02 0.0022 20.9 2.7 23 27-49 51-73 (91)
255 KOG3655 Drebrins and related a 22.9 1.5E+02 0.0032 26.3 4.4 34 2-36 51-87 (484)
256 cd04886 ACT_ThrD-II-like C-ter 22.8 1.8E+02 0.0038 17.2 5.5 18 2-19 15-33 (73)
257 PHA02131 hypothetical protein 22.8 1.7E+02 0.0037 17.9 3.4 28 5-35 8-36 (70)
258 PF02033 RBFA: Ribosome-bindin 22.7 2.3E+02 0.005 19.1 4.6 36 11-50 30-66 (104)
259 PF06491 Disulph_isomer: Disul 22.6 60 0.0013 23.6 1.6 22 29-50 16-37 (136)
260 PF13046 DUF3906: Protein of u 22.3 62 0.0013 20.4 1.5 30 1-32 34-63 (64)
261 cd04882 ACT_Bt0572_2 C-termina 22.3 1.8E+02 0.0039 17.0 5.3 42 2-45 16-58 (65)
262 COG1369 POP5 RNase P/RNase MRP 22.1 2.8E+02 0.0061 19.9 4.9 32 28-61 68-99 (124)
263 PRK14142 heat shock protein Gr 21.8 40 0.00086 26.8 0.6 60 2-66 117-185 (223)
264 PF01282 Ribosomal_S24e: Ribos 21.8 2.4E+02 0.0052 18.6 4.4 24 16-40 37-60 (84)
265 cd04889 ACT_PDH-BS-like C-term 21.7 1.8E+02 0.0038 16.8 5.1 40 2-44 15-55 (56)
266 COG2088 SpoVG Uncharacterized 21.7 1.2E+02 0.0026 20.5 2.8 26 11-36 2-27 (95)
267 PF09078 CheY-binding: CheY bi 21.5 2.3E+02 0.0049 18.0 4.2 49 2-59 16-64 (65)
268 PF01071 GARS_A: Phosphoribosy 21.5 97 0.0021 24.0 2.7 25 24-48 47-71 (194)
269 cd04917 ACT_AKiii-LysC-EC_2 AC 21.3 1E+02 0.0022 18.5 2.4 15 36-50 47-61 (64)
270 PHA03075 glutaredoxin-like pro 21.3 1.7E+02 0.0037 20.9 3.6 7 29-35 83-89 (123)
271 PF09162 Tap-RNA_bind: Tap, RN 21.2 1.6E+02 0.0036 19.7 3.5 33 30-62 46-80 (88)
272 cd04929 ACT_TPH ACT domain of 21.1 2.4E+02 0.0051 18.0 5.9 46 2-49 17-65 (74)
273 PF13575 DUF4135: Domain of un 21.1 91 0.002 26.5 2.8 13 28-40 115-127 (370)
274 PF08796 DUF1797: Protein of u 21.1 95 0.0021 19.8 2.2 28 5-36 20-47 (67)
275 COG2608 CopZ Copper chaperone 21.1 2.3E+02 0.0049 17.8 4.7 29 2-36 20-48 (71)
276 PF01133 ER: Enhancer of rudim 20.9 2.4E+02 0.0052 19.5 4.3 26 24-49 12-37 (102)
277 PF05336 DUF718: Domain of unk 20.6 1.5E+02 0.0033 20.3 3.4 32 2-36 28-59 (106)
278 PF13689 DUF4154: Domain of un 20.4 2.1E+02 0.0045 20.6 4.2 34 28-62 27-60 (145)
279 PHA01782 hypothetical protein 20.4 86 0.0019 23.7 2.1 30 2-34 72-101 (177)
280 TIGR01743 purR_Bsub pur operon 20.0 2.5E+02 0.0054 23.0 4.9 40 2-48 45-86 (268)
No 1
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.90 E-value=1.1e-22 Score=154.69 Aligned_cols=67 Identities=40% Similarity=0.816 Sum_probs=64.2
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRK 67 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~ 67 (190)
||..+|++||.|.+|.|+.|+.|..++|||||.|.+..||++||++|+|.+|+|+.|.|++|+....
T Consensus 29 ~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~arygr~ 95 (256)
T KOG4207|consen 29 DLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARYGRP 95 (256)
T ss_pred HHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhcCCC
Confidence 6899999999999999999999999999999999999999999999999999999999999987654
No 2
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.83 E-value=2.2e-19 Score=133.43 Aligned_cols=62 Identities=34% Similarity=0.648 Sum_probs=58.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRK 67 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~ 67 (190)
||+.+|.+||.|..|+|..++ .|||||||++..||++|+..|||..|+|..|.||++.....
T Consensus 26 eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~G~~r 87 (195)
T KOG0107|consen 26 ELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELSTGRPR 87 (195)
T ss_pred HHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceEEEEeecCCcc
Confidence 799999999999999999875 99999999999999999999999999999999999987654
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.71 E-value=1.1e-16 Score=118.77 Aligned_cols=69 Identities=33% Similarity=0.548 Sum_probs=64.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCCCc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRKTP 69 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~~~ 69 (190)
||+++|.+||.|+.|.|+.++.|++++|||||+|.+.++|+.||+.||+.+|+|+.|+|+++......+
T Consensus 50 ~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~~~~~~~ 118 (144)
T PLN03134 50 SLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPANDRPSAP 118 (144)
T ss_pred HHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCCcCCCCC
Confidence 689999999999999999999999999999999999999999999999999999999999997655433
No 4
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.60 E-value=3.6e-14 Score=113.55 Aligned_cols=67 Identities=28% Similarity=0.557 Sum_probs=62.8
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRK 67 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~ 67 (190)
+|+.+|.+||.|+.|.||.++.||+++|||||+|+++.++..|.+..+|.+|+|+.|.|.+......
T Consensus 117 kLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDvERgRTv 183 (335)
T KOG0113|consen 117 KLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDVERGRTV 183 (335)
T ss_pred HHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEecccccc
Confidence 4889999999999999999999999999999999999999999999999999999999998765543
No 5
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.55 E-value=1e-14 Score=113.83 Aligned_cols=65 Identities=31% Similarity=0.552 Sum_probs=62.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||+++|.+||.|..|.|+.|+.||.++|||||.|.+.++|+.||..|||.-++.-.|.|+|+++.
T Consensus 205 dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwskP~ 269 (270)
T KOG0122|consen 205 DLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSKPS 269 (270)
T ss_pred HHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecCCC
Confidence 69999999999999999999999999999999999999999999999999999999999999864
No 6
>smart00361 RRM_1 RNA recognition motif.
Probab=99.55 E-value=2.7e-14 Score=93.08 Aligned_cols=59 Identities=27% Similarity=0.433 Sum_probs=53.8
Q ss_pred CHHHHhh----cCCCeEEEE-EccCCCC--CCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEE
Q 036035 1 ELRVAFE----RYGPVKDVY-LPKNYYT--GEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59 (190)
Q Consensus 1 DL~~~F~----~~G~I~~v~-i~~~~~t--~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V 59 (190)
||+++|. +||.|..|. |+.++.+ +.++|||||+|.+.++|++||..|||..|.|+.|.+
T Consensus 4 ~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 4 DFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred hHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 6888888 999999995 7777666 889999999999999999999999999999999986
No 7
>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=99.55 E-value=4.3e-14 Score=88.04 Aligned_cols=56 Identities=39% Similarity=0.667 Sum_probs=51.1
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
|.++|++||+|..|.+..+. .++|||+|.+.++|+.|+..|||..|.|+.|.|+||
T Consensus 1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 78899999999999887763 589999999999999999999999999999999986
No 8
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.53 E-value=2.9e-14 Score=119.64 Aligned_cols=65 Identities=28% Similarity=0.486 Sum_probs=62.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|.++|++||.|+.|.|+.+..|+.++|||||+|.+.++|..||..|||..|+|+.|.|.|+..+
T Consensus 285 ~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~ 349 (352)
T TIGR01661 285 VLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNK 349 (352)
T ss_pred HHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCC
Confidence 58999999999999999999999999999999999999999999999999999999999998754
No 9
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.51 E-value=2.8e-14 Score=102.21 Aligned_cols=66 Identities=21% Similarity=0.411 Sum_probs=63.0
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
||.+.|..||+|+.|.|..|..||..+|||+|+|++.++|+.||.+|||..|.|+.|.|.||....
T Consensus 88 di~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~Fv~g 153 (170)
T KOG0130|consen 88 DIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCFVKG 153 (170)
T ss_pred HHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEEecC
Confidence 688999999999999999999999999999999999999999999999999999999999997653
No 10
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.48 E-value=9.5e-14 Score=116.50 Aligned_cols=65 Identities=31% Similarity=0.541 Sum_probs=62.2
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||+++|.+||+|..|.|+.++.+|+++|||||+|.+.++|+.||..|||..|.|+.|.|+++++.
T Consensus 19 ~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~ 83 (352)
T TIGR01661 19 EIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPS 83 (352)
T ss_pred HHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeeccc
Confidence 69999999999999999999999999999999999999999999999999999999999998754
No 11
>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=99.48 E-value=7.8e-14 Score=117.03 Aligned_cols=65 Identities=28% Similarity=0.525 Sum_probs=61.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||+++|.+||+|+.|.|+.++.|++++|||||+|.++++|+.||..||+.+|.++.|+|.++++.
T Consensus 123 ~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~ 187 (346)
T TIGR01659 123 ELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPG 187 (346)
T ss_pred HHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeeccccc
Confidence 68999999999999999999999999999999999999999999999999999999999998653
No 12
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.46 E-value=1.1e-13 Score=111.99 Aligned_cols=63 Identities=35% Similarity=0.611 Sum_probs=58.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||..+|++||.|.+|+|+.+ ...+||||||+|++.+||+.|-.+|||.+|.|++|.|..|...
T Consensus 112 DL~aMF~kfG~VldVEIIfN--ERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATar 174 (376)
T KOG0125|consen 112 DLRAMFEKFGKVLDVEIIFN--ERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATAR 174 (376)
T ss_pred cHHHHHHhhCceeeEEEEec--cCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccchh
Confidence 89999999999999999987 4557999999999999999999999999999999999988754
No 13
>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=99.46 E-value=4.5e-13 Score=112.48 Aligned_cols=66 Identities=33% Similarity=0.603 Sum_probs=61.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCC--eEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGG--REIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g--~~i~V~~a~~~~ 66 (190)
||+++|.+||+|+.|.|+.++.+++++|||||+|++.++|++||+.||+..|.+ ..|.|.+++...
T Consensus 209 ~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~~ 276 (346)
T TIGR01659 209 QLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAEEHG 276 (346)
T ss_pred HHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECCccc
Confidence 689999999999999999999999999999999999999999999999998876 688999987654
No 14
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.42 E-value=1.9e-13 Score=108.20 Aligned_cols=66 Identities=36% Similarity=0.641 Sum_probs=63.2
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
+|++.|.+||+|.++.|+.|..|+++||||||.|.+.++|+.||..|||..|.++.|...||..++
T Consensus 78 ~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp 143 (321)
T KOG0148|consen 78 KLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKP 143 (321)
T ss_pred HHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCc
Confidence 589999999999999999999999999999999999999999999999999999999999997654
No 15
>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=99.42 E-value=6.2e-13 Score=85.62 Aligned_cols=57 Identities=37% Similarity=0.706 Sum_probs=53.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIK 58 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~ 58 (190)
||.++|.+||.|..|.|+.+ .++...+||||+|.+.++|+.||..|||..|.|+.|+
T Consensus 14 ~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 14 ELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp HHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred HHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 58999999999999999887 6888899999999999999999999999999999885
No 16
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.39 E-value=4.9e-14 Score=105.69 Aligned_cols=65 Identities=26% Similarity=0.471 Sum_probs=60.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||..+|++||+|++|.|+.|+.||+++||||+.|+++.....|+..|||..|.|+.|.|.+...-
T Consensus 51 Dil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~~Y 115 (219)
T KOG0126|consen 51 DILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVSNY 115 (219)
T ss_pred cEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecccc
Confidence 56778999999999999999999999999999999999999999999999999999999876543
No 17
>smart00360 RRM RNA recognition motif.
Probab=99.39 E-value=1.7e-12 Score=82.60 Aligned_cols=60 Identities=38% Similarity=0.675 Sum_probs=56.0
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~ 60 (190)
||+++|.+||.|..|.|..++.++.++|||||+|.+.++|+.|+..|++..|.|+.|.|+
T Consensus 12 ~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 12 ELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred HHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 589999999999999999888788999999999999999999999999999999998873
No 18
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.38 E-value=4e-13 Score=103.67 Aligned_cols=67 Identities=40% Similarity=0.686 Sum_probs=62.9
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRKT 68 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~~ 68 (190)
|...|-.||.|+.|.|+.|-.+++++|||||+|+..+||..||..||+.+|.|+.|.|.+|++.+.+
T Consensus 27 LhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP~kik 93 (298)
T KOG0111|consen 27 LHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKPEKIK 93 (298)
T ss_pred HHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCCcccc
Confidence 5677999999999999999999999999999999999999999999999999999999999986543
No 19
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=4e-12 Score=95.82 Aligned_cols=63 Identities=25% Similarity=0.452 Sum_probs=56.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
||+++|.+||.|.+|+|...+ ...+||||+|++..||++||..-||..++|..|.|+++....
T Consensus 22 eieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr 84 (241)
T KOG0105|consen 22 EIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGR 84 (241)
T ss_pred cHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCC
Confidence 799999999999999886542 346799999999999999999999999999999999997654
No 20
>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=99.35 E-value=2.5e-12 Score=114.06 Aligned_cols=66 Identities=18% Similarity=0.403 Sum_probs=62.5
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
||+++|+.||.|+.|.|+.++.++..+|||||+|.+.++|+.||..||+..|+|+.|.|.++...+
T Consensus 220 dLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP 285 (612)
T TIGR01645 220 DIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPP 285 (612)
T ss_pred HHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCc
Confidence 589999999999999999999999999999999999999999999999999999999999987543
No 21
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.33 E-value=3e-12 Score=91.09 Aligned_cols=64 Identities=20% Similarity=0.456 Sum_probs=60.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
+|.++|.++|+|..|.|-.|+.+..+.|||||+|...++|+.||..++|+.|+.+.|.|.|.-.
T Consensus 52 qiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~G 115 (153)
T KOG0121|consen 52 QIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAG 115 (153)
T ss_pred HHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecccc
Confidence 4789999999999999999999999999999999999999999999999999999999998754
No 22
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.33 E-value=1.4e-12 Score=101.38 Aligned_cols=63 Identities=33% Similarity=0.563 Sum_probs=57.8
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
+|..+|++||+|++..|+.|+.||+++|||||+|.+.+.|..||+.. .-+|+|++..|.+|--
T Consensus 28 ~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp-~piIdGR~aNcnlA~l 90 (247)
T KOG0149|consen 28 TLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDP-NPIIDGRKANCNLASL 90 (247)
T ss_pred HHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCC-CCcccccccccchhhh
Confidence 48899999999999999999999999999999999999999999854 4689999999998754
No 23
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.32 E-value=3.8e-12 Score=106.82 Aligned_cols=65 Identities=32% Similarity=0.540 Sum_probs=60.7
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC-CeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG-GREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~-g~~i~V~~a~~~ 65 (190)
||..+|++.|+|-++.|++|+.+|.++|||||+|.+.++|+.||+.||+++|. |+.|.|+++..+
T Consensus 99 eLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Svan 164 (506)
T KOG0117|consen 99 ELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSVAN 164 (506)
T ss_pred hhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEeeec
Confidence 68899999999999999999999999999999999999999999999999996 999988876644
No 24
>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=99.32 E-value=5e-12 Score=109.73 Aligned_cols=64 Identities=42% Similarity=0.727 Sum_probs=61.2
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||+++|.+||.|..|.|+.+..+|.++|||||+|.+.++|+.||..|||.+|.|+.|.|.++..
T Consensus 202 ~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~ 265 (457)
T TIGR01622 202 ELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD 265 (457)
T ss_pred HHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence 5899999999999999999999999999999999999999999999999999999999999864
No 25
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.31 E-value=6.6e-12 Score=110.30 Aligned_cols=65 Identities=22% Similarity=0.350 Sum_probs=61.7
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|+++|.+||.|..|.|+.+..+|.++|||||+|.+.++|+.||..|||..|+|..|.|.++...
T Consensus 311 ~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~ 375 (509)
T TIGR01642 311 QIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVG 375 (509)
T ss_pred HHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccC
Confidence 58999999999999999999999999999999999999999999999999999999999998654
No 26
>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=99.30 E-value=4.8e-12 Score=112.33 Aligned_cols=63 Identities=33% Similarity=0.654 Sum_probs=59.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
+|+++|.+||.|..|.|+.++.+++++|||||+|.+.++|+.||..|||..|+|+.|.|.+..
T Consensus 123 ~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~ 185 (612)
T TIGR01645 123 TIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS 185 (612)
T ss_pred HHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccc
Confidence 589999999999999999999999999999999999999999999999999999999998653
No 27
>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=99.29 E-value=9.9e-12 Score=80.46 Aligned_cols=57 Identities=47% Similarity=0.752 Sum_probs=53.3
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIK 58 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~ 58 (190)
||.++|..||.|..|.++.++. +..+++|||+|.++++|+.||..+++..|+|+.|.
T Consensus 14 ~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 14 DLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp HHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred HHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 5889999999999999999876 88999999999999999999999999999999874
No 28
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.29 E-value=5e-12 Score=99.84 Aligned_cols=65 Identities=31% Similarity=0.531 Sum_probs=62.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||+.+|...|+|+.|+++.|+.+|++.||+||.|.+++||++||..|||..|..+.|+|.+|.+-
T Consensus 57 E~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPS 121 (360)
T KOG0145|consen 57 ELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPS 121 (360)
T ss_pred HHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCC
Confidence 57899999999999999999999999999999999999999999999999999999999999764
No 29
>smart00362 RRM_2 RNA recognition motif.
Probab=99.28 E-value=1.8e-11 Score=78.11 Aligned_cols=58 Identities=38% Similarity=0.825 Sum_probs=53.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~ 60 (190)
||.++|.+||.|..|.++.+. +.+.|+|||+|.+.++|+.|+..|++..|.|..|.|.
T Consensus 15 ~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 15 DLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred HHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 588999999999999988775 6778999999999999999999999999999998873
No 30
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.28 E-value=4.2e-12 Score=95.35 Aligned_cols=62 Identities=37% Similarity=0.537 Sum_probs=59.6
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
|.++|-+.|.|+.|.|+.++.++..+|||||+|.++++|+-||+.||...|.|+.|.|..+.
T Consensus 26 l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas 87 (203)
T KOG0131|consen 26 LYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS 87 (203)
T ss_pred HHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence 67899999999999999999999999999999999999999999999999999999998876
No 31
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.27 E-value=1.5e-11 Score=98.18 Aligned_cols=61 Identities=20% Similarity=0.265 Sum_probs=55.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||++||+.||+|..|.|+.+.. ..|||||+|.+.++|+.||. |||.+|.|+.|.|+++..-
T Consensus 20 dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 20 DIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAEDY 80 (260)
T ss_pred HHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccCC
Confidence 6999999999999999988753 46899999999999999996 9999999999999998643
No 32
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.25 E-value=1.7e-11 Score=106.48 Aligned_cols=63 Identities=25% Similarity=0.387 Sum_probs=59.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||+++|.+||.|..|.|+.++.+++++|||||+|.+.++|++||. |+|..|.|..|.|.++..
T Consensus 105 ~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~~~ 167 (457)
T TIGR01622 105 DLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSSQA 167 (457)
T ss_pred HHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeecch
Confidence 589999999999999999999999999999999999999999997 999999999999988654
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=99.25 E-value=1.7e-11 Score=109.20 Aligned_cols=64 Identities=28% Similarity=0.555 Sum_probs=60.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|+++|.+||.|+.|.|+.+ .++.++|||||+|.+.++|++||..|||..|.|+.|.|.+|..+
T Consensus 301 ~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~~k 364 (562)
T TIGR01628 301 KLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRK 364 (562)
T ss_pred HHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEeccCc
Confidence 58999999999999999998 68999999999999999999999999999999999999999764
No 34
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.24 E-value=2e-11 Score=108.72 Aligned_cols=64 Identities=30% Similarity=0.605 Sum_probs=61.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||.++|.+||.|+.|.|+.|..|++++|||||+|.+.++|+.||..||+..|.|+.|.|.|+..
T Consensus 16 ~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~ 79 (562)
T TIGR01628 16 KLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQR 79 (562)
T ss_pred HHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccc
Confidence 5899999999999999999999999999999999999999999999999999999999999864
No 35
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.24 E-value=1.8e-11 Score=105.10 Aligned_cols=65 Identities=28% Similarity=0.545 Sum_probs=59.3
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
||+.+|++||.|.+|.|+..+.+ +.+|||||+|....+|+.||..||+.+|+|+.|-|.||.++.
T Consensus 133 dLk~vFs~~G~V~Ei~IP~k~dg-klcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd 197 (678)
T KOG0127|consen 133 DLKNVFSNFGKVVEIVIPRKKDG-KLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKD 197 (678)
T ss_pred HHHHHHhhcceEEEEEcccCCCC-CccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecccc
Confidence 69999999999999999977644 445999999999999999999999999999999999998654
No 36
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.24 E-value=9.1e-12 Score=102.05 Aligned_cols=64 Identities=23% Similarity=0.539 Sum_probs=61.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||+-+|+.||.|..|.|+.|..||.+..||||+|+++++|++|..+|++..|+...|+|.|++.
T Consensus 255 DLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQS 318 (479)
T KOG0415|consen 255 DLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQS 318 (479)
T ss_pred chhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhhh
Confidence 7899999999999999999999999999999999999999999999999999999999999764
No 37
>PLN03213 repressor of silencing 3; Provisional
Probab=99.19 E-value=3.7e-11 Score=102.27 Aligned_cols=61 Identities=21% Similarity=0.355 Sum_probs=56.0
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCH--HHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYA--EDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~--~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||..+|..||.|..|.|+ +.+| +|||||+|... .++++||..|||.++.|..|+|+.|++.
T Consensus 26 DLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAKP~ 88 (759)
T PLN03213 26 DLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAKEH 88 (759)
T ss_pred HHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeeccHH
Confidence 699999999999999999 4577 89999999987 6899999999999999999999999864
No 38
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.19 E-value=5.8e-11 Score=93.62 Aligned_cols=60 Identities=18% Similarity=0.170 Sum_probs=53.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||++||+.||+|..|.|+.+. ...+||||+|.++++|+.||. |+|.+|.+..|.|..+..
T Consensus 21 dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~~~ 80 (243)
T PLN03121 21 DVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRWGQ 80 (243)
T ss_pred HHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeCcc
Confidence 699999999999999999884 445899999999999999996 999999999999987643
No 39
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.19 E-value=6.3e-11 Score=93.68 Aligned_cols=63 Identities=30% Similarity=0.530 Sum_probs=59.8
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
|-++|..||.|+.|+|+.|..|++++|||||.+.+.++|..||..|||..|.++.|+|.|...
T Consensus 295 LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtn 357 (360)
T KOG0145|consen 295 LWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTN 357 (360)
T ss_pred HHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecC
Confidence 568999999999999999999999999999999999999999999999999999999998754
No 40
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.19 E-value=5.7e-11 Score=104.39 Aligned_cols=64 Identities=20% Similarity=0.429 Sum_probs=56.6
Q ss_pred CHHHHhhcCCCeEEEEEccCC---CCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNY---YTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~---~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||+++|.+||.|+.|.|+.+. .++...|||||+|.+.++|++||..|||.+|.|+.|.|.|...
T Consensus 435 dl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~~~~~~~ 501 (509)
T TIGR01642 435 DVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVVAAFYGE 501 (509)
T ss_pred HHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEeCH
Confidence 478899999999999998753 3455679999999999999999999999999999999998753
No 41
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.16 E-value=6.2e-11 Score=94.08 Aligned_cols=60 Identities=32% Similarity=0.653 Sum_probs=56.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
+|.++|..||.|.+|.|.++ +||+||.|++.|.|..||..||+.+|.|+.|++.|-+...
T Consensus 180 ~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsWGKe~~ 239 (321)
T KOG0148|consen 180 LMRQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSWGKEGD 239 (321)
T ss_pred HHHHhcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEEEEeccccCC
Confidence 47899999999999999998 7999999999999999999999999999999999987643
No 42
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.16 E-value=4.1e-11 Score=95.95 Aligned_cols=57 Identities=32% Similarity=0.512 Sum_probs=54.0
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|+.+|++||+|++|+|+++ ||||..++...|++||..|||.+|+|..|+|+-++.+
T Consensus 18 elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 18 ELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred HHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 58899999999999999966 9999999999999999999999999999999998866
No 43
>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=99.16 E-value=2.1e-10 Score=73.45 Aligned_cols=60 Identities=37% Similarity=0.695 Sum_probs=54.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~ 61 (190)
||.++|..||.|..+.+..++.+ ...|+|||+|.+.++|+.|+..|++..+.|..|.|.+
T Consensus 15 ~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 15 DLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred HHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 57899999999999999987655 6689999999999999999999999999999999864
No 44
>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=99.16 E-value=9.2e-11 Score=102.77 Aligned_cols=60 Identities=22% Similarity=0.258 Sum_probs=55.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|.++|++||.|+.|.|+.++ +|||||+|.+.++|+.||..|||..|.|+.|.|.+++..
T Consensus 292 ~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~ 351 (481)
T TIGR01649 292 RLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQ 351 (481)
T ss_pred HHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccc
Confidence 589999999999999998874 799999999999999999999999999999999998654
No 45
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.15 E-value=1.1e-10 Score=92.66 Aligned_cols=63 Identities=40% Similarity=0.689 Sum_probs=60.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
||.++|.+||.|..|.|+.++.++..+|||||+|.+.++|+.||..|+|..|.|..|.|.++.
T Consensus 131 ~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 131 DLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred HHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence 589999999999999999999999999999999999999999999999999999999999975
No 46
>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=99.15 E-value=6.5e-11 Score=104.87 Aligned_cols=61 Identities=36% Similarity=0.604 Sum_probs=55.2
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC-CeEEEEEEc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG-GREIKIVFA 62 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~-g~~i~V~~a 62 (190)
||.++|++||.|..|.|+.| .+++++|||||+|.+.++|+.||..||+.+|. |+.|.|.++
T Consensus 74 ~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 74 ELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred HHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 58999999999999999999 79999999999999999999999999999885 677666544
No 47
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.14 E-value=4.9e-11 Score=98.22 Aligned_cols=61 Identities=34% Similarity=0.675 Sum_probs=57.9
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
|...|..||.|+.|.|-||+.|++++|||||+|+-+|.|+.|++.|||..|.|+.|+|..-
T Consensus 130 iR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP 190 (544)
T KOG0124|consen 130 IRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 190 (544)
T ss_pred HHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC
Confidence 6778999999999999999999999999999999999999999999999999999998743
No 48
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.13 E-value=8.1e-11 Score=100.81 Aligned_cols=67 Identities=33% Similarity=0.587 Sum_probs=63.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRK 67 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~ 67 (190)
+|..+|+..|.|..+.++.|+.||+.+|||||+|.+.++|+.||..|||.++.|++|.|.|+.....
T Consensus 34 ~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~~~ 100 (435)
T KOG0108|consen 34 QLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNRKN 100 (435)
T ss_pred HHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccccch
Confidence 4789999999999999999999999999999999999999999999999999999999999976543
No 49
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.11 E-value=1.4e-10 Score=88.83 Aligned_cols=64 Identities=25% Similarity=0.406 Sum_probs=57.0
Q ss_pred HHHHhhcC-CCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 2 LRVAFERY-GPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 2 L~~~F~~~-G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
|..+|.+| |.|..+.+..++.||.++|||||+|++++.|+-|.+.||+..|.|+.|.|.+-.+.
T Consensus 66 ~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe 130 (214)
T KOG4208|consen 66 ILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE 130 (214)
T ss_pred HhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence 56677877 77888888899999999999999999999999999999999999999998876544
No 50
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.10 E-value=3.3e-10 Score=100.44 Aligned_cols=58 Identities=31% Similarity=0.494 Sum_probs=53.5
Q ss_pred CHHHHhhcC--CCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERY--GPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~--G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
+|+++|++| |+|+.|.++ ++||||+|++.++|++||+.||+.+|+|+.|.|.|+++..
T Consensus 249 ~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~Akp~~ 308 (578)
T TIGR01648 249 IIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLAKPVD 308 (578)
T ss_pred HHHHHHHhcCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEccCCC
Confidence 589999999 999999876 4599999999999999999999999999999999998754
No 51
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.10 E-value=4.9e-11 Score=94.63 Aligned_cols=66 Identities=26% Similarity=0.367 Sum_probs=62.3
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
||.++|-.||.|+..+|..|+.|+.+|+|+||.|.+...++.||..|||..|.-+.|+|++..++.
T Consensus 301 EliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKRPkd 366 (371)
T KOG0146|consen 301 ELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKRPKD 366 (371)
T ss_pred HHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcCccc
Confidence 588999999999999999999999999999999999999999999999999999999999887654
No 52
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.09 E-value=1.3e-10 Score=97.32 Aligned_cols=66 Identities=32% Similarity=0.566 Sum_probs=58.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCC-eeC--CeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHS-LIG--GREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~-~l~--g~~i~V~~a~~~~ 66 (190)
||.++|++||.|.+|.|++|+.|+..+|+|||.|.+.++|.+||.+|++. +|- ...|.|.+|....
T Consensus 50 dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~ 118 (510)
T KOG0144|consen 50 DLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGER 118 (510)
T ss_pred HHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhh
Confidence 68999999999999999999999999999999999999999999999886 443 4678888886544
No 53
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.08 E-value=1.8e-10 Score=99.00 Aligned_cols=65 Identities=40% Similarity=0.633 Sum_probs=60.5
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|..+|+.||.|..|.++++..||.++|||||+|.+.++|.+|+..|||.+|.|..|+|.+....
T Consensus 294 ~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r 358 (549)
T KOG0147|consen 294 MLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTER 358 (549)
T ss_pred HHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeee
Confidence 47889999999999999999999999999999999999999999999999999999998876543
No 54
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.07 E-value=1.7e-10 Score=96.73 Aligned_cols=67 Identities=31% Similarity=0.572 Sum_probs=59.5
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCC-eeC--CeEEEEEEcccCCCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHS-LIG--GREIKIVFAEENRKT 68 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~-~l~--g~~i~V~~a~~~~~~ 68 (190)
||+++|.+||.|++|.|+.+. .+.++|+|||.|.+.+.|..||+.|||. ++. ...|.|.||..++.+
T Consensus 140 evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk 209 (510)
T KOG0144|consen 140 EVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFADTQKDK 209 (510)
T ss_pred HHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEecccCCCc
Confidence 689999999999999999985 8899999999999999999999999997 444 478999999876544
No 55
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.06 E-value=3.3e-10 Score=95.31 Aligned_cols=57 Identities=30% Similarity=0.538 Sum_probs=53.8
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
|+++|.+||.|+.|..+.| ||||.|.+.++|.+||+.|||++|+|..|.|.+|++..
T Consensus 276 lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~ 332 (506)
T KOG0117|consen 276 LKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVD 332 (506)
T ss_pred HHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecCChh
Confidence 8899999999999988866 99999999999999999999999999999999999754
No 56
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.99 E-value=1.6e-09 Score=74.57 Aligned_cols=62 Identities=23% Similarity=0.412 Sum_probs=54.8
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
|+.++|++||.|..|.|-..+ ..+|-|||.|++..+|.+|+..|+|..+++.-|.|-+-++.
T Consensus 34 emydlFGkyg~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq~~ 95 (124)
T KOG0114|consen 34 EMYDLFGKYGTIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQPE 95 (124)
T ss_pred HHHHHhhcccceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecCHH
Confidence 467899999999999987655 45899999999999999999999999999999999876553
No 57
>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=98.98 E-value=1.4e-09 Score=95.44 Aligned_cols=59 Identities=20% Similarity=0.263 Sum_probs=53.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHh--CCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRL--NHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l--~g~~l~g~~i~V~~a~~~ 65 (190)
||+++|.+||.|..|.|+.+ ++||||+|++.++|+.||..| ++..|.|+.|.|+|+...
T Consensus 18 ~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~ 78 (481)
T TIGR01649 18 DLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQ 78 (481)
T ss_pred HHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCc
Confidence 68999999999999998865 689999999999999999864 788999999999998643
No 58
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.97 E-value=9.3e-10 Score=95.22 Aligned_cols=66 Identities=24% Similarity=0.423 Sum_probs=61.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
||+.||.+||+|+...|+.+-.+...++|+||++.+.++|.+||..|+-++|.|+.|.|+.++..+
T Consensus 421 DLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNEp 486 (940)
T KOG4661|consen 421 DLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNEP 486 (940)
T ss_pred HHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccCc
Confidence 799999999999999999988777789999999999999999999999999999999999987654
No 59
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.96 E-value=7.5e-10 Score=88.81 Aligned_cols=60 Identities=37% Similarity=0.672 Sum_probs=54.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRKT 68 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~~ 68 (190)
||...|++||.|++|+|++| |+||.|+-.++|..||..||+.+|+|+.++|+++...-..
T Consensus 94 ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~stsrlrt 153 (346)
T KOG0109|consen 94 ELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTSRLRT 153 (346)
T ss_pred HHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeeeecccccc
Confidence 68899999999999999965 9999999999999999999999999999999998765433
No 60
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.93 E-value=1.3e-09 Score=89.88 Aligned_cols=65 Identities=18% Similarity=0.413 Sum_probs=60.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||+.+|+.||+|+.|.+..++.++.++||+||+|.+......||..||-+.|.|.-|.|--+...
T Consensus 226 DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~vTP 290 (544)
T KOG0124|consen 226 DIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTP 290 (544)
T ss_pred HHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccccCC
Confidence 78999999999999999999999999999999999999999999999999999999999766543
No 61
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.79 E-value=1.3e-08 Score=86.17 Aligned_cols=63 Identities=27% Similarity=0.521 Sum_probs=56.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
+|.++|+.||+|+.|.|+.+.. | .+|| ||+|++++.|++||..|||..+.|++|.|.......
T Consensus 92 ~~~d~f~~~g~ilS~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~ 154 (369)
T KOG0123|consen 92 SLYDTFSEFGNILSCKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKE 154 (369)
T ss_pred HHHHHHHhhcCeeEEEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchh
Confidence 4889999999999999999863 3 8999 999999999999999999999999999998776543
No 62
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.78 E-value=7e-09 Score=89.41 Aligned_cols=66 Identities=32% Similarity=0.474 Sum_probs=62.5
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
+|.++|+.+|.|..|.|+.++.++.++|||||.|.-++|++.||..+++.+|.|+.|.|.+|+...
T Consensus 21 qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~ 86 (678)
T KOG0127|consen 21 QLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRA 86 (678)
T ss_pred HHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccccc
Confidence 589999999999999999999999999999999999999999999999999999999999997654
No 63
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.77 E-value=3.2e-09 Score=82.87 Aligned_cols=57 Identities=28% Similarity=0.539 Sum_probs=52.5
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||+.||..||+|..|.|+ .||+||+|++..+|++||..||+.+|.|..|.|+++...
T Consensus 17 d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 17 DVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred HHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 689999999999999876 579999999999999999999999999999999998754
No 64
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.77 E-value=1.5e-08 Score=78.67 Aligned_cols=61 Identities=30% Similarity=0.458 Sum_probs=55.1
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
|..+|++||+|.+|.+.. |.+.+|-|||.|.+.+.|-.|+.+|+|..|.|+.+.|++|+.+
T Consensus 30 L~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~s~ 90 (221)
T KOG4206|consen 30 LYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAKSD 90 (221)
T ss_pred HHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecccCc
Confidence 667999999999986553 6778999999999999999999999999999999999999765
No 65
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.76 E-value=1.4e-08 Score=76.55 Aligned_cols=65 Identities=25% Similarity=0.459 Sum_probs=59.3
Q ss_pred HHHHhhcCCCeEEE-EEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 2 LRVAFERYGPVKDV-YLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 2 L~~~F~~~G~I~~v-~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
|.++|..||.|... .|+.+..||.++|||||.|.+.+.+.+||..|||..|....|.|.++..+.
T Consensus 113 L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~ 178 (203)
T KOG0131|consen 113 LYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKD 178 (203)
T ss_pred HHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEecC
Confidence 67899999988754 789999999999999999999999999999999999999999999997543
No 66
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=98.75 E-value=2.1e-08 Score=84.61 Aligned_cols=63 Identities=27% Similarity=0.432 Sum_probs=57.9
Q ss_pred CHHHHhh-cCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFE-RYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~-~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||+++|. +.|+|++|.|+.|. .++.+|+|.|||+++|.+++|++.||-+.+.|+.|.|+....
T Consensus 60 dLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~d 123 (608)
T KOG4212|consen 60 DLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDHD 123 (608)
T ss_pred hHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccCc
Confidence 6889987 58999999999995 899999999999999999999999999999999999986643
No 67
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.74 E-value=5.6e-09 Score=92.21 Aligned_cols=66 Identities=35% Similarity=0.602 Sum_probs=60.8
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
+|+.+|..||.|..|.|+.....+...|||||+|.++.+|..|+.+|..+.|.|+.|+++||+...
T Consensus 629 EVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~d~ 694 (725)
T KOG0110|consen 629 EVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKSDN 694 (725)
T ss_pred HHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhccch
Confidence 588999999999999999886667789999999999999999999999999999999999998654
No 68
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.72 E-value=2.7e-08 Score=84.36 Aligned_cols=63 Identities=25% Similarity=0.508 Sum_probs=58.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
+|.++|..+|.|+.|.|..|- | +.|||||.|.+.++|+.||..||...|.|+.|.|-|+....
T Consensus 14 ~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~ 76 (369)
T KOG0123|consen 14 MLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP 76 (369)
T ss_pred HHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC
Confidence 488999999999999999997 6 99999999999999999999999999999999999987543
No 69
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.71 E-value=3.8e-08 Score=87.07 Aligned_cols=63 Identities=27% Similarity=0.485 Sum_probs=55.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCC---CcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTG---EPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~---~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
+|+.+|.++|.|..|.|.+-+... .+.|||||+|.+.++|+.|+..|+|+.|+|+.|.|.++.
T Consensus 531 ~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 531 DLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred HHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc
Confidence 578899999999999887654322 245999999999999999999999999999999999997
No 70
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.60 E-value=5.1e-08 Score=77.53 Aligned_cols=64 Identities=33% Similarity=0.616 Sum_probs=59.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|+.+|+.||.|..|.|++++.++.++|||||+|.+.+.++.||. |||..|.|..|.|.+....
T Consensus 117 ~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 117 KIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLKRTN 180 (231)
T ss_pred hhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeeeeeee
Confidence 367899999999999999999999999999999999999999999 9999999999999987654
No 71
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.57 E-value=9.4e-08 Score=76.17 Aligned_cols=65 Identities=25% Similarity=0.500 Sum_probs=56.2
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCee-CC--eEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLI-GG--REIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l-~g--~~i~V~~a~~~~ 66 (190)
|+..+|..||.|.+|.+.... +|..||+|||.|.+..+|+.||..|+|... -| ..|.|+++...+
T Consensus 35 dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdk 102 (371)
T KOG0146|consen 35 DVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVKFADTDK 102 (371)
T ss_pred HHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEEeccchH
Confidence 578899999999999998875 788999999999999999999999999744 34 568899987654
No 72
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.53 E-value=1e-07 Score=73.92 Aligned_cols=62 Identities=26% Similarity=0.271 Sum_probs=54.8
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
|.++|.+.|.|..|.|+.++ .++.+ ||||+|.++..+..|++.|||..|.+..|+|.+-...
T Consensus 26 L~ElfiqaGPV~kv~ip~~~-d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~ 87 (267)
T KOG4454|consen 26 LSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGN 87 (267)
T ss_pred HHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhcccccCC
Confidence 78899999999999888876 56666 9999999999999999999999999999998876544
No 73
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.53 E-value=1.6e-07 Score=77.10 Aligned_cols=58 Identities=28% Similarity=0.539 Sum_probs=51.0
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHh-CCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRL-NHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l-~g~~l~g~~i~V~~a~~ 64 (190)
||.++|.+||+|..|.|+.. ++.|||+|.+.+.|+.|...+ |-..|+|..|.|.|..+
T Consensus 244 dIrdhFyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~ 302 (377)
T KOG0153|consen 244 DIRDHFYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP 302 (377)
T ss_pred HHHHHHhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence 68999999999999988766 679999999999999988754 55678999999999976
No 74
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.51 E-value=1.9e-07 Score=83.47 Aligned_cols=63 Identities=29% Similarity=0.493 Sum_probs=57.5
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCCCc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRKTP 69 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~~~ 69 (190)
||..+|+.||+|..|.|+-+ .|+|||.+....+|++||.+|....|.++.|+|.|+..+..+.
T Consensus 437 dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks 499 (894)
T KOG0132|consen 437 DLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKS 499 (894)
T ss_pred HHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcch
Confidence 68999999999999988766 7999999999999999999999999999999999998765443
No 75
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.46 E-value=4.3e-07 Score=72.43 Aligned_cols=64 Identities=27% Similarity=0.422 Sum_probs=58.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
||+++|..||.++.+.|.+++ .|.+.|.|-|.|...+||+.||+.|||..|+|..|+|++....
T Consensus 99 Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~~~ 162 (243)
T KOG0533|consen 99 DLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIISSP 162 (243)
T ss_pred HHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEecCc
Confidence 799999999999999888886 8889999999999999999999999999999999999876544
No 76
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.44 E-value=1.5e-07 Score=77.65 Aligned_cols=67 Identities=25% Similarity=0.465 Sum_probs=60.3
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRKT 68 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~~ 68 (190)
||+++|.+||.|..+.|+.|..+...+||+||+|.+++.++.++. +.-++|+|+.|.|..|.++...
T Consensus 113 ~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~pk~~~ 179 (311)
T KOG4205|consen 113 DFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAIPKEVM 179 (311)
T ss_pred HHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeeccchhhc
Confidence 588999999999999999999999999999999999888888877 6778999999999999876543
No 77
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.39 E-value=1.9e-07 Score=77.10 Aligned_cols=64 Identities=30% Similarity=0.481 Sum_probs=55.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
.|.++|.+||+|.+|.|+.++.++..+||+||+|++.+.+..+|. ...++|+|+.|.++.|.+.
T Consensus 22 ~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~av~r 85 (311)
T KOG4205|consen 22 SLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRAVSR 85 (311)
T ss_pred HHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceeccCc
Confidence 388999999999999999999999999999999999888887776 4556899999988877654
No 78
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.36 E-value=3.8e-07 Score=78.84 Aligned_cols=65 Identities=20% Similarity=0.328 Sum_probs=60.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
||++||..+|.|..|.|+.|..++..+|.|||+|.+.+.+..||. |.|.-|.|..|.|+.....+
T Consensus 195 dL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~vq~sEaek 259 (549)
T KOG0147|consen 195 DLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIVQLSEAEK 259 (549)
T ss_pred hHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeEecccHHHH
Confidence 799999999999999999999999999999999999999999996 99999999999998876544
No 79
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=98.36 E-value=1.4e-06 Score=74.63 Aligned_cols=64 Identities=28% Similarity=0.471 Sum_probs=52.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|+++|.+||.|+...|..-...++..+||||+|++.+.++.||.+ +-..|++++|.|+..+..
T Consensus 304 ~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~~~ 367 (419)
T KOG0116|consen 304 ELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKRPG 367 (419)
T ss_pred HHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEecccc
Confidence 4899999999999876655333344449999999999999999995 467889999999987654
No 80
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.36 E-value=1.7e-06 Score=72.61 Aligned_cols=61 Identities=18% Similarity=0.316 Sum_probs=56.3
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENRK 67 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~~ 67 (190)
|..+|+.||.|..|.|+.++ +.-|+|+|.+...|+.|+..|+|..|.|++|.|.+++....
T Consensus 315 LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~v 375 (492)
T KOG1190|consen 315 LFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNV 375 (492)
T ss_pred HHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccc
Confidence 67899999999999999986 57899999999999999999999999999999999987653
No 81
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.34 E-value=1e-06 Score=76.60 Aligned_cols=60 Identities=23% Similarity=0.430 Sum_probs=52.7
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC-CeEEEEEEc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG-GREIKIVFA 62 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~-g~~i~V~~a 62 (190)
|..+|+++|+|+.+.++.+..+| ++||.|++|.+..+|+.|++.|||+.|+ .+.+.|..-
T Consensus 81 l~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~~f 141 (698)
T KOG2314|consen 81 LTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVRLF 141 (698)
T ss_pred HHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccceEEeehh
Confidence 57899999999999999887666 8999999999999999999999999887 666666543
No 82
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=98.21 E-value=6.2e-07 Score=71.05 Aligned_cols=65 Identities=28% Similarity=0.434 Sum_probs=54.2
Q ss_pred CHHHHhh-cCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFE-RYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~-~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
||..+|. +||+|+++.|..+ ..-...|.+||.|...++|++|+..||+..|.|++|..+++....
T Consensus 84 d~f~E~~~kygEiee~~Vc~N-l~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~ 149 (260)
T KOG2202|consen 84 DVFTELEDKYGEIEELNVCDN-LGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTD 149 (260)
T ss_pred HHHHHHHHHhhhhhhhhhhcc-cchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCc
Confidence 4566677 8999999855444 344567999999999999999999999999999999999986554
No 83
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.20 E-value=6.8e-06 Score=64.16 Aligned_cols=69 Identities=22% Similarity=0.220 Sum_probs=52.4
Q ss_pred CHHHHhhcCCCeEEEEEcc-CCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC---CeEEEEEEcccCCCCc
Q 036035 1 ELRVAFERYGPVKDVYLPK-NYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG---GREIKIVFAEENRKTP 69 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~-~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~---g~~i~V~~a~~~~~~~ 69 (190)
||..+|..|--.+.+.|.. ++....++-+|||+|.+..+|++|+..|||..|+ +..|+|++|+.+.+..
T Consensus 50 EiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiElAKSNtK~k 122 (284)
T KOG1457|consen 50 EIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIELAKSNTKRK 122 (284)
T ss_pred HHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEeeehhcCcccc
Confidence 4777888875444444433 3333345679999999999999999999999997 8899999998765443
No 84
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.12 E-value=1.9e-06 Score=68.23 Aligned_cols=59 Identities=31% Similarity=0.587 Sum_probs=51.9
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEE
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~ 60 (190)
|-..|.+|-......++.++-||+++||+||.|.+..|+..|+..|||..++.+.|++-
T Consensus 207 l~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklR 265 (290)
T KOG0226|consen 207 LARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLR 265 (290)
T ss_pred HHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhh
Confidence 34567777777777899999999999999999999999999999999999999988764
No 85
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.12 E-value=8e-06 Score=71.11 Aligned_cols=63 Identities=24% Similarity=0.439 Sum_probs=53.3
Q ss_pred CHHHHhhcCCCeEEEEEccCCCC---CCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYT---GEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t---~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
||+..+.+||.|..|.|+.+..+ .-..|-.||+|.+.++|+.|+.+|+|.+|.|+.|.+.|-.
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd 490 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD 490 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence 57788999999999999887322 2235788999999999999999999999999999888753
No 86
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.09 E-value=1.3e-06 Score=68.37 Aligned_cols=51 Identities=35% Similarity=0.548 Sum_probs=46.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V 59 (190)
||.++|.+||++++..+. .+++||+|+++++|..||..|++..|.+..|.|
T Consensus 115 dl~d~~~~~g~~~~~~~~--------~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 115 DLKDHFRPAGEVTYVDAR--------RNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred HHhhhhcccCCCchhhhh--------ccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 689999999999665442 569999999999999999999999999999998
No 87
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=98.09 E-value=1.9e-06 Score=71.18 Aligned_cols=65 Identities=23% Similarity=0.297 Sum_probs=58.8
Q ss_pred CHHHHhhcCCCeE--------EEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVK--------DVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~--------~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|.++|.++|.|. .|+|.++++|+..||-|.|.|++...|+.||.-++++.|.|..|+|.+|...
T Consensus 82 ~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r 154 (351)
T KOG1995|consen 82 DNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERR 154 (351)
T ss_pred HHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhc
Confidence 4788999999885 4788899999999999999999999999999999999999999999887644
No 88
>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=98.06 E-value=1.6e-05 Score=54.77 Aligned_cols=57 Identities=21% Similarity=0.299 Sum_probs=49.5
Q ss_pred CCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC----CeEEEEEEcccC
Q 036035 9 YGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG----GREIKIVFAEEN 65 (190)
Q Consensus 9 ~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~----g~~i~V~~a~~~ 65 (190)
.|....+.|+.|..++.+.|||||.|.+.+.|..-.+.++|..+. .+.+.|.+|.-+
T Consensus 27 ~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i~yAriQ 87 (97)
T PF04059_consen 27 KGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEISYARIQ 87 (97)
T ss_pred cCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEEehhHhh
Confidence 478888999999999999999999999999999999999999775 566678888643
No 89
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.05 E-value=1.4e-06 Score=75.57 Aligned_cols=53 Identities=36% Similarity=0.548 Sum_probs=47.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIK 58 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~ 58 (190)
+|..+|+.||+|.+|..-.. ..|.+||+|.+..+|+.|+++|++.+|.|+.|+
T Consensus 91 ~L~~~f~~yGeir~ir~t~~-----~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 91 TLLRIFGAYGEIREIRETPN-----KRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred HHHHHHHhhcchhhhhcccc-----cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 58999999999999766544 489999999999999999999999999999887
No 90
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.02 E-value=1.2e-05 Score=66.25 Aligned_cols=62 Identities=23% Similarity=0.395 Sum_probs=48.3
Q ss_pred HHHhhcCCCeEEEEEccCCC-CCCcce--EEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 3 RVAFERYGPVKDVYLPKNYY-TGEPRG--FGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 3 ~~~F~~~G~I~~v~i~~~~~-t~~~~G--~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
.++|++||.|..|.|.+.-. .....+ -.||+|...+||..||.+++|..++|+.|+..+...
T Consensus 138 ~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYGTT 202 (480)
T COG5175 138 HEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYGTT 202 (480)
T ss_pred hhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCceEeeecCch
Confidence 47899999999986654321 111122 249999999999999999999999999999887653
No 91
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.02 E-value=1.7e-05 Score=65.45 Aligned_cols=60 Identities=25% Similarity=0.451 Sum_probs=52.0
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||.+...+||.|..|.|. + ..+.|.+-|.|.+.++|+.||+.|+|..|+|++|..++...
T Consensus 292 dl~eec~K~G~v~~vvv~-d---~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~DG 351 (382)
T KOG1548|consen 292 DLTEECEKFGQVRKVVVY-D---RHPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWDG 351 (382)
T ss_pred HHHHHHHHhCCcceEEEe-c---cCCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeCC
Confidence 577888999999999664 2 35689999999999999999999999999999999887643
No 92
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.99 E-value=1.9e-05 Score=65.87 Aligned_cols=60 Identities=25% Similarity=0.276 Sum_probs=55.5
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
|..+|..||.|..|.+++.+ .|.|+||+.+...++.||..||+..|.|.+|.|.+++..-
T Consensus 305 lFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~~ 364 (494)
T KOG1456|consen 305 LFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQNF 364 (494)
T ss_pred hhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccccc
Confidence 67899999999999999876 7899999999999999999999999999999999987654
No 93
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.94 E-value=6.5e-06 Score=71.65 Aligned_cols=66 Identities=23% Similarity=0.413 Sum_probs=60.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
+|.+++..||.+....++.+..+|.++||||.+|.+......||..|||..|.+.+|.|+.|....
T Consensus 305 q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~ 370 (500)
T KOG0120|consen 305 QVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGA 370 (500)
T ss_pred HHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccc
Confidence 367889999999999999999999999999999999999999999999999999999999887654
No 94
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.93 E-value=1.8e-05 Score=65.27 Aligned_cols=65 Identities=17% Similarity=0.251 Sum_probs=56.5
Q ss_pred CHHHHhhcCCCeE--------EEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVK--------DVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~--------~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
++.++|.+||.|. .|.|..+. .|+.+|-|+|.|...+.++.||+.|++..|.|.+|.|+.|+-..
T Consensus 150 E~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq~ 222 (382)
T KOG1548|consen 150 EFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQM 222 (382)
T ss_pred HHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhhh
Confidence 4678899999886 36676665 58999999999999999999999999999999999999987543
No 95
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=97.91 E-value=3.6e-05 Score=51.24 Aligned_cols=53 Identities=26% Similarity=0.396 Sum_probs=38.5
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
|++++..+| .|..| . .+.|+|-|.+++.|+.|++.|+|..+.|.+|.|.+...
T Consensus 23 L~qLsdNCGGkVl~v--~--------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~ 76 (90)
T PF11608_consen 23 LRQLSDNCGGKVLSV--S--------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPK 76 (90)
T ss_dssp HHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--
T ss_pred HHHHhhccCCEEEEE--e--------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCC
Confidence 678888876 66665 2 36899999999999999999999999999999998853
No 96
>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=97.88 E-value=5.2e-05 Score=52.59 Aligned_cols=62 Identities=11% Similarity=0.207 Sum_probs=43.0
Q ss_pred HHHHhhcCCCeEEEE-EccCC------CCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCe-EEEEEEccc
Q 036035 2 LRVAFERYGPVKDVY-LPKNY------YTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGR-EIKIVFAEE 64 (190)
Q Consensus 2 L~~~F~~~G~I~~v~-i~~~~------~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~-~i~V~~a~~ 64 (190)
|.++|++||.|++.. +..+. .......+..|+|.+..+|++||. .||..|.|. .|-|.++++
T Consensus 22 Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~mvGV~~~~~ 91 (100)
T PF05172_consen 22 VLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGSLMVGVKPCDP 91 (100)
T ss_dssp HHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTCEEEEEEE-HH
T ss_pred HHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCcEEEEEEEcHH
Confidence 678999999998874 11100 001124699999999999999999 799999885 556777753
No 97
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.87 E-value=5.6e-05 Score=55.61 Aligned_cols=56 Identities=30% Similarity=0.409 Sum_probs=45.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|.+.|..||+|+-|.++.+ --+|+|.+-+.|.+|+. |+|.+|+|+.|+|.+..+.
T Consensus 52 ~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtpd 107 (146)
T PF08952_consen 52 ELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTPD 107 (146)
T ss_dssp HHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE----
T ss_pred HHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCcc
Confidence 36788999999998888754 67999999999999998 9999999999999887654
No 98
>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=97.87 E-value=1.8e-05 Score=55.43 Aligned_cols=56 Identities=27% Similarity=0.536 Sum_probs=35.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCC-----eeCCeEEEEEEc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHS-----LIGGREIKIVFA 62 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~-----~l~g~~i~V~~a 62 (190)
||+++|.+||.|.+|++... ...|||-|.+.+.|+.||..+... +|.+..+.+++-
T Consensus 17 ~iK~~f~~~g~V~yVD~~~G------~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~vL 77 (105)
T PF08777_consen 17 DIKEAFSQFGEVAYVDFSRG------DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLEVL 77 (105)
T ss_dssp HHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE--
T ss_pred HHHHHHHhcCCcceEEecCC------CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEEEC
Confidence 58999999999999998875 358999999999999999877543 566766666553
No 99
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=97.77 E-value=2.9e-05 Score=69.36 Aligned_cols=64 Identities=27% Similarity=0.377 Sum_probs=55.5
Q ss_pred HHHHhhcCCCeEEEEEccCCC---CCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 2 LRVAFERYGPVKDVYLPKNYY---TGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~---t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
|...|+.||+|..|.|++... ......+|||.|.+..||+.|++.|+|..|.+..|++.|+++-
T Consensus 191 ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWgk~V 257 (877)
T KOG0151|consen 191 LLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWGKAV 257 (877)
T ss_pred HHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeeecccccc
Confidence 667899999999999998763 2334578999999999999999999999999999999998654
No 100
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.74 E-value=7.2e-05 Score=60.63 Aligned_cols=63 Identities=30% Similarity=0.351 Sum_probs=50.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCc-ceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEP-RGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~-~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
++++.+++||.|..|.|..++..-.. .--.||+|+..+.|.+|+-.|||..|.|+.+...|-+
T Consensus 302 e~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 302 ETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 36778999999999987776432221 2247999999999999999999999999999877643
No 101
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.63 E-value=9.2e-05 Score=45.32 Aligned_cols=37 Identities=24% Similarity=0.621 Sum_probs=31.8
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHH
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAK 44 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai 44 (190)
|..+|..||+|+.+.+... ..+.||.|.+..+|+.||
T Consensus 17 vl~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 17 VLEHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred HHHHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 5678999999999988732 459999999999999985
No 102
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=97.63 E-value=0.0001 Score=63.38 Aligned_cols=60 Identities=27% Similarity=0.496 Sum_probs=48.6
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||.+||+.++ |+.+.+.+ .+|++.|-|||+|++++|+++||+ +|-..+..+-|.|-.+..
T Consensus 26 ei~~Ff~~~~-I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~ 85 (510)
T KOG4211|consen 26 EILDFFSNCG-IENLEIPR--RNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGG 85 (510)
T ss_pred HHHHHHhcCc-eeEEEEec--cCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCC
Confidence 6889999886 66655544 489999999999999999999999 677777778888866643
No 103
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.51 E-value=2.1e-05 Score=65.92 Aligned_cols=54 Identities=17% Similarity=0.069 Sum_probs=40.2
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V 59 (190)
||.++|..+|+|.+..+... ...-+|.|+|........|+. ++|.++.-+...+
T Consensus 167 e~~e~f~r~Gev~ya~~ask----~~s~~c~~sf~~qts~~halr-~~gre~k~qhsr~ 220 (479)
T KOG4676|consen 167 ESGESFERKGEVSYAHTASK----SRSSSCSHSFRKQTSSKHALR-SHGRERKRQHSRR 220 (479)
T ss_pred hhhhhhhhcchhhhhhhhcc----CCCcchhhhHhhhhhHHHHHH-hcchhhhhhhhhh
Confidence 46788999999988766533 235688899999999999998 7787776433333
No 104
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=97.28 E-value=0.011 Score=45.99 Aligned_cols=52 Identities=21% Similarity=0.037 Sum_probs=32.6
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHH--HhCCCeeC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQ--RLNHSLIG 53 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~--~l~g~~l~ 53 (190)
|++-++..|.|--..-...+......=.-|-.=.++++|++||. .|+|.+|-
T Consensus 33 vFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 33 VFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred HHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 56667777777543222222222223355666678899999996 68998884
No 105
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=97.25 E-value=0.00022 Score=58.64 Aligned_cols=65 Identities=26% Similarity=0.485 Sum_probs=58.0
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccCC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEENR 66 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~~ 66 (190)
||+.+|..+|.|+.|.++.+..++..+|||||+|.+...+..|+.. +...|.+..|.|+...+..
T Consensus 201 ~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 265 (285)
T KOG4210|consen 201 DLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDEPRP 265 (285)
T ss_pred HHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCCCCc
Confidence 4567899999999999999999999999999999999999999886 7889999999999886543
No 106
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.24 E-value=0.0015 Score=49.86 Aligned_cols=54 Identities=22% Similarity=0.314 Sum_probs=45.8
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC--CeEEEEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG--GREIKIVF 61 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~--g~~i~V~~ 61 (190)
||++++.+.|.|++.+|.+| |++.|+|...+|++.||.+|+...+. |....|.+
T Consensus 131 DLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~seGe~~yirv 186 (241)
T KOG0105|consen 131 DLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFRSEGETAYIRV 186 (241)
T ss_pred HHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhccccccCcCcEeeEEe
Confidence 79999999999999999887 59999999999999999999987765 44444433
No 107
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.17 E-value=0.0011 Score=55.60 Aligned_cols=61 Identities=28% Similarity=0.249 Sum_probs=49.8
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCC--eEEEEEEcccCCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGG--REIKIVFAEENRK 67 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g--~~i~V~~a~~~~~ 67 (190)
|..+....|+|..|.|+.. + ---|.|||++.+.|+.|...|||..|.. -.|+|++|++.+.
T Consensus 139 ly~Icnp~GkVlRIvIfkk--n---gVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIeyAkP~rl 201 (494)
T KOG1456|consen 139 LYTICNPQGKVLRIVIFKK--N---GVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIEYAKPTRL 201 (494)
T ss_pred hhhhcCCCCceEEEEEEec--c---ceeeEEeechhHHHHHHHhhcccccccccceeEEEEecCccee
Confidence 4556677899999977654 2 2369999999999999999999998873 6889999998753
No 108
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=97.16 E-value=0.0011 Score=51.90 Aligned_cols=57 Identities=30% Similarity=0.416 Sum_probs=49.1
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC-CeEEEEEEcc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG-GREIKIVFAE 63 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~-g~~i~V~~a~ 63 (190)
|..+|.+|....+|.++... .+.|||+|.+...|..|...|+|..|- ...+.|.+++
T Consensus 163 l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~~a~ 220 (221)
T KOG4206|consen 163 LSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQITFAK 220 (221)
T ss_pred HHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceeccCceEEecccC
Confidence 67889999988888887764 789999999999999999999999887 7888888764
No 109
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.01 E-value=0.001 Score=59.66 Aligned_cols=61 Identities=23% Similarity=0.324 Sum_probs=50.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~ 61 (190)
||.+||..|-.+-.-.+++-.+.|++.|-|.|.|++.++|..|...|++..|..++|.|.+
T Consensus 883 dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 883 DIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred HHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 5788888887665433334446899999999999999999999999999999999998765
No 110
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.92 E-value=0.0012 Score=57.07 Aligned_cols=60 Identities=30% Similarity=0.419 Sum_probs=45.6
Q ss_pred CHHHHhhcCCCeEE-EEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 1 ELRVAFERYGPVKD-VYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 1 DL~~~F~~~G~I~~-v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
||.+||+..-.|.. |.|+.+. .+.+.|-|||+|++++.|++||. -|-..|..+-|.|-.+
T Consensus 119 dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 119 DIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFRS 179 (510)
T ss_pred HHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeehh
Confidence 68888987655544 5556664 56689999999999999999998 4556777777777544
No 111
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=96.84 E-value=0.0016 Score=55.62 Aligned_cols=38 Identities=37% Similarity=0.598 Sum_probs=33.8
Q ss_pred CCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 23 TGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 23 t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
.|+.+| .|.|.++++|+.||..|||..|+|+.|.|.+.
T Consensus 571 ~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y~ 608 (608)
T KOG4212|consen 571 NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTYF 608 (608)
T ss_pred cCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeeeC
Confidence 355555 89999999999999999999999999999874
No 112
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=96.84 E-value=0.0043 Score=47.78 Aligned_cols=58 Identities=24% Similarity=0.315 Sum_probs=43.8
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhC--CCeeCCeEEEEEEcccC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN--HSLIGGREIKIVFAEEN 65 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~--g~~l~g~~i~V~~a~~~ 65 (190)
|+.+|.+|+.+..+.++.. -+=..|.|.+.+.|+.|...|+ +..|.|..|.|.+++..
T Consensus 12 l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 12 LEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp HHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred HHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 7889999999888766654 4568999999999999999999 99999999999998654
No 113
>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=96.82 E-value=0.0042 Score=40.56 Aligned_cols=52 Identities=23% Similarity=0.280 Sum_probs=31.2
Q ss_pred HHHHhhcCC-----CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 2 LRVAFERYG-----PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 2 L~~~F~~~G-----~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
|..+|...+ .|-.|.|..+ |+||+... +.|+.+|..|++..+.|+.|.|+.|
T Consensus 18 iv~~i~~~~gi~~~~IG~I~I~~~--------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 18 IVGAICNEAGIPGRDIGRIDIFDN--------FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp HHHHHHTCTTB-GGGEEEEEE-SS---------EEEEE-T-T-HHHHHHHHTT--SSS----EEE-
T ss_pred HHHHHHhccCCCHHhEEEEEEeee--------EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence 445555543 4557777654 99999875 6889999999999999999999875
No 114
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.68 E-value=0.00066 Score=56.07 Aligned_cols=61 Identities=18% Similarity=0.316 Sum_probs=48.0
Q ss_pred HHhhcCCCeEEEEEccCCC----CCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 4 VAFERYGPVKDVYLPKNYY----TGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 4 ~~F~~~G~I~~v~i~~~~~----t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+.|.+||.|..|.+..+.. .+. ..-++|+|+..++|..||...+|..++|+.|++.+...+
T Consensus 99 eyfgqygki~ki~~~~~~S~~s~~~~-~~s~yITy~~~eda~rci~~v~g~~~dg~~lka~~gttk 163 (327)
T KOG2068|consen 99 EYFGQYGKINKIVKNKDPSSSSSSGG-TCSVYITYEEEEDADRCIDDVDGFVDDGRALKASLGTTK 163 (327)
T ss_pred ccccccccceEEeecCCcccccCCCC-CCcccccccchHhhhhHHHHhhhHHhhhhhhHHhhCCCc
Confidence 5699999999998777652 111 223899999999999999999999999998776665543
No 115
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=96.68 E-value=0.004 Score=50.89 Aligned_cols=58 Identities=19% Similarity=0.274 Sum_probs=45.5
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeE-EEEEEcccCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGRE-IKIVFAEENR 66 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~-i~V~~a~~~~ 66 (190)
|..+|.+||+|++..... +-.|-+|.|.+..+|++||. .||+.|+|.. |-|..|..+.
T Consensus 213 vL~~F~~cG~Vvkhv~~~------ngNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpCtDks 271 (350)
T KOG4285|consen 213 VLNLFSRCGEVVKHVTPS------NGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPCTDKS 271 (350)
T ss_pred HHHHHHhhCeeeeeecCC------CCceEEEEecchhHHHHhhh-hcCeeeccceEEeeeecCCHH
Confidence 568999999998875442 24599999999999999999 7999998865 4566665443
No 116
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.56 E-value=0.0013 Score=56.56 Aligned_cols=57 Identities=19% Similarity=0.388 Sum_probs=49.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
+|..+|.+||+|..|.|-.. .--|.|+|.+..+|-.|.. .++..|+++.|+|-|-++
T Consensus 389 ~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnp 445 (526)
T KOG2135|consen 389 DLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNP 445 (526)
T ss_pred hhhhhhhhcCccccccccCc------hhhheeeeeccccccchhc-cccceecCceeEEEEecC
Confidence 57889999999999987655 3478999999999977766 789999999999999876
No 117
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=96.53 E-value=0.0018 Score=53.88 Aligned_cols=62 Identities=16% Similarity=0.283 Sum_probs=51.2
Q ss_pred CHHHHhhcCC--CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 1 ELRVAFERYG--PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 1 DL~~~F~~~G--~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
||.+.+...| .|.++++..+..+|+++|||+|.+.+...+++.|+.|..++|.|+.-+|.-+
T Consensus 96 DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~ 159 (498)
T KOG4849|consen 96 DLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSY 159 (498)
T ss_pred HHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeecc
Confidence 4556666655 5667778889999999999999999999999999999999999987666543
No 118
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=96.37 E-value=0.0054 Score=52.05 Aligned_cols=57 Identities=26% Similarity=0.388 Sum_probs=43.5
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceE-EEEEEcCHHHHHHHHHHhCCCeeCC--eEEEEEEcc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGF-GFVKFRYAEDAAEAKQRLNHSLIGG--REIKIVFAE 63 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~-afV~f~~~~~a~~Ai~~l~g~~l~g--~~i~V~~a~ 63 (190)
|.++|++||.|..|..... +.|| |+|+|.+.+.|+.|..+|+|.-|.. -.|.|.+++
T Consensus 167 LHqvFS~fG~VlKIiTF~K-----nn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId~Sk 226 (492)
T KOG1190|consen 167 LHQVFSKFGFVLKIITFTK-----NNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRIDFSK 226 (492)
T ss_pred HHHHHhhcceeEEEEEEec-----ccchhhhhhccchhhHHHHHHhccCCcccCceeEEEeehhh
Confidence 6789999999998743322 2455 8899999999999999999997764 345555554
No 119
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=96.13 E-value=0.0022 Score=56.65 Aligned_cols=59 Identities=19% Similarity=0.372 Sum_probs=45.8
Q ss_pred CHHHHhhc-CCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCee---CCeEEEEEEcccC
Q 036035 1 ELRVAFER-YGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLI---GGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~-~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l---~g~~i~V~~a~~~ 65 (190)
+|+.+++. .|.|+.++|-.. +..|||.|.+.++|.+.+.+|||..+ +++.|.|.|+...
T Consensus 460 QLkelL~rtgg~Vee~WmDkI------KShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~adf~~~d 522 (718)
T KOG2416|consen 460 QLKELLGRTGGNVEEFWMDKI------KSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIADFVRAD 522 (718)
T ss_pred HHHHHHhhccCchHHHHHHHh------hcceeEecccHHHHHHHHHHHhccccCCCCCceeEeeecchh
Confidence 47888884 566666654433 67999999999999999999999855 4677888887643
No 120
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.09 E-value=0.0057 Score=56.41 Aligned_cols=63 Identities=22% Similarity=0.552 Sum_probs=52.9
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCC--eEEEEEEcccCCCCcc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGG--REIKIVFAEENRKTPQ 70 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g--~~i~V~~a~~~~~~~~ 70 (190)
|..+|..||.|..|++-.. .-||+|+|++...++.|+..|-|..|.| +.|.|.|+......++
T Consensus 472 l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla~~~~~~Pq 536 (975)
T KOG0112|consen 472 LNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLASPPGATPQ 536 (975)
T ss_pred HHHHhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCcccccccccCCCCChh
Confidence 6788999999999877543 4599999999999999999999999985 5688999887655444
No 121
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=96.05 E-value=0.0054 Score=52.31 Aligned_cols=52 Identities=25% Similarity=0.311 Sum_probs=40.7
Q ss_pred HHHHhhcCCCeEEEEEccC---CCC--CCc--------ceEEEEEEcCHHHHHHHHHHhCCCeeC
Q 036035 2 LRVAFERYGPVKDVYLPKN---YYT--GEP--------RGFGFVKFRYAEDAAEAKQRLNHSLIG 53 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~---~~t--~~~--------~G~afV~f~~~~~a~~Ai~~l~g~~l~ 53 (190)
|.++|+.+|.|..|.|+.. +.+ +.+ +-+|||+|++.+.|.+|.+.|+....+
T Consensus 248 l~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~~e~~w 312 (484)
T KOG1855|consen 248 LSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLNPEQNW 312 (484)
T ss_pred HHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhchhhhh
Confidence 7899999999999998776 322 222 346999999999999999988665443
No 122
>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=95.96 E-value=0.019 Score=38.32 Aligned_cols=40 Identities=15% Similarity=0.256 Sum_probs=33.2
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~ 48 (190)
||.++|..||.|.-- .+.| .-|||.+.+.+.|..|+..+.
T Consensus 24 DI~qlFspfG~I~Vs-Wi~d-------TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 24 DIYQLFSPFGQIYVS-WIND-------TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp HHHHHCCCCCCEEEE-EECT-------TEEEEEECCCHHHHHHHHHHT
T ss_pred hHHHHhccCCcEEEE-EEcC-------CcEEEEeecHHHHHHHHHHhc
Confidence 689999999998744 4444 389999999999999998775
No 123
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=95.84 E-value=0.0061 Score=51.41 Aligned_cols=62 Identities=24% Similarity=0.369 Sum_probs=47.8
Q ss_pred CHHHHhhcCCC-eEE--EEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 1 ELRVAFERYGP-VKD--VYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 1 DL~~~F~~~G~-I~~--v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
||.+||..|.. |.. |.|+.+. .|.+.|-|||+|.++++|..|+...+.+....+-|.|-.+.
T Consensus 296 dIL~FlgdFa~~i~f~gVHmv~N~-qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S 360 (508)
T KOG1365|consen 296 DILDFLGDFATDIRFQGVHMVLNG-QGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCS 360 (508)
T ss_pred HHHHHHHHHhhhcccceeEEEEcC-CCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeecc
Confidence 46777777753 333 7777764 78899999999999999999998877766668888776554
No 124
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=95.71 E-value=0.013 Score=49.54 Aligned_cols=62 Identities=16% Similarity=0.193 Sum_probs=42.7
Q ss_pred CHHHHhhcCCCeEEEEEccCCCC---CCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYT---GEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t---~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
+|+.||...|+|.++.|+-+..+ ....-.|||.|.+...+..|..+.|...|+-..|+|-+.
T Consensus 23 qm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~ 87 (479)
T KOG4676|consen 23 QMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYG 87 (479)
T ss_pred HHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEecC
Confidence 36789999999999977654322 223458999999998888887744444455555555444
No 125
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=95.52 E-value=0.028 Score=49.40 Aligned_cols=58 Identities=17% Similarity=0.287 Sum_probs=46.9
Q ss_pred cCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCee---CC-eEEEEEEcccC
Q 036035 8 RYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLI---GG-REIKIVFAEEN 65 (190)
Q Consensus 8 ~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l---~g-~~i~V~~a~~~ 65 (190)
..|.-..+.++.|..+..+.|||||.|.+.+.+..+.++.||+.. .+ +.+.|.||.-+
T Consensus 412 ~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQ 473 (549)
T KOG4660|consen 412 NKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQ 473 (549)
T ss_pred ccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhh
Confidence 366667888999988888999999999999999999999999843 34 44467777644
No 126
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=95.35 E-value=0.026 Score=36.18 Aligned_cols=60 Identities=23% Similarity=0.263 Sum_probs=47.7
Q ss_pred CHHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 1 ELRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 1 DL~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
+|++.|.++| ++.+|..+....+..+-..-||+.....+... .|+-+.|+|..|.|+-..
T Consensus 3 ~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~ 63 (69)
T smart00596 3 QIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPH 63 (69)
T ss_pred HHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCc
Confidence 4788999999 78888888888778888899999987655554 466678999999998653
No 127
>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=95.04 E-value=0.082 Score=33.74 Aligned_cols=51 Identities=10% Similarity=0.195 Sum_probs=37.7
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIV 60 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~ 60 (190)
||+..|.+|+-. .|..++ .| -||.|.+..+|+.|....+|..+.+..|.++
T Consensus 16 d~K~~Lr~y~~~---~I~~d~-----tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M~ 66 (66)
T PF11767_consen 16 DFKKRLRKYRWD---RIRDDR-----TG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQME 66 (66)
T ss_pred HHHHHHhcCCcc---eEEecC-----CE-EEEEECChHHHHHHHHhcCCCEEEEEEEEeC
Confidence 456667777632 244442 33 3799999999999999999999988887653
No 128
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=94.90 E-value=0.021 Score=52.63 Aligned_cols=59 Identities=22% Similarity=0.332 Sum_probs=51.5
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC--CeEEEEEEcccCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG--GREIKIVFAEENR 66 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~--g~~i~V~~a~~~~ 66 (190)
|..+|.+||.|..++.+.+ -..|.|+|...+.|..|+.+|+|+++. |-..+|.+|+...
T Consensus 315 L~~l~s~yg~v~s~wtlr~------~N~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~~~ 375 (1007)
T KOG4574|consen 315 LATLCSDYGSVASAWTLRD------LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKTLP 375 (1007)
T ss_pred HHHHHHhhcchhhheeccc------ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccccc
Confidence 5678999999999998877 468999999999999999999999764 7888999988654
No 129
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=94.82 E-value=0.012 Score=53.97 Aligned_cols=64 Identities=17% Similarity=0.233 Sum_probs=55.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
+|+.+|.++|.++.+.++..+ .|+++|.|||.|.++.++..++..+++..+.-..+.|.++.+.
T Consensus 752 ~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp~ 815 (881)
T KOG0128|consen 752 ELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNPE 815 (881)
T ss_pred HHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCCc
Confidence 467889999999998877764 8999999999999999999999999988888888888776553
No 130
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=94.60 E-value=0.019 Score=46.00 Aligned_cols=55 Identities=33% Similarity=0.483 Sum_probs=44.1
Q ss_pred HHHHhhcCCCeEEEEEccCCCC--------CCcce----EEEEEEcCHHHHHHHHHHhCCCeeCCeE
Q 036035 2 LRVAFERYGPVKDVYLPKNYYT--------GEPRG----FGFVKFRYAEDAAEAKQRLNHSLIGGRE 56 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t--------~~~~G----~afV~f~~~~~a~~Ai~~l~g~~l~g~~ 56 (190)
|.++|.+||+|-.|.|.....+ |.+.. -|+|+|.....|..+...||+..|.|++
T Consensus 91 lReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~Iggkk 157 (278)
T KOG3152|consen 91 LREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTPIGGKK 157 (278)
T ss_pred HHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCccCCCC
Confidence 7889999999999887655433 22222 3789999999999999999999999865
No 131
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=94.53 E-value=0.082 Score=33.29 Aligned_cols=40 Identities=23% Similarity=0.196 Sum_probs=31.5
Q ss_pred CHHHHhhcC---CCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHh
Q 036035 1 ELRVAFERY---GPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRL 47 (190)
Q Consensus 1 DL~~~F~~~---G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l 47 (190)
||+.+|..| .....|.++-|. -|-|.|.+.+.|..||.+|
T Consensus 20 dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 20 DIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred HHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 688899988 234567777663 7889999999999999865
No 132
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=94.49 E-value=0.15 Score=37.56 Aligned_cols=54 Identities=19% Similarity=0.280 Sum_probs=42.0
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
|...+..||+|..|.+.- +.-|.|.|.+...|=.|+.+++. ..-|..+.+.|-.
T Consensus 107 V~~~Ls~fGpI~SVT~cG-------rqsavVvF~d~~SAC~Av~Af~s-~~pgtm~qCsWqq 160 (166)
T PF15023_consen 107 VIQRLSVFGPIQSVTLCG-------RQSAVVVFKDITSACKAVSAFQS-RAPGTMFQCSWQQ 160 (166)
T ss_pred HHHHHHhcCCcceeeecC-------CceEEEEehhhHHHHHHHHhhcC-CCCCceEEeeccc
Confidence 445678899999986642 45899999999999999998765 5667777777653
No 133
>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=94.49 E-value=0.087 Score=33.84 Aligned_cols=60 Identities=17% Similarity=0.290 Sum_probs=46.5
Q ss_pred CHHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 1 ELRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 1 DL~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
+|.+.|...| .|..|.-+..+.+..+....||+++...+.. +.|+-..|++..|.|+...
T Consensus 3 ~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k---~i~~Ik~l~~~~V~vE~~~ 63 (68)
T PF07530_consen 3 EIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNK---EIYKIKTLCGQRVKVERPR 63 (68)
T ss_pred HHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCcccc---ceeehHhhCCeEEEEecCC
Confidence 4778888888 7788888888778888889999998765533 3455678899999998764
No 134
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=93.84 E-value=0.12 Score=45.33 Aligned_cols=46 Identities=26% Similarity=0.285 Sum_probs=41.7
Q ss_pred CHHHHhh-cCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHH
Q 036035 1 ELRVAFE-RYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQR 46 (190)
Q Consensus 1 DL~~~F~-~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~ 46 (190)
||-.+|. -||.|+.|-|-.|++-..++|-|-|+|.+...-.+||.+
T Consensus 386 eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 386 ELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred HHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 4778888 599999999999988999999999999999999999873
No 135
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=93.80 E-value=0.012 Score=54.05 Aligned_cols=53 Identities=23% Similarity=0.285 Sum_probs=42.9
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~ 53 (190)
||...|..+|.|..|.|.-..+++..+|+|||+|...+++.+||...+++.+.
T Consensus 683 dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 683 DLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred hhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 57788899998887766655567889999999999999999999866655444
No 136
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=92.79 E-value=0.21 Score=42.47 Aligned_cols=45 Identities=29% Similarity=0.372 Sum_probs=32.4
Q ss_pred CHHHHhhcC----CCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHH
Q 036035 1 ELRVAFERY----GPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQR 46 (190)
Q Consensus 1 DL~~~F~~~----G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~ 46 (190)
||.+||..- |.++.|.++.- .+|+..|-|||.|..+++|+.||.+
T Consensus 177 dVv~FF~~~cpv~~g~egvLFV~r-pdgrpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 177 DVVEFFGPPCPVTGGTEGVLFVTR-PDGRPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred HHHHhcCCCCcccCCccceEEEEC-CCCCcccceEEEecCHHHHHHHHHH
Confidence 467778632 23344544433 3788899999999999999999974
No 137
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=92.37 E-value=0.076 Score=45.54 Aligned_cols=39 Identities=18% Similarity=0.275 Sum_probs=35.0
Q ss_pred ceEEEEEEcCHHHHHHHHHHhCCC-eeCCeEEEEEEcccC
Q 036035 27 RGFGFVKFRYAEDAAEAKQRLNHS-LIGGREIKIVFAEEN 65 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai~~l~g~-~l~g~~i~V~~a~~~ 65 (190)
.||+||.+.++..|..|++.|+|+ ++.|+.+.|++.-++
T Consensus 37 ~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~k 76 (584)
T KOG2193|consen 37 SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPK 76 (584)
T ss_pred cceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhH
Confidence 589999999999999999999997 788999999887654
No 138
>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=91.69 E-value=1.5 Score=30.93 Aligned_cols=41 Identities=20% Similarity=0.247 Sum_probs=32.5
Q ss_pred CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC
Q 036035 11 PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53 (190)
Q Consensus 11 ~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~ 53 (190)
.|..+.|+.+.. .++-.++|.|.++++|..-...+||+.+.
T Consensus 40 ~i~~~riird~~--pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 40 DIEHIRIIRDGT--PNRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred cEEEEEEeeCCC--CceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 466777877632 24457899999999999999999999775
No 139
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=91.33 E-value=0.12 Score=46.92 Aligned_cols=60 Identities=22% Similarity=0.120 Sum_probs=44.6
Q ss_pred CHHHHhhcCCCeEE-EEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEE
Q 036035 1 ELRVAFERYGPVKD-VYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61 (190)
Q Consensus 1 DL~~~F~~~G~I~~-v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~ 61 (190)
++.++|.+.-.|++ |.|...+ +++-.+.|||+|.+++.+..|+..-+.+.+..+.|.|.-
T Consensus 450 ~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~s 510 (944)
T KOG4307|consen 450 PPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDS 510 (944)
T ss_pred chhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEEEeec
Confidence 45677887666766 6665554 667788999999998888888876666666777888864
No 140
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=89.63 E-value=0.27 Score=37.53 Aligned_cols=58 Identities=22% Similarity=0.323 Sum_probs=45.1
Q ss_pred HHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCe-EEEEEEcccCC
Q 036035 3 RVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGR-EIKIVFAEENR 66 (190)
Q Consensus 3 ~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~-~i~V~~a~~~~ 66 (190)
+.+|-+|-+.....++.. .++.-|.|.+.+.|..|...+++..|.|. .++..++++..
T Consensus 33 ~~lFrq~n~~~~fq~lrs------frrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k~yfaQ~~~ 91 (193)
T KOG4019|consen 33 ENLFRQINEDATFQLLRS------FRRVRINFSNPEAAADARIKLHSTSFNGKNELKLYFAQPGH 91 (193)
T ss_pred HhHHhhhCcchHHHHHHh------hceeEEeccChhHHHHHHHHhhhcccCCCceEEEEEccCCC
Confidence 456777766666555544 46777999999999999999999999988 88888887643
No 141
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=89.16 E-value=0.27 Score=43.57 Aligned_cols=51 Identities=20% Similarity=0.262 Sum_probs=34.6
Q ss_pred HHHHhhc--CCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCC--CeeCCeEEEE
Q 036035 2 LRVAFER--YGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNH--SLIGGREIKI 59 (190)
Q Consensus 2 L~~~F~~--~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g--~~l~g~~i~V 59 (190)
|+.||.. +-+++.|.+..+. -=||+|++..||+.|.+.|.. ++|.|+.|..
T Consensus 192 Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 192 VKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred HHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 5556654 4455566555441 348999999999999987754 4677777653
No 142
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=88.57 E-value=0.2 Score=46.70 Aligned_cols=61 Identities=25% Similarity=0.356 Sum_probs=48.4
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
+|...|..+|.|..|.|..... +.-..||||.|.+...+..|+..|.+..|....+.+-+.
T Consensus 388 eiR~af~e~gkve~VDiKtP~~-~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG 448 (975)
T KOG0112|consen 388 EIRPAFDESGKVEEVDIKTPHI-KTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLG 448 (975)
T ss_pred hhhhhhhhhccccccccccCCC-CcccchhhhhhhccccCcccchhhcCCccccCccccccc
Confidence 5788999999999999877642 223459999999999999999999988877555555555
No 143
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=87.51 E-value=7.5 Score=35.67 Aligned_cols=36 Identities=8% Similarity=0.144 Sum_probs=30.9
Q ss_pred eEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 28 GFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 28 G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
.|.||+... ..|+..+..|++..|.|+.|.|+.+..
T Consensus 527 ~~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 562 (629)
T PRK11634 527 SHSTIELPK-GMPGEVLQHFTRTRILNKPMNMQLLGD 562 (629)
T ss_pred CceEEEcCh-hhHHHHHHHhccccccCCceEEEECCC
Confidence 389999874 678889999999999999999998753
No 144
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=87.06 E-value=0.36 Score=39.79 Aligned_cols=62 Identities=11% Similarity=-0.083 Sum_probs=46.6
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
+..+|..+|.+..+.+.........+||+.|.|...+.+..||.......+.+..+...+.+
T Consensus 105 ~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~ 166 (285)
T KOG4210|consen 105 DDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNT 166 (285)
T ss_pred ccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCcccc
Confidence 34567788888877777766678889999999999999999998444356666666554443
No 145
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=86.88 E-value=0.56 Score=37.78 Aligned_cols=60 Identities=28% Similarity=0.493 Sum_probs=43.5
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCC----eeCCeEEEEEEc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHS----LIGGREIKIVFA 62 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~----~l~g~~i~V~~a 62 (190)
|.+.|..||+|....++.| +.++..+-++|+|...-.|.+|+..+... ++.+..+-|+.+
T Consensus 48 l~~~f~~fg~~e~av~~vD-~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP~ 111 (275)
T KOG0115|consen 48 LEQAFRRFGPIERAVAKVD-DRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEPM 111 (275)
T ss_pred HHHhhhhcCccchheeeec-ccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCChh
Confidence 6778999999986645444 47788899999999999999999876433 333555555433
No 146
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=84.01 E-value=0.62 Score=36.92 Aligned_cols=25 Identities=28% Similarity=0.454 Sum_probs=21.4
Q ss_pred eEEEEEEcCHHHHHHHHHHhCCCee
Q 036035 28 GFGFVKFRYAEDAAEAKQRLNHSLI 52 (190)
Q Consensus 28 G~afV~f~~~~~a~~Ai~~l~g~~l 52 (190)
..|||+|++.+.|..||..|+|..|
T Consensus 249 ~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 249 PVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred ceEeecHHHHHHHHHHHHHhhccee
Confidence 3899999999999999998888654
No 147
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=80.59 E-value=2.4 Score=36.93 Aligned_cols=51 Identities=18% Similarity=0.257 Sum_probs=37.5
Q ss_pred CHHHHhhcC-CCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeC
Q 036035 1 ELRVAFERY-GPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIG 53 (190)
Q Consensus 1 DL~~~F~~~-G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~ 53 (190)
||..|+..+ -.|..|.|+.|...+ .=.++|.|.+.++|..-...+||+.|.
T Consensus 90 Dll~F~~~~~~~I~~irivRd~~pn--rymvLIkFr~q~da~~Fy~efNGk~Fn 141 (493)
T KOG0804|consen 90 DLLRFCASFIKQISDIRIVRDGMPN--RYMVLIKFRDQADADTFYEEFNGKQFN 141 (493)
T ss_pred HHHHHHHHHhhhhheeEEeecCCCc--eEEEEEEeccchhHHHHHHHcCCCcCC
Confidence 345555543 367788888854222 225789999999999999999999876
No 148
>PF08206 OB_RNB: Ribonuclease B OB domain; InterPro: IPR013223 This domain includes the N-terminal OB domain found in ribonuclease B proteins in one or two copies.; PDB: 2ID0_D 2IX1_A 2IX0_A.
Probab=80.44 E-value=0.88 Score=28.01 Aligned_cols=37 Identities=30% Similarity=0.495 Sum_probs=22.5
Q ss_pred cceEEEEEEcC-HHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 26 PRGFGFVKFRY-AEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 26 ~~G~afV~f~~-~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
.+|||||...+ .+|.--+-..|++ .++|-++.|.+..
T Consensus 7 ~~GfGFv~~~~~~~DifIp~~~l~~-A~~gD~V~v~i~~ 44 (58)
T PF08206_consen 7 PKGFGFVIPDDGGEDIFIPPRNLNG-AMDGDKVLVRITP 44 (58)
T ss_dssp SSS-EEEEECT-TEEEEE-HHHHTT-S-TT-EEEEEEEE
T ss_pred cCCCEEEEECCCCCCEEECHHHHCC-CCCCCEEEEEEec
Confidence 47999999987 4444445555665 4677778777765
No 149
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=77.97 E-value=0.53 Score=38.46 Aligned_cols=51 Identities=33% Similarity=0.588 Sum_probs=32.2
Q ss_pred HHHHhhcCCCeEEEEEcc-CC----CCCCc-----ceEE---------EEEEcCHHHHHHHHHHhCCCee
Q 036035 2 LRVAFERYGPVKDVYLPK-NY----YTGEP-----RGFG---------FVKFRYAEDAAEAKQRLNHSLI 52 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~-~~----~t~~~-----~G~a---------fV~f~~~~~a~~Ai~~l~g~~l 52 (190)
|...|..||.|..|+|+. |+ ++|+. .||+ ||+|........||..|-|..+
T Consensus 178 lr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayvqfmeykgfa~amdalr~~k~ 247 (445)
T KOG2891|consen 178 LRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYVQFMEYKGFAQAMDALRGMKL 247 (445)
T ss_pred HHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHHHHHHHHhHHHHHHHHhcchH
Confidence 567899999999988753 32 34544 3443 3444444555667777777544
No 150
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=77.06 E-value=1.2 Score=40.38 Aligned_cols=51 Identities=18% Similarity=0.167 Sum_probs=38.7
Q ss_pred HHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 3 RVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 3 ~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
+.++..+|.|..+..+ -|||.+|....-+..|+..|+-..++|..+.+...
T Consensus 58 ~~il~~~g~v~s~kr~---------~fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d 108 (668)
T KOG2253|consen 58 KSILAKSGFVPSWKRD---------KFGFCEFLKHIGDLRASRLLTELNIDDQKLIENVD 108 (668)
T ss_pred HHHHhhCCcchhhhhh---------hhcccchhhHHHHHHHHHHhcccCCCcchhhccch
Confidence 3445566666554333 29999999999999999999999999988876653
No 151
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=74.07 E-value=11 Score=28.05 Aligned_cols=34 Identities=18% Similarity=0.315 Sum_probs=27.0
Q ss_pred eEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCC
Q 036035 12 VKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHS 50 (190)
Q Consensus 12 I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~ 50 (190)
|..|.++.. -+||.||+....+++..+|..+.+.
T Consensus 36 i~~i~vp~~-----fpGYVfVe~~~~~~~~~~i~~v~~v 69 (153)
T PRK08559 36 IYAILAPPE-----LKGYVLVEAESKGAVEEAIRGIPHV 69 (153)
T ss_pred EEEEEccCC-----CCcEEEEEEEChHHHHHHHhcCCCE
Confidence 666666654 4899999999888999999888764
No 152
>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=73.04 E-value=7.5 Score=25.76 Aligned_cols=25 Identities=24% Similarity=0.400 Sum_probs=21.4
Q ss_pred cceEEEEEEcCHHHHHHHHHHhCCC
Q 036035 26 PRGFGFVKFRYAEDAAEAKQRLNHS 50 (190)
Q Consensus 26 ~~G~afV~f~~~~~a~~Ai~~l~g~ 50 (190)
-+||-|||=.++.++..||..+.+.
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~i 67 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRHI 67 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TTE
T ss_pred CceEEEEEeCCHHHHHHHHhcccce
Confidence 5899999999999999999887664
No 153
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=70.16 E-value=6.9 Score=24.56 Aligned_cols=17 Identities=29% Similarity=0.653 Sum_probs=14.3
Q ss_pred CHHHHhhcCCCeEEEEE
Q 036035 1 ELRVAFERYGPVKDVYL 17 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i 17 (190)
+|.++|+.+|+|.-+.|
T Consensus 10 ~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 10 EIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHhcCcEEEEEE
Confidence 58899999999986654
No 154
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=68.14 E-value=53 Score=25.26 Aligned_cols=11 Identities=55% Similarity=0.317 Sum_probs=4.6
Q ss_pred CCCCCCCCCCC
Q 036035 127 RSISRSLSPRD 137 (190)
Q Consensus 127 rs~srS~s~~~ 137 (190)
++++++.++.+
T Consensus 140 rs~SRs~s~~R 150 (195)
T KOG0107|consen 140 RSRSRSRSRVR 150 (195)
T ss_pred ccccccCCCcc
Confidence 34444444443
No 155
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=67.66 E-value=15 Score=32.61 Aligned_cols=43 Identities=23% Similarity=0.485 Sum_probs=28.2
Q ss_pred HHHHhhcCCCeEEEEEccCCC---CCCcce---EEEEEEcCHHHHHHHHH
Q 036035 2 LRVAFERYGPVKDVYLPKNYY---TGEPRG---FGFVKFRYAEDAAEAKQ 45 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~---t~~~~G---~afV~f~~~~~a~~Ai~ 45 (190)
|...|..||.|. |+.+...+ --.++| |+|+.|+++..++.-|.
T Consensus 276 i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~ 324 (520)
T KOG0129|consen 276 INASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLS 324 (520)
T ss_pred HHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHH
Confidence 667899999775 44442111 122467 99999999877766554
No 156
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=67.29 E-value=16 Score=23.58 Aligned_cols=37 Identities=19% Similarity=0.311 Sum_probs=26.6
Q ss_pred HhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCC
Q 036035 5 AFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHS 50 (190)
Q Consensus 5 ~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~ 50 (190)
.+.+||.|..+.=. ..|+ |.|.+.++++..+..|...
T Consensus 16 ~L~kfG~i~Y~Skk--------~kYv-vlYvn~~~~e~~~~kl~~l 52 (71)
T PF09902_consen 16 QLRKFGDIHYVSKK--------MKYV-VLYVNEEDVEEIIEKLKKL 52 (71)
T ss_pred hHhhcccEEEEECC--------ccEE-EEEECHHHHHHHHHHHhcC
Confidence 46789999887322 2255 5578899999999988654
No 157
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=66.64 E-value=1.4 Score=38.18 Aligned_cols=63 Identities=5% Similarity=-0.156 Sum_probs=47.8
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
||..+|.-||.|..+++..--..+...-.+||.... .+++.||..|.-.++.|.++.|.++..
T Consensus 19 ~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 19 QNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred hhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhhhhhhcCch
Confidence 466789999999888776655566667788888764 678888887776778888888877753
No 158
>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=65.59 E-value=7 Score=32.33 Aligned_cols=32 Identities=25% Similarity=0.178 Sum_probs=24.1
Q ss_pred EEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 30 GFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 30 afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
|||+|.++.+|+.|++.+.... +..+.|+.|.
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~AP 32 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAP 32 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCC
Confidence 7999999999999999665543 3445666664
No 159
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=62.62 E-value=12 Score=32.32 Aligned_cols=38 Identities=29% Similarity=0.314 Sum_probs=29.7
Q ss_pred CHHHHhhcCCCe-EEEEEccCCCCCCcceEEEEEEcCHHHHHHHHH
Q 036035 1 ELRVAFERYGPV-KDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQ 45 (190)
Q Consensus 1 DL~~~F~~~G~I-~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~ 45 (190)
||..+|+.|+.- ..|.++-+. .||..|....-|..||.
T Consensus 407 Dll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt 445 (528)
T KOG4483|consen 407 DLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALT 445 (528)
T ss_pred HHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhh
Confidence 678889998743 455555553 89999999999999987
No 160
>PRK02886 hypothetical protein; Provisional
Probab=61.56 E-value=22 Score=23.89 Aligned_cols=38 Identities=16% Similarity=0.240 Sum_probs=26.7
Q ss_pred HhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCe
Q 036035 5 AFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSL 51 (190)
Q Consensus 5 ~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~ 51 (190)
.+.+||.|..+.=. ..|+ |.|.+.++++..+..|....
T Consensus 20 ~LrkyG~I~Y~Skr--------~kYv-vlYvn~~~~e~~~~kl~~l~ 57 (87)
T PRK02886 20 QLRKFGNVHYVSKR--------LKYA-VLYCDMEQVEDIMNKLSSLP 57 (87)
T ss_pred HHhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcCC
Confidence 35689999876322 2255 55778899999999887653
No 161
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=60.18 E-value=3.9 Score=34.44 Aligned_cols=45 Identities=22% Similarity=0.273 Sum_probs=33.9
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHS 50 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~ 50 (190)
|.+++.+.|.|..-.|..-. +.|.+||.+..+++++++++.|.+.
T Consensus 278 iF~~i~~~G~v~~~EM~rtF----NmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 278 IFKWLQKAGNVEREEMYRTF----NMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred HHHHHHHhcCCCHHHHHHHh----cCccceEEEEcHHHHHHHHHHHHhc
Confidence 56677788877655444332 3678899999999999999998875
No 162
>PRK02302 hypothetical protein; Provisional
Probab=59.90 E-value=25 Score=23.79 Aligned_cols=38 Identities=16% Similarity=0.204 Sum_probs=26.6
Q ss_pred HhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCe
Q 036035 5 AFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSL 51 (190)
Q Consensus 5 ~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~ 51 (190)
.+.+||.|..+.=. ..|+ |-|.+.++|+..+..|....
T Consensus 22 ~LrkfG~I~Y~Skk--------~kYv-vlYvn~~~~e~~~~kl~~l~ 59 (89)
T PRK02302 22 KLSKYGDIVYHSKR--------SRYL-VLYVNKEDVEQKLEELSKLK 59 (89)
T ss_pred HHhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcCC
Confidence 35689998876322 2255 55788999999999887643
No 163
>PF12687 DUF3801: Protein of unknown function (DUF3801); InterPro: IPR024234 This functionally uncharacterised protein family is found in bacteria. Proteins found in this family are typically between 158 and 187 amino acids in length and include the PcfB protein.
Probab=59.15 E-value=16 Score=28.50 Aligned_cols=50 Identities=20% Similarity=0.200 Sum_probs=31.3
Q ss_pred HHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCC
Q 036035 3 RVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGG 54 (190)
Q Consensus 3 ~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g 54 (190)
..+..+|| |.++ |+.|..++...-+.|+.=.+.+-+..|+..+....|.-
T Consensus 48 ~k~AkKyG-V~ya-v~kdk~~~~~~~~V~FkA~Da~~i~~af~~~~~~~~~~ 97 (204)
T PF12687_consen 48 KKEAKKYG-VDYA-VKKDKSTGPGKYDVFFKAKDADVINRAFKEFSAKKLKK 97 (204)
T ss_pred HHHHHHcC-CceE-EeeccCCCCCcEEEEEEcCcHHHHHHHHHHHHHHhhhh
Confidence 44455677 4444 55665555444455555567788888888877765553
No 164
>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=58.70 E-value=44 Score=21.20 Aligned_cols=46 Identities=15% Similarity=0.104 Sum_probs=25.9
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCc-ceEEEEEEc-CHHHHHHHHHHhCC
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEP-RGFGFVKFR-YAEDAAEAKQRLNH 49 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~-~G~afV~f~-~~~~a~~Ai~~l~g 49 (190)
|...|..+| .|+.| ..-+..+.. .=+-||+|+ ..++.++||..|..
T Consensus 17 vL~~f~~~~iNlt~I--eSRP~~~~~~~y~Ffvd~~~~~~~~~~~l~~L~~ 65 (74)
T cd04904 17 ALKLFEEFGVNLTHI--ESRPSRRNGSEYEFFVDCEVDRGDLDQLISSLRR 65 (74)
T ss_pred HHHHHHHCCCcEEEE--ECCCCCCCCceEEEEEEEEcChHHHHHHHHHHHH
Confidence 567788887 44444 332222222 224568877 44566778877754
No 165
>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=56.29 E-value=54 Score=21.43 Aligned_cols=46 Identities=17% Similarity=0.265 Sum_probs=32.3
Q ss_pred hcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEE
Q 036035 7 ERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61 (190)
Q Consensus 7 ~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~ 61 (190)
..||.-.++.+..+ --.|-..+++|...||+.|+. ....+.|.|-+
T Consensus 31 ~afGq~mdl~ytn~--------eL~iPl~~Q~DLDkAie~ld~-s~~~ksLRilL 76 (79)
T cd06405 31 TAFGQPMDLHYTNN--------ELLIPLKNQEDLDRAIELLDR-SPHMKSLRILL 76 (79)
T ss_pred HHhCCeeeEEEecc--------cEEEeccCHHHHHHHHHHHcc-CccccceeEeE
Confidence 35888888766544 367888899999999998876 33444455443
No 166
>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=56.10 E-value=13 Score=26.42 Aligned_cols=42 Identities=24% Similarity=0.277 Sum_probs=24.3
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcC-HHHHHHHHH
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRY-AEDAAEAKQ 45 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~-~~~a~~Ai~ 45 (190)
+|.+.|..|..+. |..+.++ ..+.|+++|+|.. ......|+.
T Consensus 33 ~l~~~l~~f~p~k-v~~l~~~--~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 33 ELLDKLAEFNPLK-VKPLYGK--QGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp HHHHHHHH---SE-EEEEEET--TEEEEEEEEE--SSHHHHHHHHH
T ss_pred HHHHHHHhcCCce-eEECcCC--CCCcEEEEEEECCChHHHHHHHH
Confidence 3778899998875 4455553 2457899999975 445555665
No 167
>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=53.45 E-value=19 Score=22.96 Aligned_cols=28 Identities=25% Similarity=0.318 Sum_probs=21.8
Q ss_pred eEEEEEEcCHHHHHHHHHHhCCCeeCCe
Q 036035 28 GFGFVKFRYAEDAAEAKQRLNHSLIGGR 55 (190)
Q Consensus 28 G~afV~f~~~~~a~~Ai~~l~g~~l~g~ 55 (190)
.+++|.|.+..+|..|-+.|....|...
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi~~~ 29 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGIPVR 29 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCCcEE
Confidence 3789999999999999888776555433
No 168
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=53.29 E-value=0.97 Score=39.02 Aligned_cols=58 Identities=16% Similarity=0.255 Sum_probs=44.2
Q ss_pred HHHHhhcCCCeEEEEEc-cCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 2 LRVAFERYGPVKDVYLP-KNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~-~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
|..++.+||.|..|.++ ++.. ....-|+|...+.+..||.+|+|..|....++|.|-.
T Consensus 97 ld~Ll~qyg~ve~~eqvnt~~e----tavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiP 155 (584)
T KOG2193|consen 97 LDSLLAQYGTVENCEQVNTDSE----TAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIP 155 (584)
T ss_pred HHHHHhccCCHhHhhhhccchH----HHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCc
Confidence 44578899999888543 2321 2234578889999999999999999999999888754
No 169
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=52.09 E-value=43 Score=32.28 Aligned_cols=33 Identities=12% Similarity=0.243 Sum_probs=26.3
Q ss_pred cceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEE
Q 036035 26 PRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59 (190)
Q Consensus 26 ~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V 59 (190)
-+||-|||-..+..++.||+.|-+..+. +.|.|
T Consensus 209 lkGyIYIEA~KqshV~~Ai~gv~niy~~-~~~lV 241 (1024)
T KOG1999|consen 209 LKGYIYIEADKQSHVKEAIEGVRNIYAN-RILLV 241 (1024)
T ss_pred cceeEEEEechhHHHHHHHhhhhhheec-cEEEE
Confidence 4899999999999999999988776555 44444
No 170
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=51.50 E-value=25 Score=24.45 Aligned_cols=46 Identities=13% Similarity=0.230 Sum_probs=26.0
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCee
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLI 52 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l 52 (190)
+|..++.+.| |.+-.|..+..++ .-||++++.+.+ ..+..|....+
T Consensus 28 E~~a~lk~ag-i~nYSIfLde~~n--~lFgy~E~~d~~---a~m~~~a~~ev 73 (105)
T COG3254 28 ELLALLKEAG-IRNYSIFLDEEEN--LLFGYWEYEDFE---ADMAKMAETEV 73 (105)
T ss_pred HHHHHHHHcC-CceeEEEecCCcc--cEEEEEEEcChH---HHHHHHhCCHH
Confidence 4667777888 4444455443222 459999998433 34444444433
No 171
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=49.80 E-value=39 Score=30.15 Aligned_cols=47 Identities=19% Similarity=0.098 Sum_probs=33.1
Q ss_pred CHHHHhh----cCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhC
Q 036035 1 ELRVAFE----RYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48 (190)
Q Consensus 1 DL~~~F~----~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~ 48 (190)
||..+|. .+|-|+.+.|...+... .....++.|.+.++|..|+..|.
T Consensus 205 dl~~l~~Gs~GtlGIIt~atlkl~p~p~-~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 205 DLLALFTGSEGMLGVVTEVTVKLLPKPP-VARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred chHhhhccCCCccEEEEEEEEEEEcCCc-ceEEEEEECCCHHHHHHHHHHHH
Confidence 4555555 57888888776654332 34577889999999999887764
No 172
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=49.34 E-value=55 Score=23.72 Aligned_cols=25 Identities=16% Similarity=0.173 Sum_probs=21.1
Q ss_pred cceEEEEEEcCHHHHHHHHHHhCCC
Q 036035 26 PRGFGFVKFRYAEDAAEAKQRLNHS 50 (190)
Q Consensus 26 ~~G~afV~f~~~~~a~~Ai~~l~g~ 50 (190)
-+||-||++....+...+|..+.|.
T Consensus 37 fpGYvFV~~~~~~~~~~~i~~~~gv 61 (145)
T TIGR00405 37 LKGYILVEAETKIDMRNPIIGVPHV 61 (145)
T ss_pred CCcEEEEEEECcHHHHHHHhCCCCE
Confidence 5899999999878888888877774
No 173
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=48.56 E-value=21 Score=24.57 Aligned_cols=21 Identities=10% Similarity=0.292 Sum_probs=16.6
Q ss_pred ceEEEEEEcCHHHHHHHHHHh
Q 036035 27 RGFGFVKFRYAEDAAEAKQRL 47 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai~~l 47 (190)
--|.+|+|.+.+...+|+..|
T Consensus 66 VvFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 66 VVFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEEEcCchhHHHHHHHHh
Confidence 358899999988888777654
No 174
>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=48.14 E-value=67 Score=20.09 Aligned_cols=47 Identities=21% Similarity=0.145 Sum_probs=26.1
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcC---HHHHHHHHHHhCC
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRY---AEDAAEAKQRLNH 49 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~---~~~a~~Ai~~l~g 49 (190)
|.+.|..+| .|..|.-...+ .....-..||+++. ....+.++..|..
T Consensus 16 vL~~f~~~~vni~~I~Srp~~-~~~~~~~f~id~~~~~~~~~~~~~l~~l~~ 66 (75)
T cd04880 16 ALKVFAERGINLTKIESRPSR-KGLWEYEFFVDFEGHIDDPDVKEALEELKR 66 (75)
T ss_pred HHHHHHHCCCCEEEEEeeecC-CCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 567788886 55555322111 11223356788874 4566667776643
No 175
>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=47.20 E-value=60 Score=24.67 Aligned_cols=39 Identities=21% Similarity=0.352 Sum_probs=28.9
Q ss_pred ceEEEEEEcCHHHHHHHHHHhCCCeeC---C--eEEEEEEcccC
Q 036035 27 RGFGFVKFRYAEDAAEAKQRLNHSLIG---G--REIKIVFAEEN 65 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai~~l~g~~l~---g--~~i~V~~a~~~ 65 (190)
..-|||.|.+.+++..-+..++|+.|. | ....|++|.-+
T Consensus 55 ~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~~~~~~VE~Apyq 98 (176)
T PF03467_consen 55 YSRAYINFKNPEDLLEFRDRFDGHVFVDSKGNEYPAVVEFAPYQ 98 (176)
T ss_dssp -EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-EEEEEEEE-SS-
T ss_pred ceEEEEEeCCHHHHHHHHHhcCCcEEECCCCCCcceeEEEcchh
Confidence 457999999999999999999998774 3 23467777553
No 176
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=46.57 E-value=6.1 Score=31.37 Aligned_cols=55 Identities=22% Similarity=0.387 Sum_probs=41.3
Q ss_pred HHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEE
Q 036035 3 RVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIK 58 (190)
Q Consensus 3 ~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~ 58 (190)
...|...|.|..+.+..+. +|.+..++||++......-.|+...++..+.-+++.
T Consensus 102 ~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y~~l~~~~~~~~ 156 (267)
T KOG4454|consen 102 YEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLYQGLELFQKKVT 156 (267)
T ss_pred eeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhhcccCcCCCCcc
Confidence 4457777888888887775 477889999999988888888887777655444443
No 177
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=46.54 E-value=66 Score=19.58 Aligned_cols=44 Identities=23% Similarity=0.298 Sum_probs=23.6
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHh
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRL 47 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l 47 (190)
|..+|.++| .|..+.+..... + ..+...|.+...++.+.+++.|
T Consensus 18 l~~~l~~~~i~i~~~~~~~~~~-~-~~~~~~i~v~~~~~~~~~~~~L 62 (69)
T cd04909 18 VTQILGDAGISIKNIEILEIRE-G-IGGILRISFKTQEDRERAKEIL 62 (69)
T ss_pred HHHHHHHcCCCceeeEeEEeec-C-CcEEEEEEECCHHHHHHHHHHH
Confidence 456677776 565654433211 1 2445566675555566665554
No 178
>smart00738 NGN In Spt5p, this domain may confer affinity for Spt4p. It possesses a RNP-like fold. In Spt5p, this domain may confer affinity for Spt4p.Spt4p
Probab=45.73 E-value=46 Score=22.35 Aligned_cols=23 Identities=17% Similarity=0.208 Sum_probs=18.4
Q ss_pred eEEEEEEcCHHHHHHHHHHhCCC
Q 036035 28 GFGFVKFRYAEDAAEAKQRLNHS 50 (190)
Q Consensus 28 G~afV~f~~~~~a~~Ai~~l~g~ 50 (190)
||.||++.-.+++..+|..+.|.
T Consensus 60 GYvFv~~~~~~~~~~~i~~~~~v 82 (106)
T smart00738 60 GYIFVEADLEDEVWTAIRGTPGV 82 (106)
T ss_pred CEEEEEEEeCCcHHHHHhcCCCc
Confidence 99999998766777788777763
No 179
>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=45.30 E-value=72 Score=21.37 Aligned_cols=45 Identities=11% Similarity=0.007 Sum_probs=23.8
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCc-ceEEEEEEcC--HHHHHHHHHHhC
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEP-RGFGFVKFRY--AEDAAEAKQRLN 48 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~-~G~afV~f~~--~~~a~~Ai~~l~ 48 (190)
|..+|..+| .|+.| ..-+..+.. .=+-||+|+- .+.++.||..|.
T Consensus 31 vL~~Fa~~~INLt~I--eSRP~~~~~~~Y~FfVDieg~~~~~~~~~l~~L~ 79 (90)
T cd04931 31 VLRLFEEKDINLTHI--ESRPSRLNKDEYEFFINLDKKSAPALDPIIKSLR 79 (90)
T ss_pred HHHHHHHCCCCEEEE--EeccCCCCCceEEEEEEEEcCCCHHHHHHHHHHH
Confidence 567788887 34444 322221121 2245688774 345566777664
No 180
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=44.44 E-value=9.1 Score=27.74 Aligned_cols=35 Identities=11% Similarity=0.020 Sum_probs=26.2
Q ss_pred ceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 27 RGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
.++..+.|.++++++.++. .....++|..|.++.-
T Consensus 55 ~~~fl~~F~~~~d~~~vl~-~~p~~~~~~~~~l~~W 89 (153)
T PF14111_consen 55 DNLFLFQFESEEDRQRVLK-GGPWNFNGHFLILQRW 89 (153)
T ss_pred CCeEEEEEEeccceeEEEe-cccccccccchhhhhh
Confidence 4699999999999998877 4445667776666543
No 181
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=43.59 E-value=75 Score=19.35 Aligned_cols=40 Identities=15% Similarity=0.194 Sum_probs=23.0
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHH
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQ 45 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~ 45 (190)
|-++|.+.| .|..+.+... +. +++.-|.+.+.+.|.++|.
T Consensus 18 v~~~l~~~~inI~~i~~~~~---~~-~~~~rl~~~~~~~~~~~L~ 58 (66)
T cd04908 18 VTEILSEAGINIRALSIADT---SE-FGILRLIVSDPDKAKEALK 58 (66)
T ss_pred HHHHHHHCCCCEEEEEEEec---CC-CCEEEEEECCHHHHHHHHH
Confidence 456777766 6777755332 12 3555566666556666655
No 182
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=42.39 E-value=84 Score=22.62 Aligned_cols=36 Identities=25% Similarity=0.241 Sum_probs=26.3
Q ss_pred eEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 28 GFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 28 G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
+-..|.|.+.++...|.+.|....-++..|.+..+.
T Consensus 74 ~~~~irf~~~~~Ql~Ak~vL~~~L~~~y~VAlnl~p 109 (127)
T PRK10629 74 DSLLIRFDSPEQSAAAKEVLDRTLPHGYIIAQQDDN 109 (127)
T ss_pred CEEEEEECCHHHHHHHHHHHHHHcCCCCEEEEecCC
Confidence 367899999998888888887654455666666654
No 183
>KOG0862 consensus Synaptobrevin/VAMP-like protein SEC22 [Intracellular trafficking, secretion, and vesicular transport]
Probab=41.77 E-value=13 Score=29.38 Aligned_cols=11 Identities=27% Similarity=0.763 Sum_probs=8.7
Q ss_pred cceEEEEEEcC
Q 036035 26 PRGFGFVKFRY 36 (190)
Q Consensus 26 ~~G~afV~f~~ 36 (190)
.+-|+||+|.+
T Consensus 108 ~RPY~FieFD~ 118 (216)
T KOG0862|consen 108 SRPYAFIEFDT 118 (216)
T ss_pred CCCeeEEehhH
Confidence 35699999974
No 184
>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=41.59 E-value=56 Score=21.36 Aligned_cols=13 Identities=31% Similarity=0.358 Sum_probs=5.9
Q ss_pred EEEEEcCHHHHHH
Q 036035 30 GFVKFRYAEDAAE 42 (190)
Q Consensus 30 afV~f~~~~~a~~ 42 (190)
|||.+..-++|.+
T Consensus 57 A~VtL~~g~~a~~ 69 (77)
T TIGR03636 57 AYVKLAEEYAAEE 69 (77)
T ss_pred EEEEECCCCcHHH
Confidence 4555544444433
No 185
>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=41.48 E-value=87 Score=21.77 Aligned_cols=45 Identities=18% Similarity=0.332 Sum_probs=26.9
Q ss_pred HHHhhcCCCeEEEE-----EccCCCC----------CCcceEEEEEEcCHHHHHHHHHHh
Q 036035 3 RVAFERYGPVKDVY-----LPKNYYT----------GEPRGFGFVKFRYAEDAAEAKQRL 47 (190)
Q Consensus 3 ~~~F~~~G~I~~v~-----i~~~~~t----------~~~~G~afV~f~~~~~a~~Ai~~l 47 (190)
-.+|..||.+..+. |+..+.| +..--|.+|+|.+.+....|..+|
T Consensus 26 ~~vf~e~GAl~~vE~wgdDvp~G~~TsF~~Av~a~~~E~VVFSWi~wpska~rD~~~~k~ 85 (103)
T PF07237_consen 26 AEVFKEHGALRVVECWGDDVPDGKVTSFPRAVKAKPDETVVFSWIEWPSKATRDAANAKM 85 (103)
T ss_dssp HHHHHHTT-SEEEEEEEEE----SS--HHHHTT--TTEEEEEEEEEESSHHHHHHHHHHH
T ss_pred HHHHHHhCCEEEEEeecCcCCcCccCCHHHHhcCCCCCEEEEEEEEcCCHHHHHHHHHHh
Confidence 36788999766543 2222222 223348999999988888877655
No 186
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=41.40 E-value=63 Score=27.33 Aligned_cols=7 Identities=29% Similarity=0.486 Sum_probs=3.5
Q ss_pred EEEEEEc
Q 036035 29 FGFVKFR 35 (190)
Q Consensus 29 ~afV~f~ 35 (190)
-.||-|.
T Consensus 175 ~v~vry~ 181 (367)
T KOG0835|consen 175 DVFVRYS 181 (367)
T ss_pred ceeeecC
Confidence 4455554
No 187
>TIGR00387 glcD glycolate oxidase, subunit GlcD. This protein, the glycolate oxidase GlcD subunit, is similar in sequence to that of several D-lactate dehydrogenases, including that of E. coli. The glycolate oxidase has been found to have some D-lactate dehydrogenase activity.
Probab=40.87 E-value=54 Score=28.29 Aligned_cols=46 Identities=20% Similarity=0.100 Sum_probs=30.9
Q ss_pred CHHHHhh----cCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHh
Q 036035 1 ELRVAFE----RYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRL 47 (190)
Q Consensus 1 DL~~~F~----~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l 47 (190)
||..+|. .+|-|+.+.|..-+... ...+.++.|.+.++|..|+..+
T Consensus 148 dl~~l~~Gs~GtlGiit~~~lkl~p~p~-~~~~~~~~f~~~~~~~~~~~~~ 197 (413)
T TIGR00387 148 DLTGLFVGSEGTLGIVTEATLKLLPKPE-NIVVALAFFDSIEKAMQAVYDI 197 (413)
T ss_pred ChhhhcccCCccceEEEEEEEEeecCCC-ccEEEEEECCCHHHHHHHHHHH
Confidence 4555654 37888888776554322 3456678899999988888554
No 188
>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=40.49 E-value=86 Score=19.12 Aligned_cols=48 Identities=13% Similarity=0.149 Sum_probs=22.8
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEc--CHHHHHHHHHHhCCCee
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFR--YAEDAAEAKQRLNHSLI 52 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~--~~~~a~~Ai~~l~g~~l 52 (190)
|.++|.++| .|..+..... ........+|.+. +.+++.++|.. .|.++
T Consensus 18 i~~~l~~~~inI~~i~~~~~--~~~~~~~v~i~v~~~~~~~~~~~L~~-~G~~v 68 (72)
T cd04883 18 IAAIFKDRGVNIVSVLVYPS--KEEDNKILVFRVQTMNPRPIIEDLRR-AGYEV 68 (72)
T ss_pred HHHHHHHcCCCEEEEEEecc--CCCCeEEEEEEEecCCHHHHHHHHHH-CCCee
Confidence 456777776 5666644322 1122333444444 44455555553 34443
No 189
>KOG2943 consensus Predicted glyoxalase [Carbohydrate transport and metabolism]
Probab=40.35 E-value=49 Score=26.77 Aligned_cols=30 Identities=23% Similarity=0.413 Sum_probs=22.8
Q ss_pred CCCcceEEEEEEc----CHHHHHHHHHHhCCCee
Q 036035 23 TGEPRGFGFVKFR----YAEDAAEAKQRLNHSLI 52 (190)
Q Consensus 23 t~~~~G~afV~f~----~~~~a~~Ai~~l~g~~l 52 (190)
+...+|||.|.|. +....+.||+..||..+
T Consensus 205 id~~kg~griafaip~d~~~~l~e~iK~~n~~i~ 238 (299)
T KOG2943|consen 205 IDRAKGFGRIAFAIPTDDLPKLQEAIKSANGTIL 238 (299)
T ss_pred ccccccceeEEEeccccccccHHHHHHHhccccc
Confidence 5556899999996 45678889998877543
No 190
>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=39.64 E-value=13 Score=23.38 Aligned_cols=15 Identities=13% Similarity=0.443 Sum_probs=8.9
Q ss_pred CHHHHhhcCCCeEEE
Q 036035 1 ELRVAFERYGPVKDV 15 (190)
Q Consensus 1 DL~~~F~~~G~I~~v 15 (190)
||++++.+||.|+.+
T Consensus 6 DVqQLLK~fG~~IY~ 20 (62)
T PF06014_consen 6 DVQQLLKKFGIIIYV 20 (62)
T ss_dssp HHHHHHHTTS-----
T ss_pred HHHHHHHHCCEEEEe
Confidence 688999999977654
No 191
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=39.47 E-value=15 Score=33.55 Aligned_cols=55 Identities=15% Similarity=0.101 Sum_probs=39.8
Q ss_pred HHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEE
Q 036035 3 RVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIK 58 (190)
Q Consensus 3 ~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~ 58 (190)
..+|..+++++.+.++.....+...+-+|++|.....++.|.. |.++.+....+.
T Consensus 529 s~~s~~~~~ltk~k~l~~Cky~~~Ct~a~Ce~~HPtaa~~~~s-~p~k~fa~~~~k 583 (681)
T KOG3702|consen 529 SRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENAKS-LPNKKFASKCLK 583 (681)
T ss_pred hhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhhhc-ccccccccccee
Confidence 3456677888877777777777778899999999877766654 677666655444
No 192
>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=39.32 E-value=91 Score=19.08 Aligned_cols=41 Identities=22% Similarity=0.139 Sum_probs=30.8
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHH
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQR 46 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~ 46 (190)
+.+.+..+-+|.+|..+. |...=.+.|.+.+.++.+.-+..
T Consensus 15 ~~~~l~~~p~V~~~~~vt----G~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 15 FAEALAEIPEVVECYSVT----GEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHTSTTEEEEEEES----SSSSEEEEEEESSHHHHHHHHHH
T ss_pred HHHHHHcCCCEEEEEEEe----CCCCEEEEEEECCHHHHHHHHHH
Confidence 456677888899998774 44555778899999998888544
No 193
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=38.54 E-value=1e+02 Score=19.50 Aligned_cols=42 Identities=21% Similarity=0.236 Sum_probs=24.7
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~ 48 (190)
|.+.+.++| +..+.|.-. | .-++.|+.+.+.+.++.++..|.
T Consensus 39 ~~~~~~~~G-a~~~~~sGs---G-~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 39 LKEAAEENG-ALGAKMSGS---G-GGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHTT-ESEEEEETT---S-SSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHCC-CCceecCCC---C-CCCeEEEEECCHHHHHHHHHHHH
Confidence 566677888 333333211 0 12466777778888888777653
No 194
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=37.43 E-value=80 Score=21.01 Aligned_cols=17 Identities=29% Similarity=0.288 Sum_probs=10.6
Q ss_pred EEEEEEcCHHHHHHHHH
Q 036035 29 FGFVKFRYAEDAAEAKQ 45 (190)
Q Consensus 29 ~afV~f~~~~~a~~Ai~ 45 (190)
-|||.|....+|.+...
T Consensus 63 KA~V~L~~g~~A~~va~ 79 (84)
T PRK14548 63 KAYVKLAEEYDAEEIAS 79 (84)
T ss_pred EEEEEeCCCCcHHHHHH
Confidence 47777776666655543
No 195
>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=36.55 E-value=54 Score=22.07 Aligned_cols=32 Identities=6% Similarity=0.106 Sum_probs=20.6
Q ss_pred EEEEEcCHHHHHHHHHHhCCC--eeCCeEEEEEEc
Q 036035 30 GFVKFRYAEDAAEAKQRLNHS--LIGGREIKIVFA 62 (190)
Q Consensus 30 afV~f~~~~~a~~Ai~~l~g~--~l~g~~i~V~~a 62 (190)
|+|+|++..-|+..|+ +..+ .|++..+.|...
T Consensus 1 AlITF~e~~VA~~i~~-~~~~~v~l~~~~~~V~v~ 34 (88)
T PF07292_consen 1 ALITFEEEGVAQRILK-KKKHPVPLEDCCVRVKVS 34 (88)
T ss_pred CEEEeCcHHHHHHHHh-CCEEEEEECCEEEEEEEE
Confidence 6899999888777776 3333 445555555443
No 196
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=36.25 E-value=1e+02 Score=19.51 Aligned_cols=49 Identities=14% Similarity=0.191 Sum_probs=28.4
Q ss_pred CHHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCC
Q 036035 1 ELRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNH 49 (190)
Q Consensus 1 DL~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g 49 (190)
||...|...| .|..+.+......+......-|+..+.+..+..|..|..
T Consensus 22 dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d~~~L~~ii~~L~~ 71 (80)
T PF13291_consen 22 DITSVISENGVNIRSINARTNKDDGTARITLTVEVKDLEHLNQIIRKLRQ 71 (80)
T ss_dssp HHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESSHHHHHHHHHHHCT
T ss_pred HHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECCHHHHHHHHHHHHC
Confidence 3556677665 577776665422222233334555688888888887754
No 197
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=36.17 E-value=1e+02 Score=28.06 Aligned_cols=47 Identities=17% Similarity=0.174 Sum_probs=31.8
Q ss_pred CHHHHh----hcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhC
Q 036035 1 ELRVAF----ERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48 (190)
Q Consensus 1 DL~~~F----~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~ 48 (190)
||..+| ..+|-|+++.|...+.. ....++++.|.+.++|..|+..+.
T Consensus 282 dL~~l~~GseGtLGIIT~~tlrl~p~P-~~~~~~~~~f~~~~~a~~av~~i~ 332 (555)
T PLN02805 282 DLTRLVIGSEGTLGVITEVTLRLQKIP-QHSVVAMCNFPTIKDAADVAIATM 332 (555)
T ss_pred cHHHHhccCCCceEEEEEEEEEeecCC-cceEEEEEEcCCHHHHHHHHHHHH
Confidence 455555 24788888877544322 234577889999998888887643
No 198
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=35.53 E-value=63 Score=29.40 Aligned_cols=34 Identities=12% Similarity=0.192 Sum_probs=28.3
Q ss_pred EEEEEEcCHHHHHHHHHHhCCCeeC--CeEEEEEEc
Q 036035 29 FGFVKFRYAEDAAEAKQRLNHSLIG--GREIKIVFA 62 (190)
Q Consensus 29 ~afV~f~~~~~a~~Ai~~l~g~~l~--g~~i~V~~a 62 (190)
||.|+|.+.+.|.+.....+|.+|. +..|.+-|.
T Consensus 270 yAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFI 305 (650)
T KOG2318|consen 270 YAVVECDSIETAKAVYEECDGIEFESSANKLDLRFI 305 (650)
T ss_pred EEEEEecCchHHHHHHHhcCcceeccccceeeeeec
Confidence 7999999999999999999999887 555555554
No 199
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=35.21 E-value=42 Score=22.98 Aligned_cols=61 Identities=20% Similarity=0.232 Sum_probs=32.9
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEE-EEEcC--HHHHHHHHHHhCCCeeC-CeEEEEEEc
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGF-VKFRY--AEDAAEAKQRLNHSLIG-GREIKIVFA 62 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~af-V~f~~--~~~a~~Ai~~l~g~~l~-g~~i~V~~a 62 (190)
|.++|.+.+.|..+.+..-...+....|.+ |+|.. .+.+-.+|..+....+. +..|.+...
T Consensus 24 L~~~~~~~~~V~~Ayl~~~~~~~~~~~~li~vd~~~~~~~~~~~~i~~~~~~~~~~~~~vd~~~~ 88 (108)
T PF14581_consen 24 LSEYFKQHKNVRAAYLALMQDEDEQPSLLIGVDFDGEDIEEIFQEIGRAARPYLPDGWPVDFVLL 88 (108)
T ss_pred HHHHHhhCccHHHhHHHHhhccCCCceEEEEEeccChhHHHHHHHHHHHhhhcCCCCceEEEEEc
Confidence 678899999998776555443333344444 55655 33333344433333333 356655544
No 200
>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=34.83 E-value=1.2e+02 Score=25.33 Aligned_cols=61 Identities=20% Similarity=0.360 Sum_probs=37.3
Q ss_pred HHHhhcCCCeEEEEEccCC-------CCCCcceEEEEEEcCHHHHHHHH----HHhCC--CeeCCeEEEEEEcc
Q 036035 3 RVAFERYGPVKDVYLPKNY-------YTGEPRGFGFVKFRYAEDAAEAK----QRLNH--SLIGGREIKIVFAE 63 (190)
Q Consensus 3 ~~~F~~~G~I~~v~i~~~~-------~t~~~~G~afV~f~~~~~a~~Ai----~~l~g--~~l~g~~i~V~~a~ 63 (190)
...|-+||.|+.|.|+.+. ...+...-..+-|-+.+.|..-. +.|.. +.|....|.|.+..
T Consensus 33 l~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~~L~S~~L~lsFV~ 106 (309)
T PF10567_consen 33 LTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKTKLKSESLTLSFVS 106 (309)
T ss_pred HHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHHhcCCcceeEEEEE
Confidence 4557889999999998765 11223456788888877654422 22222 24556666666543
No 201
>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=34.02 E-value=1.4e+02 Score=19.85 Aligned_cols=43 Identities=23% Similarity=0.181 Sum_probs=27.6
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhC
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~ 48 (190)
+.++++++| +|..+.+.... .-....+++.+.+.|.++...+.
T Consensus 25 ~~~~~e~~Gg~l~~~y~t~G~----yD~v~i~eaPD~~~a~~~~l~i~ 68 (91)
T PF08734_consen 25 VRALIEALGGKLKSFYWTLGE----YDFVVIVEAPDDETAAAASLAIR 68 (91)
T ss_pred HHHHHHHcCCEEEEEEEecCC----CCEEEEEEcCCHHHHHHHHHHHH
Confidence 456677765 77777776543 34567778887777776655443
No 202
>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=33.93 E-value=91 Score=19.33 Aligned_cols=51 Identities=16% Similarity=0.156 Sum_probs=31.0
Q ss_pred CHHHHhhcCCCeEEEEEccCC--CCCCcceEEEEEEcCHHHHHHHHH-HhCCCeeC
Q 036035 1 ELRVAFERYGPVKDVYLPKNY--YTGEPRGFGFVKFRYAEDAAEAKQ-RLNHSLIG 53 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~--~t~~~~G~afV~f~~~~~a~~Ai~-~l~g~~l~ 53 (190)
||+..+.++..|.++.++... ..| ..-.|||.. +.++..+.|. .|....+-
T Consensus 1 EIE~~l~~~~~V~~~~V~~~~d~~~g-~~l~a~vv~-~~~~i~~~~~~~l~~~~~P 54 (73)
T PF13193_consen 1 EIESVLRQHPGVAEAAVVGVPDEDWG-ERLVAFVVL-DEEEIRDHLRDKLPPYMVP 54 (73)
T ss_dssp HHHHHHHTSTTEEEEEEEEEEETTTE-EEEEEEEEE-HHHHHHHHHHHHS-GGGS-
T ss_pred CHHHHHhcCCCccEEEEEEEEccccc-ccceeEEEe-eecccccchhhhCCCccee
Confidence 578899999889988665433 223 456888888 4445555444 35544444
No 203
>PF06919 Phage_T4_Gp30_7: Phage Gp30.7 protein; InterPro: IPR009690 This family consists of several phage Gp30.7 proteins of 121 residues in length. Family members seem to be exclusively from the T4-like viruses. The function of this family is unknown.
Probab=33.80 E-value=62 Score=22.54 Aligned_cols=41 Identities=17% Similarity=0.265 Sum_probs=23.9
Q ss_pred CCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Q 036035 9 YGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAE 63 (190)
Q Consensus 9 ~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~ 63 (190)
-|.|.+|.+... ..|+|+.|++--. | ..++.|-.++|.+..
T Consensus 29 NGtv~qI~~Y~~------pNYvf~~FEnG~t-------v-sv~~~gs~~kI~~~D 69 (121)
T PF06919_consen 29 NGTVAQIEQYMT------PNYVFMRFENGIT-------V-SVTYNGSIFKIGLDD 69 (121)
T ss_pred CCcEEEEeeecC------CCEEEEEecCCCE-------E-EEEecCcEEEEEecC
Confidence 466666655554 5699999985111 1 123456666766543
No 204
>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=33.74 E-value=1.3e+02 Score=19.11 Aligned_cols=47 Identities=19% Similarity=0.172 Sum_probs=26.7
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcC---HHHHHHHHHHhCC
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRY---AEDAAEAKQRLNH 49 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~---~~~a~~Ai~~l~g 49 (190)
|.++|.++| .|..+...... .....-..||+++. .++.+.++..|..
T Consensus 18 il~~f~~~~ini~~i~s~p~~-~~~~~~~f~vd~~~~~~~~~~~~~l~~l~~ 68 (80)
T cd04905 18 VLGVFAERGINLTKIESRPSK-GGLWEYVFFIDFEGHIEDPNVAEALEELKR 68 (80)
T ss_pred HHHHHHHCCcCEEEEEEEEcC-CCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 567888886 56666433221 22222245567763 5667777777665
No 205
>PF00585 Thr_dehydrat_C: C-terminal regulatory domain of Threonine dehydratase; InterPro: IPR001721 Threonine dehydratases including Serine/threonine dehydratase (see IPR001926 from INTERPRO) contain a common C-terminal region that may have a regulatory role. Some members contain two copies of this region [].; GO: 0004794 L-threonine ammonia-lyase activity, 0009097 isoleucine biosynthetic process; PDB: 1TDJ_A 3IAU_A.
Probab=33.74 E-value=1.3e+02 Score=20.12 Aligned_cols=48 Identities=25% Similarity=0.329 Sum_probs=25.9
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcC--HHHHHHHHHHhCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRY--AEDAAEAKQRLNH 49 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~--~~~a~~Ai~~l~g 49 (190)
|+.|+...|....|....-..++...+.+||-|+- .++.+..+..|+.
T Consensus 24 l~~F~~~l~~~~nITeF~YR~~~~~~a~vlvgi~v~~~~~~~~l~~~L~~ 73 (91)
T PF00585_consen 24 LKRFLDALGPRNNITEFHYRYSGDDFARVLVGIEVPDAEDLEELIERLKA 73 (91)
T ss_dssp CHHHHHCCSSSE-EEEEEEE-TTTSCSEEEEEEE-SSTHHHHHHHHHHTS
T ss_pred HHHHHHHhCCCceEEEEEEcCCCCCeeeEEEEEEeCCHHHHHHHHHHHHH
Confidence 45566666654434333333455567888887764 3444555666654
No 206
>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=33.31 E-value=1.6e+02 Score=20.69 Aligned_cols=46 Identities=13% Similarity=0.098 Sum_probs=23.8
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcc-eEEEEEEc-CHHHHHHHHHHhCC
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPR-GFGFVKFR-YAEDAAEAKQRLNH 49 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~-G~afV~f~-~~~~a~~Ai~~l~g 49 (190)
|..+|..+| .|+.| ..-+.....- =+-||+++ +.++++.||..|..
T Consensus 58 iL~~Fa~~gINLt~I--ESRP~~~~~~eY~FfIdieg~~~~~~~aL~~L~~ 106 (115)
T cd04930 58 ILKVFETFEAKIHHL--ESRPSRKEGGDLEVLVRCEVHRSDLLQLISSLRQ 106 (115)
T ss_pred HHHHHHHCCCCEEEE--ECCcCCCCCceEEEEEEEEeCHHHHHHHHHHHHH
Confidence 566788777 34443 3332212222 24456665 34466777777654
No 207
>PF13037 DUF3898: Domain of unknown function (DUF3898)
Probab=33.10 E-value=55 Score=22.00 Aligned_cols=47 Identities=21% Similarity=0.313 Sum_probs=29.1
Q ss_pred CHHHHhhcCCCeEEE--------EEccCCCCCCcceEEEEEEcCHHHHHHHHHHh
Q 036035 1 ELRVAFERYGPVKDV--------YLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRL 47 (190)
Q Consensus 1 DL~~~F~~~G~I~~v--------~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l 47 (190)
+|+.++.-||.-..| .|+....-.--+||.-|+|-.+++.+..+..+
T Consensus 35 ~Vk~lLaDfG~~iHiAKv~~RYv~liEgd~~~FEKG~SPVEflkP~~l~~V~eri 89 (91)
T PF13037_consen 35 TVKGLLADFGETIHIAKVNDRYVLLIEGDSLQFEKGFSPVEFLKPEDLQEVIERI 89 (91)
T ss_pred ehhHHHHhhccceeEEEECCEEEEEEEcceEEEccCCCceeeeCchhHHHHHHHh
Confidence 466777888864432 22221111112677889999999998888755
No 208
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=32.76 E-value=1.3e+02 Score=20.77 Aligned_cols=10 Identities=30% Similarity=0.753 Sum_probs=6.0
Q ss_pred CCCcceEEEE
Q 036035 23 TGEPRGFGFV 32 (190)
Q Consensus 23 t~~~~G~afV 32 (190)
.+.+.|||.|
T Consensus 62 ~g~s~G~a~I 71 (99)
T PRK01178 62 MGKSKGYAKV 71 (99)
T ss_pred CceEEEEEEE
Confidence 4556666666
No 209
>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=32.72 E-value=31 Score=21.15 Aligned_cols=38 Identities=29% Similarity=0.428 Sum_probs=19.9
Q ss_pred ceEEEEEEcC-HHHHHHHHHHhCC----CeeCCeEEEEEEccc
Q 036035 27 RGFGFVKFRY-AEDAAEAKQRLNH----SLIGGREIKIVFAEE 64 (190)
Q Consensus 27 ~G~afV~f~~-~~~a~~Ai~~l~g----~~l~g~~i~V~~a~~ 64 (190)
+|||||+-.+ .+++---+..|.+ ....|..|..++...
T Consensus 12 kGfGFI~~~~~g~diffh~~~~~~~~~~~~~~G~~V~f~~~~~ 54 (65)
T cd04458 12 KGFGFITPDDGGEDVFVHISALEGDGFRSLEEGDRVEFELEEG 54 (65)
T ss_pred CCeEEEecCCCCcCEEEEhhHhhccCCCcCCCCCEEEEEEEEC
Confidence 7899998765 3332222222222 233467776666543
No 210
>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=32.57 E-value=57 Score=20.63 Aligned_cols=29 Identities=10% Similarity=0.210 Sum_probs=16.8
Q ss_pred CHHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEc
Q 036035 1 ELRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFR 35 (190)
Q Consensus 1 DL~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~ 35 (190)
||-.+.-.|| .|+.-++..| -.+|||.|.
T Consensus 16 dlcr~il~fGl~i~rgd~sTD------GkWCyiv~w 45 (69)
T cd04894 16 DLCRIILEFGLNITRGDDSTD------GRWCYIVFW 45 (69)
T ss_pred HHHHHHHHhceEEEecccccC------CcEEEEEEE
Confidence 3444555677 3444455554 238999885
No 211
>KOG1847 consensus mRNA splicing factor [RNA processing and modification]
Probab=32.47 E-value=43 Score=30.88 Aligned_cols=10 Identities=70% Similarity=0.803 Sum_probs=4.6
Q ss_pred CCCCCCCCCC
Q 036035 127 RSISRSLSPR 136 (190)
Q Consensus 127 rs~srS~s~~ 136 (190)
+.++||+||+
T Consensus 748 r~rsRsrSpr 757 (878)
T KOG1847|consen 748 RGRSRSRSPR 757 (878)
T ss_pred ccccccCCch
Confidence 4444444444
No 212
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=32.37 E-value=26 Score=31.40 Aligned_cols=38 Identities=18% Similarity=0.341 Sum_probs=32.3
Q ss_pred ceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEccc
Q 036035 27 RGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEE 64 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~ 64 (190)
..|+++.|++..++.+|+..++|....+..+.|..+..
T Consensus 63 ~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~ 100 (534)
T KOG2187|consen 63 PKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGAT 100 (534)
T ss_pred CCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhccc
Confidence 56999999999999999999999888887777766543
No 213
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=32.27 E-value=73 Score=27.20 Aligned_cols=49 Identities=16% Similarity=0.063 Sum_probs=33.1
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREI 57 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i 57 (190)
+|+.+|.+--.+..+....+ --||.|....+.++-|...++..+.|..|
T Consensus 266 ~Le~HF~~~hy~ct~qtc~~--------~k~~vf~~~~el~~h~~~~h~~~~~~~~~ 314 (493)
T COG5236 266 DLEAHFRNAHYCCTFQTCRV--------GKCYVFPYHTELLEHLTRFHKVNARLSEI 314 (493)
T ss_pred HHHHHhhcCceEEEEEEEec--------CcEEEeccHHHHHHHHHHHhhcccccCcC
Confidence 46677776555554443333 34788988888888888888877766554
No 214
>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=31.04 E-value=39 Score=21.30 Aligned_cols=38 Identities=18% Similarity=0.338 Sum_probs=20.7
Q ss_pred ceEEEEEEcC-HHHHH---HHHHHhCC-Ce-eCCeEEEEEEcccC
Q 036035 27 RGFGFVKFRY-AEDAA---EAKQRLNH-SL-IGGREIKIVFAEEN 65 (190)
Q Consensus 27 ~G~afV~f~~-~~~a~---~Ai~~l~g-~~-l~g~~i~V~~a~~~ 65 (190)
+|||||+-.+ .+++- .||. .++ .. ..|..|..++....
T Consensus 13 kGfGFI~~~~g~~dvfvH~s~~~-~~g~~~l~~G~~V~f~~~~~~ 56 (68)
T TIGR02381 13 KGFGFICPEGVDGDIFAHYSTIQ-MDGYRTLKAGQKVQFEVVQGP 56 (68)
T ss_pred CCeEEEecCCCCccEEEEHHHhh-hcCCCCCCCCCEEEEEEEECC
Confidence 7999997655 23322 2332 133 22 34777777666543
No 215
>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=31.04 E-value=96 Score=19.99 Aligned_cols=24 Identities=25% Similarity=0.159 Sum_probs=16.5
Q ss_pred ceEEEEEEcCHHHHHHHHHHhCCCe
Q 036035 27 RGFGFVKFRYAEDAAEAKQRLNHSL 51 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai~~l~g~~ 51 (190)
.+..+|.|+..++.+.|.. |.|..
T Consensus 54 ~~~~i~~~~gi~~r~~Ae~-l~g~~ 77 (84)
T PF01782_consen 54 GKSLIVKFEGIDDREAAEA-LRGCE 77 (84)
T ss_dssp TTEEEEEETT--SHHHHHT-TTT-E
T ss_pred CCEEEEEEcCCCCHHHHHh-hCCCE
Confidence 5688999999999888876 65553
No 216
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=31.03 E-value=21 Score=22.59 Aligned_cols=23 Identities=9% Similarity=0.261 Sum_probs=13.2
Q ss_pred CCCeEEEEEccCCCCCCcceEEEEEEcCHH
Q 036035 9 YGPVKDVYLPKNYYTGEPRGFGFVKFRYAE 38 (190)
Q Consensus 9 ~G~I~~v~i~~~~~t~~~~G~afV~f~~~~ 38 (190)
.|.|..+.+ . .+|+||+++++..
T Consensus 5 ~g~v~~i~~-t------k~g~~~~~L~D~~ 27 (78)
T cd04489 5 EGEISNLKR-P------SSGHLYFTLKDED 27 (78)
T ss_pred EEEEecCEE-C------CCcEEEEEEEeCC
Confidence 355555554 1 1458888886644
No 217
>PRK15464 cold shock-like protein CspH; Provisional
Probab=30.77 E-value=34 Score=21.87 Aligned_cols=38 Identities=18% Similarity=0.217 Sum_probs=21.0
Q ss_pred ceEEEEEEcCH-HHHH---HHHHHhCCC--eeCCeEEEEEEcccC
Q 036035 27 RGFGFVKFRYA-EDAA---EAKQRLNHS--LIGGREIKIVFAEEN 65 (190)
Q Consensus 27 ~G~afV~f~~~-~~a~---~Ai~~l~g~--~l~g~~i~V~~a~~~ 65 (190)
+||+||+-.+- +|+- .||. .++. ...|..|..++.+..
T Consensus 16 KGfGFI~~~~g~~DvFvH~s~l~-~~g~~~l~~G~~V~f~v~~~~ 59 (70)
T PRK15464 16 SGKGFIIPSDGRKEVQVHISAFT-PRDAEVLIPGLRVEFCRVNGL 59 (70)
T ss_pred CCeEEEccCCCCccEEEEehheh-hcCCCCCCCCCEEEEEEEECC
Confidence 89999976542 2322 2332 1232 334777777776543
No 218
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=30.75 E-value=9.6 Score=24.21 Aligned_cols=19 Identities=32% Similarity=0.459 Sum_probs=14.2
Q ss_pred EEEEEEcCHHHHHHHHHHh
Q 036035 29 FGFVKFRYAEDAAEAKQRL 47 (190)
Q Consensus 29 ~afV~f~~~~~a~~Ai~~l 47 (190)
.+|.-|.+.++|..++..+
T Consensus 46 ~aF~pF~s~~~ALe~~~ai 64 (67)
T PF08156_consen 46 KAFSPFKSAEEALENANAI 64 (67)
T ss_pred hhccCCCCHHHHHHHHHHh
Confidence 6788898887777766654
No 219
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=30.72 E-value=72 Score=18.23 Aligned_cols=30 Identities=17% Similarity=0.183 Sum_probs=21.4
Q ss_pred cCCCCCCcceEEEEEEcCHHHHHHHHHHhC
Q 036035 19 KNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48 (190)
Q Consensus 19 ~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~ 48 (190)
.+..+|+.+-.----|.+..+|+.++..|.
T Consensus 9 ~~~~~Gkrk~~~k~GF~TkkeA~~~~~~~~ 38 (46)
T PF14657_consen 9 YDDETGKRKQKTKRGFKTKKEAEKALAKIE 38 (46)
T ss_pred EECCCCCEEEEEcCCCCcHHHHHHHHHHHH
Confidence 455577766555555889999999887653
No 220
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=30.62 E-value=1.2e+02 Score=22.11 Aligned_cols=10 Identities=40% Similarity=1.062 Sum_probs=6.4
Q ss_pred CCCcceEEEE
Q 036035 23 TGEPRGFGFV 32 (190)
Q Consensus 23 t~~~~G~afV 32 (190)
.|.+.|||.|
T Consensus 68 ~g~StG~a~I 77 (132)
T PTZ00071 68 GGKTTGFGLI 77 (132)
T ss_pred CceEEEEEEE
Confidence 4556677766
No 221
>PF11910 NdhO: Cyanobacterial and plant NDH-1 subunit O; InterPro: IPR020905 NAD(P)H-quinone oxidoreductase (NDH-1) shuttles electrons from an unknown electron donor, via FMN and iron-sulphur (Fe-S) centres, to quinones in the respiratory and/or the photosynthetic chain. The immediate electron acceptor for the enzyme in this species is believed to be plastoquinone. It couples the redox reaction to proton translocation, and thus conserves the redox energy in a proton gradient. Cyanobacterial NDH-1 also plays a role in inorganic carbon-concentration. NDH-1 can be composed of about 15 different subunits, although different subcomplexes with different compositions have been identified which probably have different functions. This entry represents subunit O. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process, 0005886 plasma membrane
Probab=30.27 E-value=48 Score=20.99 Aligned_cols=21 Identities=38% Similarity=0.613 Sum_probs=15.2
Q ss_pred HhhcCCCeEEEEEccCCCCCCcceEEEEEEc
Q 036035 5 AFERYGPVKDVYLPKNYYTGEPRGFGFVKFR 35 (190)
Q Consensus 5 ~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~ 35 (190)
+|+.-|+|..|. - .||+|.|.
T Consensus 31 ife~~GEvl~ik--g--------dYa~vr~~ 51 (67)
T PF11910_consen 31 IFEGPGEVLDIK--G--------DYAQVRFR 51 (67)
T ss_pred eecCCCeEEEec--C--------CEEEEEec
Confidence 577788887653 2 39999994
No 222
>TIGR00358 3_prime_RNase VacB and RNase II family 3'-5' exoribonucleases. This model is defined to identify a pair of paralogous 3-prime exoribonucleases in E. coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterized originally as required for the expression of virulence genes, but is now recognized as the exoribonuclease RNase R (Rnr). Its paralog in E. coli and H. influenzae is designated exoribonuclease II (Rnb). Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cutoff to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3-prime exoribonucleases.
Probab=29.28 E-value=17 Score=33.56 Aligned_cols=37 Identities=16% Similarity=0.336 Sum_probs=22.5
Q ss_pred CCcceEEEEEEcC--HHHHHHHHHHhCCCeeCCeEEEEEE
Q 036035 24 GEPRGFGFVKFRY--AEDAAEAKQRLNHSLIGGREIKIVF 61 (190)
Q Consensus 24 ~~~~G~afV~f~~--~~~a~~Ai~~l~g~~l~g~~i~V~~ 61 (190)
..++|||||..+. .++.--.-..|++ .++|-.|.|.+
T Consensus 23 ~~~~gfgFv~~~~~~~~difI~~~~~~~-a~~GD~V~v~i 61 (654)
T TIGR00358 23 AHNKGFGFLRPDDDDKKDYFIPPPQMKK-VMHGDLVEACP 61 (654)
T ss_pred ECCCccEEEEeCCCCCCcEEEchHHhCc-CCCCCEEEEEE
Confidence 3358999998874 2343333345555 45677776665
No 223
>KOG1232 consensus Proteins containing the FAD binding domain [Energy production and conversion]
Probab=29.21 E-value=83 Score=27.37 Aligned_cols=43 Identities=16% Similarity=0.213 Sum_probs=29.4
Q ss_pred CHHHHhh----cCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHH
Q 036035 1 ELRVAFE----RYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAK 44 (190)
Q Consensus 1 DL~~~F~----~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai 44 (190)
||+++|- ..|.|+.|.|+..+ ..+.-..||+..++-+++++++
T Consensus 240 dlkhLFIGSEGtlGVvT~vSil~~~-kpksvn~af~gi~sf~~v~k~f 286 (511)
T KOG1232|consen 240 DLKHLFIGSEGTLGVVTKVSILAPP-KPKSVNVAFIGIESFDDVQKVF 286 (511)
T ss_pred cchhheecCCceeeEEeeEEEeecC-CCcceeEEEEccccHHHHHHHH
Confidence 5677774 36788888887765 2334567888887777776654
No 224
>PRK09937 stationary phase/starvation inducible regulatory protein CspD; Provisional
Probab=28.09 E-value=46 Score=21.51 Aligned_cols=38 Identities=24% Similarity=0.420 Sum_probs=19.1
Q ss_pred ceEEEEEEcCH-HHHH---HHHHHhCC--CeeCCeEEEEEEcccC
Q 036035 27 RGFGFVKFRYA-EDAA---EAKQRLNH--SLIGGREIKIVFAEEN 65 (190)
Q Consensus 27 ~G~afV~f~~~-~~a~---~Ai~~l~g--~~l~g~~i~V~~a~~~ 65 (190)
+||+||+-.+- +++- .||. ..| ....|..|..++.+..
T Consensus 13 KGfGFI~~~~gg~dVFvH~s~i~-~~g~~~l~~G~~V~f~~~~~~ 56 (74)
T PRK09937 13 KGFGFICPEGGGEDIFAHYSTIQ-MDGYRTLKAGQSVQFDVHQGP 56 (74)
T ss_pred CCeEEEeeCCCCccEEEEEeecc-ccCCCCCCCCCEEEEEEEECC
Confidence 79999965431 2211 1222 122 1234777777766543
No 225
>PRK15463 cold shock-like protein CspF; Provisional
Probab=28.00 E-value=42 Score=21.40 Aligned_cols=39 Identities=15% Similarity=0.147 Sum_probs=21.0
Q ss_pred ceEEEEEEcCH-HHHH---HHHHHh-CCCeeCCeEEEEEEcccC
Q 036035 27 RGFGFVKFRYA-EDAA---EAKQRL-NHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 27 ~G~afV~f~~~-~~a~---~Ai~~l-~g~~l~g~~i~V~~a~~~ 65 (190)
+||+||+-.+- +|+- .||... ......|..|..++.+..
T Consensus 16 kGfGFI~~~~g~~DvFvH~sal~~~g~~~l~~G~~V~f~v~~~~ 59 (70)
T PRK15463 16 SGKGLITPSDGRKDVQVHISALNLRDAEELTTGLRVEFCRINGL 59 (70)
T ss_pred CceEEEecCCCCccEEEEehhhhhcCCCCCCCCCEEEEEEEECC
Confidence 89999976542 2221 344322 112334777777766543
No 226
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=27.98 E-value=1e+02 Score=20.49 Aligned_cols=26 Identities=27% Similarity=0.336 Sum_probs=19.3
Q ss_pred CeEEEEEccCCCCCCcceEEEEEEcC
Q 036035 11 PVKDVYLPKNYYTGEPRGFGFVKFRY 36 (190)
Q Consensus 11 ~I~~v~i~~~~~t~~~~G~afV~f~~ 36 (190)
+|++|.|..-...+.-++||=|+|.+
T Consensus 2 ~itdVri~~~~~~~~lka~asV~~dd 27 (84)
T PF04026_consen 2 KITDVRIRKIEPEGKLKAFASVTFDD 27 (84)
T ss_dssp -EEEEEEEETTSSSSEEEEEEEEETT
T ss_pred ccEEEEEEEecCCCCEEEEEEEEECC
Confidence 46777776655558889999999975
No 227
>PRK09507 cspE cold shock protein CspE; Reviewed
Probab=27.45 E-value=43 Score=21.20 Aligned_cols=37 Identities=24% Similarity=0.417 Sum_probs=18.7
Q ss_pred ceEEEEEEcCH-HHHH---HHHHHhCC-Ce-eCCeEEEEEEccc
Q 036035 27 RGFGFVKFRYA-EDAA---EAKQRLNH-SL-IGGREIKIVFAEE 64 (190)
Q Consensus 27 ~G~afV~f~~~-~~a~---~Ai~~l~g-~~-l~g~~i~V~~a~~ 64 (190)
+||+||+=.+- +|+- .||. ..+ .. ..|..|..++.+.
T Consensus 15 kGyGFI~~~~g~~dvfvH~s~l~-~~g~~~l~~G~~V~f~~~~~ 57 (69)
T PRK09507 15 KGFGFITPEDGSKDVFVHFSAIQ-TNGFKTLAEGQRVEFEITNG 57 (69)
T ss_pred CCcEEEecCCCCeeEEEEeeccc-ccCCCCCCCCCEEEEEEEEC
Confidence 79999976542 1221 1222 122 22 3466666666544
No 228
>COG0858 RbfA Ribosome-binding factor A [Translation, ribosomal structure and biogenesis]
Probab=26.91 E-value=67 Score=22.80 Aligned_cols=36 Identities=25% Similarity=0.255 Sum_probs=19.0
Q ss_pred CeEEEEEccCCCCCCcceEEEEEEc--CHHHHHHHHHHhCCC
Q 036035 11 PVKDVYLPKNYYTGEPRGFGFVKFR--YAEDAAEAKQRLNHS 50 (190)
Q Consensus 11 ~I~~v~i~~~~~t~~~~G~afV~f~--~~~~a~~Ai~~l~g~ 50 (190)
.|+.|.|-.|- ....+||++- +..+.+.++.+|+..
T Consensus 35 ~Vt~V~vS~Dl----~~A~Vyvt~l~~~~~~~~~~~~~L~~A 72 (118)
T COG0858 35 TVTDVEVSKDL----SHAKVYVTVLGDEESSKAEILAALNKA 72 (118)
T ss_pred EEEEEEEcCCC----ceEEEEEEecCCchhhHHHHHHHHHHh
Confidence 36777776652 3345566653 333455555555543
No 229
>COG5193 LHP1 La protein, small RNA-binding pol III transcript stabilizing protein and related La-motif-containing proteins involved in translation [Posttranslational modification, protein turnover, chaperones / Translation, ribosomal structure and biogenesis]
Probab=26.65 E-value=39 Score=29.28 Aligned_cols=44 Identities=23% Similarity=0.454 Sum_probs=35.0
Q ss_pred CHHHHhhc--CCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHH
Q 036035 1 ELRVAFER--YGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAK 44 (190)
Q Consensus 1 DL~~~F~~--~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai 44 (190)
||+.+|.. .+.+..|.+..+.......|-.|++|.....|+.++
T Consensus 198 d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~n 243 (438)
T COG5193 198 DLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFN 243 (438)
T ss_pred hHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHh
Confidence 46677777 577777777777666677888999999999998886
No 230
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=26.56 E-value=1.4e+02 Score=20.46 Aligned_cols=18 Identities=17% Similarity=0.113 Sum_probs=13.2
Q ss_pred ceEEEEEEcCHHHHHHHH
Q 036035 27 RGFGFVKFRYAEDAAEAK 44 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai 44 (190)
.....|+|.+.+.|..+.
T Consensus 53 tr~vviEFps~~~ar~~y 70 (96)
T COG5470 53 TRNVVIEFPSLEAARDCY 70 (96)
T ss_pred ccEEEEEcCCHHHHHHHh
Confidence 457899999877765543
No 231
>PRK14998 cold shock-like protein CspD; Provisional
Probab=26.51 E-value=52 Score=21.17 Aligned_cols=38 Identities=24% Similarity=0.415 Sum_probs=19.3
Q ss_pred ceEEEEEEcCH-HHHH---HHHHHhCC-C-eeCCeEEEEEEcccC
Q 036035 27 RGFGFVKFRYA-EDAA---EAKQRLNH-S-LIGGREIKIVFAEEN 65 (190)
Q Consensus 27 ~G~afV~f~~~-~~a~---~Ai~~l~g-~-~l~g~~i~V~~a~~~ 65 (190)
+|||||+=.+- +|+- .+|. .+| . ...|..|..++.+..
T Consensus 13 kGfGFI~~~~g~~dVFvH~s~l~-~~g~~~l~~G~~V~f~~~~~~ 56 (73)
T PRK14998 13 KGFGFICPEGGGEDIFAHYSTIQ-MDGYRTLKAGQSVRFDVHQGP 56 (73)
T ss_pred CceEEEecCCCCccEEEEeeeec-ccCCCCCCCCCEEEEEEEECC
Confidence 78999976542 2221 1222 122 1 234777776666543
No 232
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=26.33 E-value=1.2e+02 Score=23.40 Aligned_cols=36 Identities=19% Similarity=0.163 Sum_probs=25.4
Q ss_pred CCeEEEEEccCCC-CCCcceEEEEEEcCHHHHHHHHH
Q 036035 10 GPVKDVYLPKNYY-TGEPRGFGFVKFRYAEDAAEAKQ 45 (190)
Q Consensus 10 G~I~~v~i~~~~~-t~~~~G~afV~f~~~~~a~~Ai~ 45 (190)
|++..|.+-.... ...-+|-.||+|.+.+.|.++++
T Consensus 132 ~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~ 168 (205)
T KOG4213|consen 132 GKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDD 168 (205)
T ss_pred ccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhh
Confidence 7777776543221 12457889999999999888776
No 233
>PRK10943 cold shock-like protein CspC; Provisional
Probab=26.20 E-value=47 Score=21.04 Aligned_cols=38 Identities=26% Similarity=0.466 Sum_probs=20.2
Q ss_pred ceEEEEEEcCH-HHHH---HHHHHhCC-C-eeCCeEEEEEEcccC
Q 036035 27 RGFGFVKFRYA-EDAA---EAKQRLNH-S-LIGGREIKIVFAEEN 65 (190)
Q Consensus 27 ~G~afV~f~~~-~~a~---~Ai~~l~g-~-~l~g~~i~V~~a~~~ 65 (190)
+|||||+=.+- +++- .||.. .+ . ...|..|..++....
T Consensus 15 kGfGFI~~~~g~~dvFvH~s~l~~-~g~~~l~~G~~V~f~~~~~~ 58 (69)
T PRK10943 15 KGFGFITPADGSKDVFVHFSAIQG-NGFKTLAEGQNVEFEIQDGQ 58 (69)
T ss_pred CCcEEEecCCCCeeEEEEhhHccc-cCCCCCCCCCEEEEEEEECC
Confidence 89999986542 2322 23321 22 2 235777777766543
No 234
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=26.07 E-value=1.3e+02 Score=21.68 Aligned_cols=33 Identities=24% Similarity=0.268 Sum_probs=18.5
Q ss_pred EEEEEEcCH--------HHHHHHHHHhCCCeeCCeEEEEEE
Q 036035 29 FGFVKFRYA--------EDAAEAKQRLNHSLIGGREIKIVF 61 (190)
Q Consensus 29 ~afV~f~~~--------~~a~~Ai~~l~g~~l~g~~i~V~~ 61 (190)
-|||+|++- +-|..-++.+|.+.--|..|.|.+
T Consensus 20 GAFV~l~~g~tGLVHISEIa~~fVkdI~d~L~vG~eV~vKV 60 (129)
T COG1098 20 GAFVELEGGKTGLVHISEIADGFVKDIHDHLKVGQEVKVKV 60 (129)
T ss_pred ceEEEecCCCcceEEehHhhhhhHHhHHHHhcCCCEEEEEE
Confidence 478888752 334444554554444477776654
No 235
>COG5594 Uncharacterized integral membrane protein [Function unknown]
Probab=25.97 E-value=81 Score=29.91 Aligned_cols=35 Identities=29% Similarity=0.299 Sum_probs=23.8
Q ss_pred ceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 27 RGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
.+.|||+|+++..|+.|.+..-+..+.+.. +|+++
T Consensus 357 ~~~~FItFkSq~~Aq~~aQ~~~~sr~~~~~-~v~ia 391 (827)
T COG5594 357 TKSGFITFKSQASAQIAAQSQIYSRVLGKL-KVEIA 391 (827)
T ss_pred cccEEEEEehhHHHHHHHHhhhhhhhhcce-eeeec
Confidence 568999999999999998865333333333 34444
No 236
>TIGR01638 Atha_cystat_rel Arabidopsis thaliana cystatin-related protein. This model represents a family similar in sequence and probably homologous to a large family of cysteine proteinase inhibitors, or cystatins, as described by pfam model pfam00031. Cystatins may help plants resist attack by insects.
Probab=25.71 E-value=79 Score=21.49 Aligned_cols=40 Identities=10% Similarity=0.248 Sum_probs=22.7
Q ss_pred CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCC
Q 036035 11 PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHS 50 (190)
Q Consensus 11 ~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~ 50 (190)
.++.|.|+.....+...-..||+|+-.+.+..-+..+..+
T Consensus 33 ~lEfV~vVrAn~~~~~g~~~yITF~Ard~~d~p~~e~~q~ 72 (92)
T TIGR01638 33 NLELVEVVRANYRGGAKSKSYITFEARDKPDGPLGEYQQA 72 (92)
T ss_pred eEEEEEEEEEEeeccceEEEEEEEEEecCCCCCHHHhhhe
Confidence 5666777766544444456789997554443333334333
No 237
>PRK09890 cold shock protein CspG; Provisional
Probab=25.65 E-value=47 Score=21.12 Aligned_cols=10 Identities=40% Similarity=0.873 Sum_probs=8.0
Q ss_pred ceEEEEEEcC
Q 036035 27 RGFGFVKFRY 36 (190)
Q Consensus 27 ~G~afV~f~~ 36 (190)
+||+||+=.+
T Consensus 16 kGfGFI~~~~ 25 (70)
T PRK09890 16 KGFGFITPDD 25 (70)
T ss_pred CCcEEEecCC
Confidence 7899997654
No 238
>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=25.35 E-value=63 Score=20.40 Aligned_cols=31 Identities=19% Similarity=0.176 Sum_probs=23.1
Q ss_pred ceEEEEEEcCHHHHHHHHHHhCCCeeCCeEE
Q 036035 27 RGFGFVKFRYAEDAAEAKQRLNHSLIGGREI 57 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i 57 (190)
.||+.|-|-..++++.+|+.+-|.++.+..+
T Consensus 11 gg~v~~pwcg~~ece~~ike~t~at~rciP~ 41 (68)
T PF09180_consen 11 GGFVLVPWCGDEECEEKIKEETGATIRCIPF 41 (68)
T ss_dssp SSEEEEEES-SHHHHHHHHHHHS-EEEEEET
T ss_pred CCEEEEEccCCHHHHHHHHHhcCCcEeEeEc
Confidence 4799999998899999999887776655443
No 239
>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=25.30 E-value=2.2e+02 Score=23.75 Aligned_cols=38 Identities=16% Similarity=0.192 Sum_probs=27.0
Q ss_pred eEEEEEccCCC--CCCcceEEEEEEcCHHHHHHHHHHhCC
Q 036035 12 VKDVYLPKNYY--TGEPRGFGFVKFRYAEDAAEAKQRLNH 49 (190)
Q Consensus 12 I~~v~i~~~~~--t~~~~G~afV~f~~~~~a~~Ai~~l~g 49 (190)
|+.|+|+.... ..-++.||.+.|-+...|...+..|..
T Consensus 174 lEsIDlVna~~~~~~Fp~~YaILtFlnIsMAiEV~dYlk~ 213 (309)
T PF10567_consen 174 LESIDLVNADEPSKHFPKNYAILTFLNISMAIEVLDYLKS 213 (309)
T ss_pred EEEEEEeccCcccccCCcceEEEeehhHHhHHHHHHHHHh
Confidence 45567765433 233578999999999998888876653
No 240
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=25.26 E-value=1.5e+02 Score=17.33 Aligned_cols=43 Identities=14% Similarity=0.176 Sum_probs=22.3
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEc-CHHHHHHHHHHh
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFR-YAEDAAEAKQRL 47 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~-~~~~a~~Ai~~l 47 (190)
|..+|...| .|..+.+...... .++.|+.+. +..+++.+++.|
T Consensus 17 v~~~la~~~inI~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l 61 (66)
T PF01842_consen 17 VTEILADHGINIDSISQSSDKDG---VGIVFIVIVVDEEDLEKLLEEL 61 (66)
T ss_dssp HHHHHHHTTEEEEEEEEEEESST---TEEEEEEEEEEGHGHHHHHHHH
T ss_pred HHHHHHHcCCCHHHeEEEecCCC---ceEEEEEEECCCCCHHHHHHHH
Confidence 556777776 5566655544321 345554443 344555555544
No 241
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=24.94 E-value=3e+02 Score=25.21 Aligned_cols=16 Identities=19% Similarity=0.443 Sum_probs=12.4
Q ss_pred CCeEEEEEEcccCCCC
Q 036035 53 GGREIKIVFAEENRKT 68 (190)
Q Consensus 53 ~g~~i~V~~a~~~~~~ 68 (190)
.|++|.|+++-+++..
T Consensus 115 ~~~kV~iE~sSaNptk 130 (577)
T COG0018 115 KGKKVVIEYSSANPTG 130 (577)
T ss_pred CCCEEEEEEeCCCCCC
Confidence 4789999998776644
No 242
>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=24.63 E-value=57 Score=20.03 Aligned_cols=12 Identities=25% Similarity=0.695 Sum_probs=9.1
Q ss_pred ceEEEEEEcCHH
Q 036035 27 RGFGFVKFRYAE 38 (190)
Q Consensus 27 ~G~afV~f~~~~ 38 (190)
+|||||+-.+..
T Consensus 12 kgyGFI~~~~~~ 23 (66)
T PF00313_consen 12 KGYGFITSDDGG 23 (66)
T ss_dssp TTEEEEEETTSS
T ss_pred CCceEEEEcccc
Confidence 789999886543
No 243
>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=24.50 E-value=1.6e+02 Score=17.25 Aligned_cols=18 Identities=6% Similarity=0.193 Sum_probs=11.2
Q ss_pred HHHHhhcCC-CeEEEEEcc
Q 036035 2 LRVAFERYG-PVKDVYLPK 19 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~ 19 (190)
|-.+|.++| .|..+.+..
T Consensus 16 i~~~l~~~~~nI~~~~~~~ 34 (71)
T cd04879 16 VGTILGEHGINIAAMQVGR 34 (71)
T ss_pred HHHHHHhcCCCeeeEEEec
Confidence 556777776 566665543
No 244
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. Members of this CD belong to the superfamily of ACT regulatory domains. Pairs of ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. The ACT domain has been detected in a number of diverse proteins; some of these proteins are involved in amino acid and purine biosynthesis, phenylalanine hydroxylation, regulation of bacterial metabolism and transcription, and many remain to be characterized. ACT domain-containing enzymes involved in amino acid and purine synthesis are in many cases allosteric enzymes with complex regulation enforced by the binding of ligands. The ACT domain is commonly involved in the binding of a small regulatory molecule, such as the amino acids L-Ser and L-Phe in the case of D-3-phosphoglycerate dehydrogenase and the bifunctional chorismate mutase-p
Probab=24.37 E-value=1.3e+02 Score=16.03 Aligned_cols=44 Identities=9% Similarity=0.021 Sum_probs=21.3
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHh
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRL 47 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l 47 (190)
|..+|..+| .|..+.+.... .......+|.+....+.+.++..|
T Consensus 15 i~~~l~~~~~~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l 59 (60)
T cd02116 15 VLSVLAEAGINITSIEQRTSG--DGGEADIFIVVDGDGDLEKLLEAL 59 (60)
T ss_pred HHHHHHHCCCcEEEEEeEEcC--CCCeEEEEEEEechHHHHHHHHHh
Confidence 445566655 45555433221 112234455566554666666554
No 245
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=24.31 E-value=49 Score=25.31 Aligned_cols=44 Identities=25% Similarity=0.297 Sum_probs=26.4
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHH
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQ 45 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~ 45 (190)
+..+|..+|.|..+.+...........+.++.+.....+..++.
T Consensus 242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 (306)
T COG0724 242 LADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNS 285 (306)
T ss_pred HHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhc
Confidence 56778889988777776655444444455555554444444444
No 246
>PRK10354 RNA chaperone/anti-terminator; Provisional
Probab=24.17 E-value=51 Score=20.87 Aligned_cols=10 Identities=40% Similarity=0.873 Sum_probs=7.7
Q ss_pred ceEEEEEEcC
Q 036035 27 RGFGFVKFRY 36 (190)
Q Consensus 27 ~G~afV~f~~ 36 (190)
+||+||+=.+
T Consensus 16 kGfGFI~~~~ 25 (70)
T PRK10354 16 KGFGFITPDD 25 (70)
T ss_pred CCcEEEecCC
Confidence 7899997543
No 247
>COG5584 Predicted small secreted protein [Function unknown]
Probab=24.06 E-value=1.3e+02 Score=20.75 Aligned_cols=22 Identities=14% Similarity=0.288 Sum_probs=17.4
Q ss_pred HHHHhhcCCCeEEEEEccCCCC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYT 23 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t 23 (190)
+++.|.++|.|..-+|...+..
T Consensus 39 vk~afk~~mnI~GSwI~~~pe~ 60 (103)
T COG5584 39 VKEAFKQFMNIKGSWIVYEPEV 60 (103)
T ss_pred HHHHhcccCCcceeEEEEeccc
Confidence 5778999999998887776643
No 248
>PF14268 YoaP: YoaP-like
Probab=23.66 E-value=59 Score=18.87 Aligned_cols=34 Identities=21% Similarity=0.238 Sum_probs=24.4
Q ss_pred EEEEEEcCHHHHHHHHHHhCCC--eeCCeEEEEEEc
Q 036035 29 FGFVKFRYAEDAAEAKQRLNHS--LIGGREIKIVFA 62 (190)
Q Consensus 29 ~afV~f~~~~~a~~Ai~~l~g~--~l~g~~i~V~~a 62 (190)
+-+|.+++.++|+.|=.-.+.. -++|+.|.+++-
T Consensus 2 ~~~i~i~t~e~Aq~~P~pft~yalFYnGkfiT~eil 37 (44)
T PF14268_consen 2 FKLIKIDTLEKAQNAPCPFTTYALFYNGKFITNEIL 37 (44)
T ss_pred cEEEEeccHHHHhcCCCceeEEEEEECCEEEEeecc
Confidence 4578888888888876655554 346888888874
No 249
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=23.31 E-value=1.7e+02 Score=17.20 Aligned_cols=17 Identities=18% Similarity=0.366 Sum_probs=10.5
Q ss_pred HHHHhhcCC-CeEEEEEc
Q 036035 2 LRVAFERYG-PVKDVYLP 18 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~ 18 (190)
|..+|.++| .|..+...
T Consensus 17 i~~~l~~~~~~i~~~~~~ 34 (72)
T cd04878 17 ISGLFARRGFNIESLTVG 34 (72)
T ss_pred HHHHHHhCCCCEEEEEee
Confidence 556777776 55566543
No 250
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=23.30 E-value=1.3e+02 Score=20.55 Aligned_cols=26 Identities=27% Similarity=0.273 Sum_probs=19.0
Q ss_pred CeEEEEEccCCCCCCcceEEEEEEcC
Q 036035 11 PVKDVYLPKNYYTGEPRGFGFVKFRY 36 (190)
Q Consensus 11 ~I~~v~i~~~~~t~~~~G~afV~f~~ 36 (190)
+|++|.|..-...|+-++||=|+|.+
T Consensus 2 ~ITdVri~~~~~~g~lka~asit~dd 27 (94)
T PRK13259 2 EVTDVRLRKVNTEGRMKAIVSITFDN 27 (94)
T ss_pred eEEEEEEEEeCCCCcEEEEEEEEECC
Confidence 47777665544457788999999876
No 251
>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=23.27 E-value=1.7e+02 Score=17.19 Aligned_cols=43 Identities=2% Similarity=0.043 Sum_probs=20.0
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHh
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRL 47 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l 47 (190)
|..+|.++| .|..+.+... .+...++..|.+.+. +.+.++..|
T Consensus 16 i~~~l~~~~~~I~~~~~~~~--~~~~~~~i~i~v~~~-~~~~~i~~l 59 (71)
T cd04903 16 VTSVLADHEINIAFMRVSRK--EKGDQALMVIEVDQP-IDEEVIEEI 59 (71)
T ss_pred HHHHHHHcCcCeeeeEEEec--cCCCeEEEEEEeCCC-CCHHHHHHH
Confidence 456677765 5655544321 111223344555543 444444444
No 252
>COG4483 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.23 E-value=45 Score=21.15 Aligned_cols=14 Identities=7% Similarity=0.404 Sum_probs=10.6
Q ss_pred CHHHHhhcCCCeEE
Q 036035 1 ELRVAFERYGPVKD 14 (190)
Q Consensus 1 DL~~~F~~~G~I~~ 14 (190)
|+++++.+||-|+.
T Consensus 6 DVqQlLK~~G~ivy 19 (68)
T COG4483 6 DVQQLLKKFGIIVY 19 (68)
T ss_pred HHHHHHHHCCeeee
Confidence 67888888886664
No 253
>PRK00911 dihydroxy-acid dehydratase; Provisional
Probab=23.15 E-value=2.1e+02 Score=26.02 Aligned_cols=37 Identities=22% Similarity=0.206 Sum_probs=26.2
Q ss_pred cceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEcccC
Q 036035 26 PRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFAEEN 65 (190)
Q Consensus 26 ~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a~~~ 65 (190)
..|-| +.|+++++|.+||. ++..-.|..|.|.+.-++
T Consensus 397 ~~GpA-~VF~see~a~~ai~--~g~I~~gdVvViRyeGPk 433 (552)
T PRK00911 397 FTGPA-RVFDSEEEAMEAIL--AGKIKAGDVVVIRYEGPK 433 (552)
T ss_pred eeeeE-EEECCHHHHHHHHh--cCCCCCCeEEEEeCCCCC
Confidence 34444 56999999999997 465556887777776443
No 254
>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=23.01 E-value=1e+02 Score=20.94 Aligned_cols=23 Identities=30% Similarity=0.312 Sum_probs=19.0
Q ss_pred ceEEEEEEcCHHHHHHHHHHhCC
Q 036035 27 RGFGFVKFRYAEDAAEAKQRLNH 49 (190)
Q Consensus 27 ~G~afV~f~~~~~a~~Ai~~l~g 49 (190)
+.+|.|+|.+.+.+..|.+.|-.
T Consensus 51 ~pm~vv~f~~~~~g~~~yq~Lre 73 (91)
T PF12829_consen 51 RPMCVVNFPNYEVGVSAYQKLRE 73 (91)
T ss_pred eEeEEEECCChHHHHHHHHHHHH
Confidence 46899999999999888887643
No 255
>KOG3655 consensus Drebrins and related actin binding proteins [Cytoskeleton]
Probab=22.91 E-value=1.5e+02 Score=26.33 Aligned_cols=34 Identities=21% Similarity=0.338 Sum_probs=22.0
Q ss_pred HHHHhhcC--CCeEEEEE-ccCCCCCCcceEEEEEEcC
Q 036035 2 LRVAFERY--GPVKDVYL-PKNYYTGEPRGFGFVKFRY 36 (190)
Q Consensus 2 L~~~F~~~--G~I~~v~i-~~~~~t~~~~G~afV~f~~ 36 (190)
|.++|.-| |.|.++.+ +.|.+++.+| |.||.+.-
T Consensus 51 ~~e~~~df~~~kv~yg~~rv~D~~s~l~K-fvLI~W~G 87 (484)
T KOG3655|consen 51 LEEFLGDFDSGKVMYGFCRVKDPMSGLPK-FVLINWIG 87 (484)
T ss_pred HHHHhhhcccCceeEEEEEecCcccCCcc-eEEEEecC
Confidence 45556554 56666543 5566677665 99999964
No 256
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.81 E-value=1.8e+02 Score=17.19 Aligned_cols=18 Identities=17% Similarity=0.228 Sum_probs=10.7
Q ss_pred HHHHhhcCC-CeEEEEEcc
Q 036035 2 LRVAFERYG-PVKDVYLPK 19 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~ 19 (190)
|..+|..+| .|..+.+..
T Consensus 15 i~~~i~~~~~nI~~i~~~~ 33 (73)
T cd04886 15 LLAVIAEAGANIIEVSHDR 33 (73)
T ss_pred HHHHHHHcCCCEEEEEEEe
Confidence 455666655 677765544
No 257
>PHA02131 hypothetical protein
Probab=22.76 E-value=1.7e+02 Score=17.95 Aligned_cols=28 Identities=14% Similarity=0.325 Sum_probs=16.5
Q ss_pred HhhcCCCeEEEEEccCCCCCCcce-EEEEEEc
Q 036035 5 AFERYGPVKDVYLPKNYYTGEPRG-FGFVKFR 35 (190)
Q Consensus 5 ~F~~~G~I~~v~i~~~~~t~~~~G-~afV~f~ 35 (190)
+..+..-|+.|+|+....+ .| .|+|.|.
T Consensus 8 hiakvngitkvdmirgh~~---~g~~c~imfk 36 (70)
T PHA02131 8 HIAKVNGITKVDMIRGHYR---FGISCWIMFK 36 (70)
T ss_pred HhhhhcCceEEEEecccee---cceEEEEEEc
Confidence 4556667888888866422 22 2556664
No 258
>PF02033 RBFA: Ribosome-binding factor A; InterPro: IPR000238 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 [, ]. Ribosome-binding factor A [] (gene rbfA) is a bacterial protein that associates with free 30S ribosomal subunits. It does not associate with 30S subunits that are part of 70S ribosomes or polysomes. It is essential for efficient processing of 16S rRNA. Ribosome-binding factor A is a protein of from 13 to 15 Kd which is found in most bacteria. A putative chloroplastic form seems to exist in plants.; GO: 0006364 rRNA processing; PDB: 2R1C_A 2DYJ_B 2KZF_A 2E7G_A 1JOS_A 1KKG_A 1PA4_A.
Probab=22.73 E-value=2.3e+02 Score=19.11 Aligned_cols=36 Identities=19% Similarity=0.256 Sum_probs=21.4
Q ss_pred CeEEEEEccCCCCCCcceEEEEEEc-CHHHHHHHHHHhCCC
Q 036035 11 PVKDVYLPKNYYTGEPRGFGFVKFR-YAEDAAEAKQRLNHS 50 (190)
Q Consensus 11 ~I~~v~i~~~~~t~~~~G~afV~f~-~~~~a~~Ai~~l~g~ 50 (190)
.|+.|.|-.|. .....||.+. +.++.+.+++.|+..
T Consensus 30 tIt~V~ls~Dl----~~a~Vy~~~~~~~~~~~~~~~~L~~~ 66 (104)
T PF02033_consen 30 TITRVELSPDL----SHAKVYVSILGDEEEQEEVLEALNKA 66 (104)
T ss_dssp EEEEEEECTTS----SEEEEEEEESSSHHHHHHHHHHHHHT
T ss_pred EEEEEEECCCC----CEEEEEEEEecCchhHHHHHHHHHHH
Confidence 46667776552 3345566654 566777777766654
No 259
>PF06491 Disulph_isomer: Disulphide isomerase; InterPro: IPR009474 This entry consists of several hypothetical bacterial proteins of unknown function.; PDB: 3FHK_F.
Probab=22.60 E-value=60 Score=23.62 Aligned_cols=22 Identities=27% Similarity=0.359 Sum_probs=13.2
Q ss_pred EEEEEEcCHHHHHHHHHHhCCC
Q 036035 29 FGFVKFRYAEDAAEAKQRLNHS 50 (190)
Q Consensus 29 ~afV~f~~~~~a~~Ai~~l~g~ 50 (190)
.||-++.+.++++.||....|+
T Consensus 16 ~Gf~eL~T~e~Vd~~~~~~~GT 37 (136)
T PF06491_consen 16 AGFEELTTAEEVDEALKNKEGT 37 (136)
T ss_dssp TT-EE--SHHHHHHHHHH--SE
T ss_pred cCccccCCHHHHHHHHhCCCCc
Confidence 4688888888988888855554
No 260
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=22.33 E-value=62 Score=20.41 Aligned_cols=30 Identities=33% Similarity=0.406 Sum_probs=19.7
Q ss_pred CHHHHhhcCCCeEEEEEccCCCCCCcceEEEE
Q 036035 1 ELRVAFERYGPVKDVYLPKNYYTGEPRGFGFV 32 (190)
Q Consensus 1 DL~~~F~~~G~I~~v~i~~~~~t~~~~G~afV 32 (190)
+|+.+|-+--+|+++.|...+.-+ +|-|||
T Consensus 34 eler~fl~~P~v~e~~l~EKKri~--~G~gyV 63 (64)
T PF13046_consen 34 ELERHFLPLPEVKEVALYEKKRIR--KGAGYV 63 (64)
T ss_pred HhhhhccCCCCceEEEEEEEEeee--CCceeE
Confidence 366777777888888877654333 455555
No 261
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.28 E-value=1.8e+02 Score=17.04 Aligned_cols=42 Identities=14% Similarity=0.102 Sum_probs=19.6
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHH
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQ 45 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~ 45 (190)
|..+|.++| .|..+.+.... ........+..++.+.+.++|.
T Consensus 16 i~~~l~~~~~nI~~i~~~~~~--~~~~~~v~~~ve~~~~~~~~L~ 58 (65)
T cd04882 16 ILQILSEEGINIEYMYAFVEK--KGGKALLIFRTEDIEKAIEVLQ 58 (65)
T ss_pred HHHHHHHCCCChhheEEEccC--CCCeEEEEEEeCCHHHHHHHHH
Confidence 445666665 56555432221 0112333444556555555555
No 262
>COG1369 POP5 RNase P/RNase MRP subunit POP5 [Translation, ribosomal structure and biogenesis]
Probab=22.08 E-value=2.8e+02 Score=19.95 Aligned_cols=32 Identities=19% Similarity=0.233 Sum_probs=20.5
Q ss_pred eEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEE
Q 036035 28 GFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVF 61 (190)
Q Consensus 28 G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~ 61 (190)
|.-=+.=+..+.+..||..+. +++|+.|.|..
T Consensus 68 GIvrc~R~~~~~v~aAL~l~~--~~~g~rv~I~~ 99 (124)
T COG1369 68 GIVRCRREYVDLVRAALMLAR--EVNGKRVIIVV 99 (124)
T ss_pred eEEEEechhHHHHHHHHHHHH--HhCCceEEEEE
Confidence 343444456677777777654 77888776654
No 263
>PRK14142 heat shock protein GrpE; Provisional
Probab=21.80 E-value=40 Score=26.84 Aligned_cols=60 Identities=8% Similarity=-0.058 Sum_probs=29.9
Q ss_pred HHHHhhcCCCeEEEEE---ccCCCCCCcceEEEEEEcCHH--HHHHHHHHh-CCCeeCCeEEE---EEEcccCC
Q 036035 2 LRVAFERYGPVKDVYL---PKNYYTGEPRGFGFVKFRYAE--DAAEAKQRL-NHSLIGGREIK---IVFAEENR 66 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i---~~~~~t~~~~G~afV~f~~~~--~a~~Ai~~l-~g~~l~g~~i~---V~~a~~~~ 66 (190)
|..+|.++|-. .|.- .+|+ .. .-|+....+.+ +....+..| .|++|.++.|. |.+++...
T Consensus 117 L~~iLek~GVe-~I~~~Ge~FDP--~~--HEAv~~ve~~e~~~~~tVveV~QkGYkL~dRVLRPA~V~Vsk~~~ 185 (223)
T PRK14142 117 LDSALTGLGLV-AFGAEGEDFDP--VL--HEAVQHEGDGGQGSKPVIGTVMRQGYQLGEQVLRHALVGVVDTVV 185 (223)
T ss_pred HHHHHHHCCCE-EeCCCCCCCCh--hh--hceeeeecCCCCCCCCEEEEEecCCcEeCCEeccCceEEECCCCC
Confidence 67889999843 3422 2222 11 22333332221 111233333 67888888874 66665543
No 264
>PF01282 Ribosomal_S24e: Ribosomal protein S24e; InterPro: IPR001976 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the S24e ribosomal proteins from eukaryotes and archaebacteria. These proteins have 101 to 148 amino acids.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2V94_B 1YWX_A 2G1D_A 3IZ6_U 1XN9_A 2XZM_P 2XZN_P 3U5G_Y 3J16_D 3IZB_U ....
Probab=21.78 E-value=2.4e+02 Score=18.60 Aligned_cols=24 Identities=21% Similarity=0.397 Sum_probs=12.5
Q ss_pred EEccCCCCCCcceEEEEEEcCHHHH
Q 036035 16 YLPKNYYTGEPRGFGFVKFRYAEDA 40 (190)
Q Consensus 16 ~i~~~~~t~~~~G~afV~f~~~~~a 40 (190)
.|......+.+.|||+| |.+.+.+
T Consensus 37 ~~~t~fG~~~s~g~a~I-Yd~~e~~ 60 (84)
T PF01282_consen 37 GIKTEFGGGKSTGFAKI-YDSAEAL 60 (84)
T ss_dssp EEEESSSSSEEEEEEEE-ESSHHHH
T ss_pred ccEecCCCceEEEEEEE-eCCHHHH
Confidence 34444344556677766 4444443
No 265
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=21.74 E-value=1.8e+02 Score=16.79 Aligned_cols=40 Identities=18% Similarity=0.187 Sum_probs=21.0
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHH
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAK 44 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai 44 (190)
|..+|.+.| .|..+.+... ....+...+.+.+.+.|.+++
T Consensus 15 i~~~l~~~~inI~~~~~~~~---~~~~~~~~~~v~~~~~a~~~l 55 (56)
T cd04889 15 VTEILAEAGINIKAISIAET---RGEFGILRLIFSDPERAKEVL 55 (56)
T ss_pred HHHHHHHcCCCEeeEEEEEc---cCCcEEEEEEECCHHHHHHHh
Confidence 345566655 5666654432 123456666666655555443
No 266
>COG2088 SpoVG Uncharacterized protein, involved in the regulation of septum location [Cell envelope biogenesis, outer membrane]
Probab=21.72 E-value=1.2e+02 Score=20.50 Aligned_cols=26 Identities=19% Similarity=0.230 Sum_probs=20.8
Q ss_pred CeEEEEEccCCCCCCcceEEEEEEcC
Q 036035 11 PVKDVYLPKNYYTGEPRGFGFVKFRY 36 (190)
Q Consensus 11 ~I~~v~i~~~~~t~~~~G~afV~f~~ 36 (190)
+|++|.|.+-...|..+.|+-|+|.+
T Consensus 2 ~iTdVRirkv~~dgrmkA~vsvT~D~ 27 (95)
T COG2088 2 EITDVRIRKVDTDGRMKAYVSVTLDN 27 (95)
T ss_pred cceeEEEEEecCCCcEEEEEEEEecc
Confidence 57888887766678888899898876
No 267
>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=21.53 E-value=2.3e+02 Score=17.95 Aligned_cols=49 Identities=18% Similarity=0.129 Sum_probs=24.6
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEE
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLNHSLIGGREIKI 59 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V 59 (190)
|.+.++..|+|.......+ .+. |...+...+...+..|. +.|+..+|.+
T Consensus 16 L~eELgnLG~v~~~~~~~~-------~l~-~~L~T~~s~DDI~AV~C-FVid~dQI~i 64 (65)
T PF09078_consen 16 LLEELGNLGTVSDQEKGGD-------SLE-VWLETSVSADDIIAVCC-FVIDPDQISI 64 (65)
T ss_dssp HHHHHHHHS--EEEEEESS-------EEE-EEE-STSSHHHHHHHHT-TTS-GGGEEE
T ss_pred HHHHHhcCccEEEEecCCC-------eEE-EEECCCCChhhEEEEEE-EEEcHHHeEE
Confidence 5677888999988755433 233 44444444444444332 4566555554
No 268
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=21.48 E-value=97 Score=24.05 Aligned_cols=25 Identities=32% Similarity=0.292 Sum_probs=17.4
Q ss_pred CCcceEEEEEEcCHHHHHHHHHHhC
Q 036035 24 GEPRGFGFVKFRYAEDAAEAKQRLN 48 (190)
Q Consensus 24 ~~~~G~afV~f~~~~~a~~Ai~~l~ 48 (190)
|...|-+.+...+.++|..||..|-
T Consensus 47 Gla~GKGV~i~~~~~eA~~~l~~~~ 71 (194)
T PF01071_consen 47 GLAAGKGVVIADDREEALEALREIF 71 (194)
T ss_dssp SSCTTTSEEEESSHHHHHHHHHHHH
T ss_pred CCCCCCEEEEeCCHHHHHHHHHHhc
Confidence 3444455666688999999998663
No 269
>cd04917 ACT_AKiii-LysC-EC_2 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. The E. coli AKIII (LysC) binds two feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The second ACT domain (ACT2), this CD, is not involved in the binding of heterotrophic effectors. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.27 E-value=1e+02 Score=18.54 Aligned_cols=15 Identities=40% Similarity=0.439 Sum_probs=11.0
Q ss_pred CHHHHHHHHHHhCCC
Q 036035 36 YAEDAAEAKQRLNHS 50 (190)
Q Consensus 36 ~~~~a~~Ai~~l~g~ 50 (190)
+.++++.|+..|+..
T Consensus 47 ~~~~~~~a~~~Lh~~ 61 (64)
T cd04917 47 KEEDKDEVVQRLHSR 61 (64)
T ss_pred eHHHHHHHHHHHHHH
Confidence 457788888887754
No 270
>PHA03075 glutaredoxin-like protein; Provisional
Probab=21.26 E-value=1.7e+02 Score=20.90 Aligned_cols=7 Identities=29% Similarity=0.657 Sum_probs=4.0
Q ss_pred EEEEEEc
Q 036035 29 FGFVKFR 35 (190)
Q Consensus 29 ~afV~f~ 35 (190)
.|||.|.
T Consensus 83 mA~V~i~ 89 (123)
T PHA03075 83 MAFVDIS 89 (123)
T ss_pred EEEEehh
Confidence 5666553
No 271
>PF09162 Tap-RNA_bind: Tap, RNA-binding; InterPro: IPR015245 This domain adopts a structure consisting of an alpha+beta sandwich with an antiparallel beta-sheet, arranged in a 2(beta-alpha-beta) motif. It is mainly found in mRNA export factors, which mediate the sequence nonspecific nuclear export of cellular mRNAs as well as the sequence-specific export of retroviral mRNAs bearing the constitutive transport element []. ; GO: 0003723 RNA binding, 0006406 mRNA export from nucleus, 0005634 nucleus, 0005737 cytoplasm; PDB: 1FT8_A 1KOH_C 1KOO_C 3RW6_B 3RW7_C 1FO1_A.
Probab=21.17 E-value=1.6e+02 Score=19.75 Aligned_cols=33 Identities=18% Similarity=0.173 Sum_probs=21.1
Q ss_pred EEEEEcCHHHHHHHHHHhCCCee--CCeEEEEEEc
Q 036035 30 GFVKFRYAEDAAEAKQRLNHSLI--GGREIKIVFA 62 (190)
Q Consensus 30 afV~f~~~~~a~~Ai~~l~g~~l--~g~~i~V~~a 62 (190)
.++-|.+-.++..||+.++.+.. +|.+|.|-+.
T Consensus 46 ~a~FfV~D~~tA~aLk~vsrkI~~~dg~Ki~I~V~ 80 (88)
T PF09162_consen 46 RAQFFVEDASTASALKDVSRKICDEDGFKISIFVN 80 (88)
T ss_dssp EEEEEESSHHHHHHHHTTTTTEEBTTSBEE--EEE
T ss_pred EEEEEeCCHHHHHHHHHCCCceECCCCCEEEEEEc
Confidence 45556566777888988877655 4778766554
No 272
>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=21.13 E-value=2.4e+02 Score=18.00 Aligned_cols=46 Identities=17% Similarity=0.068 Sum_probs=25.3
Q ss_pred HHHHhhcCC-CeEEEEEccCCCCCC-cceEEEEEEcC-HHHHHHHHHHhCC
Q 036035 2 LRVAFERYG-PVKDVYLPKNYYTGE-PRGFGFVKFRY-AEDAAEAKQRLNH 49 (190)
Q Consensus 2 L~~~F~~~G-~I~~v~i~~~~~t~~-~~G~afV~f~~-~~~a~~Ai~~l~g 49 (190)
+...|..+| .|+.|. .-+..+. ..=+-||+++- .+.++.||..|..
T Consensus 17 iL~~f~~~~inl~~Ie--SRP~~~~~~~y~F~id~e~~~~~i~~~l~~l~~ 65 (74)
T cd04929 17 ALKLFQELGINVVHIE--SRKSKRRSSEFEIFVDCECDQRRLDELVQLLKR 65 (74)
T ss_pred HHHHHHHCCCCEEEEE--eccCCCCCceEEEEEEEEcCHHHHHHHHHHHHH
Confidence 567888887 444443 2221111 22245677763 4467777777654
No 273
>PF13575 DUF4135: Domain of unknown function (DUF4135)
Probab=21.12 E-value=91 Score=26.47 Aligned_cols=13 Identities=31% Similarity=0.670 Sum_probs=9.4
Q ss_pred eEEEEEEcCHHHH
Q 036035 28 GFGFVKFRYAEDA 40 (190)
Q Consensus 28 G~afV~f~~~~~a 40 (190)
|||++||...+++
T Consensus 115 ~YgW~EfI~~~~c 127 (370)
T PF13575_consen 115 GYGWQEFIEHEPC 127 (370)
T ss_pred cceeEEEecCCCC
Confidence 6999999655444
No 274
>PF08796 DUF1797: Protein of unknown function (DUF1797); InterPro: IPR014904 The function of this protein is unknown. It forms a central anti-parallel beta sheet with flanking alpha helical regions. ; PDB: 2FFG_B.
Probab=21.07 E-value=95 Score=19.79 Aligned_cols=28 Identities=25% Similarity=0.361 Sum_probs=16.4
Q ss_pred HhhcCCCeEEEEEccCCCCCCcceEEEEEEcC
Q 036035 5 AFERYGPVKDVYLPKNYYTGEPRGFGFVKFRY 36 (190)
Q Consensus 5 ~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~ 36 (190)
.|+++| +..|.|..++.++ -|.+-+|..
T Consensus 20 ~FE~~G-~~~c~V~y~~~t~---~F~l~~~~~ 47 (67)
T PF08796_consen 20 RFEKEG-VEVCTVTYDQETE---TFELEEYRQ 47 (67)
T ss_dssp EEEETT-EEEEEEEEETTTT---EEEEEEEET
T ss_pred EeecCC-EEEEEEEEECCCC---eEEEEEecC
Confidence 478888 3345566665443 466665543
No 275
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=21.07 E-value=2.3e+02 Score=17.78 Aligned_cols=29 Identities=24% Similarity=0.277 Sum_probs=19.9
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRY 36 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~ 36 (190)
|+..+.....|..+.+-.. .+-++|+|.+
T Consensus 20 V~~al~~v~gv~~v~v~l~------~~~~~V~~d~ 48 (71)
T COG2608 20 VEKALEEVDGVASVDVDLE------KGTATVTFDS 48 (71)
T ss_pred HHHHHhcCCCeeEEEEEcc------cCeEEEEEcC
Confidence 4455666666777777665 4568999987
No 276
>PF01133 ER: Enhancer of rudimentary; InterPro: IPR000781 The Drosophila protein 'enhancer of rudimentary' (gene (e(r)) is a small protein of 104 residues whose function is not yet clear. From an evolutionary point of view, it is highly conserved [] and has been found to exist in probably all multicellular eukaryotic organisms. It has been proposed that this protein plays a role in the cell cycle.; GO: 0007049 cell cycle; PDB: 1W9G_A 2NML_A 1WWQ_A 1WZ7_B.
Probab=20.89 E-value=2.4e+02 Score=19.54 Aligned_cols=26 Identities=8% Similarity=0.249 Sum_probs=19.8
Q ss_pred CCcceEEEEEEcCHHHHHHHHHHhCC
Q 036035 24 GEPRGFGFVKFRYAEDAAEAKQRLNH 49 (190)
Q Consensus 24 ~~~~G~afV~f~~~~~a~~Ai~~l~g 49 (190)
.....-.|.+|++..+|..+|..|-.
T Consensus 12 ~~~~sRTy~DyeSv~~cmegIC~~YE 37 (102)
T PF01133_consen 12 QRPESRTYSDYESVNECMEGICKIYE 37 (102)
T ss_dssp SSCCC-EEEEESSHHHHHHHHHHHHH
T ss_pred CCCCcceeechhhHHHHHHHHHHHHH
Confidence 34566789999999999998876644
No 277
>PF05336 DUF718: Domain of unknown function (DUF718); InterPro: IPR008000 Mutarotases are enzymes which interconvert the alpha and beta stereoisomers of monosaccharides, enhancing the rate of their metabolism. Proteins in this entry are homologues of the rhamnose mutarotase YiiL (P32156 from SWISSPROT) from Escherichia coli, and are often encoded in rhamnose utilisation operons. YiiL is an enzyme which interconverts the alpha and beta stereoisomers of the pyranose form of L-rhamnose []. It is not required for growth on rhamnose, but allows cells to utilise this carbon source more efficiently [].The structure of YiiL is distinct from other mutarotases, forming an asymmetric dimmer stabilised by an intermolecular beta-sheet, hydrophobic interactions and a salt bridge [].; GO: 0016857 racemase and epimerase activity, acting on carbohydrates and derivatives, 0019299 rhamnose metabolic process, 0005737 cytoplasm; PDB: 2QLX_A 2QLW_B 1X8D_B.
Probab=20.63 E-value=1.5e+02 Score=20.33 Aligned_cols=32 Identities=16% Similarity=0.197 Sum_probs=20.4
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEEcC
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKFRY 36 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f~~ 36 (190)
|.+.+...| |.+..|..+..+ ..=|+++++.+
T Consensus 28 v~~~l~~~G-i~~ysIf~~g~~--~~LF~~~E~~~ 59 (106)
T PF05336_consen 28 VLAALREAG-IRNYSIFRDGDT--GRLFMYMETDD 59 (106)
T ss_dssp HHHHHHHCT-EEEEEEEEETTT--TEEEEEEEECT
T ss_pred HHHHHHHCC-CeEEEEEEeCCC--CEEEEEEEecC
Confidence 556666777 666666665322 24588888887
No 278
>PF13689 DUF4154: Domain of unknown function (DUF4154)
Probab=20.38 E-value=2.1e+02 Score=20.63 Aligned_cols=34 Identities=26% Similarity=0.294 Sum_probs=25.5
Q ss_pred eEEEEEEcCHHHHHHHHHHhCCCeeCCeEEEEEEc
Q 036035 28 GFGFVKFRYAEDAAEAKQRLNHSLIGGREIKIVFA 62 (190)
Q Consensus 28 G~afV~f~~~~~a~~Ai~~l~g~~l~g~~i~V~~a 62 (190)
.|-+..+.+.. ...+|..|.+..+.|+.|.|..-
T Consensus 27 ~~~icv~g~~~-~~~~L~~l~~~~~~~~~i~v~~~ 60 (145)
T PF13689_consen 27 PFRICVLGDDP-FAEALSTLAGKQVGGRPIRVRRL 60 (145)
T ss_pred CeEEEEECChH-HHHHHHHhhhcccCCCcEEEEEC
Confidence 36666665533 66688889999999999998754
No 279
>PHA01782 hypothetical protein
Probab=20.36 E-value=86 Score=23.69 Aligned_cols=30 Identities=20% Similarity=0.339 Sum_probs=17.8
Q ss_pred HHHHhhcCCCeEEEEEccCCCCCCcceEEEEEE
Q 036035 2 LRVAFERYGPVKDVYLPKNYYTGEPRGFGFVKF 34 (190)
Q Consensus 2 L~~~F~~~G~I~~v~i~~~~~t~~~~G~afV~f 34 (190)
|.+.|..||+|. +..|+.+.+-.-|.|-.|
T Consensus 72 L~~wlv~~Gkv~---vntDkk~aKefpf~~nK~ 101 (177)
T PHA01782 72 LAEWLVKFGKVQ---VNTDKKSAKEFPFVYNKF 101 (177)
T ss_pred HHHHHHHhCCcc---ccccccccccCceeeccc
Confidence 667899999886 344444433333444444
No 280
>TIGR01743 purR_Bsub pur operon repressor, Bacillus subtilis type. This model represents the puring operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.
Probab=20.04 E-value=2.5e+02 Score=23.01 Aligned_cols=40 Identities=23% Similarity=0.441 Sum_probs=27.3
Q ss_pred HHHHhhcCC--CeEEEEEccCCCCCCcceEEEEEEcCHHHHHHHHHHhC
Q 036035 2 LRVAFERYG--PVKDVYLPKNYYTGEPRGFGFVKFRYAEDAAEAKQRLN 48 (190)
Q Consensus 2 L~~~F~~~G--~I~~v~i~~~~~t~~~~G~afV~f~~~~~a~~Ai~~l~ 48 (190)
|++.|+++| .|+.+ .|..-|.-||-+...++|+..+..|.
T Consensus 45 ~~~~~~~~~~g~~~t~-------~ga~ggv~~~p~~~~~~~~~~~~~l~ 86 (268)
T TIGR01743 45 IKETFEKFGIGKLLTV-------PGAAGGVKYIPKMSQAEAEEFVEELC 86 (268)
T ss_pred HHHHHHhcCCceEEEe-------CCCCCCeEEEeCCCHHHHHHHHHHHH
Confidence 567788765 44332 35556788888888888887776553
Done!