Query 023559
Match_columns 280
No_of_seqs 427 out of 2387
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 04:58:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023559.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023559hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03134 glycine-rich RNA-bind 99.9 1.1E-21 2.4E-26 162.9 15.6 86 4-89 32-117 (144)
2 KOG0107 Alternative splicing f 99.8 6.7E-19 1.4E-23 147.2 11.2 110 5-135 9-118 (195)
3 TIGR01659 sex-lethal sex-letha 99.8 5.1E-18 1.1E-22 159.5 14.8 84 5-88 192-277 (346)
4 TIGR01659 sex-lethal sex-letha 99.8 4.5E-18 9.7E-23 159.9 11.2 85 3-87 104-188 (346)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 2E-17 4.4E-22 154.6 12.6 82 7-88 270-351 (352)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 1.8E-17 3.9E-22 155.0 11.5 84 5-88 2-85 (352)
7 KOG0121 Nuclear cap-binding pr 99.7 1.3E-17 2.9E-22 133.1 7.6 85 4-88 34-118 (153)
8 KOG0122 Translation initiation 99.7 4.1E-17 9E-22 142.8 9.6 83 4-86 187-269 (270)
9 PF00076 RRM_1: RNA recognitio 99.7 8.4E-17 1.8E-21 115.3 9.6 70 9-79 1-70 (70)
10 KOG0113 U1 small nuclear ribon 99.7 3.9E-16 8.5E-21 140.0 11.2 91 3-93 98-188 (335)
11 KOG0149 Predicted RNA-binding 99.6 3.6E-16 7.7E-21 136.4 7.4 79 5-84 11-89 (247)
12 KOG0105 Alternative splicing f 99.6 1.4E-15 3.1E-20 128.5 10.2 83 1-86 1-83 (241)
13 KOG0109 RNA-binding protein LA 99.6 4.7E-16 1E-20 139.2 7.3 108 4-140 76-183 (346)
14 PF14259 RRM_6: RNA recognitio 99.6 3.6E-15 7.8E-20 107.7 9.3 70 9-79 1-70 (70)
15 TIGR01648 hnRNP-R-Q heterogene 99.6 4.8E-14 1E-18 139.8 19.3 77 5-89 232-310 (578)
16 KOG0130 RNA-binding protein RB 99.6 1.3E-15 2.8E-20 122.7 6.3 84 5-88 71-154 (170)
17 TIGR01645 half-pint poly-U bin 99.6 5.3E-15 1.1E-19 147.0 11.8 85 5-89 203-287 (612)
18 TIGR01642 U2AF_lg U2 snRNP aux 99.6 7.6E-15 1.6E-19 143.9 12.6 83 5-87 294-376 (509)
19 PLN03120 nucleic acid binding 99.6 8.5E-15 1.8E-19 131.1 11.0 77 5-85 3-79 (260)
20 KOG4207 Predicted splicing fac 99.6 2E-15 4.2E-20 129.6 6.5 81 5-85 12-92 (256)
21 TIGR01622 SF-CC1 splicing fact 99.6 8.6E-15 1.9E-19 141.8 11.3 80 6-85 186-265 (457)
22 TIGR01622 SF-CC1 splicing fact 99.6 8.9E-15 1.9E-19 141.7 11.3 83 3-86 86-168 (457)
23 TIGR01645 half-pint poly-U bin 99.6 8.6E-15 1.9E-19 145.5 10.7 80 5-84 106-185 (612)
24 smart00362 RRM_2 RNA recogniti 99.6 2.4E-14 5.3E-19 101.1 9.7 72 8-81 1-72 (72)
25 KOG0111 Cyclophilin-type pepti 99.6 2.6E-15 5.5E-20 130.0 5.4 88 3-90 7-94 (298)
26 TIGR01628 PABP-1234 polyadenyl 99.6 1.3E-14 2.8E-19 144.4 11.2 78 8-85 2-79 (562)
27 PLN03213 repressor of silencin 99.6 1.1E-14 2.4E-19 138.2 9.9 78 4-85 8-87 (759)
28 KOG0125 Ataxin 2-binding prote 99.6 8.5E-15 1.8E-19 133.0 8.7 82 4-87 94-175 (376)
29 TIGR01648 hnRNP-R-Q heterogene 99.6 1.2E-14 2.7E-19 144.0 10.5 78 5-83 57-135 (578)
30 TIGR01628 PABP-1234 polyadenyl 99.6 2.1E-14 4.5E-19 142.9 11.5 84 4-88 283-366 (562)
31 COG0724 RNA-binding proteins ( 99.5 3.5E-14 7.6E-19 124.2 10.5 80 6-85 115-194 (306)
32 smart00360 RRM RNA recognition 99.5 4.3E-14 9.4E-19 99.4 8.9 71 11-81 1-71 (71)
33 KOG0117 Heterogeneous nuclear 99.5 3.3E-14 7.2E-19 133.5 9.3 79 6-84 83-162 (506)
34 KOG0131 Splicing factor 3b, su 99.5 3E-14 6.5E-19 120.1 7.3 82 3-84 6-87 (203)
35 PLN03121 nucleic acid binding 99.5 9.2E-14 2E-18 122.8 10.7 76 5-84 4-79 (243)
36 cd00590 RRM RRM (RNA recogniti 99.5 1.8E-13 4E-18 97.1 10.3 74 8-82 1-74 (74)
37 KOG0117 Heterogeneous nuclear 99.5 2.9E-14 6.3E-19 133.9 7.6 79 5-91 258-336 (506)
38 KOG0126 Predicted RNA-binding 99.5 4E-15 8.7E-20 125.4 0.5 80 4-83 33-112 (219)
39 KOG0148 Apoptosis-promoting RN 99.5 5.1E-14 1.1E-18 125.2 7.4 81 7-87 63-143 (321)
40 KOG0145 RNA-binding protein EL 99.5 9.2E-14 2E-18 123.0 8.8 85 4-88 39-123 (360)
41 KOG0148 Apoptosis-promoting RN 99.5 1.2E-13 2.6E-18 122.8 9.4 82 2-89 160-241 (321)
42 KOG0114 Predicted RNA-binding 99.5 2.4E-13 5.2E-18 105.1 8.9 84 1-87 13-96 (124)
43 KOG0144 RNA-binding protein CU 99.5 6.1E-14 1.3E-18 131.3 5.9 86 5-91 123-211 (510)
44 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 3.7E-13 8.1E-18 131.9 11.4 79 4-87 273-352 (481)
45 KOG0144 RNA-binding protein CU 99.5 1.5E-13 3.2E-18 128.8 7.7 87 3-89 31-120 (510)
46 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 3.9E-13 8.4E-18 131.8 10.8 77 5-87 1-79 (481)
47 KOG0415 Predicted peptidyl pro 99.4 1.5E-13 3.2E-18 126.1 6.9 85 3-87 236-320 (479)
48 KOG0108 mRNA cleavage and poly 99.4 3.7E-13 7.9E-18 129.2 8.7 83 7-89 19-101 (435)
49 KOG0127 Nucleolar protein fibr 99.4 9.2E-13 2E-17 126.5 9.1 83 6-88 292-380 (678)
50 KOG0109 RNA-binding protein LA 99.4 5.7E-13 1.2E-17 119.6 6.6 73 7-87 3-75 (346)
51 KOG4212 RNA-binding protein hn 99.4 1.4E-12 3.1E-17 122.4 8.8 80 4-84 42-122 (608)
52 KOG0146 RNA-binding protein ET 99.4 5.9E-13 1.3E-17 118.3 5.9 87 3-89 282-368 (371)
53 KOG0145 RNA-binding protein EL 99.4 2.8E-12 6E-17 113.7 9.8 81 6-86 278-358 (360)
54 smart00361 RRM_1 RNA recogniti 99.4 3.8E-12 8.2E-17 92.7 8.4 62 20-81 2-70 (70)
55 KOG0127 Nucleolar protein fibr 99.4 2E-12 4.4E-17 124.1 9.0 84 5-89 116-199 (678)
56 PF13893 RRM_5: RNA recognitio 99.3 6.7E-12 1.4E-16 87.1 8.3 56 23-83 1-56 (56)
57 KOG0131 Splicing factor 3b, su 99.3 4.4E-12 9.5E-17 107.1 6.0 84 6-89 96-180 (203)
58 KOG0124 Polypyrimidine tract-b 99.3 2.5E-12 5.4E-17 118.5 4.6 78 6-83 113-190 (544)
59 KOG1995 Conserved Zn-finger pr 99.3 3.6E-10 7.9E-15 104.3 18.1 85 4-88 64-156 (351)
60 KOG0147 Transcriptional coacti 99.3 7.6E-12 1.6E-16 120.4 6.4 80 8-87 280-359 (549)
61 TIGR01642 U2AF_lg U2 snRNP aux 99.2 1.9E-11 4.1E-16 119.9 9.0 74 3-83 172-257 (509)
62 KOG4205 RNA-binding protein mu 99.2 1.1E-11 2.3E-16 114.6 5.8 88 1-89 1-88 (311)
63 KOG0116 RasGAP SH3 binding pro 99.2 1.5E-10 3.3E-15 110.7 12.4 84 6-90 288-371 (419)
64 KOG0123 Polyadenylate-binding 99.2 5.8E-11 1.3E-15 112.6 9.2 84 4-90 74-157 (369)
65 KOG4206 Spliceosomal protein s 99.2 1.1E-10 2.5E-15 101.6 8.6 82 3-87 6-91 (221)
66 KOG4205 RNA-binding protein mu 99.1 6.8E-11 1.5E-15 109.3 6.1 86 6-92 97-182 (311)
67 KOG0132 RNA polymerase II C-te 99.1 1.3E-10 2.8E-15 115.6 8.3 79 6-90 421-499 (894)
68 KOG4661 Hsp27-ERE-TATA-binding 99.1 1.9E-10 4.2E-15 111.1 8.4 80 6-85 405-484 (940)
69 KOG4212 RNA-binding protein hn 99.1 2E-10 4.3E-15 108.2 7.4 76 3-83 533-608 (608)
70 KOG4208 Nucleolar RNA-binding 99.1 3.9E-10 8.4E-15 97.1 8.4 82 5-86 48-130 (214)
71 KOG0146 RNA-binding protein ET 99.1 1.3E-10 2.9E-15 103.4 5.5 84 5-89 18-104 (371)
72 KOG0153 Predicted RNA-binding 99.1 4.7E-10 1E-14 103.0 8.5 79 3-87 225-304 (377)
73 KOG0533 RRM motif-containing p 99.0 7.1E-10 1.5E-14 99.0 8.9 83 4-87 81-163 (243)
74 KOG0110 RNA-binding protein (R 99.0 5.9E-10 1.3E-14 110.2 8.8 78 7-84 516-596 (725)
75 KOG0124 Polypyrimidine tract-b 99.0 8.2E-10 1.8E-14 102.1 6.7 81 4-84 208-288 (544)
76 KOG1548 Transcription elongati 99.0 1.8E-09 4E-14 99.1 8.7 83 2-85 130-220 (382)
77 KOG0123 Polyadenylate-binding 99.0 1.7E-09 3.7E-14 102.7 8.4 75 7-87 2-76 (369)
78 KOG0110 RNA-binding protein (R 98.9 7.3E-10 1.6E-14 109.5 5.0 81 6-86 613-693 (725)
79 KOG4454 RNA binding protein (R 98.9 3.2E-10 6.8E-15 98.5 2.2 80 3-84 6-85 (267)
80 KOG4209 Splicing factor RNPS1, 98.9 2.4E-09 5.2E-14 95.4 6.5 83 3-86 98-180 (231)
81 KOG0106 Alternative splicing f 98.9 2E-09 4.3E-14 94.4 5.4 74 7-88 2-75 (216)
82 KOG1457 RNA binding protein (c 98.9 1.6E-08 3.5E-13 88.2 10.1 85 6-90 34-122 (284)
83 PF04059 RRM_2: RNA recognitio 98.8 3.4E-08 7.5E-13 76.5 9.3 80 7-86 2-87 (97)
84 KOG4211 Splicing factor hnRNP- 98.7 3.3E-08 7.1E-13 94.6 8.7 79 5-87 9-87 (510)
85 KOG4660 Protein Mei2, essentia 98.7 1.6E-08 3.5E-13 97.9 3.9 72 3-79 72-143 (549)
86 KOG0226 RNA-binding proteins [ 98.6 2.1E-08 4.5E-13 89.0 3.9 83 4-86 188-270 (290)
87 KOG0151 Predicted splicing reg 98.6 1.1E-07 2.3E-12 94.4 6.8 82 4-85 172-256 (877)
88 KOG0106 Alternative splicing f 98.5 7.7E-08 1.7E-12 84.5 3.1 72 3-82 96-167 (216)
89 KOG0120 Splicing factor U2AF, 98.4 1.9E-07 4.1E-12 90.9 4.4 83 5-87 288-370 (500)
90 KOG4211 Splicing factor hnRNP- 98.4 5.8E-07 1.3E-11 86.2 7.5 78 5-84 102-180 (510)
91 KOG1190 Polypyrimidine tract-b 98.4 1.3E-06 2.7E-11 82.3 9.3 75 6-85 297-372 (492)
92 KOG0147 Transcriptional coacti 98.4 1.1E-07 2.3E-12 92.2 1.6 83 3-86 176-258 (549)
93 KOG4206 Spliceosomal protein s 98.3 1.7E-06 3.7E-11 75.7 8.1 77 3-84 143-220 (221)
94 PF08777 RRM_3: RNA binding mo 98.3 1.2E-06 2.7E-11 68.9 6.1 70 7-82 2-76 (105)
95 KOG4210 Nuclear localization s 98.3 6.2E-07 1.3E-11 82.5 4.9 85 4-89 182-267 (285)
96 KOG1457 RNA binding protein (c 98.3 9.2E-07 2E-11 77.4 4.4 64 6-73 210-273 (284)
97 KOG4849 mRNA cleavage factor I 98.2 1E-06 2.2E-11 81.4 3.9 76 6-81 80-157 (498)
98 PF11608 Limkain-b1: Limkain b 98.2 7.5E-06 1.6E-10 61.4 7.5 70 7-86 3-77 (90)
99 KOG2314 Translation initiation 98.0 2.1E-05 4.5E-10 76.8 8.7 78 5-83 57-141 (698)
100 COG5175 MOT2 Transcriptional r 98.0 1.4E-05 3E-10 73.8 6.9 82 5-86 113-203 (480)
101 KOG1855 Predicted RNA-binding 98.0 5.4E-06 1.2E-10 78.5 3.9 70 3-72 228-310 (484)
102 PF14605 Nup35_RRM_2: Nup53/35 98.0 1.9E-05 4E-10 54.5 5.5 53 6-65 1-53 (53)
103 KOG4307 RNA binding protein RB 97.9 3.1E-05 6.6E-10 77.3 8.1 76 7-82 868-943 (944)
104 KOG0105 Alternative splicing f 97.8 0.00012 2.6E-09 62.6 9.1 64 4-74 113-176 (241)
105 PF05172 Nup35_RRM: Nup53/35/4 97.8 0.00012 2.7E-09 57.0 7.6 80 3-84 3-90 (100)
106 KOG1456 Heterogeneous nuclear 97.8 0.00012 2.7E-09 68.5 8.8 79 4-87 285-364 (494)
107 KOG1190 Polypyrimidine tract-b 97.7 6.7E-05 1.5E-09 70.9 6.7 77 5-85 413-490 (492)
108 KOG1456 Heterogeneous nuclear 97.7 0.00013 2.9E-09 68.2 8.5 80 4-88 118-201 (494)
109 PF08952 DUF1866: Domain of un 97.7 0.00016 3.5E-09 59.8 7.3 74 4-86 25-107 (146)
110 KOG0129 Predicted RNA-binding 97.7 0.00015 3.3E-09 70.3 8.0 63 6-69 259-327 (520)
111 KOG1365 RNA-binding protein Fu 97.6 9.7E-05 2.1E-09 69.3 5.9 80 4-84 278-360 (508)
112 KOG4676 Splicing factor, argin 97.6 9E-05 2E-09 69.7 5.6 78 5-83 6-86 (479)
113 KOG0129 Predicted RNA-binding 97.6 0.00017 3.6E-09 70.0 7.6 64 4-67 368-432 (520)
114 KOG0120 Splicing factor U2AF, 97.5 0.00029 6.3E-09 69.0 7.5 63 23-85 426-491 (500)
115 KOG2416 Acinus (induces apopto 97.5 7.3E-05 1.6E-09 73.5 3.3 75 4-84 442-520 (718)
116 KOG0128 RNA-binding protein SA 97.5 4.8E-05 1E-09 77.4 1.6 83 6-89 736-818 (881)
117 KOG3152 TBP-binding protein, a 97.4 0.00012 2.7E-09 65.3 3.8 73 5-77 73-157 (278)
118 KOG2202 U2 snRNP splicing fact 97.4 8E-05 1.7E-09 66.5 2.4 64 22-86 84-148 (260)
119 KOG1548 Transcription elongati 97.4 0.00064 1.4E-08 63.2 7.9 78 4-85 263-351 (382)
120 PF10309 DUF2414: Protein of u 97.2 0.0018 3.9E-08 46.0 6.9 56 5-68 4-62 (62)
121 KOG0128 RNA-binding protein SA 97.1 3.3E-05 7.2E-10 78.5 -4.2 69 6-74 667-735 (881)
122 KOG4307 RNA binding protein RB 97.0 0.00047 1E-08 69.0 3.3 78 5-83 433-511 (944)
123 KOG0112 Large RNA-binding prot 97.0 0.00092 2E-08 68.7 5.3 78 3-86 452-531 (975)
124 PF08675 RNA_bind: RNA binding 96.9 0.0033 7.1E-08 47.2 6.5 55 6-69 9-63 (87)
125 KOG1365 RNA-binding protein Fu 96.9 0.00069 1.5E-08 63.8 3.4 74 5-80 160-237 (508)
126 KOG2193 IGF-II mRNA-binding pr 96.9 0.00077 1.7E-08 64.2 3.5 75 7-88 2-78 (584)
127 PF03467 Smg4_UPF3: Smg-4/UPF3 96.8 0.0023 5E-08 54.9 5.5 82 3-84 4-96 (176)
128 KOG0112 Large RNA-binding prot 96.8 0.00032 6.9E-09 71.9 -0.0 80 5-85 371-450 (975)
129 KOG1996 mRNA splicing factor [ 96.8 0.0044 9.6E-08 56.6 7.1 64 21-84 301-365 (378)
130 PF03880 DbpA: DbpA RNA bindin 96.4 0.018 3.9E-07 42.1 7.3 67 8-83 2-74 (74)
131 KOG2135 Proteins containing th 96.4 0.0017 3.7E-08 62.5 2.2 76 5-87 371-447 (526)
132 KOG2068 MOT2 transcription fac 96.4 0.001 2.3E-08 61.6 0.6 82 6-87 77-164 (327)
133 KOG0115 RNA-binding protein p5 96.3 0.005 1.1E-07 55.2 4.1 77 7-84 32-112 (275)
134 KOG2591 c-Mpl binding protein, 96.2 0.008 1.7E-07 59.1 5.4 70 4-80 173-246 (684)
135 PF07576 BRAP2: BRCA1-associat 95.9 0.062 1.3E-06 42.6 8.6 67 7-75 14-81 (110)
136 PF15023 DUF4523: Protein of u 95.8 0.069 1.5E-06 44.2 8.4 75 3-85 83-161 (166)
137 KOG2253 U1 snRNP complex, subu 95.8 0.0055 1.2E-07 61.3 2.3 71 4-83 38-108 (668)
138 KOG4574 RNA-binding protein (c 95.8 0.0061 1.3E-07 62.5 2.6 74 8-87 300-375 (1007)
139 PF04847 Calcipressin: Calcipr 95.7 0.037 8.1E-07 47.8 6.8 62 19-86 8-71 (184)
140 KOG4660 Protein Mei2, essentia 95.5 0.024 5.1E-07 55.8 5.4 80 6-85 388-472 (549)
141 KOG4210 Nuclear localization s 95.4 0.0072 1.6E-07 55.7 1.8 82 6-87 88-169 (285)
142 KOG3973 Uncharacterized conser 95.3 0.56 1.2E-05 44.1 13.4 13 178-190 397-409 (465)
143 PRK11634 ATP-dependent RNA hel 95.0 0.41 8.9E-06 48.9 13.0 62 16-86 497-563 (629)
144 KOG4285 Mitotic phosphoprotein 94.8 0.11 2.4E-06 47.8 7.4 71 6-84 197-268 (350)
145 PF11767 SET_assoc: Histone ly 94.2 0.26 5.7E-06 35.4 6.8 55 17-80 11-65 (66)
146 KOG0804 Cytoplasmic Zn-finger 93.8 0.19 4.1E-06 48.6 6.9 68 6-75 74-142 (493)
147 KOG2318 Uncharacterized conser 93.3 0.38 8.2E-06 47.9 8.3 81 3-83 171-303 (650)
148 KOG2193 IGF-II mRNA-binding pr 90.7 0.011 2.4E-07 56.5 -5.5 75 6-84 80-155 (584)
149 PF07530 PRE_C2HC: Associated 89.4 0.96 2.1E-05 32.6 5.0 63 21-86 2-65 (68)
150 smart00596 PRE_C2HC PRE_C2HC d 88.5 1.1 2.3E-05 32.6 4.5 63 21-86 2-65 (69)
151 KOG4676 Splicing factor, argin 88.3 0.071 1.5E-06 50.6 -2.0 74 7-85 152-225 (479)
152 KOG4019 Calcineurin-mediated s 88.3 0.45 9.7E-06 40.9 3.0 76 6-87 10-91 (193)
153 KOG4483 Uncharacterized conser 87.6 1.3 2.9E-05 42.4 6.0 56 5-67 390-446 (528)
154 PF00098 zf-CCHC: Zinc knuckle 87.0 0.47 1E-05 25.2 1.5 16 119-134 2-17 (18)
155 COG0724 RNA-binding proteins ( 84.2 1.1 2.5E-05 38.4 3.6 62 4-65 223-284 (306)
156 PRK10629 EnvZ/OmpR regulon mod 82.5 11 0.00024 30.6 8.4 72 5-84 34-109 (127)
157 PF00403 HMA: Heavy-metal-asso 81.1 12 0.00025 25.5 7.1 54 8-67 1-58 (62)
158 KOG2295 C2H2 Zn-finger protein 80.4 0.25 5.5E-06 48.9 -2.2 69 5-73 230-298 (648)
159 PF03468 XS: XS domain; Inter 80.2 3.8 8.3E-05 32.7 4.9 56 7-65 9-74 (116)
160 KOG4410 5-formyltetrahydrofola 79.2 5.4 0.00012 36.8 6.0 48 6-59 330-378 (396)
161 PF10567 Nab6_mRNP_bdg: RNA-re 79.2 4.4 9.6E-05 37.4 5.5 79 6-84 15-106 (309)
162 KOG4365 Uncharacterized conser 78.6 0.35 7.6E-06 46.7 -1.8 79 6-85 3-81 (572)
163 COG5638 Uncharacterized conser 75.9 7.4 0.00016 37.6 6.2 36 3-38 143-183 (622)
164 KOG4454 RNA binding protein (R 71.7 0.83 1.8E-05 40.5 -1.1 67 5-72 79-149 (267)
165 KOG4008 rRNA processing protei 66.9 3.9 8.5E-05 36.6 2.0 33 4-36 38-70 (261)
166 PF02714 DUF221: Domain of unk 66.6 6.2 0.00014 36.4 3.5 33 51-85 1-33 (325)
167 PRK11901 hypothetical protein; 65.2 13 0.00028 34.9 5.2 59 7-70 246-306 (327)
168 PF14893 PNMA: PNMA 63.9 6.4 0.00014 37.1 3.0 28 2-29 14-41 (331)
169 KOG1295 Nonsense-mediated deca 63.8 7.4 0.00016 37.1 3.4 69 5-73 6-77 (376)
170 KOG3702 Nuclear polyadenylated 62.8 4.6 0.0001 41.0 1.9 73 7-80 512-584 (681)
171 PF15513 DUF4651: Domain of un 62.2 18 0.00038 25.7 4.2 19 21-39 9-27 (62)
172 COG2608 CopZ Copper chaperone 60.8 39 0.00085 24.1 6.1 46 6-57 3-48 (71)
173 cd06404 PB1_aPKC PB1 domain is 58.2 78 0.0017 23.8 7.6 67 7-80 9-80 (83)
174 TIGR03636 L23_arch archaeal ri 56.0 42 0.00092 24.8 5.6 58 8-68 15-74 (77)
175 PRK14548 50S ribosomal protein 53.1 39 0.00084 25.4 5.1 57 9-68 23-81 (84)
176 PF07876 Dabb: Stress responsi 53.0 89 0.0019 22.9 7.4 56 9-64 4-70 (97)
177 cd06405 PB1_Mekk2_3 The PB1 do 52.7 92 0.002 23.0 7.8 62 13-83 15-77 (79)
178 PF14787 zf-CCHC_5: GAG-polypr 52.0 9.5 0.00021 24.0 1.3 19 118-136 3-21 (36)
179 KOG3262 H/ACA small nucleolar 51.5 68 0.0015 27.9 6.8 10 52-61 82-91 (215)
180 cd00027 BRCT Breast Cancer Sup 49.6 67 0.0014 21.0 5.7 27 7-33 2-28 (72)
181 PRK11230 glycolate oxidase sub 49.4 64 0.0014 32.1 7.5 51 19-70 202-256 (499)
182 PF08156 NOP5NT: NOP5NT (NUC12 49.2 5.3 0.00011 28.7 -0.1 38 21-69 27-65 (67)
183 KOG4213 RNA-binding protein La 49.1 25 0.00053 30.4 3.8 50 18-67 118-169 (205)
184 PF05189 RTC_insert: RNA 3'-te 48.8 39 0.00085 25.8 4.7 48 8-55 12-64 (103)
185 COG5193 LHP1 La protein, small 48.7 7.3 0.00016 37.5 0.7 60 7-66 175-244 (438)
186 PF05036 SPOR: Sporulation rel 48.2 11 0.00024 26.4 1.4 17 53-69 49-65 (76)
187 PF14026 DUF4242: Protein of u 47.7 1.1E+02 0.0024 22.4 8.0 61 9-72 3-70 (77)
188 COG0225 MsrA Peptide methionin 46.9 34 0.00074 29.3 4.4 73 8-84 59-136 (174)
189 KOG2891 Surface glycoprotein [ 46.2 22 0.00047 32.8 3.3 37 3-39 146-194 (445)
190 PF14581 SseB_C: SseB protein 45.9 37 0.0008 26.1 4.2 80 5-84 4-89 (108)
191 PF13917 zf-CCHC_3: Zinc knuck 45.4 11 0.00025 24.5 1.0 18 118-135 5-22 (42)
192 PF07292 NID: Nmi/IFP 35 domai 45.1 36 0.00078 25.8 3.8 31 51-82 1-33 (88)
193 KOG2187 tRNA uracil-5-methyltr 45.0 21 0.00045 35.7 3.2 39 48-86 63-101 (534)
194 PF13696 zf-CCHC_2: Zinc knuck 45.0 9 0.0002 23.5 0.4 18 119-136 10-27 (32)
195 smart00666 PB1 PB1 domain. Pho 44.6 1.1E+02 0.0025 21.7 7.3 56 9-69 12-69 (81)
196 cd04878 ACT_AHAS N-terminal AC 42.2 1E+02 0.0022 20.5 7.5 49 19-69 13-63 (72)
197 PRK06737 acetolactate synthase 41.3 1.4E+02 0.0031 21.9 7.1 62 7-71 5-67 (76)
198 PF09707 Cas_Cas2CT1978: CRISP 41.2 63 0.0014 24.4 4.6 48 5-55 24-71 (86)
199 cd04904 ACT_AAAH ACT domain of 41.1 1.3E+02 0.0028 21.4 7.6 49 20-70 14-65 (74)
200 COG5584 Predicted small secret 41.0 48 0.001 25.7 3.9 32 13-44 29-60 (103)
201 COG0030 KsgA Dimethyladenosine 40.9 26 0.00057 31.9 3.0 35 7-41 96-130 (259)
202 KOG3432 Vacuolar H+-ATPase V1 40.8 38 0.00082 26.9 3.4 25 15-39 42-66 (121)
203 PF04127 DFP: DNA / pantothena 40.5 1E+02 0.0022 26.5 6.4 59 8-68 20-79 (185)
204 PTZ00191 60S ribosomal protein 40.4 47 0.001 27.6 4.1 54 9-65 84-139 (145)
205 PF13291 ACT_4: ACT domain; PD 40.2 1.3E+02 0.0028 21.3 6.2 64 8-71 8-72 (80)
206 PF08734 GYD: GYD domain; Int 39.7 1.2E+02 0.0026 22.8 6.1 45 21-69 23-68 (91)
207 PF01842 ACT: ACT domain; Int 39.6 1.1E+02 0.0024 20.2 6.3 48 19-69 13-62 (66)
208 PF13721 SecD-TM1: SecD export 39.2 1.8E+02 0.0039 22.4 7.5 57 6-70 31-91 (101)
209 PF11411 DNA_ligase_IV: DNA li 38.6 22 0.00049 22.4 1.5 16 16-31 19-34 (36)
210 KOG3424 40S ribosomal protein 38.5 1E+02 0.0022 24.9 5.5 46 17-63 34-84 (132)
211 PF07292 NID: Nmi/IFP 35 domai 38.5 15 0.00032 27.9 0.8 24 4-27 50-73 (88)
212 smart00195 DSPc Dual specifici 38.1 1E+02 0.0022 24.2 5.8 73 7-83 6-86 (138)
213 CHL00123 rps6 ribosomal protei 37.3 1.8E+02 0.004 22.1 7.6 68 7-78 9-90 (97)
214 PF00521 DNA_topoisoIV: DNA gy 37.3 60 0.0013 31.6 5.1 59 7-69 217-279 (426)
215 COG0150 PurM Phosphoribosylami 35.4 13 0.00029 35.1 0.2 47 21-71 276-322 (345)
216 COG0002 ArgC Acetylglutamate s 35.4 79 0.0017 30.1 5.3 46 14-59 253-304 (349)
217 PF02426 MIase: Muconolactone 35.2 2E+02 0.0044 21.9 8.4 58 13-74 10-77 (91)
218 COG0079 HisC Histidinol-phosph 34.8 53 0.0011 31.2 4.1 48 5-63 145-196 (356)
219 TIGR01873 cas_CT1978 CRISPR-as 34.4 43 0.00093 25.4 2.8 50 5-57 24-74 (87)
220 PF01282 Ribosomal_S24e: Ribos 34.3 1.7E+02 0.0036 21.8 6.0 48 16-64 11-63 (84)
221 PF11823 DUF3343: Protein of u 33.9 60 0.0013 23.2 3.4 24 50-73 3-26 (73)
222 TIGR00387 glcD glycolate oxida 33.9 1.3E+02 0.0029 28.9 6.8 53 17-70 143-199 (413)
223 PRK00911 dihydroxy-acid dehydr 33.7 1.6E+02 0.0034 30.0 7.3 38 47-87 397-434 (552)
224 PF05727 UPF0228: Uncharacteri 33.6 96 0.0021 25.1 4.7 58 14-83 59-123 (127)
225 PRK08559 nusG transcription an 33.3 1.6E+02 0.0035 24.3 6.4 34 33-71 36-69 (153)
226 PF08206 OB_RNB: Ribonuclease 32.9 20 0.00044 24.6 0.8 37 47-84 7-44 (58)
227 COG3254 Uncharacterized conser 32.4 1.2E+02 0.0027 23.7 5.1 55 8-65 4-68 (105)
228 PLN02707 Soluble inorganic pyr 32.3 26 0.00056 32.1 1.5 42 20-70 207-249 (267)
229 PF03439 Spt5-NGN: Early trans 32.2 82 0.0018 23.3 4.0 26 47-72 43-68 (84)
230 COG5353 Uncharacterized protei 32.2 2.3E+02 0.0049 23.8 6.8 57 5-61 86-155 (161)
231 cd04889 ACT_PDH-BS-like C-term 31.9 1.5E+02 0.0032 19.3 6.0 42 21-65 13-55 (56)
232 KOG4388 Hormone-sensitive lipa 31.8 64 0.0014 33.1 4.2 62 2-69 785-852 (880)
233 PF00398 RrnaAD: Ribosomal RNA 31.6 60 0.0013 29.1 3.8 24 5-28 96-119 (262)
234 KOG0226 RNA-binding proteins [ 31.2 13 0.00029 33.8 -0.5 74 7-81 97-173 (290)
235 PF04026 SpoVG: SpoVG; InterP 31.2 80 0.0017 23.7 3.8 26 32-57 2-27 (84)
236 cd04908 ACT_Bt0572_1 N-termina 31.1 1.7E+02 0.0038 19.9 8.1 45 19-67 14-59 (66)
237 smart00434 TOP4c DNA Topoisome 31.1 1.3E+02 0.0027 29.7 6.2 61 7-68 233-297 (445)
238 PF07237 DUF1428: Protein of u 30.5 2E+02 0.0044 22.4 6.1 47 23-69 25-86 (103)
239 PRK10905 cell division protein 30.3 81 0.0018 29.7 4.4 59 7-70 248-308 (328)
240 PF01205 UPF0029: Uncharacteri 29.9 43 0.00094 26.4 2.3 24 6-29 2-25 (110)
241 PLN02968 Probable N-acetyl-gam 29.7 72 0.0016 30.7 4.2 31 8-39 280-311 (381)
242 KOG4840 Predicted hydrolases o 29.5 96 0.0021 28.1 4.5 70 6-80 37-112 (299)
243 PRK11558 putative ssRNA endonu 29.2 1E+02 0.0022 23.9 4.1 51 5-58 26-76 (97)
244 PRK01178 rps24e 30S ribosomal 29.2 2E+02 0.0043 22.3 5.7 47 17-64 30-81 (99)
245 PRK05904 coproporphyrinogen II 29.1 4.4E+02 0.0094 24.9 9.4 39 5-43 56-99 (353)
246 KOG1719 Dual specificity phosp 29.0 1.9E+02 0.0041 24.7 5.9 28 56-83 90-117 (183)
247 COG5227 SMT3 Ubiquitin-like pr 28.8 1.4E+02 0.003 23.0 4.6 66 4-70 32-100 (103)
248 cd04879 ACT_3PGDH-like ACT_3PG 28.7 1.7E+02 0.0038 19.2 6.0 49 18-69 11-60 (71)
249 PLN02805 D-lactate dehydrogena 28.7 2.1E+02 0.0045 29.1 7.4 51 18-69 278-332 (555)
250 PRK09631 DNA topoisomerase IV 28.5 1.9E+02 0.0041 30.0 7.1 61 6-70 220-284 (635)
251 PF05573 NosL: NosL; InterPro 28.5 27 0.00058 28.9 0.9 25 48-72 114-138 (149)
252 KOG0156 Cytochrome P450 CYP2 s 28.3 99 0.0021 30.8 5.0 60 9-78 35-97 (489)
253 cd00187 TOP4c DNA Topoisomeras 28.1 1.8E+02 0.0039 28.6 6.7 60 7-68 226-289 (445)
254 PRK13562 acetolactate synthase 28.1 2.6E+02 0.0057 21.0 8.0 62 7-71 5-68 (84)
255 COG3102 Uncharacterized protei 27.9 72 0.0016 27.3 3.3 43 48-90 109-155 (185)
256 PHA01632 hypothetical protein 27.9 54 0.0012 22.8 2.1 20 10-29 20-39 (64)
257 PF14111 DUF4283: Domain of un 27.8 22 0.00048 28.7 0.3 72 9-86 18-92 (153)
258 smart00650 rADc Ribosomal RNA 27.8 70 0.0015 26.4 3.4 24 7-30 78-101 (169)
259 PRK13011 formyltetrahydrofolat 27.7 2.2E+02 0.0047 26.2 6.8 61 13-74 56-116 (286)
260 PRK00274 ksgA 16S ribosomal RN 27.7 52 0.0011 29.7 2.7 34 8-41 107-140 (272)
261 smart00343 ZnF_C2HC zinc finge 27.4 36 0.00078 19.2 1.1 15 120-134 2-16 (26)
262 PRK02886 hypothetical protein; 27.4 1.9E+02 0.0041 21.9 5.2 38 27-73 21-58 (87)
263 PTZ00338 dimethyladenosine tra 27.1 47 0.001 30.7 2.3 32 8-39 103-134 (294)
264 PF09507 CDC27: DNA polymerase 27.0 71 0.0015 30.5 3.6 57 13-69 13-81 (430)
265 COG5236 Uncharacterized conser 26.8 1.3E+02 0.0029 28.7 5.2 51 20-78 264-314 (493)
266 cd04880 ACT_AAAH-PDT-like ACT 26.8 2.2E+02 0.0049 19.8 7.2 51 19-70 12-66 (75)
267 PF08544 GHMP_kinases_C: GHMP 26.6 2.3E+02 0.005 19.9 6.1 44 21-69 37-80 (85)
268 PF09902 DUF2129: Uncharacteri 26.5 1.3E+02 0.0029 21.8 4.1 39 26-73 16-54 (71)
269 PF14268 YoaP: YoaP-like 26.5 51 0.0011 21.7 1.7 34 50-83 2-37 (44)
270 cd06396 PB1_NBR1 The PB1 domai 26.2 2.8E+02 0.0061 20.7 6.4 62 13-82 15-78 (81)
271 TIGR00587 nfo apurinic endonuc 26.0 1.3E+02 0.0027 27.2 5.0 75 6-86 137-219 (274)
272 PF00564 PB1: PB1 domain; Int 26.0 1.8E+02 0.0038 20.8 4.9 62 12-81 16-80 (84)
273 PRK07868 acyl-CoA synthetase; 26.0 3.5E+02 0.0076 29.2 9.0 64 7-72 860-928 (994)
274 PRK14054 methionine sulfoxide 25.9 1.1E+02 0.0024 26.1 4.2 23 8-30 56-78 (172)
275 PRK13014 methionine sulfoxide 25.9 1.1E+02 0.0025 26.4 4.3 23 8-30 61-83 (186)
276 cd04905 ACT_CM-PDT C-terminal 25.6 2.5E+02 0.0054 19.9 8.0 51 19-70 14-68 (80)
277 COG2242 CobL Precorrin-6B meth 25.5 4.5E+02 0.0097 22.8 8.0 34 53-87 133-166 (187)
278 PF13820 Nucleic_acid_bd: Puta 25.4 1.5E+02 0.0033 24.7 4.8 61 6-70 4-67 (149)
279 PF14401 RLAN: RimK-like ATPgr 25.3 1.5E+02 0.0033 24.7 4.9 59 6-64 87-146 (153)
280 PF11491 DUF3213: Protein of u 25.1 1.1E+02 0.0024 23.0 3.5 66 9-81 3-72 (88)
281 cd00127 DSPc Dual specificity 24.7 2E+02 0.0044 22.2 5.4 20 5-24 5-24 (139)
282 PF13193 AMP-binding_C: AMP-bi 24.4 2.5E+02 0.0054 19.4 6.3 43 22-65 1-44 (73)
283 PF12623 Hen1_L: RNA repair, l 24.2 1.6E+02 0.0035 26.5 5.0 62 6-68 118-183 (245)
284 cd04931 ACT_PAH ACT domain of 24.2 3.1E+02 0.0068 20.5 7.9 57 11-69 18-79 (90)
285 PRK13259 regulatory protein Sp 24.0 1.2E+02 0.0026 23.3 3.7 26 32-57 2-27 (94)
286 PF03254 XG_FTase: Xyloglucan 24.0 84 0.0018 31.2 3.5 71 4-83 352-426 (476)
287 PF10567 Nab6_mRNP_bdg: RNA-re 23.8 3.9E+02 0.0084 25.0 7.5 39 32-70 173-213 (309)
288 PF07230 Peptidase_S80: Bacter 23.8 77 0.0017 31.5 3.2 40 3-46 272-314 (501)
289 COG0360 RpsF Ribosomal protein 23.5 3.4E+02 0.0074 21.4 6.3 75 8-84 5-96 (112)
290 KOG0633 Histidinol phosphate a 23.3 1E+02 0.0022 28.7 3.6 56 5-71 160-219 (375)
291 PF03108 DBD_Tnp_Mut: MuDR fam 23.1 1.2E+02 0.0025 21.1 3.3 29 53-83 8-36 (67)
292 PF02676 TYW3: Methyltransfera 23.1 4.7E+02 0.01 22.8 7.8 56 5-68 66-130 (205)
293 PRK12450 foldase protein PrsA; 23.1 1.6E+02 0.0035 27.3 5.1 39 17-69 132-170 (309)
294 KOG0256 1-aminocyclopropane-1- 23.0 1.4E+02 0.0031 29.3 4.7 67 14-88 239-305 (471)
295 PF14350 Beta_protein: Beta pr 22.8 1.3E+02 0.0029 28.1 4.5 39 18-64 137-176 (347)
296 KOG3262 H/ACA small nucleolar 22.7 5.2E+02 0.011 22.6 11.5 6 30-35 98-103 (215)
297 PHA00742 hypothetical protein 22.7 47 0.001 28.5 1.3 24 50-73 134-157 (211)
298 PRK04199 rpl10e 50S ribosomal 22.5 4.8E+02 0.01 22.3 7.4 58 5-68 80-152 (172)
299 PF13689 DUF4154: Domain of un 22.4 1.8E+02 0.0039 23.5 4.7 59 20-83 2-60 (145)
300 cd06410 PB1_UP2 Uncharacterize 22.4 3.6E+02 0.0078 20.6 6.9 65 14-80 29-94 (97)
301 KOG1579 Homocysteine S-methylt 22.4 90 0.002 29.3 3.2 61 16-85 139-199 (317)
302 PF09383 NIL: NIL domain; Int 22.2 1.8E+02 0.0039 20.5 4.3 55 15-71 11-69 (76)
303 PLN03134 glycine-rich RNA-bind 22.2 4.1E+02 0.009 21.5 6.9 19 58-78 83-101 (144)
304 PF11215 DUF3010: Protein of u 22.2 1.7E+02 0.0037 24.1 4.4 50 14-69 37-93 (138)
305 cd04903 ACT_LSD C-terminal ACT 22.1 2.4E+02 0.0053 18.5 5.6 48 19-69 12-60 (71)
306 cd06398 PB1_Joka2 The PB1 doma 22.1 3.5E+02 0.0076 20.4 6.0 18 51-68 56-73 (91)
307 PRK09630 DNA topoisomerase IV 22.0 1.1E+02 0.0024 30.4 3.8 61 6-70 220-284 (479)
308 cd00412 pyrophosphatase Inorga 21.9 1.2E+02 0.0025 25.5 3.5 39 20-69 116-154 (155)
309 PRK14046 malate--CoA ligase su 21.9 3.5E+02 0.0075 26.0 7.3 53 18-73 26-81 (392)
310 cd04618 CBS_pair_5 The CBS dom 21.7 3.1E+02 0.0066 20.0 5.6 58 14-73 6-73 (98)
311 cd04909 ACT_PDH-BS C-terminal 21.7 2.7E+02 0.0058 18.8 8.1 49 19-69 14-63 (69)
312 PRK05772 translation initiatio 21.6 2E+02 0.0044 27.5 5.5 48 18-69 3-57 (363)
313 PF00585 Thr_dehydrat_C: C-ter 21.6 2.4E+02 0.0052 21.1 5.0 64 6-71 9-74 (91)
314 PRK04405 prsA peptidylprolyl i 21.4 1.9E+02 0.004 26.7 5.2 39 17-69 128-166 (298)
315 PF13046 DUF3906: Protein of u 21.3 1E+02 0.0023 22.0 2.6 34 18-53 30-63 (64)
316 cd05992 PB1 The PB1 domain is 21.2 3E+02 0.0065 19.3 6.1 52 13-69 15-69 (81)
317 PF02700 PurS: Phosphoribosylf 21.2 2.9E+02 0.0062 20.4 5.2 59 8-73 4-66 (80)
318 TIGR01638 Atha_cystat_rel Arab 21.2 1.4E+02 0.0031 22.8 3.5 40 32-71 33-72 (92)
319 KOG4066 Cell growth regulatory 21.2 1.7E+02 0.0036 24.9 4.2 20 10-32 78-97 (177)
320 PRK11863 N-acetyl-gamma-glutam 21.1 2.4E+02 0.0053 26.3 5.9 33 7-39 210-245 (313)
321 PF01037 AsnC_trans_reg: AsnC 21.1 2.8E+02 0.0061 18.8 8.6 45 19-67 11-55 (74)
322 COG5222 Uncharacterized conser 20.9 90 0.002 29.2 2.8 19 118-136 177-195 (427)
323 cd04902 ACT_3PGDH-xct C-termin 20.8 2.8E+02 0.006 18.7 5.4 23 18-40 11-34 (73)
324 smart00738 NGN In Spt5p, this 20.8 1.5E+02 0.0032 22.2 3.7 24 48-71 59-82 (106)
325 PRK11895 ilvH acetolactate syn 20.7 5.1E+02 0.011 21.7 7.3 61 8-71 6-67 (161)
326 PF05336 DUF718: Domain of unk 20.6 2.4E+02 0.0051 21.8 4.9 42 21-65 26-67 (106)
327 KOG1199 Short-chain alcohol de 20.6 2.2E+02 0.0047 24.8 4.9 27 6-35 55-86 (260)
328 PRK14448 acylphosphatase; Prov 20.4 3.2E+02 0.0068 20.4 5.4 21 8-28 31-58 (90)
329 TIGR00401 msrA methionine-S-su 20.4 1.7E+02 0.0036 24.4 4.1 23 8-30 53-75 (149)
330 PF09250 Prim-Pol: Bifunctiona 20.4 2.4E+02 0.0051 22.7 5.1 36 18-59 32-67 (163)
331 PHA02592 52 DNA topisomerase I 20.1 1.9E+02 0.0041 28.5 5.1 54 6-65 227-284 (439)
332 PTZ00071 40S ribosomal protein 20.1 2.9E+02 0.0062 22.6 5.3 46 17-63 35-86 (132)
333 PF11004 Kdo_hydroxy: 3-deoxy- 20.0 1.7E+02 0.0036 27.0 4.3 45 4-49 19-64 (281)
No 1
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.88 E-value=1.1e-21 Score=162.89 Aligned_cols=86 Identities=37% Similarity=0.821 Sum_probs=81.7
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
..+++|||+|||+++||++|+++|++||+|++|.|+.++.|+++++||||+|+++++|++||+.||+++|++++|+|+++
T Consensus 32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a 111 (144)
T PLN03134 32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA 111 (144)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCC
Q 023559 84 QPKMGG 89 (280)
Q Consensus 84 ~~k~~~ 89 (280)
+++...
T Consensus 112 ~~~~~~ 117 (144)
T PLN03134 112 NDRPSA 117 (144)
T ss_pred CcCCCC
Confidence 876554
No 2
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.79 E-value=6.7e-19 Score=147.25 Aligned_cols=110 Identities=31% Similarity=0.690 Sum_probs=90.6
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
-.++|||+||+..+++.||+.+|.+||+|..|+|..+ +.|||||||+++.+|+.|+..|+++.|++..|+|++++
T Consensus 9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn-----PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~ 83 (195)
T KOG0107|consen 9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN-----PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELST 83 (195)
T ss_pred CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec-----CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeec
Confidence 4789999999999999999999999999999999875 47899999999999999999999999999999999998
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 023559 85 PKMGGEVSDHGYRGGGYSSGGRGSYGADRPGGQDDCFKCGRPGHWARDCPS 135 (280)
Q Consensus 85 ~k~~~~~~~~g~~ggg~~~ggrGg~ggg~~gg~~~~~~~g~~g~~~~~~~~ 135 (280)
-+...... ++ .+. . .+...|+.|+..+||.+.|-.
T Consensus 84 G~~r~~r~------gg----~~~-~-----~g~~~~~r~G~rg~~~r~~~~ 118 (195)
T KOG0107|consen 84 GRPRGSRR------GG----SRP-P-----RGRGFCYRCGERGHIGRNCKD 118 (195)
T ss_pred CCcccccc------CC----CCC-c-----ccccccccCCCcccccccccc
Confidence 66542210 00 000 0 112229999999999988876
No 3
>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=99.77 E-value=5.1e-18 Score=159.50 Aligned_cols=84 Identities=23% Similarity=0.508 Sum_probs=78.3
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCC--eEEEEEe
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD--RVISVNK 82 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~g--r~I~V~~ 82 (280)
..++|||+|||++|||++|+++|++||+|+.|+|+.++.|+++++||||+|++.++|++||++||+++|.+ ++|+|.+
T Consensus 192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~ 271 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRL 271 (346)
T ss_pred ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence 46789999999999999999999999999999999999999999999999999999999999999998865 7899999
Q ss_pred cCCCCC
Q 023559 83 AQPKMG 88 (280)
Q Consensus 83 a~~k~~ 88 (280)
|+.+..
T Consensus 272 a~~~~~ 277 (346)
T TIGR01659 272 AEEHGK 277 (346)
T ss_pred CCcccc
Confidence 986644
No 4
>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=99.75 E-value=4.5e-18 Score=159.87 Aligned_cols=85 Identities=24% Similarity=0.472 Sum_probs=80.3
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
....++|||+|||++|||++|+++|++|++|++|+|+.++.|+++++||||+|+++++|++||++||+++|.+++|+|.+
T Consensus 104 ~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~ 183 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSY 183 (346)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeec
Confidence 34678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCC
Q 023559 83 AQPKM 87 (280)
Q Consensus 83 a~~k~ 87 (280)
+++..
T Consensus 184 a~p~~ 188 (346)
T TIGR01659 184 ARPGG 188 (346)
T ss_pred ccccc
Confidence 87643
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.73 E-value=2e-17 Score=154.59 Aligned_cols=82 Identities=27% Similarity=0.416 Sum_probs=78.9
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
.+|||.|||++|+|++|+++|++||.|++|+|+.++.|+.++|||||+|++.++|++||++||+..|.++.|+|.++..|
T Consensus 270 ~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~~~ 349 (352)
T TIGR01661 270 YCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKTNK 349 (352)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEccCC
Confidence 47999999999999999999999999999999999999999999999999999999999999999999999999999887
Q ss_pred CC
Q 023559 87 MG 88 (280)
Q Consensus 87 ~~ 88 (280)
..
T Consensus 350 ~~ 351 (352)
T TIGR01661 350 AY 351 (352)
T ss_pred CC
Confidence 53
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.73 E-value=1.8e-17 Score=154.95 Aligned_cols=84 Identities=21% Similarity=0.545 Sum_probs=80.5
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
+.++|||+|||++|||++|+++|++||+|++|+|+.++.+++++|||||+|.++++|++||+.||++.|.+++|+|++++
T Consensus 2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~ 81 (352)
T TIGR01661 2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR 81 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCC
Q 023559 85 PKMG 88 (280)
Q Consensus 85 ~k~~ 88 (280)
++..
T Consensus 82 ~~~~ 85 (352)
T TIGR01661 82 PSSD 85 (352)
T ss_pred cccc
Confidence 7653
No 7
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.72 E-value=1.3e-17 Score=133.06 Aligned_cols=85 Identities=29% Similarity=0.505 Sum_probs=80.2
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
..++||||+||+..|+|++|.++|+++|+|+.|.|-.++.+..+.|||||+|.+.++|+.||+.++++.|+.++|.|+|.
T Consensus 34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeecc
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred CCCCC
Q 023559 84 QPKMG 88 (280)
Q Consensus 84 ~~k~~ 88 (280)
.--.+
T Consensus 114 ~GF~e 118 (153)
T KOG0121|consen 114 AGFVE 118 (153)
T ss_pred ccchh
Confidence 64443
No 8
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.71 E-value=4.1e-17 Score=142.82 Aligned_cols=83 Identities=28% Similarity=0.561 Sum_probs=80.6
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
.+.++|-|.||+.+++|.+|+++|.+||.|..|.|.++++|+.++|||||+|++.++|++||+.||+.-+++..|.|+|+
T Consensus 187 ~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws 266 (270)
T KOG0122|consen 187 DDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS 266 (270)
T ss_pred CccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence 36789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCC
Q 023559 84 QPK 86 (280)
Q Consensus 84 ~~k 86 (280)
+|+
T Consensus 267 kP~ 269 (270)
T KOG0122|consen 267 KPS 269 (270)
T ss_pred CCC
Confidence 986
No 9
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.71 E-value=8.4e-17 Score=115.27 Aligned_cols=70 Identities=31% Similarity=0.703 Sum_probs=66.9
Q ss_pred EEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEE
Q 023559 9 IFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVIS 79 (280)
Q Consensus 9 lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~ 79 (280)
|||+|||+++|+++|+++|++||.|..|.|+.+ .++.++++|||+|++.++|++||+.||+..|.+++|+
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir 70 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 799999999999999999999999999999988 6788899999999999999999999999999999985
No 10
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.67 E-value=3.9e-16 Score=140.05 Aligned_cols=91 Identities=23% Similarity=0.506 Sum_probs=84.5
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
..+-+||||+-|+++|+|..|+..|++||.|+.|.||.++.|++++|||||+|+++.++++|.+..++++|+++.|.|++
T Consensus 98 gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv 177 (335)
T KOG0113|consen 98 GDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV 177 (335)
T ss_pred CCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCC
Q 023559 83 AQPKMGGEVSD 93 (280)
Q Consensus 83 a~~k~~~~~~~ 93 (280)
...+..+.+-.
T Consensus 178 ERgRTvkgW~P 188 (335)
T KOG0113|consen 178 ERGRTVKGWLP 188 (335)
T ss_pred ccccccccccc
Confidence 87766655443
No 11
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.64 E-value=3.6e-16 Score=136.40 Aligned_cols=79 Identities=32% Similarity=0.698 Sum_probs=73.8
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
.-++|||++|+|+|+.++|+++|++||+|+++.|+.|+.|+++|||+||+|.+.|+|++|++.. +-+|++++..+++|.
T Consensus 11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp-~piIdGR~aNcnlA~ 89 (247)
T KOG0149|consen 11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDP-NPIIDGRKANCNLAS 89 (247)
T ss_pred eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCC-CCcccccccccchhh
Confidence 4579999999999999999999999999999999999999999999999999999999999654 478999999998875
No 12
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.63 E-value=1.4e-15 Score=128.49 Aligned_cols=83 Identities=28% Similarity=0.574 Sum_probs=75.3
Q ss_pred CCCCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 1 MAGKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 1 m~~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
|+...+++|||+|||.++.|.+|++||.+||.|.+|.|...+ .+..||||+|+++.+|+.||..-++..+++..|.|
T Consensus 1 ~~gr~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRV 77 (241)
T KOG0105|consen 1 MSGRNSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRV 77 (241)
T ss_pred CCCcccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEE
Confidence 677889999999999999999999999999999999985443 34679999999999999999999999999999999
Q ss_pred EecCCC
Q 023559 81 NKAQPK 86 (280)
Q Consensus 81 ~~a~~k 86 (280)
+++..-
T Consensus 78 Efprgg 83 (241)
T KOG0105|consen 78 EFPRGG 83 (241)
T ss_pred EeccCC
Confidence 998654
No 13
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.63 E-value=4.7e-16 Score=139.21 Aligned_cols=108 Identities=29% Similarity=0.736 Sum_probs=95.8
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
+.+++|+|+||.+.++.++|++.|++||.|.+|+|+++ |+||.|+-.++|..||..|++++|.++.|+|+++
T Consensus 76 k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~s 147 (346)
T KOG0109|consen 76 KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLS 147 (346)
T ss_pred CCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHHhcccccccccceeeeeee
Confidence 46789999999999999999999999999999999976 9999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 023559 84 QPKMGGEVSDHGYRGGGYSSGGRGSYGADRPGGQDDCFKCGRPGHWARDCPSAVGGR 140 (280)
Q Consensus 84 ~~k~~~~~~~~g~~ggg~~~ggrGg~ggg~~gg~~~~~~~g~~g~~~~~~~~~~Gg~ 140 (280)
+.+-.... +-+.+..|+.|+..+||+.+||-...++
T Consensus 148 tsrlrtap---------------------gmgDq~~cyrcGkeghwskEcP~~~~~r 183 (346)
T KOG0109|consen 148 TSRLRTAP---------------------GMGDQSGCYRCGKEGHWSKECPVDRTGR 183 (346)
T ss_pred ccccccCC---------------------CCCCHHHheeccccccccccCCccCCCc
Confidence 98765432 1234567999999999999999765543
No 14
>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=99.61 E-value=3.6e-15 Score=107.70 Aligned_cols=70 Identities=27% Similarity=0.648 Sum_probs=64.8
Q ss_pred EEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEE
Q 023559 9 IFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVIS 79 (280)
Q Consensus 9 lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~ 79 (280)
|||+|||+++++++|.++|+.++.|..|.++.+++ +..+++|||+|.++++|++||+.++++.|+++.|+
T Consensus 1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 79999999999999999999999999999999877 88999999999999999999999998999999885
No 15
>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=99.60 E-value=4.8e-14 Score=139.84 Aligned_cols=77 Identities=26% Similarity=0.465 Sum_probs=71.2
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhc--CCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRF--GKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~--G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
..++|||+||++++||++|+++|++| |+|++|++++ +||||+|++.++|++||++||+++|.+++|+|++
T Consensus 232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~ 303 (578)
T TIGR01648 232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--------DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTL 303 (578)
T ss_pred cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence 35789999999999999999999999 9999998764 4999999999999999999999999999999999
Q ss_pred cCCCCCC
Q 023559 83 AQPKMGG 89 (280)
Q Consensus 83 a~~k~~~ 89 (280)
|+|+...
T Consensus 304 Akp~~~~ 310 (578)
T TIGR01648 304 AKPVDKK 310 (578)
T ss_pred ccCCCcc
Confidence 9987654
No 16
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.60 E-value=1.3e-15 Score=122.73 Aligned_cols=84 Identities=25% Similarity=0.443 Sum_probs=79.5
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
+...|||++|.+.+||++|.+.|..||+|+.|.|..++.|+..||||+|+|++.++|++||.+||+.+|.+++|.|.|+.
T Consensus 71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~F 150 (170)
T KOG0130|consen 71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCF 150 (170)
T ss_pred eeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEE
Confidence 34689999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred CCCC
Q 023559 85 PKMG 88 (280)
Q Consensus 85 ~k~~ 88 (280)
.+..
T Consensus 151 v~gp 154 (170)
T KOG0130|consen 151 VKGP 154 (170)
T ss_pred ecCC
Confidence 6543
No 17
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.60 E-value=5.3e-15 Score=147.03 Aligned_cols=85 Identities=26% Similarity=0.545 Sum_probs=80.4
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
..++|||+|||+++++++|+++|++||+|++|+|+.++.+++++|||||+|++.++|++||+.||+++|.++.|+|.++.
T Consensus 203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi 282 (612)
T TIGR01645 203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 282 (612)
T ss_pred ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred CCCCC
Q 023559 85 PKMGG 89 (280)
Q Consensus 85 ~k~~~ 89 (280)
+++..
T Consensus 283 ~pP~~ 287 (612)
T TIGR01645 283 TPPDA 287 (612)
T ss_pred CCccc
Confidence 76543
No 18
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.59 E-value=7.6e-15 Score=143.91 Aligned_cols=83 Identities=25% Similarity=0.553 Sum_probs=78.6
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
+.++|||+|||+.||+++|+++|++||.|+.|.|+.++.|++++|||||+|++.++|++||+.||++.|.+++|.|.+|.
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~ 373 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRAC 373 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECc
Confidence 45799999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred CCC
Q 023559 85 PKM 87 (280)
Q Consensus 85 ~k~ 87 (280)
...
T Consensus 374 ~~~ 376 (509)
T TIGR01642 374 VGA 376 (509)
T ss_pred cCC
Confidence 543
No 19
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.59 E-value=8.5e-15 Score=131.13 Aligned_cols=77 Identities=19% Similarity=0.365 Sum_probs=71.5
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
..++|||+|||+.+||++|+++|+.||+|++|.|+.+.. +++||||+|+++++|+.|| .||+..|.++.|+|.++.
T Consensus 3 ~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~Al-lLnG~~l~gr~V~Vt~a~ 78 (260)
T PLN03120 3 QVRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETAL-LLSGATIVDQSVTITPAE 78 (260)
T ss_pred CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHH-HhcCCeeCCceEEEEecc
Confidence 368999999999999999999999999999999998864 4689999999999999999 699999999999999986
Q ss_pred C
Q 023559 85 P 85 (280)
Q Consensus 85 ~ 85 (280)
.
T Consensus 79 ~ 79 (260)
T PLN03120 79 D 79 (260)
T ss_pred C
Confidence 3
No 20
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.59 E-value=2e-15 Score=129.56 Aligned_cols=81 Identities=25% Similarity=0.524 Sum_probs=77.9
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
..++|.|-||.+.||.++|..+|++||.|.+|.|+.++.|..++|||||.|....+|+.||++|++.+|+++.|.|++|+
T Consensus 12 gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar 91 (256)
T KOG4207|consen 12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR 91 (256)
T ss_pred cceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence 35789999999999999999999999999999999999999999999999999999999999999999999999999996
Q ss_pred C
Q 023559 85 P 85 (280)
Q Consensus 85 ~ 85 (280)
=
T Consensus 92 y 92 (256)
T KOG4207|consen 92 Y 92 (256)
T ss_pred c
Confidence 3
No 21
>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=99.58 E-value=8.6e-15 Score=141.78 Aligned_cols=80 Identities=36% Similarity=0.691 Sum_probs=77.3
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
.++|||+|||..+||++|+++|++||.|+.|.|+.++.++++++||||+|.+.++|++||+.||+++|.+++|+|.+++.
T Consensus 186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~ 265 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD 265 (457)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999873
No 22
>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=99.58 E-value=8.9e-15 Score=141.69 Aligned_cols=83 Identities=27% Similarity=0.493 Sum_probs=77.6
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
+.+.++|||+|||+.+++++|+++|++||+|+.|+|+.++.|++++|||||+|.++++|++|| .|+++.|.+++|.|.+
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al-~l~g~~~~g~~i~v~~ 164 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKAL-ALTGQMLLGRPIIVQS 164 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHH-HhCCCEECCeeeEEee
Confidence 345789999999999999999999999999999999999999999999999999999999999 5999999999999988
Q ss_pred cCCC
Q 023559 83 AQPK 86 (280)
Q Consensus 83 a~~k 86 (280)
++..
T Consensus 165 ~~~~ 168 (457)
T TIGR01622 165 SQAE 168 (457)
T ss_pred cchh
Confidence 7644
No 23
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.57 E-value=8.6e-15 Score=145.52 Aligned_cols=80 Identities=30% Similarity=0.601 Sum_probs=76.7
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
..++|||+|||++++|++|+++|++||+|++|.|+.++.|++++|||||+|++.++|++||+.||++.|.++.|+|.+..
T Consensus 106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~ 185 (612)
T TIGR01645 106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS 185 (612)
T ss_pred CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccc
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999998654
No 24
>smart00362 RRM_2 RNA recognition motif.
Probab=99.57 E-value=2.4e-14 Score=101.14 Aligned_cols=72 Identities=32% Similarity=0.683 Sum_probs=67.2
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
+|||.|||..+++++|+++|.+||+|+.|.++.++ ++++++|||+|.+.++|++|++.|++..|.++.|.|+
T Consensus 1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence 58999999999999999999999999999998776 6778999999999999999999999999999999874
No 25
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.56 E-value=2.6e-15 Score=129.96 Aligned_cols=88 Identities=38% Similarity=0.593 Sum_probs=83.7
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
.....+|||++|..+|+|.-|...|-.||.|+.|+|+.+.++.++++|+||+|+..|+|.+||..||..+|.+++|+|++
T Consensus 7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~ 86 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNL 86 (298)
T ss_pred cccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEee
Confidence 35678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCC
Q 023559 83 AQPKMGGE 90 (280)
Q Consensus 83 a~~k~~~~ 90 (280)
|+|.+.+.
T Consensus 87 AkP~kike 94 (298)
T KOG0111|consen 87 AKPEKIKE 94 (298)
T ss_pred cCCccccC
Confidence 99877654
No 26
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.56 E-value=1.3e-14 Score=144.36 Aligned_cols=78 Identities=23% Similarity=0.509 Sum_probs=75.6
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
+|||+|||++|||++|+++|++||+|++|+|++++.|++++|||||+|.+.++|++||+.||.+.|.++.|+|.|+..
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~ 79 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQR 79 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccc
Confidence 799999999999999999999999999999999999999999999999999999999999999999999999999864
No 27
>PLN03213 repressor of silencing 3; Provisional
Probab=99.56 E-value=1.1e-14 Score=138.21 Aligned_cols=78 Identities=22% Similarity=0.435 Sum_probs=72.0
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCH--HHHHHHHHHhcCceeCCeEEEEE
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADR--RAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~--e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
....+|||+||++.||+++|+.+|+.||.|+.|.|+ ++|+ +|||||+|.+. +++++||+.||+.+++|+.|+|+
T Consensus 8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVN 83 (759)
T PLN03213 8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLE 83 (759)
T ss_pred CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEe
Confidence 346799999999999999999999999999999999 4566 89999999987 78999999999999999999999
Q ss_pred ecCC
Q 023559 82 KAQP 85 (280)
Q Consensus 82 ~a~~ 85 (280)
.|+|
T Consensus 84 KAKP 87 (759)
T PLN03213 84 KAKE 87 (759)
T ss_pred eccH
Confidence 9984
No 28
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.56 E-value=8.5e-15 Score=132.99 Aligned_cols=82 Identities=28% Similarity=0.612 Sum_probs=75.6
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
...++|+|+|||+..-|.||+.+|.+||+|.+|+|+.+. --+|||+||+|++.++|++|-++||++.|.+++|+|+.|
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~A 171 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNA 171 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeeceEEEEecc
Confidence 346899999999999999999999999999999999874 248999999999999999999999999999999999999
Q ss_pred CCCC
Q 023559 84 QPKM 87 (280)
Q Consensus 84 ~~k~ 87 (280)
+++.
T Consensus 172 TarV 175 (376)
T KOG0125|consen 172 TARV 175 (376)
T ss_pred chhh
Confidence 8543
No 29
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.56 E-value=1.2e-14 Score=143.97 Aligned_cols=78 Identities=26% Similarity=0.550 Sum_probs=71.0
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC-CeEEEEEec
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG-DRVISVNKA 83 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~-gr~I~V~~a 83 (280)
..++|||+|||++++|++|+++|++||+|.+|+|+++ .++++++||||+|.++++|++||+.||+.+|. ++.|.|.++
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S 135 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS 135 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence 3589999999999999999999999999999999999 78999999999999999999999999998884 666655544
No 30
>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=99.55 E-value=2.1e-14 Score=142.93 Aligned_cols=84 Identities=32% Similarity=0.608 Sum_probs=78.9
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
...++|||.||+++||+++|+++|++||+|++|+|+.+ .++.+++||||+|++.++|++||++||++.|.+++|.|.+|
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a 361 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALA 361 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEec
Confidence 34678999999999999999999999999999999998 67899999999999999999999999999999999999999
Q ss_pred CCCCC
Q 023559 84 QPKMG 88 (280)
Q Consensus 84 ~~k~~ 88 (280)
+.+..
T Consensus 362 ~~k~~ 366 (562)
T TIGR01628 362 QRKEQ 366 (562)
T ss_pred cCcHH
Confidence 87653
No 31
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.54 E-value=3.5e-14 Score=124.23 Aligned_cols=80 Identities=36% Similarity=0.803 Sum_probs=77.1
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
.++|||+|||+++|+++|.++|.+|+.|..|.|+.++.++++++||||+|.++++|+.||+.|++..|.+++|.|.++.+
T Consensus 115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~ 194 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP 194 (306)
T ss_pred CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence 59999999999999999999999999999999999999999999999999999999999999999999999999999654
No 32
>smart00360 RRM RNA recognition motif.
Probab=99.54 E-value=4.3e-14 Score=99.40 Aligned_cols=71 Identities=31% Similarity=0.710 Sum_probs=67.2
Q ss_pred EcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 11 VGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 11 VgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
|.|||..+++++|+++|++||.|..|.|..++.+++++++|||+|.+.++|++||+.|++..|.++.|.|+
T Consensus 1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 67999999999999999999999999999988888999999999999999999999999999999998874
No 33
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.52 E-value=3.3e-14 Score=133.53 Aligned_cols=79 Identities=29% Similarity=0.585 Sum_probs=74.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee-CCeEEEEEecC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF-GDRVISVNKAQ 84 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l-~gr~I~V~~a~ 84 (280)
-+.|||+.||.++.|++|..+|++.|+|-+++||+++.++.++|||||+|.+.++|++||++||+++| .++.|.|.++.
T Consensus 83 G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~Sv 162 (506)
T KOG0117|consen 83 GCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVSV 162 (506)
T ss_pred CceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEee
Confidence 57899999999999999999999999999999999999999999999999999999999999999998 57888777654
No 34
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.51 E-value=3e-14 Score=120.12 Aligned_cols=82 Identities=27% Similarity=0.439 Sum_probs=79.1
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
.....||||+||+..++++.|+++|-+.|.|+.|.|++++.|.+.+|||||+|.++|+|+-||+.||...|-+++|+|..
T Consensus 6 rnqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~k 85 (203)
T KOG0131|consen 6 RNQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNK 85 (203)
T ss_pred cCCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEe
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cC
Q 023559 83 AQ 84 (280)
Q Consensus 83 a~ 84 (280)
+.
T Consensus 86 as 87 (203)
T KOG0131|consen 86 AS 87 (203)
T ss_pred cc
Confidence 87
No 35
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.51 E-value=9.2e-14 Score=122.85 Aligned_cols=76 Identities=20% Similarity=0.290 Sum_probs=70.0
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
...+|||+||++.+||++|++||+.||+|.+|+|+.+.. .++||||+|+++++|+.|| .|++.+|.++.|.|..+.
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~e---t~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGE---YACTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG 79 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCC---cceEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence 457999999999999999999999999999999998854 4579999999999999999 899999999999998765
No 36
>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=99.51 E-value=1.8e-13 Score=97.11 Aligned_cols=74 Identities=32% Similarity=0.725 Sum_probs=69.0
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
+|+|.+||+.+++++|+++|+.++.|..+.++.++.+ +++++|||+|.+.++|+.|++.|++..+.++.|.|.+
T Consensus 1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence 5899999999999999999999999999999987765 6788999999999999999999999999999999864
No 37
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.51 E-value=2.9e-14 Score=133.90 Aligned_cols=79 Identities=25% Similarity=0.447 Sum_probs=73.9
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
..+.|||.||+.+|||+.|+++|++||+|+.|+.++| ||||.|.+.++|.+||+.||+++|++..|.|.+|+
T Consensus 258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAK 329 (506)
T KOG0117|consen 258 KVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAK 329 (506)
T ss_pred heeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecC
Confidence 4689999999999999999999999999999998866 99999999999999999999999999999999999
Q ss_pred CCCCCCC
Q 023559 85 PKMGGEV 91 (280)
Q Consensus 85 ~k~~~~~ 91 (280)
|..++.-
T Consensus 330 P~~k~k~ 336 (506)
T KOG0117|consen 330 PVDKKKK 336 (506)
T ss_pred Chhhhcc
Confidence 8776543
No 38
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.49 E-value=4e-15 Score=125.40 Aligned_cols=80 Identities=29% Similarity=0.679 Sum_probs=76.2
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
+++.-|||++||+++||.+|..+|++||+|+.|.|++++.|++++||||+.|++..+...||..||++.|.++.|+|...
T Consensus 33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv 112 (219)
T KOG0126|consen 33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV 112 (219)
T ss_pred ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999754
No 39
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.49 E-value=5.1e-14 Score=125.15 Aligned_cols=81 Identities=30% Similarity=0.672 Sum_probs=78.8
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
..|||+.|..+++-++|++.|.+||+|.+++|++|..|+|+|||+||.|.+.++|+.||+.||++=|..+.|+.+||+.|
T Consensus 63 fhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRK 142 (321)
T KOG0148|consen 63 FHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRK 142 (321)
T ss_pred eeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccC
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred C
Q 023559 87 M 87 (280)
Q Consensus 87 ~ 87 (280)
+
T Consensus 143 p 143 (321)
T KOG0148|consen 143 P 143 (321)
T ss_pred c
Confidence 7
No 40
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.49 E-value=9.2e-14 Score=122.98 Aligned_cols=85 Identities=25% Similarity=0.567 Sum_probs=80.8
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
+..+.|.|.-||..+|+++|+.+|..+|+|++|+|++|+.|+.+.||+||.|.++++|++||..||+..|..++|+|.+|
T Consensus 39 ~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyA 118 (360)
T KOG0145|consen 39 ESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYA 118 (360)
T ss_pred cccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEec
Confidence 44678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCC
Q 023559 84 QPKMG 88 (280)
Q Consensus 84 ~~k~~ 88 (280)
.|...
T Consensus 119 RPSs~ 123 (360)
T KOG0145|consen 119 RPSSD 123 (360)
T ss_pred cCChh
Confidence 98754
No 41
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.49 E-value=1.2e-13 Score=122.80 Aligned_cols=82 Identities=23% Similarity=0.543 Sum_probs=75.7
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 2 AGKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 2 ~~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
++.++++|||+||+..+||++|+++|+.||.|.+|+|.++ +|||||.|++.|+|..||.+||+++|.++.|++.
T Consensus 160 ssp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCs 233 (321)
T KOG0148|consen 160 SSPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCS 233 (321)
T ss_pred CCCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcCceeCceEEEEe
Confidence 3567899999999999999999999999999999999977 5799999999999999999999999999999999
Q ss_pred ecCCCCCC
Q 023559 82 KAQPKMGG 89 (280)
Q Consensus 82 ~a~~k~~~ 89 (280)
|-+.....
T Consensus 234 WGKe~~~~ 241 (321)
T KOG0148|consen 234 WGKEGDDG 241 (321)
T ss_pred ccccCCCC
Confidence 98765543
No 42
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.47 E-value=2.4e-13 Score=105.08 Aligned_cols=84 Identities=20% Similarity=0.418 Sum_probs=75.8
Q ss_pred CCCCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 1 MAGKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 1 m~~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
|+.+.+..|||.|||+++|.+++.++|.+||.|..|+|-..++| +|.|||.|++..+|++|++.|++..+.++.|.|
T Consensus 13 lppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~T---rGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~v 89 (124)
T KOG0114|consen 13 LPPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKET---RGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVV 89 (124)
T ss_pred CChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCc---CceEEEEehHhhhHHHHHHHhcccccCCceEEE
Confidence 34556789999999999999999999999999999999877654 889999999999999999999999999999999
Q ss_pred EecCCCC
Q 023559 81 NKAQPKM 87 (280)
Q Consensus 81 ~~a~~k~ 87 (280)
-+-++..
T Consensus 90 lyyq~~~ 96 (124)
T KOG0114|consen 90 LYYQPED 96 (124)
T ss_pred EecCHHH
Confidence 8877643
No 43
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=6.1e-14 Score=131.30 Aligned_cols=86 Identities=28% Similarity=0.554 Sum_probs=78.0
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCce-e--CCeEEEEE
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGRE-F--GDRVISVN 81 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~-l--~gr~I~V~ 81 (280)
++.+|||+.|+..+||++|+++|++||.|++|.|+++. .+.++|||||+|++.|.|..||+.||++. + ...+|.|.
T Consensus 123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~-~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVk 201 (510)
T KOG0144|consen 123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDP-DGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVK 201 (510)
T ss_pred cchhhhhhhccccccHHHHHHHHHhhCccchhhheecc-cccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEE
Confidence 36899999999999999999999999999999999985 47899999999999999999999999974 4 45789999
Q ss_pred ecCCCCCCCC
Q 023559 82 KAQPKMGGEV 91 (280)
Q Consensus 82 ~a~~k~~~~~ 91 (280)
||.+++.+..
T Consensus 202 FADtqkdk~~ 211 (510)
T KOG0144|consen 202 FADTQKDKDG 211 (510)
T ss_pred ecccCCCchH
Confidence 9999887653
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=99.46 E-value=3.7e-13 Score=131.88 Aligned_cols=79 Identities=19% Similarity=0.279 Sum_probs=72.6
Q ss_pred CCCcEEEEcCCCC-CCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 4 KDENRIFVGGLSW-NVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 4 ~~~~~lfVgnLp~-~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
.+.++|||.||++ .+|+++|+++|++||.|++|+|++++ ++||||+|.+.++|++||+.||+.+|.+++|+|.+
T Consensus 273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~ 347 (481)
T TIGR01649 273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCP 347 (481)
T ss_pred CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEE
Confidence 3568999999998 69999999999999999999999863 68999999999999999999999999999999999
Q ss_pred cCCCC
Q 023559 83 AQPKM 87 (280)
Q Consensus 83 a~~k~ 87 (280)
++.+.
T Consensus 348 s~~~~ 352 (481)
T TIGR01649 348 SKQQN 352 (481)
T ss_pred ccccc
Confidence 87653
No 45
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=1.5e-13 Score=128.77 Aligned_cols=87 Identities=22% Similarity=0.525 Sum_probs=78.4
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee---CCeEEE
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF---GDRVIS 79 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l---~gr~I~ 79 (280)
+.+.-+|||+-||..++|+||+++|++||.|.+|.|++|+.|+.++|||||+|.+.++|.+||.+||+++. ...+|.
T Consensus 31 d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvq 110 (510)
T KOG0144|consen 31 DGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQ 110 (510)
T ss_pred CchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCccee
Confidence 34456899999999999999999999999999999999999999999999999999999999999998754 567899
Q ss_pred EEecCCCCCC
Q 023559 80 VNKAQPKMGG 89 (280)
Q Consensus 80 V~~a~~k~~~ 89 (280)
|.+|....++
T Consensus 111 vk~Ad~E~er 120 (510)
T KOG0144|consen 111 VKYADGERER 120 (510)
T ss_pred ecccchhhhc
Confidence 9988766554
No 46
>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=99.45 E-value=3.9e-13 Score=131.77 Aligned_cols=77 Identities=13% Similarity=0.151 Sum_probs=70.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHh--cCceeCCeEEEEEe
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREM--HGREFGDRVISVNK 82 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~l--ng~~l~gr~I~V~~ 82 (280)
++++|||+|||+++||++|+++|++||+|++|.|+++ ++||||+|+++++|++||+.| +...|.+++|.|++
T Consensus 1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~ 74 (481)
T TIGR01649 1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNY 74 (481)
T ss_pred CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEe
Confidence 5789999999999999999999999999999999854 569999999999999999875 67899999999999
Q ss_pred cCCCC
Q 023559 83 AQPKM 87 (280)
Q Consensus 83 a~~k~ 87 (280)
++.+.
T Consensus 75 s~~~~ 79 (481)
T TIGR01649 75 STSQE 79 (481)
T ss_pred cCCcc
Confidence 97654
No 47
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.44 E-value=1.5e-13 Score=126.06 Aligned_cols=85 Identities=31% Similarity=0.524 Sum_probs=80.6
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
..|.+.|||..|.+.||.++|+-||+.||+|+.|.|+++..|+.+..||||+|++.+++++|.-+|++..|+.+.|+|.+
T Consensus 236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDF 315 (479)
T KOG0415|consen 236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDF 315 (479)
T ss_pred CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeeh
Confidence 35789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCC
Q 023559 83 AQPKM 87 (280)
Q Consensus 83 a~~k~ 87 (280)
+++-.
T Consensus 316 SQSVs 320 (479)
T KOG0415|consen 316 SQSVS 320 (479)
T ss_pred hhhhh
Confidence 87543
No 48
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.42 E-value=3.7e-13 Score=129.22 Aligned_cols=83 Identities=31% Similarity=0.714 Sum_probs=79.7
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
++|||+|||++++|++|.++|+..|.|..++++.|++|++++||+||+|.++++|+.||+.||+.++.+++|+|+++...
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999765
Q ss_pred CCC
Q 023559 87 MGG 89 (280)
Q Consensus 87 ~~~ 89 (280)
+..
T Consensus 99 ~~~ 101 (435)
T KOG0108|consen 99 KNA 101 (435)
T ss_pred chh
Confidence 543
No 49
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.39 E-value=9.2e-13 Score=126.49 Aligned_cols=83 Identities=24% Similarity=0.518 Sum_probs=76.0
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHh-----cC-ceeCCeEEE
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREM-----HG-REFGDRVIS 79 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~l-----ng-~~l~gr~I~ 79 (280)
..+|||.|||+++||++|.++|++||+|+.+.|+.++.|+.++|.|||.|.++.+|++||+.. .+ ..|.++.|+
T Consensus 292 ~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~Lk 371 (678)
T KOG0127|consen 292 GKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRLLK 371 (678)
T ss_pred cceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccEEe
Confidence 479999999999999999999999999999999999999999999999999999999999776 22 568999999
Q ss_pred EEecCCCCC
Q 023559 80 VNKAQPKMG 88 (280)
Q Consensus 80 V~~a~~k~~ 88 (280)
|.+|.++.+
T Consensus 372 v~~Av~Rke 380 (678)
T KOG0127|consen 372 VTLAVTRKE 380 (678)
T ss_pred eeeccchHH
Confidence 999976553
No 50
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.38 E-value=5.7e-13 Score=119.57 Aligned_cols=73 Identities=34% Similarity=0.743 Sum_probs=69.8
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
.+|||+|||.++++.+|+.+|++||+|.+|.|+++ |+||..++...|+.||..||+.+|.+..|+|+-++.|
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 58999999999999999999999999999999977 9999999999999999999999999999999999877
Q ss_pred C
Q 023559 87 M 87 (280)
Q Consensus 87 ~ 87 (280)
.
T Consensus 75 s 75 (346)
T KOG0109|consen 75 S 75 (346)
T ss_pred C
Confidence 3
No 51
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.37 E-value=1.4e-12 Score=122.35 Aligned_cols=80 Identities=15% Similarity=0.461 Sum_probs=73.3
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHh-hcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFD-RFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~-~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
+....|||+|||+++.|++|+++|. +.|+|+.|+|+.| .++|++|||.|||+++|.+++|++.||.+++++++|+|+.
T Consensus 42 ~r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D-~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKE 120 (608)
T KOG4212|consen 42 ARDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFD-ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKE 120 (608)
T ss_pred cccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecc-cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEec
Confidence 3456799999999999999999996 6799999999998 5699999999999999999999999999999999999976
Q ss_pred cC
Q 023559 83 AQ 84 (280)
Q Consensus 83 a~ 84 (280)
..
T Consensus 121 d~ 122 (608)
T KOG4212|consen 121 DH 122 (608)
T ss_pred cC
Confidence 54
No 52
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.37 E-value=5.9e-13 Score=118.28 Aligned_cols=87 Identities=23% Similarity=0.516 Sum_probs=83.1
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
..+.|+|||-.||.+..+.+|.++|..||.|++.+|..|+.|+.+|+|+||.|+++.+|++||+.||++.|.-++|+|.+
T Consensus 282 GPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQL 361 (371)
T KOG0146|consen 282 GPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQL 361 (371)
T ss_pred CCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhh
Confidence 35679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCC
Q 023559 83 AQPKMGG 89 (280)
Q Consensus 83 a~~k~~~ 89 (280)
..||...
T Consensus 362 KRPkdan 368 (371)
T KOG0146|consen 362 KRPKDAN 368 (371)
T ss_pred cCccccC
Confidence 9998754
No 53
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.37 E-value=2.8e-12 Score=113.68 Aligned_cols=81 Identities=30% Similarity=0.460 Sum_probs=77.8
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
...|||=||.++++|.-|+++|..||.|+.|+|++|..|.+.|||+||++.+-++|..||..||+..|.++.|.|.+...
T Consensus 278 g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQVsFKtn 357 (360)
T KOG0145|consen 278 GWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQVSFKTN 357 (360)
T ss_pred eeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEEEEEecC
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999998776
Q ss_pred C
Q 023559 86 K 86 (280)
Q Consensus 86 k 86 (280)
|
T Consensus 358 k 358 (360)
T KOG0145|consen 358 K 358 (360)
T ss_pred C
Confidence 5
No 54
>smart00361 RRM_1 RNA recognition motif.
Probab=99.36 E-value=3.8e-12 Score=92.66 Aligned_cols=62 Identities=24% Similarity=0.501 Sum_probs=56.2
Q ss_pred HHHHHHHHh----hcCCeEEEE-EeecCCC--CCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 20 ERQLENAFD----RFGKIIECQ-IMLERDS--GRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 20 e~dL~~~F~----~~G~I~~v~-i~~d~~t--g~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
+++|+++|+ +||+|.+|. |+.++.+ +.++||+||+|++.++|++||+.||+..|.+++|++.
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 678899998 999999995 7777766 8899999999999999999999999999999999873
No 55
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.36 E-value=2e-12 Score=124.13 Aligned_cols=84 Identities=24% Similarity=0.489 Sum_probs=77.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
+..+|.|.||||.|.+.+|+.+|++||.|.+|.|++.+++ +.+|||||+|....+|.+||+.||+++|.+++|.|+||-
T Consensus 116 ~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dg-klcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV 194 (678)
T KOG0127|consen 116 PKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDG-KLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAV 194 (678)
T ss_pred ccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCC-CccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeec
Confidence 3678999999999999999999999999999999977654 556999999999999999999999999999999999999
Q ss_pred CCCCC
Q 023559 85 PKMGG 89 (280)
Q Consensus 85 ~k~~~ 89 (280)
+|..-
T Consensus 195 ~Kd~y 199 (678)
T KOG0127|consen 195 DKDTY 199 (678)
T ss_pred ccccc
Confidence 88643
No 56
>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=99.34 E-value=6.7e-12 Score=87.07 Aligned_cols=56 Identities=32% Similarity=0.684 Sum_probs=50.9
Q ss_pred HHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 23 LENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 23 L~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
|.++|++||+|++|.+..++ +++|||+|.+.++|++|++.||+..|.+++|+|++|
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 78999999999999997653 479999999999999999999999999999999986
No 57
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.29 E-value=4.4e-12 Score=107.12 Aligned_cols=84 Identities=40% Similarity=0.631 Sum_probs=78.1
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEE-EEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIEC-QIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v-~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
..+|||+||.++++|..|.++|+.||.|... +|+.+..|+++++|+||.|++.|.+.+||+.||++.|.+++|+|.++.
T Consensus 96 ganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~ 175 (203)
T KOG0131|consen 96 GANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAF 175 (203)
T ss_pred cccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEE
Confidence 4689999999999999999999999988764 899999999999999999999999999999999999999999999998
Q ss_pred CCCCC
Q 023559 85 PKMGG 89 (280)
Q Consensus 85 ~k~~~ 89 (280)
.+..+
T Consensus 176 k~~~k 180 (203)
T KOG0131|consen 176 KKDTK 180 (203)
T ss_pred ecCCC
Confidence 77544
No 58
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.28 E-value=2.5e-12 Score=118.54 Aligned_cols=78 Identities=31% Similarity=0.632 Sum_probs=74.9
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
-|+|||+.|++++.|+.|+..|..||.|++|.+..|+.|+++|+||||+|+-+|.|+.|++.||+..|.++.|+|..-
T Consensus 113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrP 190 (544)
T KOG0124|consen 113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP 190 (544)
T ss_pred hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCC
Confidence 378999999999999999999999999999999999999999999999999999999999999999999999999743
No 59
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=99.27 E-value=3.6e-10 Score=104.26 Aligned_cols=85 Identities=29% Similarity=0.469 Sum_probs=78.8
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEE--------EEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCC
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIE--------CQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD 75 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~--------v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~g 75 (280)
....+|||.+||..|++++|.++|.+++.|+. |+|.++++|+++|+-|.|+|++...|++||+.++++.|.+
T Consensus 64 s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g 143 (351)
T KOG1995|consen 64 SDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG 143 (351)
T ss_pred cccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccC
Confidence 45679999999999999999999999998864 7899999999999999999999999999999999999999
Q ss_pred eEEEEEecCCCCC
Q 023559 76 RVISVNKAQPKMG 88 (280)
Q Consensus 76 r~I~V~~a~~k~~ 88 (280)
.+|+|.+|+.+..
T Consensus 144 n~ikvs~a~~r~~ 156 (351)
T KOG1995|consen 144 NTIKVSLAERRTG 156 (351)
T ss_pred CCchhhhhhhccC
Confidence 9999999987663
No 60
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.25 E-value=7.6e-12 Score=120.38 Aligned_cols=80 Identities=35% Similarity=0.747 Sum_probs=75.3
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCCC
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 87 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k~ 87 (280)
.|||+||.+++||++|+.+|+.||.|..|.++++.+|+.++||+||+|.+.+.|.+|+++||+.+|.|+.|+|...+-+.
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~ 359 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERV 359 (549)
T ss_pred hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeec
Confidence 38999999999999999999999999999999999999999999999999999999999999999999999997665433
No 61
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.24 E-value=1.9e-11 Score=119.92 Aligned_cols=74 Identities=14% Similarity=0.397 Sum_probs=61.6
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhc------------CCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcC
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRF------------GKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHG 70 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~------------G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng 70 (280)
+.+..+|||+|||+.||+++|+++|.++ ..|+.|.+. +.++||||+|.+.++|++|| +|++
T Consensus 172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~------~~kg~afVeF~~~e~A~~Al-~l~g 244 (509)
T TIGR01642 172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNIN------KEKNFAFLEFRTVEEATFAM-ALDS 244 (509)
T ss_pred CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEEC------CCCCEEEEEeCCHHHHhhhh-cCCC
Confidence 4457899999999999999999999975 233444443 35789999999999999999 6999
Q ss_pred ceeCCeEEEEEec
Q 023559 71 REFGDRVISVNKA 83 (280)
Q Consensus 71 ~~l~gr~I~V~~a 83 (280)
+.|.++.|+|...
T Consensus 245 ~~~~g~~l~v~r~ 257 (509)
T TIGR01642 245 IIYSNVFLKIRRP 257 (509)
T ss_pred eEeeCceeEecCc
Confidence 9999999998754
No 62
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.23 E-value=1.1e-11 Score=114.58 Aligned_cols=88 Identities=30% Similarity=0.713 Sum_probs=79.4
Q ss_pred CCCCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 1 MAGKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 1 m~~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
++..+.++|||++|+|+|+|+.|++.|.+||+|.+|.|++++.|+.+++|+||+|++.+.+.++|.. ..+.|.++.|.+
T Consensus 1 ~~~~~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ve~ 79 (311)
T KOG4205|consen 1 SESGESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNA-RTHKLDGRSVEP 79 (311)
T ss_pred CCccCCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecc-cccccCCccccc
Confidence 3556899999999999999999999999999999999999999999999999999999999988844 457899999999
Q ss_pred EecCCCCCC
Q 023559 81 NKAQPKMGG 89 (280)
Q Consensus 81 ~~a~~k~~~ 89 (280)
..|.|+...
T Consensus 80 k~av~r~~~ 88 (311)
T KOG4205|consen 80 KRAVSREDQ 88 (311)
T ss_pred eeccCcccc
Confidence 998877644
No 63
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.20 E-value=1.5e-10 Score=110.72 Aligned_cols=84 Identities=31% Similarity=0.535 Sum_probs=71.0
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
..+|||.|||+++++.+|+++|.+||+|+++.|....-.++..+|+||+|++.++++.||++- -..|.+++|.|+..++
T Consensus 288 ~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~Veek~~ 366 (419)
T KOG0116|consen 288 GLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKLNVEEKRP 366 (419)
T ss_pred ccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccCCeeEEEEeccc
Confidence 456999999999999999999999999999888765433444589999999999999999664 6788999999998877
Q ss_pred CCCCC
Q 023559 86 KMGGE 90 (280)
Q Consensus 86 k~~~~ 90 (280)
.....
T Consensus 367 ~~~g~ 371 (419)
T KOG0116|consen 367 GFRGN 371 (419)
T ss_pred ccccc
Confidence 65443
No 64
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.19 E-value=5.8e-11 Score=112.65 Aligned_cols=84 Identities=21% Similarity=0.536 Sum_probs=76.4
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
.++..|||.||+++++..+|.++|+.||+|.+|+|+++.+- +++| ||+|+++++|++||+.||+..+.++.|.|.++
T Consensus 74 rd~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g--~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~ 150 (369)
T KOG0123|consen 74 RDPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENG--SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLF 150 (369)
T ss_pred cCCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCC--ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeec
Confidence 44556999999999999999999999999999999998653 9999 99999999999999999999999999999988
Q ss_pred CCCCCCC
Q 023559 84 QPKMGGE 90 (280)
Q Consensus 84 ~~k~~~~ 90 (280)
..+.+..
T Consensus 151 ~~~~er~ 157 (369)
T KOG0123|consen 151 ERKEERE 157 (369)
T ss_pred cchhhhc
Confidence 8766543
No 65
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.16 E-value=1.1e-10 Score=101.63 Aligned_cols=82 Identities=20% Similarity=0.454 Sum_probs=73.7
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHH----HHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEE
Q 023559 3 GKDENRIFVGGLSWNVTERQLEN----AFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVI 78 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~----~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I 78 (280)
..++.||||.||+..+..++|+. +|++||+|..|.+.. |.+.+|-|||+|++.+.|..|+.+|++..|-++++
T Consensus 6 ~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~m 82 (221)
T KOG4206|consen 6 VNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPM 82 (221)
T ss_pred cCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchh
Confidence 34566999999999999998877 999999999988763 56789999999999999999999999999999999
Q ss_pred EEEecCCCC
Q 023559 79 SVNKAQPKM 87 (280)
Q Consensus 79 ~V~~a~~k~ 87 (280)
.|++|+.+.
T Consensus 83 riqyA~s~s 91 (221)
T KOG4206|consen 83 RIQYAKSDS 91 (221)
T ss_pred heecccCcc
Confidence 999998655
No 66
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=99.13 E-value=6.8e-11 Score=109.26 Aligned_cols=86 Identities=33% Similarity=0.664 Sum_probs=79.6
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
..+|||+.||.+++|++|++.|.+|+.|..+.|+.++.+.++++|+||+|++++++++++ .+.-++|++++|+|..|.|
T Consensus 97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~vevkrA~p 175 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVT-LQKFHDFNGKKVEVKRAIP 175 (311)
T ss_pred eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceec-ccceeeecCceeeEeeccc
Confidence 569999999999999999999999999999999999999999999999999999999998 5567899999999999999
Q ss_pred CCCCCCC
Q 023559 86 KMGGEVS 92 (280)
Q Consensus 86 k~~~~~~ 92 (280)
+......
T Consensus 176 k~~~~~~ 182 (311)
T KOG4205|consen 176 KEVMQST 182 (311)
T ss_pred hhhcccc
Confidence 9876543
No 67
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.12 E-value=1.3e-10 Score=115.58 Aligned_cols=79 Identities=29% Similarity=0.508 Sum_probs=72.8
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
++||||+.|+.+|+|.+|..+|+.||+|.+|.|+.. ++||||++....+|++||++|++..|..+.|+|.||..
T Consensus 421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g 494 (894)
T KOG0132|consen 421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVG 494 (894)
T ss_pred eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeecc
Confidence 689999999999999999999999999999998754 67999999999999999999999999999999999986
Q ss_pred CCCCC
Q 023559 86 KMGGE 90 (280)
Q Consensus 86 k~~~~ 90 (280)
+..+.
T Consensus 495 ~G~ks 499 (894)
T KOG0132|consen 495 KGPKS 499 (894)
T ss_pred CCcch
Confidence 65443
No 68
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.11 E-value=1.9e-10 Score=111.14 Aligned_cols=80 Identities=29% Similarity=0.547 Sum_probs=75.6
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
...|||.+|+..|...+|+.||++||+|+-.+|+++..+.-.++|+||++.+.++|.+||+.||.++|.++.|.|+.++.
T Consensus 405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKN 484 (940)
T KOG4661|consen 405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKN 484 (940)
T ss_pred ccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeeccc
Confidence 46899999999999999999999999999999999988877889999999999999999999999999999999998873
No 69
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.09 E-value=2e-10 Score=108.17 Aligned_cols=76 Identities=21% Similarity=0.451 Sum_probs=69.7
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
+.+.|+|||.|||+++||+.|++-|..||.|+.+.|+ +.+++++ .|.|.++++|+.||..|++..|+++.|+|.+
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim---e~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y 607 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM---ENGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTY 607 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhhhh---ccCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeee
Confidence 4678999999999999999999999999999999995 3467776 8999999999999999999999999999986
Q ss_pred c
Q 023559 83 A 83 (280)
Q Consensus 83 a 83 (280)
.
T Consensus 608 ~ 608 (608)
T KOG4212|consen 608 F 608 (608)
T ss_pred C
Confidence 4
No 70
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.09 E-value=3.9e-10 Score=97.09 Aligned_cols=82 Identities=16% Similarity=0.397 Sum_probs=75.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhc-CCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRF-GKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~-G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
....++|..||.-+.|.+|..+|.+| |.|..++|.+++.||.+++||||+|++++.|+-|.+.||+..|.++.|.|.+-
T Consensus 48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vm 127 (214)
T KOG4208|consen 48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVM 127 (214)
T ss_pred CccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEe
Confidence 45678999999999999999999998 77888888899999999999999999999999999999999999999999877
Q ss_pred CCC
Q 023559 84 QPK 86 (280)
Q Consensus 84 ~~k 86 (280)
.|.
T Consensus 128 ppe 130 (214)
T KOG4208|consen 128 PPE 130 (214)
T ss_pred Cch
Confidence 665
No 71
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.08 E-value=1.3e-10 Score=103.44 Aligned_cols=84 Identities=26% Similarity=0.542 Sum_probs=75.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee---CCeEEEEE
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF---GDRVISVN 81 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l---~gr~I~V~ 81 (280)
+.++|||+-|...-.|+|++.+|..||+|++|.|++.++ +.+||||||.|.+..+|++||..||+... ....|+|+
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~d-g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK 96 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPD-GNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK 96 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCC-CCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence 568999999999999999999999999999999998754 78999999999999999999999999754 34678999
Q ss_pred ecCCCCCC
Q 023559 82 KAQPKMGG 89 (280)
Q Consensus 82 ~a~~k~~~ 89 (280)
++...+++
T Consensus 97 ~ADTdkER 104 (371)
T KOG0146|consen 97 FADTDKER 104 (371)
T ss_pred eccchHHH
Confidence 99877654
No 72
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.06 E-value=4.7e-10 Score=103.00 Aligned_cols=79 Identities=22% Similarity=0.458 Sum_probs=68.9
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHh-cCceeCCeEEEEE
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREM-HGREFGDRVISVN 81 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~l-ng~~l~gr~I~V~ 81 (280)
+...++|||++|...++|.+|+++|.+||+|..|.|+..+ ++|||+|.+.++|+.|.+++ +...|++..|+|.
T Consensus 225 D~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~ 298 (377)
T KOG0153|consen 225 DTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIK 298 (377)
T ss_pred ccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcceeeecceEEEEE
Confidence 4456899999999999999999999999999999998763 49999999999999987554 5557799999999
Q ss_pred ecCCCC
Q 023559 82 KAQPKM 87 (280)
Q Consensus 82 ~a~~k~ 87 (280)
|..+++
T Consensus 299 Wg~~~~ 304 (377)
T KOG0153|consen 299 WGRPKQ 304 (377)
T ss_pred eCCCcc
Confidence 999843
No 73
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.05 E-value=7.1e-10 Score=99.02 Aligned_cols=83 Identities=18% Similarity=0.432 Sum_probs=75.3
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
..+++|+|.|||..|++++|+++|.+|++++.+.|..++ ++.+.|.|-|+|+..++|++||+.+|++.|++..|+|++.
T Consensus 81 ~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i 159 (243)
T KOG0533|consen 81 TRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEII 159 (243)
T ss_pred CCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEe
Confidence 445889999999999999999999999999998888875 6889999999999999999999999999999999999887
Q ss_pred CCCC
Q 023559 84 QPKM 87 (280)
Q Consensus 84 ~~k~ 87 (280)
.+..
T Consensus 160 ~~~~ 163 (243)
T KOG0533|consen 160 SSPS 163 (243)
T ss_pred cCcc
Confidence 6544
No 74
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.04 E-value=5.9e-10 Score=110.19 Aligned_cols=78 Identities=22% Similarity=0.539 Sum_probs=70.9
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCC---CCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSG---RPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg---~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
++|||.||++++|.++|+.+|.+.|.|..|.|.+.++.. .+.||+||+|.++++|++|++.|+++.|+++.|.|.++
T Consensus 516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S 595 (725)
T KOG0110|consen 516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKIS 595 (725)
T ss_pred hhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEec
Confidence 449999999999999999999999999999888765432 24599999999999999999999999999999999999
Q ss_pred C
Q 023559 84 Q 84 (280)
Q Consensus 84 ~ 84 (280)
.
T Consensus 596 ~ 596 (725)
T KOG0110|consen 596 E 596 (725)
T ss_pred c
Confidence 8
No 75
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.98 E-value=8.2e-10 Score=102.08 Aligned_cols=81 Identities=28% Similarity=0.594 Sum_probs=76.4
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
+.-++|||..+.++++|+||+.+|+.||+|++|+|.+.+.+..++||+||+|.+..+...||..||-+.|.++-|+|-.+
T Consensus 208 k~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~ 287 (544)
T KOG0124|consen 208 KKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKC 287 (544)
T ss_pred HhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccc
Confidence 34679999999999999999999999999999999999999999999999999999999999999999999999999766
Q ss_pred C
Q 023559 84 Q 84 (280)
Q Consensus 84 ~ 84 (280)
.
T Consensus 288 v 288 (544)
T KOG0124|consen 288 V 288 (544)
T ss_pred c
Confidence 4
No 76
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.98 E-value=1.8e-09 Score=99.13 Aligned_cols=83 Identities=19% Similarity=0.420 Sum_probs=75.2
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEE--------EEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee
Q 023559 2 AGKDENRIFVGGLSWNVTERQLENAFDRFGKIIE--------CQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 2 ~~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~--------v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
+...++.|||.|||.++|.+++.++|++||.|.. |+|..+.+ |+.||-|+|.|...++++.||+.|+...|
T Consensus 130 ~~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~-G~lKGDaLc~y~K~ESVeLA~~ilDe~~~ 208 (382)
T KOG1548|consen 130 EPKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-GKLKGDALCCYIKRESVELAIKILDEDEL 208 (382)
T ss_pred ccccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-CCccCceEEEeecccHHHHHHHHhCcccc
Confidence 3456778999999999999999999999998864 78887754 99999999999999999999999999999
Q ss_pred CCeEEEEEecCC
Q 023559 74 GDRVISVNKAQP 85 (280)
Q Consensus 74 ~gr~I~V~~a~~ 85 (280)
.++.|+|+.|+=
T Consensus 209 rg~~~rVerAkf 220 (382)
T KOG1548|consen 209 RGKKLRVERAKF 220 (382)
T ss_pred cCcEEEEehhhh
Confidence 999999999873
No 77
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.96 E-value=1.7e-09 Score=102.71 Aligned_cols=75 Identities=17% Similarity=0.342 Sum_probs=70.6
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
..|||+ ++|||..|.++|+.+++|++|+|.++. | +.|||||.|.++++|++||++||-..|.+++|.|.|+...
T Consensus 2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd 75 (369)
T KOG0123|consen 2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRD 75 (369)
T ss_pred CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccC
Confidence 478999 899999999999999999999999998 7 9999999999999999999999999999999999998754
Q ss_pred C
Q 023559 87 M 87 (280)
Q Consensus 87 ~ 87 (280)
.
T Consensus 76 ~ 76 (369)
T KOG0123|consen 76 P 76 (369)
T ss_pred C
Confidence 3
No 78
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.94 E-value=7.3e-10 Score=109.54 Aligned_cols=81 Identities=21% Similarity=0.468 Sum_probs=75.7
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
-++|+|.|||+..+-.+|++||..||+|+.|.|+.......++|||||+|.++.+|+.|+.+|..+-|.++.|+++||+.
T Consensus 613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA~~ 692 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWAKS 692 (725)
T ss_pred cceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehhcc
Confidence 47999999999999999999999999999999998766677899999999999999999999999999999999999974
Q ss_pred C
Q 023559 86 K 86 (280)
Q Consensus 86 k 86 (280)
.
T Consensus 693 d 693 (725)
T KOG0110|consen 693 D 693 (725)
T ss_pred c
Confidence 3
No 79
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.94 E-value=3.2e-10 Score=98.50 Aligned_cols=80 Identities=14% Similarity=0.235 Sum_probs=71.6
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
.+...||||.||...|+|+.|.++|-+-|.|.+|.|...++. +.| ||||+|+++.+++-||+.||+..|.+..|.|.+
T Consensus 6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~-~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~ 83 (267)
T KOG4454|consen 6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQ-EQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTL 83 (267)
T ss_pred cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccC-CCc-eeeeecccccchhhhhhhcccchhccchhhccc
Confidence 456789999999999999999999999999999999887654 455 999999999999999999999999998888875
Q ss_pred cC
Q 023559 83 AQ 84 (280)
Q Consensus 83 a~ 84 (280)
-.
T Consensus 84 r~ 85 (267)
T KOG4454|consen 84 RC 85 (267)
T ss_pred cc
Confidence 54
No 80
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.90 E-value=2.4e-09 Score=95.44 Aligned_cols=83 Identities=22% Similarity=0.476 Sum_probs=77.9
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
+.+...|||+||.+.+|.++|+.+|+.|+.|..|.|+.++.++.+++|+||+|.+.+.++.||+ |++..|.+..|+|.+
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~ 176 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL 176 (231)
T ss_pred ccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence 4568899999999999999999999999999999999999999999999999999999999996 999999999999998
Q ss_pred cCCC
Q 023559 83 AQPK 86 (280)
Q Consensus 83 a~~k 86 (280)
....
T Consensus 177 ~r~~ 180 (231)
T KOG4209|consen 177 KRTN 180 (231)
T ss_pred eeee
Confidence 7765
No 81
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.89 E-value=2e-09 Score=94.36 Aligned_cols=74 Identities=32% Similarity=0.700 Sum_probs=67.7
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
.+|||++||+.+.+++|+.||..|++|..|.|. .+|+||+|+++.+|..||..||+++|.+.+|.|+++..+
T Consensus 2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcCceecceeeeeeccccc
Confidence 479999999999999999999999999999885 349999999999999999999999999999999998865
Q ss_pred CC
Q 023559 87 MG 88 (280)
Q Consensus 87 ~~ 88 (280)
..
T Consensus 74 ~~ 75 (216)
T KOG0106|consen 74 RR 75 (216)
T ss_pred cc
Confidence 43
No 82
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.87 E-value=1.6e-08 Score=88.21 Aligned_cols=85 Identities=19% Similarity=0.328 Sum_probs=68.7
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEee-cCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC---CeEEEEE
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIML-ERDSGRPRGFGFITYADRRAMDDAIREMHGREFG---DRVISVN 81 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~-d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~---gr~I~V~ 81 (280)
..||||.+||.+|...+|..+|..|--.+.+.|.. .+.....+-+|||+|.+...|++|+++||+..|+ ..+|+|+
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stLhiE 113 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTLHIE 113 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCceeEee
Confidence 68999999999999999999999886555554432 3332334579999999999999999999999984 7889999
Q ss_pred ecCCCCCCC
Q 023559 82 KAQPKMGGE 90 (280)
Q Consensus 82 ~a~~k~~~~ 90 (280)
+|+......
T Consensus 114 lAKSNtK~k 122 (284)
T KOG1457|consen 114 LAKSNTKRK 122 (284)
T ss_pred ehhcCcccc
Confidence 998665443
No 83
>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=98.81 E-value=3.4e-08 Score=76.46 Aligned_cols=80 Identities=14% Similarity=0.284 Sum_probs=70.6
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhc--CCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC----CeEEEE
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRF--GKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG----DRVISV 80 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~--G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~----gr~I~V 80 (280)
+||.|.|||...|+++|.+++... ++...+.|+.|..+..+.|||||.|.+++.|.+..+.++++.+. .+.+.|
T Consensus 2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~i 81 (97)
T PF04059_consen 2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCEI 81 (97)
T ss_pred eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEEE
Confidence 799999999999999999888653 57777899999999999999999999999999999999999874 567788
Q ss_pred EecCCC
Q 023559 81 NKAQPK 86 (280)
Q Consensus 81 ~~a~~k 86 (280)
.+|+-+
T Consensus 82 ~yAriQ 87 (97)
T PF04059_consen 82 SYARIQ 87 (97)
T ss_pred ehhHhh
Confidence 888654
No 84
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.74 E-value=3.3e-08 Score=94.59 Aligned_cols=79 Identities=24% Similarity=0.467 Sum_probs=67.0
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
....|-|.+|||++|+++|.+||+.+ .|+.+.|+ +.++++.|-|||+|+++|++++|| +++...|..+-|+|-.+.
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~--r~~Gr~sGeA~Ve~~seedv~~Al-kkdR~~mg~RYIEVf~~~ 84 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNC-GIENLEIP--RRNGRPSGEAYVEFTSEEDVEKAL-KKDRESMGHRYIEVFTAG 84 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcC-ceeEEEEe--ccCCCcCcceEEEeechHHHHHHH-HhhHHHhCCceEEEEccC
Confidence 34567788999999999999999999 78886554 457899999999999999999999 567788899999998775
Q ss_pred CCC
Q 023559 85 PKM 87 (280)
Q Consensus 85 ~k~ 87 (280)
++.
T Consensus 85 ~~e 87 (510)
T KOG4211|consen 85 GAE 87 (510)
T ss_pred Ccc
Confidence 443
No 85
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.66 E-value=1.6e-08 Score=97.90 Aligned_cols=72 Identities=24% Similarity=0.419 Sum_probs=64.8
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEE
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVIS 79 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~ 79 (280)
..++.+|+|.|||..|++++|..+|+.||+|+.|+.... ..+.+||+|.+..+|++|+++|+..+|.++.|+
T Consensus 72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~-----~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k 143 (549)
T KOG4660|consen 72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPN-----KRGIVFVEFYDVRDAERALKALNRREIAGKRIK 143 (549)
T ss_pred cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcccc-----cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence 346789999999999999999999999999999765443 468999999999999999999999999998887
No 86
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.64 E-value=2.1e-08 Score=88.97 Aligned_cols=83 Identities=31% Similarity=0.648 Sum_probs=76.9
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
.+..+||.+.|..+++.+.|...|.+|-.....+|++++-|++++||.||.|.+.+++..|+.+|+++.+..++|++..+
T Consensus 188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRkS 267 (290)
T KOG0226|consen 188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRKS 267 (290)
T ss_pred cccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhhh
Confidence 45789999999999999999999999988888999999999999999999999999999999999999999999988766
Q ss_pred CCC
Q 023559 84 QPK 86 (280)
Q Consensus 84 ~~k 86 (280)
..+
T Consensus 268 ~wk 270 (290)
T KOG0226|consen 268 EWK 270 (290)
T ss_pred hHH
Confidence 544
No 87
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.57 E-value=1.1e-07 Score=94.38 Aligned_cols=82 Identities=26% Similarity=0.491 Sum_probs=73.0
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCC---CCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDS---GRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~t---g~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
...+.|||+||++.|+|+.|...|..||+|..|+|+..+.. ...+-|+||.|-+..+|++|++.|+++.+....|++
T Consensus 172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~ 251 (877)
T KOG0151|consen 172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMKL 251 (877)
T ss_pred CcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeeee
Confidence 45789999999999999999999999999999999875532 334579999999999999999999999999999999
Q ss_pred EecCC
Q 023559 81 NKAQP 85 (280)
Q Consensus 81 ~~a~~ 85 (280)
-|+++
T Consensus 252 gWgk~ 256 (877)
T KOG0151|consen 252 GWGKA 256 (877)
T ss_pred ccccc
Confidence 99853
No 88
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.48 E-value=7.7e-08 Score=84.46 Aligned_cols=72 Identities=25% Similarity=0.504 Sum_probs=64.0
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
+...+.|+|.+|+..+.|++|+++|.++|+++.+.++ ..++||+|+++++|+.||+.|++++|.++.|+|..
T Consensus 96 ~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~--------~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~ 167 (216)
T KOG0106|consen 96 SRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR--------RNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEK 167 (216)
T ss_pred ccccceeeeccchhhhhHHHHhhhhcccCCCchhhhh--------ccccceeehhhhhhhhcchhccchhhcCceeeecc
Confidence 4567899999999999999999999999999665553 34999999999999999999999999999999933
No 89
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.42 E-value=1.9e-07 Score=90.91 Aligned_cols=83 Identities=33% Similarity=0.637 Sum_probs=78.2
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
..++|||++||..+++.+|++++..|+.++...++.+..++.+++|||.+|.+......||..||++.|.+++|+|+.|.
T Consensus 288 ~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~ 367 (500)
T KOG0120|consen 288 SPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAI 367 (500)
T ss_pred ccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhh
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999999886
Q ss_pred CCC
Q 023559 85 PKM 87 (280)
Q Consensus 85 ~k~ 87 (280)
+..
T Consensus 368 ~g~ 370 (500)
T KOG0120|consen 368 VGA 370 (500)
T ss_pred ccc
Confidence 543
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.42 E-value=5.8e-07 Score=86.17 Aligned_cols=78 Identities=21% Similarity=0.454 Sum_probs=63.5
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEE-EEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIE-CQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~-v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
+...|-|.+||+.||++||.+||+-.-.|.. |.|+.+ ..+++.+-|||.|++.++|++||+ -|...|..+-|+|-.+
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d-~rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMD-QRGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFRS 179 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeecc-CCCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeehh
Confidence 5678899999999999999999998844444 334444 346789999999999999999995 4668889999999766
Q ss_pred C
Q 023559 84 Q 84 (280)
Q Consensus 84 ~ 84 (280)
.
T Consensus 180 s 180 (510)
T KOG4211|consen 180 S 180 (510)
T ss_pred H
Confidence 4
No 91
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.41 E-value=1.3e-06 Score=82.26 Aligned_cols=75 Identities=17% Similarity=0.312 Sum_probs=69.1
Q ss_pred CcEEEEcCCCCC-CcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 6 ENRIFVGGLSWN-VTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 6 ~~~lfVgnLp~~-vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
+..|.|.||.+. ||++.|..+|..||.|..|+|+.++.. -|+|.+.+...|+.|++.|++..|-+++|+|.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd-----~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKD-----NALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCc-----ceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 578899999876 899999999999999999999988643 79999999999999999999999999999999987
Q ss_pred C
Q 023559 85 P 85 (280)
Q Consensus 85 ~ 85 (280)
-
T Consensus 372 H 372 (492)
T KOG1190|consen 372 H 372 (492)
T ss_pred C
Confidence 3
No 92
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.38 E-value=1.1e-07 Score=92.18 Aligned_cols=83 Identities=23% Similarity=0.455 Sum_probs=76.5
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
+.+..+||+--|+..+++.+|.+||+.+|+|..|.|+.++.+..++|.|||+|.+++.+..|| .|.++.+.+.+|.|+.
T Consensus 176 ERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~ai-aLsGqrllg~pv~vq~ 254 (549)
T KOG0147|consen 176 ERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAI-ALSGQRLLGVPVIVQL 254 (549)
T ss_pred HHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHh-hhcCCcccCceeEecc
Confidence 345678999999999999999999999999999999999999999999999999999999999 8999999999999987
Q ss_pred cCCC
Q 023559 83 AQPK 86 (280)
Q Consensus 83 a~~k 86 (280)
.+..
T Consensus 255 sEae 258 (549)
T KOG0147|consen 255 SEAE 258 (549)
T ss_pred cHHH
Confidence 7543
No 93
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.35 E-value=1.7e-06 Score=75.71 Aligned_cols=77 Identities=17% Similarity=0.377 Sum_probs=68.1
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC-CeEEEEE
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG-DRVISVN 81 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~-gr~I~V~ 81 (280)
..++.+||+.|||.+++.+.|..+|.+|...++|.++... ++.|||+|.+...|..|.+.|++..|- ...|.|.
T Consensus 143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~it~~~~m~i~ 217 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKITKKNTMQIT 217 (221)
T ss_pred CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhccceeccCceEEec
Confidence 3467899999999999999999999999999999988653 569999999999999999999998885 7788887
Q ss_pred ecC
Q 023559 82 KAQ 84 (280)
Q Consensus 82 ~a~ 84 (280)
+|+
T Consensus 218 ~a~ 220 (221)
T KOG4206|consen 218 FAK 220 (221)
T ss_pred ccC
Confidence 764
No 94
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=98.33 E-value=1.2e-06 Score=68.87 Aligned_cols=70 Identities=13% Similarity=0.321 Sum_probs=45.3
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCc-----eeCCeEEEEE
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR-----EFGDRVISVN 81 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~-----~l~gr~I~V~ 81 (280)
+.|+|.+|+..|+.++|+++|++|+.|..|.+..... .|||-|.+++.|++||+.+... .|.+..++++
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~------~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~ 75 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDT------EGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE 75 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-S------EEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCC------EEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence 4688999999999999999999999999999876432 7999999999999999877654 4566666665
Q ss_pred e
Q 023559 82 K 82 (280)
Q Consensus 82 ~ 82 (280)
+
T Consensus 76 v 76 (105)
T PF08777_consen 76 V 76 (105)
T ss_dssp -
T ss_pred E
Confidence 4
No 95
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.32 E-value=6.2e-07 Score=82.47 Aligned_cols=85 Identities=22% Similarity=0.524 Sum_probs=76.8
Q ss_pred CCCcEEE-EcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 4 KDENRIF-VGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 4 ~~~~~lf-VgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
.+..+|| |.+|+..+++++|+++|..++.|+.|.++.++.++..++||+|+|.+.+.++.|+.. +...+.+.+|.|..
T Consensus 182 ~~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 260 (285)
T KOG4210|consen 182 GPSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEE 260 (285)
T ss_pred CccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCccccccc
Confidence 4556677 999999999999999999999999999999999999999999999999999999866 77888999999999
Q ss_pred cCCCCCC
Q 023559 83 AQPKMGG 89 (280)
Q Consensus 83 a~~k~~~ 89 (280)
..+....
T Consensus 261 ~~~~~~~ 267 (285)
T KOG4210|consen 261 DEPRPKS 267 (285)
T ss_pred CCCCccc
Confidence 8877554
No 96
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.26 E-value=9.2e-07 Score=77.40 Aligned_cols=64 Identities=20% Similarity=0.365 Sum_probs=53.0
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
-.||||.||..+|||++|+.+|+.|--...++|... .+ ..+|||+|++.+.|..||..|++..|
T Consensus 210 cstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~--~g--~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR--GG--MPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC--CC--cceEeecHHHHHHHHHHHHHhhccee
Confidence 358999999999999999999999976666666321 12 34899999999999999999998765
No 97
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.21 E-value=1e-06 Score=81.41 Aligned_cols=76 Identities=17% Similarity=0.402 Sum_probs=67.0
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcC--CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFG--KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G--~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
...+||+||-|+||+++|.+.+...| .|.++++..++.++.+||||+|...+..++++.|+.|..++|.++.-+|.
T Consensus 80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~ 157 (498)
T KOG4849|consen 80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL 157 (498)
T ss_pred eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence 45799999999999999999888765 67778888999999999999999999999999999999999988765553
No 98
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=98.20 E-value=7.5e-06 Score=61.39 Aligned_cols=70 Identities=20% Similarity=0.332 Sum_probs=47.8
Q ss_pred cEEEEcCCCCCCcHHH----HHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 7 NRIFVGGLSWNVTERQ----LENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 7 ~~lfVgnLp~~vte~d----L~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
..|+|.|||.+.+... |++++..+| +|..| . .+.|+|.|.+++.|+.|++.|++..+-+.+|.|.
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~--------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~ 72 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S--------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVS 72 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEE
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e--------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEE
Confidence 5799999999988766 556666775 55554 1 2479999999999999999999999999999999
Q ss_pred ecCCC
Q 023559 82 KAQPK 86 (280)
Q Consensus 82 ~a~~k 86 (280)
++...
T Consensus 73 ~~~~~ 77 (90)
T PF11608_consen 73 FSPKN 77 (90)
T ss_dssp SS--S
T ss_pred EcCCc
Confidence 87543
No 99
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.02 E-value=2.1e-05 Score=76.83 Aligned_cols=78 Identities=21% Similarity=0.430 Sum_probs=64.8
Q ss_pred CCcEEEEcCCCCCCcH------HHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee-CCeE
Q 023559 5 DENRIFVGGLSWNVTE------RQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF-GDRV 77 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte------~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l-~gr~ 77 (280)
....|+|-|+|..-.. ..|.++|+++|+|+.+.++.+.+++ .+||+|++|++..+|+.|++.||++.| ++++
T Consensus 57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHt 135 (698)
T KOG2314|consen 57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHT 135 (698)
T ss_pred cceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccce
Confidence 3568899999864322 3467889999999999999887765 899999999999999999999999988 5778
Q ss_pred EEEEec
Q 023559 78 ISVNKA 83 (280)
Q Consensus 78 I~V~~a 83 (280)
+.|..-
T Consensus 136 f~v~~f 141 (698)
T KOG2314|consen 136 FFVRLF 141 (698)
T ss_pred EEeehh
Confidence 877644
No 100
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.00 E-value=1.4e-05 Score=73.76 Aligned_cols=82 Identities=23% Similarity=0.412 Sum_probs=65.3
Q ss_pred CCcEEEEcCCCCCCcHHH----H--HHHHhhcCCeEEEEEeecCCCC-CCccEE--EEEeCCHHHHHHHHHHhcCceeCC
Q 023559 5 DENRIFVGGLSWNVTERQ----L--ENAFDRFGKIIECQIMLERDSG-RPRGFG--FITYADRRAMDDAIREMHGREFGD 75 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~d----L--~~~F~~~G~I~~v~i~~d~~tg-~~rG~a--FV~F~~~e~A~~Ai~~lng~~l~g 75 (280)
+.+-|||-+||+.+..++ | .++|.+||+|++|.|.+...+. ...+.+ ||+|.+.|+|..||.++++..+++
T Consensus 113 QKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DG 192 (480)
T COG5175 113 QKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDG 192 (480)
T ss_pred ecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccC
Confidence 456789999999987665 3 5889999999998886544221 122334 999999999999999999999999
Q ss_pred eEEEEEecCCC
Q 023559 76 RVISVNKAQPK 86 (280)
Q Consensus 76 r~I~V~~a~~k 86 (280)
+.|+..+-+.|
T Consensus 193 r~lkatYGTTK 203 (480)
T COG5175 193 RVLKATYGTTK 203 (480)
T ss_pred ceEeeecCchH
Confidence 99999877643
No 101
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.98 E-value=5.4e-06 Score=78.47 Aligned_cols=70 Identities=14% Similarity=0.195 Sum_probs=58.7
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeec---CCCC--C--------CccEEEEEeCCHHHHHHHHHHhc
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLE---RDSG--R--------PRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d---~~tg--~--------~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
+.+..+|.|.|||.+-.-+.|.+||..+|.|+.|+|+.. +.+. . .+-+|||+|+..+.|.+|.+.|+
T Consensus 228 el~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~ 307 (484)
T KOG1855|consen 228 ELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLN 307 (484)
T ss_pred ccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhc
Confidence 457899999999999888999999999999999999876 3321 1 25689999999999999998886
Q ss_pred Cce
Q 023559 70 GRE 72 (280)
Q Consensus 70 g~~ 72 (280)
...
T Consensus 308 ~e~ 310 (484)
T KOG1855|consen 308 PEQ 310 (484)
T ss_pred hhh
Confidence 543
No 102
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.98 E-value=1.9e-05 Score=54.45 Aligned_cols=53 Identities=25% Similarity=0.500 Sum_probs=43.3
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHH
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAI 65 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai 65 (280)
++.|-|.+++++..+..|+ +|.+||+|+++.+... .-+.+|+|++..+|++||
T Consensus 1 ~~wI~V~Gf~~~~~~~vl~-~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 1 STWISVSGFPPDLAEEVLE-HFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred CcEEEEEeECchHHHHHHH-HHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 4678899999887766554 8889999999988632 238999999999999985
No 103
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.92 E-value=3.1e-05 Score=77.25 Aligned_cols=76 Identities=16% Similarity=0.327 Sum_probs=65.3
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
+.|-|.|+|++|+-+||.+||..|-.+-.-.+++--+.++..|-|.|.|++.++|.+|.+.|+++.|..++|+|.+
T Consensus 868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i 943 (944)
T KOG4307|consen 868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 3778999999999999999999995554433334446689999999999999999999999999999999999875
No 104
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=97.83 E-value=0.00012 Score=62.65 Aligned_cols=64 Identities=22% Similarity=0.451 Sum_probs=58.0
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG 74 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~ 74 (280)
....+|.|.+||++.+|++|+++..+-|.|....|.++ +++.|+|...|+++-||.+|..+.+.
T Consensus 113 rSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~ 176 (241)
T KOG0105|consen 113 RSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR 176 (241)
T ss_pred ccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence 35678999999999999999999999999999998876 38999999999999999999988764
No 105
>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=97.77 E-value=0.00012 Score=57.02 Aligned_cols=80 Identities=20% Similarity=0.315 Sum_probs=52.3
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEE-EeecC------CCCCCccEEEEEeCCHHHHHHHHHHhcCceeCC
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQ-IMLER------DSGRPRGFGFITYADRRAMDDAIREMHGREFGD 75 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~-i~~d~------~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~g 75 (280)
+...+.|.|-++|+..+ ..|.++|++||+|.+.. +..+. ..-....+..|+|+++.+|++|| ..|++.|.+
T Consensus 3 ~~~~~wVtVFGfp~~~~-~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL-~~NG~i~~g 80 (100)
T PF05172_consen 3 QDSETWVTVFGFPPSAS-NQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRAL-QKNGTIFSG 80 (100)
T ss_dssp -GGCCEEEEE---GGGH-HHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHH-TTTTEEETT
T ss_pred CcCCeEEEEEccCHHHH-HHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHH-HhCCeEEcC
Confidence 34567788999999855 56678899999998874 10000 00012349999999999999999 679999987
Q ss_pred e-EEEEEecC
Q 023559 76 R-VISVNKAQ 84 (280)
Q Consensus 76 r-~I~V~~a~ 84 (280)
. .|-|.+++
T Consensus 81 ~~mvGV~~~~ 90 (100)
T PF05172_consen 81 SLMVGVKPCD 90 (100)
T ss_dssp CEEEEEEE-H
T ss_pred cEEEEEEEcH
Confidence 5 55577664
No 106
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.77 E-value=0.00012 Score=68.45 Aligned_cols=79 Identities=16% Similarity=0.259 Sum_probs=69.6
Q ss_pred CCCcEEEEcCCCCC-CcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 4 KDENRIFVGGLSWN-VTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 4 ~~~~~lfVgnLp~~-vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
.+.+.+.|-+|... +.-+.|..+|..||.|++|++++.+ .+.|.|++.+..+++.||..||+..|-+.+|.|.+
T Consensus 285 ~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~ 359 (494)
T KOG1456|consen 285 APGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCV 359 (494)
T ss_pred CCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEee
Confidence 35678899999876 5667899999999999999999765 46899999999999999999999999999999998
Q ss_pred cCCCC
Q 023559 83 AQPKM 87 (280)
Q Consensus 83 a~~k~ 87 (280)
++...
T Consensus 360 SkQ~~ 364 (494)
T KOG1456|consen 360 SKQNF 364 (494)
T ss_pred ccccc
Confidence 87554
No 107
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.74 E-value=6.7e-05 Score=70.87 Aligned_cols=77 Identities=14% Similarity=0.287 Sum_probs=63.5
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCC-eEEEEEec
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD-RVISVNKA 83 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~g-r~I~V~~a 83 (280)
+..+|.+.|||.+++|++|+++|.+-|..++......+ .+-+|++.+++.|+|..|+..||++.+.. ..|+|.++
T Consensus 413 psatlHlsnip~svsee~lk~~f~~~g~~vkafkff~k----d~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFS 488 (492)
T KOG1190|consen 413 PSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQK----DRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFS 488 (492)
T ss_pred chhheeeccCCcccchhHHHHhhhcCCceEEeeeecCC----CcceeecccCChhHhhhhccccccccCCCCceEEEEee
Confidence 45689999999999999999999988866555443322 23499999999999999999999999964 58899988
Q ss_pred CC
Q 023559 84 QP 85 (280)
Q Consensus 84 ~~ 85 (280)
+.
T Consensus 489 ks 490 (492)
T KOG1190|consen 489 KS 490 (492)
T ss_pred cc
Confidence 75
No 108
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=97.73 E-value=0.00013 Score=68.25 Aligned_cols=80 Identities=14% Similarity=0.179 Sum_probs=64.6
Q ss_pred CCCcEEEEcCCCC--CCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC--CeEEE
Q 023559 4 KDENRIFVGGLSW--NVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG--DRVIS 79 (280)
Q Consensus 4 ~~~~~lfVgnLp~--~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~--gr~I~ 79 (280)
.+++.|.++=|.+ .+|.+.|.++....|+|..|.|++. ++. -|.|||++.+.|++|.+.||+..|- =.+|+
T Consensus 118 ~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk--ngV---QAmVEFdsv~~AqrAk~alNGADIYsGCCTLK 192 (494)
T KOG1456|consen 118 TPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK--NGV---QAMVEFDSVEVAQRAKAALNGADIYSGCCTLK 192 (494)
T ss_pred CCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec--cce---eeEEeechhHHHHHHHhhcccccccccceeEE
Confidence 3456666555544 4888999999999999999998864 333 6999999999999999999999884 35789
Q ss_pred EEecCCCCC
Q 023559 80 VNKAQPKMG 88 (280)
Q Consensus 80 V~~a~~k~~ 88 (280)
|++|+|.+-
T Consensus 193 IeyAkP~rl 201 (494)
T KOG1456|consen 193 IEYAKPTRL 201 (494)
T ss_pred EEecCccee
Confidence 999998653
No 109
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.67 E-value=0.00016 Score=59.80 Aligned_cols=74 Identities=15% Similarity=0.327 Sum_probs=53.1
Q ss_pred CCCcEEEEcCCCC------CCcH---HHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC
Q 023559 4 KDENRIFVGGLSW------NVTE---RQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG 74 (280)
Q Consensus 4 ~~~~~lfVgnLp~------~vte---~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~ 74 (280)
.+.-||.|.-+.+ ...+ .+|.+.|.+||+|.-|+++.+ .-+|+|.+-++|.+|+ .|++++|.
T Consensus 25 PpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaal-s~dg~~v~ 95 (146)
T PF08952_consen 25 PPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAAL-SLDGIQVN 95 (146)
T ss_dssp -TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHH-HGCCSEET
T ss_pred CCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHH-ccCCcEEC
Confidence 4566777776651 1222 256778889999998888755 5899999999999999 78999999
Q ss_pred CeEEEEEecCCC
Q 023559 75 DRVISVNKAQPK 86 (280)
Q Consensus 75 gr~I~V~~a~~k 86 (280)
++.|+|.+..|.
T Consensus 96 g~~l~i~LKtpd 107 (146)
T PF08952_consen 96 GRTLKIRLKTPD 107 (146)
T ss_dssp TEEEEEEE----
T ss_pred CEEEEEEeCCcc
Confidence 999999987753
No 110
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.66 E-value=0.00015 Score=70.30 Aligned_cols=63 Identities=29% Similarity=0.712 Sum_probs=49.7
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCC---CCCcc---EEEEEeCCHHHHHHHHHHhc
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDS---GRPRG---FGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~t---g~~rG---~aFV~F~~~e~A~~Ai~~ln 69 (280)
+.+|||+.||++++|++|...|..||.|+ |.+....+. -.++| |+|+.|+++.++++.|.++.
T Consensus 259 S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~ 327 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACS 327 (520)
T ss_pred ccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHh
Confidence 57999999999999999999999999875 444421111 23567 99999999999988776654
No 111
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.62 E-value=9.7e-05 Score=69.33 Aligned_cols=80 Identities=21% Similarity=0.377 Sum_probs=67.5
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCC-eEE--EEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGK-IIE--CQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~-I~~--v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
.....|-+.+||++.+.++|.+||..|-. |.. |.|+.+ ..+.+.|-|||+|.++|.|.+|++..+++.++.+.|+|
T Consensus 278 ~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N-~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEv 356 (508)
T KOG1365|consen 278 RSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLN-GQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEV 356 (508)
T ss_pred CCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEc-CCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEE
Confidence 34668889999999999999999998863 333 666666 45889999999999999999999999988888999998
Q ss_pred EecC
Q 023559 81 NKAQ 84 (280)
Q Consensus 81 ~~a~ 84 (280)
-.+.
T Consensus 357 fp~S 360 (508)
T KOG1365|consen 357 FPCS 360 (508)
T ss_pred eecc
Confidence 7654
No 112
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=97.62 E-value=9e-05 Score=69.65 Aligned_cols=78 Identities=22% Similarity=0.277 Sum_probs=62.4
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCC---CCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDS---GRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~t---g~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
....|.|.||.+.+|.++|+.||..+|+|.+|.|+.+... ....-.|||.|.+...+..|. .|.+++|-++.|.|.
T Consensus 6 ~~~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQ-hLtntvfvdraliv~ 84 (479)
T KOG4676|consen 6 SLGVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQ-HLTNTVFVDRALIVR 84 (479)
T ss_pred CCceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHh-hhccceeeeeeEEEE
Confidence 3458999999999999999999999999999998774432 234468999999999998886 667777766666555
Q ss_pred ec
Q 023559 82 KA 83 (280)
Q Consensus 82 ~a 83 (280)
.+
T Consensus 85 p~ 86 (479)
T KOG4676|consen 85 PY 86 (479)
T ss_pred ec
Confidence 43
No 113
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.61 E-value=0.00017 Score=69.98 Aligned_cols=64 Identities=27% Similarity=0.471 Sum_probs=59.5
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHh-hcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHH
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFD-RFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIRE 67 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~-~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ 67 (280)
.+.+||||+.||.-++.++|..||+ .||.|..|-|-+|++-+.++|-+=|+|.+..+-.+||++
T Consensus 368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred CccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 4678999999999999999999998 799999999999988888999999999999999999864
No 114
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.49 E-value=0.00029 Score=69.02 Aligned_cols=63 Identities=21% Similarity=0.384 Sum_probs=50.7
Q ss_pred HHHHHhhcCCeEEEEEeecCCCC---CCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 23 LENAFDRFGKIIECQIMLERDSG---RPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 23 L~~~F~~~G~I~~v~i~~d~~tg---~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
|+..+.+|+.|..|.|...-... -..|..||+|.+.++|++|+++|++.+|.+++|+..+-.+
T Consensus 426 vr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyde 491 (500)
T KOG0120|consen 426 VRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDE 491 (500)
T ss_pred HHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCH
Confidence 33445688999999998772222 2347899999999999999999999999999998887643
No 115
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=97.49 E-value=7.3e-05 Score=73.45 Aligned_cols=75 Identities=12% Similarity=0.204 Sum_probs=62.8
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHh-hcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee---CCeEEE
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFD-RFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF---GDRVIS 79 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~-~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l---~gr~I~ 79 (280)
..++.|+|.||-.-.|.-+|++++. ..+.|++++|-+ .|-.|||.|.+.++|.+.+.+||+..+ +.+.|.
T Consensus 442 ~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmDk------IKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~ 515 (718)
T KOG2416|consen 442 EPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMDK------IKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLI 515 (718)
T ss_pred CccceEeeecccccchHHHHHHHHhhccCchHHHHHHH------hhcceeEecccHHHHHHHHHHHhccccCCCCCceeE
Confidence 4678999999999999999999998 566777764422 345899999999999999999999987 667888
Q ss_pred EEecC
Q 023559 80 VNKAQ 84 (280)
Q Consensus 80 V~~a~ 84 (280)
|.++.
T Consensus 516 adf~~ 520 (718)
T KOG2416|consen 516 ADFVR 520 (718)
T ss_pred eeecc
Confidence 88775
No 116
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.45 E-value=4.8e-05 Score=77.39 Aligned_cols=83 Identities=13% Similarity=0.269 Sum_probs=73.9
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
..+|||.|+|+..|.++|+.++.+++.++.+.+++.+ .++++|.|||.|.++.+|.+++..+....++...+.|+++.|
T Consensus 736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r-~gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~~~v~vsnp 814 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVR-AGKPKGKARVDYNTEADASRKVASVDVAGKRENNGEVQVSNP 814 (881)
T ss_pred hhhhheeCCCCCCchHHHHhhccccCCccccchhhhh-ccccccceeccCCCcchhhhhcccchhhhhhhcCccccccCC
Confidence 5689999999999999999999999999999988775 589999999999999999999999888888888889988776
Q ss_pred CCCC
Q 023559 86 KMGG 89 (280)
Q Consensus 86 k~~~ 89 (280)
...+
T Consensus 815 ~~~K 818 (881)
T KOG0128|consen 815 ERDK 818 (881)
T ss_pred cccc
Confidence 4433
No 117
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.43 E-value=0.00012 Score=65.29 Aligned_cols=73 Identities=12% Similarity=0.313 Sum_probs=62.0
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCC--------CCCc----cEEEEEeCCHHHHHHHHHHhcCce
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDS--------GRPR----GFGFITYADRRAMDDAIREMHGRE 72 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~t--------g~~r----G~aFV~F~~~e~A~~Ai~~lng~~ 72 (280)
....|||++||+.+...-|++||++||+|-.|.|..+..+ +.+. --+.|+|.+...|+.+.+.||++.
T Consensus 73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~ 152 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP 152 (278)
T ss_pred cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence 4578999999999999999999999999999998877665 2222 236799999999999999999999
Q ss_pred eCCeE
Q 023559 73 FGDRV 77 (280)
Q Consensus 73 l~gr~ 77 (280)
|.++.
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 98764
No 118
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.42 E-value=8e-05 Score=66.51 Aligned_cols=64 Identities=13% Similarity=0.296 Sum_probs=52.1
Q ss_pred HHHHHHh-hcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 22 QLENAFD-RFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 22 dL~~~F~-~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
+|...|+ +||+|+++.|..+. .-...|-++|.|..+++|++|++.||+.-|.+++|..++....
T Consensus 84 d~f~E~~~kygEiee~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT 148 (260)
T KOG2202|consen 84 DVFTELEDKYGEIEELNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVT 148 (260)
T ss_pred HHHHHHHHHhhhhhhhhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcC
Confidence 3444444 89999998776553 2456789999999999999999999999999999999887543
No 119
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.38 E-value=0.00064 Score=63.15 Aligned_cols=78 Identities=15% Similarity=0.370 Sum_probs=61.4
Q ss_pred CCCcEEEEcCCCC----CCc-------HHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCce
Q 023559 4 KDENRIFVGGLSW----NVT-------ERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGRE 72 (280)
Q Consensus 4 ~~~~~lfVgnLp~----~vt-------e~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~ 72 (280)
+..++|.|.||=. ..+ +++|.+-.++||.|.+|.|.-. .+.|.+.|.|.+.++|+.||+.|++.-
T Consensus 263 r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~----hPdGvvtV~f~n~eeA~~ciq~m~GR~ 338 (382)
T KOG1548|consen 263 RADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDR----HPDGVVTVSFRNNEEADQCIQTMDGRW 338 (382)
T ss_pred cCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEecc----CCCceeEEEeCChHHHHHHHHHhcCee
Confidence 3467888888621 122 2445566779999999988633 467899999999999999999999999
Q ss_pred eCCeEEEEEecCC
Q 023559 73 FGDRVISVNKAQP 85 (280)
Q Consensus 73 l~gr~I~V~~a~~ 85 (280)
|.++.|...+..-
T Consensus 339 fdgRql~A~i~DG 351 (382)
T KOG1548|consen 339 FDGRQLTASIWDG 351 (382)
T ss_pred ecceEEEEEEeCC
Confidence 9999999887653
No 120
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.21 E-value=0.0018 Score=46.01 Aligned_cols=56 Identities=7% Similarity=0.210 Sum_probs=46.0
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhc---CCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHh
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRF---GKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREM 68 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~---G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~l 68 (280)
-..+|+|.+|.. ++.++|+.+|..| .....|.++-|. -|-|.|.+.+.|++||.+|
T Consensus 4 rpeavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 4 RPEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred eeceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence 467899999854 7788999999988 245678888775 5889999999999999765
No 121
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=97.07 E-value=3.3e-05 Score=78.49 Aligned_cols=69 Identities=26% Similarity=0.385 Sum_probs=60.2
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG 74 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~ 74 (280)
..++||.||+..+.+++|...|..++.|..|+|...+.++..+|.|+|+|..++.|.+||.......+.
T Consensus 667 ~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 468999999999999999999999999998888777778899999999999999999999655544444
No 122
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.01 E-value=0.00047 Score=69.02 Aligned_cols=78 Identities=15% Similarity=0.075 Sum_probs=63.8
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEE-EEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIE-CQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~-v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
....|||..||..|++.++.++|+..-.|++ |.|... -+++.+..|||+|..++++.+|+...+.+.+..+.|.|...
T Consensus 433 ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~-P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv~si 511 (944)
T KOG4307|consen 433 AGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRL-PTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRVDSI 511 (944)
T ss_pred ccceEEeccCCccccccchhhhhhhhhhhhheeEeccC-CcccccchhhheeccccccchhhhcccccccCceEEEeech
Confidence 4578999999999999999999998878877 555443 45778889999999999988888776777777888888643
No 123
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.00 E-value=0.00092 Score=68.65 Aligned_cols=78 Identities=28% Similarity=0.450 Sum_probs=67.8
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC--CeEEEE
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG--DRVISV 80 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~--gr~I~V 80 (280)
..+.+.|||+.|..++....|..+|..||.|..|.+-.. .-||+|.|++...|++|++.|-+..|. .+.|.|
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~hg------q~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rv 525 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRHG------QPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRV 525 (975)
T ss_pred cccceeeccCCCCCCChHHHHHHHhhccCcceeeecccC------CcceeeecccCccchhhHHHHhcCcCCCCCccccc
Confidence 456789999999999999999999999999999887433 239999999999999999999999995 467899
Q ss_pred EecCCC
Q 023559 81 NKAQPK 86 (280)
Q Consensus 81 ~~a~~k 86 (280)
.+|.+.
T Consensus 526 dla~~~ 531 (975)
T KOG0112|consen 526 DLASPP 531 (975)
T ss_pred ccccCC
Confidence 888743
No 124
>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=96.94 E-value=0.0033 Score=47.23 Aligned_cols=55 Identities=11% Similarity=0.265 Sum_probs=42.2
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
.+.++|+ +|.++...||.++|+.||.|. |.++.+. -|||.+...+.|+.|+..+.
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~dT-------SAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWINDT-------SAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCEE-EEEECTT-------EEEEEECCCHHHHHHHHHHT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcCC-------cEEEEeecHHHHHHHHHHhc
Confidence 4566776 999999999999999999986 4444443 79999999999999998876
No 125
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=96.94 E-value=0.00069 Score=63.76 Aligned_cols=74 Identities=22% Similarity=0.356 Sum_probs=53.6
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcC----CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFG----KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G----~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
+.-.|-+.+||+++|+.++.+||...- .++.|.+++. ..++..|-|||.|..+++|++||.+ |...|.-+-|+|
T Consensus 160 ~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~r-pdgrpTGdAFvlfa~ee~aq~aL~k-hrq~iGqRYIEl 237 (508)
T KOG1365|consen 160 NQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTR-PDGRPTGDAFVLFACEEDAQFALRK-HRQNIGQRYIEL 237 (508)
T ss_pred cceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEEC-CCCCcccceEEEecCHHHHHHHHHH-HHHHHhHHHHHH
Confidence 344566789999999999999996332 3334444443 3578899999999999999999954 444555454444
No 126
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.90 E-value=0.00077 Score=64.16 Aligned_cols=75 Identities=25% Similarity=0.440 Sum_probs=59.6
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCc-eeCCeEEEEEecC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR-EFGDRVISVNKAQ 84 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~-~l~gr~I~V~~a~ 84 (280)
++|||+||.+.++..+|+.+|...- .+..-.|+ ..+||||...+...|.+||+.|+++ ++.++.+.|+.+-
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~-------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv 74 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV-------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSV 74 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcceee-------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchh
Confidence 5799999999999999999997541 11111222 1469999999999999999999987 6789999999887
Q ss_pred CCCC
Q 023559 85 PKMG 88 (280)
Q Consensus 85 ~k~~ 88 (280)
++..
T Consensus 75 ~kkq 78 (584)
T KOG2193|consen 75 PKKQ 78 (584)
T ss_pred hHHH
Confidence 7654
No 127
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=96.81 E-value=0.0023 Score=54.88 Aligned_cols=82 Identities=16% Similarity=0.161 Sum_probs=49.9
Q ss_pred CCCCcEEEEcCCCCCCcHHHHHHHHhh-cCCe---EEEEEeecCCC--CCCccEEEEEeCCHHHHHHHHHHhcCceeCC-
Q 023559 3 GKDENRIFVGGLSWNVTERQLENAFDR-FGKI---IECQIMLERDS--GRPRGFGFITYADRRAMDDAIREMHGREFGD- 75 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vte~dL~~~F~~-~G~I---~~v~i~~d~~t--g~~rG~aFV~F~~~e~A~~Ai~~lng~~l~g- 75 (280)
+.+..+|.|.+||+.+||+++.+.++. +... ..+.-.....+ .....-|+|.|.+.+++...+..++++.|.+
T Consensus 4 ~~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~ 83 (176)
T PF03467_consen 4 EKEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDS 83 (176)
T ss_dssp -----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-T
T ss_pred cccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECC
Confidence 356779999999999999999886665 4444 33331122111 1123569999999999999999999987732
Q ss_pred ----eEEEEEecC
Q 023559 76 ----RVISVNKAQ 84 (280)
Q Consensus 76 ----r~I~V~~a~ 84 (280)
....|++|.
T Consensus 84 kg~~~~~~VE~Ap 96 (176)
T PF03467_consen 84 KGNEYPAVVEFAP 96 (176)
T ss_dssp TS-EEEEEEEE-S
T ss_pred CCCCcceeEEEcc
Confidence 345677764
No 128
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.78 E-value=0.00032 Score=71.91 Aligned_cols=80 Identities=24% Similarity=0.380 Sum_probs=65.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
.+.|||++||+..+++.+|+.+|..+|.|.+|.|.+.+... -.-|+||.|.+.+.+.+|+.+|.+..|..-.+.+-+..
T Consensus 371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~-esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG~ 449 (975)
T KOG0112|consen 371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKT-ESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLGQ 449 (975)
T ss_pred hhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCc-ccchhhhhhhccccCcccchhhcCCccccCcccccccc
Confidence 46799999999999999999999999999999886653222 22389999999999999999999888865565555554
Q ss_pred C
Q 023559 85 P 85 (280)
Q Consensus 85 ~ 85 (280)
+
T Consensus 450 ~ 450 (975)
T KOG0112|consen 450 P 450 (975)
T ss_pred c
Confidence 3
No 129
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=96.76 E-value=0.0044 Score=56.59 Aligned_cols=64 Identities=19% Similarity=0.295 Sum_probs=52.2
Q ss_pred HHHHHHHhhcCCeEEEEEeecCCCCCCc-cEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 21 RQLENAFDRFGKIIECQIMLERDSGRPR-GFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 21 ~dL~~~F~~~G~I~~v~i~~d~~tg~~r-G~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
.++++...+||+|..|.|...+...... --.||+|+..++|.+|+..||+..|.++.+...+-.
T Consensus 301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn 365 (378)
T KOG1996|consen 301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN 365 (378)
T ss_pred HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence 4567778899999999888776543322 247999999999999999999999999998876543
No 130
>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=96.43 E-value=0.018 Score=42.14 Aligned_cols=67 Identities=19% Similarity=0.407 Sum_probs=40.0
Q ss_pred EEEEc-CCCCCCcHHHHHHHHhhcC-----CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 8 RIFVG-GLSWNVTERQLENAFDRFG-----KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 8 ~lfVg-nLp~~vte~dL~~~F~~~G-----~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
+|||. +-...++..+|..++.... .|-.|.|..+ |+||+... +.|+.+|+.|++..+.+++|+|+
T Consensus 2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~--------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve 72 (74)
T PF03880_consen 2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFDN--------FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-SS---------EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEeee--------EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence 45553 1234578889998888664 4556777644 89999875 47888999999999999999998
Q ss_pred ec
Q 023559 82 KA 83 (280)
Q Consensus 82 ~a 83 (280)
.|
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 76
No 131
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=96.41 E-value=0.0017 Score=62.53 Aligned_cols=76 Identities=21% Similarity=0.340 Sum_probs=60.5
Q ss_pred CCcEEEEcCCCCCC-cHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 5 DENRIFVGGLSWNV-TERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 5 ~~~~lfVgnLp~~v-te~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
+.+.|-|.-+|+.+ |.++|..+|.+||+|..|.|-.... .|.|+|.+..+|-.|. ..+...|+++.|+|.|.
T Consensus 371 dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~------~a~vTF~t~aeag~a~-~s~~avlnnr~iKl~wh 443 (526)
T KOG2135|consen 371 DHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSL------HAVVTFKTRAEAGEAY-ASHGAVLNNRFIKLFWH 443 (526)
T ss_pred ccchhhhhccCCCCchHhhhhhhhhhcCccccccccCchh------hheeeeeccccccchh-ccccceecCceeEEEEe
Confidence 34455555566664 5688999999999999998865522 7999999999997776 57889999999999999
Q ss_pred CCCC
Q 023559 84 QPKM 87 (280)
Q Consensus 84 ~~k~ 87 (280)
++..
T Consensus 444 nps~ 447 (526)
T KOG2135|consen 444 NPSP 447 (526)
T ss_pred cCCc
Confidence 8743
No 132
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.39 E-value=0.001 Score=61.58 Aligned_cols=82 Identities=23% Similarity=0.364 Sum_probs=63.0
Q ss_pred CcEEEEcCCCCCCcHHH-HH--HHHhhcCCeEEEEEeecCC--CC-CCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEE
Q 023559 6 ENRIFVGGLSWNVTERQ-LE--NAFDRFGKIIECQIMLERD--SG-RPRGFGFITYADRRAMDDAIREMHGREFGDRVIS 79 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~d-L~--~~F~~~G~I~~v~i~~d~~--tg-~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~ 79 (280)
.+.+||-.|+..+..++ |+ +.|.+||.|.+|.+..++. +. ....-++|+|+..++|..||...++..+.++.|+
T Consensus 77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lk 156 (327)
T KOG2068|consen 77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALK 156 (327)
T ss_pred hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhH
Confidence 35678888988865554 43 6788999999998877662 11 1122489999999999999999999999999888
Q ss_pred EEecCCCC
Q 023559 80 VNKAQPKM 87 (280)
Q Consensus 80 V~~a~~k~ 87 (280)
+.+.+++-
T Consensus 157 a~~gttky 164 (327)
T KOG2068|consen 157 ASLGTTKY 164 (327)
T ss_pred HhhCCCcc
Confidence 87777554
No 133
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.25 E-value=0.005 Score=55.25 Aligned_cols=77 Identities=27% Similarity=0.486 Sum_probs=61.4
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee----CCeEEEEEe
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF----GDRVISVNK 82 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l----~gr~I~V~~ 82 (280)
..|+|.||+..++.+.|++.|+.|++|....++.| ..++..+-.+|+|...-.|.+|+..+.-.-| ...++.|..
T Consensus 32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD-~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP 110 (275)
T KOG0115|consen 32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVD-DRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEP 110 (275)
T ss_pred ceEEEEecchhhhhHHHHHhhhhcCccchheeeec-ccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCCh
Confidence 68999999999999999999999999998777666 3467778899999999999999887754333 345555554
Q ss_pred cC
Q 023559 83 AQ 84 (280)
Q Consensus 83 a~ 84 (280)
..
T Consensus 111 ~e 112 (275)
T KOG0115|consen 111 ME 112 (275)
T ss_pred hh
Confidence 43
No 134
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.18 E-value=0.008 Score=59.12 Aligned_cols=70 Identities=13% Similarity=0.251 Sum_probs=53.8
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhh--cCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcC--ceeCCeEEE
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDR--FGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHG--REFGDRVIS 79 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~--~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng--~~l~gr~I~ 79 (280)
.+-|.|.|.-||..+.+++|+.||+. |-+++.|.+..+. -=||+|++.++|++|.+.|.. ++|.++.|.
T Consensus 173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpIm 245 (684)
T KOG2591|consen 173 HKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPIM 245 (684)
T ss_pred cceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcchh
Confidence 34578889999999999999999974 6678888776542 368999999999999876643 345566554
Q ss_pred E
Q 023559 80 V 80 (280)
Q Consensus 80 V 80 (280)
.
T Consensus 246 A 246 (684)
T KOG2591|consen 246 A 246 (684)
T ss_pred h
Confidence 3
No 135
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=95.94 E-value=0.062 Score=42.61 Aligned_cols=67 Identities=16% Similarity=0.198 Sum_probs=48.8
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD 75 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~g 75 (280)
..+.|..+|..++.++|..+.+.+- .|..++|+++.. .++=.++|.|.+.++|++..+.+|++.|+.
T Consensus 14 ~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~--pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 14 TLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGT--PNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred eEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCC--CceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 3444445555566677776666553 577788887643 345579999999999999999999998753
No 136
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=95.80 E-value=0.069 Score=44.20 Aligned_cols=75 Identities=15% Similarity=0.156 Sum_probs=54.7
Q ss_pred CCCCcEEEEcCCCCCCc-HHH---HHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEE
Q 023559 3 GKDENRIFVGGLSWNVT-ERQ---LENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVI 78 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~vt-e~d---L~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I 78 (280)
+.+-.||.|.=|..++. .+| |...++.||+|.+|.+.- +--|.|+|++..+|-+|+.+++. ..-+..+
T Consensus 83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG-------rqsavVvF~d~~SAC~Av~Af~s-~~pgtm~ 154 (166)
T PF15023_consen 83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG-------RQSAVVVFKDITSACKAVSAFQS-RAPGTMF 154 (166)
T ss_pred CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC-------CceEEEEehhhHHHHHHHHhhcC-CCCCceE
Confidence 45567888887776653 234 455578999999998753 22799999999999999998875 5556666
Q ss_pred EEEecCC
Q 023559 79 SVNKAQP 85 (280)
Q Consensus 79 ~V~~a~~ 85 (280)
...|-++
T Consensus 155 qCsWqqr 161 (166)
T PF15023_consen 155 QCSWQQR 161 (166)
T ss_pred Eeecccc
Confidence 7666543
No 137
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=95.77 E-value=0.0055 Score=61.30 Aligned_cols=71 Identities=18% Similarity=0.264 Sum_probs=62.7
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
.+..+|||+||...+.++.++.++..+|.|..+.++. |+|.+|..+..+..|+..|+...+++..|.+...
T Consensus 38 ~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d 108 (668)
T KOG2253|consen 38 PPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQKLIENVD 108 (668)
T ss_pred CCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcchhhccch
Confidence 4578999999999999999999999999998876643 9999999999999999999988898888777653
No 138
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=95.76 E-value=0.0061 Score=62.49 Aligned_cols=74 Identities=12% Similarity=0.201 Sum_probs=62.4
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee--CCeEEEEEecCC
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF--GDRVISVNKAQP 85 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l--~gr~I~V~~a~~ 85 (280)
+..+.|++-.++...|..+|++||.|+.++.+++-. .|.|+|.+.+.|..|+++|+++++ .+.+.+|.+|++
T Consensus 300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s~wtlr~~N------~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~V~~ak~ 373 (1007)
T KOG4574|consen 300 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRDLN------MALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT 373 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheeccccc------chhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence 444556666777888999999999999999987744 899999999999999999999976 578889999886
Q ss_pred CC
Q 023559 86 KM 87 (280)
Q Consensus 86 k~ 87 (280)
-.
T Consensus 374 ~~ 375 (1007)
T KOG4574|consen 374 LP 375 (1007)
T ss_pred cc
Confidence 54
No 139
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=95.67 E-value=0.037 Score=47.82 Aligned_cols=62 Identities=16% Similarity=0.252 Sum_probs=45.8
Q ss_pred cHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc--CceeCCeEEEEEecCCC
Q 023559 19 TERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH--GREFGDRVISVNKAQPK 86 (280)
Q Consensus 19 te~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln--g~~l~gr~I~V~~a~~k 86 (280)
..+.|+++|.++..+..+.+++. -.-..|.|.+.++|++|.+.|+ .+.|.+..|+|.++++.
T Consensus 8 ~~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 8 NLAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp -HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred hHHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 44789999999998888877643 3368999999999999999999 89999999999988644
No 140
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=95.48 E-value=0.024 Score=55.83 Aligned_cols=80 Identities=14% Similarity=0.240 Sum_probs=55.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHh-hcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee---C-CeEEEE
Q 023559 6 ENRIFVGGLSWNVTERQLENAFD-RFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF---G-DRVISV 80 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~-~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l---~-gr~I~V 80 (280)
.+++.|.|+|...|...|.+..+ ..+.-..+.|+.|-.+....|||||.|.+.+++..+.+++|++.+ + .+.++|
T Consensus 388 rtt~~iknipNK~T~~ml~~~d~~~~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~i 467 (549)
T KOG4660|consen 388 RTTLMIKNIPNKYTSKMLLAADEKNKGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASI 467 (549)
T ss_pred hhhhHhhccCchhhHHhhhhhhccccCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeee
Confidence 34555666665555554443322 234445567777777777889999999999999999999999865 3 345577
Q ss_pred EecCC
Q 023559 81 NKAQP 85 (280)
Q Consensus 81 ~~a~~ 85 (280)
.+|.-
T Consensus 468 tYArI 472 (549)
T KOG4660|consen 468 TYARI 472 (549)
T ss_pred ehhhh
Confidence 77763
No 141
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=95.45 E-value=0.0072 Score=55.71 Aligned_cols=82 Identities=18% Similarity=0.163 Sum_probs=66.9
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
.+++||+++.+.+.+.++..+|.+.+.+..+.+.....+..+++++.|.|+..+.+..||+......+....+...+.+.
T Consensus 88 ~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~~ 167 (285)
T KOG4210|consen 88 SSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNTR 167 (285)
T ss_pred cccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccccc
Confidence 67899999999999999999999999888877777677788999999999999999999966655566666665555544
Q ss_pred CC
Q 023559 86 KM 87 (280)
Q Consensus 86 k~ 87 (280)
..
T Consensus 168 ~~ 169 (285)
T KOG4210|consen 168 RG 169 (285)
T ss_pred cc
Confidence 43
No 142
>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]
Probab=95.30 E-value=0.56 Score=44.14 Aligned_cols=13 Identities=46% Similarity=0.741 Sum_probs=5.7
Q ss_pred CCCCCCCCCCCCC
Q 023559 178 GRYGDRDRYDSKD 190 (280)
Q Consensus 178 g~yg~r~~~~~r~ 190 (280)
..|..+|+.+..+
T Consensus 397 ~~ye~~~~~~~~~ 409 (465)
T KOG3973|consen 397 QSYEQRDRSDRND 409 (465)
T ss_pred cccccCCcCCccc
Confidence 3454444444333
No 143
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=95.00 E-value=0.41 Score=48.95 Aligned_cols=62 Identities=10% Similarity=0.117 Sum_probs=47.4
Q ss_pred CCCcHHHHHHHHhhcCCe-----EEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 16 WNVTERQLENAFDRFGKI-----IECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 16 ~~vte~dL~~~F~~~G~I-----~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
..++..+|..++..-+.| -.|+|..+ |.||+... +.|+..++.|++..+.++.|.|+.+...
T Consensus 497 ~~~~~~~~~~~i~~~~~~~~~~ig~i~i~~~--------~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 563 (629)
T PRK11634 497 DGVEVRHIVGAIANEGDISSRYIGNIKLFAS--------HSTIELPK-GMPGEVLQHFTRTRILNKPMNMQLLGDA 563 (629)
T ss_pred cCCCHHHHHHHHHhhcCCChhhCCcEEEeCC--------ceEEEcCh-hhHHHHHHHhccccccCCceEEEECCCC
Confidence 458888888888765544 44666543 89999864 5578889999999999999999988533
No 144
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.82 E-value=0.11 Score=47.77 Aligned_cols=71 Identities=21% Similarity=0.325 Sum_probs=51.6
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeE-EEEEecC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRV-ISVNKAQ 84 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~-I~V~~a~ 84 (280)
..=|-|-++|+..+ .-|..+|++||+|++..... ++ -|-+|.|.+..+|++|| ..|++.|++.. |-|..+.
T Consensus 197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~---ng---NwMhirYssr~~A~KAL-skng~ii~g~vmiGVkpCt 268 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPS---NG---NWMHIRYSSRTHAQKAL-SKNGTIIDGDVMIGVKPCT 268 (350)
T ss_pred cceEEEeccCccch-hHHHHHHHhhCeeeeeecCC---CC---ceEEEEecchhHHHHhh-hhcCeeeccceEEeeeecC
Confidence 44566667887654 45667899999998865542 22 29999999999999999 56888887654 4555443
No 145
>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=94.21 E-value=0.26 Score=35.44 Aligned_cols=55 Identities=15% Similarity=0.270 Sum_probs=42.9
Q ss_pred CCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 17 NVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 17 ~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
.++-++|+..|.+| ..+.|. .++ | ==||.|.+.++|++|.+..+++.+-...|.+
T Consensus 11 ~~~v~d~K~~Lr~y-~~~~I~--~d~-t-----GfYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 11 GVTVEDFKKRLRKY-RWDRIR--DDR-T-----GFYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred CccHHHHHHHHhcC-CcceEE--ecC-C-----EEEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 47789999999999 444443 343 2 2589999999999999999999887777665
No 146
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=93.75 E-value=0.19 Score=48.58 Aligned_cols=68 Identities=18% Similarity=0.281 Sum_probs=57.4
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhc-CCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRF-GKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGD 75 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~-G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~g 75 (280)
.+.|+|=.+|..+|-.||..|...+ -.|..|+|+++..- ++=.++|.|.+.++|....+.+|++.|+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~p--nrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGMP--NRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCCC--ceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 7789999999999999999888765 47889999986432 34468999999999999999999998864
No 147
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=93.34 E-value=0.38 Score=47.91 Aligned_cols=81 Identities=20% Similarity=0.374 Sum_probs=61.4
Q ss_pred CCCCcEEEEcCCCCC-CcHHHHHHHHhhc----CCeEEEEEeecC----------CCCC---------------------
Q 023559 3 GKDENRIFVGGLSWN-VTERQLENAFDRF----GKIIECQIMLER----------DSGR--------------------- 46 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~-vte~dL~~~F~~~----G~I~~v~i~~d~----------~tg~--------------------- 46 (280)
...+++|-|.||.|+ |..++|..+|..| |.|.+|.|.... .++.
T Consensus 171 ~~~T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~ 250 (650)
T KOG2318|consen 171 GEETKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEE 250 (650)
T ss_pred ccccceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhh
Confidence 456789999999998 7888999999877 578888764321 0111
Q ss_pred ---------------C-ccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 47 ---------------P-RGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 47 ---------------~-rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
. -=||.|+|.+.+.|.+..+.+++++|....+.|.+-
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLR 303 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLR 303 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeee
Confidence 0 137999999999999999999999997665555544
No 148
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=90.68 E-value=0.011 Score=56.54 Aligned_cols=75 Identities=13% Similarity=0.340 Sum_probs=62.5
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEE-eecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQI-MLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i-~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
+++|-|.|||+...|+.|..++.+|+.|+.|.+ +++.+|- ..-|+|.+.+.+..||..|++..|.+..++|.+-.
T Consensus 80 srk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt~~eta----vvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiP 155 (584)
T KOG2193|consen 80 SRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNTDSETA----VVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIP 155 (584)
T ss_pred hhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhccchHHH----HHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCc
Confidence 456889999999999999999999999999854 3444331 34578899999999999999999999999987653
No 149
>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=89.39 E-value=0.96 Score=32.63 Aligned_cols=63 Identities=10% Similarity=0.254 Sum_probs=45.5
Q ss_pred HHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 21 RQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 21 ~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
++|.+.|...| +|..|.-+..+.+.++.-.-||+++...+.++ .++=+.|.+..|+|+....+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~---i~~Ik~l~~~~V~vE~~~k~ 65 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKE---IYKIKTLCGQRVKVERPRKR 65 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccc---eeehHhhCCeEEEEecCCCC
Confidence 46777777666 78888888877777777788888877655333 44556788899999876554
No 150
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=88.47 E-value=1.1 Score=32.56 Aligned_cols=63 Identities=17% Similarity=0.347 Sum_probs=46.8
Q ss_pred HHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 21 RQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 21 ~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
++|++.|+++| +++.|..+..+.+..+.-.-||+.....+... .|+=+.|.++.|+|+....+
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~k~ 65 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPHKR 65 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCccc
Confidence 46788888877 78889888888877777788888876544443 45567788999999866543
No 151
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=88.30 E-value=0.071 Score=50.63 Aligned_cols=74 Identities=15% Similarity=0.130 Sum_probs=55.4
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
.+|+|.+|+..+-..+|.++|..+|+|....+.... ..-+|.|+|....+...|+ .+++.++.-+...+.+.+|
T Consensus 152 Rt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask~----~s~~c~~sf~~qts~~hal-r~~gre~k~qhsr~ai~kP 225 (479)
T KOG4676|consen 152 RTREVQSLISAAILPESGESFERKGEVSYAHTASKS----RSSSCSHSFRKQTSSKHAL-RSHGRERKRQHSRRAIIKP 225 (479)
T ss_pred hhhhhhcchhhhcchhhhhhhhhcchhhhhhhhccC----CCcchhhhHhhhhhHHHHH-HhcchhhhhhhhhhhhcCc
Confidence 579999999999999999999999999887664332 2337779999988888888 5567776644444444333
No 152
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=88.26 E-value=0.45 Score=40.87 Aligned_cols=76 Identities=20% Similarity=0.225 Sum_probs=55.1
Q ss_pred CcEEEEcCCCCCCcHH-----HHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCe-EEE
Q 023559 6 ENRIFVGGLSWNVTER-----QLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDR-VIS 79 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~-----dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr-~I~ 79 (280)
.++|++.+|+..|-.+ ..+.+|.+|-+....+|++ +..+.-|.|.+.+.|..|..+++...|.++ .|+
T Consensus 10 p~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lr------sfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~~k 83 (193)
T KOG4019|consen 10 PTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLR------SFRRVRINFSNPEAAADARIKLHSTSFNGKNELK 83 (193)
T ss_pred cceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHH------hhceeEEeccChhHHHHHHHHhhhcccCCCceEE
Confidence 4678888888875322 2345666665555555543 345778899999999999999999999888 788
Q ss_pred EEecCCCC
Q 023559 80 VNKAQPKM 87 (280)
Q Consensus 80 V~~a~~k~ 87 (280)
.-+|++..
T Consensus 84 ~yfaQ~~~ 91 (193)
T KOG4019|consen 84 LYFAQPGH 91 (193)
T ss_pred EEEccCCC
Confidence 87777543
No 153
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=87.64 E-value=1.3 Score=42.38 Aligned_cols=56 Identities=7% Similarity=0.115 Sum_probs=45.7
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCC-eEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHH
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGK-IIECQIMLERDSGRPRGFGFITYADRRAMDDAIRE 67 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~-I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ 67 (280)
-.+.|-|-++|.....+||..+|+.|+. --+|+||-++ +||..|.+...|..||..
T Consensus 390 lpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 390 LPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALTL 446 (528)
T ss_pred ccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhhc
Confidence 3578889999999988999999999964 3456666654 899999999999999843
No 154
>PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the CysCysHisCys (CCHC) type zinc finger domains, and have the sequence: C-X2-C-X4-H-X4-C where X can be any amino acid, and number indicates the number of residues. These 18 residues CCHC zinc finger domains are mainly found in the nucleocapsid protein of retroviruses. It is required for viral genome packaging and for early infection process [, , ]. It is also found in eukaryotic proteins involved in RNA binding or single-stranded DNA binding []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 2L44_A 1A1T_A 1WWG_A 1U6P_A 1WWD_A 1WWE_A 1A6B_B 1F6U_A 1MFS_A 1NCP_C ....
Probab=86.96 E-value=0.47 Score=25.19 Aligned_cols=16 Identities=75% Similarity=1.821 Sum_probs=14.8
Q ss_pred CCCCCCCCCCCCCCCC
Q 023559 119 DCFKCGRPGHWARDCP 134 (280)
Q Consensus 119 ~~~~~g~~g~~~~~~~ 134 (280)
.|++|+..||++.+||
T Consensus 2 ~C~~C~~~GH~~~~Cp 17 (18)
T PF00098_consen 2 KCFNCGEPGHIARDCP 17 (18)
T ss_dssp BCTTTSCSSSCGCTSS
T ss_pred cCcCCCCcCcccccCc
Confidence 4899999999999997
No 155
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=84.23 E-value=1.1 Score=38.38 Aligned_cols=62 Identities=18% Similarity=0.400 Sum_probs=43.0
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHH
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAI 65 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai 65 (280)
.....+++.+++..+++.++..+|..++.|..+.+...........+.++.+.....+..++
T Consensus 223 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 284 (306)
T COG0724 223 EKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESN 284 (306)
T ss_pred cccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhh
Confidence 45678999999999999999999999999977777655443333334444444444433333
No 156
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=82.49 E-value=11 Score=30.55 Aligned_cols=72 Identities=10% Similarity=0.030 Sum_probs=49.3
Q ss_pred CCcEEEEcCCCCC---CcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 5 DENRIFVGGLSWN---VTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 5 ~~~~lfVgnLp~~---vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
+...|.|...... .+...|++++.+-+ .++.|.+..+ -..|.|++.++..+|.+.|....-++..|.+
T Consensus 34 edpavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~~~--------~~~irf~~~~~Ql~Ak~vL~~~L~~~y~VAl 105 (127)
T PRK10629 34 QESTLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPEND--------SLLIRFDSPEQSAAAKEVLDRTLPHGYIIAQ 105 (127)
T ss_pred CCceEEEecCCCCCccchHHHHHHHHHHCCCCcceEEeeCC--------EEEEEECCHHHHHHHHHHHHHHcCCCCEEEE
Confidence 4556777766443 45567888887765 4455444322 6889999999999999888755445667777
Q ss_pred EecC
Q 023559 81 NKAQ 84 (280)
Q Consensus 81 ~~a~ 84 (280)
+++.
T Consensus 106 nl~p 109 (127)
T PRK10629 106 QDDN 109 (127)
T ss_pred ecCC
Confidence 7765
No 157
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=81.06 E-value=12 Score=25.54 Aligned_cols=54 Identities=19% Similarity=0.289 Sum_probs=40.6
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCH----HHHHHHHHH
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADR----RAMDDAIRE 67 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~----e~A~~Ai~~ 67 (280)
||.|.+|.-......|++.+.+.-.|.++.|-... .-+-|+|... ++..++|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~~------~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLET------KTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETTT------TEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECCC------CEEEEEEecCCCCHHHHHHHHHH
Confidence 57888888888888999999999889988886543 3688888754 445555544
No 158
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=80.38 E-value=0.25 Score=48.88 Aligned_cols=69 Identities=12% Similarity=0.172 Sum_probs=50.9
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
..++|||.||+++++-++|+.+.+.+--+..+.+.......+..-+.+|+|+--...+.|+.+||++.|
T Consensus 230 ke~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl 298 (648)
T KOG2295|consen 230 KECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRL 298 (648)
T ss_pred HHHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhccc
Confidence 357899999999999999999998876655555433322233455788999877777777777777654
No 159
>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=80.22 E-value=3.8 Score=32.68 Aligned_cols=56 Identities=9% Similarity=0.245 Sum_probs=29.8
Q ss_pred cEEEEcCCCCCC---------cHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHH-HHHHHH
Q 023559 7 NRIFVGGLSWNV---------TERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRR-AMDDAI 65 (280)
Q Consensus 7 ~~lfVgnLp~~v---------te~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e-~A~~Ai 65 (280)
-++.|-|++... +.++|.+.|+.|..++ |+.+.++. -+.++++|+|...- -.+.|+
T Consensus 9 wmgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~k-v~~l~~~~--gh~g~aiv~F~~~w~Gf~~A~ 74 (116)
T PF03468_consen 9 WMGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLK-VKPLYGKQ--GHTGFAIVEFNKDWSGFKNAM 74 (116)
T ss_dssp -EEEEE----EE-TTS-EE---SHHHHHHHHH---SE-EEEEEETT--EEEEEEEEE--SSHHHHHHHH
T ss_pred CEEEEEcCccccCCCCceeccCHHHHHHHHHhcCCce-eEECcCCC--CCcEEEEEEECCChHHHHHHH
Confidence 356677886543 4578999999997765 55555543 46789999997543 334444
No 160
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=79.20 E-value=5.4 Score=36.78 Aligned_cols=48 Identities=15% Similarity=0.259 Sum_probs=35.2
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCe-EEEEEeecCCCCCCccEEEEEeCCHH
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKI-IECQIMLERDSGRPRGFGFITYADRR 59 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I-~~v~i~~d~~tg~~rG~aFV~F~~~e 59 (280)
.+-|+|+|||.++.-.+|+..+.+.+.+ ..|.+. -+.+-||+.|-+..
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk------g~~~k~flh~~~~~ 378 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK------GHFGKCFLHFGNRK 378 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEeee------cCCcceeEecCCcc
Confidence 4569999999999999999999887533 233332 23567999997643
No 161
>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=79.19 E-value=4.4 Score=37.41 Aligned_cols=79 Identities=9% Similarity=0.217 Sum_probs=57.0
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCC-------CCCCccEEEEEeCCHHHHHHH----HHHhcC--ce
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERD-------SGRPRGFGFITYADRRAMDDA----IREMHG--RE 72 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~-------tg~~rG~aFV~F~~~e~A~~A----i~~lng--~~ 72 (280)
+..|.+.||..+++-..+.+.|.+|++|+.|.|+.+.. ..+......+.|-+.+.|... ++.|.. +.
T Consensus 15 TRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEfK~~ 94 (309)
T PF10567_consen 15 TRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEFKTK 94 (309)
T ss_pred eHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHHHHh
Confidence 45677889999998888889999999999999988761 223445788999998887653 333332 34
Q ss_pred eCCeEEEEEecC
Q 023559 73 FGDRVISVNKAQ 84 (280)
Q Consensus 73 l~gr~I~V~~a~ 84 (280)
|+...|+|.+..
T Consensus 95 L~S~~L~lsFV~ 106 (309)
T PF10567_consen 95 LKSESLTLSFVS 106 (309)
T ss_pred cCCcceeEEEEE
Confidence 566666666554
No 162
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=78.57 E-value=0.35 Score=46.73 Aligned_cols=79 Identities=5% Similarity=-0.201 Sum_probs=61.1
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
+++.|+..||..+++.+|.-+|..++.|..+.+..-.+.+..+-.+||+..+ +.|+.||+.+.-..+-+..+.|.++..
T Consensus 3 s~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 3 SMKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred chhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhhhhhhcCch
Confidence 4567888999999999999999999999988776655555566678887765 456778877777777777777777753
No 163
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=75.95 E-value=7.4 Score=37.63 Aligned_cols=36 Identities=31% Similarity=0.664 Sum_probs=28.9
Q ss_pred CCCCcEEEEcCCCCC-CcHHHHHHHHhhc----CCeEEEEE
Q 023559 3 GKDENRIFVGGLSWN-VTERQLENAFDRF----GKIIECQI 38 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~-vte~dL~~~F~~~----G~I~~v~i 38 (280)
..++++|-|-||.|+ |...+|..+|+.| |.|..|.|
T Consensus 143 G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~i 183 (622)
T COG5638 143 GNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKI 183 (622)
T ss_pred CCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEe
Confidence 356788999999998 7888999999877 56777665
No 164
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=71.70 E-value=0.83 Score=40.52 Aligned_cols=67 Identities=34% Similarity=0.494 Sum_probs=53.0
Q ss_pred CCcEEEEcC----CCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCce
Q 023559 5 DENRIFVGG----LSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGRE 72 (280)
Q Consensus 5 ~~~~lfVgn----Lp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~ 72 (280)
...+++.++ |...++++.|.++|++-+.|..+++.++.+ +.++-+.||++....+.-.|+......+
T Consensus 79 ~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d-~rnrn~~~~~~qr~~~~P~~~~~y~~l~ 149 (267)
T KOG4454|consen 79 EQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDND-GRNRNFGFVTYQRLCAVPFALDLYQGLE 149 (267)
T ss_pred hhcccccCCCcchhhhhcchhhheeeecccCCCCCcccccccc-CCccCccchhhhhhhcCcHHhhhhcccC
Confidence 345677777 777889999999999999999999987765 6677899999888877777776665433
No 165
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=66.86 E-value=3.9 Score=36.63 Aligned_cols=33 Identities=18% Similarity=0.369 Sum_probs=28.3
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEE
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRFGKIIEC 36 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v 36 (280)
.+..+||+-|||..+|++.|..+.++++.+..+
T Consensus 38 ~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 38 NEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred ccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 456799999999999999999999999865543
No 166
>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=66.58 E-value=6.2 Score=36.41 Aligned_cols=33 Identities=15% Similarity=0.309 Sum_probs=24.4
Q ss_pred EEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 51 GFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 51 aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
|||+|+++++|+.|++.+.... ...++|+.|..
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCC
Confidence 7999999999999998665443 34456666643
No 167
>PRK11901 hypothetical protein; Reviewed
Probab=65.20 E-value=13 Score=34.93 Aligned_cols=59 Identities=12% Similarity=0.249 Sum_probs=39.2
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEE--EeCCHHHHHHHHHHhcC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFI--TYADRRAMDDAIREMHG 70 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV--~F~~~e~A~~Ai~~lng 70 (280)
.+|-|.. ...++.|++|..++ .+..++|......++. .|..| +|.+.++|+.||+.|.-
T Consensus 246 YTLQL~A---as~~~~L~~f~~~~-~L~~~~VYqT~RnGkp-WYVVvyG~Y~Sr~eAk~Ai~sLPa 306 (327)
T PRK11901 246 YTLQLSS---ASRSDTLNAYAKKQ-NLSHYHVYETKRDGKP-WYVLVSGNYASSAEAKRAIATLPA 306 (327)
T ss_pred eEEEeec---CCCHHHHHHHHHHc-CcCceEEEEEEECCce-EEEEEecCcCCHHHHHHHHHhCCH
Confidence 4444433 35578888888877 4566666655444432 34443 68999999999998864
No 168
>PF14893 PNMA: PNMA
Probab=63.89 E-value=6.4 Score=37.14 Aligned_cols=28 Identities=18% Similarity=0.317 Sum_probs=23.3
Q ss_pred CCCCCcEEEEcCCCCCCcHHHHHHHHhh
Q 023559 2 AGKDENRIFVGGLSWNVTERQLENAFDR 29 (280)
Q Consensus 2 ~~~~~~~lfVgnLp~~vte~dL~~~F~~ 29 (280)
.-...+.|.|.+||.+|++++|++++..
T Consensus 14 ~~~~~r~lLv~giP~dc~~~ei~e~l~~ 41 (331)
T PF14893_consen 14 GVDPQRALLVLGIPEDCEEAEIEEALQA 41 (331)
T ss_pred CcChhhhheeecCCCCCCHHHHHHHHHH
Confidence 3456678999999999999999888763
No 169
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=63.83 E-value=7.4 Score=37.13 Aligned_cols=69 Identities=17% Similarity=0.251 Sum_probs=46.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCC-eEEEEEeecCCC--CCCccEEEEEeCCHHHHHHHHHHhcCcee
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGK-IIECQIMLERDS--GRPRGFGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~-I~~v~i~~d~~t--g~~rG~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
...+|.|..||+.+++++|.+.+..|-. |....+.....+ ......|+|.|...++.+.....+++++|
T Consensus 6 ~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~if 77 (376)
T KOG1295|consen 6 AKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIF 77 (376)
T ss_pred cceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEE
Confidence 4578889999999999998877766532 111122211111 12246899999999998887777777665
No 170
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=62.82 E-value=4.6 Score=41.04 Aligned_cols=73 Identities=14% Similarity=0.207 Sum_probs=57.6
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
.+||+-+-....+...|..++..+.+++.+++++.........-|+++|.....|+.|. .|.++.+....|++
T Consensus 512 p~i~~~~~~~~s~~~s~s~~s~~~~~ltk~k~l~~Cky~~~Ct~a~Ce~~HPtaa~~~~-s~p~k~fa~~~~ks 584 (681)
T KOG3702|consen 512 PTIFVANGHGGSNPDSLSRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENAK-SLPNKKFASKCLKS 584 (681)
T ss_pred CceecccccccCCCcchhhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhhh-ccccccccccceec
Confidence 37888888777788888888999999999999888887777778999999998887765 55666665555544
No 171
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=62.20 E-value=18 Score=25.70 Aligned_cols=19 Identities=16% Similarity=0.361 Sum_probs=16.1
Q ss_pred HHHHHHHhhcCCeEEEEEe
Q 023559 21 RQLENAFDRFGKIIECQIM 39 (280)
Q Consensus 21 ~dL~~~F~~~G~I~~v~i~ 39 (280)
++|+++|++.|+|.-+.|.
T Consensus 9 ~~iR~~fs~lG~I~vLYvn 27 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYVN 27 (62)
T ss_pred HHHHHHHHhcCcEEEEEEc
Confidence 5799999999999877664
No 172
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=60.83 E-value=39 Score=24.11 Aligned_cols=46 Identities=17% Similarity=0.381 Sum_probs=37.2
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYAD 57 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~ 57 (280)
..+|+|-++.-.--...+++.+.....|..+.+-... +-++|+|++
T Consensus 3 ~~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~~------~~~~V~~d~ 48 (71)
T COG2608 3 KTTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLEK------GTATVTFDS 48 (71)
T ss_pred eEEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEccc------CeEEEEEcC
Confidence 4578888888777778899999998888888887663 359999988
No 173
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=58.21 E-value=78 Score=23.81 Aligned_cols=67 Identities=13% Similarity=0.176 Sum_probs=37.7
Q ss_pred cEEEEcCCCCCCcHHHHHHH----HhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 7 NRIFVGGLSWNVTERQLENA----FDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~----F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
.-|+|..++..++-++|.+. |.-.- ..-.++++ | +.+. -|+|.+.++.+.|+..+.-..-..-.|+|
T Consensus 9 gdi~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~-D-EEGD-----p~tiSS~~EL~EA~rl~~~n~~~~l~ihv 80 (83)
T cd06404 9 GDIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWI-D-EEGD-----PCTISSQMELEEAFRLYELNKDSELNIHV 80 (83)
T ss_pred CcEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEE-C-CCCC-----ceeecCHHHHHHHHHHHHhcCcccEEEEe
Confidence 45778888888887766444 33221 11223332 2 1232 37889999999998765433223334444
No 174
>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=55.98 E-value=42 Score=24.75 Aligned_cols=58 Identities=10% Similarity=0.248 Sum_probs=39.5
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhc-C-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHh
Q 023559 8 RIFVGGLSWNVTERQLENAFDRF-G-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREM 68 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~-G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~l 68 (280)
..|+..++..++..+|++.++++ + .|.+|..+.-+. + .-=|||++...+.|...-..|
T Consensus 15 n~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~~-~--~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 15 NKLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITPR-G--EKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC-C--ceEEEEEECCCCcHHHHHHhh
Confidence 35555688899999999888764 3 566665554432 1 125999999888887765443
No 175
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=53.12 E-value=39 Score=25.40 Aligned_cols=57 Identities=9% Similarity=0.223 Sum_probs=39.0
Q ss_pred EEEcCCCCCCcHHHHHHHHhhc-C-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHh
Q 023559 9 IFVGGLSWNVTERQLENAFDRF-G-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREM 68 (280)
Q Consensus 9 lfVgnLp~~vte~dL~~~F~~~-G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~l 68 (280)
.|+.-++..++..+|++.++++ + .|.+|..+.-+. + .-=|||++...+.|......|
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~~-~--~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITPK-G--EKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcCC-C--cEEEEEEeCCCCcHHHHHHhh
Confidence 3444578889999998888764 3 566776655432 1 125999999988888765443
No 176
>PF07876 Dabb: Stress responsive A/B Barrel Domain; InterPro: IPR013097 The stress-response A/B barrel domain is found in a class of stress-response proteins in plants. It is also found in some bacterial fructose-bisphosphate aldolase such as at the C terminus of a fructose 1,6-bisphosphate aldolase from Hydrogenophilus thermoluteolus (Q9ZA13 from SWISSPROT) []. Q93NG5 from SWISSPROT is found in the pA01 plasmid, which encodes genes for molybdopterin uptake and degradation of plant alkaloid nicotine. The stress-response A/B barrel domain forms a very stable dimer. This dimer belongs to the superfamily of dimeric alpha+beta barrels in which the two beta-sheets form a beta-barrel. The two molecules in the dimer are related by a 2-fold axis parallel to helix H1 and beta-strands B3 and B4. C-terminal residues extending from the beta4 strand of each monomer wrap around and connect with the beta2 strand and alpha1 helix of the opposing monomer to form the dimer interface [, , ].The outer surface of the beta-sheets of the two molecules forms a beta-barrel-like structure defining a central pore. The function of the stress-response A/B barrel domain is unknown [, , ], but it is upregulated in response to salt stress in Populus balsamifera (balsam poplar) []. Some proteins known to contain a stress response A/B barrel domain are listed below: - Arabidopsis thaliana At3g17210 - Arabidopsis thaliana At5g22580 -Populus tremula stable protein 1 (SP-1)(Populus species), a thermostable stress-responsive protein. - Pseudomonas hydrogenothermophila fructose 1,6-bisphosphate aldolase (cbbA). The structure of one of these proteins has been solved (Q9LUV2 from SWISSPROT) and the domain forms an alpha-beta barrel dimer [].; PDB: 3BB5_E 3FMB_A 3BDE_B 2QYC_A 1Q53_B 2Q3P_A 1Q4R_A 3BN7_A 3BGU_B 1RJJ_B ....
Probab=53.04 E-value=89 Score=22.92 Aligned_cols=56 Identities=18% Similarity=0.266 Sum_probs=34.8
Q ss_pred EEEcCCCCCCcHHHHHHHH-------hhcCCeEEEEEeecCCCCC-Ccc--E-EEEEeCCHHHHHHH
Q 023559 9 IFVGGLSWNVTERQLENAF-------DRFGKIIECQIMLERDSGR-PRG--F-GFITYADRRAMDDA 64 (280)
Q Consensus 9 lfVgnLp~~vte~dL~~~F-------~~~G~I~~v~i~~d~~tg~-~rG--~-aFV~F~~~e~A~~A 64 (280)
|.+-.|...++++++.+++ .++-.|+++.+-.+..... .++ + .+++|++.++.++-
T Consensus 4 ivlfklk~~~~~~~~~~~~~~l~~l~~~ip~i~~~~~G~~~~~~~~~~~~~~~~~~~F~s~~~l~~Y 70 (97)
T PF07876_consen 4 IVLFKLKPDATEEEIEEVLEALRALKDKIPGIVSFEVGRNFSPEDLAKGYDHALVSTFESEEDLDAY 70 (97)
T ss_dssp EEEEEESTTTCHHHHHHHHHHHHHHHHHSTTECEEEEEEESSTSSTSTT-SEEEEEEESSHHHHHHH
T ss_pred EEEEEECCCCCHHHHHHHHHHHHhcccCCCceEEEEEEcccCcccccCCCcEEEEEEECCHHHHHHH
Confidence 4445688888888775544 3456678887766544332 233 3 35688888876553
No 177
>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=52.73 E-value=92 Score=23.02 Aligned_cols=62 Identities=13% Similarity=0.172 Sum_probs=42.7
Q ss_pred CCCCCCcHHHHHHHH-hhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 13 GLSWNVTERQLENAF-DRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 13 nLp~~vte~dL~~~F-~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
.+|.-+.-++|.... ..||....+..+.+ --.|-..+.++..+||+.++. ....+.|+|-+.
T Consensus 15 ~f~RPvkf~dl~~kv~~afGq~mdl~ytn~--------eL~iPl~~Q~DLDkAie~ld~-s~~~ksLRilL~ 77 (79)
T cd06405 15 QFPRPVKFKDLQQKVTTAFGQPMDLHYTNN--------ELLIPLKNQEDLDRAIELLDR-SPHMKSLRILLS 77 (79)
T ss_pred ecCCCccHHHHHHHHHHHhCCeeeEEEecc--------cEEEeccCHHHHHHHHHHHcc-CccccceeEeEe
Confidence 466667767765444 57888777766543 267888999999999988875 444555666544
No 178
>PF14787 zf-CCHC_5: GAG-polyprotein viral zinc-finger; PDB: 1CL4_A 1DSV_A.
Probab=51.96 E-value=9.5 Score=24.02 Aligned_cols=19 Identities=42% Similarity=1.017 Sum_probs=11.8
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q 023559 118 DDCFKCGRPGHWARDCPSA 136 (280)
Q Consensus 118 ~~~~~~g~~g~~~~~~~~~ 136 (280)
.-|.+|++..||+.+|-..
T Consensus 3 ~~CprC~kg~Hwa~~C~sk 21 (36)
T PF14787_consen 3 GLCPRCGKGFHWASECRSK 21 (36)
T ss_dssp -C-TTTSSSCS-TTT---T
T ss_pred ccCcccCCCcchhhhhhhh
Confidence 4699999999999999754
No 179
>KOG3262 consensus H/ACA small nucleolar RNP component GAR1 [Translation, ribosomal structure and biogenesis]
Probab=51.47 E-value=68 Score=27.85 Aligned_cols=10 Identities=10% Similarity=0.198 Sum_probs=4.1
Q ss_pred EEEeCCHHHH
Q 023559 52 FITYADRRAM 61 (280)
Q Consensus 52 FV~F~~~e~A 61 (280)
=|.+++.+++
T Consensus 82 PIylenk~qI 91 (215)
T KOG3262|consen 82 PIYLENKEQI 91 (215)
T ss_pred ceeecchhhh
Confidence 3444444443
No 180
>cd00027 BRCT Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/hetero BRCT multimers, BRCT-non-BRCT interactions, and interactions within DNA strand breaks.
Probab=49.62 E-value=67 Score=21.04 Aligned_cols=27 Identities=11% Similarity=0.160 Sum_probs=21.9
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCe
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKI 33 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I 33 (280)
.+++|.+.....+.++|++++..+|..
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 467788777678889999999999863
No 181
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=49.42 E-value=64 Score=32.13 Aligned_cols=51 Identities=12% Similarity=0.124 Sum_probs=37.0
Q ss_pred cHHHHHHHHh----hcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcC
Q 023559 19 TERQLENAFD----RFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHG 70 (280)
Q Consensus 19 te~dL~~~F~----~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng 70 (280)
+.-+|..+|. .+|.|+++.|...+.. +.....++.|.+.++|..|+..+..
T Consensus 202 ~g~dl~~l~~Gs~GtlGIIt~atlkl~p~p-~~~~~~~~~f~~~~~a~~~~~~~~~ 256 (499)
T PRK11230 202 PGFDLLALFTGSEGMLGVVTEVTVKLLPKP-PVARVLLASFDSVEKAGLAVGDIIA 256 (499)
T ss_pred CccchHhhhccCCCccEEEEEEEEEEEcCC-cceEEEEEECCCHHHHHHHHHHHHh
Confidence 3456777775 6788999877665543 2345778899999999999877653
No 182
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=49.21 E-value=5.3 Score=28.67 Aligned_cols=38 Identities=8% Similarity=0.211 Sum_probs=25.9
Q ss_pred HHHHHHHhhcCCeEEE-EEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 21 RQLENAFDRFGKIIEC-QIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 21 ~dL~~~F~~~G~I~~v-~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
++|++.|..+....++ +| .+|..|++.++|..++..+.
T Consensus 27 ~~v~~~~~~~~~f~k~vkL-----------~aF~pF~s~~~ALe~~~ais 65 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKIVKL-----------KAFSPFKSAEEALENANAIS 65 (67)
T ss_pred HHHHHHHcCHHHHhhhhhh-----------hhccCCCCHHHHHHHHHHhh
Confidence 5777777655443332 22 68999999999888876653
No 183
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=49.15 E-value=25 Score=30.42 Aligned_cols=50 Identities=14% Similarity=0.104 Sum_probs=31.1
Q ss_pred CcHHHHHHHHhhc-CCeEEEEEeecCCC-CCCccEEEEEeCCHHHHHHHHHH
Q 023559 18 VTERQLENAFDRF-GKIIECQIMLERDS-GRPRGFGFITYADRRAMDDAIRE 67 (280)
Q Consensus 18 vte~dL~~~F~~~-G~I~~v~i~~d~~t-g~~rG~aFV~F~~~e~A~~Ai~~ 67 (280)
.|+++|.++..-. +++..|.+-..... -..+|-.||+|.+.++|.++++.
T Consensus 118 ~td~ql~~l~qw~~~k~~nv~mr~~~~k~~~fkGsvkv~f~tk~qa~a~~~~ 169 (205)
T KOG4213|consen 118 ITDDQLDDLNQWASGKGHNVKMRRHGNKAHPFKGSVKVTFQTKEQAFANDDT 169 (205)
T ss_pred CCHHHHHHHHHHhcccceEeeccccCCCCCCCCCceEEEeecHHHHHhhhhh
Confidence 3444444443211 56776665433221 14678999999999999998754
No 184
>PF05189 RTC_insert: RNA 3'-terminal phosphate cyclase (RTC), insert domain; InterPro: IPR013796 RNA cyclases are a family of RNA-modifying enzymes that are conserved in eukaryotes, bacteria and archaea. RNA 3'-terminal phosphate cyclase (6.5.1.4 from EC) [, ] catalyses the conversion of 3'-phosphate to a 2',3'-cyclic phosphodiester at the end of RNA. ATP + RNA 3'-terminal-phosphate = AMP + diphosphate + RNA terminal-2',3'-cyclic-phosphate These enzymes might be responsible for production of the cyclic phosphate RNA ends that are known to be required by many RNA ligases in both prokaryotes and eukaryotes. RNA cyclase is a protein of from 36 to 42 kDa. The best conserved region is a glycine-rich stretch of residues located in the central part of the sequence and which is reminiscent of various ATP, GTP or AMP glycine-rich loops. The crystal structure of RNA 3'-terminal phosphate cyclase shows that each molecule consists of two domains. The larger domain contains three repeats of a folding unit comprising two parallel alpha helices and a four-stranded beta sheet; this fold was previously identified in translation initiation factor 3 (IF3). The large domain is similar to one of the two domains of 5-enolpyruvylshikimate-3-phosphate synthase and UDP-N-acetylglucosamine enolpyruvyl transferase. The smaller domain uses a similar secondary structure element with different topology, observed in many other proteins such as thioredoxin []. Although the active site of this enzyme could not be unambiguously assigned, it can be mapped to a region surrounding His309, an adenylate acceptor, in which a number of amino acids are highly conserved in the enzyme from different sources []. This entry contains the insert-domain of approximately 100 amino acids.; PDB: 3TV1_B 3KGD_D 1QMI_D 1QMH_B 3TUX_A 3TUT_A 3TW3_A 3PQV_A.
Probab=48.82 E-value=39 Score=25.85 Aligned_cols=48 Identities=27% Similarity=0.330 Sum_probs=26.6
Q ss_pred EEEEcCCCCCCcHHHHHH---HHhhcCCeEEEEE--eecCCCCCCccEEEEEe
Q 023559 8 RIFVGGLSWNVTERQLEN---AFDRFGKIIECQI--MLERDSGRPRGFGFITY 55 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~---~F~~~G~I~~v~i--~~d~~tg~~rG~aFV~F 55 (280)
..|+.+||.++.+.++.. +|..+..-..|.+ ..........|++.+.+
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~ 64 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLV 64 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEE
Confidence 568999999999887654 4444443333333 12234455666654433
No 185
>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=48.67 E-value=7.3 Score=37.49 Aligned_cols=60 Identities=13% Similarity=0.117 Sum_probs=45.7
Q ss_pred cEEEEcCCCCCCcH--------HHHHHHHhh--cCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHH
Q 023559 7 NRIFVGGLSWNVTE--------RQLENAFDR--FGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIR 66 (280)
Q Consensus 7 ~~lfVgnLp~~vte--------~dL~~~F~~--~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~ 66 (280)
..+|+.++....+. ++|+.+|.. ++.+..|.+-++.....++|..||+|...+.|++++.
T Consensus 175 r~~y~n~fG~e~~~~a~~~e~~~d~~~~~p~h~h~~~~~i~~rrd~~nkn~~gSv~~efk~~~~~q~~nn 244 (438)
T COG5193 175 RDVYQNGFGKEDVNNASRPEQQEDLEIQFPPHYHAPPSQIRNRRDWLNKNFRGSVFVEFKYFREAQRFNN 244 (438)
T ss_pred hhHHhhcCCcccccccccchhhhhHHhhCCCcccCChhhccchhhhhhccccCcccccccChHHHHHHhc
Confidence 45666666655443 488999988 5677777777776667788999999999999999873
No 186
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=48.21 E-value=11 Score=26.35 Aligned_cols=17 Identities=18% Similarity=0.464 Sum_probs=15.1
Q ss_pred EEeCCHHHHHHHHHHhc
Q 023559 53 ITYADRRAMDDAIREMH 69 (280)
Q Consensus 53 V~F~~~e~A~~Ai~~ln 69 (280)
-.|.+.++|++++..|.
T Consensus 49 G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 49 GPFSSREEAEAALRKLK 65 (76)
T ss_dssp CCECTCCHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHh
Confidence 47899999999999887
No 187
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=47.70 E-value=1.1e+02 Score=22.37 Aligned_cols=61 Identities=15% Similarity=0.188 Sum_probs=37.5
Q ss_pred EEEcCCCCCCcHHHHHHHHhh-------cCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCce
Q 023559 9 IFVGGLSWNVTERQLENAFDR-------FGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGRE 72 (280)
Q Consensus 9 lfVgnLp~~vte~dL~~~F~~-------~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~ 72 (280)
|-..+||..+|.++|.++..+ +-.|.-++.....+ ..+-||+.+=.+++.+.++-+.- +..
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~d--~~k~~Cly~Ap~~eaV~~~~~~a-G~p 70 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSED--DGKIFCLYEAPDEEAVREHARRA-GLP 70 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEecC--CCeEEEEEECCCHHHHHHHHHHc-CCC
Confidence 446789988898888766543 23344443333322 23558888878888877776543 443
No 188
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=46.86 E-value=34 Score=29.29 Aligned_cols=73 Identities=11% Similarity=0.101 Sum_probs=36.7
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEE-EEeecCCCCCCccEEEEE-eCCHHH---HHHHHHHhcCceeCCeEEEEEe
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIEC-QIMLERDSGRPRGFGFIT-YADRRA---MDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v-~i~~d~~tg~~rG~aFV~-F~~~e~---A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
.|.|.-=|..++-++|.++|-+.-.-+.+ +--.|.-+ -|--+. +.++++ |++.+++++...+..++|.+++
T Consensus 59 ~V~V~yDp~~isy~~LL~~ff~ihDPT~~nrQGnD~Gt----qYRs~Iy~~~~~q~~~a~~~~~~~q~~~~~~~~IvteI 134 (174)
T COG0225 59 AVEVTYDPKVISYEELLEVFFEIHDPTSLNRQGNDRGT----QYRSAIYYTNEEQKAIAEASIEELQASGYFKKPIVTEI 134 (174)
T ss_pred EEEEEeCCccccHHHHHHHHheecCCCCCCccCCcccc----cceeEEEEcCHHHHHHHHHHHHHHHHhccCCCCeEEEe
Confidence 56666667778888887777543222221 11111111 132233 334443 4455666665455566776666
Q ss_pred cC
Q 023559 83 AQ 84 (280)
Q Consensus 83 a~ 84 (280)
..
T Consensus 135 ~p 136 (174)
T COG0225 135 EP 136 (174)
T ss_pred ec
Confidence 54
No 189
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=46.22 E-value=22 Score=32.84 Aligned_cols=37 Identities=30% Similarity=0.593 Sum_probs=28.9
Q ss_pred CCCCcEEEEcCCCCC------------CcHHHHHHHHhhcCCeEEEEEe
Q 023559 3 GKDENRIFVGGLSWN------------VTERQLENAFDRFGKIIECQIM 39 (280)
Q Consensus 3 ~~~~~~lfVgnLp~~------------vte~dL~~~F~~~G~I~~v~i~ 39 (280)
..-+.||++..||-. .+|.-|...|..||+|..|.|+
T Consensus 146 gerpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdip 194 (445)
T KOG2891|consen 146 GERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIP 194 (445)
T ss_pred CCCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCc
Confidence 345678898888753 3567799999999999998775
No 190
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=45.87 E-value=37 Score=26.09 Aligned_cols=80 Identities=10% Similarity=0.108 Sum_probs=42.0
Q ss_pred CCcEEEEcCCCCCCc--HHHHHHHHhhcCCeEEEEEeecCC-CCCCccEEEEEeCC--HHHHHHHHHHhcCcee-CCeEE
Q 023559 5 DENRIFVGGLSWNVT--ERQLENAFDRFGKIIECQIMLERD-SGRPRGFGFITYAD--RRAMDDAIREMHGREF-GDRVI 78 (280)
Q Consensus 5 ~~~~lfVgnLp~~vt--e~dL~~~F~~~G~I~~v~i~~d~~-tg~~rG~aFV~F~~--~e~A~~Ai~~lng~~l-~gr~I 78 (280)
...+|-|+-.....+ .+.|.++|++...|..+.|..-.. .....-+-.|+|.. .+.+..+|..+....+ .+..|
T Consensus 4 ~g~~v~l~~P~~~p~~l~~aL~~~~~~~~~V~~Ayl~~~~~~~~~~~~li~vd~~~~~~~~~~~~i~~~~~~~~~~~~~v 83 (108)
T PF14581_consen 4 KGEKVLLGEPEEEPTDLLAALSEYFKQHKNVRAAYLALMQDEDEQPSLLIGVDFDGEDIEEIFQEIGRAARPYLPDGWPV 83 (108)
T ss_pred CCCEEEecCCccCHHHHHHHHHHHHhhCccHHHhHHHHhhccCCCceEEEEEeccChhHHHHHHHHHHHhhhcCCCCceE
Confidence 344666664433222 356889999998888876554433 33444344567766 2333333333322233 33566
Q ss_pred EEEecC
Q 023559 79 SVNKAQ 84 (280)
Q Consensus 79 ~V~~a~ 84 (280)
.+....
T Consensus 84 d~~~~~ 89 (108)
T PF14581_consen 84 DFVLLD 89 (108)
T ss_pred EEEEcc
Confidence 555444
No 191
>PF13917 zf-CCHC_3: Zinc knuckle
Probab=45.38 E-value=11 Score=24.52 Aligned_cols=18 Identities=50% Similarity=1.409 Sum_probs=16.2
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 023559 118 DDCFKCGRPGHWARDCPS 135 (280)
Q Consensus 118 ~~~~~~g~~g~~~~~~~~ 135 (280)
..|.+|+..|||..+|+.
T Consensus 5 ~~CqkC~~~GH~tyeC~~ 22 (42)
T PF13917_consen 5 VRCQKCGQKGHWTYECPN 22 (42)
T ss_pred CcCcccCCCCcchhhCCC
Confidence 469999999999999994
No 192
>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=45.13 E-value=36 Score=25.82 Aligned_cols=31 Identities=13% Similarity=0.333 Sum_probs=21.2
Q ss_pred EEEEeCCHHHHHHHHHHhcCc--eeCCeEEEEEe
Q 023559 51 GFITYADRRAMDDAIREMHGR--EFGDRVISVNK 82 (280)
Q Consensus 51 aFV~F~~~e~A~~Ai~~lng~--~l~gr~I~V~~ 82 (280)
|+|+|++++-|++.|+. ..+ .|+...+.|..
T Consensus 1 AlITF~e~~VA~~i~~~-~~~~v~l~~~~~~V~v 33 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKK-KKHPVPLEDCCVRVKV 33 (88)
T ss_pred CEEEeCcHHHHHHHHhC-CEEEEEECCEEEEEEE
Confidence 68999999999998743 323 34566655543
No 193
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=45.00 E-value=21 Score=35.70 Aligned_cols=39 Identities=13% Similarity=0.306 Sum_probs=33.0
Q ss_pred ccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCC
Q 023559 48 RGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPK 86 (280)
Q Consensus 48 rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k 86 (280)
..+++++|++++.+.+|+..+++.......+.|..+...
T Consensus 63 ~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~~ 101 (534)
T KOG2187|consen 63 PKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGATE 101 (534)
T ss_pred CCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhcccc
Confidence 459999999999999999999999888877777766543
No 194
>PF13696 zf-CCHC_2: Zinc knuckle
Probab=44.96 E-value=9 Score=23.52 Aligned_cols=18 Identities=50% Similarity=1.529 Sum_probs=16.2
Q ss_pred CCCCCCCCCCCCCCCCCC
Q 023559 119 DCFKCGRPGHWARDCPSA 136 (280)
Q Consensus 119 ~~~~~g~~g~~~~~~~~~ 136 (280)
.|+.|...|||-.+||..
T Consensus 10 ~C~~C~~~GH~i~dCP~~ 27 (32)
T PF13696_consen 10 VCHRCGQKGHWIQDCPTN 27 (32)
T ss_pred EeecCCCCCccHhHCCCC
Confidence 589999999999999974
No 195
>smart00666 PB1 PB1 domain. Phox and Bem1p domain, present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.
Probab=44.57 E-value=1.1e+02 Score=21.73 Aligned_cols=56 Identities=14% Similarity=0.291 Sum_probs=34.9
Q ss_pred EEEcCCCCCCcHHHHHHHHh-hcCCe-EEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 9 IFVGGLSWNVTERQLENAFD-RFGKI-IECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 9 lfVgnLp~~vte~dL~~~F~-~~G~I-~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
+++-.||..++-++|.+... +|... ..+.|...-+.+ -+|+..+.++.+.||+.+.
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~Dedg-----d~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDEDG-----DLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECCCC-----CEEEecCHHHHHHHHHHHH
Confidence 34445788888888876654 34321 234443221111 3789999999999997765
No 196
>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=42.17 E-value=1e+02 Score=20.50 Aligned_cols=49 Identities=14% Similarity=0.230 Sum_probs=24.7
Q ss_pred cHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCH-HHHHHHHHHhc
Q 023559 19 TERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADR-RAMDDAIREMH 69 (280)
Q Consensus 19 te~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~-e~A~~Ai~~ln 69 (280)
.-.+|..+|.+++ .|..+.+...+..+ ....++++... +..+.+++.|.
T Consensus 13 ~l~~i~~~l~~~~~~i~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~l~ 63 (72)
T cd04878 13 VLNRISGLFARRGFNIESLTVGPTEDPG--ISRITIVVEGDDDVIEQIVKQLN 63 (72)
T ss_pred HHHHHHHHHHhCCCCEEEEEeeecCCCC--eEEEEEEEECCHHHHHHHHHHHh
Confidence 3457778888774 56666554321111 11233333322 55555666665
No 197
>PRK06737 acetolactate synthase 1 regulatory subunit; Validated
Probab=41.26 E-value=1.4e+02 Score=21.87 Aligned_cols=62 Identities=10% Similarity=0.096 Sum_probs=41.0
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCc
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR 71 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~ 71 (280)
-+|+|.|-|--+ +.+..+|+.-| .|+++.+-...+.+.++ +.++...+.+..++.+++|+..
T Consensus 5 isi~v~n~pGVL--~Ri~~lf~rRgfNI~Sl~vg~te~~~~sr-iti~~~~~~~~i~qi~kQL~KL 67 (76)
T PRK06737 5 FSLVIHNDPSVL--LRISGIFARRGYYISSLNLNERDTSGVSE-MKLTAVCTENEATLLVSQLKKL 67 (76)
T ss_pred EEEEEecCCCHH--HHHHHHHhccCcceEEEEecccCCCCeeE-EEEEEECCHHHHHHHHHHHhCC
Confidence 356677666543 45667887655 78888775433333333 5666678999999998888743
No 198
>PF09707 Cas_Cas2CT1978: CRISPR-associated protein (Cas_Cas2CT1978); InterPro: IPR010152 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a minor branch of the Cas2 family of CRISPR-associated protein which are found in IPR003799 from INTERPRO. Cas2 is one of four protein families (Cas1 to Cas4) that are associated with CRISPR elements and always occur near a repeat cluster, usually in the order cas3-cas4-cas1-cas2. The function of Cas2 (and Cas1) is unknown. Cas3 proteins appear to be helicases while Cas4 proteins resemble RecB-type exonucleases, suggesting that these genes are involved in DNA metabolism or gene expression [].
Probab=41.20 E-value=63 Score=24.41 Aligned_cols=48 Identities=25% Similarity=0.376 Sum_probs=31.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEe
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITY 55 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F 55 (280)
...-|||++++..+-|.-.+.+.+...+-..+-+..+ . ...||+|.++
T Consensus 24 i~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~-~--neqG~~~~t~ 71 (86)
T PF09707_consen 24 IRPGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSD-N--NEQGFDFRTL 71 (86)
T ss_pred cCCCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEcc-C--CCCCEEEEEe
Confidence 4567999999998887766666555433333333332 2 2578999887
No 199
>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=41.11 E-value=1.3e+02 Score=21.37 Aligned_cols=49 Identities=16% Similarity=0.243 Sum_probs=27.1
Q ss_pred HHHHHHHHhhcC-CeEEEEEeecCCCCCC-ccEEEEEeC-CHHHHHHHHHHhcC
Q 023559 20 ERQLENAFDRFG-KIIECQIMLERDSGRP-RGFGFITYA-DRRAMDDAIREMHG 70 (280)
Q Consensus 20 e~dL~~~F~~~G-~I~~v~i~~d~~tg~~-rG~aFV~F~-~~e~A~~Ai~~lng 70 (280)
-.+|-++|+.++ .+++|. .-+...+. .=.-||+|+ ..+..++||+.|+.
T Consensus 14 L~~vL~~f~~~~iNlt~Ie--SRP~~~~~~~y~Ffvd~~~~~~~~~~~l~~L~~ 65 (74)
T cd04904 14 LARALKLFEEFGVNLTHIE--SRPSRRNGSEYEFFVDCEVDRGDLDQLISSLRR 65 (74)
T ss_pred HHHHHHHHHHCCCcEEEEE--CCCCCCCCceEEEEEEEEcChHHHHHHHHHHHH
Confidence 455667777774 444443 33322222 224467777 55566778877764
No 200
>COG5584 Predicted small secreted protein [Function unknown]
Probab=41.04 E-value=48 Score=25.65 Aligned_cols=32 Identities=22% Similarity=0.310 Sum_probs=26.3
Q ss_pred CCCCCCcHHHHHHHHhhcCCeEEEEEeecCCC
Q 023559 13 GLSWNVTERQLENAFDRFGKIIECQIMLERDS 44 (280)
Q Consensus 13 nLp~~vte~dL~~~F~~~G~I~~v~i~~d~~t 44 (280)
||+.+..-+-+++.|+++++|+-.+|...+++
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~pe~ 60 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEPEV 60 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEeccc
Confidence 56666667778999999999999988887765
No 201
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=40.89 E-value=26 Score=31.90 Aligned_cols=35 Identities=17% Similarity=0.203 Sum_probs=26.6
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeec
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLE 41 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d 41 (280)
....|+|||+++|..-|.++++..-.+..+.||..
T Consensus 96 ~~~vVaNlPY~Isspii~kll~~~~~~~~~v~M~Q 130 (259)
T COG0030 96 PYKVVANLPYNISSPILFKLLEEKFIIQDMVLMVQ 130 (259)
T ss_pred CCEEEEcCCCcccHHHHHHHHhccCccceEEEEeH
Confidence 45679999999999999999887655555555544
No 202
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=40.83 E-value=38 Score=26.86 Aligned_cols=25 Identities=24% Similarity=0.351 Sum_probs=18.9
Q ss_pred CCCCcHHHHHHHHhhcCCeEEEEEe
Q 023559 15 SWNVTERQLENAFDRFGKIIECQIM 39 (280)
Q Consensus 15 p~~vte~dL~~~F~~~G~I~~v~i~ 39 (280)
...||+++|++.|.+|-.-..|.|+
T Consensus 42 ~~~Tt~~eiedaF~~f~~RdDIaIi 66 (121)
T KOG3432|consen 42 DSKTTVEEIEDAFKSFTARDDIAII 66 (121)
T ss_pred eccCCHHHHHHHHHhhccccCeEEE
Confidence 4589999999999999654444443
No 203
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=40.46 E-value=1e+02 Score=26.49 Aligned_cols=59 Identities=22% Similarity=0.265 Sum_probs=39.0
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCC-CCCccEEEEEeCCHHHHHHHHHHh
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDS-GRPRGFGFITYADRRAMDDAIREM 68 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~t-g~~rG~aFV~F~~~e~A~~Ai~~l 68 (280)
.=||+|.+.-.+-..|-+.|...|. +|.++..+.+ ..+.++-.|.+++.++..+++..+
T Consensus 20 VR~ItN~SSG~~G~~lA~~~~~~Ga--~V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~ 79 (185)
T PF04127_consen 20 VRFITNRSSGKMGAALAEEAARRGA--EVTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKEL 79 (185)
T ss_dssp SEEEEES--SHHHHHHHHHHHHTT---EEEEEE-TTS----TTEEEEE-SSHHHHHHHHHHH
T ss_pred ceEecCCCcCHHHHHHHHHHHHCCC--EEEEEecCccccccccceEEEecchhhhhhhhccc
Confidence 4588999998888899888888775 3444444432 225578999999999998887654
No 204
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=40.35 E-value=47 Score=27.64 Aligned_cols=54 Identities=15% Similarity=0.227 Sum_probs=33.4
Q ss_pred EEEcCCCCCCcHHHHHHHHhhcC--CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHH
Q 023559 9 IFVGGLSWNVTERQLENAFDRFG--KIIECQIMLERDSGRPRGFGFITYADRRAMDDAI 65 (280)
Q Consensus 9 lfVgnLp~~vte~dL~~~F~~~G--~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai 65 (280)
.||.-+....+..+|++.++++- .|..|..+.-+. +. -=|||.+....+|....
T Consensus 84 ~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p~-g~--KKA~V~L~~~~~aidva 139 (145)
T PTZ00191 84 TLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITPD-GL--KKAYIRLSPDVDALDVA 139 (145)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcCC-Cc--eEEEEEECCCCcHHHHH
Confidence 34444778888899988887642 455555444332 11 15999997766654433
No 205
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=40.24 E-value=1.3e+02 Score=21.30 Aligned_cols=64 Identities=14% Similarity=0.149 Sum_probs=37.7
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCc
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR 71 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~ 71 (280)
+|.|......-.-.+|..++++.+ .|..+.+...+..+......-|+..+.++.+..|+.|...
T Consensus 8 ~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d~~~L~~ii~~L~~i 72 (80)
T PF13291_consen 8 RLRIEAEDRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKDLEHLNQIIRKLRQI 72 (80)
T ss_dssp EEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESSHHHHHHHHHHHCTS
T ss_pred EEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECCHHHHHHHHHHHHCC
Confidence 344433333334467777787664 6788877664323333344456668899998888888643
No 206
>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=39.73 E-value=1.2e+02 Score=22.81 Aligned_cols=45 Identities=11% Similarity=0.086 Sum_probs=31.5
Q ss_pred HHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 21 RQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 21 ~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
+.++++++++| +|+++.+...+ .--++.+++.+.+.|.++.-.+.
T Consensus 23 ~a~~~~~e~~Gg~l~~~y~t~G~----yD~v~i~eaPD~~~a~~~~l~i~ 68 (91)
T PF08734_consen 23 EAVRALIEALGGKLKSFYWTLGE----YDFVVIVEAPDDETAAAASLAIR 68 (91)
T ss_pred HHHHHHHHHcCCEEEEEEEecCC----CCEEEEEEcCCHHHHHHHHHHHH
Confidence 45677777775 78888776543 34477889999988887754443
No 207
>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=39.62 E-value=1.1e+02 Score=20.21 Aligned_cols=48 Identities=17% Similarity=0.312 Sum_probs=27.5
Q ss_pred cHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEe-CCHHHHHHHHHHhc
Q 023559 19 TERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITY-ADRRAMDDAIREMH 69 (280)
Q Consensus 19 te~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F-~~~e~A~~Ai~~ln 69 (280)
.-.+|.++|.+.+ .|..+.+...... ...+++.+ .+.+.+++++++|+
T Consensus 13 ~l~~v~~~la~~~inI~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~l~ 62 (66)
T PF01842_consen 13 ILADVTEILADHGINIDSISQSSDKDG---VGIVFIVIVVDEEDLEKLLEELE 62 (66)
T ss_dssp HHHHHHHHHHHTTEEEEEEEEEEESST---TEEEEEEEEEEGHGHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHeEEEecCCC---ceEEEEEEECCCCCHHHHHHHHH
Confidence 3456777887775 6677766665432 23444444 34555566665554
No 208
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=39.19 E-value=1.8e+02 Score=22.41 Aligned_cols=57 Identities=14% Similarity=0.071 Sum_probs=36.5
Q ss_pred CcEEEEcCCCCCC---cHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcC
Q 023559 6 ENRIFVGGLSWNV---TERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHG 70 (280)
Q Consensus 6 ~~~lfVgnLp~~v---te~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng 70 (280)
...|-|+.....+ +...|++++++-+ .++.|.... .-..|.|++.++-.+|.+.|+.
T Consensus 31 ~pAvqIs~~~~~~~~~~~~~v~~~L~~~~I~~k~i~~~~--------~~llirf~~~~~Ql~Ak~~L~~ 91 (101)
T PF13721_consen 31 DPAVQISASSAGVQLPDAFQVEQALKAAGIAVKSIEQEG--------DSLLIRFDSTDQQLKAKDVLSK 91 (101)
T ss_pred CCcEEEecCCCCccCChHHHHHHHHHHCCCCcceEEeeC--------CEEEEEECCHHHHHHHHHHHHH
Confidence 4456666543322 2357888888765 344444322 2578999999998888877764
No 209
>PF11411 DNA_ligase_IV: DNA ligase IV; InterPro: IPR021536 DNA ligase IV along with Xrcc4 functions in DNA non-homologous end joining. This process is required to mend double-strand breaks. Upon ligase binding to an Xrcc4 dimer, the helical tails unwind leading to a flat interaction surface []. ; GO: 0003910 DNA ligase (ATP) activity; PDB: 3II6_Y 2E2W_A 1IK9_C.
Probab=38.59 E-value=22 Score=22.39 Aligned_cols=16 Identities=31% Similarity=0.534 Sum_probs=10.5
Q ss_pred CCCcHHHHHHHHhhcC
Q 023559 16 WNVTERQLENAFDRFG 31 (280)
Q Consensus 16 ~~vte~dL~~~F~~~G 31 (280)
.+|++++|+++|.++.
T Consensus 19 ~Dtd~~~Lk~vF~~i~ 34 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIK 34 (36)
T ss_dssp S---HHHHHHHHHCS-
T ss_pred ccCCHHHHHHHHHHhc
Confidence 4689999999998764
No 210
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=38.55 E-value=1e+02 Score=24.88 Aligned_cols=46 Identities=17% Similarity=0.367 Sum_probs=28.3
Q ss_pred CCcHHHHHHHHhhcCC-----eEEEEEeecCCCCCCccEEEEEeCCHHHHHH
Q 023559 17 NVTERQLENAFDRFGK-----IIECQIMLERDSGRPRGFGFITYADRRAMDD 63 (280)
Q Consensus 17 ~vte~dL~~~F~~~G~-----I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~ 63 (280)
+++.++|++-+++.-+ |.-..+-..-.++++.+||.| |++.|.|.+
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~akk 84 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAKK 84 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHHh
Confidence 4778888877764322 222233344455788899987 677666654
No 211
>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=38.53 E-value=15 Score=27.93 Aligned_cols=24 Identities=17% Similarity=0.378 Sum_probs=20.0
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHH
Q 023559 4 KDENRIFVGGLSWNVTERQLENAF 27 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F 27 (280)
....+|.|.|||..++|++|++.+
T Consensus 50 vs~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 50 VSKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred ccCCEEEEeCCCCCCChhhheeeE
Confidence 346789999999999999998654
No 212
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=38.09 E-value=1e+02 Score=24.21 Aligned_cols=73 Identities=15% Similarity=0.223 Sum_probs=35.6
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeC--C------HHHHHHHHHHhcCceeCCeEE
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYA--D------RRAMDDAIREMHGREFGDRVI 78 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~--~------~e~A~~Ai~~lng~~l~gr~I 78 (280)
..|||+++|.....+.|++. .+..|..+. .........++-++.+. + .+....|++.++...-.+.+|
T Consensus 6 ~~l~~G~~~~~~~~~~l~~~--gi~~Vi~l~--~~~~~~~~~~~~~~~ipi~D~~~~~~~~~~~~~~~~i~~~~~~~~~V 81 (138)
T smart00195 6 PHLYLGSYSSALNLALLKKL--GITHVINVT--NEVPNLNKKGFTYLGVPILDNTETKISPYFPEAVEFIEDAEKKGGKV 81 (138)
T ss_pred CCeEECChhHcCCHHHHHHc--CCCEEEEcc--CCCCCCCCCCCEEEEEECCCCCCCChHHHHHHHHHHHHHHhcCCCeE
Confidence 45999999877655444432 222333332 11111123444444443 2 122344555555444456677
Q ss_pred EEEec
Q 023559 79 SVNKA 83 (280)
Q Consensus 79 ~V~~a 83 (280)
.|...
T Consensus 82 lVHC~ 86 (138)
T smart00195 82 LVHCQ 86 (138)
T ss_pred EEECC
Confidence 77654
No 213
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=37.32 E-value=1.8e+02 Score=22.06 Aligned_cols=68 Identities=15% Similarity=0.256 Sum_probs=36.5
Q ss_pred cEEEEcCCCCCCcHHHHHHHHh-------hc-CCeEEEEEeecC-----CCCCCcc-EEEEEeCCHHHHHHHHHHhcCce
Q 023559 7 NRIFVGGLSWNVTERQLENAFD-------RF-GKIIECQIMLER-----DSGRPRG-FGFITYADRRAMDDAIREMHGRE 72 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~-------~~-G~I~~v~i~~d~-----~tg~~rG-~aFV~F~~~e~A~~Ai~~lng~~ 72 (280)
.++|| |.++++++++.++.+ +. |+|.++..+-.+ -....+| |.++.|+-..++.+.|+.. ..
T Consensus 9 E~~~I--l~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~eler~--lr 84 (97)
T CHL00123 9 ETMYL--LKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLEKA--LK 84 (97)
T ss_pred eEEEE--ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHHHH--hC
Confidence 45666 677777777665544 33 466665421111 1123445 5788888666666655432 23
Q ss_pred eCCeEE
Q 023559 73 FGDRVI 78 (280)
Q Consensus 73 l~gr~I 78 (280)
|+...|
T Consensus 85 i~e~Vl 90 (97)
T CHL00123 85 LDENVL 90 (97)
T ss_pred CCCCeE
Confidence 444444
No 214
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=37.28 E-value=60 Score=31.58 Aligned_cols=59 Identities=17% Similarity=0.221 Sum_probs=33.0
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhh---cCCeEEEEEeecCCCCCCccEEE-EEeCCHHHHHHHHHHhc
Q 023559 7 NRIFVGGLSWNVTERQLENAFDR---FGKIIECQIMLERDSGRPRGFGF-ITYADRRAMDDAIREMH 69 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~---~G~I~~v~i~~d~~tg~~rG~aF-V~F~~~e~A~~Ai~~ln 69 (280)
++|.|.-||+.++.+++.+.+.+ -+.|+ |.=+.+. |.+ ++-| |++.....+++.++.|.
T Consensus 217 ~~i~ITELP~~~~t~~~~e~i~~l~~~~~i~-I~d~~D~-Sd~--~v~ivI~lk~~~~~~~~~~~L~ 279 (426)
T PF00521_consen 217 NTIVITELPYGVWTEKYKEKIEELVEDKKIK-ISDYRDE-SDR--GVRIVIELKRGADPEKILEGLY 279 (426)
T ss_dssp EEEEEEE--TT--HHHHHHHHHHHHHTTSST-EEEEEE--BBT--BS-EEEEESTTSHHHHHHHHHH
T ss_pred cEEEEEeCCccccHHHHHHHHHHHhccCcch-hhHHHhc-CCC--ceeEEEEecCCccHHHHHHHHH
Confidence 69999999999987776665543 24566 5555554 443 5655 46666555666665444
No 215
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=35.43 E-value=13 Score=35.06 Aligned_cols=47 Identities=9% Similarity=0.170 Sum_probs=35.1
Q ss_pred HHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCc
Q 023559 21 RQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR 71 (280)
Q Consensus 21 ~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~ 71 (280)
..|.+++.+.|+|..-.+.+. -+.|.+||....+++++++++.|...
T Consensus 276 p~iF~~i~~~G~v~~~EM~rt----FNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 276 PPIFKWLQKAGNVEREEMYRT----FNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred cHHHHHHHHhcCCCHHHHHHH----hcCccceEEEEcHHHHHHHHHHHHhc
Confidence 556777778887776544432 24578899999999999999998865
No 216
>COG0002 ArgC Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=35.43 E-value=79 Score=30.11 Aligned_cols=46 Identities=24% Similarity=0.225 Sum_probs=27.0
Q ss_pred CCCCCcHHHHHHHHhhc-CCeEEEEEeec---CCCCC--CccEEEEEeCCHH
Q 023559 14 LSWNVTERQLENAFDRF-GKIIECQIMLE---RDSGR--PRGFGFITYADRR 59 (280)
Q Consensus 14 Lp~~vte~dL~~~F~~~-G~I~~v~i~~d---~~tg~--~rG~aFV~F~~~e 59 (280)
|...+|+++|+++|.+| ..-..|+|+.. +++.. -.-||.|-|...+
T Consensus 253 l~~~~t~~~i~~~y~~~Y~~epfVrv~~~~~~P~~k~V~GsN~cdIgf~~d~ 304 (349)
T COG0002 253 LKDLVTLEELHAAYEEFYAGEPFVRVVPEGGYPDTKAVAGSNFCDIGFAVDE 304 (349)
T ss_pred cCCCCCHHHHHHHHHHHhCCCCeEEEecCCCCCChhhhcCCcceEEEEEEcC
Confidence 55568999999999865 33344555542 22221 2236666665443
No 217
>PF02426 MIase: Muconolactone delta-isomerase; InterPro: IPR003464 This small enzyme forms a homodecameric complex, that catalyses the third step in the catabolism of catechol to succinate- and acetyl-coa in the beta-ketoadipate pathway (5.3.3.4 from EC). The protein has a ferredoxin-like fold according to SCOP.; GO: 0006725 cellular aromatic compound metabolic process
Probab=35.17 E-value=2e+02 Score=21.88 Aligned_cols=58 Identities=10% Similarity=0.182 Sum_probs=41.8
Q ss_pred CCCCCCcHHHHHHH----------HhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC
Q 023559 13 GLSWNVTERQLENA----------FDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG 74 (280)
Q Consensus 13 nLp~~vte~dL~~~----------F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~ 74 (280)
+||.+++.+++.++ +.+-|.+..+.-+. +....++.+.-++.++..+.|..|.-..+.
T Consensus 10 ~~P~~~~~~~~~~~~a~E~~~a~eLq~~G~~~~lWr~~----G~~~n~~Ifdv~d~~eLh~lL~sLPL~p~m 77 (91)
T PF02426_consen 10 NVPPDMPPEEVDRLKAREKARAQELQRQGKWRHLWRVV----GRYANVSIFDVEDNDELHELLSSLPLFPYM 77 (91)
T ss_pred eCCCCCCHHHHHHHHHHHHHHHHHHHHCCeeeEEEEec----CCcceEEEEECCCHHHHHHHHHhCCCccce
Confidence 68988887765443 34558888876643 345568888999999999888877655543
No 218
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=34.77 E-value=53 Score=31.19 Aligned_cols=48 Identities=6% Similarity=0.211 Sum_probs=32.8
Q ss_pred CCcEEEEcCCC----CCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHH
Q 023559 5 DENRIFVGGLS----WNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDD 63 (280)
Q Consensus 5 ~~~~lfVgnLp----~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~ 63 (280)
+.+.|||.|=. ..++.++|+++.+..-. .+.|+.| -||++|.. +++..
T Consensus 145 ~~~lv~i~nPNNPTG~~~~~~~l~~l~~~~~~--~~~vVvD--------EAY~eF~~-~~~~~ 196 (356)
T COG0079 145 KTKLVFLCNPNNPTGTLLPREELRALLEALPE--GGLVVID--------EAYIEFSP-ESSLE 196 (356)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHhCCC--CcEEEEe--------CchhhcCC-chhhh
Confidence 46778888522 13678999999988755 4455555 59999998 43333
No 219
>TIGR01873 cas_CT1978 CRISPR-associated endoribonuclease Cas2, E. coli subfamily. CRISPR is a term for Clustered, Regularly Interspaced Short Palidromic Repeats. A number of protein families appear only in association with these repeats and are designated Cas (CRISPR-Associated) proteins. This model represents a minor branch of the Cas2 family of CRISPR-associated endonuclease, whereas most Cas2 proteins are modeled instead by TIGR01573. This form of Cas2 is characteristic for the Ecoli subtype of CRISPR/Cas locus.
Probab=34.36 E-value=43 Score=25.40 Aligned_cols=50 Identities=28% Similarity=0.361 Sum_probs=28.0
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhc-CCeEEEEEeecCCCCCCccEEEEEeCC
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRF-GKIIECQIMLERDSGRPRGFGFITYAD 57 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~-G~I~~v~i~~d~~tg~~rG~aFV~F~~ 57 (280)
...-|||++++..+-|.-.+.+-+.| .+ -.+.++.. +.+..||.|.++-+
T Consensus 24 v~~GVyVg~~s~rVRe~lW~~v~~~~~~~-G~avm~~~--~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 24 PRAGVYVGGVSASVRERIWDYLAQHCPPK-GSLVITWS--SNTCPGFEFFTLGE 74 (87)
T ss_pred cCCCcEEcCCCHHHHHHHHHHHHHhCCCC-ccEEEEEe--CCCCCCcEEEecCC
Confidence 45679999999888765444433332 22 12222222 22345788887754
No 220
>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=34.27 E-value=1.7e+02 Score=21.83 Aligned_cols=48 Identities=19% Similarity=0.323 Sum_probs=26.1
Q ss_pred CCCcHHHHHHHHhhc-C----CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHH
Q 023559 16 WNVTERQLENAFDRF-G----KIIECQIMLERDSGRPRGFGFITYADRRAMDDA 64 (280)
Q Consensus 16 ~~vte~dL~~~F~~~-G----~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~A 64 (280)
.+.+..+|++.+.+. . .|.-..|.+.-..+++.+||.| |++.+.+++.
T Consensus 11 ~Tpsr~ei~~klA~~~~~~~~~ivv~~~~t~fG~~~s~g~a~I-Yd~~e~~kk~ 63 (84)
T PF01282_consen 11 PTPSRKEIREKLAAMLNVDPDLIVVFGIKTEFGGGKSTGFAKI-YDSAEALKKF 63 (84)
T ss_dssp SS--HHHHHHHHHHHHTSTGCCEEEEEEEESSSSSEEEEEEEE-ESSHHHHHHH
T ss_pred CCCCHHHHHHHHHHHhCCCCCeEEEeccEecCCCceEEEEEEE-eCCHHHHHHh
Confidence 445667777766543 2 2222344444444566777776 6777666543
No 221
>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=33.91 E-value=60 Score=23.17 Aligned_cols=24 Identities=13% Similarity=0.207 Sum_probs=20.1
Q ss_pred EEEEEeCCHHHHHHHHHHhcCcee
Q 023559 50 FGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 50 ~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
+.+|+|.+...|.+|-+.|....|
T Consensus 3 ~~~i~F~st~~a~~~ek~lk~~gi 26 (73)
T PF11823_consen 3 YYLITFPSTHDAMKAEKLLKKNGI 26 (73)
T ss_pred eEEEEECCHHHHHHHHHHHHHCCC
Confidence 689999999999999888776544
No 222
>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=33.88 E-value=1.3e+02 Score=28.90 Aligned_cols=53 Identities=13% Similarity=0.177 Sum_probs=36.6
Q ss_pred CCcHHHHHHHHh----hcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcC
Q 023559 17 NVTERQLENAFD----RFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHG 70 (280)
Q Consensus 17 ~vte~dL~~~F~----~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng 70 (280)
+++.-+|..+|. .+|.|+++.|...+.. +..-+.++.|.+.++|.+|+..+..
T Consensus 143 ~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~p-~~~~~~~~~f~~~~~~~~~~~~~~~ 199 (413)
T TIGR00387 143 DVAGYDLTGLFVGSEGTLGIVTEATLKLLPKP-ENIVVALAFFDSIEKAMQAVYDIIA 199 (413)
T ss_pred CCCCCChhhhcccCCccceEEEEEEEEeecCC-CccEEEEEECCCHHHHHHHHHHHHh
Confidence 344456777775 3678888877665543 2344678899999999999866643
No 223
>PRK00911 dihydroxy-acid dehydratase; Provisional
Probab=33.67 E-value=1.6e+02 Score=29.97 Aligned_cols=38 Identities=18% Similarity=0.203 Sum_probs=28.5
Q ss_pred CccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCCC
Q 023559 47 PRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 87 (280)
Q Consensus 47 ~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k~ 87 (280)
.+|-| +.|+++++|.+||.. +..-.+..|.|.+.-||.
T Consensus 397 ~~GpA-~VF~see~a~~ai~~--g~I~~gdVvViRyeGPkG 434 (552)
T PRK00911 397 FTGPA-RVFDSEEEAMEAILA--GKIKAGDVVVIRYEGPKG 434 (552)
T ss_pred eeeeE-EEECCHHHHHHHHhc--CCCCCCeEEEEeCCCCCC
Confidence 44445 569999999999854 555567788888887774
No 224
>PF05727 UPF0228: Uncharacterised protein family (UPF0228); InterPro: IPR008887 This small family of proteins is currently restricted to Methanosarcina species. Members of this family are about 200 residues in length, except for Q8TMK1 from SWISSPROT that has two copies of this region. Although the function of this region is unknown the pattern of conservation suggests that this may be an enzyme, including multiple conserved aspartate and glutamate residues. The most conserved motif in these proteins is NEL/MEXNE/D, where X can be any amino acid, and is found at the C terminus of these proteins.
Probab=33.56 E-value=96 Score=25.14 Aligned_cols=58 Identities=16% Similarity=0.377 Sum_probs=30.5
Q ss_pred CCCC-CcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHH-----HHHHHHHhcCceeCCeEEEEEec
Q 023559 14 LSWN-VTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRA-----MDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 14 Lp~~-vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~-----A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
|+.. +..+.+.++++++- +|++.. +|+|.|.+... -+.|++.-|..+.+...|.|.+.
T Consensus 59 vSEqai~d~~FL~iL~K~nLqvKKfV------------wCyI~f~dgs~nywIpe~DAirIKnELE~NE~il~V~~d 123 (127)
T PF05727_consen 59 VSEQAIEDKNFLEILEKYNLQVKKFV------------WCYIRFGDGSKNYWIPEKDAIRIKNELEMNEKILIVYLD 123 (127)
T ss_pred eehhhcCchhHHHHHHhcCcceeEEE------------EEEEEcCCCCcccccchHHHHHHHHHHhcCCcEEEEEec
Confidence 4433 33445666777763 222211 67788754322 13455444545556677777653
No 225
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=33.34 E-value=1.6e+02 Score=24.30 Aligned_cols=34 Identities=21% Similarity=0.298 Sum_probs=25.8
Q ss_pred eEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCc
Q 023559 33 IIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR 71 (280)
Q Consensus 33 I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~ 71 (280)
|.+|.++.. .+||.||+.+..+++..+|..+.+.
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 556665543 6899999999888888888777653
No 226
>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=32.85 E-value=20 Score=24.58 Aligned_cols=37 Identities=22% Similarity=0.395 Sum_probs=19.2
Q ss_pred CccEEEEEeCC-HHHHHHHHHHhcCceeCCeEEEEEecC
Q 023559 47 PRGFGFITYAD-RRAMDDAIREMHGREFGDRVISVNKAQ 84 (280)
Q Consensus 47 ~rG~aFV~F~~-~e~A~~Ai~~lng~~l~gr~I~V~~a~ 84 (280)
++||+||..++ .++.--.-..|+ ..+++-++.|.+..
T Consensus 7 ~~GfGFv~~~~~~~DifIp~~~l~-~A~~gD~V~v~i~~ 44 (58)
T PF08206_consen 7 PKGFGFVIPDDGGEDIFIPPRNLN-GAMDGDKVLVRITP 44 (58)
T ss_dssp SSS-EEEEECT-TEEEEE-HHHHT-TS-TT-EEEEEEEE
T ss_pred cCCCEEEEECCCCCCEEECHHHHC-CCCCCCEEEEEEec
Confidence 57899999987 222222223444 34556666666665
No 227
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=32.38 E-value=1.2e+02 Score=23.75 Aligned_cols=55 Identities=24% Similarity=0.248 Sum_probs=32.8
Q ss_pred EEEEcCCCCCCcH----------HHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHH
Q 023559 8 RIFVGGLSWNVTE----------RQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAI 65 (280)
Q Consensus 8 ~lfVgnLp~~vte----------~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai 65 (280)
..||-.|.+..-+ .+|.++++++ .|..-.|..+..+. .-|+++++.+.+...++|
T Consensus 4 ~af~m~l~p~~~eEYk~rH~~vWPE~~a~lk~a-gi~nYSIfLde~~n--~lFgy~E~~d~~a~m~~~ 68 (105)
T COG3254 4 YAFVMKLKPGKHEEYKRRHDAVWPELLALLKEA-GIRNYSIFLDEEEN--LLFGYWEYEDFEADMAKM 68 (105)
T ss_pred eEEEEEeCcchHHHHHHhhccccHHHHHHHHHc-CCceeEEEecCCcc--cEEEEEEEcChHHHHHHH
Confidence 3455556555443 3567778887 45555566555433 449999999555544443
No 228
>PLN02707 Soluble inorganic pyrophosphatase
Probab=32.31 E-value=26 Score=32.10 Aligned_cols=42 Identities=19% Similarity=0.276 Sum_probs=26.3
Q ss_pred HHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEE-EeCCHHHHHHHHHHhcC
Q 023559 20 ERQLENAFDRFGKIIECQIMLERDSGRPRGFGFI-TYADRRAMDDAIREMHG 70 (280)
Q Consensus 20 e~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV-~F~~~e~A~~Ai~~lng 70 (280)
-++|+++|..| ++.+ .+ ..+-|+|+ +|.+.+.|.+.|++.+.
T Consensus 207 l~~I~~fF~~Y-K~~e-----GK---~~n~~~~~~~~~~~~~A~~vI~e~~~ 249 (267)
T PLN02707 207 LTAIRDWFRDY-KIPD-----GK---PANKFGLDNKPMDKDYALKVIEETNE 249 (267)
T ss_pred HHHHHHHHHHh-cCCC-----CC---ceeeccccCCcCCHHHHHHHHHHHHH
Confidence 36788888887 2221 11 11125665 78999999988876653
No 229
>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=32.20 E-value=82 Score=23.28 Aligned_cols=26 Identities=15% Similarity=0.359 Sum_probs=21.8
Q ss_pred CccEEEEEeCCHHHHHHHHHHhcCce
Q 023559 47 PRGFGFITYADRRAMDDAIREMHGRE 72 (280)
Q Consensus 47 ~rG~aFV~F~~~e~A~~Ai~~lng~~ 72 (280)
.+||.|||=.+++++..||+.+....
T Consensus 43 lkGyIyVEA~~~~~V~~ai~gi~~i~ 68 (84)
T PF03439_consen 43 LKGYIYVEAERESDVKEAIRGIRHIR 68 (84)
T ss_dssp STSEEEEEESSHHHHHHHHTT-TTEE
T ss_pred CceEEEEEeCCHHHHHHHHhccccee
Confidence 68999999999999999998776543
No 230
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.18 E-value=2.3e+02 Score=23.84 Aligned_cols=57 Identities=14% Similarity=0.292 Sum_probs=39.5
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhc---CCeEEEEEeecCCCC---------CCcc-EEEEEeCCHHHH
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRF---GKIIECQIMLERDSG---------RPRG-FGFITYADRRAM 61 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~---G~I~~v~i~~d~~tg---------~~rG-~aFV~F~~~e~A 61 (280)
+..+|++-.++.-++|++..++.++- .+|++|.|-+.+++. .-+. |-+|.|++-+..
T Consensus 86 d~~KI~~k~asqGISe~~a~~~i~kE~~~~e~~~V~Lg~e~~~PiWEV~y~dkeg~~s~~~vdFetG~~l 155 (161)
T COG5353 86 DDGKIYSKKASQGISEEDARAIISKEKAVKEIKSVTLGREKEKPIWEVTYLDKEGRLSFYYVDFETGKEL 155 (161)
T ss_pred CCCeEEEEehhcCCCHHHHHHHHhhhccccceeEEEEEeeCCceeEEEeecCccCcceEEEEEeccchhh
Confidence 34799999999999999988888754 466777665554321 1123 778888876543
No 231
>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=31.90 E-value=1.5e+02 Score=19.34 Aligned_cols=42 Identities=14% Similarity=0.231 Sum_probs=27.2
Q ss_pred HHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHH
Q 023559 21 RQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAI 65 (280)
Q Consensus 21 ~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai 65 (280)
..|-++|.+.+ .|..+.+.... .......+++++.+.|.+++
T Consensus 13 ~~i~~~l~~~~inI~~~~~~~~~---~~~~~~~~~v~~~~~a~~~l 55 (56)
T cd04889 13 AEVTEILAEAGINIKAISIAETR---GEFGILRLIFSDPERAKEVL 55 (56)
T ss_pred HHHHHHHHHcCCCEeeEEEEEcc---CCcEEEEEEECCHHHHHHHh
Confidence 45556676664 67777765442 23457777888877777765
No 232
>KOG4388 consensus Hormone-sensitive lipase HSL [Lipid transport and metabolism]
Probab=31.83 E-value=64 Score=33.11 Aligned_cols=62 Identities=11% Similarity=0.269 Sum_probs=42.8
Q ss_pred CCCCCcEEEEcCCCCCCcHHH-HHHHHhhcCCeEEEEEeecCCCCCCccEEEEEe-----CCHHHHHHHHHHhc
Q 023559 2 AGKDENRIFVGGLSWNVTERQ-LENAFDRFGKIIECQIMLERDSGRPRGFGFITY-----ADRRAMDDAIREMH 69 (280)
Q Consensus 2 ~~~~~~~lfVgnLp~~vte~d-L~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F-----~~~e~A~~Ai~~ln 69 (280)
...+++.|...++.+-+++.- +..-+...|.++.+.|+.+-- .+|+.| +..+.++.||+.|.
T Consensus 785 ~qLPp~~i~ac~mDP~LDD~vmfA~kLr~lG~~v~l~vle~lP------HGFLnft~ls~E~~~~~~~CI~rl~ 852 (880)
T KOG4388|consen 785 KQLPPVHIVACAMDPMLDDSVMFARKLRNLGQPVTLRVLEDLP------HGFLNFTALSRETRQAAELCIERLR 852 (880)
T ss_pred hcCCCceEEEeccCcchhHHHHHHHHHHhcCCceeehhhhcCC------ccceeHHhhCHHHHHHHHHHHHHHH
Confidence 345677777777777665442 345566789999998886643 677777 45677788887775
No 233
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=31.61 E-value=60 Score=29.14 Aligned_cols=24 Identities=21% Similarity=0.516 Sum_probs=20.9
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHh
Q 023559 5 DENRIFVGGLSWNVTERQLENAFD 28 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~ 28 (280)
....++|+|||+.+++.-|.+++.
T Consensus 96 ~~~~~vv~NlPy~is~~il~~ll~ 119 (262)
T PF00398_consen 96 NQPLLVVGNLPYNISSPILRKLLE 119 (262)
T ss_dssp SSEEEEEEEETGTGHHHHHHHHHH
T ss_pred CCceEEEEEecccchHHHHHHHhh
Confidence 356788999999999999999887
No 234
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=31.25 E-value=13 Score=33.77 Aligned_cols=74 Identities=16% Similarity=0.255 Sum_probs=52.2
Q ss_pred cEEEEcCCCCCCcHHH-H--HHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 7 NRIFVGGLSWNVTERQ-L--ENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 7 ~~lfVgnLp~~vte~d-L--~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
..+|+.++-..|..+- | ...|+.+-.+++.+++.+.. +....++|+.|......+++..+-+.+.+.-..|++.
T Consensus 97 f~p~~~~~g~~v~pep~lp~~~~f~~~p~L~ktk~v~~~p-~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a 173 (290)
T KOG0226|consen 97 FRPFQSNAGATVNPEPPLPLPVVFSEYPSLVKTKLVRDRP-QPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLA 173 (290)
T ss_pred ccccccccccccCCCCCCcchhhhccchhhhhhhhhhcCC-CccCcccccCcchhhhhhhhccccccccccCcceeec
Confidence 4566777666665554 3 67788887777777776643 4567899999998888888876767777666655543
No 235
>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=31.18 E-value=80 Score=23.68 Aligned_cols=26 Identities=27% Similarity=0.491 Sum_probs=21.4
Q ss_pred CeEEEEEeecCCCCCCccEEEEEeCC
Q 023559 32 KIIECQIMLERDSGRPRGFGFITYAD 57 (280)
Q Consensus 32 ~I~~v~i~~d~~tg~~rG~aFV~F~~ 57 (280)
+|++|+|..-...++.++||=|+|.+
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 57888888776668899999999987
No 236
>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=31.11 E-value=1.7e+02 Score=19.88 Aligned_cols=45 Identities=16% Similarity=0.180 Sum_probs=28.5
Q ss_pred cHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHH
Q 023559 19 TERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIRE 67 (280)
Q Consensus 19 te~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ 67 (280)
.-.+|-++|.+.+ .|..+.+....+ +.+.-|.+++.+.|.++|++
T Consensus 14 ~La~v~~~l~~~~inI~~i~~~~~~~----~~~~rl~~~~~~~~~~~L~~ 59 (66)
T cd04908 14 RLAAVTEILSEAGINIRALSIADTSE----FGILRLIVSDPDKAKEALKE 59 (66)
T ss_pred hHHHHHHHHHHCCCCEEEEEEEecCC----CCEEEEEECCHHHHHHHHHH
Confidence 3466778887765 677776644322 35556667777677777654
No 237
>smart00434 TOP4c DNA Topoisomerase IV. Bacterial DNA topoisomerase IV, GyrA, ParC
Probab=31.06 E-value=1.3e+02 Score=29.67 Aligned_cols=61 Identities=13% Similarity=0.163 Sum_probs=34.7
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhh---cCCeEEEEEeecCCCCCCccEEEE-EeCCHHHHHHHHHHh
Q 023559 7 NRIFVGGLSWNVTERQLENAFDR---FGKIIECQIMLERDSGRPRGFGFI-TYADRRAMDDAIREM 68 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~---~G~I~~v~i~~d~~tg~~rG~aFV-~F~~~e~A~~Ai~~l 68 (280)
++|.|+.||..++.+.|.+...+ -.+|..|.-+.+.. ....++.|| ++.....++..++.|
T Consensus 233 ~~ivItElP~~~~~~~~~e~I~~lv~~~ki~~i~~~~des-~~~~~vrivI~lk~~~~~~~~~~~L 297 (445)
T smart00434 233 NTIVITELPYQVNKAKLIEKIAELVKDKKIEGIIDVRDES-HDRTGVRIVIELKRGAMAEVVLNGL 297 (445)
T ss_pred ceEEEEeCCCcccHHHHHHHHHHHHhcCCCCcceehhhcc-CCCCceEEEEEECCCcCHHHHHHHH
Confidence 68999999999988887766543 23444433333322 112346654 555444455444443
No 238
>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=30.53 E-value=2e+02 Score=22.44 Aligned_cols=47 Identities=15% Similarity=0.227 Sum_probs=29.9
Q ss_pred HHHHHhhcCCeEEEEEee-----cCCC----------CCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 23 LENAFDRFGKIIECQIML-----ERDS----------GRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 23 L~~~F~~~G~I~~v~i~~-----d~~t----------g~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
..++|..||.+.-+...- .+.| +..--|.+|+|.+.+...++.+++.
T Consensus 25 a~~vf~e~GAl~~vE~wgdDvp~G~~TsF~~Av~a~~~E~VVFSWi~wpska~rD~~~~k~m 86 (103)
T PF07237_consen 25 AAEVFKEHGALRVVECWGDDVPDGKVTSFPRAVKAKPDETVVFSWIEWPSKATRDAANAKMM 86 (103)
T ss_dssp HHHHHHHTT-SEEEEEEEEE----SS--HHHHTT--TTEEEEEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHhCCEEEEEeecCcCCcCccCCHHHHhcCCCCCEEEEEEEEcCCHHHHHHHHHHhh
Confidence 468899999766553221 2111 2223589999999999988876654
No 239
>PRK10905 cell division protein DamX; Validated
Probab=30.31 E-value=81 Score=29.68 Aligned_cols=59 Identities=10% Similarity=0.200 Sum_probs=36.9
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEE--EeCCHHHHHHHHHHhcC
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFI--TYADRRAMDDAIREMHG 70 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV--~F~~~e~A~~Ai~~lng 70 (280)
.+|-|.-+ .+++.|++|..++ .|....+......++. .|..| .|.+.++|++||+.|..
T Consensus 248 YTLQL~A~---Ss~~~l~~fakKl-gL~~y~vy~TtRnGkp-WYVV~yG~YaSraeAk~AiakLPa 308 (328)
T PRK10905 248 YTLQLSSS---SNYDNLNGWAKKE-NLKNYVVYETTRNGQP-WYVLVSGVYASKEEAKRAVSTLPA 308 (328)
T ss_pred eEEEEEec---CCHHHHHHHHHHc-CCCceEEEEeccCCce-EEEEEecCCCCHHHHHHHHHHCCH
Confidence 45555444 4567788888877 3444444443333332 23333 68999999999998863
No 240
>PF01205 UPF0029: Uncharacterized protein family UPF0029; InterPro: IPR001498 The Impact protein is a translational regulator that ensures constant high levels of translation under amino acid starvation. It acts by interacting with Gcn1/Gcn1L1, thereby preventing activation of Gcn2 protein kinases (EIF2AK1 to 4) and subsequent down-regulation of protein synthesis. It is evolutionary conserved from eukaryotes to archaea []. This entry represents the N-terminal domain of the Impact proteins.; PDB: 1VI7_A 2CVE_A.
Probab=29.91 E-value=43 Score=26.39 Aligned_cols=24 Identities=13% Similarity=0.182 Sum_probs=17.7
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhh
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDR 29 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~ 29 (280)
.++.||..+-+..+++++++++++
T Consensus 2 kkS~Fia~~~~v~s~~~~~~~l~~ 25 (110)
T PF01205_consen 2 KKSKFIAHAAPVESEEEAEEFLEE 25 (110)
T ss_dssp TTEEEEEEEEE-SCHHHHHHHHHH
T ss_pred CCCEEEEEEEEcCCHHHHHHHHHH
Confidence 467888888888888888777763
No 241
>PLN02968 Probable N-acetyl-gamma-glutamyl-phosphate reductase
Probab=29.69 E-value=72 Score=30.65 Aligned_cols=31 Identities=13% Similarity=0.240 Sum_probs=22.6
Q ss_pred EEEEcCCCCCCcHHHHHHHHhh-cCCeEEEEEe
Q 023559 8 RIFVGGLSWNVTERQLENAFDR-FGKIIECQIM 39 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~-~G~I~~v~i~ 39 (280)
+|+|. |...+++++|+++|.+ |-.+..|++.
T Consensus 280 tv~v~-~~~~~~~~~v~~~~~~~y~~~~fV~~~ 311 (381)
T PLN02968 280 TVYVH-YAPGVTAEDLHQHLKERYEGEEFVKVL 311 (381)
T ss_pred EEEEE-eCCCCCHHHHHHHHHHhCCCCCEEEeC
Confidence 45553 5677899999999998 5666666663
No 242
>KOG4840 consensus Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=29.50 E-value=96 Score=28.10 Aligned_cols=70 Identities=19% Similarity=0.323 Sum_probs=35.5
Q ss_pred CcEEEEcCCCCCCc----HHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEe-CCHHHHHHHHHHhcCceeCCeEEE
Q 023559 6 ENRIFVGGLSWNVT----ERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITY-ADRRAMDDAIREMHGREFGDRVIS 79 (280)
Q Consensus 6 ~~~lfVgnLp~~vt----e~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F-~~~e~A~~Ai~~lng~~l~gr~I~ 79 (280)
...|||++|-..+- -+.|...+.+.+ .|+.+.+.. ...||+.-.. .+.|+.+.+|+.+.+..+.-..+-
T Consensus 37 ~~vvfiGGLgdgLl~~~y~~~L~~~lde~~wslVq~q~~S-----sy~G~Gt~slk~D~edl~~l~~Hi~~~~fSt~vVL 111 (299)
T KOG4840|consen 37 VKVVFIGGLGDGLLICLYTTMLNRYLDENSWSLVQPQLRS-----SYNGYGTFSLKDDVEDLKCLLEHIQLCGFSTDVVL 111 (299)
T ss_pred EEEEEEcccCCCccccccHHHHHHHHhhccceeeeeeccc-----cccccccccccccHHHHHHHHHHhhccCcccceEE
Confidence 56899999866532 234444443322 333333321 1234443333 366777777776665554443333
Q ss_pred E
Q 023559 80 V 80 (280)
Q Consensus 80 V 80 (280)
|
T Consensus 112 ~ 112 (299)
T KOG4840|consen 112 V 112 (299)
T ss_pred E
Confidence 3
No 243
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=29.23 E-value=1e+02 Score=23.89 Aligned_cols=51 Identities=16% Similarity=0.273 Sum_probs=30.3
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCH
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADR 58 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~ 58 (280)
...-|||++++..+-|.-.+.+-+.+..- .+.++.. .+ ...||+|.++-+.
T Consensus 26 v~~GVyVg~~S~rVRd~lW~~v~~~~~~G-~avmv~~-~~-~eqG~~~~t~G~~ 76 (97)
T PRK11558 26 VRAGVYVGDVSRRIREMIWQQVTQLAEEG-NVVMAWA-TN-TESGFEFQTFGEN 76 (97)
T ss_pred cCCCcEEcCCCHHHHHHHHHHHHHhCCCC-cEEEEEc-CC-CCCCcEEEecCCC
Confidence 45679999998888766544544444332 2333332 22 2348999887653
No 244
>PRK01178 rps24e 30S ribosomal protein S24e; Reviewed
Probab=29.15 E-value=2e+02 Score=22.30 Aligned_cols=47 Identities=11% Similarity=0.318 Sum_probs=25.5
Q ss_pred CCcHHHHHHHHh-hcCCeEEEEEeecCCC----CCCccEEEEEeCCHHHHHHH
Q 023559 17 NVTERQLENAFD-RFGKIIECQIMLERDS----GRPRGFGFITYADRRAMDDA 64 (280)
Q Consensus 17 ~vte~dL~~~F~-~~G~I~~v~i~~d~~t----g~~rG~aFV~F~~~e~A~~A 64 (280)
+.+..+|++-+. .+..=.++.|+..-.| +++.|||.| |++.+.|++.
T Consensus 30 tpsr~eirekLa~~~~~~~~~vvv~~~~t~fG~g~s~G~a~I-Yds~e~~kk~ 81 (99)
T PRK01178 30 TPSRKDVRKKLAAMLNADKELVVVRKIKTEYGMGKSKGYAKV-YDDKERARKI 81 (99)
T ss_pred CCCHHHHHHHHHHHHCcCCCEEEEEccCccCCCceEEEEEEE-ECCHHHHHhh
Confidence 456677776664 3443223333333222 566777776 6676666543
No 245
>PRK05904 coproporphyrinogen III oxidase; Provisional
Probab=29.13 E-value=4.4e+02 Score=24.87 Aligned_cols=39 Identities=18% Similarity=0.250 Sum_probs=23.0
Q ss_pred CCcEEEEcCCCCC-CcHHHHHHHHh----hcCCeEEEEEeecCC
Q 023559 5 DENRIFVGGLSWN-VTERQLENAFD----RFGKIIECQIMLERD 43 (280)
Q Consensus 5 ~~~~lfVgnLp~~-vte~dL~~~F~----~~G~I~~v~i~~d~~ 43 (280)
...+|||++=.+. ++.++|++++. .+....+|.|..+++
T Consensus 56 ~~~tiy~GGGTPs~L~~~~l~~ll~~i~~~~~~~~eitiE~nP~ 99 (353)
T PRK05904 56 QFKTIYLGGGTPNCLNDQLLDILLSTIKPYVDNNCEFTIECNPE 99 (353)
T ss_pred CeEEEEECCCccccCCHHHHHHHHHHHHHhcCCCCeEEEEeccC
Confidence 4568888766555 57777777664 233334555555443
No 246
>KOG1719 consensus Dual specificity phosphatase [Defense mechanisms]
Probab=29.04 E-value=1.9e+02 Score=24.66 Aligned_cols=28 Identities=11% Similarity=0.127 Sum_probs=23.4
Q ss_pred CCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 56 ADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 56 ~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
.+.++.++|++.++.....++.+.|...
T Consensus 90 Ps~~~i~~aVeFi~k~asLGktvYVHCK 117 (183)
T KOG1719|consen 90 PSLENIQKAVEFIHKNASLGKTVYVHCK 117 (183)
T ss_pred CCHHHHHHHHHHHHhccccCCeEEEEec
Confidence 4788899999999988888998888754
No 247
>COG5227 SMT3 Ubiquitin-like protein (sentrin) [Posttranslational modification, protein turnover, chaperones]
Probab=28.75 E-value=1.4e+02 Score=22.98 Aligned_cols=66 Identities=17% Similarity=0.338 Sum_probs=38.9
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhh-cC-CeEEEEEeecCCC-CCCccEEEEEeCCHHHHHHHHHHhcC
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDR-FG-KIIECQIMLERDS-GRPRGFGFITYADRRAMDDAIREMHG 70 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~-~G-~I~~v~i~~d~~t-g~~rG~aFV~F~~~e~A~~Ai~~lng 70 (280)
...++||+ +|...|+-..|.++|+. .| ...+++++.+-.. ..-+--+=+.|++.++.++..+++-+
T Consensus 32 qd~telfF-kiKktT~f~klm~af~~rqGK~m~slRfL~dG~rI~~dqTP~dldmEdnd~iEav~eQvGG 100 (103)
T COG5227 32 QDGTELFF-KIKKTTTFKKLMDAFSRRQGKNMSSLRFLFDGKRIDLDQTPGDLDMEDNDEIEAVTEQVGG 100 (103)
T ss_pred CCCCEEEE-EEeccchHHHHHHHHHHHhCcCcceeEEEEcceecCCCCChhhcCCccchHHHHHHHHhcC
Confidence 34555654 68888888889888874 34 3455555543211 00011244667888888877776644
No 248
>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=28.72 E-value=1.7e+02 Score=19.16 Aligned_cols=49 Identities=8% Similarity=0.146 Sum_probs=25.8
Q ss_pred CcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 18 VTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 18 vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
-.-.+|-++|++++ .|.++.+..... .......+++++. ...+.+++|.
T Consensus 11 g~l~~i~~~l~~~~~nI~~~~~~~~~~--~~~~~~~~~v~~~-~~~~l~~~l~ 60 (71)
T cd04879 11 GVIGKVGTILGEHGINIAAMQVGRKEK--GGIAYMVLDVDSP-VPEEVLEELK 60 (71)
T ss_pred CHHHHHHHHHHhcCCCeeeEEEeccCC--CCEEEEEEEcCCC-CCHHHHHHHH
Confidence 34567888888775 677776644321 1222444455443 3334444444
No 249
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=28.68 E-value=2.1e+02 Score=29.05 Aligned_cols=51 Identities=12% Similarity=0.137 Sum_probs=36.0
Q ss_pred CcHHHHHHHHh----hcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 18 VTERQLENAFD----RFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 18 vte~dL~~~F~----~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
++.-+|..+|. .+|.|+++.|...+.. ..+-.+++.|.+.++|.+|+..+.
T Consensus 278 ~~g~dL~~l~~GseGtLGIIT~~tlrl~p~P-~~~~~~~~~f~~~~~a~~av~~i~ 332 (555)
T PLN02805 278 AAGYDLTRLVIGSEGTLGVITEVTLRLQKIP-QHSVVAMCNFPTIKDAADVAIATM 332 (555)
T ss_pred CCCccHHHHhccCCCceEEEEEEEEEeecCC-cceEEEEEEcCCHHHHHHHHHHHH
Confidence 34457877772 5788999877654432 234578899999999988876654
No 250
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=28.54 E-value=1.9e+02 Score=29.95 Aligned_cols=61 Identities=15% Similarity=0.245 Sum_probs=37.5
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhh---cCCeEEEEEeecCCCCCCccEEE-EEeCCHHHHHHHHHHhcC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDR---FGKIIECQIMLERDSGRPRGFGF-ITYADRRAMDDAIREMHG 70 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~---~G~I~~v~i~~d~~tg~~rG~aF-V~F~~~e~A~~Ai~~lng 70 (280)
.++|.|.-||+.++.+.|.+...+ -+.|+ |.-+.|. |.. .+.| |++.....++..++.|-.
T Consensus 220 ~~~ivItEiP~~~~~~~li~~i~~~~~~~ki~-I~~i~D~-s~~--~v~i~i~l~~~~~~~~~~~~Lyk 284 (635)
T PRK09631 220 EKTIVIREIPFGTTTESLIASIEKAARKGKIK-ISSINDY-TAE--NVEIEIKLPRGVYASEVIEALYA 284 (635)
T ss_pred CCEEEEEeCCCcccHHHHHHHHHHHHHcCCCc-cceeEeC-CCC--cEEEEEEECCCCCHHHHHHHHHH
Confidence 468999999999988887765442 24554 4444553 222 3444 456666566666655543
No 251
>PF05573 NosL: NosL; InterPro: IPR008719 NosL is one of the accessory proteins of the nos (nitrous oxide reductase) gene cluster. NosL is a monomeric protein of 18,540 MW that specifically and stoichiometrically binds Cu(I). The copper ion in NosL is ligated by a Cys residue, and one Met and one His are thought to serve as the other ligands. It is possible that NosL is a copper chaperone involved in metallocentre assembly []. This entry also contains HTH-type transcriptional repressors, including YcnK. YcnK may act as a negative transcriptional regulator of YcnJ in the presence of copper and may use copper as a corepressor. The gene, ycnK, is significantly induced under copper-limiting conditions.; PDB: 2HQ3_A 2HPU_A.
Probab=28.53 E-value=27 Score=28.86 Aligned_cols=25 Identities=20% Similarity=0.377 Sum_probs=17.6
Q ss_pred ccEEEEEeCCHHHHHHHHHHhcCce
Q 023559 48 RGFGFITYADRRAMDDAIREMHGRE 72 (280)
Q Consensus 48 rG~aFV~F~~~e~A~~Ai~~lng~~ 72 (280)
-+..+|-|.+.++|++.+++..++.
T Consensus 114 Mg~~~~aF~~~~~A~~F~~~~GG~v 138 (149)
T PF05573_consen 114 MGPDLIAFASKEDAEAFAKEHGGKV 138 (149)
T ss_dssp TS--EEEES-HHHHHHHHHHTEEEE
T ss_pred CCCcccccCCHHHHHHHHHHcCCEE
Confidence 4688999999999999998765443
No 252
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=28.30 E-value=99 Score=30.75 Aligned_cols=60 Identities=15% Similarity=0.220 Sum_probs=43.0
Q ss_pred EEEcCCCCCCcH---HHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEE
Q 023559 9 IFVGGLSWNVTE---RQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVI 78 (280)
Q Consensus 9 lfVgnLp~~vte---~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I 78 (280)
=+|+||+.-... ..|.++-++||.|-.++|-.. -.|...+.+.|+.|+. -|+.++.+++.
T Consensus 35 PiIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~~---------~~Vviss~~~akE~l~-~~d~~fa~Rp~ 97 (489)
T KOG0156|consen 35 PIIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGSV---------PVVVISSYEAAKEVLV-KQDLEFADRPD 97 (489)
T ss_pred CccccHHHcCCCchhHHHHHHHHHhCCeEEEEecCc---------eEEEECCHHHHHHHHH-hCCccccCCCC
Confidence 357787765433 455666668999998887432 4677889999999984 46778877775
No 253
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=28.14 E-value=1.8e+02 Score=28.63 Aligned_cols=60 Identities=15% Similarity=0.266 Sum_probs=35.3
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhc---CCeEEEEEeecCCCCCCccEEEE-EeCCHHHHHHHHHHh
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRF---GKIIECQIMLERDSGRPRGFGFI-TYADRRAMDDAIREM 68 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~---G~I~~v~i~~d~~tg~~rG~aFV-~F~~~e~A~~Ai~~l 68 (280)
++|.|..||+.++.+.|.+.+... .+|..|.=+.+..+. .++.|| ++.....++..++.|
T Consensus 226 ~~i~ItElP~~~~~~~~~e~i~~l~~~~k~~~I~~~~D~s~~--~~vrivI~lk~~~~~~~~~~~L 289 (445)
T cd00187 226 NTIEITELPYQVNKAKLKEKIAELVKDKKIEGISDVRDESDR--EGIRFVIELKRGAMAEVVLNGL 289 (445)
T ss_pred ceEEEEeCCCcccHHHHHHHHHHHHhcCCCcccceeeeccCC--CceEEEEEECCCccHHHHHHHH
Confidence 689999999999888877665432 233334333443322 256664 555555555554444
No 254
>PRK13562 acetolactate synthase 1 regulatory subunit; Provisional
Probab=28.12 E-value=2.6e+02 Score=21.00 Aligned_cols=62 Identities=13% Similarity=0.207 Sum_probs=42.3
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEe-CCHHHHHHHHHHhcCc
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITY-ADRRAMDDAIREMHGR 71 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F-~~~e~A~~Ai~~lng~ 71 (280)
-+|+|-|-|--+ ..+..+|+.-+ .|.++.+-.....+.++ +.+|.- .+++..++.+++|+..
T Consensus 5 isvlVeN~~GVL--~Rit~lFsRRg~NI~SLtvg~Te~~~iSR-mtivv~~~d~~~ieqI~kQL~Kl 68 (84)
T PRK13562 5 LKLQVADQVSTL--NRITSAFVRLQYNIDTLHVTHSEQPGISN-MEIQVDIQDDTSLHILIKKLKQQ 68 (84)
T ss_pred EEEEEECCCCHH--HHHHHHHhccCcCeeeEEecccCCCCceE-EEEEEeCCCHHHHHHHHHHHhCC
Confidence 356676665443 45678898655 89988886654445555 666665 7888888888888754
No 255
>COG3102 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.93 E-value=72 Score=27.31 Aligned_cols=43 Identities=19% Similarity=0.183 Sum_probs=29.4
Q ss_pred ccEEEEEeC----CHHHHHHHHHHhcCceeCCeEEEEEecCCCCCCC
Q 023559 48 RGFGFITYA----DRRAMDDAIREMHGREFGDRVISVNKAQPKMGGE 90 (280)
Q Consensus 48 rG~aFV~F~----~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k~~~~ 90 (280)
.|+-.|+|. -++....|+..++...|...-|+|..+.|+.+..
T Consensus 109 egWEHIEiVlP~~peel~~~~~~l~~~~~l~~~gi~vk~ssp~ge~e 155 (185)
T COG3102 109 EGWEHIEIVLPGDPEELNARALALLNDEFLWELGISVKLSSPQGEHE 155 (185)
T ss_pred cCceeEEEEcCCChHHHHHHHHhhcchhhcccCceEEEecCCCCccc
Confidence 366666664 3455566777777666666669999999887654
No 256
>PHA01632 hypothetical protein
Probab=27.85 E-value=54 Score=22.80 Aligned_cols=20 Identities=15% Similarity=0.323 Sum_probs=16.0
Q ss_pred EEcCCCCCCcHHHHHHHHhh
Q 023559 10 FVGGLSWNVTERQLENAFDR 29 (280)
Q Consensus 10 fVgnLp~~vte~dL~~~F~~ 29 (280)
.|-.+|..-||++|++++.+
T Consensus 20 lieqvp~kpteeelrkvlpk 39 (64)
T PHA01632 20 LIEQVPQKPTEEELRKVLPK 39 (64)
T ss_pred ehhhcCCCCCHHHHHHHHHH
Confidence 35678999999999887664
No 257
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=27.83 E-value=22 Score=28.67 Aligned_cols=72 Identities=11% Similarity=0.149 Sum_probs=42.1
Q ss_pred EEEcCC-C-CCCcHHHHHHHHhhc-CCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 9 IFVGGL-S-WNVTERQLENAFDRF-GKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 9 lfVgnL-p-~~vte~dL~~~F~~~-G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
..|+.+ . ..++.+.|.+.+.+. .....+.|..- ..++..+.|.++++++++++ ..-..+++..|.|+.-+|
T Consensus 18 ~lVg~~l~~~~~~~~~l~~~l~~~W~~~~~~~i~~l-----~~~~fl~~F~~~~d~~~vl~-~~p~~~~~~~~~l~~W~~ 91 (153)
T PF14111_consen 18 CLVGRVLSPKPISLSALEQELAKIWKLKGGVKIRDL-----GDNLFLFQFESEEDRQRVLK-GGPWNFNGHFLILQRWSP 91 (153)
T ss_pred EEEEEECCCCCCCHHHHHHHHHHHhCCCCcEEEEEe-----CCCeEEEEEEeccceeEEEe-cccccccccchhhhhhcc
Confidence 344444 2 235666676666542 22223333221 13489999999999999884 344566777777765554
Q ss_pred C
Q 023559 86 K 86 (280)
Q Consensus 86 k 86 (280)
.
T Consensus 92 ~ 92 (153)
T PF14111_consen 92 D 92 (153)
T ss_pred c
Confidence 3
No 258
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=27.77 E-value=70 Score=26.38 Aligned_cols=24 Identities=21% Similarity=0.289 Sum_probs=19.5
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhc
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRF 30 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~ 30 (280)
.-+.|+|+|+.++.+.|..++...
T Consensus 78 ~d~vi~n~Py~~~~~~i~~~l~~~ 101 (169)
T smart00650 78 PYKVVGNLPYNISTPILFKLLEEP 101 (169)
T ss_pred CCEEEECCCcccHHHHHHHHHhcC
Confidence 356789999999988888888653
No 259
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=27.67 E-value=2.2e+02 Score=26.22 Aligned_cols=61 Identities=15% Similarity=0.145 Sum_probs=33.7
Q ss_pred CCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeC
Q 023559 13 GLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFG 74 (280)
Q Consensus 13 nLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~ 74 (280)
.+|..++.++|++.|....+-..+.|.....+.+.+ .|+..-.+-..+++.|..+....+.
T Consensus 56 ~~p~~~~~~~L~~~L~~l~~~l~l~i~i~~~~~~~r-i~vl~Sg~g~nl~al~~~~~~~~~~ 116 (286)
T PRK13011 56 HSEEGLDEDALRAGFAPIAARFGMQWELHDPAARPK-VLIMVSKFDHCLNDLLYRWRIGELP 116 (286)
T ss_pred ecCCCCCHHHHHHHHHHHHHHhCcEEEEeecccCce-EEEEEcCCcccHHHHHHHHHcCCCC
Confidence 478888899999999877653333333222222333 5554444444455555555444443
No 260
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=27.65 E-value=52 Score=29.74 Aligned_cols=34 Identities=21% Similarity=0.293 Sum_probs=23.6
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeec
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIECQIMLE 41 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d 41 (280)
.++|+|||+.++..-|.+++...-.+..+.++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~~~~~~~~~l~~Q 140 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEERDPIRDMVVMVQ 140 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhcCCCCCeeEEEeH
Confidence 5779999999998888888864323444444433
No 261
>smart00343 ZnF_C2HC zinc finger.
Probab=27.44 E-value=36 Score=19.19 Aligned_cols=15 Identities=67% Similarity=1.761 Sum_probs=13.5
Q ss_pred CCCCCCCCCCCCCCC
Q 023559 120 CFKCGRPGHWARDCP 134 (280)
Q Consensus 120 ~~~~g~~g~~~~~~~ 134 (280)
|+.|+..+|+..+|+
T Consensus 2 C~~CG~~GH~~~~C~ 16 (26)
T smart00343 2 CYNCGKEGHIARDCP 16 (26)
T ss_pred CccCCCCCcchhhCC
Confidence 788999999999987
No 262
>PRK02886 hypothetical protein; Provisional
Probab=27.35 E-value=1.9e+02 Score=21.92 Aligned_cols=38 Identities=18% Similarity=0.481 Sum_probs=25.8
Q ss_pred HhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee
Q 023559 27 FDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 27 F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
+.+||.|..+.=-. -|+ |.|.+.++|++.++.|....+
T Consensus 21 LrkyG~I~Y~Skr~--------kYv-vlYvn~~~~e~~~~kl~~l~f 58 (87)
T PRK02886 21 LRKFGNVHYVSKRL--------KYA-VLYCDMEQVEDIMNKLSSLPF 58 (87)
T ss_pred HhhcCcEEEEeccc--------cEE-EEEECHHHHHHHHHHHhcCCC
Confidence 46899998763211 155 446788889998888876544
No 263
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=27.08 E-value=47 Score=30.68 Aligned_cols=32 Identities=6% Similarity=0.108 Sum_probs=22.8
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEe
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFGKIIECQIM 39 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~ 39 (280)
.+.|.|||+.++...|.+++...-.+..+.||
T Consensus 103 d~VvaNlPY~Istpil~~ll~~~~~~~~~vlm 134 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAHRPLFRCAVLM 134 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhcCCCCceeeee
Confidence 47789999999999888888653344444333
No 264
>PF09507 CDC27: DNA polymerase subunit Cdc27; InterPro: IPR019038 This protein forms the C subunit of DNA polymerase delta. It carries the essential residues for binding to the Pol1 subunit of polymerase alpha, from residues 293-332, which are characterised by the motif D--G--VT, referred to as the DPIM motif. The first 160 residues of the protein form the minimal domain for binding to the B subunit, Cdc1, of polymerase delta, the final 10 C-terminal residues, 362-372, being the DNA sliding clamp, PCNA, binding motif. ; GO: 0006260 DNA replication, 0005634 nucleus; PDB: 1U76_B 3E0J_B.
Probab=26.97 E-value=71 Score=30.46 Aligned_cols=57 Identities=9% Similarity=0.114 Sum_probs=28.6
Q ss_pred CCCCCCcHHHHHHHHhhc-----CCeEEEEEeecCCCCCCccEEE-------EEeCCHHHHHHHHHHhc
Q 023559 13 GLSWNVTERQLENAFDRF-----GKIIECQIMLERDSGRPRGFGF-------ITYADRRAMDDAIREMH 69 (280)
Q Consensus 13 nLp~~vte~dL~~~F~~~-----G~I~~v~i~~d~~tg~~rG~aF-------V~F~~~e~A~~Ai~~ln 69 (280)
+|+.++..+.|.+|+.++ ..|.-+.||.........-+.. |.+..+++++.|+..|.
T Consensus 13 ~ihvn~AK~~L~ef~~~~~~k~~~~l~atYlvsG~~k~~~~~~~~~~~~~~~v~Lv~e~~Le~~k~~f~ 81 (430)
T PF09507_consen 13 GIHVNQAKQMLYEFHEKQNAKKPGSLHATYLVSGWLKDNGEPSHNDEEMDYSVILVREEDLEEAKAKFE 81 (430)
T ss_dssp T--HHHHHHHHHHHHHHHHHHHS-S-EEEEEEEEEEESSSSEEEE-------EEEEETTTHHHHHHH-S
T ss_pred CCCHHHHHHHHHHHHHhccccCCCceEEEEEEEEEeCCCCCccccccccceeEEEeeHHHHHHHHHhcc
Confidence 345555666788887766 4566666655332221211222 55555666666666665
No 265
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=26.84 E-value=1.3e+02 Score=28.71 Aligned_cols=51 Identities=12% Similarity=-0.003 Sum_probs=35.6
Q ss_pred HHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEE
Q 023559 20 ERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVI 78 (280)
Q Consensus 20 e~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I 78 (280)
-++|+.+|.+---+..++...+ --||+|..+-+.++-|...++..+.+.+|
T Consensus 264 Y~~Le~HF~~~hy~ct~qtc~~--------~k~~vf~~~~el~~h~~~~h~~~~~~~~~ 314 (493)
T COG5236 264 YEDLEAHFRNAHYCCTFQTCRV--------GKCYVFPYHTELLEHLTRFHKVNARLSEI 314 (493)
T ss_pred HHHHHHHhhcCceEEEEEEEec--------CcEEEeccHHHHHHHHHHHhhcccccCcC
Confidence 4678888876555555554443 24788999999988888888776665543
No 266
>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=26.84 E-value=2.2e+02 Score=19.79 Aligned_cols=51 Identities=14% Similarity=0.181 Sum_probs=29.6
Q ss_pred cHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCC---HHHHHHHHHHhcC
Q 023559 19 TERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYAD---RRAMDDAIREMHG 70 (280)
Q Consensus 19 te~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~---~e~A~~Ai~~lng 70 (280)
+-.+|-++|++++ .|.+|.-...+. ....-.-||+++. ....+.+++.|..
T Consensus 12 ~L~~vL~~f~~~~vni~~I~Srp~~~-~~~~~~f~id~~~~~~~~~~~~~l~~l~~ 66 (75)
T cd04880 12 ALAKALKVFAERGINLTKIESRPSRK-GLWEYEFFVDFEGHIDDPDVKEALEELKR 66 (75)
T ss_pred HHHHHHHHHHHCCCCEEEEEeeecCC-CCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 3466777788774 566664333222 1223356788874 5566777777654
No 267
>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=26.62 E-value=2.3e+02 Score=19.90 Aligned_cols=44 Identities=16% Similarity=0.230 Sum_probs=28.0
Q ss_pred HHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 21 RQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 21 ~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
.+|.+++.++| +.-+.|. . ++ .-++.|+.+++.+.++++++.|.
T Consensus 37 ~~~~~~~~~~G-a~~~~~s-G--sG-~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMS-G--SG-GGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEE-T--TS-SSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecC-C--CC-CCCeEEEEECCHHHHHHHHHHHH
Confidence 34666677787 3333442 1 10 13478888889999988887774
No 268
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=26.51 E-value=1.3e+02 Score=21.78 Aligned_cols=39 Identities=15% Similarity=0.365 Sum_probs=26.5
Q ss_pred HHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee
Q 023559 26 AFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 26 ~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
.+.+||.|..+.=- .-|+. .|.+.+++++.++.|....+
T Consensus 16 ~L~kfG~i~Y~Skk--------~kYvv-lYvn~~~~e~~~~kl~~l~f 54 (71)
T PF09902_consen 16 QLRKFGDIHYVSKK--------MKYVV-LYVNEEDVEEIIEKLKKLKF 54 (71)
T ss_pred hHhhcccEEEEECC--------ccEEE-EEECHHHHHHHHHHHhcCCC
Confidence 45789998876321 12554 46788899999888876544
No 269
>PF14268 YoaP: YoaP-like
Probab=26.50 E-value=51 Score=21.72 Aligned_cols=34 Identities=12% Similarity=0.129 Sum_probs=25.0
Q ss_pred EEEEEeCCHHHHHHHHHHhcCcee--CCeEEEEEec
Q 023559 50 FGFITYADRRAMDDAIREMHGREF--GDRVISVNKA 83 (280)
Q Consensus 50 ~aFV~F~~~e~A~~Ai~~lng~~l--~gr~I~V~~a 83 (280)
+-+|.+++.|+|+.|-.-.+...| +|+-|.+++-
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 356888999999988655555543 7888888764
No 270
>cd06396 PB1_NBR1 The PB1 domain is an essential part of NBR1 protein, next to BRCA1, a scaffold protein mediating specific protein-protein interaction with both titin protein kinase and with another scaffold protein p62. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, 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. The NBR1 protein contains a type I PB1 domain.
Probab=26.21 E-value=2.8e+02 Score=20.68 Aligned_cols=62 Identities=13% Similarity=0.096 Sum_probs=34.1
Q ss_pred CCCC--CCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEe
Q 023559 13 GLSW--NVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNK 82 (280)
Q Consensus 13 nLp~--~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~ 82 (280)
.|++ .++.++|.+...+.=.|..+.|..--+.+ =-|...+..+.+.||..+... +..|.+.+
T Consensus 15 ~~~~~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~-----e~v~lssd~eLeE~~rl~~~~---~~~l~~~v 78 (81)
T cd06396 15 LVSDSENTTWASVEAMVKVSFGLNDIQIKYVDEEN-----EEVSVNSQGEYEEALKSAVRQ---GNLLQMNV 78 (81)
T ss_pred EecCCCCCCHHHHHHHHHHHhCCCcceeEEEcCCC-----CEEEEEchhhHHHHHHHHHhC---CCEEEEEE
Confidence 3566 77888887776543233344333211111 235666778888888765532 34555543
No 271
>TIGR00587 nfo apurinic endonuclease (APN1). All proteins in this family for which functions are known are 5' AP endonculeases that are used in base excision repair and the repair of abasic sites in DNA.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.05 E-value=1.3e+02 Score=27.18 Aligned_cols=75 Identities=8% Similarity=-0.050 Sum_probs=44.3
Q ss_pred CcEEEEcCCCCC-----CcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeC---CHHHHHHHHHHhcCceeCCeE
Q 023559 6 ENRIFVGGLSWN-----VTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYA---DRRAMDDAIREMHGREFGDRV 77 (280)
Q Consensus 6 ~~~lfVgnLp~~-----vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~---~~e~A~~Ai~~lng~~l~gr~ 77 (280)
..+|-|-|++.. .+.++|.+++..+.....+.|+.|.. .+|+.-. +.+..+.+++.+..+.-..+.
T Consensus 137 ~v~l~lEN~~~~~~~l~~~~~el~~ll~~~~~~~~lg~~lDt~------H~~~~g~~~~~~~~~~~~~~~~~~~~g~~~i 210 (274)
T TIGR00587 137 IVTILLENMAGQGSELGRSFEELAYIIKVIVDKRRIGVCLDTC------HFFAAGYDITTKAYFEVVKNEFDVVVGFKYL 210 (274)
T ss_pred CCEEEEEeCCCCCCccCCCHHHHHHHHHhcCCCCceEEEEEhh------hHHhcCCCcCCHHHHHHHHHHHHHhcCHhhe
Confidence 467888898743 47889999998886555677777742 3333222 355566666555422212444
Q ss_pred EEEEecCCC
Q 023559 78 ISVNKAQPK 86 (280)
Q Consensus 78 I~V~~a~~k 86 (280)
..|.+...+
T Consensus 211 ~~vHl~Ds~ 219 (274)
T TIGR00587 211 KAIHLNDSK 219 (274)
T ss_pred eEEEEEcCc
Confidence 455555443
No 272
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=26.04 E-value=1.8e+02 Score=20.75 Aligned_cols=62 Identities=19% Similarity=0.390 Sum_probs=37.7
Q ss_pred cCCCCCCcHHHHHHHHh-hcCCe-EEEEEe-ecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEE
Q 023559 12 GGLSWNVTERQLENAFD-RFGKI-IECQIM-LERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 12 gnLp~~vte~dL~~~F~-~~G~I-~~v~i~-~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
-.++..++-++|.+... .|+.. ..+.|. .+.+ + -+|...+.++.+.|++.++.. ....|+|.
T Consensus 16 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~Y~D~d-----g-D~V~i~sd~Dl~~a~~~~~~~--~~~~lrl~ 80 (84)
T PF00564_consen 16 ISLPSDVSFDDLRSKIREKFGLLDEDFQLKYKDED-----G-DLVTISSDEDLQEAIEQAKES--GSKTLRLF 80 (84)
T ss_dssp EEECSTSHHHHHHHHHHHHHTTSTSSEEEEEEETT-----S-SEEEESSHHHHHHHHHHHHHC--TTSCEEEE
T ss_pred EEcCCCCCHHHHHHHHHHHhCCCCccEEEEeeCCC-----C-CEEEeCCHHHHHHHHHHHHhc--CCCcEEEE
Confidence 34677788888776654 35432 233332 2222 1 479999999999999887643 33344443
No 273
>PRK07868 acyl-CoA synthetase; Validated
Probab=25.98 E-value=3.5e+02 Score=29.24 Aligned_cols=64 Identities=14% Similarity=0.090 Sum_probs=39.1
Q ss_pred cEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCC-----HHHHHHHHHHhcCce
Q 023559 7 NRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYAD-----RRAMDDAIREMHGRE 72 (280)
Q Consensus 7 ~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~-----~e~A~~Ai~~lng~~ 72 (280)
..|.+++- .+...+|++++.++-.|.++.|+-.++.....-.|||+... +++..+++++|...+
T Consensus 860 d~Ik~~G~--~I~p~EIE~~L~~hp~V~~aaVvg~~d~~~~~~~a~Vv~~~~~~~~~~~L~~~l~~l~~y~ 928 (994)
T PRK07868 860 SVIRTARG--PVYTEPVTDALGRIGGVDLAVTYGVEVGGRQLAVAAVTLRPGAAITAADLTEALASLPVGL 928 (994)
T ss_pred CEEEeCCc--eEcHHHHHHHHhcCCCeeEEEEEeecCCCCceEEEEEEeCCCCcCCHHHHHHHHHhCCCCc
Confidence 34444333 37789999999999999988776544333234578887642 344445555444333
No 274
>PRK14054 methionine sulfoxide reductase A; Provisional
Probab=25.93 E-value=1.1e+02 Score=26.12 Aligned_cols=23 Identities=13% Similarity=0.023 Sum_probs=16.3
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhc
Q 023559 8 RIFVGGLSWNVTERQLENAFDRF 30 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~ 30 (280)
.|-|.--|..|+-++|.++|-..
T Consensus 56 ~V~V~yDp~~isy~~Ll~~f~~~ 78 (172)
T PRK14054 56 AVEITYDPAVISYRELLELFFQI 78 (172)
T ss_pred EEEEEECCCcCCHHHHHHHHHHh
Confidence 46666667778888887777554
No 275
>PRK13014 methionine sulfoxide reductase A; Provisional
Probab=25.90 E-value=1.1e+02 Score=26.39 Aligned_cols=23 Identities=13% Similarity=-0.055 Sum_probs=16.1
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhc
Q 023559 8 RIFVGGLSWNVTERQLENAFDRF 30 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~ 30 (280)
.|-|.--|..|+-++|.++|-..
T Consensus 61 ~V~V~yDp~~iSy~~LL~~Ff~~ 83 (186)
T PRK13014 61 AVQITYDPKQVSYENLLQIFFST 83 (186)
T ss_pred EEEEEECCCcCCHHHHHHHHHHh
Confidence 45666567778888888877654
No 276
>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=25.59 E-value=2.5e+02 Score=19.91 Aligned_cols=51 Identities=14% Similarity=0.197 Sum_probs=30.0
Q ss_pred cHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCC---HHHHHHHHHHhcC
Q 023559 19 TERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYAD---RRAMDDAIREMHG 70 (280)
Q Consensus 19 te~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~---~e~A~~Ai~~lng 70 (280)
.-.+|-++|++++ .|.+|.....+. ....-.-||+++. .+..+++|+.|+.
T Consensus 14 ~L~~il~~f~~~~ini~~i~s~p~~~-~~~~~~f~vd~~~~~~~~~~~~~l~~l~~ 68 (80)
T cd04905 14 ALYDVLGVFAERGINLTKIESRPSKG-GLWEYVFFIDFEGHIEDPNVAEALEELKR 68 (80)
T ss_pred HHHHHHHHHHHCCcCEEEEEEEEcCC-CCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 3456778888875 667775544322 2222244566663 5666777777764
No 277
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=25.50 E-value=4.5e+02 Score=22.81 Aligned_cols=34 Identities=9% Similarity=0.078 Sum_probs=20.6
Q ss_pred EEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCCC
Q 023559 53 ITYADRRAMDDAIREMHGREFGDRVISVNKAQPKM 87 (280)
Q Consensus 53 V~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k~ 87 (280)
+.+.+.|.+.+|+++|...-+. ..+.|.++..++
T Consensus 133 ~naitlE~~~~a~~~~~~~g~~-ei~~v~is~~~~ 166 (187)
T COG2242 133 ANAITLETLAKALEALEQLGGR-EIVQVQISRGKP 166 (187)
T ss_pred EEeecHHHHHHHHHHHHHcCCc-eEEEEEeeccee
Confidence 4445566666666666555444 667777776544
No 278
>PF13820 Nucleic_acid_bd: Putative nucleic acid-binding region
Probab=25.42 E-value=1.5e+02 Score=24.72 Aligned_cols=61 Identities=15% Similarity=0.195 Sum_probs=33.1
Q ss_pred CcEEEEcCCCCC-CcHHHHHHHHhhc-CC-eEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcC
Q 023559 6 ENRIFVGGLSWN-VTERQLENAFDRF-GK-IIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHG 70 (280)
Q Consensus 6 ~~~lfVgnLp~~-vte~dL~~~F~~~-G~-I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng 70 (280)
...+|+++|... .+-++|+..+... .. +.++++... +.-..+.|+|.-+.+|...|..|-.
T Consensus 4 ifla~~G~l~~~~~~ld~i~~~l~~L~~~~~~~l~~~~~----~~~~sv~V~f~ipreaa~~Lr~LA~ 67 (149)
T PF13820_consen 4 IFLAYIGGLRMFQYKLDDIKNWLASLYKPRISDLKVRKV----EPWNSVRVTFSIPREAATRLRQLAQ 67 (149)
T ss_pred EEEEEECChhhhHHHHHHHHHHHHHHHhcccccceeecc----ccCceEEEEEechHHHHHHHHHHhh
Confidence 345677888711 1223344444332 22 222332221 1234899999999988887776644
No 279
>PF14401 RLAN: RimK-like ATPgrasp N-terminal domain
Probab=25.34 E-value=1.5e+02 Score=24.65 Aligned_cols=59 Identities=17% Similarity=0.255 Sum_probs=36.0
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHH
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDA 64 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~A 64 (280)
..+||++.-+..--+.--+++|+.|- +|.+|.+.........+....|.+.+..+.+++
T Consensus 87 ~l~iyFG~~~~~~~~~lAr~lFe~F~~PlL~v~~~~~~~~w~i~~i~~~~~~~l~~~e~~ 146 (153)
T PF14401_consen 87 ELSIYFGQTPDPRLERLARQLFERFPCPLLEVEFVRDDGKWRISSIKPLSLSELSEEEQD 146 (153)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHhCCCceEEEEEEecCCcEEEeeEeecChhhCCHHHHH
Confidence 34677776654444455578898884 677777766544234445566666665555554
No 280
>PF11491 DUF3213: Protein of unknown function (DUF3213) ; InterPro: IPR021583 The backbone structure of this family of proteins has been determined however the function remains unknown. The protein has an alpha and beta structure with a ferredoxin-like fold []. ; PDB: 2F40_A.
Probab=25.12 E-value=1.1e+02 Score=23.02 Aligned_cols=66 Identities=12% Similarity=0.282 Sum_probs=23.9
Q ss_pred EEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCC----HHHHHHHHHHhcCceeCCeEEEEE
Q 023559 9 IFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYAD----RRAMDDAIREMHGREFGDRVISVN 81 (280)
Q Consensus 9 lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~----~e~A~~Ai~~lng~~l~gr~I~V~ 81 (280)
|-+++|.++-.. .++--+++-..|-.|.|. +..+ .|||.|+. .+...++++.|.-..+.-+.|+|+
T Consensus 3 lkfg~It~eeA~-~~QYeLsk~~~vyRvFiN-----gYar-~g~VifDe~kl~~e~lL~~le~~kpEVi~ek~lTve 72 (88)
T PF11491_consen 3 LKFGNITPEEAM-VKQYELSKNEAVYRVFIN-----GYAR-NGFVIFDESKLSKEELLEMLEEFKPEVIEEKELTVE 72 (88)
T ss_dssp EE--S-TTTTTH-HHHHTTTTTTTB-----------TTSS---EEE--B-S-SHHHH---HHHTTT-SS-------S
T ss_pred cccCCCCHHHHH-HHHHHhhcccceeeeeec-----cccc-ceEEEECcccCCHHHHHHHHHhcChhheeeccccHH
Confidence 444666655322 222334455566665553 2223 68999974 577888888888888888888775
No 281
>cd00127 DSPc Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or Cdc25-like.
Probab=24.74 E-value=2e+02 Score=22.24 Aligned_cols=20 Identities=10% Similarity=0.195 Sum_probs=14.1
Q ss_pred CCcEEEEcCCCCCCcHHHHH
Q 023559 5 DENRIFVGGLSWNVTERQLE 24 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~ 24 (280)
-...|||+++|.....+.|+
T Consensus 5 i~~~l~~g~~~~~~d~~~L~ 24 (139)
T cd00127 5 ITPGLYLGSYPAASDKELLK 24 (139)
T ss_pred EcCCeEECChhHhcCHHHHH
Confidence 45679999998766555544
No 282
>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=24.39 E-value=2.5e+02 Score=19.44 Aligned_cols=43 Identities=16% Similarity=0.296 Sum_probs=26.9
Q ss_pred HHHHHHhhcCCeEEEEEeecCCC-CCCccEEEEEeCCHHHHHHHH
Q 023559 22 QLENAFDRFGKIIECQIMLERDS-GRPRGFGFITYADRRAMDDAI 65 (280)
Q Consensus 22 dL~~~F~~~G~I~~v~i~~d~~t-g~~rG~aFV~F~~~e~A~~Ai 65 (280)
+|++++.++-.|.++.++-..+. ....-+|||+. +.++..+.|
T Consensus 1 EIE~~l~~~~~V~~~~V~~~~d~~~g~~l~a~vv~-~~~~i~~~~ 44 (73)
T PF13193_consen 1 EIESVLRQHPGVAEAAVVGVPDEDWGERLVAFVVL-DEEEIRDHL 44 (73)
T ss_dssp HHHHHHHTSTTEEEEEEEEEEETTTEEEEEEEEEE-HHHHHHHHH
T ss_pred CHHHHHhcCCCccEEEEEEEEcccccccceeEEEe-eecccccch
Confidence 57888889988998866554322 11455889888 333333333
No 283
>PF12623 Hen1_L: RNA repair, ligase-Pnkp-associating, region of Hen1; InterPro: IPR024740 This entry represents the N-terminal domain of the bacterial Hen1 protein, which is a 3' terminal RNA ribose 2'-O-methyltransferase that is involved in bacterial RNA repair []. Hen1 forms a heterotetramer with Pnkp. The heterotetramer has been shown to repair transfer RNAs cleaved by ribotoxins in vitro []. The N-terminal domain of Hen1 contributes to the ligase activity of the heterotetramer.
Probab=24.22 E-value=1.6e+02 Score=26.49 Aligned_cols=62 Identities=16% Similarity=0.254 Sum_probs=43.8
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCC-eEEEEEeecCC---CCCCccEEEEEeCCHHHHHHHHHHh
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGK-IIECQIMLERD---SGRPRGFGFITYADRRAMDDAIREM 68 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~-I~~v~i~~d~~---tg~~rG~aFV~F~~~e~A~~Ai~~l 68 (280)
+-+|-|.-||..-.++-|+.+|+..|- |+-..+..+.. -+.++ |..|+..-..-.+.||..|
T Consensus 118 pL~v~~p~lp~rGg~~l~~rLFePLGw~V~a~~~~Ld~~fP~WG~S~-y~~l~L~g~~rl~daL~HL 183 (245)
T PF12623_consen 118 PLEVRLPALPCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGDSR-YVDLTLTGTVRLADALNHL 183 (245)
T ss_pred ceEEEeeeeecCCcHHHHHHhhcCcCceEEeEeccCCccCccccCCc-ceEEEEeeeEEHHHHHhhh
Confidence 447778888988899999999999984 44444555543 13444 7788888777777777655
No 284
>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=24.17 E-value=3.1e+02 Score=20.55 Aligned_cols=57 Identities=14% Similarity=0.130 Sum_probs=28.4
Q ss_pred EcCCCCCC-cHHHHHHHHhhcC-CeEEEEEeecCCCCCCcc-EEEEEeCC--HHHHHHHHHHhc
Q 023559 11 VGGLSWNV-TERQLENAFDRFG-KIIECQIMLERDSGRPRG-FGFITYAD--RRAMDDAIREMH 69 (280)
Q Consensus 11 VgnLp~~v-te~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG-~aFV~F~~--~e~A~~Ai~~ln 69 (280)
|-.|+... +-.++-++|+.++ .|++|. .-+......- .-||+|+- .+..++||+.|.
T Consensus 18 if~l~~~pGsL~~vL~~Fa~~~INLt~Ie--SRP~~~~~~~Y~FfVDieg~~~~~~~~~l~~L~ 79 (90)
T cd04931 18 IFSLKEEVGALAKVLRLFEEKDINLTHIE--SRPSRLNKDEYEFFINLDKKSAPALDPIIKSLR 79 (90)
T ss_pred EEEcCCCCcHHHHHHHHHHHCCCCEEEEE--eccCCCCCceEEEEEEEEcCCCHHHHHHHHHHH
Confidence 33454432 2345566677764 444443 3332222222 34677763 345567777765
No 285
>PRK13259 regulatory protein SpoVG; Reviewed
Probab=24.03 E-value=1.2e+02 Score=23.34 Aligned_cols=26 Identities=15% Similarity=0.335 Sum_probs=20.5
Q ss_pred CeEEEEEeecCCCCCCccEEEEEeCC
Q 023559 32 KIIECQIMLERDSGRPRGFGFITYAD 57 (280)
Q Consensus 32 ~I~~v~i~~d~~tg~~rG~aFV~F~~ 57 (280)
+|++|+|..-...++.+++|-|+|++
T Consensus 2 ~ITdVri~~~~~~g~lka~asit~dd 27 (94)
T PRK13259 2 EVTDVRLRKVNTEGRMKAIVSITFDN 27 (94)
T ss_pred eEEEEEEEEeCCCCcEEEEEEEEECC
Confidence 57788776655557889999999987
No 286
>PF03254 XG_FTase: Xyloglucan fucosyltransferase; InterPro: IPR004938 Plant cell walls are crucial for development, signal transduction, and disease resistance in plants. Cell walls are made of cellulose, hemicelluloses, and pectins. Xyloglucan (XG), the principal load-bearing hemicellulose of dicotyledonous plants, has a terminal fucosyl residue. This fucosyltransferase adds this residue []. ; GO: 0008107 galactoside 2-alpha-L-fucosyltransferase activity, 0042546 cell wall biogenesis, 0016020 membrane
Probab=23.95 E-value=84 Score=31.24 Aligned_cols=71 Identities=14% Similarity=0.224 Sum_probs=41.4
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHhhc----CCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEE
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFDRF----GKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVIS 79 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~~~----G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~ 79 (280)
...+.|+|..|....- +.|++++.+. |+|+.|..+... ..-.|.+....++|+.+|--..+.+..|+
T Consensus 352 ~~~kaVlVtSL~~~yy-e~lr~~Y~~~~t~tGe~V~V~QpShe--------~~Q~~~~~~h~~kAlaEmyLLS~sD~LVT 422 (476)
T PF03254_consen 352 QKSKAVLVTSLYSEYY-EKLRNMYWEHPTVTGEVVGVHQPSHE--------EYQQFGDNMHNQKALAEMYLLSLSDVLVT 422 (476)
T ss_pred CceEEEEEEeCCHHHH-HHHHHHHhcCCCcCCcEEEEECCCCc--------ccccccccchHHHHHHHHHHHHhccceEe
Confidence 4567899998876544 5578888765 344444332221 22235555556788877765555555554
Q ss_pred EEec
Q 023559 80 VNKA 83 (280)
Q Consensus 80 V~~a 83 (280)
-.++
T Consensus 423 S~~S 426 (476)
T PF03254_consen 423 SGWS 426 (476)
T ss_pred cCCC
Confidence 4443
No 287
>PF10567 Nab6_mRNP_bdg: RNA-recognition motif; InterPro: IPR018885 This conserved domain is found in fungal proteins and appears to be involved in RNA-processing. It binds to poly-adenylated RNA, interacts genetically with mRNA 3'-end processing factors, co-purifies with the nuclear cap-binding protein Cbp20p, and is found in complexes containing other translation factors, such as EIF4G as in P39935 from SWISSPROT and P39936 from SWISSPROT.
Probab=23.82 E-value=3.9e+02 Score=24.96 Aligned_cols=39 Identities=5% Similarity=0.233 Sum_probs=28.9
Q ss_pred CeEEEEEeecCCCC--CCccEEEEEeCCHHHHHHHHHHhcC
Q 023559 32 KIIECQIMLERDSG--RPRGFGFITYADRRAMDDAIREMHG 70 (280)
Q Consensus 32 ~I~~v~i~~d~~tg--~~rG~aFV~F~~~e~A~~Ai~~lng 70 (280)
.|+.|.|+...+.. -++-||.++|-+...|...++-|..
T Consensus 173 VlEsIDlVna~~~~~~Fp~~YaILtFlnIsMAiEV~dYlk~ 213 (309)
T PF10567_consen 173 VLESIDLVNADEPSKHFPKNYAILTFLNISMAIEVLDYLKS 213 (309)
T ss_pred EEEEEEEeccCcccccCCcceEEEeehhHHhHHHHHHHHHh
Confidence 46778887654442 3567999999999988888776653
No 288
>PF07230 Peptidase_S80: Bacteriophage T4-like capsid assembly protein (Gp20); InterPro: IPR010823 This family of proteins is essential for capsid assembly in the T4-like bacteriophages []. Gp20 forms a unique 12 subunit portal vertex through which DNA enters during packaging and exits during infection. The Gp20 vertex acts as an initiator for the assembly of the major capsid protein and the scaffolding proteins into a prolate icosahedron of precise dimensions. The regulation of portal protein gene expression is an important regulator of prohead assembly in bacteriophage T4 [].
Probab=23.80 E-value=77 Score=31.54 Aligned_cols=40 Identities=23% Similarity=0.540 Sum_probs=30.4
Q ss_pred CCCCcEEE---EcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCC
Q 023559 3 GKDENRIF---VGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGR 46 (280)
Q Consensus 3 ~~~~~~lf---VgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~ 46 (280)
-.|..+|| |+|||..-.|+-|+++..+| +-+|+.+..||+
T Consensus 272 RAPeRRvFyIDvGnlpk~KAeqyl~~iM~k~----knklvYDa~TGe 314 (501)
T PF07230_consen 272 RAPERRVFYIDVGNLPKQKAEQYLRDIMNKY----KNKLVYDASTGE 314 (501)
T ss_pred cCccceEEEEECCCCChHhHHHHHHHHHHHh----cceeeecCCCCe
Confidence 34566666 79999999999999999887 345666666665
No 289
>COG0360 RpsF Ribosomal protein S6 [Translation, ribosomal structure and biogenesis]
Probab=23.55 E-value=3.4e+02 Score=21.44 Aligned_cols=75 Identities=16% Similarity=0.306 Sum_probs=37.9
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhc--------CCeEEEEEeecC------CCCCCccEEEEEeCCHHHHHHHHHH---hcC
Q 023559 8 RIFVGGLSWNVTERQLENAFDRF--------GKIIECQIMLER------DSGRPRGFGFITYADRRAMDDAIRE---MHG 70 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~--------G~I~~v~i~~d~------~tg~~rG~aFV~F~~~e~A~~Ai~~---lng 70 (280)
.+|| |.++++++++..++++| ++|.++..+-.+ ..-+.--|.++.|+....+.+-|+. +|.
T Consensus 5 i~~i--v~p~~see~~~~~ve~~~~~l~~~gg~i~~~e~wG~R~LAY~IkK~~~g~Y~l~~f~~~~~~i~Eler~~rin~ 82 (112)
T COG0360 5 IVFI--VRPDLSEEQVAALVEKYKGVLTNNGGEIHKVEDWGKRRLAYPIKKLREGHYVLMNFEAEPAAIAELERLLRINE 82 (112)
T ss_pred EEEE--ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEehhhhhhhhcceecccceEEEEEEEEEcCHHHHHHHHHHhccch
Confidence 4555 56778877766555544 455554321100 0011123678888877665555432 233
Q ss_pred ceeCCeEEEEEecC
Q 023559 71 REFGDRVISVNKAQ 84 (280)
Q Consensus 71 ~~l~gr~I~V~~a~ 84 (280)
..|.-..|+++...
T Consensus 83 ~VlR~liik~~~~~ 96 (112)
T COG0360 83 DVLRHLIIKVEKAK 96 (112)
T ss_pred hhheeeEEEechhh
Confidence 34444455554443
No 290
>KOG0633 consensus Histidinol phosphate aminotransferase [Amino acid transport and metabolism]
Probab=23.25 E-value=1e+02 Score=28.65 Aligned_cols=56 Identities=7% Similarity=0.143 Sum_probs=36.2
Q ss_pred CCcEEEEcCC--C--CCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCc
Q 023559 5 DENRIFVGGL--S--WNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR 71 (280)
Q Consensus 5 ~~~~lfVgnL--p--~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~ 71 (280)
..+.+|+..- | ..+.+++|+++++..- ...|+.+ -|||+|.-.+++.+.++++.+.
T Consensus 160 ~iK~~F~tSPgNPtg~~ik~~di~KiLe~p~---nglVVvD--------EAYidFsg~~S~~~lV~kYpNL 219 (375)
T KOG0633|consen 160 KIKCIFLTSPGNPTGSIIKEDDILKILEMPD---NGLVVVD--------EAYIDFSGVESRMKLVKKYPNL 219 (375)
T ss_pred cceEEEEcCCCCCCcccccHHHHHHHHhCCC---CcEEEEe--------eeeEeeccccccchHhHhCCce
Confidence 3456666531 1 1256788888887653 2334444 5999999888888877776654
No 291
>PF03108 DBD_Tnp_Mut: MuDR family transposase; InterPro: IPR004332 The plant MuDR transposase domain is present in plant proteins that are presumed to be the transposases for Mutator transposable elements [, ]. The function of these proteins is unknown. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=23.14 E-value=1.2e+02 Score=21.09 Aligned_cols=29 Identities=21% Similarity=0.303 Sum_probs=18.3
Q ss_pred EEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 53 ITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 53 V~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
.+|.+.++++.||..+. ......++|..+
T Consensus 8 ~~F~~~~e~k~av~~ya--i~~~~~~~v~ks 36 (67)
T PF03108_consen 8 QTFPSKEEFKEAVREYA--IKNGFEFKVKKS 36 (67)
T ss_pred CEECCHHHHHHHHHHHH--HhcCcEEEEecc
Confidence 46889999999987654 223444444443
No 292
>PF02676 TYW3: Methyltransferase TYW3; InterPro: IPR003827 The methyltransferase TYW3 (tRNA-yW- synthesising protein 3) has been identified in yeast to be involved in wybutosine (yW) biosynthesis []. yW is a complexly modified guanosine residue that contains a tricyclic base and is found at the 3'-position adjacent the anticodon of phenylalanine tRNA. TYW3 is an N-4 methylase that methylates yW-86 to yield yW-72 in an Ado-Met-dependent manner [].; PDB: 1TLJ_A 2DVK_A 2IT3_B 2IT2_A 2DRV_A 2QG3_B.
Probab=23.13 E-value=4.7e+02 Score=22.82 Aligned_cols=56 Identities=14% Similarity=0.146 Sum_probs=33.1
Q ss_pred CCcEEEEcCCCCCCcHHHHHHHHhhc-CCeE--------EEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHh
Q 023559 5 DENRIFVGGLSWNVTERQLENAFDRF-GKII--------ECQIMLERDSGRPRGFGFITYADRRAMDDAIREM 68 (280)
Q Consensus 5 ~~~~lfVgnLp~~vte~dL~~~F~~~-G~I~--------~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~l 68 (280)
..+-|||..-| ++.++|.+++... .... .|++..++- .-.|.-.+.+.|++.++..
T Consensus 66 ~~~wl~~sH~~--~~~~ev~~~~~~~~~~~~~~~~~~~~~l~lkfep~------IlHV~c~~l~~A~~Ll~~A 130 (205)
T PF02676_consen 66 GGKWLFVSHDP--VTVEEVLEALRKSDGDSASSQSSENRLLWLKFEPP------ILHVQCRDLESAQKLLKIA 130 (205)
T ss_dssp C-EEEEEESS-----HHHHHHHHTT-SSSE----------EEEEEE--------EEEEEESSHHHHHHHHHHH
T ss_pred CCEEEEEECCC--CCHHHHHHHHccccccccccccchhheEEEEecCc------EEEEEeCCHHHHHHHHHHH
Confidence 45668887654 7778888877654 2221 155555432 6778889999999887643
No 293
>PRK12450 foldase protein PrsA; Reviewed
Probab=23.07 E-value=1.6e+02 Score=27.27 Aligned_cols=39 Identities=8% Similarity=0.333 Sum_probs=29.3
Q ss_pred CCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 17 NVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 17 ~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
.+|+++|++++..+-+ .+. ..+|.+++.+.|+.+++.|.
T Consensus 132 ~Vtd~evk~~y~~~~~--~~~------------~~~I~~~~~~~A~~i~~~l~ 170 (309)
T PRK12450 132 TISKKDYRQAYDAYTP--TMT------------AEIMQFEKEEDAKAALEAVK 170 (309)
T ss_pred CCCHHHHHHHHHHhCc--cce------------eEEEEeCCHHHHHHHHHHHH
Confidence 4799999999988622 111 23577889999999999885
No 294
>KOG0256 consensus 1-aminocyclopropane-1-carboxylate synthase, and related proteins [Signal transduction mechanisms]
Probab=22.95 E-value=1.4e+02 Score=29.26 Aligned_cols=67 Identities=4% Similarity=0.035 Sum_probs=38.2
Q ss_pred CCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCCCCC
Q 023559 14 LSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQPKMG 88 (280)
Q Consensus 14 Lp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~k~~ 88 (280)
|-..++.++|..++.-. .-+.|.|+.|.- |+--+|... +-...++..+...+.-..|+|.|+.+|.-
T Consensus 239 LG~~~~~e~L~~ll~Fa-~~kniHvI~DEI------ya~sVF~~~-~F~Sv~ev~~~~~~~~~rvHivyslSKD~ 305 (471)
T KOG0256|consen 239 LGTTLSPEELISLLNFA-SRKNIHVISDEI------YAGSVFDKS-EFRSVLEVRKDPHLDPDRVHIVYSLSKDF 305 (471)
T ss_pred CCCccCHHHHHHHHHHH-hhcceEEEeehh------hcccccCcc-CceEHHHHhhccccCCCcEEEEEEecccc
Confidence 44456677777766432 346666666642 454455544 33333444444455666788888887753
No 295
>PF14350 Beta_protein: Beta protein
Probab=22.75 E-value=1.3e+02 Score=28.06 Aligned_cols=39 Identities=21% Similarity=0.336 Sum_probs=23.6
Q ss_pred CcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHH
Q 023559 18 VTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDA 64 (280)
Q Consensus 18 vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~A 64 (280)
..+..|..++.... ...+|.|+.| +..|.-.+...+.++
T Consensus 137 ~~~~~i~~i~~~l~~~~~~~~lilD--------~~~i~~~~~~~~~~~ 176 (347)
T PF14350_consen 137 DFPSEISRILAALGLSPNEVDLILD--------LGDIRDSDESAVAEA 176 (347)
T ss_pred hHHHHHHHHHHHcCCCccceEEEEE--------CCccCCcchHHHHHH
Confidence 34566777777776 5667777777 455555444444333
No 296
>KOG3262 consensus H/ACA small nucleolar RNP component GAR1 [Translation, ribosomal structure and biogenesis]
Probab=22.74 E-value=5.2e+02 Score=22.57 Aligned_cols=6 Identities=50% Similarity=0.938 Sum_probs=2.3
Q ss_pred cCCeEE
Q 023559 30 FGKIIE 35 (280)
Q Consensus 30 ~G~I~~ 35 (280)
|+.|.+
T Consensus 98 fG~i~d 103 (215)
T KOG3262|consen 98 FGPIND 103 (215)
T ss_pred cccccc
Confidence 334433
No 297
>PHA00742 hypothetical protein
Probab=22.69 E-value=47 Score=28.46 Aligned_cols=24 Identities=21% Similarity=0.258 Sum_probs=18.8
Q ss_pred EEEEEeCCHHHHHHHHHHhcCcee
Q 023559 50 FGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 50 ~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
.-||.+.+.|+-.+||.+|+-..|
T Consensus 134 v~FihynD~EDKlk~isALqilNL 157 (211)
T PHA00742 134 VWFIHYNDTEDKLKCISALQILNL 157 (211)
T ss_pred EEEEEecChhHhhhhhHHHHHhhh
Confidence 679999999998888877763333
No 298
>PRK04199 rpl10e 50S ribosomal protein L10e; Reviewed
Probab=22.48 E-value=4.8e+02 Score=22.32 Aligned_cols=58 Identities=17% Similarity=0.275 Sum_probs=32.5
Q ss_pred CCcEEEEcCCCCC-CcHHHHHHHHh------h----cCCeEEEEEeecCCCCCCccEEEEEeC----CHHHHHHHHHHh
Q 023559 5 DENRIFVGGLSWN-VTERQLENAFD------R----FGKIIECQIMLERDSGRPRGFGFITYA----DRRAMDDAIREM 68 (280)
Q Consensus 5 ~~~~lfVgnLp~~-vte~dL~~~F~------~----~G~I~~v~i~~d~~tg~~rG~aFV~F~----~~e~A~~Ai~~l 68 (280)
....|+|.-+|.. +|+.-++.... - +|.++....... .|-.+.|+. +++.|++||...
T Consensus 80 ~~~k~wIrvfP~~~lt~kp~~~rmGAdRmg~GMr~akG~p~~wva~Vk------~G~ilfei~~~~~~~~~akeAlr~a 152 (172)
T PRK04199 80 SNYHLKIRVYPHHVLRENKMATGAGADRVSDGMRLAFGKPVGTAARVE------KGQKIFTVRVNPEHLEAAKEALRRA 152 (172)
T ss_pred cccEEEEEeCCCcceecChhHhhcchhhhccCcccCCCCccEEEEEEC------cCCEEEEEEecCCCHHHHHHHHHHh
Confidence 4457788777766 45554443222 2 676665433332 234455554 677788888544
No 299
>PF13689 DUF4154: Domain of unknown function (DUF4154)
Probab=22.45 E-value=1.8e+02 Score=23.53 Aligned_cols=59 Identities=20% Similarity=0.276 Sum_probs=34.7
Q ss_pred HHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEec
Q 023559 20 ERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKA 83 (280)
Q Consensus 20 e~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a 83 (280)
|.+|+..|- |.-++.+.++... ...-+-+..+.+.. ...+|..|.++.+.+++|.|..-
T Consensus 2 e~~lkAa~l-~nf~~f~~WP~~~---~~~~~~icv~g~~~-~~~~L~~l~~~~~~~~~i~v~~~ 60 (145)
T PF13689_consen 2 EYQLKAAYL-YNFAKFIEWPDSA---PSSPFRICVLGDDP-FAEALSTLAGKQVGGRPIRVRRL 60 (145)
T ss_pred HHHHHHHHH-HHhHhhccCCCCC---CCCCeEEEEECChH-HHHHHHHhhhcccCCCcEEEEEC
Confidence 556665543 1123334554432 12225566665555 45677788889999999988754
No 300
>cd06410 PB1_UP2 Uncharacterized protein 2. The PB1 domain is a modular domain mediating specific protein-protein interaction which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is 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.
Probab=22.39 E-value=3.6e+02 Score=20.63 Aligned_cols=65 Identities=8% Similarity=0.093 Sum_probs=36.7
Q ss_pred CCCCCcHHHHHHHHhhcCCeEE-EEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEE
Q 023559 14 LSWNVTERQLENAFDRFGKIIE-CQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISV 80 (280)
Q Consensus 14 Lp~~vte~dL~~~F~~~G~I~~-v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V 80 (280)
|+.+++-.+|...++..-.+.. +.|..... ++.. -+.|...+.++.+..+++.+...-.-.+|.|
T Consensus 29 V~r~~s~~el~~kl~~~~~~~~~~~lky~Lp-~edl-d~Lisv~~DeDl~~M~~e~~~~~~~~~rirv 94 (97)
T cd06410 29 VDRSISFKELVSKLSELFGAGVVVTLKYQLP-DEDL-DALISVSNDEDLKNMMEEYDRLSGGSARLRV 94 (97)
T ss_pred EcCCCCHHHHHHHHHHHhCCCCceEEEEEcC-CCCc-ceeEEecCcHHHHHHHHhhccccCCCceEEE
Confidence 6778888887766553322211 22211111 1222 3799999999999999887644223334444
No 301
>KOG1579 consensus Homocysteine S-methyltransferase [Amino acid transport and metabolism]
Probab=22.35 E-value=90 Score=29.29 Aligned_cols=61 Identities=16% Similarity=0.107 Sum_probs=37.7
Q ss_pred CCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCceeCCeEEEEEecCC
Q 023559 16 WNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREFGDRVISVNKAQP 85 (280)
Q Consensus 16 ~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l~gr~I~V~~a~~ 85 (280)
..++.++|+++|.+.=++ +... + .--.+|=++.+..+|++|++.|... .-.+++.|.++..
T Consensus 139 ~~~~~~el~~~~k~qle~-----~~~~--g-vD~L~fETip~~~EA~a~l~~l~~~-~~~~p~~is~t~~ 199 (317)
T KOG1579|consen 139 DNVEFEELYDFFKQQLEV-----FLEA--G-VDLLAFETIPNVAEAKAALELLQEL-GPSKPFWISFTIK 199 (317)
T ss_pred cccCHHHHHHHHHHHHHH-----HHhC--C-CCEEEEeecCCHHHHHHHHHHHHhc-CCCCcEEEEEEec
Confidence 457788899998753111 1110 0 1226788888999999999888754 2344555555543
No 302
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=22.24 E-value=1.8e+02 Score=20.54 Aligned_cols=55 Identities=18% Similarity=0.276 Sum_probs=32.8
Q ss_pred CCCCcHHHHHHHHhhcCCeEEE---EEeecCCCCCCccEEEEEeC-CHHHHHHHHHHhcCc
Q 023559 15 SWNVTERQLENAFDRFGKIIEC---QIMLERDSGRPRGFGFITYA-DRRAMDDAIREMHGR 71 (280)
Q Consensus 15 p~~vte~dL~~~F~~~G~I~~v---~i~~d~~tg~~rG~aFV~F~-~~e~A~~Ai~~lng~ 71 (280)
...+++..|.++..+|+.-.+| .|-. -.+.+-|.-+|++. +.++.++|++.|..+
T Consensus 11 g~~~~~piis~l~~~~~v~~nIl~g~i~~--i~~~~~G~l~l~l~g~~~~~~~a~~~L~~~ 69 (76)
T PF09383_consen 11 GNSAQEPIISQLIREFGVDVNILHGNIEE--IQGTPFGILILELPGDDEEIEKAIAYLREQ 69 (76)
T ss_dssp SCSSSSCHHHHHHHHHT-EEEEEEEEEEE--ETTEEEEEEEEEEES-HHHHHHHHHHHHHT
T ss_pred CCCcCchHHHHHHHHhCCCEEEEEEEeEE--cCCeeEEEEEEEEECCHHHHHHHHHHHHHC
Confidence 3456667777777777643333 2322 23456778888885 445568888777643
No 303
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=22.24 E-value=4.1e+02 Score=21.53 Aligned_cols=19 Identities=11% Similarity=0.127 Sum_probs=8.9
Q ss_pred HHHHHHHHHHhcCceeCCeEE
Q 023559 58 RRAMDDAIREMHGREFGDRVI 78 (280)
Q Consensus 58 ~e~A~~Ai~~lng~~l~gr~I 78 (280)
-++++.|.++|+ .|++..|
T Consensus 83 F~~~e~A~~Al~--~lng~~i 101 (144)
T PLN03134 83 FNDEGAATAAIS--EMDGKEL 101 (144)
T ss_pred ECCHHHHHHHHH--HcCCCEE
Confidence 344555555543 3444444
No 304
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=22.18 E-value=1.7e+02 Score=24.12 Aligned_cols=50 Identities=18% Similarity=0.298 Sum_probs=30.1
Q ss_pred CCCCCcHHHHHHH-------HhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 14 LSWNVTERQLENA-------FDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 14 Lp~~vte~dL~~~-------F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
|+.+.+.++|++| +..| .|.+|.|..-...|+.-|-| |.|+ .+.||+.+.
T Consensus 37 l~~~~~~~~vr~Fq~~f~kl~~dy-~Vd~VvIk~R~~KGKfAGga-~~FK----mEaaIQL~~ 93 (138)
T PF11215_consen 37 LSDDNSTEEVRKFQFTFAKLMEDY-KVDKVVIKERATKGKFAGGA-VGFK----MEAAIQLID 93 (138)
T ss_pred cCCCccHHHHHHHHHHHHHHHHHc-CCCEEEEEecccCCCccCCc-hhHH----HHHHHHhcC
Confidence 4445555555544 4455 78889888777777766544 5564 455555443
No 305
>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=22.12 E-value=2.4e+02 Score=18.52 Aligned_cols=48 Identities=8% Similarity=0.119 Sum_probs=25.0
Q ss_pred cHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 19 TERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 19 te~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
.-.+|..+|.+++ .|..+.+.... ........|..++. ...++++.|.
T Consensus 12 ~l~~i~~~l~~~~~~I~~~~~~~~~--~~~~~~i~i~v~~~-~~~~~i~~l~ 60 (71)
T cd04903 12 AIAKVTSVLADHEINIAFMRVSRKE--KGDQALMVIEVDQP-IDEEVIEEIK 60 (71)
T ss_pred hHHHHHHHHHHcCcCeeeeEEEecc--CCCeEEEEEEeCCC-CCHHHHHHHH
Confidence 4567778887774 56666554311 11222344555544 4455555554
No 306
>cd06398 PB1_Joka2 The PB1 domain is present in the Nicotiana plumbaginifolia Joka2 protein which interacts with sulfur stress inducible UP9 protein. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, 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
Probab=22.11 E-value=3.5e+02 Score=20.40 Aligned_cols=18 Identities=28% Similarity=0.457 Sum_probs=16.0
Q ss_pred EEEEeCCHHHHHHHHHHh
Q 023559 51 GFITYADRRAMDDAIREM 68 (280)
Q Consensus 51 aFV~F~~~e~A~~Ai~~l 68 (280)
-+|.+.+.++.+.||+.+
T Consensus 56 d~V~l~~D~DL~~a~~~~ 73 (91)
T cd06398 56 DVVTLVDDNDLTDAIQYF 73 (91)
T ss_pred CEEEEccHHHHHHHHHHH
Confidence 579999999999999775
No 307
>PRK09630 DNA topoisomerase IV subunit A; Provisional
Probab=21.98 E-value=1.1e+02 Score=30.37 Aligned_cols=61 Identities=11% Similarity=0.104 Sum_probs=38.2
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhh---cCCeEEEEEeecCCCCCCccEE-EEEeCCHHHHHHHHHHhcC
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDR---FGKIIECQIMLERDSGRPRGFG-FITYADRRAMDDAIREMHG 70 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~---~G~I~~v~i~~d~~tg~~rG~a-FV~F~~~e~A~~Ai~~lng 70 (280)
.++|.|..||+.++.+.|.+.+.+ -+.|+ |.-+.|..+ . .+- .|++.....++..|..|-.
T Consensus 220 ~~~ivItEIPy~~~t~~lie~I~~l~~~gki~-I~~i~D~s~-~--~v~i~I~Lk~~~~~~~vl~~Ly~ 284 (479)
T PRK09630 220 DKTLLIKEICPSTTTETLIRSIENAAKRGIIK-IDSIQDFST-D--LPHIEIKLPKGIYAKDLLRPLFT 284 (479)
T ss_pred CCEEEEEeCCCcccHHHHHHHHHHHHhcCCCc-cceeeccCC-C--CceEEEEECCCCCHHHHHHHHHh
Confidence 468999999999988887766443 34554 433444332 2 233 3566666667777666643
No 308
>cd00412 pyrophosphatase Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers.
Probab=21.92 E-value=1.2e+02 Score=25.53 Aligned_cols=39 Identities=10% Similarity=0.235 Sum_probs=25.0
Q ss_pred HHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 20 ERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 20 e~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
-++|+++|..|=.++. .+-+-+..|.+.+.|++.|++.+
T Consensus 116 l~~I~~fF~~YK~le~-----------~k~~~~~g~~~~~~A~~~I~~~~ 154 (155)
T cd00412 116 LDEIKHFFEHYKDLEG-----------KKEVKVAGWKDKEEALKIIKESI 154 (155)
T ss_pred HHHHHHHHHHhcccCC-----------CCceEECcCcCHHHHHHHHHHHh
Confidence 4678889998832221 01144567888888888887643
No 309
>PRK14046 malate--CoA ligase subunit beta; Provisional
Probab=21.88 E-value=3.5e+02 Score=26.04 Aligned_cols=53 Identities=17% Similarity=0.336 Sum_probs=32.6
Q ss_pred CcHHHHHHHHhhcCC---eEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee
Q 023559 18 VTERQLENAFDRFGK---IIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 18 vte~dL~~~F~~~G~---I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
++.+++.++.++++. |.++.+. -...++.-|..+. .+.+++.+|.+.|-+..|
T Consensus 26 ~~~~ea~~~a~~lg~p~~VvK~qv~-~g~Rgk~GGV~l~--~~~~e~~~a~~~ll~~~~ 81 (392)
T PRK14046 26 YSPEQAVYRARELGGWHWVVKAQIH-SGARGKAGGIKLC--RTYNEVRDAAEDLLGKKL 81 (392)
T ss_pred CCHHHHHHHHHHcCCCcEEEEeeec-cCCCCcCCeEEEE--CCHHHHHHHHHHHhcchh
Confidence 356677777777653 4454443 1122344455555 588999999888877654
No 310
>cd04618 CBS_pair_5 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called Bateman domain or a CBS pair based on crystallographic studies in bacteria. The CBS pair was used as a basis for this cd hierarchy since the human CBS proteins can adopt the typical core structure and form an intramolecular CBS pair. The interface between the two CBS domains forms a cleft that is a potential ligand binding site. The CBS pair coexists with a variety of other functional domains and this has been used to help in its classification here. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Mutations of conserved residues within this domain are associated with a variety of human hereditary diseases, including congenital myotonia, idiopathic genera
Probab=21.69 E-value=3.1e+02 Score=19.99 Aligned_cols=58 Identities=12% Similarity=0.065 Sum_probs=33.2
Q ss_pred CCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEE----------EEEeCCHHHHHHHHHHhcCcee
Q 023559 14 LSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFG----------FITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 14 Lp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~a----------FV~F~~~e~A~~Ai~~lng~~l 73 (280)
++++++-.++.++|.+. .+..+-|+. .++++..|+. +++....+.+..|++.|....+
T Consensus 6 v~~~~~l~~a~~~~~~~-~~~~~~Vvd-~~~~~~~Givt~~Dl~~~~~~~~v~~~~~l~~a~~~m~~~~~ 73 (98)
T cd04618 6 FDTKLPVKKAFNALVEN-GIRSAPLWD-SRKQQFVGMLTITDFILILRLVSIHPERSLFDAALLLLKNKI 73 (98)
T ss_pred ECCCCcHHHHHHHHHHc-CCceEEEEe-CCCCEEEEEEEHHHHhhheeeEEeCCCCcHHHHHHHHHHCCC
Confidence 57778888887777655 344444432 2122222221 4556666777888877765544
No 311
>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=21.65 E-value=2.7e+02 Score=18.83 Aligned_cols=49 Identities=14% Similarity=0.199 Sum_probs=28.6
Q ss_pred cHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 19 TERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 19 te~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
.-.+|.++|.+++ .|..+.+...... ..+...|+++..+.++++++.|.
T Consensus 14 ~L~~l~~~l~~~~i~i~~~~~~~~~~~--~~~~~~i~v~~~~~~~~~~~~L~ 63 (69)
T cd04909 14 VIAEVTQILGDAGISIKNIEILEIREG--IGGILRISFKTQEDRERAKEILK 63 (69)
T ss_pred HHHHHHHHHHHcCCCceeeEeEEeecC--CcEEEEEEECCHHHHHHHHHHHH
Confidence 3467788888775 5666655443211 23455677765556666665554
No 312
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=21.64 E-value=2e+02 Score=27.54 Aligned_cols=48 Identities=17% Similarity=0.281 Sum_probs=32.4
Q ss_pred CcHHHHHHHHhhcCCeEE-------EEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 18 VTERQLENAFDRFGKIIE-------CQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 18 vte~dL~~~F~~~G~I~~-------v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
+|-++++++|+.- +.. +.|+ | ++--+.-+-||+..+.+++..||+.|.
T Consensus 3 ~~~~~~~~~~~~~--~~~i~~~~~~l~~l-D-q~~lP~~~~~~~~~~~~~v~~aI~~M~ 57 (363)
T PRK05772 3 LTVKEVKELFKPK--LLPIIWKDNTLTLL-D-QSLLPFETVYVDLKTVEEVALAIRNMQ 57 (363)
T ss_pred chHHHHHHHhCCC--CceEEecCCEEEEE-e-cCCCCCeEEEEEeCCHHHHHHHHHhCc
Confidence 5667888999742 222 2222 2 123344589999999999999998874
No 313
>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=21.64 E-value=2.4e+02 Score=21.10 Aligned_cols=64 Identities=13% Similarity=0.117 Sum_probs=35.0
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCC--HHHHHHHHHHhcCc
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYAD--RRAMDDAIREMHGR 71 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~--~e~A~~Ai~~lng~ 71 (280)
...+|.-.||..- -.|++|...++....|....-+.++...+.+||-|+. .++.++.++.|+..
T Consensus 9 ~E~~~~v~~PE~p--Gal~~F~~~l~~~~nITeF~YR~~~~~~a~vlvgi~v~~~~~~~~l~~~L~~~ 74 (91)
T PF00585_consen 9 REALFAVEFPERP--GALKRFLDALGPRNNITEFHYRYSGDDFARVLVGIEVPDAEDLEELIERLKAL 74 (91)
T ss_dssp -EEEEEEE--BST--THCHHHHHCCSSSE-EEEEEEE-TTTSCSEEEEEEE-SSTHHHHHHHHHHTSS
T ss_pred CEEEEEEECCCCc--cHHHHHHHHhCCCceEEEEEEcCCCCCeeeEEEEEEeCCHHHHHHHHHHHHHc
Confidence 3455655666643 4567777777655545444444555567788877754 44456666666543
No 314
>PRK04405 prsA peptidylprolyl isomerase; Provisional
Probab=21.41 E-value=1.9e+02 Score=26.72 Aligned_cols=39 Identities=18% Similarity=0.393 Sum_probs=27.7
Q ss_pred CCcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 17 NVTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 17 ~vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
.+|+++|+++|..+.+ .+. ..+|.+.+.+.|+++++.|.
T Consensus 128 ~Vtd~ei~~~y~~~~~--~~~------------v~hIlv~~~~~A~~v~~~l~ 166 (298)
T PRK04405 128 KVTNSQLKKAWKSYQP--KVT------------VQHILVSKKSTAETVIKKLK 166 (298)
T ss_pred CCCHHHHHHHHHHhhh--hEE------------EEEEEecChHHHHHHHHHHH
Confidence 4799999999987632 111 34566677888888887765
No 315
>PF13046 DUF3906: Protein of unknown function (DUF3906)
Probab=21.26 E-value=1e+02 Score=21.96 Aligned_cols=34 Identities=21% Similarity=0.421 Sum_probs=23.7
Q ss_pred CcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEE
Q 023559 18 VTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFI 53 (280)
Q Consensus 18 vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV 53 (280)
.-|.+|+.+|-+--+|+++.|+..|.- .+|-+||
T Consensus 30 ~~e~eler~fl~~P~v~e~~l~EKKri--~~G~gyV 63 (64)
T PF13046_consen 30 LVEVELERHFLPLPEVKEVALYEKKRI--RKGAGYV 63 (64)
T ss_pred HHHHHhhhhccCCCCceEEEEEEEEee--eCCceeE
Confidence 345668888888889999988765532 3455665
No 316
>cd05992 PB1 The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes, such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domain, 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 a noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=21.25 E-value=3e+02 Score=19.29 Aligned_cols=52 Identities=13% Similarity=0.280 Sum_probs=32.3
Q ss_pred CCC-CCCcHHHHHHHHh-hcCCe-EEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhc
Q 023559 13 GLS-WNVTERQLENAFD-RFGKI-IECQIMLERDSGRPRGFGFITYADRRAMDDAIREMH 69 (280)
Q Consensus 13 nLp-~~vte~dL~~~F~-~~G~I-~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ln 69 (280)
.++ ..++-++|.+... .|... ..+.|...-+ . --+|+..+.++.+.||+.+.
T Consensus 15 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D~----e-~d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 15 VVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPDE----D-GDLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred EEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeCC----C-CCEEEeCCHHHHHHHHHHHh
Confidence 345 7788888776654 34322 2333322111 1 16799999999999998765
No 317
>PF02700 PurS: Phosphoribosylformylglycinamidine (FGAM) synthase; InterPro: IPR003850 Phosphoribosylformylglycinamidine(FGAM) synthetase, 6.3.5.3 from EC, catalyses the fourth step in the de novo purine biosynthetic pathway []. 5-phosphoribosylformylglycinamide (FGAR) + glutamine + ATP = FGAM + glutamate + ADP + Pi In eukaryotes and many bacterial systems (including Escherichia coli and Salmonella typhimurium), the FGAM synthetase is encoded by the large form of PurL (lgPurL), which contains an N-terminal ATPase domain and a C-terminal glutamine-binding domain. In archaeal and other bacterial systems, however, FGAM synthetase is encoded by separate genes, making it a multisubunit (rather than multidomain) enzyme. The protein is composed of the small form of PurL (smPurL), which is homologus to the ATPase domain of lgPurL, PurQ which is homologous to the glutamine-binding domain of of lgPurL, and PurS, whose function is not known. This entry represents the PurS subunit of the multisubunit FGAM synthetase. Recent studies showed that disruption of the purS gene in Bacillus subtilis resulted in a purine auxotrophic phenotype, due to defective FGAM synthetase activity. Therefore, the PurS protein appears to be required for the function of the PurL and PurQ subunits of the FGAM synthetase, but the molecular mechanism for the functional role of PurS is currently not known. For additional information please see [, ].; GO: 0016879 ligase activity, forming carbon-nitrogen bonds; PDB: 2ZW2_B 3D54_B 1VQ3_B 1GTD_A 2YX5_A 2CUW_A 1TWJ_B 1T4A_B 2DGB_B.
Probab=21.21 E-value=2.9e+02 Score=20.37 Aligned_cols=59 Identities=12% Similarity=0.125 Sum_probs=30.4
Q ss_pred EEEEcCCCCCCcH--HHHHHHHhhcC--CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCcee
Q 023559 8 RIFVGGLSWNVTE--RQLENAFDRFG--KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGREF 73 (280)
Q Consensus 8 ~lfVgnLp~~vte--~dL~~~F~~~G--~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~~l 73 (280)
+|+|..-|--.+. +.|+..+...| .|++|++-+-- .-.++-.+.++|++.++.|....|
T Consensus 4 ~V~V~~K~gvlDPqG~ai~~al~~lG~~~v~~Vr~GK~~-------~l~~~~~~~e~a~~~v~~i~~~LL 66 (80)
T PF02700_consen 4 RVEVTLKPGVLDPQGEAIKRALHRLGYDGVKDVRVGKYI-------ELELEADDEEEAEEQVEEICEKLL 66 (80)
T ss_dssp EEEEEE-TTS--HHHHHHHHHHHHTT-TTEEEEEEEEEE-------EEEEE-SSHHHHHHHHHHHHHHTT
T ss_pred EEEEEECCCCcCcHHHHHHHHHHHcCCcccCcEEEEEEE-------EEEEeCCCHHHHHHHHHHHHHHhc
Confidence 5667644433332 34555555444 68888875421 123455667777776666654433
No 318
>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=21.20 E-value=1.4e+02 Score=22.85 Aligned_cols=40 Identities=15% Similarity=0.282 Sum_probs=23.4
Q ss_pred CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCc
Q 023559 32 KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR 71 (280)
Q Consensus 32 ~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~ 71 (280)
+|+-|.|++-.......-..||+|.-.+.+..-+.++..+
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 5666777766554445556889997555554334344333
No 319
>KOG4066 consensus Cell growth regulatory protein CGR11 [Function unknown]
Probab=21.17 E-value=1.7e+02 Score=24.89 Aligned_cols=20 Identities=30% Similarity=0.504 Sum_probs=13.2
Q ss_pred EEcCCCCCCcHHHHHHHHhhcCC
Q 023559 10 FVGGLSWNVTERQLENAFDRFGK 32 (280)
Q Consensus 10 fVgnLp~~vte~dL~~~F~~~G~ 32 (280)
.|-+|++.+. |.+.|.+||.
T Consensus 78 ~ilsLSP~~n---ISdAf~kFgI 97 (177)
T KOG4066|consen 78 VILSLSPKTN---ISDAFRKFGI 97 (177)
T ss_pred eEEEeCCCcc---hHHHHHHhCc
Confidence 4556777654 5677788864
No 320
>PRK11863 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional
Probab=21.08 E-value=2.4e+02 Score=26.34 Aligned_cols=33 Identities=12% Similarity=-0.004 Sum_probs=22.7
Q ss_pred cEEEEcC--CCCCCcHHHHHHHHhhc-CCeEEEEEe
Q 023559 7 NRIFVGG--LSWNVTERQLENAFDRF-GKIIECQIM 39 (280)
Q Consensus 7 ~~lfVgn--Lp~~vte~dL~~~F~~~-G~I~~v~i~ 39 (280)
.||||.- |...+++++|+++|.+| ..-..|+|+
T Consensus 210 ~Ti~~~~~~~~~~~~~~~i~~~~~~~Y~~epfV~v~ 245 (313)
T PRK11863 210 VTVPLHLRLLPGGPTAEDLHAALADHYAGEAFVRVA 245 (313)
T ss_pred EEEEEEecccCCCCCHHHHHHHHHHHcCCCCeEEEe
Confidence 3677764 57788999999999765 444445554
No 321
>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=21.06 E-value=2.8e+02 Score=18.84 Aligned_cols=45 Identities=18% Similarity=0.295 Sum_probs=36.1
Q ss_pred cHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHH
Q 023559 19 TERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAIRE 67 (280)
Q Consensus 19 te~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~ 67 (280)
..+++.+.+.++-+|.+|..+. |...=.+.|.+.+.++.++.+..
T Consensus 11 ~~~~~~~~l~~~p~V~~~~~vt----G~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 11 AYDEFAEALAEIPEVVECYSVT----GEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHHHHHTSTTEEEEEEES----SSSSEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCEEEEEEEe----CCCCEEEEEEECCHHHHHHHHHH
Confidence 4677888889999999998874 44455788999999999998655
No 322
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=20.86 E-value=90 Score=29.17 Aligned_cols=19 Identities=42% Similarity=1.447 Sum_probs=16.8
Q ss_pred CCCCCCCCCCCCCCCCCCC
Q 023559 118 DDCFKCGRPGHWARDCPSA 136 (280)
Q Consensus 118 ~~~~~~g~~g~~~~~~~~~ 136 (280)
--|++||..+||-..||-.
T Consensus 177 Y~CyRCGqkgHwIqnCpTN 195 (427)
T COG5222 177 YVCYRCGQKGHWIQNCPTN 195 (427)
T ss_pred eeEEecCCCCchhhcCCCC
Confidence 3599999999999999965
No 323
>cd04902 ACT_3PGDH-xct C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). The C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with an extended C-terminal (xct) region from bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. Some 3PGDH enzymes have an additional domain formed by an extended C-terminal region. This additional domain introduces significant asymmetry to the homotetramer. Adjacent ACT (regulatory) domains interact, creating two serine-binding sites, however, this asymmetric arrangement results in the formation of two different and distinct domain interfaces between iden
Probab=20.81 E-value=2.8e+02 Score=18.70 Aligned_cols=23 Identities=13% Similarity=0.066 Sum_probs=14.6
Q ss_pred CcHHHHHHHHhhcC-CeEEEEEee
Q 023559 18 VTERQLENAFDRFG-KIIECQIML 40 (280)
Q Consensus 18 vte~dL~~~F~~~G-~I~~v~i~~ 40 (280)
-.-.+|.++|.+++ .|.++.+..
T Consensus 11 G~l~~i~~~l~~~~inI~~~~~~~ 34 (73)
T cd04902 11 GVIGKVGTILGEAGINIAGMQVGR 34 (73)
T ss_pred CHHHHHHHHHHHcCcChhheEeec
Confidence 34456778888775 566665543
No 324
>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=20.80 E-value=1.5e+02 Score=22.21 Aligned_cols=24 Identities=25% Similarity=0.273 Sum_probs=18.2
Q ss_pred ccEEEEEeCCHHHHHHHHHHhcCc
Q 023559 48 RGFGFITYADRRAMDDAIREMHGR 71 (280)
Q Consensus 48 rG~aFV~F~~~e~A~~Ai~~lng~ 71 (280)
.||.||+++..+.+..+|..+.+.
T Consensus 59 pGYvFv~~~~~~~~~~~i~~~~~v 82 (106)
T smart00738 59 PGYIFVEADLEDEVWTAIRGTPGV 82 (106)
T ss_pred CCEEEEEEEeCCcHHHHHhcCCCc
Confidence 399999998777767777766653
No 325
>PRK11895 ilvH acetolactate synthase 3 regulatory subunit; Reviewed
Probab=20.66 E-value=5.1e+02 Score=21.73 Aligned_cols=61 Identities=16% Similarity=0.285 Sum_probs=36.5
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhcC-CeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHHHHhcCc
Q 023559 8 RIFVGGLSWNVTERQLENAFDRFG-KIIECQIMLERDSGRPRGFGFITYADRRAMDDAIREMHGR 71 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~G-~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai~~lng~ 71 (280)
+|+|.|-|- .-..|-.+|...+ .|.++.+....+.+.++ +.++.-.+.+..++.+++|+..
T Consensus 6 sV~veN~pG--vL~rI~~lf~rrg~NI~Sl~v~~te~~~~sr-iti~V~~~~~~i~qi~kQl~KL 67 (161)
T PRK11895 6 SVLVENEPG--VLSRVAGLFSRRGYNIESLTVGPTEDPGLSR-MTIVTSGDEQVIEQITKQLNKL 67 (161)
T ss_pred EEEEcCCCc--HHHHHHHHHHhCCCcEEEEEeeecCCCCEEE-EEEEEECCHHHHHHHHHHHhcc
Confidence 344544443 2356778888765 67777665442223332 4455556778888888888754
No 326
>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=20.65 E-value=2.4e+02 Score=21.78 Aligned_cols=42 Identities=24% Similarity=0.258 Sum_probs=26.6
Q ss_pred HHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHHHHHHHH
Q 023559 21 RQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRRAMDDAI 65 (280)
Q Consensus 21 ~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e~A~~Ai 65 (280)
.+|.+.+... .|.+..|.....++ .-|++++..+.+.+.+++
T Consensus 26 PEv~~~l~~~-Gi~~ysIf~~g~~~--~LF~~~E~~~~~~~~~~l 67 (106)
T PF05336_consen 26 PEVLAALREA-GIRNYSIFRDGDTG--RLFMYMETDDFDADMAAL 67 (106)
T ss_dssp HHHHHHHHHC-TEEEEEEEEETTTT--EEEEEEEECT-CHHHHHG
T ss_pred HHHHHHHHHC-CCeEEEEEEeCCCC--EEEEEEEecChhhHHHHc
Confidence 4566666666 67888887775543 448888888844444433
No 327
>KOG1199 consensus Short-chain alcohol dehydrogenase/3-hydroxyacyl-CoA dehydrogenase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=20.62 E-value=2.2e+02 Score=24.84 Aligned_cols=27 Identities=19% Similarity=0.492 Sum_probs=16.5
Q ss_pred CcEEEEcCCCCC-CcHHHHHHHHh----hcCCeEE
Q 023559 6 ENRIFVGGLSWN-VTERQLENAFD----RFGKIIE 35 (280)
Q Consensus 6 ~~~lfVgnLp~~-vte~dL~~~F~----~~G~I~~ 35 (280)
.+.||+ |-+ ++|++++..|. +||.+..
T Consensus 55 ~~~vf~---padvtsekdv~aala~ak~kfgrld~ 86 (260)
T KOG1199|consen 55 GKVVFT---PADVTSEKDVRAALAKAKAKFGRLDA 86 (260)
T ss_pred CceEEe---ccccCcHHHHHHHHHHHHhhccceee
Confidence 345664 445 56778877775 5666543
No 328
>PRK14448 acylphosphatase; Provisional
Probab=20.45 E-value=3.2e+02 Score=20.45 Aligned_cols=21 Identities=14% Similarity=0.068 Sum_probs=12.2
Q ss_pred EEEEcCCCCC-------CcHHHHHHHHh
Q 023559 8 RIFVGGLSWN-------VTERQLENAFD 28 (280)
Q Consensus 8 ~lfVgnLp~~-------vte~dL~~~F~ 28 (280)
+=||.||+.. -++++|.+|+.
T Consensus 31 ~G~V~N~~dG~Vei~~~G~~~~v~~f~~ 58 (90)
T PRK14448 31 KGYVKNRPDGSVEVVAVGSDAQIAAFRD 58 (90)
T ss_pred EEEEEECCCCCEEEEEEeCHHHHHHHHH
Confidence 3466777764 24566665554
No 329
>TIGR00401 msrA methionine-S-sulfoxide reductase. This model describes peptide methionine sulfoxide reductase (MsrA), a repair enzyme for proteins that have been inactivated by oxidation. The enzyme from E. coli is coextensive with this model and has enzymatic activity. However, in all completed genomes in which this module is present, a second protein module, described in TIGR00357, is also found, and in several cases as part of the same polypeptide chain: N-terminal to this module in Helicobacter pylori and Haemophilus influenzae (as in PilB of Neisseria gonorrhoeae) but C-terminal to it in Treponema pallidum. PilB, containing both domains, has been shown to be important for the expression of adhesins in certain pathogens.
Probab=20.40 E-value=1.7e+02 Score=24.38 Aligned_cols=23 Identities=13% Similarity=-0.003 Sum_probs=14.2
Q ss_pred EEEEcCCCCCCcHHHHHHHHhhc
Q 023559 8 RIFVGGLSWNVTERQLENAFDRF 30 (280)
Q Consensus 8 ~lfVgnLp~~vte~dL~~~F~~~ 30 (280)
.|-|.-=|..|+-++|.++|-..
T Consensus 53 ~V~V~yDp~~is~~~Ll~~f~~~ 75 (149)
T TIGR00401 53 AVQVTYDPKVISYEELLDVFWEI 75 (149)
T ss_pred EEEEEECCCcCcHHHHHHHHHHh
Confidence 34454456667778877766543
No 330
>PF09250 Prim-Pol: Bifunctional DNA primase/polymerase, N-terminal; InterPro: IPR015330 Members of this family adopt a structure consisting of a core of antiparallel beta sheets. They are found in various bacterial hypothetical proteins, and have been shown to harbour both primase and polymerase activities []. ; PDB: 1RO0_A 1RNI_A 1RO2_A 3M1M_A.
Probab=20.36 E-value=2.4e+02 Score=22.74 Aligned_cols=36 Identities=19% Similarity=0.367 Sum_probs=22.8
Q ss_pred CcHHHHHHHHhhcCCeEEEEEeecCCCCCCccEEEEEeCCHH
Q 023559 18 VTERQLENAFDRFGKIIECQIMLERDSGRPRGFGFITYADRR 59 (280)
Q Consensus 18 vte~dL~~~F~~~G~I~~v~i~~d~~tg~~rG~aFV~F~~~e 59 (280)
+++++|++.|.++ .-..|-|+. ...++..|.++..+
T Consensus 32 ~~~~~i~~~~~~~-~~~~igl~~-----~~~gl~viDiD~~~ 67 (163)
T PF09250_consen 32 TDPEQIERWWRRY-PGANIGLVL-----GPSGLVVIDIDNKD 67 (163)
T ss_dssp THHHHHHHHHH---TT-EEEEES-----SGGGEEEEEES-HH
T ss_pred CCHHHHHHHHhhC-CCceEEEEe-----cCCceEEEECCCcc
Confidence 4778899988876 333444544 23569999999888
No 331
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=20.11 E-value=1.9e+02 Score=28.47 Aligned_cols=54 Identities=15% Similarity=0.289 Sum_probs=31.2
Q ss_pred CcEEEEcCCCCCCcHHHHHHHHhhc---CCeEEEEEeecCCCCCCccEEEE-EeCCHHHHHHHH
Q 023559 6 ENRIFVGGLSWNVTERQLENAFDRF---GKIIECQIMLERDSGRPRGFGFI-TYADRRAMDDAI 65 (280)
Q Consensus 6 ~~~lfVgnLp~~vte~dL~~~F~~~---G~I~~v~i~~d~~tg~~rG~aFV-~F~~~e~A~~Ai 65 (280)
.++|.|.-||..++.+.+.+..... +.|+.+ .+ .+ ..++.|| ++.....++..+
T Consensus 227 ~~~i~ItElP~~~~~~~~~~~i~~l~~~~~i~~i---~d-s~--~~~v~i~I~lk~~~~~~~~~ 284 (439)
T PHA02592 227 KTKLHITEIPVKYDRETYVAVLDPLEEKGKIVSY---DD-CT--EDGFRFKVTLKREENEEATH 284 (439)
T ss_pred CCEEEEEeCCCcccHHHHHHHHHHHHhcCCcCCc---cc-CC--CCceEEEEEECCCCCHHHHH
Confidence 4579999999999887777655433 344443 22 11 2345554 555544444333
No 332
>PTZ00071 40S ribosomal protein S24; Provisional
Probab=20.07 E-value=2.9e+02 Score=22.63 Aligned_cols=46 Identities=20% Similarity=0.515 Sum_probs=25.3
Q ss_pred CCcHHHHHHHHhhcCCe--EEEEEee----cCCCCCCccEEEEEeCCHHHHHH
Q 023559 17 NVTERQLENAFDRFGKI--IECQIML----ERDSGRPRGFGFITYADRRAMDD 63 (280)
Q Consensus 17 ~vte~dL~~~F~~~G~I--~~v~i~~----d~~tg~~rG~aFV~F~~~e~A~~ 63 (280)
+++-.+|++.+.+.=.| .++.|+. .-..+++.|||.| |++++.|++
T Consensus 35 TpSr~eirekLA~~~~v~d~~~Vvv~~~~T~fG~g~StG~a~I-Yds~e~~kk 86 (132)
T PTZ00071 35 TVSKKDIKEKLAKQYKVADARTIVLFGFKTKFGGGKTTGFGLI-YDNLAALKK 86 (132)
T ss_pred CCCHHHHHHHHHHHhCCCCCCEEEEEccEecCCCceEEEEEEE-ECCHHHHHh
Confidence 56777887777643232 2222222 2233567788876 666666554
No 333
>PF11004 Kdo_hydroxy: 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; InterPro: IPR021266 This bacterial family of proteins has no known function.
Probab=20.04 E-value=1.7e+02 Score=27.05 Aligned_cols=45 Identities=13% Similarity=0.233 Sum_probs=30.1
Q ss_pred CCCcEEEEcCCCCCCcHHHHHHHHh-hcCCeEEEEEeecCCCCCCcc
Q 023559 4 KDENRIFVGGLSWNVTERQLENAFD-RFGKIIECQIMLERDSGRPRG 49 (280)
Q Consensus 4 ~~~~~lfVgnLp~~vte~dL~~~F~-~~G~I~~v~i~~d~~tg~~rG 49 (280)
+.-+.||+-+|++.++++|. .|+. .+-..+.-.|..+++++..+|
T Consensus 19 E~G~VL~fP~l~F~l~~~E~-~fL~p~~~d~k~KNIs~~p~~~~l~G 64 (281)
T PF11004_consen 19 EQGKVLYFPQLRFPLSPEER-AFLDPAIVDPKRKNISYRPNTGSLRG 64 (281)
T ss_pred hCCCEEEeCCCCCCCChhHH-hhcChhhhCCCCCceeecCCCCceec
Confidence 35678999999999988886 4443 333333445556666777776
Done!