Query 043443
Match_columns 299
No_of_seqs 459 out of 2930
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 05:07:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043443.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043443hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4207 Predicted splicing fac 99.9 4.2E-22 9.1E-27 167.4 18.3 89 55-143 7-95 (256)
2 KOG0107 Alternative splicing f 99.9 1.4E-21 3.1E-26 160.4 16.0 80 59-143 8-87 (195)
3 PLN03134 glycine-rich RNA-bind 99.8 4.7E-20 1E-24 151.8 14.8 85 59-143 32-116 (144)
4 TIGR01659 sex-lethal sex-letha 99.8 5.1E-18 1.1E-22 158.5 14.9 84 57-140 103-186 (346)
5 KOG0113 U1 small nuclear ribon 99.8 6.1E-17 1.3E-21 143.1 18.3 88 58-145 98-185 (335)
6 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 3.8E-17 8.3E-22 153.1 13.0 83 60-142 268-350 (352)
7 KOG0122 Translation initiation 99.7 5.4E-17 1.2E-21 139.9 12.3 86 56-141 184-269 (270)
8 PF00076 RRM_1: RNA recognitio 99.7 6.4E-17 1.4E-21 115.6 9.2 70 64-134 1-70 (70)
9 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.7 5.6E-17 1.2E-21 151.9 11.3 83 60-142 2-84 (352)
10 KOG0121 Nuclear cap-binding pr 99.7 4.6E-17 1E-21 127.4 7.5 81 60-140 35-115 (153)
11 TIGR01659 sex-lethal sex-letha 99.7 2.4E-16 5.2E-21 147.3 12.7 84 60-143 192-277 (346)
12 KOG0130 RNA-binding protein RB 99.7 2.5E-16 5.3E-21 124.4 7.4 88 54-141 65-152 (170)
13 KOG0105 Alternative splicing f 99.6 7.7E-16 1.7E-20 127.8 9.4 80 60-142 5-84 (241)
14 KOG0149 Predicted RNA-binding 99.6 5.1E-16 1.1E-20 133.4 7.1 82 58-140 9-90 (247)
15 PF14259 RRM_6: RNA recognitio 99.6 2.2E-15 4.8E-20 108.3 9.3 70 64-134 1-70 (70)
16 PLN03120 nucleic acid binding 99.6 3.2E-15 7E-20 132.2 10.7 76 61-140 4-79 (260)
17 KOG0117 Heterogeneous nuclear 99.6 4.2E-15 9.2E-20 137.6 10.8 85 56-140 78-163 (506)
18 TIGR01642 U2AF_lg U2 snRNP aux 99.6 6.7E-15 1.5E-19 144.5 12.2 83 59-141 293-375 (509)
19 TIGR01645 half-pint poly-U bin 99.6 5.3E-15 1.2E-19 145.9 10.4 80 60-139 106-185 (612)
20 KOG0125 Ataxin 2-binding prote 99.6 4E-15 8.8E-20 133.1 8.2 81 59-141 94-174 (376)
21 TIGR01622 SF-CC1 splicing fact 99.6 7.9E-15 1.7E-19 142.2 11.1 80 61-140 186-265 (457)
22 TIGR01645 half-pint poly-U bin 99.6 9.1E-15 2E-19 144.2 11.5 82 60-141 203-284 (612)
23 smart00362 RRM_2 RNA recogniti 99.6 1.6E-14 3.4E-19 102.3 9.5 72 63-136 1-72 (72)
24 KOG0126 Predicted RNA-binding 99.6 2.8E-16 6.1E-21 130.0 0.3 81 60-140 34-114 (219)
25 TIGR01648 hnRNP-R-Q heterogene 99.6 1E-14 2.2E-19 143.5 11.2 79 59-138 56-135 (578)
26 TIGR01622 SF-CC1 splicing fact 99.6 1.9E-14 4.2E-19 139.5 11.5 82 58-140 86-167 (457)
27 TIGR01628 PABP-1234 polyadenyl 99.6 1.8E-14 3.9E-19 143.4 10.9 78 63-140 2-79 (562)
28 PLN03213 repressor of silencin 99.5 1.9E-14 4E-19 134.8 9.8 77 60-140 9-87 (759)
29 PLN03121 nucleic acid binding 99.5 3.6E-14 7.7E-19 123.8 10.6 77 60-140 4-80 (243)
30 KOG0131 Splicing factor 3b, su 99.5 1.6E-14 3.6E-19 119.6 6.9 81 59-139 7-87 (203)
31 smart00360 RRM RNA recognition 99.5 4.8E-14 1E-18 99.4 8.5 71 66-136 1-71 (71)
32 KOG0111 Cyclophilin-type pepti 99.5 8.1E-15 1.8E-19 124.7 4.7 86 59-144 8-93 (298)
33 TIGR01628 PABP-1234 polyadenyl 99.5 5.6E-14 1.2E-18 139.9 11.2 83 60-143 284-366 (562)
34 COG0724 RNA-binding proteins ( 99.5 6.6E-14 1.4E-18 123.9 10.3 80 61-140 115-194 (306)
35 KOG0114 Predicted RNA-binding 99.5 8.3E-14 1.8E-18 105.4 9.0 81 58-141 15-95 (124)
36 cd00590 RRM RRM (RNA recogniti 99.5 1.6E-13 3.5E-18 97.6 10.0 74 63-137 1-74 (74)
37 KOG0148 Apoptosis-promoting RN 99.5 9.8E-14 2.1E-18 121.4 9.4 79 57-141 160-238 (321)
38 KOG0148 Apoptosis-promoting RN 99.5 4.1E-14 9E-19 123.8 7.1 82 61-142 62-143 (321)
39 TIGR01648 hnRNP-R-Q heterogene 99.5 1.6E-13 3.4E-18 135.2 11.1 74 61-142 233-308 (578)
40 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.5 2.4E-13 5.3E-18 132.9 11.8 79 58-141 272-351 (481)
41 KOG0145 RNA-binding protein EL 99.5 2.7E-13 5.9E-18 118.1 9.7 85 57-141 37-121 (360)
42 KOG0108 mRNA cleavage and poly 99.5 1.4E-13 3.1E-18 130.8 8.4 83 62-144 19-101 (435)
43 KOG0109 RNA-binding protein LA 99.5 9.9E-14 2.1E-18 122.5 6.4 72 62-141 3-74 (346)
44 KOG0145 RNA-binding protein EL 99.5 4.7E-13 1E-17 116.6 10.4 81 61-141 278-358 (360)
45 KOG0415 Predicted peptidyl pro 99.4 1.6E-13 3.4E-18 124.0 6.8 84 58-141 236-319 (479)
46 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.4 5.3E-13 1.1E-17 130.5 10.7 74 61-140 2-77 (481)
47 KOG4212 RNA-binding protein hn 99.4 1E-12 2.2E-17 121.7 10.5 79 61-140 44-123 (608)
48 KOG0117 Heterogeneous nuclear 99.4 4.5E-13 9.8E-18 124.3 7.9 75 61-143 259-333 (506)
49 KOG0146 RNA-binding protein ET 99.4 2.7E-13 5.8E-18 118.6 5.4 86 57-142 281-366 (371)
50 PF13893 RRM_5: RNA recognitio 99.4 1.9E-12 4.2E-17 89.0 8.6 56 78-138 1-56 (56)
51 KOG0127 Nucleolar protein fibr 99.4 9.9E-13 2.1E-17 124.7 9.3 82 61-143 117-198 (678)
52 KOG0127 Nucleolar protein fibr 99.4 1.2E-12 2.5E-17 124.2 9.7 84 58-141 289-378 (678)
53 KOG0144 RNA-binding protein CU 99.4 8.1E-13 1.8E-17 122.2 8.4 88 57-144 30-120 (510)
54 smart00361 RRM_1 RNA recogniti 99.4 1.8E-12 4E-17 93.5 7.9 61 75-135 2-69 (70)
55 KOG0144 RNA-binding protein CU 99.4 4.9E-13 1.1E-17 123.6 6.0 86 60-146 123-211 (510)
56 KOG0147 Transcriptional coacti 99.4 8E-13 1.7E-17 125.6 6.8 79 64-142 281-359 (549)
57 KOG0124 Polypyrimidine tract-b 99.3 7.2E-13 1.6E-17 120.2 4.8 80 60-139 112-191 (544)
58 KOG0109 RNA-binding protein LA 99.3 9.4E-13 2E-17 116.4 5.2 83 58-148 75-157 (346)
59 TIGR01642 U2AF_lg U2 snRNP aux 99.3 1.6E-11 3.4E-16 120.7 9.7 76 57-139 171-258 (509)
60 KOG0105 Alternative splicing f 99.2 2.7E-10 6E-15 94.9 13.1 84 48-138 102-187 (241)
61 KOG0131 Splicing factor 3b, su 99.2 2.2E-11 4.8E-16 101.2 6.4 84 60-143 95-179 (203)
62 KOG4206 Spliceosomal protein s 99.2 5.3E-11 1.1E-15 102.3 8.3 81 59-142 7-91 (221)
63 KOG4212 RNA-binding protein hn 99.2 5.8E-11 1.3E-15 110.2 8.9 76 58-138 533-608 (608)
64 KOG4208 Nucleolar RNA-binding 99.2 8.3E-11 1.8E-15 99.6 8.3 83 59-141 47-130 (214)
65 KOG0132 RNA polymerase II C-te 99.2 7.1E-11 1.5E-15 116.1 8.2 78 61-144 421-498 (894)
66 KOG0106 Alternative splicing f 99.2 2.7E-11 5.9E-16 104.8 4.4 72 62-141 2-73 (216)
67 KOG0153 Predicted RNA-binding 99.1 1.7E-10 3.8E-15 104.4 8.4 80 55-140 222-302 (377)
68 KOG0123 Polyadenylate-binding 99.1 1.9E-10 4.1E-15 108.4 8.1 81 60-143 75-155 (369)
69 KOG0533 RRM motif-containing p 99.1 3.7E-10 8.1E-15 99.7 9.3 83 58-141 80-162 (243)
70 KOG1995 Conserved Zn-finger pr 99.1 3.9E-10 8.5E-15 102.8 9.4 86 57-142 62-155 (351)
71 KOG4661 Hsp27-ERE-TATA-binding 99.1 1.9E-10 4.2E-15 109.7 7.6 82 60-141 404-485 (940)
72 KOG0110 RNA-binding protein (R 99.1 3.4E-10 7.4E-15 110.6 8.3 79 61-139 515-596 (725)
73 KOG0124 Polypyrimidine tract-b 99.1 3.4E-10 7.3E-15 103.1 7.1 80 60-139 209-288 (544)
74 KOG0116 RasGAP SH3 binding pro 99.0 1.8E-09 3.8E-14 102.6 11.4 81 60-141 287-367 (419)
75 KOG0110 RNA-binding protein (R 99.0 2.5E-10 5.4E-15 111.5 5.0 85 59-143 611-695 (725)
76 KOG4205 RNA-binding protein mu 99.0 3.9E-10 8.4E-15 103.3 4.9 82 60-142 5-86 (311)
77 KOG4209 Splicing factor RNPS1, 99.0 7.9E-10 1.7E-14 97.7 6.0 85 56-141 96-180 (231)
78 KOG0106 Alternative splicing f 99.0 1.8E-09 3.9E-14 93.5 8.0 71 57-135 95-165 (216)
79 KOG4676 Splicing factor, argin 98.9 1.1E-09 2.3E-14 100.6 5.8 75 63-138 9-86 (479)
80 KOG0146 RNA-binding protein ET 98.9 9.7E-10 2.1E-14 96.4 5.3 83 60-143 18-103 (371)
81 KOG4454 RNA binding protein (R 98.9 4.1E-10 9E-15 96.2 2.6 82 58-141 6-87 (267)
82 KOG4205 RNA-binding protein mu 98.9 1.2E-09 2.5E-14 100.2 5.7 84 60-144 96-179 (311)
83 KOG1548 Transcription elongati 98.9 3.8E-09 8.3E-14 95.7 8.7 83 58-141 131-221 (382)
84 KOG0123 Polyadenylate-binding 98.9 2.5E-09 5.5E-14 100.8 7.9 74 62-141 2-75 (369)
85 PF04059 RRM_2: RNA recognitio 98.9 1.5E-08 3.3E-13 77.3 9.1 79 62-140 2-86 (97)
86 KOG1457 RNA binding protein (c 98.8 1.7E-08 3.6E-13 86.7 9.0 83 61-143 34-120 (284)
87 KOG4660 Protein Mei2, essentia 98.8 3.3E-09 7.1E-14 101.5 4.4 72 58-134 72-143 (549)
88 KOG0151 Predicted splicing reg 98.8 2.5E-08 5.3E-13 97.7 8.5 84 57-140 170-256 (877)
89 KOG1456 Heterogeneous nuclear 98.7 3.2E-07 6.8E-12 84.2 11.9 89 55-143 25-201 (494)
90 KOG4211 Splicing factor hnRNP- 98.6 9.9E-08 2.1E-12 90.3 8.6 77 60-140 9-85 (510)
91 KOG0226 RNA-binding proteins [ 98.6 5E-08 1.1E-12 85.3 4.8 82 58-139 187-268 (290)
92 KOG0120 Splicing factor U2AF, 98.6 3.9E-08 8.4E-13 94.8 4.3 86 58-143 286-371 (500)
93 KOG4307 RNA binding protein RB 98.6 5.2E-07 1.1E-11 88.4 11.3 77 61-137 867-943 (944)
94 KOG1190 Polypyrimidine tract-b 98.5 3.2E-07 6.8E-12 85.1 8.3 77 61-142 297-374 (492)
95 KOG4676 Splicing factor, argin 98.5 1E-08 2.2E-13 94.3 -2.2 77 59-140 149-225 (479)
96 PF08777 RRM_3: RNA binding mo 98.5 4.4E-07 9.5E-12 70.6 6.3 72 62-139 2-78 (105)
97 KOG1456 Heterogeneous nuclear 98.4 2.8E-06 6E-11 78.1 12.2 80 58-142 284-364 (494)
98 KOG1457 RNA binding protein (c 98.4 3.5E-07 7.6E-12 78.7 4.4 66 60-129 209-274 (284)
99 PF11608 Limkain-b1: Limkain b 98.3 1.8E-06 4E-11 63.4 6.9 70 62-141 3-77 (90)
100 KOG0147 Transcriptional coacti 98.3 1.2E-07 2.5E-12 90.8 0.7 87 57-144 175-261 (549)
101 KOG4211 Splicing factor hnRNP- 98.3 1.6E-06 3.5E-11 82.2 7.7 78 60-139 102-180 (510)
102 KOG1365 RNA-binding protein Fu 98.3 2E-06 4.4E-11 79.2 7.2 79 60-139 279-360 (508)
103 KOG4206 Spliceosomal protein s 98.2 3.9E-06 8.4E-11 72.5 7.9 77 58-139 143-220 (221)
104 KOG4849 mRNA cleavage factor I 98.1 2.5E-06 5.3E-11 77.8 3.3 78 61-138 80-159 (498)
105 KOG4210 Nuclear localization s 98.0 5.2E-06 1.1E-10 75.8 4.6 81 61-142 184-265 (285)
106 KOG2314 Translation initiation 98.0 2.1E-05 4.6E-10 75.8 8.4 80 59-139 56-142 (698)
107 COG5175 MOT2 Transcriptional r 98.0 1.4E-05 3.1E-10 72.7 6.8 81 60-140 113-202 (480)
108 PF14605 Nup35_RRM_2: Nup53/35 98.0 1.9E-05 4.1E-10 53.6 5.5 52 62-120 2-53 (53)
109 PF05172 Nup35_RRM: Nup53/35/4 98.0 3.6E-05 7.9E-10 59.2 7.6 80 59-140 4-91 (100)
110 KOG1548 Transcription elongati 98.0 4.4E-05 9.5E-10 69.7 9.1 79 59-141 263-352 (382)
111 KOG2416 Acinus (induces apopto 97.8 2E-05 4.3E-10 76.4 4.3 77 58-140 441-521 (718)
112 KOG3152 TBP-binding protein, a 97.8 1.3E-05 2.8E-10 70.5 2.7 73 60-132 73-157 (278)
113 KOG2202 U2 snRNP splicing fact 97.8 1.1E-05 2.5E-10 70.9 1.9 65 76-141 83-148 (260)
114 KOG1855 Predicted RNA-binding 97.7 4E-05 8.7E-10 71.8 4.7 70 58-127 228-310 (484)
115 KOG0120 Splicing factor U2AF, 97.7 0.00013 2.9E-09 70.6 8.0 63 77-139 425-490 (500)
116 KOG1190 Polypyrimidine tract-b 97.6 0.00012 2.5E-09 68.4 6.6 77 60-140 413-490 (492)
117 KOG0129 Predicted RNA-binding 97.6 0.00016 3.6E-09 69.2 7.7 65 58-122 367-432 (520)
118 PF08952 DUF1866: Domain of un 97.6 0.00031 6.7E-09 57.3 8.2 75 60-143 26-109 (146)
119 KOG0129 Predicted RNA-binding 97.6 0.00038 8.2E-09 66.8 9.4 65 58-123 256-326 (520)
120 KOG0112 Large RNA-binding prot 97.6 0.00017 3.6E-09 73.1 7.0 83 57-145 451-535 (975)
121 KOG1996 mRNA splicing factor [ 97.5 0.00022 4.9E-09 63.9 6.7 66 75-140 300-366 (378)
122 KOG2135 Proteins containing th 97.3 0.00023 5.1E-09 67.5 3.6 79 55-140 366-445 (526)
123 KOG4307 RNA binding protein RB 97.2 0.00058 1.3E-08 67.6 6.1 82 57-139 430-512 (944)
124 KOG1365 RNA-binding protein Fu 97.2 0.00035 7.7E-09 64.7 3.7 74 60-135 160-237 (508)
125 PF10309 DUF2414: Protein of u 97.1 0.0025 5.5E-08 44.4 6.8 55 61-123 5-62 (62)
126 KOG4207 Predicted splicing fac 97.1 0.03 6.5E-07 48.2 14.0 57 73-129 28-86 (256)
127 KOG0128 RNA-binding protein SA 97.0 4.6E-05 1E-09 76.7 -4.2 69 61-129 667-735 (881)
128 KOG0128 RNA-binding protein SA 97.0 0.00041 8.8E-09 70.1 2.3 81 61-142 736-816 (881)
129 PF03880 DbpA: DbpA RNA bindin 96.9 0.0056 1.2E-07 44.3 7.2 67 63-138 2-74 (74)
130 KOG2193 IGF-II mRNA-binding pr 96.8 0.00093 2E-08 62.8 3.4 73 62-142 2-77 (584)
131 KOG4660 Protein Mei2, essentia 96.8 0.002 4.3E-08 62.5 5.2 56 85-140 413-472 (549)
132 PF08675 RNA_bind: RNA binding 96.7 0.0064 1.4E-07 44.8 6.2 56 61-125 9-64 (87)
133 PF03467 Smg4_UPF3: Smg-4/UPF3 96.7 0.0022 4.7E-08 54.6 4.4 83 58-140 4-97 (176)
134 PF15023 DUF4523: Protein of u 96.7 0.0084 1.8E-07 48.6 7.3 76 56-139 81-160 (166)
135 KOG0115 RNA-binding protein p5 96.7 0.0019 4.1E-08 57.1 3.8 75 62-137 32-110 (275)
136 KOG4285 Mitotic phosphoprotein 96.7 0.0088 1.9E-07 54.1 8.1 73 61-141 197-270 (350)
137 KOG0112 Large RNA-binding prot 96.6 0.00041 8.9E-09 70.4 -0.5 79 59-138 370-448 (975)
138 KOG2068 MOT2 transcription fac 96.6 0.00087 1.9E-08 61.4 1.2 81 61-141 77-163 (327)
139 PF07576 BRAP2: BRCA1-associat 96.3 0.037 8.1E-07 43.3 8.6 68 61-130 13-81 (110)
140 PF04847 Calcipressin: Calcipr 96.1 0.015 3.3E-07 49.7 6.4 62 74-141 8-71 (184)
141 KOG2591 c-Mpl binding protein, 96.0 0.01 2.3E-07 57.6 5.3 69 60-135 174-246 (684)
142 KOG2253 U1 snRNP complex, subu 95.6 0.021 4.6E-07 56.6 5.8 74 57-139 36-109 (668)
143 KOG4574 RNA-binding protein (c 95.1 0.013 2.7E-07 59.6 2.4 74 63-142 300-375 (1007)
144 PF11767 SET_assoc: Histone ly 94.9 0.16 3.4E-06 36.0 6.8 56 72-136 11-66 (66)
145 KOG4210 Nuclear localization s 94.7 0.016 3.4E-07 53.1 1.6 81 60-140 87-167 (285)
146 KOG2318 Uncharacterized conser 94.3 0.16 3.4E-06 50.0 7.5 81 58-138 171-305 (650)
147 KOG0804 Cytoplasmic Zn-finger 93.8 0.18 3.9E-06 48.2 6.7 69 60-130 73-142 (493)
148 KOG4019 Calcineurin-mediated s 91.9 0.19 4E-06 42.5 3.5 77 59-141 8-90 (193)
149 KOG2193 IGF-II mRNA-binding pr 90.6 0.012 2.7E-07 55.4 -5.1 78 60-140 79-156 (584)
150 KOG4410 5-formyltetrahydrofola 89.5 1.1 2.5E-05 40.5 6.5 47 61-113 330-377 (396)
151 PF07530 PRE_C2HC: Associated 89.4 0.82 1.8E-05 32.5 4.6 62 76-140 2-64 (68)
152 smart00596 PRE_C2HC PRE_C2HC d 89.3 0.67 1.4E-05 32.9 3.9 62 76-140 2-64 (69)
153 KOG4483 Uncharacterized conser 89.2 0.87 1.9E-05 43.0 5.8 58 58-122 388-446 (528)
154 PF03468 XS: XS domain; Inter 85.8 1.4 3E-05 34.8 4.3 57 62-121 9-75 (116)
155 KOG4365 Uncharacterized conser 82.1 0.24 5.2E-06 47.2 -1.6 78 62-140 4-81 (572)
156 PF10567 Nab6_mRNP_bdg: RNA-re 80.7 3.9 8.4E-05 37.3 5.6 82 58-139 12-106 (309)
157 COG5638 Uncharacterized conser 80.3 7.2 0.00016 37.2 7.4 73 58-130 143-285 (622)
158 COG0724 RNA-binding proteins ( 79.3 2.4 5.1E-05 36.7 3.8 64 58-121 222-285 (306)
159 KOG2891 Surface glycoprotein [ 79.2 0.77 1.7E-05 41.4 0.6 67 61-127 149-246 (445)
160 PRK11634 ATP-dependent RNA hel 78.6 30 0.00065 35.4 11.9 70 61-140 486-562 (629)
161 KOG4454 RNA binding protein (R 78.0 0.51 1.1E-05 41.2 -0.8 75 59-134 78-156 (267)
162 KOG0107 Alternative splicing f 75.7 49 0.0011 28.1 10.6 10 112-121 59-68 (195)
163 KOG2295 C2H2 Zn-finger protein 75.6 0.38 8.2E-06 47.2 -2.5 71 61-131 231-301 (648)
164 PRK10629 EnvZ/OmpR regulon mod 74.9 24 0.00052 28.3 8.1 70 62-139 36-109 (127)
165 PRK11901 hypothetical protein; 71.9 9.8 0.00021 35.3 5.8 64 59-127 243-308 (327)
166 KOG1295 Nonsense-mediated deca 71.3 4.6 9.9E-05 38.1 3.6 70 60-129 6-78 (376)
167 PF00403 HMA: Heavy-metal-asso 69.8 22 0.00048 23.9 6.0 54 63-122 1-58 (62)
168 PRK14548 50S ribosomal protein 68.3 18 0.00039 26.8 5.5 57 64-123 23-81 (84)
169 COG0150 PurM Phosphoribosylami 67.4 1.8 4E-05 40.3 0.1 48 75-126 275-322 (345)
170 TIGR03636 L23_arch archaeal ri 67.2 21 0.00045 26.0 5.6 57 64-123 16-74 (77)
171 KOG1847 mRNA splicing factor [ 61.0 6.3 0.00014 39.7 2.4 35 173-207 730-764 (878)
172 KOG4008 rRNA processing protei 58.2 12 0.00027 33.1 3.5 34 58-91 37-70 (261)
173 KOG3702 Nuclear polyadenylated 54.5 5.9 0.00013 39.9 1.1 73 62-135 512-584 (681)
174 cd06405 PB1_Mekk2_3 The PB1 do 50.8 94 0.002 22.5 7.6 61 68-137 15-76 (79)
175 smart00195 DSPc Dual specifici 49.5 60 0.0013 25.5 6.2 71 63-137 7-85 (138)
176 PTZ00191 60S ribosomal protein 48.4 50 0.0011 27.1 5.4 55 64-121 84-140 (145)
177 PF15513 DUF4651: Domain of un 47.8 34 0.00075 23.8 3.7 18 76-93 9-26 (62)
178 PF02714 DUF221: Domain of unk 46.9 20 0.00044 33.0 3.3 33 106-140 1-33 (325)
179 PRK08559 nusG transcription an 46.4 1E+02 0.0022 25.3 7.1 35 88-127 36-70 (153)
180 smart00666 PB1 PB1 domain. Pho 46.2 1E+02 0.0022 21.8 6.4 56 64-124 12-69 (81)
181 KOG2888 Putative RNA binding p 46.0 13 0.00028 34.6 1.8 19 4-22 84-102 (453)
182 PF03439 Spt5-NGN: Early trans 45.8 58 0.0013 23.8 5.0 37 87-128 33-69 (84)
183 COG2608 CopZ Copper chaperone 45.4 60 0.0013 22.9 4.9 55 62-122 4-62 (71)
184 PF08734 GYD: GYD domain; Int 44.9 92 0.002 23.2 6.1 45 75-123 22-67 (91)
185 PF09707 Cas_Cas2CT1978: CRISP 44.7 40 0.00086 25.1 3.9 48 61-111 25-72 (86)
186 CHL00123 rps6 ribosomal protei 44.5 90 0.0019 23.5 6.0 58 62-121 9-80 (97)
187 KOG0156 Cytochrome P450 CYP2 s 43.1 42 0.00092 33.2 5.1 59 65-133 36-97 (489)
188 KOG4840 Predicted hydrolases o 42.3 38 0.00082 30.2 4.0 73 61-138 37-115 (299)
189 KOG0835 Cyclin L [General func 42.2 49 0.0011 30.9 4.9 6 74-79 214-219 (367)
190 KOG3432 Vacuolar H+-ATPase V1 41.2 35 0.00076 26.6 3.2 24 70-93 42-65 (121)
191 PF11823 DUF3343: Protein of u 40.7 35 0.00076 24.1 3.1 26 104-129 2-27 (73)
192 PF14893 PNMA: PNMA 40.2 19 0.00041 33.8 2.0 76 60-140 17-96 (331)
193 PF01037 AsnC_trans_reg: AsnC 39.9 1.2E+02 0.0026 20.6 6.9 45 74-122 11-55 (74)
194 PF08544 GHMP_kinases_C: GHMP 39.8 1.2E+02 0.0026 21.4 5.9 44 76-124 37-80 (85)
195 PRK11230 glycolate oxidase sub 39.7 85 0.0018 31.1 6.6 62 62-124 190-255 (499)
196 PF07292 NID: Nmi/IFP 35 domai 39.2 17 0.00037 27.2 1.2 24 59-82 50-73 (88)
197 PF09902 DUF2129: Uncharacteri 38.7 75 0.0016 22.7 4.4 39 81-128 16-54 (71)
198 COG5470 Uncharacterized conser 38.1 67 0.0015 24.4 4.3 20 101-120 51-70 (96)
199 PF11411 DNA_ligase_IV: DNA li 37.4 26 0.00055 21.6 1.6 17 71-87 19-35 (36)
200 PF15063 TC1: Thyroid cancer p 36.7 5.1 0.00011 28.9 -1.8 28 62-89 26-53 (79)
201 PF14581 SseB_C: SseB protein 36.6 68 0.0015 24.4 4.4 78 62-139 6-89 (108)
202 COG2061 ACT-domain-containing 36.5 2E+02 0.0043 23.9 7.1 68 59-127 86-155 (170)
203 cd00027 BRCT Breast Cancer Sup 36.4 1.2E+02 0.0026 19.6 5.5 27 62-88 2-28 (72)
204 COG0030 KsgA Dimethyladenosine 36.4 47 0.001 30.0 3.9 33 61-93 95-127 (259)
205 KOG2187 tRNA uracil-5-methyltr 36.4 29 0.00064 34.3 2.7 38 103-140 63-100 (534)
206 COG5193 LHP1 La protein, small 35.2 19 0.00042 34.3 1.2 60 62-121 175-244 (438)
207 PF07876 Dabb: Stress responsi 35.0 1.8E+02 0.0038 21.1 6.8 56 64-119 4-70 (97)
208 PF05189 RTC_insert: RNA 3'-te 34.7 98 0.0021 23.4 5.0 49 63-111 12-65 (103)
209 PF07292 NID: Nmi/IFP 35 domai 34.5 61 0.0013 24.2 3.6 33 106-138 1-34 (88)
210 TIGR00587 nfo apurinic endonuc 33.5 57 0.0012 29.4 4.0 58 61-124 137-202 (274)
211 PRK10905 cell division protein 33.1 71 0.0015 29.7 4.4 63 59-126 245-309 (328)
212 KOG4213 RNA-binding protein La 33.1 1.1E+02 0.0023 26.2 5.1 50 73-122 118-169 (205)
213 PF08156 NOP5NT: NOP5NT (NUC12 32.9 13 0.00029 26.2 -0.2 38 76-123 27-64 (67)
214 PF14026 DUF4242: Protein of u 32.5 1.9E+02 0.0041 20.8 7.7 61 64-127 3-70 (77)
215 PRK02302 hypothetical protein; 32.0 1.3E+02 0.0027 22.6 4.8 38 81-127 22-59 (89)
216 cd04878 ACT_AHAS N-terminal AC 31.7 1.5E+02 0.0033 19.5 7.0 60 63-124 2-63 (72)
217 cd04879 ACT_3PGDH-like ACT_3PG 31.2 1.5E+02 0.0034 19.3 5.5 32 64-95 2-34 (71)
218 TIGR00387 glcD glycolate oxida 31.1 1.1E+02 0.0023 29.5 5.6 52 72-124 143-198 (413)
219 PF00398 RrnaAD: Ribosomal RNA 31.1 39 0.00084 30.3 2.5 28 61-88 97-126 (262)
220 COG5584 Predicted small secret 30.9 79 0.0017 24.0 3.6 31 68-98 29-59 (103)
221 KOG3424 40S ribosomal protein 30.3 1.5E+02 0.0032 23.6 5.1 45 72-117 34-83 (132)
222 PF02426 MIase: Muconolactone 29.8 2.4E+02 0.0053 21.1 7.4 57 68-128 10-76 (91)
223 PF12829 Mhr1: Transcriptional 29.3 1.3E+02 0.0028 22.6 4.6 52 69-124 20-72 (91)
224 COG3254 Uncharacterized conser 29.3 1.7E+02 0.0036 22.7 5.2 43 75-120 26-68 (105)
225 COG5507 Uncharacterized conser 28.8 60 0.0013 24.8 2.7 21 103-123 66-86 (117)
226 PF12623 Hen1_L: RNA repair, l 28.6 1.3E+02 0.0029 26.7 5.1 63 60-123 117-183 (245)
227 KOG3580 Tight junction protein 28.4 2.1E+02 0.0046 29.2 7.0 37 60-96 60-97 (1027)
228 PRK11558 putative ssRNA endonu 28.3 86 0.0019 23.9 3.5 47 61-112 27-75 (97)
229 PF14111 DUF4283: Domain of un 28.2 19 0.00041 29.0 -0.1 67 64-139 18-90 (153)
230 COG5236 Uncharacterized conser 27.9 1.1E+02 0.0025 28.7 4.9 52 74-133 263-314 (493)
231 COG0002 ArgC Acetylglutamate s 27.1 1.3E+02 0.0028 28.5 5.1 27 69-95 253-280 (349)
232 PF13689 DUF4154: Domain of un 26.9 1.3E+02 0.0027 24.3 4.6 60 75-139 2-61 (145)
233 TIGR00405 L26e_arch ribosomal 26.6 2.2E+02 0.0047 22.9 6.0 27 101-127 36-62 (145)
234 COG0225 MsrA Peptide methionin 26.2 1.7E+02 0.0037 24.8 5.2 77 63-142 59-139 (174)
235 cd04908 ACT_Bt0572_1 N-termina 26.1 2.1E+02 0.0046 19.2 8.3 49 74-127 14-63 (66)
236 cd04880 ACT_AAAH-PDT-like ACT 25.8 2.3E+02 0.005 19.6 5.9 51 74-125 12-66 (75)
237 PLN02805 D-lactate dehydrogena 25.8 1.6E+02 0.0034 29.7 5.9 51 73-124 278-332 (555)
238 PLN02968 Probable N-acetyl-gam 25.7 1E+02 0.0022 29.4 4.4 31 63-94 280-311 (381)
239 cd05992 PB1 The PB1 domain is 25.6 2.2E+02 0.0047 19.9 5.2 52 68-124 15-69 (81)
240 PF04127 DFP: DNA / pantothena 25.2 1.6E+02 0.0034 25.1 5.1 64 58-123 15-79 (185)
241 PF05036 SPOR: Sporulation rel 24.9 13 0.00027 25.9 -1.5 60 62-124 5-65 (76)
242 PF13721 SecD-TM1: SecD export 24.7 3.2E+02 0.0068 20.8 7.4 58 62-127 32-93 (101)
243 KOG0151 Predicted splicing reg 24.4 95 0.0021 32.1 4.0 12 106-117 695-706 (877)
244 COG4010 Uncharacterized protei 24.3 2E+02 0.0044 23.6 5.1 46 68-123 118-163 (170)
245 PRK00274 ksgA 16S ribosomal RN 22.9 90 0.002 28.1 3.3 22 63-84 107-128 (272)
246 TIGR01033 DNA-binding regulato 22.7 2.5E+02 0.0054 25.0 6.0 43 62-111 95-143 (238)
247 TIGR01873 cas_CT1978 CRISPR-as 22.6 57 0.0012 24.3 1.6 47 61-112 25-74 (87)
248 PF13291 ACT_4: ACT domain; PD 22.3 2.8E+02 0.0061 19.3 5.7 64 62-125 7-71 (80)
249 cd04904 ACT_AAAH ACT domain of 22.1 2.8E+02 0.0062 19.3 7.8 50 74-125 13-65 (74)
250 PF01071 GARS_A: Phosphoribosy 22.1 1.6E+02 0.0036 25.3 4.6 46 74-123 25-70 (194)
251 PF09869 DUF2096: Uncharacteri 22.1 2.6E+02 0.0056 23.5 5.5 50 63-123 114-163 (169)
252 TIGR00755 ksgA dimethyladenosi 22.1 98 0.0021 27.4 3.4 24 63-86 96-119 (253)
253 PTZ00338 dimethyladenosine tra 22.0 91 0.002 28.6 3.2 22 63-84 103-124 (294)
254 PRK02886 hypothetical protein; 21.8 2.1E+02 0.0045 21.4 4.4 39 81-128 20-58 (87)
255 KOG1999 RNA polymerase II tran 21.6 1.7E+02 0.0037 31.3 5.3 34 101-135 208-241 (1024)
256 cd06404 PB1_aPKC PB1 domain is 21.5 3.4E+02 0.0074 20.0 7.1 66 63-135 10-80 (83)
257 cd04882 ACT_Bt0572_2 C-termina 21.4 2.5E+02 0.0053 18.3 5.9 48 76-126 14-62 (65)
258 PRK04199 rpl10e 50S ribosomal 21.3 5.1E+02 0.011 21.9 7.2 26 104-130 129-158 (172)
259 KOG2854 Possible pfkB family c 21.2 1E+02 0.0022 28.9 3.2 62 61-122 160-231 (343)
260 PF05573 NosL: NosL; InterPro 21.1 40 0.00086 27.6 0.6 26 102-127 113-138 (149)
261 PF14111 DUF4283: Domain of un 21.0 85 0.0019 25.0 2.5 34 63-96 106-140 (153)
262 PF08442 ATP-grasp_2: ATP-gras 20.8 2.2E+02 0.0047 24.6 5.1 54 73-129 25-81 (202)
263 cd04883 ACT_AcuB C-terminal AC 20.6 2.8E+02 0.006 18.6 8.8 56 69-127 8-67 (72)
264 cd00127 DSPc Dual specificity 20.5 2.7E+02 0.0058 21.5 5.3 20 61-80 6-25 (139)
265 cd06396 PB1_NBR1 The PB1 domai 20.4 3.6E+02 0.0077 19.8 6.4 64 66-137 13-78 (81)
266 PRK11863 N-acetyl-gamma-glutam 20.4 2.6E+02 0.0056 26.0 5.8 33 62-94 210-245 (313)
267 KOG2548 SWAP mRNA splicing reg 20.2 52 0.0011 32.6 1.2 6 75-80 212-217 (653)
268 smart00650 rADc Ribosomal RNA 20.1 1.3E+02 0.0029 24.6 3.6 23 62-84 78-100 (169)
269 COG0079 HisC Histidinol-phosph 20.0 1.4E+02 0.003 28.2 4.1 50 60-120 145-198 (356)
No 1
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.90 E-value=4.2e-22 Score=167.38 Aligned_cols=89 Identities=40% Similarity=0.688 Sum_probs=83.7
Q ss_pred CCCCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEE
Q 043443 55 RRKEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREIS 134 (299)
Q Consensus 55 ~~~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~ 134 (299)
+++.+..++|.|-||.+.|+.++|..+|++||.|.+|.|++|+.|.+++|||||.|.+..||++||++|||.+|+|+.|.
T Consensus 7 PPdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 7 PPDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred CCCcccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 45667789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEcccCCC
Q 043443 135 VVLAAESRK 143 (299)
Q Consensus 135 V~~a~~~~~ 143 (299)
|++|+-...
T Consensus 87 Vq~arygr~ 95 (256)
T KOG4207|consen 87 VQMARYGRP 95 (256)
T ss_pred ehhhhcCCC
Confidence 999985443
No 2
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.88 E-value=1.4e-21 Score=160.41 Aligned_cols=80 Identities=30% Similarity=0.578 Sum_probs=74.3
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
+..++|||+||+..+++.||+.+|.+||.|..|||..++ .|||||||+++.||++|+..|||+.|+|..|.|+++
T Consensus 8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S 82 (195)
T KOG0107|consen 8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELS 82 (195)
T ss_pred CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCceEEEEee
Confidence 347899999999999999999999999999999998754 899999999999999999999999999999999999
Q ss_pred ccCCC
Q 043443 139 AESRK 143 (299)
Q Consensus 139 ~~~~~ 143 (299)
+....
T Consensus 83 ~G~~r 87 (195)
T KOG0107|consen 83 TGRPR 87 (195)
T ss_pred cCCcc
Confidence 86543
No 3
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.84 E-value=4.7e-20 Score=151.81 Aligned_cols=85 Identities=33% Similarity=0.466 Sum_probs=80.4
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
...++|||+|||++++|++|+++|.+||.|+.|.|+.+..+++++|||||+|.+.++|+.||+.||+++|+|+.|+|+++
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 45679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCC
Q 043443 139 AESRK 143 (299)
Q Consensus 139 ~~~~~ 143 (299)
..+..
T Consensus 112 ~~~~~ 116 (144)
T PLN03134 112 NDRPS 116 (144)
T ss_pred CcCCC
Confidence 86544
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=99.77 E-value=5.1e-18 Score=158.47 Aligned_cols=84 Identities=27% Similarity=0.451 Sum_probs=79.9
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
.....++|||+|||+++|+++|+++|.+||+|+.|.|+.+..+++++|||||+|.++++|+.||+.||+++|.+++|+|.
T Consensus 103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~ 182 (346)
T TIGR01659 103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS 182 (346)
T ss_pred CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence 44568899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred Eccc
Q 043443 137 LAAE 140 (299)
Q Consensus 137 ~a~~ 140 (299)
++++
T Consensus 183 ~a~p 186 (346)
T TIGR01659 183 YARP 186 (346)
T ss_pred cccc
Confidence 9875
No 5
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=99.76 E-value=6.1e-17 Score=143.09 Aligned_cols=88 Identities=24% Similarity=0.471 Sum_probs=82.1
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
.++-+||||+-|+++++|..|+..|.+||.|+.|.||.++.||+++|||||+|+++.+++.|.+..+|++|+|+.|.|.+
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 35678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCc
Q 043443 138 AAESRKRP 145 (299)
Q Consensus 138 a~~~~~~~ 145 (299)
-.......
T Consensus 178 ERgRTvkg 185 (335)
T KOG0113|consen 178 ERGRTVKG 185 (335)
T ss_pred cccccccc
Confidence 87654443
No 6
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.72 E-value=3.8e-17 Score=153.05 Aligned_cols=83 Identities=27% Similarity=0.380 Sum_probs=78.8
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
...+|||+|||+.+++++|.++|++||.|+.|.|+.+..++.++|||||+|.+.++|..||+.|||..|+|+.|.|.|+.
T Consensus 268 ~~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V~~~~ 347 (352)
T TIGR01661 268 AGYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQVSFKT 347 (352)
T ss_pred CCcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcc
Confidence 34579999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cCC
Q 043443 140 ESR 142 (299)
Q Consensus 140 ~~~ 142 (299)
.+.
T Consensus 348 ~~~ 350 (352)
T TIGR01661 348 NKA 350 (352)
T ss_pred CCC
Confidence 653
No 7
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.72 E-value=5.4e-17 Score=139.90 Aligned_cols=86 Identities=33% Similarity=0.525 Sum_probs=81.9
Q ss_pred CCCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 56 RKEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 56 ~~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
+...+.++|-|.||+.+++|++|+++|.+||.|..|.|..|+.||.++|||||.|.+.++|.+||..|||.-++.-.|.|
T Consensus 184 R~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrv 263 (270)
T KOG0122|consen 184 RERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRV 263 (270)
T ss_pred ccCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEE
Confidence 34457899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEcccC
Q 043443 136 VLAAES 141 (299)
Q Consensus 136 ~~a~~~ 141 (299)
+|+++.
T Consensus 264 EwskP~ 269 (270)
T KOG0122|consen 264 EWSKPS 269 (270)
T ss_pred EecCCC
Confidence 999874
No 8
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=99.71 E-value=6.4e-17 Score=115.64 Aligned_cols=70 Identities=37% Similarity=0.701 Sum_probs=66.7
Q ss_pred EEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEE
Q 043443 64 LLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREIS 134 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~ 134 (299)
|||+|||.++++++|+++|.+||.|..|.|..+ .++...+||||+|.+.++|+.||+.|||..|+|+.|+
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 799999999999999999999999999999887 6788899999999999999999999999999999885
No 9
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.71 E-value=5.6e-17 Score=151.93 Aligned_cols=83 Identities=31% Similarity=0.547 Sum_probs=78.8
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
..++|||+|||..+++++|+++|..||+|..|.|+.++.+++++|||||+|.+.++|+.||+.|||+.|.|+.|.|++++
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 36799999999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred cCC
Q 043443 140 ESR 142 (299)
Q Consensus 140 ~~~ 142 (299)
+..
T Consensus 82 ~~~ 84 (352)
T TIGR01661 82 PSS 84 (352)
T ss_pred ccc
Confidence 543
No 10
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.69 E-value=4.6e-17 Score=127.42 Aligned_cols=81 Identities=23% Similarity=0.441 Sum_probs=77.9
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
..+||||+||++.++|++|.++|.++|+|..|.|-.|+.+..+.|||||+|.+.++|+.||..|+|+.|+.++|.|.|..
T Consensus 35 ~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~ 114 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA 114 (153)
T ss_pred hcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccc
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999975
Q ss_pred c
Q 043443 140 E 140 (299)
Q Consensus 140 ~ 140 (299)
.
T Consensus 115 G 115 (153)
T KOG0121|consen 115 G 115 (153)
T ss_pred c
Confidence 3
No 11
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=99.69 E-value=2.4e-16 Score=147.27 Aligned_cols=84 Identities=33% Similarity=0.498 Sum_probs=77.6
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCC--eeEEEEE
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAG--REISVVL 137 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~G--r~i~V~~ 137 (299)
..++|||+|||..+||++|+++|.+||+|+.|.|+.++.++++++||||+|++.++|++||+.||+++|.+ +.|+|.+
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 35789999999999999999999999999999999999999999999999999999999999999999876 6899999
Q ss_pred cccCCC
Q 043443 138 AAESRK 143 (299)
Q Consensus 138 a~~~~~ 143 (299)
++....
T Consensus 272 a~~~~~ 277 (346)
T TIGR01659 272 AEEHGK 277 (346)
T ss_pred CCcccc
Confidence 886443
No 12
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=99.66 E-value=2.5e-16 Score=124.43 Aligned_cols=88 Identities=23% Similarity=0.404 Sum_probs=82.7
Q ss_pred CCCCCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeE
Q 043443 54 GRRKEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREI 133 (299)
Q Consensus 54 ~~~~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i 133 (299)
+++...+...|||.++...+||++|.+.|..||+|++|+|..|..||..+|||+|+|++.++|++||..|||..|.|+.|
T Consensus 65 gPqrSVEGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v 144 (170)
T KOG0130|consen 65 GPQRSVEGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNV 144 (170)
T ss_pred CCccceeeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCce
Confidence 44556678899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEcccC
Q 043443 134 SVVLAAES 141 (299)
Q Consensus 134 ~V~~a~~~ 141 (299)
.|.|+.-+
T Consensus 145 ~VDw~Fv~ 152 (170)
T KOG0130|consen 145 SVDWCFVK 152 (170)
T ss_pred eEEEEEec
Confidence 99999753
No 13
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.64 E-value=7.7e-16 Score=127.76 Aligned_cols=80 Identities=31% Similarity=0.540 Sum_probs=73.0
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
..++|||+|||.+|.+.||+++|-+||.|.+|+|...+ ...+||||+|++..||+.||..-||..++|..|.|+|+.
T Consensus 5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~---g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfpr 81 (241)
T KOG0105|consen 5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP---GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPR 81 (241)
T ss_pred ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC---CCCCeeEEEecCccchhhhhhcccccccCcceEEEEecc
Confidence 46799999999999999999999999999999997543 457899999999999999999999999999999999997
Q ss_pred cCC
Q 043443 140 ESR 142 (299)
Q Consensus 140 ~~~ 142 (299)
...
T Consensus 82 ggr 84 (241)
T KOG0105|consen 82 GGR 84 (241)
T ss_pred CCC
Confidence 543
No 14
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.63 E-value=5.1e-16 Score=133.41 Aligned_cols=82 Identities=27% Similarity=0.445 Sum_probs=75.9
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
+..-++|||++|+|.+..++|.++|++||+|+++.|+.|+.+++++||+||+|.+.+.|+.||+. -+-+|+|++..|++
T Consensus 9 DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~d-p~piIdGR~aNcnl 87 (247)
T KOG0149|consen 9 DTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKD-PNPIIDGRKANCNL 87 (247)
T ss_pred CceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcC-CCCcccccccccch
Confidence 44568999999999999999999999999999999999999999999999999999999999984 55689999999999
Q ss_pred ccc
Q 043443 138 AAE 140 (299)
Q Consensus 138 a~~ 140 (299)
|--
T Consensus 88 A~l 90 (247)
T KOG0149|consen 88 ASL 90 (247)
T ss_pred hhh
Confidence 864
No 15
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.63 E-value=2.2e-15 Score=108.29 Aligned_cols=70 Identities=40% Similarity=0.667 Sum_probs=64.7
Q ss_pred EEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEE
Q 043443 64 LLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREIS 134 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~ 134 (299)
|||+|||+.+++++|.++|..||.|..|.+..++. +..+++|||+|.+.++|+.||+.+++..|+|+.|.
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 79999999999999999999999999999999876 88899999999999999999999999999999874
No 16
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.61 E-value=3.2e-15 Score=132.23 Aligned_cols=76 Identities=21% Similarity=0.356 Sum_probs=70.6
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
..+|||+||++.+++++|++||+.||+|+.|.|+.+. ...|||||+|.+.++|+.||. |||..|.|+.|.|.++..
T Consensus 4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~---~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~ 79 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSEN---ERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAED 79 (260)
T ss_pred CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecC---CCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccC
Confidence 4699999999999999999999999999999998875 357899999999999999996 999999999999999864
No 17
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.60 E-value=4.2e-15 Score=137.64 Aligned_cols=85 Identities=29% Similarity=0.491 Sum_probs=78.5
Q ss_pred CCCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCcee-CCeeEE
Q 043443 56 RKEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRF-AGREIS 134 (299)
Q Consensus 56 ~~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l-~Gr~i~ 134 (299)
....-.+.|||+.||.++.|++|..||++.|+|-++.|++|+.+|.++|||||+|.+.++|+.||+.||+++| .|+.|.
T Consensus 78 ~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~ig 157 (506)
T KOG0117|consen 78 PPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLG 157 (506)
T ss_pred CCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeE
Confidence 3335568999999999999999999999999999999999999999999999999999999999999999998 589998
Q ss_pred EEEccc
Q 043443 135 VVLAAE 140 (299)
Q Consensus 135 V~~a~~ 140 (299)
|+++..
T Consensus 158 vc~Sva 163 (506)
T KOG0117|consen 158 VCVSVA 163 (506)
T ss_pred EEEeee
Confidence 888764
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=6.7e-15 Score=144.54 Aligned_cols=83 Identities=27% Similarity=0.458 Sum_probs=78.6
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
....+|||+|||+.+++++|+++|+.||.|..|.|+.+..++.++|||||+|.+.++|+.||+.|||+.|+|+.|.|.++
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a 372 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA 372 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence 34679999999999999999999999999999999999889999999999999999999999999999999999999998
Q ss_pred ccC
Q 043443 139 AES 141 (299)
Q Consensus 139 ~~~ 141 (299)
...
T Consensus 373 ~~~ 375 (509)
T TIGR01642 373 CVG 375 (509)
T ss_pred ccC
Confidence 753
No 19
>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=99.58 E-value=5.3e-15 Score=145.85 Aligned_cols=80 Identities=31% Similarity=0.533 Sum_probs=76.5
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
..++|||+||++.+++++|+++|.+||.|..|.|+.|+.+++++|||||+|.+.++|+.||+.|||..|+|+.|.|.+..
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 20
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.58 E-value=4e-15 Score=133.12 Aligned_cols=81 Identities=36% Similarity=0.555 Sum_probs=75.3
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
....+|+|.|||+...+.||..+|++||.|.+|.|+.+ ...+|||+||+|++.+||++|-++|||.+|.|++|.|..+
T Consensus 94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfN--ERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~A 171 (376)
T KOG0125|consen 94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFN--ERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNA 171 (376)
T ss_pred CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEec--cCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEecc
Confidence 35689999999999999999999999999999999876 4578999999999999999999999999999999999999
Q ss_pred ccC
Q 043443 139 AES 141 (299)
Q Consensus 139 ~~~ 141 (299)
+..
T Consensus 172 Tar 174 (376)
T KOG0125|consen 172 TAR 174 (376)
T ss_pred chh
Confidence 853
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=7.9e-15 Score=142.24 Aligned_cols=80 Identities=44% Similarity=0.614 Sum_probs=77.2
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
..+|||+|||..+++++|+++|.+||.|..|.|+.+..++.++|||||+|.+.++|+.||+.|||.+|.|+.|.|.|+..
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 68999999999999999999999999999999999988899999999999999999999999999999999999999874
No 22
>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=99.58 E-value=9.1e-15 Score=144.20 Aligned_cols=82 Identities=18% Similarity=0.318 Sum_probs=78.2
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
..++|||+||+.++++++|+++|+.||.|+.|.|+.++.++..+|||||+|.+.++|..||+.||+.+|+|+.|.|.++.
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 45799999999999999999999999999999999999899999999999999999999999999999999999999988
Q ss_pred cC
Q 043443 140 ES 141 (299)
Q Consensus 140 ~~ 141 (299)
..
T Consensus 283 ~p 284 (612)
T TIGR01645 283 TP 284 (612)
T ss_pred CC
Confidence 53
No 23
>smart00362 RRM_2 RNA recognition motif.
Probab=99.58 E-value=1.6e-14 Score=102.32 Aligned_cols=72 Identities=39% Similarity=0.746 Sum_probs=67.1
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
+|||.|||..+++++|+++|.+||.|..|.+..+. +.+.++|||+|.+.++|+.|++.|++..|.|+.|.|.
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 58999999999999999999999999999988765 6778999999999999999999999999999998873
No 24
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.57 E-value=2.8e-16 Score=129.98 Aligned_cols=81 Identities=25% Similarity=0.492 Sum_probs=77.4
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
+..-|||+|||+.+||.||..+|++||+|++|.|+.|+.||+++||||+.|++......||..|||..|.|+.|.|.+..
T Consensus 34 dsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~ 113 (219)
T KOG0126|consen 34 DSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVS 113 (219)
T ss_pred cceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeecc
Confidence 46789999999999999999999999999999999999999999999999999999999999999999999999998865
Q ss_pred c
Q 043443 140 E 140 (299)
Q Consensus 140 ~ 140 (299)
.
T Consensus 114 ~ 114 (219)
T KOG0126|consen 114 N 114 (219)
T ss_pred c
Confidence 3
No 25
>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=99.57 E-value=1e-14 Score=143.46 Aligned_cols=79 Identities=33% Similarity=0.528 Sum_probs=72.2
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC-CeeEEEEE
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA-GREISVVL 137 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~-Gr~i~V~~ 137 (299)
...++|||+|||.+++|++|.++|++||.|.+|.|++| .++.++|||||+|.+.++|++||+.||+.+|. |+.|.|.+
T Consensus 56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~ 134 (578)
T TIGR01648 56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCI 134 (578)
T ss_pred CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccc
Confidence 34689999999999999999999999999999999999 78999999999999999999999999999885 77766654
Q ss_pred c
Q 043443 138 A 138 (299)
Q Consensus 138 a 138 (299)
+
T Consensus 135 S 135 (578)
T TIGR01648 135 S 135 (578)
T ss_pred c
Confidence 4
No 26
>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=99.56 E-value=1.9e-14 Score=139.53 Aligned_cols=82 Identities=29% Similarity=0.456 Sum_probs=76.9
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
+....+|||+|||..+++++|+++|.+||.|..|.|+.++.++.++|||||+|.+.++|++||. |+|+.|.|..|.|.+
T Consensus 86 ~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~ 164 (457)
T TIGR01622 86 ERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQS 164 (457)
T ss_pred ccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEee
Confidence 3457799999999999999999999999999999999999999999999999999999999997 899999999999998
Q ss_pred ccc
Q 043443 138 AAE 140 (299)
Q Consensus 138 a~~ 140 (299)
+..
T Consensus 165 ~~~ 167 (457)
T TIGR01622 165 SQA 167 (457)
T ss_pred cch
Confidence 754
No 27
>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=1.8e-14 Score=143.41 Aligned_cols=78 Identities=31% Similarity=0.484 Sum_probs=75.3
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
+|||+|||.++||++|.++|.+||.|..|.|+.|..|++++|||||+|.+.++|++||+.||+..|.|+.|.|.|+..
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 799999999999999999999999999999999999999999999999999999999999999999999999999753
No 28
>PLN03213 repressor of silencing 3; Provisional
Probab=99.55 E-value=1.9e-14 Score=134.81 Aligned_cols=77 Identities=22% Similarity=0.315 Sum_probs=71.2
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCH--HHHHHHHHhhCCceeCCeeEEEEE
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDP--YEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~--~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
...+||||||++.|+++||..+|..||.|..|.|+. .+| +|||||+|.+. .++.+||..|||.+|.|+.|+|+.
T Consensus 9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR--ETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNK 84 (759)
T PLN03213 9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR--TKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEK 84 (759)
T ss_pred cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec--ccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEee
Confidence 357999999999999999999999999999999994 456 89999999987 789999999999999999999999
Q ss_pred ccc
Q 043443 138 AAE 140 (299)
Q Consensus 138 a~~ 140 (299)
|++
T Consensus 85 AKP 87 (759)
T PLN03213 85 AKE 87 (759)
T ss_pred ccH
Confidence 975
No 29
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.54 E-value=3.6e-14 Score=123.83 Aligned_cols=77 Identities=17% Similarity=0.245 Sum_probs=70.2
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
...+|||+||++.+|+++|++||+.||+|.+|.|+.+. ...+||||+|.++++|+.||. |||..|.++.|.|..+.
T Consensus 4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~---et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~~ 79 (243)
T PLN03121 4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSG---EYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRWG 79 (243)
T ss_pred CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCC---CcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeCc
Confidence 34799999999999999999999999999999999874 445899999999999999995 99999999999998876
Q ss_pred c
Q 043443 140 E 140 (299)
Q Consensus 140 ~ 140 (299)
.
T Consensus 80 ~ 80 (243)
T PLN03121 80 Q 80 (243)
T ss_pred c
Confidence 4
No 30
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.53 E-value=1.6e-14 Score=119.65 Aligned_cols=81 Identities=28% Similarity=0.366 Sum_probs=77.8
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
+...||||+||+..++++.|.++|-+.|.|..|.|+.|+.+...+|||||||.++++|+-||+.||...|.|++|+|..+
T Consensus 7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka 86 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA 86 (203)
T ss_pred CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence 45689999999999999999999999999999999999999999999999999999999999999999999999999988
Q ss_pred c
Q 043443 139 A 139 (299)
Q Consensus 139 ~ 139 (299)
.
T Consensus 87 s 87 (203)
T KOG0131|consen 87 S 87 (203)
T ss_pred c
Confidence 7
No 31
>smart00360 RRM RNA recognition motif.
Probab=99.53 E-value=4.8e-14 Score=99.40 Aligned_cols=71 Identities=42% Similarity=0.697 Sum_probs=66.8
Q ss_pred EeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 66 VRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 66 V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
|+|||..+++++|+++|.+||.|..|.+..++.++.++++|||+|.+.++|+.|++.|++..|.|+.|.|.
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 67999999999999999999999999999887778899999999999999999999999999999998873
No 32
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.52 E-value=8.1e-15 Score=124.71 Aligned_cols=86 Identities=33% Similarity=0.544 Sum_probs=81.4
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
....+|||++|..+++|.-|...|-.||.|+.|.|+.|..+++.+|||||+|+..+||.+||..||+.+|.|+.|.|.+|
T Consensus 8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A 87 (298)
T KOG0111|consen 8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA 87 (298)
T ss_pred ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence 45679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCC
Q 043443 139 AESRKR 144 (299)
Q Consensus 139 ~~~~~~ 144 (299)
++.+..
T Consensus 88 kP~kik 93 (298)
T KOG0111|consen 88 KPEKIK 93 (298)
T ss_pred CCcccc
Confidence 976543
No 33
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.52 E-value=5.6e-14 Score=139.86 Aligned_cols=83 Identities=31% Similarity=0.487 Sum_probs=77.8
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
..++|||+||+..+++++|+++|++||.|+.|.|+.+ .++.++|||||+|.+.++|++||..|||..|+|+.|.|.++.
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~ 362 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQ 362 (562)
T ss_pred CCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEecc
Confidence 4678999999999999999999999999999999988 688999999999999999999999999999999999999998
Q ss_pred cCCC
Q 043443 140 ESRK 143 (299)
Q Consensus 140 ~~~~ 143 (299)
.+..
T Consensus 363 ~k~~ 366 (562)
T TIGR01628 363 RKEQ 366 (562)
T ss_pred CcHH
Confidence 6543
No 34
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.52 E-value=6.6e-14 Score=123.93 Aligned_cols=80 Identities=41% Similarity=0.676 Sum_probs=77.1
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
.++|||+|||+.+++++|.++|.+||.|..|.|+.++.++..+|||||+|.+.++|+.||..|++..|.|+.|.|.++..
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 59999999999999999999999999999999999988999999999999999999999999999999999999999753
No 35
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.51 E-value=8.3e-14 Score=105.37 Aligned_cols=81 Identities=27% Similarity=0.507 Sum_probs=73.7
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
.+.+..|||.|||+.+|.+++.++|.+||.|..|.|-..+ ..+|.|||.|++..+|++|+.+|+|..+++..|.|-+
T Consensus 15 pevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k---~TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vly 91 (124)
T KOG0114|consen 15 PEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTK---ETRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLY 91 (124)
T ss_pred hhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCcc---CcCceEEEEehHhhhHHHHHHHhcccccCCceEEEEe
Confidence 3456789999999999999999999999999999998765 4589999999999999999999999999999999988
Q ss_pred cccC
Q 043443 138 AAES 141 (299)
Q Consensus 138 a~~~ 141 (299)
.++.
T Consensus 92 yq~~ 95 (124)
T KOG0114|consen 92 YQPE 95 (124)
T ss_pred cCHH
Confidence 7753
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=1.6e-13 Score=97.62 Aligned_cols=74 Identities=41% Similarity=0.694 Sum_probs=68.4
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
+|+|.|||..+++++|+++|..||.|..+.+..+..+ ...++|||+|.+.++|..|++.|++..|+|..|.|.+
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 4899999999999999999999999999999877544 6689999999999999999999999999999999864
No 37
>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=9.8e-14 Score=121.45 Aligned_cols=79 Identities=29% Similarity=0.458 Sum_probs=74.3
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
...++|+|||+||+..++|++|++.|..||.|.+|.|.++ +||+||.|++.|.|..||..||+++|.|..|++.
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 3457899999999999999999999999999999999988 6999999999999999999999999999999999
Q ss_pred EcccC
Q 043443 137 LAAES 141 (299)
Q Consensus 137 ~a~~~ 141 (299)
|-+..
T Consensus 234 WGKe~ 238 (321)
T KOG0148|consen 234 WGKEG 238 (321)
T ss_pred ccccC
Confidence 98753
No 38
>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=4.1e-14 Score=123.78 Aligned_cols=82 Identities=30% Similarity=0.514 Sum_probs=78.7
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
...|||+-|...|+-++|++.|.+||+|.++.|++|..|++++||+||.|.+.++|+.||..|||+.|+++.|...||+-
T Consensus 62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATR 141 (321)
T KOG0148|consen 62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATR 141 (321)
T ss_pred ceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeecccccc
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999986
Q ss_pred CC
Q 043443 141 SR 142 (299)
Q Consensus 141 ~~ 142 (299)
+.
T Consensus 142 Kp 143 (321)
T KOG0148|consen 142 KP 143 (321)
T ss_pred Cc
Confidence 54
No 39
>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=99.48 E-value=1.6e-13 Score=135.21 Aligned_cols=74 Identities=35% Similarity=0.496 Sum_probs=69.2
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcC--CCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERF--GVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~--G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
..+|||+||++.+++++|+++|++| |+|+.|.+++ +||||+|++.++|++||+.||+.+|+|+.|+|.|+
T Consensus 233 ~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r--------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~A 304 (578)
T TIGR01648 233 VKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR--------DYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLA 304 (578)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec--------CeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence 4689999999999999999999999 9999998763 59999999999999999999999999999999999
Q ss_pred ccCC
Q 043443 139 AESR 142 (299)
Q Consensus 139 ~~~~ 142 (299)
++..
T Consensus 305 kp~~ 308 (578)
T TIGR01648 305 KPVD 308 (578)
T ss_pred cCCC
Confidence 8753
No 40
>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=99.48 E-value=2.4e-13 Score=132.88 Aligned_cols=79 Identities=24% Similarity=0.386 Sum_probs=72.6
Q ss_pred CCCCCEEEEeCCCC-CCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 58 EQNHGSLLVRNIPL-DCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 58 ~~~~~~l~V~nLp~-~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
....++|||+||++ .+|+++|.++|++||.|..|.|+.++ +|||||+|.+.++|+.||..|||..|.|+.|.|.
T Consensus 272 ~~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~ 346 (481)
T TIGR01649 272 GGPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFGKPLRVC 346 (481)
T ss_pred CCCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEE
Confidence 34678999999997 69999999999999999999998763 6999999999999999999999999999999999
Q ss_pred EcccC
Q 043443 137 LAAES 141 (299)
Q Consensus 137 ~a~~~ 141 (299)
+++..
T Consensus 347 ~s~~~ 351 (481)
T TIGR01649 347 PSKQQ 351 (481)
T ss_pred Ecccc
Confidence 98754
No 41
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.46 E-value=2.7e-13 Score=118.07 Aligned_cols=85 Identities=31% Similarity=0.562 Sum_probs=80.7
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
.++..+.|.|.-||.++|++||+.+|...|+|+.|+++.|+.+|++.||+||.|.+++||++||..|||..|..+.|+|.
T Consensus 37 t~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVS 116 (360)
T KOG0145|consen 37 TDESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVS 116 (360)
T ss_pred cCcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEE
Confidence 34566789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EcccC
Q 043443 137 LAAES 141 (299)
Q Consensus 137 ~a~~~ 141 (299)
||.+.
T Consensus 117 yARPS 121 (360)
T KOG0145|consen 117 YARPS 121 (360)
T ss_pred eccCC
Confidence 99864
No 42
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=99.46 E-value=1.4e-13 Score=130.83 Aligned_cols=83 Identities=35% Similarity=0.568 Sum_probs=79.6
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcccC
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAES 141 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~~ 141 (299)
+.|||+|||+++++++|.++|...|.|..+.++.|+.||+++|||||+|.+.++|+.||..|||.+|.|++|+|.|+...
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 79999999999999999999999999999999999999999999999999999999999999999999999999999865
Q ss_pred CCC
Q 043443 142 RKR 144 (299)
Q Consensus 142 ~~~ 144 (299)
...
T Consensus 99 ~~~ 101 (435)
T KOG0108|consen 99 KNA 101 (435)
T ss_pred chh
Confidence 443
No 43
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.45 E-value=9.9e-14 Score=122.51 Aligned_cols=72 Identities=28% Similarity=0.497 Sum_probs=68.9
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcccC
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAES 141 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~~ 141 (299)
.+|||+|||..+++++|+.+|++||+|.+|+|++ .||||..++...|+.||..||+..|+|..|+|+-++.+
T Consensus 3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvK--------NYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK 74 (346)
T KOG0109|consen 3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVK--------NYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK 74 (346)
T ss_pred cchhccCCCcccchHHHHHHHHhhCceEeeeeec--------ccceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence 5799999999999999999999999999999996 49999999999999999999999999999999999876
No 44
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.45 E-value=4.7e-13 Score=116.59 Aligned_cols=81 Identities=30% Similarity=0.433 Sum_probs=77.7
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
..+|||-||..+++|..|+++|..||.|..|+|++|..|.+.+||+||.+.+.++|..||..|||..|.++.|.|.|...
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 47999999999999999999999999999999999999999999999999999999999999999999999999999765
Q ss_pred C
Q 043443 141 S 141 (299)
Q Consensus 141 ~ 141 (299)
+
T Consensus 358 k 358 (360)
T KOG0145|consen 358 K 358 (360)
T ss_pred C
Confidence 3
No 45
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.44 E-value=1.6e-13 Score=124.01 Aligned_cols=84 Identities=23% Similarity=0.347 Sum_probs=80.0
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
..+.+.|||..|.+.++.+||+-+|+.||.|..|.|+.|..||.+..||||||++.++|++|+-+|++..|+.+.|+|.|
T Consensus 236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDF 315 (479)
T KOG0415|consen 236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDF 315 (479)
T ss_pred CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeeh
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccC
Q 043443 138 AAES 141 (299)
Q Consensus 138 a~~~ 141 (299)
++..
T Consensus 316 SQSV 319 (479)
T KOG0415|consen 316 SQSV 319 (479)
T ss_pred hhhh
Confidence 8753
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=99.43 E-value=5.3e-13 Score=130.53 Aligned_cols=74 Identities=22% Similarity=0.236 Sum_probs=68.4
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh--CCceeCCeeEEEEEc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM--NGKRFAGREISVVLA 138 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l--ng~~l~Gr~i~V~~a 138 (299)
..+|||+|||+.+++++|.++|++||.|..|.|+.+ ++||||+|++.++|+.||+.| ++..|.|+.|.|+|+
T Consensus 2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s 75 (481)
T TIGR01649 2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYS 75 (481)
T ss_pred ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEec
Confidence 468999999999999999999999999999999865 589999999999999999864 788999999999998
Q ss_pred cc
Q 043443 139 AE 140 (299)
Q Consensus 139 ~~ 140 (299)
..
T Consensus 76 ~~ 77 (481)
T TIGR01649 76 TS 77 (481)
T ss_pred CC
Confidence 64
No 47
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.41 E-value=1e-12 Score=121.66 Aligned_cols=79 Identities=33% Similarity=0.479 Sum_probs=73.4
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHh-cCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFE-RFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~-~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
...|||+|||+++.|++|+++|. +.|+|++|.|..| ..++.+|||+|||+++|.+++|++.||.++|.|+.|.|....
T Consensus 44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D-~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~ 122 (608)
T KOG4212|consen 44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFD-ESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH 122 (608)
T ss_pred cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecc-cCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence 34599999999999999999995 7899999999988 489999999999999999999999999999999999998876
Q ss_pred c
Q 043443 140 E 140 (299)
Q Consensus 140 ~ 140 (299)
.
T Consensus 123 d 123 (608)
T KOG4212|consen 123 D 123 (608)
T ss_pred c
Confidence 5
No 48
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.41 E-value=4.5e-13 Score=124.32 Aligned_cols=75 Identities=37% Similarity=0.553 Sum_probs=70.1
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
-..|||.||+.+|||+.|+++|++||.|+.|..++| ||||.|.+.++|.+|++.|||++|+|..|.|.+|++
T Consensus 259 VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP 330 (506)
T KOG0117|consen 259 VKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKP 330 (506)
T ss_pred eeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcCceecCceEEEEecCC
Confidence 358999999999999999999999999999988865 999999999999999999999999999999999997
Q ss_pred CCC
Q 043443 141 SRK 143 (299)
Q Consensus 141 ~~~ 143 (299)
..+
T Consensus 331 ~~k 333 (506)
T KOG0117|consen 331 VDK 333 (506)
T ss_pred hhh
Confidence 543
No 49
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=99.40 E-value=2.7e-13 Score=118.56 Aligned_cols=86 Identities=24% Similarity=0.351 Sum_probs=81.5
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
...+.|.|||..||.+..+.||..+|-.||.|+..+|..|+.|+.+++|+||.|+++..|+.||..|||+.|+-+.|+|+
T Consensus 281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQ 360 (371)
T KOG0146|consen 281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQ 360 (371)
T ss_pred cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhhh
Confidence 34578999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EcccCC
Q 043443 137 LAAESR 142 (299)
Q Consensus 137 ~a~~~~ 142 (299)
+..++.
T Consensus 361 LKRPkd 366 (371)
T KOG0146|consen 361 LKRPKD 366 (371)
T ss_pred hcCccc
Confidence 987654
No 50
>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=99.40 E-value=1.9e-12 Score=89.03 Aligned_cols=56 Identities=39% Similarity=0.691 Sum_probs=51.0
Q ss_pred HHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 78 LRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 78 L~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
|.++|++||+|..|.+..+. .++|||+|.+.++|+.|++.|||..|+|++|+|+|+
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 68999999999999997652 589999999999999999999999999999999986
No 51
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.39 E-value=9.9e-13 Score=124.66 Aligned_cols=82 Identities=33% Similarity=0.676 Sum_probs=75.5
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
...|+|.|||+.|...+|+.+|+.||.|.+|.|+... .++.+|||||+|.+..+|..||+.||+.+|+|++|.|.||-+
T Consensus 117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~-dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~ 195 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKK-DGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVD 195 (678)
T ss_pred cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCC-CCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecc
Confidence 6789999999999999999999999999999999765 555669999999999999999999999999999999999986
Q ss_pred CCC
Q 043443 141 SRK 143 (299)
Q Consensus 141 ~~~ 143 (299)
+..
T Consensus 196 Kd~ 198 (678)
T KOG0127|consen 196 KDT 198 (678)
T ss_pred ccc
Confidence 543
No 52
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=99.39 E-value=1.2e-12 Score=124.21 Aligned_cols=84 Identities=33% Similarity=0.532 Sum_probs=76.7
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh-----CC-ceeCCe
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM-----NG-KRFAGR 131 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l-----ng-~~l~Gr 131 (299)
.....+|||.|||+++|+++|.++|.+||+|.++.|+.++.|+.++|.|||.|.+..+|+.||... .| ..|+|+
T Consensus 289 ~~~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR 368 (678)
T KOG0127|consen 289 ITEGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGR 368 (678)
T ss_pred ccccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEecc
Confidence 344689999999999999999999999999999999999999999999999999999999999865 34 678999
Q ss_pred eEEEEEcccC
Q 043443 132 EISVVLAAES 141 (299)
Q Consensus 132 ~i~V~~a~~~ 141 (299)
.|.|.+|...
T Consensus 369 ~Lkv~~Av~R 378 (678)
T KOG0127|consen 369 LLKVTLAVTR 378 (678)
T ss_pred EEeeeeccch
Confidence 9999998754
No 53
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.39 E-value=8.1e-13 Score=122.18 Aligned_cols=88 Identities=31% Similarity=0.526 Sum_probs=78.5
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce-eCC--eeE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR-FAG--REI 133 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~-l~G--r~i 133 (299)
.+.+.-+|||+-||..++|.||+++|++||.|.+|.|++|+.|+..+|||||.|.+.++|.+||.+|+++. |-| ..|
T Consensus 30 ~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pv 109 (510)
T KOG0144|consen 30 PDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPV 109 (510)
T ss_pred CCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcce
Confidence 44567799999999999999999999999999999999999999999999999999999999999998764 544 688
Q ss_pred EEEEcccCCCC
Q 043443 134 SVVLAAESRKR 144 (299)
Q Consensus 134 ~V~~a~~~~~~ 144 (299)
.|.+|..+.++
T Consensus 110 qvk~Ad~E~er 120 (510)
T KOG0144|consen 110 QVKYADGERER 120 (510)
T ss_pred eecccchhhhc
Confidence 88888766554
No 54
>smart00361 RRM_1 RNA recognition motif.
Probab=99.38 E-value=1.8e-12 Score=93.46 Aligned_cols=61 Identities=28% Similarity=0.485 Sum_probs=55.3
Q ss_pred HHHHHHHHh----cCCCEeEEE-eccCCCC--CCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 75 PEELRAPFE----RFGVVRDVY-LPKDYYT--GEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 75 e~dL~~~F~----~~G~I~~v~-i~~d~~~--g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
+++|+++|. +||.|..|. |+.++.+ +.++|||||+|.+.++|++||+.|||..|.|+.|.+
T Consensus 2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~ 69 (70)
T smart00361 2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA 69 (70)
T ss_pred chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence 578899998 999999995 6666656 889999999999999999999999999999999986
No 55
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=99.38 E-value=4.9e-13 Score=123.62 Aligned_cols=86 Identities=30% Similarity=0.546 Sum_probs=77.4
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce-eCC--eeEEEE
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR-FAG--REISVV 136 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~-l~G--r~i~V~ 136 (299)
+..+|||+-|+..+||+||.++|.+||.|++|.|+++. .+.++|||||+|.+.+.|..||+.|||.. |.| .+|.|.
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 47899999999999999999999999999999999985 78999999999999999999999999975 555 589999
Q ss_pred EcccCCCCch
Q 043443 137 LAAESRKRPE 146 (299)
Q Consensus 137 ~a~~~~~~~~ 146 (299)
||..++.+..
T Consensus 202 FADtqkdk~~ 211 (510)
T KOG0144|consen 202 FADTQKDKDG 211 (510)
T ss_pred ecccCCCchH
Confidence 9988766543
No 56
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=99.37 E-value=8e-13 Score=125.57 Aligned_cols=79 Identities=38% Similarity=0.616 Sum_probs=75.6
Q ss_pred EEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcccCC
Q 043443 64 LLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAESR 142 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~~~ 142 (299)
|||+||+.++++++|..+|+.||.|..|++++|..||.++||+||+|.+.++|.+|++.|||.+|.|+.|+|.+.+...
T Consensus 281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~ 359 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERV 359 (549)
T ss_pred hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeec
Confidence 9999999999999999999999999999999998899999999999999999999999999999999999998877543
No 57
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.34 E-value=7.2e-13 Score=120.22 Aligned_cols=80 Identities=31% Similarity=0.533 Sum_probs=76.4
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
..|+|||+.|.+.+.|+.|...|..||.|+.|+|.||+.|++.+|||||||+-++.|+.|++.|||.+|+|+.|+|..-.
T Consensus 112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPs 191 (544)
T KOG0124|consen 112 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS 191 (544)
T ss_pred HhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCC
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999997543
No 58
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=99.34 E-value=9.4e-13 Score=116.37 Aligned_cols=83 Identities=31% Similarity=0.523 Sum_probs=74.9
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
....++|+|+||.+.++.+||.+.|++||.|.+|+|++ +|+||.|+-.++|..||..||+.+|.|+.|+|++
T Consensus 75 sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivk--------dy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~ 146 (346)
T KOG0109|consen 75 SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVK--------DYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQL 146 (346)
T ss_pred CCCccccccCCCCccccCHHHhhhhcccCCceeeeeec--------ceeEEEEeeccchHHHHhcccccccccceeeeee
Confidence 44678999999999999999999999999999999996 4999999999999999999999999999999999
Q ss_pred cccCCCCchhh
Q 043443 138 AAESRKRPEEM 148 (299)
Q Consensus 138 a~~~~~~~~~~ 148 (299)
++..-.....|
T Consensus 147 stsrlrtapgm 157 (346)
T KOG0109|consen 147 STSRLRTAPGM 157 (346)
T ss_pred eccccccCCCC
Confidence 98655444433
No 59
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.26 E-value=1.6e-11 Score=120.71 Aligned_cols=76 Identities=21% Similarity=0.269 Sum_probs=63.0
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcC------------CCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERF------------GVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~------------G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln 124 (299)
......+|||+|||+.+|+++|++||.+| +.|..|.+.. .++||||+|.+.++|+.||. ||
T Consensus 171 ~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~------~kg~afVeF~~~e~A~~Al~-l~ 243 (509)
T TIGR01642 171 ATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINK------EKNFAFLEFRTVEEATFAMA-LD 243 (509)
T ss_pred CCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECC------CCCEEEEEeCCHHHHhhhhc-CC
Confidence 34456799999999999999999999974 3444555543 37999999999999999995 99
Q ss_pred CceeCCeeEEEEEcc
Q 043443 125 GKRFAGREISVVLAA 139 (299)
Q Consensus 125 g~~l~Gr~i~V~~a~ 139 (299)
|+.|.|..|.|....
T Consensus 244 g~~~~g~~l~v~r~~ 258 (509)
T TIGR01642 244 SIIYSNVFLKIRRPH 258 (509)
T ss_pred CeEeeCceeEecCcc
Confidence 999999999987543
No 60
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=99.22 E-value=2.7e-10 Score=94.93 Aligned_cols=84 Identities=19% Similarity=0.364 Sum_probs=70.3
Q ss_pred CCCCCCCCCCCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 48 GGGGGYGRRKEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 48 gg~g~~~~~~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
++++..+++.......|.|.+||...+|+||++++.+.|.|+..++.+| ++++|+|...+|++-||.+|+.+.
T Consensus 102 g~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rD-------g~GvV~~~r~eDMkYAvr~ld~~~ 174 (241)
T KOG0105|consen 102 GGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRD-------GVGVVEYLRKEDMKYAVRKLDDQK 174 (241)
T ss_pred CCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeecc-------cceeeeeeehhhHHHHHHhhcccc
Confidence 3344455666677889999999999999999999999999999999887 799999999999999999999887
Q ss_pred eC--CeeEEEEEc
Q 043443 128 FA--GREISVVLA 138 (299)
Q Consensus 128 l~--Gr~i~V~~a 138 (299)
+. |....|.+-
T Consensus 175 ~~seGe~~yirv~ 187 (241)
T KOG0105|consen 175 FRSEGETAYIRVR 187 (241)
T ss_pred ccCcCcEeeEEec
Confidence 64 555444443
No 61
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=99.21 E-value=2.2e-11 Score=101.18 Aligned_cols=84 Identities=27% Similarity=0.431 Sum_probs=77.0
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEE-EeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDV-YLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v-~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
....|||+||.+.++|..|.++|+.||.|... .++.+..|+.+++||||.|.+.+.+.+||..|||+.++.++|+|.++
T Consensus 95 vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya 174 (203)
T KOG0131|consen 95 VGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYA 174 (203)
T ss_pred ccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEE
Confidence 45789999999999999999999999998653 77888889999999999999999999999999999999999999999
Q ss_pred ccCCC
Q 043443 139 AESRK 143 (299)
Q Consensus 139 ~~~~~ 143 (299)
..+..
T Consensus 175 ~k~~~ 179 (203)
T KOG0131|consen 175 FKKDT 179 (203)
T ss_pred EecCC
Confidence 86543
No 62
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.20 E-value=5.3e-11 Score=102.27 Aligned_cols=81 Identities=28% Similarity=0.461 Sum_probs=73.5
Q ss_pred CCCCEEEEeCCCCCCCHHHHHH----HHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEE
Q 043443 59 QNHGSLLVRNIPLDCRPEELRA----PFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREIS 134 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~----~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~ 134 (299)
++..||||.||+..+..++|+. +|++||+|.+|.+.. +.+.+|.|||.|.+.+.|-.|+..|+|..|.|+.|.
T Consensus 7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mr 83 (221)
T KOG4206|consen 7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMR 83 (221)
T ss_pred CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcCCcccCchhh
Confidence 3445999999999999999888 999999999998775 568899999999999999999999999999999999
Q ss_pred EEEcccCC
Q 043443 135 VVLAAESR 142 (299)
Q Consensus 135 V~~a~~~~ 142 (299)
|+||+.+.
T Consensus 84 iqyA~s~s 91 (221)
T KOG4206|consen 84 IQYAKSDS 91 (221)
T ss_pred eecccCcc
Confidence 99998654
No 63
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=99.19 E-value=5.8e-11 Score=110.16 Aligned_cols=76 Identities=32% Similarity=0.541 Sum_probs=68.4
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
....|+|||.|||.++||+.|++-|..||.|.+++|+. .++.+| .|.|.++++|+.||..|||..|+|+.|.|.|
T Consensus 533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mngs~l~Gr~I~V~y 607 (608)
T KOG4212|consen 533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMNGSRLDGRNIKVTY 607 (608)
T ss_pred cccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhccCcccCceeeeee
Confidence 34578999999999999999999999999999999953 456665 8999999999999999999999999999987
Q ss_pred c
Q 043443 138 A 138 (299)
Q Consensus 138 a 138 (299)
+
T Consensus 608 ~ 608 (608)
T KOG4212|consen 608 F 608 (608)
T ss_pred C
Confidence 4
No 64
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=99.18 E-value=8.3e-11 Score=99.63 Aligned_cols=83 Identities=25% Similarity=0.371 Sum_probs=76.0
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcC-CCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERF-GVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~-G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
.....++|..||..+.+.+|..+|.+| |.|..+.+..++.||.++|||||+|++.+.|+-|.+.||+..|.++.|.|.+
T Consensus 47 ~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~v 126 (214)
T KOG4208|consen 47 EIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHV 126 (214)
T ss_pred CCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEE
Confidence 345679999999999999999999998 7788888889999999999999999999999999999999999999999988
Q ss_pred cccC
Q 043443 138 AAES 141 (299)
Q Consensus 138 a~~~ 141 (299)
-.+.
T Consensus 127 mppe 130 (214)
T KOG4208|consen 127 MPPE 130 (214)
T ss_pred eCch
Confidence 7665
No 65
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=99.16 E-value=7.1e-11 Score=116.13 Aligned_cols=78 Identities=26% Similarity=0.463 Sum_probs=72.2
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
.+||||++|+..|+|+||..+|+.||+|..|.|+.. .+||||++....+|++||.+|++..|.++.|+|.|+..
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 579999999999999999999999999999998854 79999999999999999999999999999999999986
Q ss_pred CCCC
Q 043443 141 SRKR 144 (299)
Q Consensus 141 ~~~~ 144 (299)
+..+
T Consensus 495 ~G~k 498 (894)
T KOG0132|consen 495 KGPK 498 (894)
T ss_pred CCcc
Confidence 5433
No 66
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=99.15 E-value=2.7e-11 Score=104.76 Aligned_cols=72 Identities=28% Similarity=0.585 Sum_probs=67.4
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcccC
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAES 141 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~~ 141 (299)
..|||++||+.+.+.+|+.||..||+|.+|.|. .+|+||+|++..+|..||..||+++|++..|.|+|+...
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 479999999999999999999999999999887 479999999999999999999999999999999998854
No 67
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.13 E-value=1.7e-10 Score=104.37 Aligned_cols=80 Identities=18% Similarity=0.323 Sum_probs=70.6
Q ss_pred CCCCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh-CCceeCCeeE
Q 043443 55 RRKEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM-NGKRFAGREI 133 (299)
Q Consensus 55 ~~~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l-ng~~l~Gr~i 133 (299)
+..+..-.+|||++|...++|.+|.++|.+||+|..|.++.. +++|||+|.+.+.|+.|.+.+ |..+|+|..|
T Consensus 222 pPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl 295 (377)
T KOG0153|consen 222 PPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRL 295 (377)
T ss_pred CCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc------cccceeeehhhHHHHHHHHhhcceeeecceEE
Confidence 345566789999999999999999999999999999988865 579999999999999988655 6667899999
Q ss_pred EEEEccc
Q 043443 134 SVVLAAE 140 (299)
Q Consensus 134 ~V~~a~~ 140 (299)
+|.|..+
T Consensus 296 ~i~Wg~~ 302 (377)
T KOG0153|consen 296 KIKWGRP 302 (377)
T ss_pred EEEeCCC
Confidence 9999887
No 68
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.11 E-value=1.9e-10 Score=108.41 Aligned_cols=81 Identities=25% Similarity=0.431 Sum_probs=73.2
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
+...|||-||+..++..+|.++|+.||+|..|.|..+.. | .+|| ||+|+++++|++||+.|||..+.+++|.|....
T Consensus 75 d~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~ 151 (369)
T KOG0123|consen 75 DPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFE 151 (369)
T ss_pred CCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeecc
Confidence 334499999999999999999999999999999998853 3 8999 999999999999999999999999999998887
Q ss_pred cCCC
Q 043443 140 ESRK 143 (299)
Q Consensus 140 ~~~~ 143 (299)
.+..
T Consensus 152 ~~~e 155 (369)
T KOG0123|consen 152 RKEE 155 (369)
T ss_pred chhh
Confidence 6544
No 69
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=99.10 E-value=3.7e-10 Score=99.70 Aligned_cols=83 Identities=25% Similarity=0.391 Sum_probs=75.8
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
+.-.++|+|.||++.|+++||+++|..||+++.+.|..++ .|.+.|.|-|.|...+||+.||+.||++.|+|..|+|++
T Consensus 80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~ 158 (243)
T KOG0533|consen 80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEI 158 (243)
T ss_pred CCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEE
Confidence 3445889999999999999999999999999999888875 788999999999999999999999999999999999988
Q ss_pred cccC
Q 043443 138 AAES 141 (299)
Q Consensus 138 a~~~ 141 (299)
....
T Consensus 159 i~~~ 162 (243)
T KOG0533|consen 159 ISSP 162 (243)
T ss_pred ecCc
Confidence 7653
No 70
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=99.10 E-value=3.9e-10 Score=102.75 Aligned_cols=86 Identities=28% Similarity=0.426 Sum_probs=78.9
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEe--------EEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCcee
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVR--------DVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRF 128 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~--------~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l 128 (299)
......+|||-+|+..+++++|.++|.++|.|. .|+|.+++.|+.+++-|.|.|++...|+.||..++++.|
T Consensus 62 ~~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf 141 (351)
T KOG1995|consen 62 DKSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDF 141 (351)
T ss_pred cccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccc
Confidence 355678999999999999999999999999885 478889999999999999999999999999999999999
Q ss_pred CCeeEEEEEcccCC
Q 043443 129 AGREISVVLAAESR 142 (299)
Q Consensus 129 ~Gr~i~V~~a~~~~ 142 (299)
.+.+|+|.+|....
T Consensus 142 ~gn~ikvs~a~~r~ 155 (351)
T KOG1995|consen 142 CGNTIKVSLAERRT 155 (351)
T ss_pred cCCCchhhhhhhcc
Confidence 99999999987544
No 71
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=99.09 E-value=1.9e-10 Score=109.67 Aligned_cols=82 Identities=23% Similarity=0.346 Sum_probs=76.3
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
....|||.+|...|...||+.||.+||+|+-..|+.+..+...+||+||++.+.++|.+||+.|+.++|.|+.|.|+-++
T Consensus 404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaK 483 (940)
T KOG4661|consen 404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAK 483 (940)
T ss_pred cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecc
Confidence 45689999999999999999999999999999999887777789999999999999999999999999999999999987
Q ss_pred cC
Q 043443 140 ES 141 (299)
Q Consensus 140 ~~ 141 (299)
..
T Consensus 484 NE 485 (940)
T KOG4661|consen 484 NE 485 (940)
T ss_pred cC
Confidence 54
No 72
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.07 E-value=3.4e-10 Score=110.60 Aligned_cols=79 Identities=25% Similarity=0.448 Sum_probs=70.2
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCC---CCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYT---GEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~---g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
.++|||.||++.++.++|..+|.++|.|..|.|.+.+.. -.+.|||||+|.+.++|+.|++.|+|+.|+|+.|.|.+
T Consensus 515 ~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~ 594 (725)
T KOG0110|consen 515 ETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKI 594 (725)
T ss_pred chhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEEe
Confidence 345999999999999999999999999999988765422 12459999999999999999999999999999999999
Q ss_pred cc
Q 043443 138 AA 139 (299)
Q Consensus 138 a~ 139 (299)
+.
T Consensus 595 S~ 596 (725)
T KOG0110|consen 595 SE 596 (725)
T ss_pred cc
Confidence 98
No 73
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=3.4e-10 Score=103.07 Aligned_cols=80 Identities=19% Similarity=0.324 Sum_probs=75.4
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
.-++|||..++.+++|+||+.+|+.||+|.+|.+..++.++..+||+||||.+......||..||-+.|+|..|.|--+.
T Consensus 209 ~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~v 288 (544)
T KOG0124|consen 209 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV 288 (544)
T ss_pred hhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEeccccc
Confidence 35799999999999999999999999999999999999999999999999999999999999999999999999986654
No 74
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=99.03 E-value=1.8e-09 Score=102.57 Aligned_cols=81 Identities=23% Similarity=0.406 Sum_probs=68.1
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
...+|||.|||.++++.+|+++|.+||.|+...|..-...++..+||||+|.+.++++.||++ +-..|++++|.|+..+
T Consensus 287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~A-sp~~ig~~kl~Veek~ 365 (419)
T KOG0116|consen 287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEA-SPLEIGGRKLNVEEKR 365 (419)
T ss_pred cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhc-CccccCCeeEEEEecc
Confidence 345699999999999999999999999999876654322344459999999999999999986 5778999999999877
Q ss_pred cC
Q 043443 140 ES 141 (299)
Q Consensus 140 ~~ 141 (299)
..
T Consensus 366 ~~ 367 (419)
T KOG0116|consen 366 PG 367 (419)
T ss_pred cc
Confidence 53
No 75
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.02 E-value=2.5e-10 Score=111.55 Aligned_cols=85 Identities=34% Similarity=0.605 Sum_probs=78.1
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
...+.|+|.|||+.++..+|+++|..||+|..|.|++....+...|||||+|-++.+|..|+.+|..+.|.|+.|.++|+
T Consensus 611 k~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLVLEwA 690 (725)
T KOG0110|consen 611 KKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLVLEWA 690 (725)
T ss_pred cccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhheehh
Confidence 34689999999999999999999999999999999987666778999999999999999999999999999999999999
Q ss_pred ccCCC
Q 043443 139 AESRK 143 (299)
Q Consensus 139 ~~~~~ 143 (299)
+....
T Consensus 691 ~~d~~ 695 (725)
T KOG0110|consen 691 KSDNT 695 (725)
T ss_pred ccchH
Confidence 86543
No 76
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.99 E-value=3.9e-10 Score=103.29 Aligned_cols=82 Identities=28% Similarity=0.503 Sum_probs=73.2
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
+.++|||++|++.++|+.|+++|.+||+|.+|.++.|+.++..++|+||+|++.+.+..+|. ..-..|+|+.|.+..|.
T Consensus 5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~av 83 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRAV 83 (311)
T ss_pred CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeec-ccccccCCccccceecc
Confidence 67899999999999999999999999999999999999999999999999999888888876 35567889888888776
Q ss_pred cCC
Q 043443 140 ESR 142 (299)
Q Consensus 140 ~~~ 142 (299)
+..
T Consensus 84 ~r~ 86 (311)
T KOG4205|consen 84 SRE 86 (311)
T ss_pred Ccc
Confidence 543
No 77
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=98.97 E-value=7.9e-10 Score=97.66 Aligned_cols=85 Identities=31% Similarity=0.513 Sum_probs=79.3
Q ss_pred CCCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 56 RKEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 56 ~~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
..+.+...|||+||.+.+|.++|+.+|+.||.|..|.|+.++..+++++||||+|.+.+.++.||. ||+..|.+..|.|
T Consensus 96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~v 174 (231)
T KOG4209|consen 96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEV 174 (231)
T ss_pred hhccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhh-cCCccccccccee
Confidence 345678899999999999999999999999999999999999999999999999999999999999 9999999999999
Q ss_pred EEcccC
Q 043443 136 VLAAES 141 (299)
Q Consensus 136 ~~a~~~ 141 (299)
.+....
T Consensus 175 t~~r~~ 180 (231)
T KOG4209|consen 175 TLKRTN 180 (231)
T ss_pred eeeeee
Confidence 998754
No 78
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=98.97 E-value=1.8e-09 Score=93.53 Aligned_cols=71 Identities=37% Similarity=0.564 Sum_probs=64.3
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
.....+.|+|.||+..+.|++|.++|.++|++.++.+. .+++||+|.+.++|..||..|++..|.++.|+|
T Consensus 95 p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~--------~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 95 PSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR--------RNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV 165 (216)
T ss_pred cccccceeeeccchhhhhHHHHhhhhcccCCCchhhhh--------ccccceeehhhhhhhhcchhccchhhcCceeee
Confidence 34567899999999999999999999999999665552 479999999999999999999999999999999
No 79
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=98.94 E-value=1.1e-09 Score=100.59 Aligned_cols=75 Identities=20% Similarity=0.301 Sum_probs=59.3
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCC---CCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYY---TGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~---~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
.|.|.||.+.+|.++|+.||..+|+|.++.|+.+.. .....-.|||.|.+...+..|.+ |.+++|-++.|.|..+
T Consensus 9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdraliv~p~ 86 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALIVRPY 86 (479)
T ss_pred eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEEEEec
Confidence 799999999999999999999999999998865321 12345689999999988888876 6666666666555443
No 80
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.94 E-value=9.7e-10 Score=96.45 Aligned_cols=83 Identities=23% Similarity=0.444 Sum_probs=72.9
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce-eCC--eeEEEE
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR-FAG--REISVV 136 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~-l~G--r~i~V~ 136 (299)
+..+|||+-|...-.|+|+..+|..||+|++|.+.... .|.++|+|||.|.+..+|+.||..|+|.. +-| ..|.|.
T Consensus 18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~-dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK 96 (371)
T KOG0146|consen 18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGP-DGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK 96 (371)
T ss_pred cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCC-CCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence 45689999999999999999999999999999988764 78899999999999999999999999964 444 578899
Q ss_pred EcccCCC
Q 043443 137 LAAESRK 143 (299)
Q Consensus 137 ~a~~~~~ 143 (299)
++...++
T Consensus 97 ~ADTdkE 103 (371)
T KOG0146|consen 97 FADTDKE 103 (371)
T ss_pred eccchHH
Confidence 9876544
No 81
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=98.93 E-value=4.1e-10 Score=96.16 Aligned_cols=82 Identities=26% Similarity=0.291 Sum_probs=72.3
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
.+...||||+||...|+|+.|.++|-+.|.|..|.|..++ .++.+ ||||+|.++..+.-|++.|||..|.+..|.|.+
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 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQ-DQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTL 83 (267)
T ss_pred cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCc-cCCCc-eeeeecccccchhhhhhhcccchhccchhhccc
Confidence 3456799999999999999999999999999999998775 44555 999999999999999999999999999999887
Q ss_pred cccC
Q 043443 138 AAES 141 (299)
Q Consensus 138 a~~~ 141 (299)
-...
T Consensus 84 r~G~ 87 (267)
T KOG4454|consen 84 RCGN 87 (267)
T ss_pred ccCC
Confidence 6543
No 82
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=98.93 E-value=1.2e-09 Score=100.20 Aligned_cols=84 Identities=29% Similarity=0.447 Sum_probs=76.8
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
...+|||++||.++++++|+++|.+||.|..+.++.|..+...++|+||+|.+.+.+++++. +.-++|+++.|.|..|.
T Consensus 96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA~ 174 (311)
T KOG4205|consen 96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRAI 174 (311)
T ss_pred ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecc-cceeeecCceeeEeecc
Confidence 35599999999999999999999999999999999999999999999999999999988886 58889999999999998
Q ss_pred cCCCC
Q 043443 140 ESRKR 144 (299)
Q Consensus 140 ~~~~~ 144 (299)
++...
T Consensus 175 pk~~~ 179 (311)
T KOG4205|consen 175 PKEVM 179 (311)
T ss_pred chhhc
Confidence 76543
No 83
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.93 E-value=3.8e-09 Score=95.72 Aligned_cols=83 Identities=20% Similarity=0.334 Sum_probs=74.8
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEe--------EEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVR--------DVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA 129 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~--------~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~ 129 (299)
...++.|||.|||.++|.+++.++|.+||.|. .|.|..+. .|+.+|-|+|.|...+.++.||+.||+..|.
T Consensus 131 ~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~-~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~r 209 (382)
T KOG1548|consen 131 PKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDN-QGKLKGDALCCYIKRESVELAIKILDEDELR 209 (382)
T ss_pred cccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecC-CCCccCceEEEeecccHHHHHHHHhCccccc
Confidence 44567899999999999999999999999885 37777775 5999999999999999999999999999999
Q ss_pred CeeEEEEEcccC
Q 043443 130 GREISVVLAAES 141 (299)
Q Consensus 130 Gr~i~V~~a~~~ 141 (299)
|+.|.|+.|+..
T Consensus 210 g~~~rVerAkfq 221 (382)
T KOG1548|consen 210 GKKLRVERAKFQ 221 (382)
T ss_pred CcEEEEehhhhh
Confidence 999999999854
No 84
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.92 E-value=2.5e-09 Score=100.81 Aligned_cols=74 Identities=28% Similarity=0.398 Sum_probs=69.6
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcccC
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAES 141 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~~ 141 (299)
..|||| +++|+..|.++|..+|.|..|.|+.|. | +.|||||.|.++++|+.||..||...|.|++|.|.|+...
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 468999 899999999999999999999999997 6 9999999999999999999999999999999999998743
No 85
>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=98.87 E-value=1.5e-08 Score=77.31 Aligned_cols=79 Identities=28% Similarity=0.434 Sum_probs=70.6
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhc--CCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC----CeeEEE
Q 043443 62 GSLLVRNIPLDCRPEELRAPFER--FGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA----GREISV 135 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~--~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~----Gr~i~V 135 (299)
+||.|.|||...|.++|.+++.. .|....+.|+.|..+..+.|||||.|.+++.|....+.++|..|. .+.+.|
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 79999999999999999999865 477788899999889999999999999999999999999999886 567788
Q ss_pred EEccc
Q 043443 136 VLAAE 140 (299)
Q Consensus 136 ~~a~~ 140 (299)
.+|+-
T Consensus 82 ~yAri 86 (97)
T PF04059_consen 82 SYARI 86 (97)
T ss_pred ehhHh
Confidence 88864
No 86
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.84 E-value=1.7e-08 Score=86.72 Aligned_cols=83 Identities=28% Similarity=0.375 Sum_probs=69.2
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEecc-CCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC---CeeEEEE
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPK-DYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA---GREISVV 136 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~-d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~---Gr~i~V~ 136 (299)
-.||||.+||.++...+|..+|..|-..+.+.|.. ++.....+-+|||+|.+..+|++|++.|||..|+ +..|+|+
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 57999999999999999999999986666665543 2222334579999999999999999999999986 8899999
Q ss_pred EcccCCC
Q 043443 137 LAAESRK 143 (299)
Q Consensus 137 ~a~~~~~ 143 (299)
+|+...+
T Consensus 114 lAKSNtK 120 (284)
T KOG1457|consen 114 LAKSNTK 120 (284)
T ss_pred ehhcCcc
Confidence 9987544
No 87
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=98.81 E-value=3.3e-09 Score=101.46 Aligned_cols=72 Identities=31% Similarity=0.567 Sum_probs=65.5
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREIS 134 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~ 134 (299)
.....+|+|.|||..|++++|..+|+.||+|..|..... ..+.+||+|.|..+|+.|++.|++.+|.|+.|+
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 455789999999999999999999999999999766543 479999999999999999999999999998887
No 88
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.76 E-value=2.5e-08 Score=97.68 Aligned_cols=84 Identities=20% Similarity=0.252 Sum_probs=74.7
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCC---CCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYY---TGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREI 133 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~---~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i 133 (299)
.+..++.|||+||+..++++.|...|..||.|..|.|++... ......|+||.|-+..||+.|++.|+|..+.+..|
T Consensus 170 gDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~ 249 (877)
T KOG0151|consen 170 GDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEM 249 (877)
T ss_pred CCCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeee
Confidence 355678999999999999999999999999999998887643 23456799999999999999999999999999999
Q ss_pred EEEEccc
Q 043443 134 SVVLAAE 140 (299)
Q Consensus 134 ~V~~a~~ 140 (299)
++.|++.
T Consensus 250 K~gWgk~ 256 (877)
T KOG0151|consen 250 KLGWGKA 256 (877)
T ss_pred eeccccc
Confidence 9999964
No 89
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.65 E-value=3.2e-07 Score=84.20 Aligned_cols=89 Identities=20% Similarity=0.210 Sum_probs=69.9
Q ss_pred CCCCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCC---------C-------------------------
Q 043443 55 RRKEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYT---------G------------------------- 100 (299)
Q Consensus 55 ~~~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~---------g------------------------- 100 (299)
+.+....-.|+|.+|...++|.||.+.++.||.|.+|.++..+.. +
T Consensus 25 phk~~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~NyS 104 (494)
T KOG1456|consen 25 PHKPNPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHKRQALVEFEDIEGAKNCVNFAADNQIYIAGQQALFNYS 104 (494)
T ss_pred CCCCCCCceEEEeccccccchhHHHHHHhcCCceEEEEeccccceeeeeeccccchhhheehhccCcccccCchhhcccc
Confidence 334556779999999999999999999999999987654322100 0
Q ss_pred ----------------------------------------------------CCccEEEEEEcCHHHHHHHHHhhCCcee
Q 043443 101 ----------------------------------------------------EPRGFAFVQFVDPYEAAEAQHHMNGKRF 128 (299)
Q Consensus 101 ----------------------------------------------------~~~g~afVeF~~~~~A~~Al~~lng~~l 128 (299)
++--.|+|||++.+.|++|.+.|||..|
T Consensus 105 tsq~i~R~g~es~~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkkngVQAmVEFdsv~~AqrAk~alNGADI 184 (494)
T KOG1456|consen 105 TSQCIERPGDESATPNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKKNGVQAMVEFDSVEVAQRAKAALNGADI 184 (494)
T ss_pred hhhhhccCCCCCCCCCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEeccceeeEEeechhHHHHHHHhhcccccc
Confidence 1223789999999999999999999988
Q ss_pred C-C-eeEEEEEcccCCC
Q 043443 129 A-G-REISVVLAAESRK 143 (299)
Q Consensus 129 ~-G-r~i~V~~a~~~~~ 143 (299)
. | .+|+|++|++.+.
T Consensus 185 YsGCCTLKIeyAkP~rl 201 (494)
T KOG1456|consen 185 YSGCCTLKIEYAKPTRL 201 (494)
T ss_pred cccceeEEEEecCccee
Confidence 5 3 6899999998653
No 90
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.64 E-value=9.9e-08 Score=90.27 Aligned_cols=77 Identities=21% Similarity=0.365 Sum_probs=66.5
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
....|-+.+|||.+|++||.+||+.+ .|+.+.+.. .+|++.|.|||||.+.+|+++||+ +|-..|..+-|.|--+.
T Consensus 9 ~~~~vr~rGLPwsat~~ei~~Ff~~~-~I~~~~~~r--~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~ 84 (510)
T KOG4211|consen 9 TAFEVRLRGLPWSATEKEILDFFSNC-GIENLEIPR--RNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAG 84 (510)
T ss_pred cceEEEecCCCccccHHHHHHHHhcC-ceeEEEEec--cCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccC
Confidence 45678889999999999999999998 477766654 479999999999999999999998 58888999999987765
Q ss_pred c
Q 043443 140 E 140 (299)
Q Consensus 140 ~ 140 (299)
.
T Consensus 85 ~ 85 (510)
T KOG4211|consen 85 G 85 (510)
T ss_pred C
Confidence 3
No 91
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=98.59 E-value=5e-08 Score=85.27 Aligned_cols=82 Identities=23% Similarity=0.444 Sum_probs=75.3
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
+++..+||.+-|..+++.+.|-..|.+|-......+++++-|++++||+||.|.+..|+..|+..|||+.++.+.|++.-
T Consensus 187 ~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 187 DEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK 266 (290)
T ss_pred ccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence 34678999999999999999999999998888889999999999999999999999999999999999999999988755
Q ss_pred cc
Q 043443 138 AA 139 (299)
Q Consensus 138 a~ 139 (299)
+.
T Consensus 267 S~ 268 (290)
T KOG0226|consen 267 SE 268 (290)
T ss_pred hh
Confidence 44
No 92
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=98.58 E-value=3.9e-08 Score=94.75 Aligned_cols=86 Identities=24% Similarity=0.473 Sum_probs=80.1
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
-...+.|||++||..+++.+|.+++..||.+....++.+..+|.++||||.+|.+......||..|||+.+.+.+|.|+.
T Consensus 286 ~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~ 365 (500)
T KOG0120|consen 286 PDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQR 365 (500)
T ss_pred ccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeeh
Confidence 34568999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCC
Q 043443 138 AAESRK 143 (299)
Q Consensus 138 a~~~~~ 143 (299)
|.....
T Consensus 366 A~~g~~ 371 (500)
T KOG0120|consen 366 AIVGAS 371 (500)
T ss_pred hhccch
Confidence 876543
No 93
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=98.56 E-value=5.2e-07 Score=88.44 Aligned_cols=77 Identities=22% Similarity=0.334 Sum_probs=66.2
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
.+.|-|.|+|++++.+||.+||..|-.+-.-.+++-...|+..|.|.|.|++.++|..|+..|+++.|..++|.|.+
T Consensus 867 p~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 867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI 943 (944)
T ss_pred CeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence 34888999999999999999999997664433333346799999999999999999999999999999999998865
No 94
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=98.52 E-value=3.2e-07 Score=85.07 Aligned_cols=77 Identities=26% Similarity=0.404 Sum_probs=69.7
Q ss_pred CCEEEEeCCC-CCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 61 HGSLLVRNIP-LDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 61 ~~~l~V~nLp-~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
++.|.|.||. ..+|.+.|..+|..||.|..|.|..++ +-.|+|+|.+...|+.|+++|+|..|.|++|+|.+++
T Consensus 297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nk-----kd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SK 371 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNK-----KDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSK 371 (492)
T ss_pred ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecC-----CcceeeeecchhHHHHHHHHhhcceecCceEEEeecc
Confidence 6889999995 458999999999999999999998765 4689999999999999999999999999999999998
Q ss_pred cCC
Q 043443 140 ESR 142 (299)
Q Consensus 140 ~~~ 142 (299)
-..
T Consensus 372 H~~ 374 (492)
T KOG1190|consen 372 HTN 374 (492)
T ss_pred Ccc
Confidence 543
No 95
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=98.50 E-value=1e-08 Score=94.29 Aligned_cols=77 Identities=13% Similarity=0.048 Sum_probs=60.6
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
+...+|+|++|+..+...+|.++|..+|+|.+..|.- +...-+|.|+|........|+. ++|.++.-+...+.+.
T Consensus 149 eirRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~as----k~~s~~c~~sf~~qts~~halr-~~gre~k~qhsr~ai~ 223 (479)
T KOG4676|consen 149 EIRRTREVQSLISAAILPESGESFERKGEVSYAHTAS----KSRSSSCSHSFRKQTSSKHALR-SHGRERKRQHSRRAII 223 (479)
T ss_pred HHHhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhc----cCCCcchhhhHhhhhhHHHHHH-hcchhhhhhhhhhhhc
Confidence 3457899999999999999999999999998887753 3445688899999999999998 6888877544444444
Q ss_pred cc
Q 043443 139 AE 140 (299)
Q Consensus 139 ~~ 140 (299)
++
T Consensus 224 kP 225 (479)
T KOG4676|consen 224 KP 225 (479)
T ss_pred Cc
Confidence 43
No 96
>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=98.45 E-value=4.4e-07 Score=70.61 Aligned_cols=72 Identities=19% Similarity=0.358 Sum_probs=46.4
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCc-----eeCCeeEEEE
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGK-----RFAGREISVV 136 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~-----~l~Gr~i~V~ 136 (299)
+.|+|.+|+..++.++|+++|.+||.|.+|++... ...|||-|.+.++|+.||..+.-. .|.+..+++.
T Consensus 2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G------~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~ 75 (105)
T PF08777_consen 2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRG------DTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE 75 (105)
T ss_dssp -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-------SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCC------CCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence 57899999999999999999999999999999764 468999999999999999877433 5677777776
Q ss_pred Ecc
Q 043443 137 LAA 139 (299)
Q Consensus 137 ~a~ 139 (299)
+-.
T Consensus 76 vLe 78 (105)
T PF08777_consen 76 VLE 78 (105)
T ss_dssp ---
T ss_pred ECC
Confidence 643
No 97
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=98.45 E-value=2.8e-06 Score=78.14 Aligned_cols=80 Identities=21% Similarity=0.278 Sum_probs=71.2
Q ss_pred CCCCCEEEEeCCCCC-CCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 58 EQNHGSLLVRNIPLD-CRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~-~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
..+.+.+.|.+|... ++.+-|..+|..||.|+.|.+++.+ .|.|+||+.+..+.+.||..||+..|.|.+|.|.
T Consensus 284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~ 358 (494)
T KOG1456|consen 284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVC 358 (494)
T ss_pred CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhccCccccceEEEe
Confidence 345789999999654 6788899999999999999998865 6899999999999999999999999999999999
Q ss_pred EcccCC
Q 043443 137 LAAESR 142 (299)
Q Consensus 137 ~a~~~~ 142 (299)
+++...
T Consensus 359 ~SkQ~~ 364 (494)
T KOG1456|consen 359 VSKQNF 364 (494)
T ss_pred eccccc
Confidence 998644
No 98
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=98.38 E-value=3.5e-07 Score=78.66 Aligned_cols=66 Identities=20% Similarity=0.380 Sum_probs=55.3
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA 129 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~ 129 (299)
...||||.||..+|||++|+.+|..|-....+.|... ...+.|||+|++.+.|.+|+..|+|..|-
T Consensus 209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~~----~g~~vaf~~~~~~~~at~am~~lqg~~~s 274 (284)
T KOG1457|consen 209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRAR----GGMPVAFADFEEIEQATDAMNHLQGNLLS 274 (284)
T ss_pred hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEecC----CCcceEeecHHHHHHHHHHHHHhhcceec
Confidence 4569999999999999999999999976665555432 23578999999999999999999998763
No 99
>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=98.35 E-value=1.8e-06 Score=63.36 Aligned_cols=70 Identities=31% Similarity=0.449 Sum_probs=48.4
Q ss_pred CEEEEeCCCCCCCHHH----HHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 62 GSLLVRNIPLDCRPEE----LRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 62 ~~l~V~nLp~~~te~d----L~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
+.|+|.|||.+.+... |+.++..+| .|..| . .+.|+|.|.+.+.|..|++.|+|.++.|.+|.|.
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 4799999999988765 556666775 66554 2 3689999999999999999999999999999999
Q ss_pred EcccC
Q 043443 137 LAAES 141 (299)
Q Consensus 137 ~a~~~ 141 (299)
+....
T Consensus 73 ~~~~~ 77 (90)
T PF11608_consen 73 FSPKN 77 (90)
T ss_dssp SS--S
T ss_pred EcCCc
Confidence 98643
No 100
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.34 E-value=1.2e-07 Score=90.85 Aligned_cols=87 Identities=25% Similarity=0.447 Sum_probs=78.7
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
++.+..+||+-.|...++..+|.+||..+|.|..|.|+.|..++..+|.|||+|.+.+.+..||. |.|+.+.|.+|.|+
T Consensus 175 eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~pv~vq 253 (549)
T KOG0147|consen 175 EERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIVQ 253 (549)
T ss_pred hHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCceeEec
Confidence 34456799999999999999999999999999999999999999999999999999999999994 99999999999999
Q ss_pred EcccCCCC
Q 043443 137 LAAESRKR 144 (299)
Q Consensus 137 ~a~~~~~~ 144 (299)
.....+..
T Consensus 254 ~sEaeknr 261 (549)
T KOG0147|consen 254 LSEAEKNR 261 (549)
T ss_pred ccHHHHHH
Confidence 88755443
No 101
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=98.32 E-value=1.6e-06 Score=82.18 Aligned_cols=78 Identities=32% Similarity=0.529 Sum_probs=65.1
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeE-EEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRD-VYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~-v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
...+|-+.+||+.||++||.+||+..-.|.. |.|+.++ .+.+.|.|||+|++.+.|++||.. |...|.-+-|.|-.+
T Consensus 102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~-rgR~tGEAfVqF~sqe~ae~Al~r-hre~iGhRYIEvF~S 179 (510)
T KOG4211|consen 102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQ-RGRPTGEAFVQFESQESAEIALGR-HRENIGHRYIEVFRS 179 (510)
T ss_pred CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccC-CCCcccceEEEecCHHHHHHHHHH-HHHhhccceEEeehh
Confidence 4568999999999999999999998765555 5555554 567899999999999999999985 778888888888766
Q ss_pred c
Q 043443 139 A 139 (299)
Q Consensus 139 ~ 139 (299)
.
T Consensus 180 s 180 (510)
T KOG4211|consen 180 S 180 (510)
T ss_pred H
Confidence 4
No 102
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=98.28 E-value=2e-06 Score=79.23 Aligned_cols=79 Identities=23% Similarity=0.344 Sum_probs=68.5
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCC-EeE--EEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGV-VRD--VYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~-I~~--v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
...+|-+.+||+.++.+||.+||..|.. |.. |+|+.+ ..|.+.|.|||+|.+.++|..|....+.+.++.+.|.|-
T Consensus 279 ~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N-~qGrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvf 357 (508)
T KOG1365|consen 279 SKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLN-GQGRPSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVF 357 (508)
T ss_pred CCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEc-CCCCcChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEe
Confidence 3678999999999999999999998863 333 777766 478999999999999999999999999999989999987
Q ss_pred Ecc
Q 043443 137 LAA 139 (299)
Q Consensus 137 ~a~ 139 (299)
.+.
T Consensus 358 p~S 360 (508)
T KOG1365|consen 358 PCS 360 (508)
T ss_pred ecc
Confidence 765
No 103
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=98.25 E-value=3.9e-06 Score=72.49 Aligned_cols=77 Identities=26% Similarity=0.454 Sum_probs=67.6
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC-CeeEEEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA-GREISVV 136 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~-Gr~i~V~ 136 (299)
..+..+||+.|||..++.+.|..+|.+|....+|.++... .+.|||+|.+...|..|...|++..|- ...|.|.
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 4467899999999999999999999999999998887643 689999999999999999999998875 7888888
Q ss_pred Ecc
Q 043443 137 LAA 139 (299)
Q Consensus 137 ~a~ 139 (299)
+++
T Consensus 218 ~a~ 220 (221)
T KOG4206|consen 218 FAK 220 (221)
T ss_pred ccC
Confidence 765
No 104
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=98.07 E-value=2.5e-06 Score=77.79 Aligned_cols=78 Identities=14% Similarity=0.200 Sum_probs=68.1
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCC--CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFG--VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G--~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
..++||+||-|++|++||.+.+...| .|.++++..+..+|+++|||+|...+....++.++.|-.++|.|+.-.|--.
T Consensus 80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~~~ 159 (498)
T KOG4849|consen 80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVLSY 159 (498)
T ss_pred eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeeecc
Confidence 46899999999999999999988766 5667788888889999999999999999999999999999999986555443
No 105
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=98.03 E-value=5.2e-06 Score=75.81 Aligned_cols=81 Identities=21% Similarity=0.407 Sum_probs=73.6
Q ss_pred CCEEE-EeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 61 HGSLL-VRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 61 ~~~l~-V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
..+|| |+||+..+++++|+.+|..+|.|..|.+..+..++..++||||+|.+...+..|+.. +...+.+..|.|....
T Consensus 184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 262 (285)
T KOG4210|consen 184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLEEDE 262 (285)
T ss_pred cccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccCcccccccCC
Confidence 34555 999999999999999999999999999999999999999999999999999999887 8888999999999887
Q ss_pred cCC
Q 043443 140 ESR 142 (299)
Q Consensus 140 ~~~ 142 (299)
+..
T Consensus 263 ~~~ 265 (285)
T KOG4210|consen 263 PRP 265 (285)
T ss_pred CCc
Confidence 643
No 106
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=98.01 E-value=2.1e-05 Score=75.83 Aligned_cols=80 Identities=25% Similarity=0.418 Sum_probs=65.6
Q ss_pred CCCCEEEEeCCCCCCC------HHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC-Ce
Q 043443 59 QNHGSLLVRNIPLDCR------PEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA-GR 131 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~t------e~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~-Gr 131 (299)
.....|+|.|+|.--. ..-|..+|+++|+|..+.++.+..+| .+||.|++|.+..+|+.|++.|||+.|+ .+
T Consensus 56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~~ldknH 134 (698)
T KOG2314|consen 56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGKRLDKNH 134 (698)
T ss_pred CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhcccceecccc
Confidence 3467899999986432 23467889999999999999886555 8999999999999999999999999885 67
Q ss_pred eEEEEEcc
Q 043443 132 EISVVLAA 139 (299)
Q Consensus 132 ~i~V~~a~ 139 (299)
++.|..-+
T Consensus 135 tf~v~~f~ 142 (698)
T KOG2314|consen 135 TFFVRLFK 142 (698)
T ss_pred eEEeehhh
Confidence 77776654
No 107
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=98.01 E-value=1.4e-05 Score=72.66 Aligned_cols=81 Identities=17% Similarity=0.361 Sum_probs=62.6
Q ss_pred CCCEEEEeCCCCCCCHHH----H--HHHHhcCCCEeEEEeccCCCC-CCCccE--EEEEEcCHHHHHHHHHhhCCceeCC
Q 043443 60 NHGSLLVRNIPLDCRPEE----L--RAPFERFGVVRDVYLPKDYYT-GEPRGF--AFVQFVDPYEAAEAQHHMNGKRFAG 130 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~d----L--~~~F~~~G~I~~v~i~~d~~~-g~~~g~--afVeF~~~~~A~~Al~~lng~~l~G 130 (299)
...-|||-+|+..+..++ | .++|.+||.|..|.|-+.... ....+. .||+|.+.+||..||...+|..++|
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 456789999988776555 2 489999999999877654211 111122 3999999999999999999999999
Q ss_pred eeEEEEEccc
Q 043443 131 REISVVLAAE 140 (299)
Q Consensus 131 r~i~V~~a~~ 140 (299)
+.|+..|...
T Consensus 193 r~lkatYGTT 202 (480)
T COG5175 193 RVLKATYGTT 202 (480)
T ss_pred ceEeeecCch
Confidence 9999988764
No 108
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=97.98 E-value=1.9e-05 Score=53.59 Aligned_cols=52 Identities=25% Similarity=0.515 Sum_probs=42.7
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHH
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQ 120 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al 120 (299)
+.|-|.+.+.... ++|..+|..||+|+.+.+... ..++||+|.+..+|++||
T Consensus 2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~~------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPES------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCCC------CcEEEEEECCHHHHHhhC
Confidence 5788999987765 445568899999999988732 469999999999999995
No 109
>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=97.97 E-value=3.6e-05 Score=59.15 Aligned_cols=80 Identities=16% Similarity=0.252 Sum_probs=54.1
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCC-------CCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCe
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDY-------YTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGR 131 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~-------~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr 131 (299)
...+-|.|.+.|.. ....|.++|++||+|.+..-.... .......+..|+|++..+|++||. .||..|.|.
T Consensus 4 ~~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~ 81 (100)
T PF05172_consen 4 DSETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSGS 81 (100)
T ss_dssp GGCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETTC
T ss_pred cCCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcCc
Confidence 34567889999887 557788899999999877411100 001235799999999999999998 599999986
Q ss_pred eE-EEEEccc
Q 043443 132 EI-SVVLAAE 140 (299)
Q Consensus 132 ~i-~V~~a~~ 140 (299)
.| -|.++++
T Consensus 82 ~mvGV~~~~~ 91 (100)
T PF05172_consen 82 LMVGVKPCDP 91 (100)
T ss_dssp EEEEEEE-HH
T ss_pred EEEEEEEcHH
Confidence 54 4777643
No 110
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.96 E-value=4.4e-05 Score=69.74 Aligned_cols=79 Identities=25% Similarity=0.466 Sum_probs=63.8
Q ss_pred CCCCEEEEeCCCC----CCC-------HHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 59 QNHGSLLVRNIPL----DCR-------PEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 59 ~~~~~l~V~nLp~----~~t-------e~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
...++|.|.||=. ..+ +++|.+-..+||.|..|.|.- .++.|.+.|.|.+.++|..||+.|+|..
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 RADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYD----RHPDGVVTVSFRNNEEADQCIQTMDGRW 338 (382)
T ss_pred cCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEec----cCCCceeEEEeCChHHHHHHHHHhcCee
Confidence 4568999999822 233 245666678999999997763 3678999999999999999999999999
Q ss_pred eCCeeEEEEEcccC
Q 043443 128 FAGREISVVLAAES 141 (299)
Q Consensus 128 l~Gr~i~V~~a~~~ 141 (299)
|+|++|...+....
T Consensus 339 fdgRql~A~i~DG~ 352 (382)
T KOG1548|consen 339 FDGRQLTASIWDGK 352 (382)
T ss_pred ecceEEEEEEeCCc
Confidence 99999998887543
No 111
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=97.80 E-value=2e-05 Score=76.40 Aligned_cols=77 Identities=12% Similarity=0.230 Sum_probs=65.3
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHh-cCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCcee---CCeeE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFE-RFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRF---AGREI 133 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~-~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l---~Gr~i 133 (299)
....+.|||.||-.-+|..+|++++. .+|.|+++||- +.+..|||.|.+.++|.+.+.+|||..| +.+.|
T Consensus 441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~WmD------kIKShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L 514 (718)
T KOG2416|consen 441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWMD------KIKSHCYVSYSSVEEAAATREALHNVQWPPSNPKHL 514 (718)
T ss_pred CCccceEeeecccccchHHHHHHHHhhccCchHHHHHH------HhhcceeEecccHHHHHHHHHHHhccccCCCCCcee
Confidence 34678999999988899999999999 56777777553 2367899999999999999999999987 57889
Q ss_pred EEEEccc
Q 043443 134 SVVLAAE 140 (299)
Q Consensus 134 ~V~~a~~ 140 (299)
.|.|+..
T Consensus 515 ~adf~~~ 521 (718)
T KOG2416|consen 515 IADFVRA 521 (718)
T ss_pred Eeeecch
Confidence 9998864
No 112
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=97.80 E-value=1.3e-05 Score=70.46 Aligned_cols=73 Identities=25% Similarity=0.424 Sum_probs=62.0
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCC--------CCCc----cEEEEEEcCHHHHHHHHHhhCCce
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYT--------GEPR----GFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~--------g~~~----g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
....|||++||+.++..-|.++|..||+|-.|.|.....+ +.+. -.++|||.+...|+.+...||++.
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 3478999999999999999999999999999988765443 2222 356899999999999999999999
Q ss_pred eCCee
Q 043443 128 FAGRE 132 (299)
Q Consensus 128 l~Gr~ 132 (299)
|+|++
T Consensus 153 Iggkk 157 (278)
T KOG3152|consen 153 IGGKK 157 (278)
T ss_pred cCCCC
Confidence 99875
No 113
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.76 E-value=1.1e-05 Score=70.86 Aligned_cols=65 Identities=20% Similarity=0.409 Sum_probs=53.6
Q ss_pred HHHHHHHh-cCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcccC
Q 043443 76 EELRAPFE-RFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAES 141 (299)
Q Consensus 76 ~dL~~~F~-~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~~ 141 (299)
+||...|+ +||+|+++.|..+ ..-+..|-+||.|...++|++|++.||+-.|.|++|..++....
T Consensus 83 Ed~f~E~~~kygEiee~~Vc~N-l~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT 148 (260)
T KOG2202|consen 83 EDVFTELEDKYGEIEELNVCDN-LGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVT 148 (260)
T ss_pred HHHHHHHHHHhhhhhhhhhhcc-cchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcC
Confidence 45555555 8999999876543 34456789999999999999999999999999999999998643
No 114
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=97.71 E-value=4e-05 Score=71.78 Aligned_cols=70 Identities=23% Similarity=0.352 Sum_probs=57.8
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccC---CCC--CC--------CccEEEEEEcCHHHHHHHHHhhC
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKD---YYT--GE--------PRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d---~~~--g~--------~~g~afVeF~~~~~A~~Al~~ln 124 (299)
+....+|.|.|||.+-.-+.|.+||..||.|+.|.|+.. +.+ +. .+-+|||||++.+.|.+|.+.|+
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 346789999999999888999999999999999998765 221 11 25689999999999999999886
Q ss_pred Cce
Q 043443 125 GKR 127 (299)
Q Consensus 125 g~~ 127 (299)
...
T Consensus 308 ~e~ 310 (484)
T KOG1855|consen 308 PEQ 310 (484)
T ss_pred hhh
Confidence 543
No 115
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.68 E-value=0.00013 Score=70.63 Aligned_cols=63 Identities=29% Similarity=0.557 Sum_probs=51.7
Q ss_pred HHHHHHhcCCCEeEEEeccCCC---CCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 77 ELRAPFERFGVVRDVYLPKDYY---TGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 77 dL~~~F~~~G~I~~v~i~~d~~---~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
+|+..+.+||.|..|.|..+.. ..-..|..||||.+.++|+.|++.|+|..|.+++|.+.|..
T Consensus 425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd 490 (500)
T KOG0120|consen 425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD 490 (500)
T ss_pred HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence 3445567899999999887622 23346789999999999999999999999999999888764
No 116
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.64 E-value=0.00012 Score=68.38 Aligned_cols=77 Identities=19% Similarity=0.240 Sum_probs=63.3
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCe-eEEEEEc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGR-EISVVLA 138 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr-~i~V~~a 138 (299)
+..+|++.|||..++|++|+++|..-|.+....... ++.+.+|++.|++.++|..|+..|++..+.+. .|.|.|+
T Consensus 413 psatlHlsnip~svsee~lk~~f~~~g~~vkafkff----~kd~kmal~q~~sveeA~~ali~~hnh~lgen~hlRvSFS 488 (492)
T KOG1190|consen 413 PSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF----QKDRKMALPQLESVEEAIQALIDLHNHYLGENHHLRVSFS 488 (492)
T ss_pred chhheeeccCCcccchhHHHHhhhcCCceEEeeeec----CCCcceeecccCChhHhhhhccccccccCCCCceEEEEee
Confidence 456999999999999999999999887664433221 23357999999999999999999999998754 8899998
Q ss_pred cc
Q 043443 139 AE 140 (299)
Q Consensus 139 ~~ 140 (299)
+.
T Consensus 489 ks 490 (492)
T KOG1190|consen 489 KS 490 (492)
T ss_pred cc
Confidence 64
No 117
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.63 E-value=0.00016 Score=69.24 Aligned_cols=65 Identities=25% Similarity=0.235 Sum_probs=59.6
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHh-cCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHh
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFE-RFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHH 122 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~-~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ 122 (299)
-++..|||||+||--++.++|..||. -||.|+.+-|-.|+.-.-++|-|=|+|.+...-.+||.+
T Consensus 367 lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 367 IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhh
Confidence 45678999999999999999999998 799999999999977888999999999999999999963
No 118
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=97.63 E-value=0.00031 Score=57.29 Aligned_cols=75 Identities=21% Similarity=0.278 Sum_probs=53.0
Q ss_pred CCCEEEEeCCC------CCCCH---HHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCC
Q 043443 60 NHGSLLVRNIP------LDCRP---EELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAG 130 (299)
Q Consensus 60 ~~~~l~V~nLp------~~~te---~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~G 130 (299)
+..||.|.=+. ..+.+ .+|.+.|..||+|.-|.++- +..+|+|.+-+.|.+|+. |+|..|+|
T Consensus 26 pDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~--------~~mwVTF~dg~sALaals-~dg~~v~g 96 (146)
T PF08952_consen 26 PDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVG--------DTMWVTFRDGQSALAALS-LDGIQVNG 96 (146)
T ss_dssp TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEET--------TCEEEEESSCHHHHHHHH-GCCSEETT
T ss_pred CCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeC--------CeEEEEECccHHHHHHHc-cCCcEECC
Confidence 34577776554 12332 36788889999998888874 468999999999999998 89999999
Q ss_pred eeEEEEEcccCCC
Q 043443 131 REISVVLAAESRK 143 (299)
Q Consensus 131 r~i~V~~a~~~~~ 143 (299)
+.|+|.+..+...
T Consensus 97 ~~l~i~LKtpdW~ 109 (146)
T PF08952_consen 97 RTLKIRLKTPDWL 109 (146)
T ss_dssp EEEEEEE------
T ss_pred EEEEEEeCCccHH
Confidence 9999999887553
No 119
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=97.58 E-value=0.00038 Score=66.83 Aligned_cols=65 Identities=23% Similarity=0.435 Sum_probs=49.5
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCC---CCCCCcc---EEEEEEcCHHHHHHHHHhh
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDY---YTGEPRG---FAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~---~~g~~~g---~afVeF~~~~~A~~Al~~l 123 (299)
..-..+||||+||++++|++|...|..||.|. |++.... .--.++| |+|+.|+++..+..-|.++
T Consensus 256 ~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129|consen 256 PRYSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred cccccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence 34568999999999999999999999999874 4554211 1123456 9999999988877766654
No 120
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.56 E-value=0.00017 Score=73.14 Aligned_cols=83 Identities=27% Similarity=0.416 Sum_probs=72.7
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCC--eeEE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAG--REIS 134 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~G--r~i~ 134 (299)
.....+.|||++|..++....|..+|..||.|..|++-. ..-||+|.|++...|+.|++.|-|..|++ +.|.
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h------gq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~r 524 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH------GQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLR 524 (975)
T ss_pred ccccceeeccCCCCCCChHHHHHHHhhccCcceeeeccc------CCcceeeecccCccchhhHHHHhcCcCCCCCcccc
Confidence 566788999999999999999999999999999998853 35799999999999999999999999975 6799
Q ss_pred EEEcccCCCCc
Q 043443 135 VVLAAESRKRP 145 (299)
Q Consensus 135 V~~a~~~~~~~ 145 (299)
|.|+......+
T Consensus 525 vdla~~~~~~P 535 (975)
T KOG0112|consen 525 VDLASPPGATP 535 (975)
T ss_pred cccccCCCCCh
Confidence 99988654443
No 121
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.54 E-value=0.00022 Score=63.88 Aligned_cols=66 Identities=26% Similarity=0.316 Sum_probs=52.6
Q ss_pred HHHHHHHHhcCCCEeEEEeccCCCCCC-CccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 75 PEELRAPFERFGVVRDVYLPKDYYTGE-PRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 75 e~dL~~~F~~~G~I~~v~i~~d~~~g~-~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
++++++.+++||+|..|.|...+..-. -.--.||+|+..+.|.+|+-.|||..|+|+.+..+|..-
T Consensus 300 ede~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ 366 (378)
T KOG1996|consen 300 EDETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNL 366 (378)
T ss_pred HHHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccH
Confidence 356778889999999988776543221 123579999999999999999999999999998887653
No 122
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=97.25 E-value=0.00023 Score=67.52 Aligned_cols=79 Identities=22% Similarity=0.302 Sum_probs=65.2
Q ss_pred CCCCCCCCEEEEeCCCCCC-CHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeE
Q 043443 55 RRKEQNHGSLLVRNIPLDC-RPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREI 133 (299)
Q Consensus 55 ~~~~~~~~~l~V~nLp~~~-te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i 133 (299)
+.-..+.+.|-|.-++..+ +.++|..+|.+||+|..|.|-.. .-.|+|+|.+..+|-.|.. .++..|+++.|
T Consensus 366 g~~~~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~~-s~~avlnnr~i 438 (526)
T KOG2135|consen 366 GHAVVDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAYA-SHGAVLNNRFI 438 (526)
T ss_pred cchhcccchhhhhccCCCCchHhhhhhhhhhcCccccccccCc------hhhheeeeeccccccchhc-cccceecCcee
Confidence 3345566777777777765 66899999999999999988654 3579999999999977775 69999999999
Q ss_pred EEEEccc
Q 043443 134 SVVLAAE 140 (299)
Q Consensus 134 ~V~~a~~ 140 (299)
+|.|-++
T Consensus 439 Kl~whnp 445 (526)
T KOG2135|consen 439 KLFWHNP 445 (526)
T ss_pred EEEEecC
Confidence 9999876
No 123
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=97.22 E-value=0.00058 Score=67.63 Aligned_cols=82 Identities=24% Similarity=0.154 Sum_probs=66.9
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeE-EEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRD-VYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~-v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
......+|||..||..+++.++.++|.+.-.|++ |.|..-+ ++...+.|||+|.+++++..|+..-+.+.+..+.|.|
T Consensus 430 P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~irv 508 (944)
T KOG4307|consen 430 PGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRIIRV 508 (944)
T ss_pred CCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccccccCceEEEe
Confidence 3445789999999999999999999999888877 5555443 6677899999999999998888766667778888888
Q ss_pred EEcc
Q 043443 136 VLAA 139 (299)
Q Consensus 136 ~~a~ 139 (299)
.-..
T Consensus 509 ~si~ 512 (944)
T KOG4307|consen 509 DSIA 512 (944)
T ss_pred echh
Confidence 7544
No 124
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=97.16 E-value=0.00035 Score=64.74 Aligned_cols=74 Identities=24% Similarity=0.305 Sum_probs=55.3
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcC----CCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERF----GVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~----G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
+.-.|-+.+||+++++.||.+||..- |.++.|.++.. .+|+..|-|||.|..+++|+.||.+ |...|+-+.|.|
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 34566778999999999999999632 23445555443 3688999999999999999999985 555555555544
No 125
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=97.12 E-value=0.0025 Score=44.44 Aligned_cols=55 Identities=18% Similarity=0.212 Sum_probs=45.4
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcC---CCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERF---GVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~---G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
...|+|.+|. +++.+||+.+|..| .....|.++.| .-|-|.|.+.+.|..||.+|
T Consensus 5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdD-------tScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDD-------TSCNVVFKDEETAARALVAL 62 (62)
T ss_pred eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecC-------CcEEEEECCHHHHHHHHHcC
Confidence 4689999995 58889999999988 23557888877 36889999999999999865
No 126
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=97.06 E-value=0.03 Score=48.20 Aligned_cols=57 Identities=14% Similarity=0.029 Sum_probs=35.2
Q ss_pred CCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHH--hhCCceeC
Q 043443 73 CRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQH--HMNGKRFA 129 (299)
Q Consensus 73 ~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~--~lng~~l~ 129 (299)
-+.--|.+-+...|.|---.-...++.....-+-|-.=.+.++|++||. .|+|.+|-
T Consensus 28 d~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelr 86 (256)
T KOG4207|consen 28 DDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELR 86 (256)
T ss_pred HHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceee
Confidence 3455677777777776432211112222223355666778999999995 68999984
No 127
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.98 E-value=4.6e-05 Score=76.72 Aligned_cols=69 Identities=23% Similarity=0.285 Sum_probs=60.3
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA 129 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~ 129 (299)
..++||.||+..+.+.+|...|..+|.|..|.+....+++..+|+|||+|...+++.+||...+...++
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 357899999999999999999999999888877666678899999999999999999999866665555
No 128
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=96.95 E-value=0.00041 Score=70.09 Aligned_cols=81 Identities=20% Similarity=0.223 Sum_probs=72.2
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
...|||.|+|+..|.++|+.+|.++|.++.+.++..+ .|+++|.|||.|.+..+|..++..++...+.-..+.|+++.+
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 4689999999999999999999999999998877664 789999999999999999999999999888888888888665
Q ss_pred CC
Q 043443 141 SR 142 (299)
Q Consensus 141 ~~ 142 (299)
..
T Consensus 815 ~~ 816 (881)
T KOG0128|consen 815 ER 816 (881)
T ss_pred cc
Confidence 33
No 129
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=96.88 E-value=0.0056 Score=44.31 Aligned_cols=67 Identities=18% Similarity=0.302 Sum_probs=41.0
Q ss_pred EEEEe-CCCCCCCHHHHHHHHhcCC-----CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 63 SLLVR-NIPLDCRPEELRAPFERFG-----VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 63 ~l~V~-nLp~~~te~dL~~~F~~~G-----~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
+|||. +--..++..+|..+|...+ .|-.|+|.. .|+||+... +.|+.++..|++..++|+.|.|+
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 RLFINVGRKDGLTPRDIVGAICNEAGIPGRDIGRIDIFD--------NFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp EEEES-SGGGT--HHHHHHHHHTCTTB-GGGEEEEEE-S--------S-EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred EEEEEcccccCCCHHHHHHHHHhccCCCHHhEEEEEEee--------eEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence 45552 1145688999999998765 455777764 499999976 58899999999999999999998
Q ss_pred Ec
Q 043443 137 LA 138 (299)
Q Consensus 137 ~a 138 (299)
.|
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 75
No 130
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=96.83 E-value=0.00093 Score=62.76 Aligned_cols=73 Identities=25% Similarity=0.372 Sum_probs=58.9
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcC--CCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCc-eeCCeeEEEEEc
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERF--GVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGK-RFAGREISVVLA 138 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~--G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~-~l~Gr~i~V~~a 138 (299)
..|||+||...++..||..+|... +.-..+ |++ .||+||.+.+...|.+|++.|+|+ ++.|..+.|++.
T Consensus 2 nklyignL~p~~~psdl~svfg~ak~~~~g~f-l~k-------~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~s 73 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQF-LVK-------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHS 73 (584)
T ss_pred CcccccccCCCCChHHHHHHhccccCCCCcce-eee-------cceeeccCCchhhhhhhHHhhchhhhhcCceeeccch
Confidence 479999999999999999999754 211122 232 489999999999999999999997 588999999887
Q ss_pred ccCC
Q 043443 139 AESR 142 (299)
Q Consensus 139 ~~~~ 142 (299)
-++.
T Consensus 74 v~kk 77 (584)
T KOG2193|consen 74 VPKK 77 (584)
T ss_pred hhHH
Confidence 6543
No 131
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=96.77 E-value=0.002 Score=62.51 Aligned_cols=56 Identities=25% Similarity=0.409 Sum_probs=44.8
Q ss_pred CCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC----CeeEEEEEccc
Q 043443 85 FGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA----GREISVVLAAE 140 (299)
Q Consensus 85 ~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~----Gr~i~V~~a~~ 140 (299)
.|.-..+.++.|..+..+.|||||.|.+.+++..+.+++||+.|+ .+.+.|.||.-
T Consensus 413 ~gtYDFlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArI 472 (549)
T KOG4660|consen 413 KGTYDFLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARI 472 (549)
T ss_pred cCccceEEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhh
Confidence 455556777778777889999999999999999999999999764 34556777764
No 132
>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=96.70 E-value=0.0064 Score=44.84 Aligned_cols=56 Identities=18% Similarity=0.281 Sum_probs=43.0
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCC
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNG 125 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng 125 (299)
.+.+||+ +|...-..||.++|..||.|. |.++.| .-|||.+.+.+.|..|+..++-
T Consensus 9 dHVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~d-------TSAfV~l~~r~~~~~v~~~~~~ 64 (87)
T PF08675_consen 9 DHVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWIND-------TSAFVALHNRDQAKVVMNTLKK 64 (87)
T ss_dssp CCEEEEE---TT--HHHHHHHCCCCCCEE-EEEECT-------TEEEEEECCCHHHHHHHHHHTT
T ss_pred ceEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcC-------CcEEEEeecHHHHHHHHHHhcc
Confidence 4567776 999999999999999999985 545544 4899999999999999988753
No 133
>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=96.69 E-value=0.0022 Score=54.58 Aligned_cols=83 Identities=17% Similarity=0.253 Sum_probs=51.9
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhc-CCCE---eEEE--eccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCC-
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFER-FGVV---RDVY--LPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAG- 130 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~-~G~I---~~v~--i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~G- 130 (299)
+...++|.|.+||+.+||+++.+.+.. ++.. .++. +...........-|||.|.+.+++...+..++|..|-+
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 345679999999999999999987766 5555 3343 21111122234679999999999999999999988743
Q ss_pred ----eeEEEEEccc
Q 043443 131 ----REISVVLAAE 140 (299)
Q Consensus 131 ----r~i~V~~a~~ 140 (299)
....|++|.-
T Consensus 84 kg~~~~~~VE~Apy 97 (176)
T PF03467_consen 84 KGNEYPAVVEFAPY 97 (176)
T ss_dssp TS-EEEEEEEE-SS
T ss_pred CCCCcceeEEEcch
Confidence 2456777764
No 134
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=96.66 E-value=0.0084 Score=48.61 Aligned_cols=76 Identities=24% Similarity=0.287 Sum_probs=57.7
Q ss_pred CCCCCCCEEEEeCCCCCCC-HHH---HHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCe
Q 043443 56 RKEQNHGSLLVRNIPLDCR-PEE---LRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGR 131 (299)
Q Consensus 56 ~~~~~~~~l~V~nLp~~~t-e~d---L~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr 131 (299)
..+.+..||.|.=|..++. .+| |...+..||+|..|.+.- +.-|+|.|.+...|-.|+.+++. ..-|.
T Consensus 81 ~kepPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cG-------rqsavVvF~d~~SAC~Av~Af~s-~~pgt 152 (166)
T PF15023_consen 81 TKEPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCG-------RQSAVVVFKDITSACKAVSAFQS-RAPGT 152 (166)
T ss_pred CCCCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecC-------CceEEEEehhhHHHHHHHHhhcC-CCCCc
Confidence 4567788999987766653 234 455667899999998764 46899999999999999998876 45566
Q ss_pred eEEEEEcc
Q 043443 132 EISVVLAA 139 (299)
Q Consensus 132 ~i~V~~a~ 139 (299)
.+.+.|-.
T Consensus 153 m~qCsWqq 160 (166)
T PF15023_consen 153 MFQCSWQQ 160 (166)
T ss_pred eEEeeccc
Confidence 77777643
No 135
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=96.66 E-value=0.0019 Score=57.09 Aligned_cols=75 Identities=24% Similarity=0.327 Sum_probs=60.0
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce----eCCeeEEEEE
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR----FAGREISVVL 137 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~----l~Gr~i~V~~ 137 (299)
..|+|.||...++.+.|...|..||+|....++.| ..++..+-++|+|...-.|.+|+..++-.- +.+..+.|..
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 68999999999999999999999999987666555 367888999999999999999998774332 3344544443
No 136
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=96.66 E-value=0.0088 Score=54.07 Aligned_cols=73 Identities=18% Similarity=0.207 Sum_probs=56.0
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeE-EEEEcc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREI-SVVLAA 139 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i-~V~~a~ 139 (299)
.+=|.|.++|... ...|..+|.+||+|++..... +-.|-+|.|.+..+|++||. .||++|+|..| -|..+.
T Consensus 197 D~WVTVfGFppg~-~s~vL~~F~~cG~Vvkhv~~~------ngNwMhirYssr~~A~KALs-kng~ii~g~vmiGVkpCt 268 (350)
T KOG4285|consen 197 DTWVTVFGFPPGQ-VSIVLNLFSRCGEVVKHVTPS------NGNWMHIRYSSRTHAQKALS-KNGTIIDGDVMIGVKPCT 268 (350)
T ss_pred cceEEEeccCccc-hhHHHHHHHhhCeeeeeecCC------CCceEEEEecchhHHHHhhh-hcCeeeccceEEeeeecC
Confidence 5667777887753 456788999999998776542 25699999999999999998 49999988654 465555
Q ss_pred cC
Q 043443 140 ES 141 (299)
Q Consensus 140 ~~ 141 (299)
++
T Consensus 269 Dk 270 (350)
T KOG4285|consen 269 DK 270 (350)
T ss_pred CH
Confidence 43
No 137
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=96.63 E-value=0.00041 Score=70.42 Aligned_cols=79 Identities=18% Similarity=0.293 Sum_probs=65.4
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
..+.+||++||+..+++.+|...|..+|.|..|+|...+ -+....||||.|.+...+..|+..|.+..|..-.+.+-+.
T Consensus 370 ~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~-~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~glG 448 (975)
T KOG0112|consen 370 RATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPH-IKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRIGLG 448 (975)
T ss_pred hhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCC-CCcccchhhhhhhccccCcccchhhcCCccccCccccccc
Confidence 357899999999999999999999999999999987653 2344569999999999999999999988876545444444
No 138
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=96.57 E-value=0.00087 Score=61.35 Aligned_cols=81 Identities=19% Similarity=0.306 Sum_probs=61.7
Q ss_pred CCEEEEeCCCCCCCHH-HHH--HHHhcCCCEeEEEeccCCC---CCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEE
Q 043443 61 HGSLLVRNIPLDCRPE-ELR--APFERFGVVRDVYLPKDYY---TGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREIS 134 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~-dL~--~~F~~~G~I~~v~i~~d~~---~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~ 134 (299)
..-+||-+|+..+..+ .|+ +.|.+||.|..|.+..+.. ......-++|+|+..++|..||...+|..++|+.|+
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 3567888888776444 443 6789999999998877652 111233489999999999999999999999999988
Q ss_pred EEEcccC
Q 043443 135 VVLAAES 141 (299)
Q Consensus 135 V~~a~~~ 141 (299)
+.+...+
T Consensus 157 a~~gttk 163 (327)
T KOG2068|consen 157 ASLGTTK 163 (327)
T ss_pred HhhCCCc
Confidence 7776654
No 139
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=96.25 E-value=0.037 Score=43.30 Aligned_cols=68 Identities=19% Similarity=0.155 Sum_probs=49.6
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCC
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAG 130 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~G 130 (299)
...+.+...|+.++.++|..+.+.+- .|..+.|+++. ..++-.++|.|.+.++|..-.+.+||+.|+-
T Consensus 13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~--~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns 81 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDG--TPNRYMVLIKFRDQESADEFYEEFNGKPFNS 81 (110)
T ss_pred ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCC--CCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 34455555566666677776666653 56678888763 2355678899999999999999999998763
No 140
>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells. Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.
Probab=96.13 E-value=0.015 Score=49.70 Aligned_cols=62 Identities=21% Similarity=0.274 Sum_probs=46.7
Q ss_pred CHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC--CceeCCeeEEEEEcccC
Q 043443 74 RPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN--GKRFAGREISVVLAAES 141 (299)
Q Consensus 74 te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln--g~~l~Gr~i~V~~a~~~ 141 (299)
..+.|+++|..|+.+..+.+... -+-.+|.|.+.++|..|...|+ +..|.|..|+|.++...
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 45889999999999888776644 4678999999999999999999 99999999999998543
No 141
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=96.02 E-value=0.01 Score=57.63 Aligned_cols=69 Identities=20% Similarity=0.299 Sum_probs=54.0
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhc--CCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCC--ceeCCeeEEE
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFER--FGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNG--KRFAGREISV 135 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~--~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng--~~l~Gr~i~V 135 (299)
..|.|+|.-||..+-+++|+.||.. |-.++.|.+..+ .--||+|++..||+.|++.|.- ++|.|+.|..
T Consensus 174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N-------~nWyITfesd~DAQqAykylreevk~fqgKpImA 246 (684)
T KOG2591|consen 174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHN-------DNWYITFESDTDAQQAYKYLREEVKTFQGKPIMA 246 (684)
T ss_pred ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeec-------CceEEEeecchhHHHHHHHHHHHHHhhcCcchhh
Confidence 4578889999999999999999975 667778877654 2579999999999999977643 3566665543
No 142
>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]
Probab=95.63 E-value=0.021 Score=56.62 Aligned_cols=74 Identities=15% Similarity=0.186 Sum_probs=63.9
Q ss_pred CCCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 57 KEQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 57 ~~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
...+..+|||+||...+..+-++.++..+|.|..+..+. |+|.+|..+..+..|+..|+-..++|..|.+.
T Consensus 36 ~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~---------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~ 106 (668)
T KOG2253|consen 36 PLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK---------FGFCEFLKHIGDLRASRLLTELNIDDQKLIEN 106 (668)
T ss_pred CCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh---------hcccchhhHHHHHHHHHHhcccCCCcchhhcc
Confidence 344567999999999999999999999999987765542 99999999999999999999999999988877
Q ss_pred Ecc
Q 043443 137 LAA 139 (299)
Q Consensus 137 ~a~ 139 (299)
...
T Consensus 107 ~d~ 109 (668)
T KOG2253|consen 107 VDE 109 (668)
T ss_pred chh
Confidence 744
No 143
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=95.11 E-value=0.013 Score=59.65 Aligned_cols=74 Identities=20% Similarity=0.255 Sum_probs=62.2
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCcee--CCeeEEEEEccc
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRF--AGREISVVLAAE 140 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l--~Gr~i~V~~a~~ 140 (299)
+.++.|++-..+...|..+|.+||.|..++...+ ...|.|+|...+.|..|+++|+|+++ -|-+.+|.+|+.
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 KQSLENNAVNLTSSSLATLCSDYGSVASAWTLRD------LNMALVSFSSVESAILALDALQGKEVSVTGAPSRVSFAKT 373 (1007)
T ss_pred hhhhhcccccchHHHHHHHHHhhcchhhheeccc------ccchhhhhHHHHHHHHhhhhhcCCcccccCCceeEEeccc
Confidence 4445556666777889999999999999998876 47899999999999999999999985 588899999885
Q ss_pred CC
Q 043443 141 SR 142 (299)
Q Consensus 141 ~~ 142 (299)
-.
T Consensus 374 ~~ 375 (1007)
T KOG4574|consen 374 LP 375 (1007)
T ss_pred cc
Confidence 43
No 144
>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=94.89 E-value=0.16 Score=35.99 Aligned_cols=56 Identities=16% Similarity=0.287 Sum_probs=43.9
Q ss_pred CCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEE
Q 043443 72 DCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVV 136 (299)
Q Consensus 72 ~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~ 136 (299)
.++.+||+..|.+|+-. .|. .++ .| -||.|.+..+|+.+....|+..+.+..|.++
T Consensus 11 ~~~v~d~K~~Lr~y~~~-~I~--~d~-----tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M~ 66 (66)
T PF11767_consen 11 GVTVEDFKKRLRKYRWD-RIR--DDR-----TG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQME 66 (66)
T ss_pred CccHHHHHHHHhcCCcc-eEE--ecC-----CE-EEEEECChHHHHHHHHhcCCCEEEEEEEEeC
Confidence 46889999999999642 333 332 23 4899999999999999999999988887653
No 145
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=94.67 E-value=0.016 Score=53.09 Aligned_cols=81 Identities=14% Similarity=0.046 Sum_probs=66.1
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
..+++||+++.+.+.+.++..+|..+|.+..+.+.........+++++|.|...+.+..||.......+.+..+...+.+
T Consensus 87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~ 166 (285)
T KOG4210|consen 87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNT 166 (285)
T ss_pred ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCcccc
Confidence 47899999999999999999999999988877776656677889999999999999999998544456666666655554
Q ss_pred c
Q 043443 140 E 140 (299)
Q Consensus 140 ~ 140 (299)
.
T Consensus 167 ~ 167 (285)
T KOG4210|consen 167 R 167 (285)
T ss_pred c
Confidence 3
No 146
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=94.30 E-value=0.16 Score=49.97 Aligned_cols=81 Identities=19% Similarity=0.256 Sum_probs=60.1
Q ss_pred CCCCCEEEEeCCCCC-CCHHHHHHHHhcC----CCEeEEEeccCC----------CCCC---------------------
Q 043443 58 EQNHGSLLVRNIPLD-CRPEELRAPFERF----GVVRDVYLPKDY----------YTGE--------------------- 101 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~-~te~dL~~~F~~~----G~I~~v~i~~d~----------~~g~--------------------- 101 (299)
...+.+|-|.||.|+ +...||..+|..| |.|..|.|.... .+|.
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 456789999999997 6888999999876 578887765321 1111
Q ss_pred ----------------CccEEEEEEcCHHHHHHHHHhhCCceeCCe--eEEEEEc
Q 043443 102 ----------------PRGFAFVQFVDPYEAAEAQHHMNGKRFAGR--EISVVLA 138 (299)
Q Consensus 102 ----------------~~g~afVeF~~~~~A~~Al~~lng~~l~Gr--~i~V~~a 138 (299)
..=||+|+|.+++.|.+.+..|+|++|... .|-+.|.
T Consensus 251 ~~~~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~~~DLRFI 305 (650)
T KOG2318|consen 251 EDVDREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSANKLDLRFI 305 (650)
T ss_pred hhHHHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccceeeeeec
Confidence 012899999999999999999999999754 4444443
No 147
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=93.83 E-value=0.18 Score=48.19 Aligned_cols=69 Identities=20% Similarity=0.297 Sum_probs=57.3
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcC-CCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCC
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERF-GVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAG 130 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~-G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~G 130 (299)
..+.|+|-.+|..++..||..|+..| -.|..|.|++|. -.+.=.++|.|.+.++|....+.+||+.|+.
T Consensus 73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~--~pnrymvLIkFr~q~da~~Fy~efNGk~Fn~ 142 (493)
T KOG0804|consen 73 SSTMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDG--MPNRYMVLIKFRDQADADTFYEEFNGKQFNS 142 (493)
T ss_pred CCcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecC--CCceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence 37899999999999999999998876 467889998853 2233456899999999999999999998864
No 148
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=91.90 E-value=0.19 Score=42.49 Aligned_cols=77 Identities=16% Similarity=0.232 Sum_probs=57.8
Q ss_pred CCCCEEEEeCCCCCCCH-----HHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCe-e
Q 043443 59 QNHGSLLVRNIPLDCRP-----EELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGR-E 132 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te-----~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr-~ 132 (299)
+..++|++.+|+..+.. ...+.+|.+|.+...+.+.+. .++.-|.|.+++.|..|..+++...|.|. .
T Consensus 8 dlp~~~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lrs------frrvRi~f~~p~~a~~a~i~~~~~~f~~~~~ 81 (193)
T KOG4019|consen 8 DLPTAIIACDIHEEVFVNREDKALFENLFRQINEDATFQLLRS------FRRVRINFSNPEAAADARIKLHSTSFNGKNE 81 (193)
T ss_pred cccceeeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHHh------hceeEEeccChhHHHHHHHHhhhcccCCCce
Confidence 34567888998776532 234566777776666666543 46777899999999999999999999998 8
Q ss_pred EEEEEcccC
Q 043443 133 ISVVLAAES 141 (299)
Q Consensus 133 i~V~~a~~~ 141 (299)
|+..++...
T Consensus 82 ~k~yfaQ~~ 90 (193)
T KOG4019|consen 82 LKLYFAQPG 90 (193)
T ss_pred EEEEEccCC
Confidence 888888753
No 149
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=90.58 E-value=0.012 Score=55.41 Aligned_cols=78 Identities=18% Similarity=0.311 Sum_probs=63.9
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
....|.|.|||....|+.|..++.+||.|+.|..+.. ..-.-..-|+|...+.+..||.+|||..|....++|.|-.
T Consensus 79 rsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvnt---~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~~YiP 155 (584)
T KOG2193|consen 79 RSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVNT---DSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKVGYIP 155 (584)
T ss_pred HhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhcc---chHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhcccCc
Confidence 3567899999999999999999999999998866432 1112334578899999999999999999999999998865
Q ss_pred c
Q 043443 140 E 140 (299)
Q Consensus 140 ~ 140 (299)
.
T Consensus 156 d 156 (584)
T KOG2193|consen 156 D 156 (584)
T ss_pred h
Confidence 4
No 150
>KOG4410 consensus 5-formyltetrahydrofolate cyclo-ligase [Coenzyme transport and metabolism]
Probab=89.54 E-value=1.1 Score=40.47 Aligned_cols=47 Identities=15% Similarity=0.273 Sum_probs=36.5
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCE-eEEEeccCCCCCCCccEEEEEEcCH
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVV-RDVYLPKDYYTGEPRGFAFVQFVDP 113 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I-~~v~i~~d~~~g~~~g~afVeF~~~ 113 (299)
.+-|+|+||+.++...||+..+.+.+.+ ..|.+. .+.+-||+.|.+.
T Consensus 330 ~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk------g~~~k~flh~~~~ 377 (396)
T KOG4410|consen 330 KTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK------GHFGKCFLHFGNR 377 (396)
T ss_pred ccceeeccCccccchHHHHHHHHhcCCCceeEeee------cCCcceeEecCCc
Confidence 4569999999999999999999988754 344443 3367899999754
No 151
>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=89.43 E-value=0.82 Score=32.50 Aligned_cols=62 Identities=21% Similarity=0.279 Sum_probs=46.2
Q ss_pred HHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 76 EELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 76 ~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
++|.+.|...| +|..|.-+....+..+....||+++...+... .|+=+.|++..|+|+....
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~~~~~~k~pl~mf~veL~p~~~~k~---i~~Ik~l~~~~V~vE~~~k 64 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNMHSRNTKKPLNMFFVELEPKPNNKE---IYKIKTLCGQRVKVERPRK 64 (68)
T ss_pred HHHHHHHHHcCCceEEEEccccCCCCCCceEEEEeeccCccccc---eeehHhhCCeEEEEecCCC
Confidence 46777777766 77788777777777888899999987655333 4566788999999987654
No 152
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=89.27 E-value=0.67 Score=32.95 Aligned_cols=62 Identities=18% Similarity=0.217 Sum_probs=47.1
Q ss_pred HHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 76 EELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 76 ~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
.+|++.|...| ++..|..+....+..+...-||+.....+... .|+-+.|++..|.|+-...
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m~~~~~r~P~nmf~vel~~~~~~~~---Il~ik~Lg~~~V~VEr~~k 64 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNMLNRDTKNPQNMFEVELVPAANGKE---ILNIKTLGGQRVTVERPHK 64 (69)
T ss_pred HHHHHHHHHcCCceeEEEcccccCCCCcceeEEEEeeecCCCcc---eEeehhhCCeeEEEecCcc
Confidence 46788888887 67888888877777888899999987654444 4566788999999886543
No 153
>KOG4483 consensus Uncharacterized conserved protein [Function unknown]
Probab=89.24 E-value=0.87 Score=43.02 Aligned_cols=58 Identities=24% Similarity=0.260 Sum_probs=48.0
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCE-eEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHh
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVV-RDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHH 122 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I-~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ 122 (299)
.+-.+.|-|.++|...-.+||..+|..|+.- ..|.|+-+ ..||..|.+...|..||..
T Consensus 388 ~dlpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDd-------thalaVFss~~~AaeaLt~ 446 (528)
T KOG4483|consen 388 SDLPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDD-------THALAVFSSVNRAAEALTL 446 (528)
T ss_pred ccccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeec-------ceeEEeecchHHHHHHhhc
Confidence 3457899999999999999999999999753 45666655 4899999999999999873
No 154
>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=85.76 E-value=1.4 Score=34.84 Aligned_cols=57 Identities=26% Similarity=0.251 Sum_probs=30.0
Q ss_pred CEEEEeCCCCC---------CCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEc-CHHHHHHHHH
Q 043443 62 GSLLVRNIPLD---------CRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFV-DPYEAAEAQH 121 (299)
Q Consensus 62 ~~l~V~nLp~~---------~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~-~~~~A~~Al~ 121 (299)
-+++|.|++.. ++.++|.+.|..|..++-..+ .++ ....++++|+|. +..-...|+.
T Consensus 9 wmgIi~N~~~~~~~~g~~~g~~~~~l~~~l~~f~p~kv~~l-~~~--~gh~g~aiv~F~~~w~Gf~~A~~ 75 (116)
T PF03468_consen 9 WMGIIVNIPTEKDDDGRWVGMSNEELLDKLAEFNPLKVKPL-YGK--QGHTGFAIVEFNKDWSGFKNAMR 75 (116)
T ss_dssp -EEEEE----EE-TTS-EE---SHHHHHHHHH---SEEEEE-EET--TEEEEEEEEE--SSHHHHHHHHH
T ss_pred CEEEEEcCccccCCCCceeccCHHHHHHHHHhcCCceeEEC-cCC--CCCcEEEEEEECCChHHHHHHHH
Confidence 46778888554 355789999999987754333 332 255789999997 4455555554
No 155
>KOG4365 consensus Uncharacterized conserved protein [Function unknown]
Probab=82.12 E-value=0.24 Score=47.23 Aligned_cols=78 Identities=3% Similarity=-0.148 Sum_probs=62.9
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
...|+..|+..+++.+|.-+|..||.|..+++...-+.+...-.+||...+ .+|..+|+.|.-..+.|..+.|.++..
T Consensus 4 ~~~~l~d~~~~~~~~~~~~~~~d~~~i~~~d~~~~~~~~~~~v~~f~~~~~-~~~~~~i~~~k~q~~~~~~~r~~~~~~ 81 (572)
T KOG4365|consen 4 MKKSLKDSVASNNKDQNSMKHEDPSIISMEDGSPYVNGSLGEVTPFQHAKK-ANGPNYIQPQKRQTTFESQDRKAVSPS 81 (572)
T ss_pred hhhhHhhcccccccchhhhhccCCcceeeccCCccccCCcceeeeeeeeec-cCcccccCHHHHhhhhhhhhhhhcCch
Confidence 456788899999999999999999999988887665566667788887765 677788877777777888888888763
No 156
>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=80.74 E-value=3.9 Score=37.30 Aligned_cols=82 Identities=15% Similarity=0.278 Sum_probs=58.1
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCC-------CCCCCccEEEEEEcCHHHHHHHHH----hhCC-
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDY-------YTGEPRGFAFVQFVDPYEAAEAQH----HMNG- 125 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~-------~~g~~~g~afVeF~~~~~A~~Al~----~lng- 125 (299)
+--+..|.+.||...++-..+...|.+||.|+.|.++.+. ...+....+.+-|-+.+.|..... .|.-
T Consensus 12 ~YrTRSLLfeNv~~sidLh~Fl~~fv~~~pIESiYL~~~~~~~~d~~~~d~~~~SilLSFlsr~~CLdFYNnvLQrLsEf 91 (309)
T PF10567_consen 12 EYRTRSLLFENVNNSIDLHSFLTKFVKFGPIESIYLIKSNDKPSDDYNDDKNNQSILLSFLSREICLDFYNNVLQRLSEF 91 (309)
T ss_pred cceeHHHHHhhccccccHHHHHHHhhccCceeEEEEecCCCcccccccccccceEEEEeeechHHHHHHHHHHHHHHHHH
Confidence 3345678889999999999999999999999999998764 122345678899998888766542 2221
Q ss_pred -ceeCCeeEEEEEcc
Q 043443 126 -KRFAGREISVVLAA 139 (299)
Q Consensus 126 -~~l~Gr~i~V~~a~ 139 (299)
+.|.-..|.|.+..
T Consensus 92 K~~L~S~~L~lsFV~ 106 (309)
T PF10567_consen 92 KTKLKSESLTLSFVS 106 (309)
T ss_pred HHhcCCcceeEEEEE
Confidence 23556666666554
No 157
>COG5638 Uncharacterized conserved protein [Function unknown]
Probab=80.33 E-value=7.2 Score=37.19 Aligned_cols=73 Identities=19% Similarity=0.263 Sum_probs=52.5
Q ss_pred CCCCCEEEEeCCCCC-CCHHHHHHHHhcC----CCEeEEEeccCCC----------CC----------------------
Q 043443 58 EQNHGSLLVRNIPLD-CRPEELRAPFERF----GVVRDVYLPKDYY----------TG---------------------- 100 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~-~te~dL~~~F~~~----G~I~~v~i~~d~~----------~g---------------------- 100 (299)
..++..|-|-||.|+ +...+|..+|..| |.|..|.|..... .|
T Consensus 143 G~~tkrLAvVnmDWd~v~a~DLf~~fsSf~P~ggkl~kV~iypsefGkeRm~~e~vqGpprdif~~~d~~~ssqk~~~dn 222 (622)
T COG5638 143 GNPTKRLAVVNMDWDRVDAKDLFKIFSSFLPYGGKLSKVKIYPSEFGKERMAAEHVQGPPRDIFTPADNQPSSQKFGDDN 222 (622)
T ss_pred CCcccceeEeecccccchHHHHHHHHHhhCCCCCccceeEechhhhhHHHHhHhhccCCchhhccccccCcchhccCCcc
Confidence 456778999999886 6778899988865 5666665542100 00
Q ss_pred ----CC-----------------------------ccEEEEEEcCHHHHHHHHHhhCCceeCC
Q 043443 101 ----EP-----------------------------RGFAFVQFVDPYEAAEAQHHMNGKRFAG 130 (299)
Q Consensus 101 ----~~-----------------------------~g~afVeF~~~~~A~~Al~~lng~~l~G 130 (299)
.- .=||+|+|.+...++..+..|+|.++..
T Consensus 223 ~~sd~d~g~d~~~Egd~g~e~d~~~lrqyqlerlryYyAvvec~d~~tsK~iY~~CDG~Eye~ 285 (622)
T COG5638 223 VFSDRDAGEDALIEGDRGNEFDMVKLRQYQLERLRYYYAVVECEDIETSKNIYSACDGVEYEN 285 (622)
T ss_pred chhhhhcchhhhhhcccccchhHHHHHHHHhhhheeEEEEEEeccchhhHHHHhccCcccccc
Confidence 00 1289999999999999999999998764
No 158
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=79.29 E-value=2.4 Score=36.70 Aligned_cols=64 Identities=27% Similarity=0.321 Sum_probs=45.0
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHH
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQH 121 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~ 121 (299)
......+++.+++..++..++..+|..+|.|..+.+...........+.++.+....++..++.
T Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 285 (306)
T COG0724 222 LEKSDNLYVGNLPLKTAEEELADLFKSRGDIVRASLPPSKDGKIPKSRSFVGNEASKDALESNS 285 (306)
T ss_pred ccccceeeccccccccchhHHHHhccccccceeeeccCCCCCcccccccccchhHHHhhhhhhc
Confidence 3456789999999999999999999999999777776554333344444455544444444444
No 159
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=79.15 E-value=0.77 Score=41.42 Aligned_cols=67 Identities=31% Similarity=0.569 Sum_probs=42.0
Q ss_pred CCEEEEeCCCCC------------CCHHHHHHHHhcCCCEeEEEecc-CC----CCCCC-----ccEE---------EEE
Q 043443 61 HGSLLVRNIPLD------------CRPEELRAPFERFGVVRDVYLPK-DY----YTGEP-----RGFA---------FVQ 109 (299)
Q Consensus 61 ~~~l~V~nLp~~------------~te~dL~~~F~~~G~I~~v~i~~-d~----~~g~~-----~g~a---------fVe 109 (299)
+.|||+.+||-. .++.-|...|+.||.|..|+|+. |+ .+++. .||+ ||+
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeayvq 228 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAYVQ 228 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHHHH
Confidence 457888887642 35677999999999999988753 22 23333 2333 344
Q ss_pred EcCHHHHHHHHHhhCCce
Q 043443 110 FVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 110 F~~~~~A~~Al~~lng~~ 127 (299)
|-.......|+..|.|..
T Consensus 229 fmeykgfa~amdalr~~k 246 (445)
T KOG2891|consen 229 FMEYKGFAQAMDALRGMK 246 (445)
T ss_pred HHHHHhHHHHHHHHhcch
Confidence 544455555666666654
No 160
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=78.62 E-value=30 Score=35.37 Aligned_cols=70 Identities=9% Similarity=0.147 Sum_probs=52.8
Q ss_pred CCEEEEeCC--CCCCCHHHHHHHHhcCCCEe-----EEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeE
Q 043443 61 HGSLLVRNI--PLDCRPEELRAPFERFGVVR-----DVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREI 133 (299)
Q Consensus 61 ~~~l~V~nL--p~~~te~dL~~~F~~~G~I~-----~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i 133 (299)
..++|| || -..++..+|..++..-+.|. .|+|.. .|.||+... ..|...+..|++..+.|+.|
T Consensus 486 ~~~~~~-~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~~--------~~s~v~~~~-~~~~~~~~~~~~~~~~~~~~ 555 (629)
T PRK11634 486 MQLYRI-EVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLFA--------SHSTIELPK-GMPGEVLQHFTRTRILNKPM 555 (629)
T ss_pred CEEEEE-ecccccCCCHHHHHHHHHhhcCCChhhCCcEEEeC--------CceEEEcCh-hhHHHHHHHhccccccCCce
Confidence 344554 34 45688899998887766543 466653 589999975 67889999999999999999
Q ss_pred EEEEccc
Q 043443 134 SVVLAAE 140 (299)
Q Consensus 134 ~V~~a~~ 140 (299)
.|+.+..
T Consensus 556 ~~~~~~~ 562 (629)
T PRK11634 556 NMQLLGD 562 (629)
T ss_pred EEEECCC
Confidence 9998853
No 161
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=78.03 E-value=0.51 Score=41.17 Aligned_cols=75 Identities=21% Similarity=0.342 Sum_probs=58.5
Q ss_pred CCCCEEEEeC----CCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEE
Q 043443 59 QNHGSLLVRN----IPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREIS 134 (299)
Q Consensus 59 ~~~~~l~V~n----Lp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~ 134 (299)
+...+++.|+ |...++++.+.+.|...|.|..+.+..+. ++.+..++||++.-....-.|+...++..+.-+++.
T Consensus 78 e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~-d~rnrn~~~~~~qr~~~~P~~~~~y~~l~~~~~~~~ 156 (267)
T KOG4454|consen 78 EEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDN-DGRNRNFGFVTYQRLCAVPFALDLYQGLELFQKKVT 156 (267)
T ss_pred hhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccc-cCCccCccchhhhhhhcCcHHhhhhcccCcCCCCcc
Confidence 3456777788 78888999999999999999998888765 478899999999887777778877776655444433
No 162
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=75.71 E-value=49 Score=28.13 Aligned_cols=10 Identities=20% Similarity=0.152 Sum_probs=5.7
Q ss_pred CHHHHHHHHH
Q 043443 112 DPYEAAEAQH 121 (299)
Q Consensus 112 ~~~~A~~Al~ 121 (299)
+.+||..+|.
T Consensus 59 DA~DAvr~LD 68 (195)
T KOG0107|consen 59 DAEDAVRYLD 68 (195)
T ss_pred cHHHHHhhcC
Confidence 4566666663
No 163
>KOG2295 consensus C2H2 Zn-finger protein [General function prediction only]
Probab=75.59 E-value=0.38 Score=47.16 Aligned_cols=71 Identities=23% Similarity=0.144 Sum_probs=52.3
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCe
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGR 131 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr 131 (299)
.|.|||.||+++++-++|+.++..+-.+..+.+-..........+++|+|.---+...|+.+||+..+.-.
T Consensus 231 e~sll~rni~Pnis~aeIe~~ck~i~~~lrfals~~~aek~~~r~lwv~fk~~~ni~~a~~aLn~irl~s~ 301 (648)
T KOG2295|consen 231 ECSLLVRNILPNISVAEIENLCKGIPGFLRFALSTINAEKNFERRLWVTFKRGTNIKEACWALNGIRLRSN 301 (648)
T ss_pred HHHHHHhccCCcccHHHHHHHhccCchheeeeccCchHHHHHHHHhhHhhccccchHHHHHHhhhcccccc
Confidence 57899999999999999999998876555555443322233456788999877777778878888766543
No 164
>PRK10629 EnvZ/OmpR regulon moderator; Provisional
Probab=74.87 E-value=24 Score=28.27 Aligned_cols=70 Identities=13% Similarity=0.133 Sum_probs=50.5
Q ss_pred CEEEEeCCCCC---CCHHHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 62 GSLLVRNIPLD---CRPEELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 62 ~~l~V~nLp~~---~te~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
..|.|...... .+...|.+++..-| .++.+.... +-..|.|.+.++..+|.+.|....-++..|.+.+
T Consensus 36 pavQIs~~~~g~~~~~~~~v~~~L~~~gI~~ksi~~~~--------~~~~irf~~~~~Ql~Ak~vL~~~L~~~y~VAlnl 107 (127)
T PRK10629 36 STLAIRAVHQGASLPDGFYVYQHLDANGIHIKSITPEN--------DSLLIRFDSPEQSAAAKEVLDRTLPHGYIIAQQD 107 (127)
T ss_pred ceEEEecCCCCCccchHHHHHHHHHHCCCCcceEEeeC--------CEEEEEECCHHHHHHHHHHHHHHcCCCCEEEEec
Confidence 46777766333 56677888888776 344444432 4789999999999999998887766677777777
Q ss_pred cc
Q 043443 138 AA 139 (299)
Q Consensus 138 a~ 139 (299)
+.
T Consensus 108 ~p 109 (127)
T PRK10629 108 DN 109 (127)
T ss_pred CC
Confidence 65
No 165
>PRK11901 hypothetical protein; Reviewed
Probab=71.88 E-value=9.8 Score=35.30 Aligned_cols=64 Identities=16% Similarity=0.204 Sum_probs=40.8
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEE--EEcCHHHHHHHHHhhCCce
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFV--QFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afV--eF~~~~~A~~Al~~lng~~ 127 (299)
...++|.|..+ ..++.|..|..+.+ +..++|......|+ ..|.+| .|.+.++|+.||..|-...
T Consensus 243 ~~~YTLQL~Aa---s~~~~L~~f~~~~~-L~~~~VYqT~RnGk-pWYVVvyG~Y~Sr~eAk~Ai~sLPa~l 308 (327)
T PRK11901 243 ASHYTLQLSSA---SRSDTLNAYAKKQN-LSHYHVYETKRDGK-PWYVLVSGNYASSAEAKRAIATLPAEV 308 (327)
T ss_pred CCCeEEEeecC---CCHHHHHHHHHHcC-cCceEEEEEEECCc-eEEEEEecCcCCHHHHHHHHHhCCHHH
Confidence 34567777654 45788888887775 44455544322222 234433 6889999999999886544
No 166
>KOG1295 consensus Nonsense-mediated decay protein Upf3 [RNA processing and modification]
Probab=71.30 E-value=4.6 Score=38.11 Aligned_cols=70 Identities=20% Similarity=0.315 Sum_probs=49.0
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCC-EeEEEeccCCC--CCCCccEEEEEEcCHHHHHHHHHhhCCceeC
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGV-VRDVYLPKDYY--TGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA 129 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~-I~~v~i~~d~~--~g~~~g~afVeF~~~~~A~~Al~~lng~~l~ 129 (299)
....|.|.+||..+++++|.+.+..|-. |....+..... -..-.+.|||.|...+++..-...++|.+|.
T Consensus 6 ~~~Kvv~rrlpp~l~~~~~~eqi~p~~~~v~~~~F~~a~~s~~~~~ysrayinFk~~~dv~ef~~~f~g~ifl 78 (376)
T KOG1295|consen 6 AKVKVVVRRLPPKLTEEQLLEQINPFPEHVNWEFFAKADESLRNHKYSRAYINFKNPEDVEEFRRRFDGYIFL 78 (376)
T ss_pred cceeeeeecCCCcccHHHHhhhcCCCccccchheeccccccchhhhhhhhhhccccHHHHHHHHhhCCceEEe
Confidence 3568999999999999999888777532 22222221110 1122568899999999998888889998763
No 167
>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=69.76 E-value=22 Score=23.87 Aligned_cols=54 Identities=11% Similarity=0.131 Sum_probs=40.6
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCH----HHHHHHHHh
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDP----YEAAEAQHH 122 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~----~~A~~Al~~ 122 (299)
||.|.||.=..-...|++.+...-.|..+.+-.. .+.+-|+|... ++..++|+.
T Consensus 1 t~~v~~m~C~~C~~~v~~~l~~~~GV~~v~vd~~------~~~v~v~~~~~~~~~~~i~~~i~~ 58 (62)
T PF00403_consen 1 TFKVPGMTCEGCAKKVEKALSKLPGVKSVKVDLE------TKTVTVTYDPDKTSIEKIIEAIEK 58 (62)
T ss_dssp EEEEESTTSHHHHHHHHHHHHTSTTEEEEEEETT------TTEEEEEESTTTSCHHHHHHHHHH
T ss_pred CEEECCcccHHHHHHHHHHHhcCCCCcEEEEECC------CCEEEEEEecCCCCHHHHHHHHHH
Confidence 5788888766677889999999888888877654 46788888743 566666664
No 168
>PRK14548 50S ribosomal protein L23P; Provisional
Probab=68.29 E-value=18 Score=26.82 Aligned_cols=57 Identities=18% Similarity=0.241 Sum_probs=39.2
Q ss_pred EEEeCCCCCCCHHHHHHHHhc-CC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh
Q 043443 64 LLVRNIPLDCRPEELRAPFER-FG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~~-~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
.|+.-++..++..+|++.++. || .|..|..+.-+ ...--|||.|..-++|......|
T Consensus 23 ~y~F~V~~~anK~eIK~AvE~lf~VkV~~VnT~~~~---~~~KKA~V~L~~g~~A~~va~ki 81 (84)
T PRK14548 23 KLTFIVDRRATKPDIKRAVEELFDVKVEKVNTLITP---KGEKKAYVKLAEEYDAEEIASRL 81 (84)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCcEEEEEEeCCCCcHHHHHHhh
Confidence 444456788999999999887 44 55666554332 22356999999888887776543
No 169
>COG0150 PurM Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]
Probab=67.44 E-value=1.8 Score=40.29 Aligned_cols=48 Identities=17% Similarity=0.168 Sum_probs=38.5
Q ss_pred HHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCc
Q 043443 75 PEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGK 126 (299)
Q Consensus 75 e~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~ 126 (299)
...|.+++.+.|+|..-.|..- -+.|.+||.+-..++++++++.|++.
T Consensus 275 ~p~iF~~i~~~G~v~~~EM~rt----FNmGvG~v~iv~~e~~~~~~~~l~~~ 322 (345)
T COG0150 275 PPPIFKWLQKAGNVEREEMYRT----FNMGVGMVLIVPEEDAEKALALLKEQ 322 (345)
T ss_pred CcHHHHHHHHhcCCCHHHHHHH----hcCccceEEEEcHHHHHHHHHHHHhc
Confidence 4678888899998876655543 34688999999999999999999865
No 170
>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=67.20 E-value=21 Score=26.01 Aligned_cols=57 Identities=18% Similarity=0.237 Sum_probs=38.9
Q ss_pred EEEeCCCCCCCHHHHHHHHhc-CC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh
Q 043443 64 LLVRNIPLDCRPEELRAPFER-FG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~~-~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
-|+..++..++..+|+..++. |+ .|..|..+.-+ ...--|||.+..-++|.+.-..|
T Consensus 16 ~y~F~V~~~anK~eIK~avE~lf~VkV~~Vnt~~~~---~~~KKA~VtL~~g~~a~~va~k~ 74 (77)
T TIGR03636 16 KLTFIVDRKATKGDIKRAVEKLFDVKVEKVNTLITP---RGEKKAYVKLAEEYAAEEIASRL 74 (77)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCceEEEEeEEcC---CCceEEEEEECCCCcHHHHHHhh
Confidence 455667889999999988887 44 45555544322 22346999998877777665443
No 171
>KOG1847 consensus mRNA splicing factor [RNA processing and modification]
Probab=61.01 E-value=6.3 Score=39.69 Aligned_cols=35 Identities=46% Similarity=0.537 Sum_probs=18.6
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 043443 173 SRSLSRSRSPHHPQGSRSRYRSRSYTPVPRQHEDY 207 (299)
Q Consensus 173 srsrsrsrS~~~~~~~r~r~rsrsrs~~~~r~r~r 207 (299)
-|++-+++++-++..+..+.++|++||..++.-.+
T Consensus 730 kRhrkrSrs~~~~~ss~~r~rsRsrSpr~r~re~~ 764 (878)
T KOG1847|consen 730 KRHRKRSRSHELYDSSDNRGRSRSRSPRHRKREDY 764 (878)
T ss_pred hhhcccccccccccccccccccccCCchhhhhhhh
Confidence 33444555655555555566666666654443333
No 172
>KOG4008 consensus rRNA processing protein RRP7 [RNA processing and modification]
Probab=58.19 E-value=12 Score=33.08 Aligned_cols=34 Identities=24% Similarity=0.456 Sum_probs=28.5
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEE
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDV 91 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v 91 (299)
.....+||+-|||..+|++.|..+..++|-+..+
T Consensus 37 ~~eKd~lfl~Nvp~~~tee~lkr~vsqlg~vq~~ 70 (261)
T KOG4008|consen 37 SNEKDCLFLVNVPLLSTEEHLKRFVSQLGHVQEL 70 (261)
T ss_pred cccccceeeecccccccHHHHHHHHHHhhhhhhe
Confidence 3456799999999999999999999998865443
No 173
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=54.55 E-value=5.9 Score=39.93 Aligned_cols=73 Identities=19% Similarity=0.227 Sum_probs=55.2
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
.+||+.|-....+..-|..+|..+++++.+.++.....+....-+|++|.....++.|.. |.+..|....|++
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 PTIFVANGHGGSNPDSLSRHSEKKNELTKAKILTRCKYGPACTSAECEFAHPTAAENAKS-LPNKKFASKCLKS 584 (681)
T ss_pred CceecccccccCCCcchhhCcccccccccceeeccccCCCcCCchhhhhcCCcchhhhhc-cccccccccceec
Confidence 378888877777778888888889988887777666667777789999999888876654 6666665554443
No 174
>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=50.77 E-value=94 Score=22.54 Aligned_cols=61 Identities=11% Similarity=0.217 Sum_probs=42.3
Q ss_pred CCCCCCCHHHHHHHH-hcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 68 NIPLDCRPEELRAPF-ERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 68 nLp~~~te~dL~~~F-~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
.+|.-+.-+||.... ..||+..++.+..+ .-.|-..+.+|..+||+.|+. .-..+.|.|-+
T Consensus 15 ~f~RPvkf~dl~~kv~~afGq~mdl~ytn~--------eL~iPl~~Q~DLDkAie~ld~-s~~~ksLRilL 76 (79)
T cd06405 15 QFPRPVKFKDLQQKVTTAFGQPMDLHYTNN--------ELLIPLKNQEDLDRAIELLDR-SPHMKSLRILL 76 (79)
T ss_pred ecCCCccHHHHHHHHHHHhCCeeeEEEecc--------cEEEeccCHHHHHHHHHHHcc-CccccceeEeE
Confidence 456666667766555 46899888877643 378888999999999998876 33334444443
No 175
>smart00195 DSPc Dual specificity phosphatase, catalytic domain.
Probab=49.53 E-value=60 Score=25.47 Aligned_cols=71 Identities=15% Similarity=0.111 Sum_probs=35.5
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEc--C------HHHHHHHHHhhCCceeCCeeEE
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFV--D------PYEAAEAQHHMNGKRFAGREIS 134 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~--~------~~~A~~Al~~lng~~l~Gr~i~ 134 (299)
.||||++|...+.+.|++. .+..|..+..... .....++-++.|. + .+....|++.++...-.|.+|-
T Consensus 7 ~l~~G~~~~~~~~~~l~~~--gi~~Vi~l~~~~~--~~~~~~~~~~~ipi~D~~~~~~~~~~~~~~~~i~~~~~~~~~Vl 82 (138)
T smart00195 7 HLYLGSYSSALNLALLKKL--GITHVINVTNEVP--NLNKKGFTYLGVPILDNTETKISPYFPEAVEFIEDAEKKGGKVL 82 (138)
T ss_pred CeEECChhHcCCHHHHHHc--CCCEEEEccCCCC--CCCCCCCEEEEEECCCCCCCChHHHHHHHHHHHHHHhcCCCeEE
Confidence 5999999877765555442 3444444422211 1123444454443 2 1233455555554444566665
Q ss_pred EEE
Q 043443 135 VVL 137 (299)
Q Consensus 135 V~~ 137 (299)
|.-
T Consensus 83 VHC 85 (138)
T smart00195 83 VHC 85 (138)
T ss_pred EEC
Confidence 543
No 176
>PTZ00191 60S ribosomal protein L23a; Provisional
Probab=48.39 E-value=50 Score=27.08 Aligned_cols=55 Identities=13% Similarity=0.157 Sum_probs=34.5
Q ss_pred EEEeCCCCCCCHHHHHHHHhc-CC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHH
Q 043443 64 LLVRNIPLDCRPEELRAPFER-FG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQH 121 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~~-~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~ 121 (299)
.||.-+...++..+|++.+++ |+ .|..|..+.-+ ...--|||.|....+|.+...
T Consensus 84 ~yvF~Vd~kAnK~qIK~AVEklf~VkV~kVNTli~p---~g~KKA~V~L~~~~~aidva~ 140 (145)
T PTZ00191 84 TLVFIVDQRANKTQIKKAVEKLYDVKVVKVNTLITP---DGLKKAYIRLSPDVDALDVAN 140 (145)
T ss_pred EEEEEEcCCCCHHHHHHHHHHHhCCeeEEEEeEEcC---CCceEEEEEECCCCcHHHHHH
Confidence 444456778999999988887 44 45555444322 123468999977666554443
No 177
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=47.76 E-value=34 Score=23.79 Aligned_cols=18 Identities=28% Similarity=0.621 Sum_probs=15.2
Q ss_pred HHHHHHHhcCCCEeEEEe
Q 043443 76 EELRAPFERFGVVRDVYL 93 (299)
Q Consensus 76 ~dL~~~F~~~G~I~~v~i 93 (299)
++|.++|+.+|+|.-+.+
T Consensus 9 ~~iR~~fs~lG~I~vLYv 26 (62)
T PF15513_consen 9 AEIRQFFSQLGEIAVLYV 26 (62)
T ss_pred HHHHHHHHhcCcEEEEEE
Confidence 689999999999976554
No 178
>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=46.91 E-value=20 Score=32.95 Aligned_cols=33 Identities=33% Similarity=0.274 Sum_probs=24.9
Q ss_pred EEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 106 AFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 106 afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
|||+|++..+|+.|++.+.... ...+.|+.|.+
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~--~~~~~v~~APe 33 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKR--PNSWRVSPAPE 33 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCC--CCCceEeeCCC
Confidence 7999999999999999665443 34557776654
No 179
>PRK08559 nusG transcription antitermination protein NusG; Validated
Probab=46.40 E-value=1e+02 Score=25.29 Aligned_cols=35 Identities=17% Similarity=0.289 Sum_probs=26.9
Q ss_pred EeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 88 VRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 88 I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
|..|.++.. ..||.||+....+++..+|..+.+..
T Consensus 36 i~~i~vp~~-----fpGYVfVe~~~~~~~~~~i~~v~~v~ 70 (153)
T PRK08559 36 IYAILAPPE-----LKGYVLVEAESKGAVEEAIRGIPHVR 70 (153)
T ss_pred EEEEEccCC-----CCcEEEEEEEChHHHHHHHhcCCCEe
Confidence 556655543 58999999998899999998877643
No 180
>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=46.15 E-value=1e+02 Score=21.79 Aligned_cols=56 Identities=21% Similarity=0.288 Sum_probs=35.5
Q ss_pred EEEeCCCCCCCHHHHHHHHhc-CCCE-eEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC
Q 043443 64 LLVRNIPLDCRPEELRAPFER-FGVV-RDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~~-~G~I-~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln 124 (299)
+++-.|+..++.++|.....+ |+.. ..+.|..... .| -+|.+.+.+|...|+..+.
T Consensus 12 ~~~~~~~~~~s~~dL~~~i~~~~~~~~~~~~l~Y~De----dg-d~v~l~sd~Dl~~a~~~~~ 69 (81)
T smart00666 12 TRRLSVPRDISFEDLRSKVAKRFGLDNQSFTLKYQDE----DG-DLVSLTSDEDLEEAIEEYD 69 (81)
T ss_pred EEEEEECCCCCHHHHHHHHHHHhCCCCCCeEEEEECC----CC-CEEEecCHHHHHHHHHHHH
Confidence 445567788999888877653 4432 1333322211 12 2889999999999998664
No 181
>KOG2888 consensus Putative RNA binding protein [General function prediction only]
Probab=46.02 E-value=13 Score=34.56 Aligned_cols=19 Identities=5% Similarity=0.200 Sum_probs=13.7
Q ss_pred hhhhhHHHHhhcCCCCCCC
Q 043443 4 SLLSSLVFLVQEGSAMRRY 22 (299)
Q Consensus 4 ~~~~~~~~~~~~~~~~~~~ 22 (299)
.++..|-+.|.|-.|--..
T Consensus 84 evideIyyqVkHvEPWekG 102 (453)
T KOG2888|consen 84 EVIDEIYYQVKHVEPWEKG 102 (453)
T ss_pred HHHHHHHHHHhccCchhcC
Confidence 4677788888888775553
No 182
>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=45.77 E-value=58 Score=23.81 Aligned_cols=37 Identities=16% Similarity=0.308 Sum_probs=25.2
Q ss_pred CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCcee
Q 043443 87 VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRF 128 (299)
Q Consensus 87 ~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l 128 (299)
.|..|.... ..+||-|||=.+..++..||+.+.+...
T Consensus 33 ~I~Si~~~~-----~lkGyIyVEA~~~~~V~~ai~gi~~i~~ 69 (84)
T PF03439_consen 33 NIYSIFAPD-----SLKGYIYVEAERESDVKEAIRGIRHIRG 69 (84)
T ss_dssp ---EEEE-T-----TSTSEEEEEESSHHHHHHHHTT-TTEEE
T ss_pred ceEEEEEeC-----CCceEEEEEeCCHHHHHHHHhcccceee
Confidence 445554443 3589999999999999999988766543
No 183
>COG2608 CopZ Copper chaperone [Inorganic ion transport and metabolism]
Probab=45.37 E-value=60 Score=22.86 Aligned_cols=55 Identities=20% Similarity=0.168 Sum_probs=39.0
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcC----HHHHHHHHHh
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVD----PYEAAEAQHH 122 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~----~~~A~~Al~~ 122 (299)
.+|+|.++.=.--...|+..+.....|..+.+-.+ .+.++|+|++ .++...||+.
T Consensus 4 ~~l~v~~MtC~~C~~~V~~al~~v~gv~~v~v~l~------~~~~~V~~d~~~~~~~~i~~ai~~ 62 (71)
T COG2608 4 TTLKVEGMTCGHCVKTVEKALEEVDGVASVDVDLE------KGTATVTFDSNKVDIEAIIEAIED 62 (71)
T ss_pred EEEEECCcCcHHHHHHHHHHHhcCCCeeEEEEEcc------cCeEEEEEcCCcCCHHHHHHHHHH
Confidence 46777777555556788888988888888887765 4669999987 3444455543
No 184
>PF08734 GYD: GYD domain; InterPro: IPR014845 These proteins of unknown function are usually less than 100 amino acids in length. They may belong to the dimeric alpha/beta barrel superfamily.
Probab=44.91 E-value=92 Score=23.17 Aligned_cols=45 Identities=29% Similarity=0.326 Sum_probs=32.0
Q ss_pred HHHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh
Q 043443 75 PEELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 75 e~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
++.++++++++| +|+.+.+.. |.---+.++++.+.+.|.++.-.+
T Consensus 22 ~~a~~~~~e~~Gg~l~~~y~t~----G~yD~v~i~eaPD~~~a~~~~l~i 67 (91)
T PF08734_consen 22 AEAVRALIEALGGKLKSFYWTL----GEYDFVVIVEAPDDETAAAASLAI 67 (91)
T ss_pred HHHHHHHHHHcCCEEEEEEEec----CCCCEEEEEEcCCHHHHHHHHHHH
Confidence 356777777765 777777764 344567888999988888776544
No 185
>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=44.73 E-value=40 Score=25.11 Aligned_cols=48 Identities=21% Similarity=0.233 Sum_probs=29.2
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEc
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFV 111 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~ 111 (299)
..-|||+|++..+.|.-.+.+.+..++-.-+.+..+ ....||+|-++-
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~G~a~m~~~~---~neqG~~~~t~G 72 (86)
T PF09707_consen 25 RPGVYVGNVSARVRERLWERVTEWIGDGSAVMVWSD---NNEQGFDFRTLG 72 (86)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHhhCCCccEEEEEcc---CCCCCEEEEEeC
Confidence 345999999988877655555554433222333322 126789988773
No 186
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=44.45 E-value=90 Score=23.55 Aligned_cols=58 Identities=12% Similarity=0.070 Sum_probs=32.5
Q ss_pred CEEEEeCCCCCCCHHHHHHHHh-------cC-CCEeEEEeccC-----CCCCCCcc-EEEEEEcCHHHHHHHHH
Q 043443 62 GSLLVRNIPLDCRPEELRAPFE-------RF-GVVRDVYLPKD-----YYTGEPRG-FAFVQFVDPYEAAEAQH 121 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~-------~~-G~I~~v~i~~d-----~~~g~~~g-~afVeF~~~~~A~~Al~ 121 (299)
.++|| |.++++++++.+++. .. |+|..+...-. +......| |.++.|....++.+.|+
T Consensus 9 E~~~I--l~p~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~wG~r~LAY~I~k~~~G~Yv~~~f~~~~~~i~ele 80 (97)
T CHL00123 9 ETMYL--LKPDLNEEELLKWIENYKKLLRKRGAKNISVQNRGKRKLSYKINKYEDGIYIQMNYSGNGKLVNSLE 80 (97)
T ss_pred eEEEE--ECCCCCHHHHHHHHHHHHHHHHHCCCEEEEEEeecCeeeeEEcCCCCEEEEEEEEEEECHHHHHHHH
Confidence 35666 456777776665544 33 46665542211 11233445 67888987677766665
No 187
>KOG0156 consensus Cytochrome P450 CYP2 subfamily [Secondary metabolites biosynthesis, transport and catabolism]
Probab=43.09 E-value=42 Score=33.18 Aligned_cols=59 Identities=19% Similarity=0.157 Sum_probs=43.5
Q ss_pred EEeCCCCCCCH---HHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeE
Q 043443 65 LVRNIPLDCRP---EELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREI 133 (299)
Q Consensus 65 ~V~nLp~~~te---~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i 133 (299)
+||||+.-... ..|.++=.+||.|-.++|-. .-+|...+.+.|+.|+.. |+..|.++..
T Consensus 36 iIGnl~~l~~~~~h~~~~~ls~~yGpi~tl~lG~---------~~~Vviss~~~akE~l~~-~d~~fa~Rp~ 97 (489)
T KOG0156|consen 36 IIGNLHQLGSLPPHRSFRKLSKKYGPVFTLRLGS---------VPVVVISSYEAAKEVLVK-QDLEFADRPD 97 (489)
T ss_pred ccccHHHcCCCchhHHHHHHHHHhCCeEEEEecC---------ceEEEECCHHHHHHHHHh-CCccccCCCC
Confidence 47787654433 45556666899999887743 247788899999999985 8888888875
No 188
>KOG4840 consensus Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]
Probab=42.31 E-value=38 Score=30.16 Aligned_cols=73 Identities=10% Similarity=0.013 Sum_probs=38.9
Q ss_pred CCEEEEeCCCCCCCH----HHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEE-cCHHHHHHHHHhhCCceeCCeeEE
Q 043443 61 HGSLLVRNIPLDCRP----EELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQF-VDPYEAAEAQHHMNGKRFAGREIS 134 (299)
Q Consensus 61 ~~~l~V~nLp~~~te----~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF-~~~~~A~~Al~~lng~~l~Gr~i~ 134 (299)
...||||+|-...-. +.|...+-+.+ .|+.+.+.. ...||+.... .+.+|.+.+|+++.+..|.-..+-
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 568999999665422 33333333222 333333322 2234554333 367888888887776665544444
Q ss_pred EEEc
Q 043443 135 VVLA 138 (299)
Q Consensus 135 V~~a 138 (299)
|-.+
T Consensus 112 ~GhS 115 (299)
T KOG4840|consen 112 VGHS 115 (299)
T ss_pred EecC
Confidence 4443
No 189
>KOG0835 consensus Cyclin L [General function prediction only]
Probab=42.23 E-value=49 Score=30.90 Aligned_cols=6 Identities=17% Similarity=0.318 Sum_probs=2.3
Q ss_pred CHHHHH
Q 043443 74 RPEELR 79 (299)
Q Consensus 74 te~dL~ 79 (299)
++++|.
T Consensus 214 ~k~eid 219 (367)
T KOG0835|consen 214 TKREID 219 (367)
T ss_pred cHHHHH
Confidence 333333
No 190
>KOG3432 consensus Vacuolar H+-ATPase V1 sector, subunit F [Energy production and conversion]
Probab=41.24 E-value=35 Score=26.55 Aligned_cols=24 Identities=21% Similarity=0.358 Sum_probs=18.1
Q ss_pred CCCCCHHHHHHHHhcCCCEeEEEe
Q 043443 70 PLDCRPEELRAPFERFGVVRDVYL 93 (299)
Q Consensus 70 p~~~te~dL~~~F~~~G~I~~v~i 93 (299)
...+|+++|++.|..|-.-.+|.|
T Consensus 42 ~~~Tt~~eiedaF~~f~~RdDIaI 65 (121)
T KOG3432|consen 42 DSKTTVEEIEDAFKSFTARDDIAI 65 (121)
T ss_pred eccCCHHHHHHHHHhhccccCeEE
Confidence 358999999999999965444433
No 191
>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=40.65 E-value=35 Score=24.13 Aligned_cols=26 Identities=12% Similarity=0.290 Sum_probs=21.3
Q ss_pred cEEEEEEcCHHHHHHHHHhhCCceeC
Q 043443 104 GFAFVQFVDPYEAAEAQHHMNGKRFA 129 (299)
Q Consensus 104 g~afVeF~~~~~A~~Al~~lng~~l~ 129 (299)
.+.+|.|.+..+|.+|-+.|....|.
T Consensus 2 ~~~~i~F~st~~a~~~ek~lk~~gi~ 27 (73)
T PF11823_consen 2 KYYLITFPSTHDAMKAEKLLKKNGIP 27 (73)
T ss_pred ceEEEEECCHHHHHHHHHHHHHCCCc
Confidence 37899999999999999888765443
No 192
>PF14893 PNMA: PNMA
Probab=40.18 E-value=19 Score=33.76 Aligned_cols=76 Identities=22% Similarity=0.265 Sum_probs=41.9
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhc----CCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFER----FGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~----~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
....|.|.+||.+|++++|++.+.. +|...-+.-+..+ ..+...|+|+|...-+-...=..+ .-+|-.++|
T Consensus 17 ~~r~lLv~giP~dc~~~ei~e~l~~~l~plg~yrvl~~~f~~--~~~~~aalve~~e~~n~~~iP~~i---~g~gg~W~V 91 (331)
T PF14893_consen 17 PQRALLVLGIPEDCEEAEIEEALQAALSPLGRYRVLGKMFRR--EENAKAALVEFAEDVNYSLIPREI---PGKGGPWRV 91 (331)
T ss_pred hhhhheeecCCCCCCHHHHHHHHHHhhcccccceehhhHhhh--hcccceeeeecccccchhhCchhc---CCCCCceEE
Confidence 3457899999999999999988764 3432211111111 123457899997532211111111 123566776
Q ss_pred EEccc
Q 043443 136 VLAAE 140 (299)
Q Consensus 136 ~~a~~ 140 (299)
.+...
T Consensus 92 v~~p~ 96 (331)
T PF14893_consen 92 VFKPP 96 (331)
T ss_pred EecCC
Confidence 66543
No 193
>PF01037 AsnC_trans_reg: AsnC family; InterPro: IPR019887 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One such family is the AsnC/Lrp subfamily []. The Lrp family of transcriptional regulators appears to be widely distributed among bacteria and archaea, as an important regulatory system of the amino acid metabolism and related processes []. Members of the Lrp family are small DNA-binding proteins with molecular masses of around 15 kDa. Target promoters often contain a number of binding sites that typically lack obvious inverted repeat elements, and to which binding is usually co-operative. LrpA from Pyrococcus furiosus is the first Lrp-like protein to date of which a three-dimensional structure has been solved. In the crystal structure LrpA forms an octamer consisting of four dimers. The structure revealed that the N-terminal part of the protein consists of a helix-turn-helix (HTH) domain, a fold generally involved in DNA binding. The C terminus of Lrp-like proteins has a beta-fold, where the two alpha-helices are located at one side of the four-stranded antiparallel beta-sheet. LrpA forms a homodimer mainly through interactions between the beta-strands of this C-terminal domain, and an octamer through further interactions between the second alpha-helix and fourth beta-strand of the motif. Hence, the C-terminal domain of Lrp-like proteins appears to be involved in ligand-response and activation [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2DJW_F 2GQQ_A 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2CG4_B 2DBB_B 1I1G_A ....
Probab=39.86 E-value=1.2e+02 Score=20.65 Aligned_cols=45 Identities=22% Similarity=0.125 Sum_probs=36.5
Q ss_pred CHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHh
Q 043443 74 RPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHH 122 (299)
Q Consensus 74 te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ 122 (299)
..+++.+.+...-+|..|..+ +|...=.+.|.+.+.++.+..+..
T Consensus 11 ~~~~~~~~l~~~p~V~~~~~v----tG~~d~~~~v~~~d~~~l~~~i~~ 55 (74)
T PF01037_consen 11 AYDEFAEALAEIPEVVECYSV----TGEYDLILKVRARDMEELEEFIRE 55 (74)
T ss_dssp HHHHHHHHHHTSTTEEEEEEE----SSSSSEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHcCCCEEEEEEE----eCCCCEEEEEEECCHHHHHHHHHH
Confidence 467888889999999999887 455566788999999999998554
No 194
>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=39.78 E-value=1.2e+02 Score=21.35 Aligned_cols=44 Identities=16% Similarity=0.172 Sum_probs=28.5
Q ss_pred HHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC
Q 043443 76 EELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 76 ~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln 124 (299)
.+|.+++..+| +.-+.|.-. ..-++.|+.|.+.++++.+++.|.
T Consensus 37 ~~~~~~~~~~G-a~~~~~sGs----G~G~~v~~l~~~~~~~~~v~~~l~ 80 (85)
T PF08544_consen 37 DELKEAAEENG-ALGAKMSGS----GGGPTVFALCKDEDDAERVAEALR 80 (85)
T ss_dssp HHHHHHHHHTT-ESEEEEETT----SSSSEEEEEESSHHHHHHHHHHHH
T ss_pred HHHHHHHHHCC-CCceecCCC----CCCCeEEEEECCHHHHHHHHHHHH
Confidence 45777778888 444444311 113577777878888888887763
No 195
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=39.73 E-value=85 Score=31.11 Aligned_cols=62 Identities=21% Similarity=0.116 Sum_probs=40.2
Q ss_pred CEEEEeCCCCCCCHHHHHHHHh----cCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC
Q 043443 62 GSLLVRNIPLDCRPEELRAPFE----RFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~----~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln 124 (299)
..|.++.-..+.+.-+|..+|. .+|.|+++.|...+.. ......++.|.+.++|..|+..|.
T Consensus 190 ~i~~~~~~~~~~~g~dl~~l~~Gs~GtlGIIt~atlkl~p~p-~~~~~~~~~f~~~~~a~~~~~~~~ 255 (499)
T PRK11230 190 EALTLGSDALDSPGFDLLALFTGSEGMLGVVTEVTVKLLPKP-PVARVLLASFDSVEKAGLAVGDII 255 (499)
T ss_pred cEEEeCCccCCCCccchHhhhccCCCccEEEEEEEEEEEcCC-cceEEEEEECCCHHHHHHHHHHHH
Confidence 3444443222233456777775 6788888877655432 234577889999999999987764
No 196
>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi). This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].
Probab=39.21 E-value=17 Score=27.21 Aligned_cols=24 Identities=33% Similarity=0.408 Sum_probs=20.2
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHH
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPF 82 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F 82 (299)
....+|.|.|||..+.+++|++.+
T Consensus 50 vs~rtVlvsgip~~l~ee~l~D~L 73 (88)
T PF07292_consen 50 VSKRTVLVSGIPDVLDEEELRDKL 73 (88)
T ss_pred ccCCEEEEeCCCCCCChhhheeeE
Confidence 346789999999999999998754
No 197
>PF09902 DUF2129: Uncharacterized protein conserved in bacteria (DUF2129); InterPro: IPR016979 This is a group of uncharacterised conserved proteins.
Probab=38.69 E-value=75 Score=22.74 Aligned_cols=39 Identities=15% Similarity=0.330 Sum_probs=27.4
Q ss_pred HHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCcee
Q 043443 81 PFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRF 128 (299)
Q Consensus 81 ~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l 128 (299)
.+.+||.|..+-=. ..|++ -|-+.++++..++.|....|
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 45789999876432 23654 47788999999988866543
No 198
>COG5470 Uncharacterized conserved protein [Function unknown]
Probab=38.14 E-value=67 Score=24.37 Aligned_cols=20 Identities=15% Similarity=0.213 Sum_probs=15.5
Q ss_pred CCccEEEEEEcCHHHHHHHH
Q 043443 101 EPRGFAFVQFVDPYEAAEAQ 120 (299)
Q Consensus 101 ~~~g~afVeF~~~~~A~~Al 120 (299)
.+....+|||.+.+.|..+.
T Consensus 51 ~ptr~vviEFps~~~ar~~y 70 (96)
T COG5470 51 RPTRNVVIEFPSLEAARDCY 70 (96)
T ss_pred CcccEEEEEcCCHHHHHHHh
Confidence 34568999999998887654
No 199
>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=37.36 E-value=26 Score=21.63 Aligned_cols=17 Identities=24% Similarity=0.497 Sum_probs=10.5
Q ss_pred CCCCHHHHHHHHhcCCC
Q 043443 71 LDCRPEELRAPFERFGV 87 (299)
Q Consensus 71 ~~~te~dL~~~F~~~G~ 87 (299)
.++++++|+++|.+...
T Consensus 19 ~Dtd~~~Lk~vF~~i~~ 35 (36)
T PF11411_consen 19 VDTDEDQLKEVFNRIKK 35 (36)
T ss_dssp S---HHHHHHHHHCS--
T ss_pred ccCCHHHHHHHHHHhcc
Confidence 46899999999987643
No 200
>PF15063 TC1: Thyroid cancer protein 1
Probab=36.70 E-value=5.1 Score=28.92 Aligned_cols=28 Identities=18% Similarity=0.191 Sum_probs=23.0
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEe
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVR 89 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~ 89 (299)
.+--+.||-.+++...|+.+|..-|..+
T Consensus 26 RKkasaNIFe~vn~~qlqrLF~~sGD~k 53 (79)
T PF15063_consen 26 RKKASANIFENVNLDQLQRLFQKSGDKK 53 (79)
T ss_pred hhhhhhhhhhccCHHHHHHHHHHccchh
Confidence 3445778888999999999999999753
No 201
>PF14581 SseB_C: SseB protein C-terminal domain
Probab=36.64 E-value=68 Score=24.39 Aligned_cols=78 Identities=18% Similarity=0.130 Sum_probs=41.9
Q ss_pred CEEEEeCCCCCCC--HHHHHHHHhcCCCEeEEEeccCCC-CCCCccEEEEEEcC--HHHHHHHHHhhCCceeC-CeeEEE
Q 043443 62 GSLLVRNIPLDCR--PEELRAPFERFGVVRDVYLPKDYY-TGEPRGFAFVQFVD--PYEAAEAQHHMNGKRFA-GREISV 135 (299)
Q Consensus 62 ~~l~V~nLp~~~t--e~dL~~~F~~~G~I~~v~i~~d~~-~g~~~g~afVeF~~--~~~A~~Al~~lng~~l~-Gr~i~V 135 (299)
..|.|+-.....+ .+.|.++|.+...|..+++..-.. .+...-+-.|+|.. .+.+..+|..+-...+. +..|.+
T Consensus 6 ~~v~l~~P~~~p~~l~~aL~~~~~~~~~V~~Ayl~~~~~~~~~~~~li~vd~~~~~~~~~~~~i~~~~~~~~~~~~~vd~ 85 (108)
T PF14581_consen 6 EKVLLGEPEEEPTDLLAALSEYFKQHKNVRAAYLALMQDEDEQPSLLIGVDFDGEDIEEIFQEIGRAARPYLPDGWPVDF 85 (108)
T ss_pred CEEEecCCccCHHHHHHHHHHHHhhCccHHHhHHHHhhccCCCceEEEEEeccChhHHHHHHHHHHHhhhcCCCCceEEE
Confidence 4566664422222 367889999999998776654333 33333344456766 33334444333333333 366665
Q ss_pred EEcc
Q 043443 136 VLAA 139 (299)
Q Consensus 136 ~~a~ 139 (299)
....
T Consensus 86 ~~~~ 89 (108)
T PF14581_consen 86 VLLD 89 (108)
T ss_pred EEcc
Confidence 5544
No 202
>COG2061 ACT-domain-containing protein, predicted allosteric regulator of homoserine dehydrogenase [Amino acid transport and metabolism]
Probab=36.51 E-value=2e+02 Score=23.94 Aligned_cols=68 Identities=16% Similarity=0.147 Sum_probs=41.4
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCC--CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFG--VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G--~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
....+|.||.|- .++-+|-.+-....| .|.++.+.+....+.+...--+.+...++.+.|+..|+-..
T Consensus 86 ~~~~vvLIGhiv-~tdiqDTId~In~ig~A~vvDl~L~Mp~~e~~SsA~iti~a~~~e~l~ea~~~l~ev~ 155 (170)
T COG2061 86 EKTDVVLIGHIV-HTDIQDTIDRINSIGGAEVVDLSLSMPGIEGESSARITIIAVGKEKLDEALRRLKEVA 155 (170)
T ss_pred eeEeEEEEEeee-cCcHHHHHHHhhccCCEEEEEEEeecCCCCCCcceeEEEEEcChhHHHHHHHHHHHHH
Confidence 345678888773 334444444445555 77777776654455554444445557888889988776543
No 203
>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=36.41 E-value=1.2e+02 Score=19.64 Aligned_cols=27 Identities=15% Similarity=0.180 Sum_probs=22.2
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCE
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVV 88 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I 88 (299)
..++|.+.....+.++|++++..+|..
T Consensus 2 ~~~~i~g~~~~~~~~~l~~~i~~~Gg~ 28 (72)
T cd00027 2 LTFVITGDLPSEERDELKELIEKLGGK 28 (72)
T ss_pred CEEEEEecCCCcCHHHHHHHHHHcCCE
Confidence 467888876678899999999999864
No 204
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=36.38 E-value=47 Score=30.00 Aligned_cols=33 Identities=21% Similarity=0.254 Sum_probs=24.5
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEe
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVYL 93 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i 93 (299)
.....|+|||++++..-|..++...-.+..+.+
T Consensus 95 ~~~~vVaNlPY~Isspii~kll~~~~~~~~~v~ 127 (259)
T COG0030 95 QPYKVVANLPYNISSPILFKLLEEKFIIQDMVL 127 (259)
T ss_pred CCCEEEEcCCCcccHHHHHHHHhccCccceEEE
Confidence 346779999999999999999876544433333
No 205
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=36.38 E-value=29 Score=34.33 Aligned_cols=38 Identities=29% Similarity=0.476 Sum_probs=34.0
Q ss_pred ccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEccc
Q 043443 103 RGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAAE 140 (299)
Q Consensus 103 ~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~~ 140 (299)
..++++.|++..++.+|+..++|..+.+..+.|..+..
T Consensus 63 ~~~~~~~~et~~~~~ka~~~v~g~~~k~~~~~~~~~~~ 100 (534)
T KOG2187|consen 63 PKYAYVTFETPSDAGKAINLVDGLLYKGFILRVQLGAT 100 (534)
T ss_pred CCceEEEEeccchhhhHHHHHhhhhhhcchhhhhhccc
Confidence 46999999999999999999999999988888877664
No 206
>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=35.15 E-value=19 Score=34.30 Aligned_cols=60 Identities=18% Similarity=0.202 Sum_probs=45.1
Q ss_pred CEEEEeCCCCCCCH--------HHHHHHHhc--CCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHH
Q 043443 62 GSLLVRNIPLDCRP--------EELRAPFER--FGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQH 121 (299)
Q Consensus 62 ~~l~V~nLp~~~te--------~dL~~~F~~--~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~ 121 (299)
..+|+.++....+. ++|+.+|.. .+.+..|.+..+.......|-.|++|.....|+.++.
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 45666666554433 489999988 6777777777666566778889999999999999874
No 207
>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=35.03 E-value=1.8e+02 Score=21.13 Aligned_cols=56 Identities=11% Similarity=0.173 Sum_probs=32.9
Q ss_pred EEEeCCCCCCCHHHHHHHHh-------cCCCEeEEEeccCCCCC---CCccEE-EEEEcCHHHHHHH
Q 043443 64 LLVRNIPLDCRPEELRAPFE-------RFGVVRDVYLPKDYYTG---EPRGFA-FVQFVDPYEAAEA 119 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~-------~~G~I~~v~i~~d~~~g---~~~g~a-fVeF~~~~~A~~A 119 (299)
|.+-.|...++++++.+++. +.-.|..+.+-.+-... ..-.++ +++|.+.++.+.-
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 44556888899888765543 34566777665443222 223344 4688887776543
No 208
>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=34.73 E-value=98 Score=23.37 Aligned_cols=49 Identities=10% Similarity=0.086 Sum_probs=28.7
Q ss_pred EEEEeCCCCCCCHHHH---HHHHhcCCCEeEEEe--ccCCCCCCCccEEEEEEc
Q 043443 63 SLLVRNIPLDCRPEEL---RAPFERFGVVRDVYL--PKDYYTGEPRGFAFVQFV 111 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL---~~~F~~~G~I~~v~i--~~d~~~g~~~g~afVeF~ 111 (299)
..|+.|||..+.+.++ +.+|..+..-..|.+ ..........|++++.+.
T Consensus 12 ~a~~a~lp~~va~R~~~~a~~~L~~~~~~v~i~~d~~~~~~~~~~~G~gi~l~a 65 (103)
T PF05189_consen 12 IAFVAGLPSSVAERMANAARKRLNWYGPDVEIETDYRESDDSAFGPGSGISLVA 65 (103)
T ss_dssp EEEEESS-CHHHHHHHHHHHHHHCTTCSEEEEEEEEE-CCCCGCSSEEEEEEEE
T ss_pred EEEEcCCCHHHHHHHHHHHHHHhhhhCCCeEEEEecccCccCCCCCceEEEEEE
Confidence 5689999998877654 455666664444443 223335566677665443
No 209
>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=34.55 E-value=61 Score=24.22 Aligned_cols=33 Identities=12% Similarity=0.106 Sum_probs=22.6
Q ss_pred EEEEEcCHHHHHHHHHhh-CCceeCCeeEEEEEc
Q 043443 106 AFVQFVDPYEAAEAQHHM-NGKRFAGREISVVLA 138 (299)
Q Consensus 106 afVeF~~~~~A~~Al~~l-ng~~l~Gr~i~V~~a 138 (299)
|+|+|.+..-|+..|+.- +-..|++..+.|...
T Consensus 1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~ 34 (88)
T PF07292_consen 1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVS 34 (88)
T ss_pred CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEE
Confidence 689999999999988632 223456666655543
No 210
>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=33.49 E-value=57 Score=29.38 Aligned_cols=58 Identities=14% Similarity=-0.003 Sum_probs=37.7
Q ss_pred CCEEEEeCCCCC-----CCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEc---CHHHHHHHHHhhC
Q 043443 61 HGSLLVRNIPLD-----CRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFV---DPYEAAEAQHHMN 124 (299)
Q Consensus 61 ~~~l~V~nLp~~-----~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~---~~~~A~~Al~~ln 124 (299)
..+|.|.|++.. .+.++|.+++..++....+.++.| .+.+|+.-. +.+....+++.|.
T Consensus 137 ~v~l~lEN~~~~~~~l~~~~~el~~ll~~~~~~~~lg~~lD------t~H~~~~g~~~~~~~~~~~~~~~~~ 202 (274)
T TIGR00587 137 IVTILLENMAGQGSELGRSFEELAYIIKVIVDKRRIGVCLD------TCHFFAAGYDITTKAYFEVVKNEFD 202 (274)
T ss_pred CCEEEEEeCCCCCCccCCCHHHHHHHHHhcCCCCceEEEEE------hhhHHhcCCCcCCHHHHHHHHHHHH
Confidence 478999999642 488999999998875455666666 244444333 3555666666544
No 211
>PRK10905 cell division protein DamX; Validated
Probab=33.09 E-value=71 Score=29.73 Aligned_cols=63 Identities=13% Similarity=0.172 Sum_probs=38.4
Q ss_pred CCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEE--EEcCHHHHHHHHHhhCCc
Q 043443 59 QNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFV--QFVDPYEAAEAQHHMNGK 126 (299)
Q Consensus 59 ~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afV--eF~~~~~A~~Al~~lng~ 126 (299)
...++|.|..+. +++.|.+|..+.|. ....++.....|+ ..|.+| .|.+.++|+.||..|-..
T Consensus 245 a~~YTLQL~A~S---s~~~l~~fakKlgL-~~y~vy~TtRnGk-pWYVV~yG~YaSraeAk~AiakLPa~ 309 (328)
T PRK10905 245 SSHYTLQLSSSS---NYDNLNGWAKKENL-KNYVVYETTRNGQ-PWYVLVSGVYASKEEAKRAVSTLPAD 309 (328)
T ss_pred CCceEEEEEecC---CHHHHHHHHHHcCC-CceEEEEeccCCc-eEEEEEecCCCCHHHHHHHHHHCCHH
Confidence 456788887664 56778888777753 3222322211222 123332 688999999999988644
No 212
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=33.08 E-value=1.1e+02 Score=26.23 Aligned_cols=50 Identities=14% Similarity=0.064 Sum_probs=32.4
Q ss_pred CCHHHHHHHHhcC-CCEeEEEeccCCCC-CCCccEEEEEEcCHHHHHHHHHh
Q 043443 73 CRPEELRAPFERF-GVVRDVYLPKDYYT-GEPRGFAFVQFVDPYEAAEAQHH 122 (299)
Q Consensus 73 ~te~dL~~~F~~~-G~I~~v~i~~d~~~-g~~~g~afVeF~~~~~A~~Al~~ 122 (299)
+|+++|.++..-. |++..|.+-..... ...+|-.||+|.+.+.|.++++.
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 4455554444322 68877776543211 24578899999999999887764
No 213
>PF08156 NOP5NT: NOP5NT (NUC127) domain; InterPro: IPR012974 This N-terminal domain is found in RNA-binding proteins of the NOP5 family [].
Probab=32.87 E-value=13 Score=26.19 Aligned_cols=38 Identities=24% Similarity=0.273 Sum_probs=25.8
Q ss_pred HHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh
Q 043443 76 EELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 76 ~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
++|++.|..+.....+. +=.+|.-|.+.++|..++..+
T Consensus 27 ~~v~~~~~~~~~f~k~v----------kL~aF~pF~s~~~ALe~~~ai 64 (67)
T PF08156_consen 27 EEVQKSFSDPEKFSKIV----------KLKAFSPFKSAEEALENANAI 64 (67)
T ss_pred HHHHHHHcCHHHHhhhh----------hhhhccCCCCHHHHHHHHHHh
Confidence 57888877654433321 125899999998888887765
No 214
>PF14026 DUF4242: Protein of unknown function (DUF4242)
Probab=32.50 E-value=1.9e+02 Score=20.78 Aligned_cols=61 Identities=16% Similarity=0.135 Sum_probs=38.5
Q ss_pred EEEeCCCCCCCHHHHHHHHhcC-------CCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 64 LLVRNIPLDCRPEELRAPFERF-------GVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~~~-------G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
|...+||..+|.++|.++..+. ..|.-+.-.... ...+.||+.+=.+.+...++-+. .|..
T Consensus 3 mver~~p~~it~e~l~~~~~~~~~~~~~~~~V~w~~s~v~~--d~~k~~Cly~Ap~~eaV~~~~~~-aG~p 70 (77)
T PF14026_consen 3 MVERDFPGGITAEDLAAAHAKSCAVQAEMPGVQWLRSYVSE--DDGKIFCLYEAPDEEAVREHARR-AGLP 70 (77)
T ss_pred EEEEeCCCCCCHHHHHHHHHHhHHHHhhcCCeEEEEEEEec--CCCeEEEEEECCCHHHHHHHHHH-cCCC
Confidence 4567898889999988776543 234333222221 23467888888888877777664 3544
No 215
>PRK02302 hypothetical protein; Provisional
Probab=31.96 E-value=1.3e+02 Score=22.64 Aligned_cols=38 Identities=8% Similarity=0.203 Sum_probs=26.9
Q ss_pred HHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 81 PFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 81 ~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
.+.+||.|.++-=. ..|+ |-|-+.++|+..++.|....
T Consensus 22 ~LrkfG~I~Y~Skk--------~kYv-vlYvn~~~~e~~~~kl~~l~ 59 (89)
T PRK02302 22 KLSKYGDIVYHSKR--------SRYL-VLYVNKEDVEQKLEELSKLK 59 (89)
T ss_pred HHhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcCC
Confidence 35789999876432 2355 45778899999998886654
No 216
>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=31.72 E-value=1.5e+02 Score=19.47 Aligned_cols=60 Identities=10% Similarity=-0.019 Sum_probs=28.9
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCH-HHHHHHHHhhC
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDP-YEAAEAQHHMN 124 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~-~~A~~Al~~ln 124 (299)
+|.|......-...+|..+|..++ .|..+...... +......++++... +....++..|.
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~l~ 63 (72)
T cd04878 2 TLSVLVENEPGVLNRISGLFARRGFNIESLTVGPTE--DPGISRITIVVEGDDDVIEQIVKQLN 63 (72)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCCEEEEEeeecC--CCCeEEEEEEEECCHHHHHHHHHHHh
Confidence 445533333334567888888875 55566543221 11122233334322 55555555554
No 217
>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=31.15 E-value=1.5e+02 Score=19.33 Aligned_cols=32 Identities=9% Similarity=0.128 Sum_probs=19.1
Q ss_pred EEEeCCCCCCCHHHHHHHHhcCC-CEeEEEecc
Q 043443 64 LLVRNIPLDCRPEELRAPFERFG-VVRDVYLPK 95 (299)
Q Consensus 64 l~V~nLp~~~te~dL~~~F~~~G-~I~~v~i~~ 95 (299)
|+|..-...-...+|..+|.+++ .|..+.+..
T Consensus 2 l~v~~~d~~g~l~~i~~~l~~~~~nI~~~~~~~ 34 (71)
T cd04879 2 LLIVHKDVPGVIGKVGTILGEHGINIAAMQVGR 34 (71)
T ss_pred EEEEecCCCCHHHHHHHHHHhcCCCeeeEEEec
Confidence 34433333345678888888875 566666543
No 218
>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=31.13 E-value=1.1e+02 Score=29.48 Aligned_cols=52 Identities=21% Similarity=0.119 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHhc----CCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC
Q 043443 72 DCRPEELRAPFER----FGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 72 ~~te~dL~~~F~~----~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln 124 (299)
+...-+|..+|.. +|.|+++.|...+.. ....+.++.|.+.++|..|+..+.
T Consensus 143 ~~~g~dl~~l~~Gs~GtlGiit~~~lkl~p~p-~~~~~~~~~f~~~~~~~~~~~~~~ 198 (413)
T TIGR00387 143 DVAGYDLTGLFVGSEGTLGIVTEATLKLLPKP-ENIVVALAFFDSIEKAMQAVYDII 198 (413)
T ss_pred CCCCCChhhhcccCCccceEEEEEEEEeecCC-CccEEEEEECCCHHHHHHHHHHHH
Confidence 3444567778753 788888877655432 334567789999999999986553
No 219
>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=31.08 E-value=39 Score=30.26 Aligned_cols=28 Identities=39% Similarity=0.587 Sum_probs=22.5
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHh--cCCCE
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFE--RFGVV 88 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~--~~G~I 88 (299)
...++|+|||+.++..-|..++. .||.+
T Consensus 97 ~~~~vv~NlPy~is~~il~~ll~~~~~g~~ 126 (262)
T PF00398_consen 97 QPLLVVGNLPYNISSPILRKLLELYRFGRV 126 (262)
T ss_dssp SEEEEEEEETGTGHHHHHHHHHHHGGGCEE
T ss_pred CceEEEEEecccchHHHHHHHhhccccccc
Confidence 46789999999999999999887 34433
No 220
>COG5584 Predicted small secreted protein [Function unknown]
Probab=30.89 E-value=79 Score=24.03 Aligned_cols=31 Identities=13% Similarity=0.259 Sum_probs=23.7
Q ss_pred CCCCCCCHHHHHHHHhcCCCEeEEEeccCCC
Q 043443 68 NIPLDCRPEELRAPFERFGVVRDVYLPKDYY 98 (299)
Q Consensus 68 nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~ 98 (299)
||..+.--+-|++.|.+++.|+--+|+..+.
T Consensus 29 ~is~e~alk~vk~afk~~mnI~GSwI~~~pe 59 (103)
T COG5584 29 NISRENALKVVKEAFKQFMNIKGSWIVYEPE 59 (103)
T ss_pred ccChhHHHHHHHHHhcccCCcceeEEEEecc
Confidence 4555555677899999999999888876654
No 221
>KOG3424 consensus 40S ribosomal protein S24 [Translation, ribosomal structure and biogenesis]
Probab=30.33 E-value=1.5e+02 Score=23.56 Aligned_cols=45 Identities=18% Similarity=0.314 Sum_probs=26.9
Q ss_pred CCCHHHHHHHHhc-CC----CEeEEEeccCCCCCCCccEEEEEEcCHHHHH
Q 043443 72 DCRPEELRAPFER-FG----VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAA 117 (299)
Q Consensus 72 ~~te~dL~~~F~~-~G----~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~ 117 (299)
+++.+||.+-+.+ |- .|.-+.+-.....|+..|||.| |.+.+.|.
T Consensus 34 ~vsK~EirEKla~mYkt~~d~V~vfgfrt~~GggkstgfalI-Ydsve~ak 83 (132)
T KOG3424|consen 34 NVSKTEIREKLAKMYKTTPDAVFVFGFRTHFGGGKSTGFALI-YDSVEYAK 83 (132)
T ss_pred CCCHHHHHHHHHHHhcCCcceEEEEEeeeccCCcccceeeee-eehHHHHH
Confidence 4677888877664 22 2222334444456778889987 66655544
No 222
>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=29.78 E-value=2.4e+02 Score=21.14 Aligned_cols=57 Identities=23% Similarity=0.295 Sum_probs=41.6
Q ss_pred CCCCCCCHHHHHHH----------HhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCcee
Q 043443 68 NIPLDCRPEELRAP----------FERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRF 128 (299)
Q Consensus 68 nLp~~~te~dL~~~----------F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l 128 (299)
+||.+++.+++.++ +..-|.+..++-+ .|....++++.-++.++....|..|-=..+
T Consensus 10 ~~P~~~~~~~~~~~~a~E~~~a~eLq~~G~~~~lWr~----~G~~~n~~Ifdv~d~~eLh~lL~sLPL~p~ 76 (91)
T PF02426_consen 10 NVPPDMPPEEVDRLKAREKARAQELQRQGKWRHLWRV----VGRYANVSIFDVEDNDELHELLSSLPLFPY 76 (91)
T ss_pred eCCCCCCHHHHHHHHHHHHHHHHHHHHCCeeeEEEEe----cCCcceEEEEECCCHHHHHHHHHhCCCccc
Confidence 68998888765544 3456888888765 356677888888999998888776655443
No 223
>PF12829 Mhr1: Transcriptional regulation of mitochondrial recombination; InterPro: IPR024629 These proteins are involved in regulation of RNA polymerase II-dependent transcription. They are also involved in regulation of mitochondrial DNA recombination, maintenance, repair, and generation of homoplasmic cells [, , , ].
Probab=29.27 E-value=1.3e+02 Score=22.63 Aligned_cols=52 Identities=17% Similarity=0.101 Sum_probs=31.8
Q ss_pred CCCCCCHHHHHHHHhcCCCEe-EEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC
Q 043443 69 IPLDCRPEELRAPFERFGVVR-DVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 69 Lp~~~te~dL~~~F~~~G~I~-~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln 124 (299)
+-..++...|...|-.-|.-. -..+-+| .=+.+|.|+|.+.+.+..|.+.|-
T Consensus 20 ~~p~l~~~~i~~Q~~~~gkk~~pp~lRkD----~W~pm~vv~f~~~~~g~~~yq~Lr 72 (91)
T PF12829_consen 20 QTPNLDNNQILKQFPFPGKKNKPPSLRKD----YWRPMCVVNFPNYEVGVSAYQKLR 72 (91)
T ss_pred cCcccChhHHHHhccCCCcccCCchhccc----cceEeEEEECCChHHHHHHHHHHH
Confidence 445567777776665444211 1111111 124699999999999999988764
No 224
>COG3254 Uncharacterized conserved protein [Function unknown]
Probab=29.26 E-value=1.7e+02 Score=22.67 Aligned_cols=43 Identities=19% Similarity=0.076 Sum_probs=26.5
Q ss_pred HHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHH
Q 043443 75 PEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQ 120 (299)
Q Consensus 75 e~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al 120 (299)
+-+|.+++...|.-.+ .|..+. ..+.-||++++.|.+...++|
T Consensus 26 WPE~~a~lk~agi~nY-SIfLde--~~n~lFgy~E~~d~~a~m~~~ 68 (105)
T COG3254 26 WPELLALLKEAGIRNY-SIFLDE--EENLLFGYWEYEDFEADMAKM 68 (105)
T ss_pred cHHHHHHHHHcCCcee-EEEecC--CcccEEEEEEEcChHHHHHHH
Confidence 4567888888874433 333332 134579999999655554444
No 225
>COG5507 Uncharacterized conserved protein [Function unknown]
Probab=28.81 E-value=60 Score=24.79 Aligned_cols=21 Identities=14% Similarity=0.273 Sum_probs=16.8
Q ss_pred ccEEEEEEcCHHHHHHHHHhh
Q 043443 103 RGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 103 ~g~afVeF~~~~~A~~Al~~l 123 (299)
--|.+|+|.+.+...+|..++
T Consensus 66 VvFsW~~Y~skq~rDA~~~km 86 (117)
T COG5507 66 VVFSWIEYPSKQVRDAANAKM 86 (117)
T ss_pred EEEEEEEcCchhHHHHHHHHh
Confidence 358899999998888887654
No 226
>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=28.57 E-value=1.3e+02 Score=26.68 Aligned_cols=63 Identities=19% Similarity=0.228 Sum_probs=44.6
Q ss_pred CCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEE-EeccCC---CCCCCccEEEEEEcCHHHHHHHHHhh
Q 043443 60 NHGSLLVRNIPLDCRPEELRAPFERFGVVRDV-YLPKDY---YTGEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 60 ~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v-~i~~d~---~~g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
-.-+|.|.-||-.-.++-|+.+|+..|--+.+ .+..|. ..|.+ .|..|+.....-...||.+|
T Consensus 117 ~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 117 IPLEVRLPALPCRGGEELVRRLFEPLGWTVTAEPVPLDEQFPEWGDS-RYVDLTLTGTVRLADALNHL 183 (245)
T ss_pred CceEEEeeeeecCCcHHHHHHhhcCcCceEEeEeccCCccCccccCC-cceEEEEeeeEEHHHHHhhh
Confidence 35688899999888999999999999954433 344443 23443 47788887766677777654
No 227
>KOG3580 consensus Tight junction proteins [Signal transduction mechanisms]
Probab=28.40 E-value=2.1e+02 Score=29.18 Aligned_cols=37 Identities=11% Similarity=0.211 Sum_probs=20.8
Q ss_pred CCCEEEEeCCCCC-CCHHHHHHHHhcCCCEeEEEeccC
Q 043443 60 NHGSLLVRNIPLD-CRPEELRAPFERFGVVRDVYLPKD 96 (299)
Q Consensus 60 ~~~~l~V~nLp~~-~te~dL~~~F~~~G~I~~v~i~~d 96 (299)
....|+|.+++-+ ++.....+.+.++|++..|.|...
T Consensus 60 nDrvvMVNGvsMenv~haFAvQqLrksgK~A~ItvkRp 97 (1027)
T KOG3580|consen 60 NDRVVMVNGVSMENVLHAFAVQQLRKSGKVAAITVKRP 97 (1027)
T ss_pred CCeEEEEcCcchhhhHHHHHHHHHHhhccceeEEeccc
Confidence 3456666666432 344444455566777776666543
No 228
>PRK11558 putative ssRNA endonuclease; Provisional
Probab=28.30 E-value=86 Score=23.91 Aligned_cols=47 Identities=17% Similarity=0.234 Sum_probs=27.1
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcC--CCEeEEEeccCCCCCCCccEEEEEEcC
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERF--GVVRDVYLPKDYYTGEPRGFAFVQFVD 112 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~--G~I~~v~i~~d~~~g~~~g~afVeF~~ 112 (299)
..-|||++++..+.+.--+.+-+.+ |.+.-++ .+ ....||+|.++-+
T Consensus 27 ~~GVyVg~~S~rVRd~lW~~v~~~~~~G~avmv~--~~---~~eqG~~~~t~G~ 75 (97)
T PRK11558 27 RAGVYVGDVSRRIREMIWQQVTQLAEEGNVVMAW--AT---NTESGFEFQTFGE 75 (97)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCCcEEEEE--cC---CCCCCcEEEecCC
Confidence 3459999998877654333333333 4443332 22 2335999988865
No 229
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=28.15 E-value=19 Score=28.96 Aligned_cols=67 Identities=15% Similarity=0.078 Sum_probs=42.5
Q ss_pred EEEeCCC--CCCCHHHHHHHHhc----CCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 64 LLVRNIP--LDCRPEELRAPFER----FGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 64 l~V~nLp--~~~te~dL~~~F~~----~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
..|+.+. ..++...|.+.+.+ .+.+.-..+- .++.+++|.+.+++..++. .....|++..|.++.
T Consensus 18 ~lVg~~l~~~~~~~~~l~~~l~~~W~~~~~~~i~~l~--------~~~fl~~F~~~~d~~~vl~-~~p~~~~~~~~~l~~ 88 (153)
T PF14111_consen 18 CLVGRVLSPKPISLSALEQELAKIWKLKGGVKIRDLG--------DNLFLFQFESEEDRQRVLK-GGPWNFNGHFLILQR 88 (153)
T ss_pred EEEEEECCCCCCCHHHHHHHHHHHhCCCCcEEEEEeC--------CCeEEEEEEeccceeEEEe-cccccccccchhhhh
Confidence 4455552 34567777766654 3344333332 4789999999999999876 344567777666655
Q ss_pred cc
Q 043443 138 AA 139 (299)
Q Consensus 138 a~ 139 (299)
-.
T Consensus 89 W~ 90 (153)
T PF14111_consen 89 WS 90 (153)
T ss_pred hc
Confidence 54
No 230
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=27.92 E-value=1.1e+02 Score=28.74 Aligned_cols=52 Identities=17% Similarity=-0.019 Sum_probs=37.6
Q ss_pred CHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeE
Q 043443 74 RPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREI 133 (299)
Q Consensus 74 te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i 133 (299)
+-++|+.+|..---+..+....+ --||.|.+..+.++-|..+++..+.+..|
T Consensus 263 ~Y~~Le~HF~~~hy~ct~qtc~~--------~k~~vf~~~~el~~h~~~~h~~~~~~~~~ 314 (493)
T COG5236 263 SYEDLEAHFRNAHYCCTFQTCRV--------GKCYVFPYHTELLEHLTRFHKVNARLSEI 314 (493)
T ss_pred CHHHHHHHhhcCceEEEEEEEec--------CcEEEeccHHHHHHHHHHHhhcccccCcC
Confidence 44778888887666665555443 24788999888888888888888777654
No 231
>COG0002 ArgC Acetylglutamate semialdehyde dehydrogenase [Amino acid transport and metabolism]
Probab=27.10 E-value=1.3e+02 Score=28.46 Aligned_cols=27 Identities=26% Similarity=0.165 Sum_probs=18.1
Q ss_pred CCCCCCHHHHHHHHhcC-CCEeEEEecc
Q 043443 69 IPLDCRPEELRAPFERF-GVVRDVYLPK 95 (299)
Q Consensus 69 Lp~~~te~dL~~~F~~~-G~I~~v~i~~ 95 (299)
|...++.+||.++|.+| ..-..|.|+.
T Consensus 253 l~~~~t~~~i~~~y~~~Y~~epfVrv~~ 280 (349)
T COG0002 253 LKDLVTLEELHAAYEEFYAGEPFVRVVP 280 (349)
T ss_pred cCCCCCHHHHHHHHHHHhCCCCeEEEec
Confidence 55568999999999864 4334455443
No 232
>PF13689 DUF4154: Domain of unknown function (DUF4154)
Probab=26.92 E-value=1.3e+02 Score=24.27 Aligned_cols=60 Identities=23% Similarity=0.312 Sum_probs=36.1
Q ss_pred HHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEEcc
Q 043443 75 PEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVLAA 139 (299)
Q Consensus 75 e~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~a~ 139 (299)
|.+|+..|- |.-+.++.|+... ....+-+..+.+.. ...+|..|.+..+.++.|.|..-.
T Consensus 2 e~~lkAa~l-~nf~~f~~WP~~~---~~~~~~icv~g~~~-~~~~L~~l~~~~~~~~~i~v~~~~ 61 (145)
T PF13689_consen 2 EYQLKAAYL-YNFAKFIEWPDSA---PSSPFRICVLGDDP-FAEALSTLAGKQVGGRPIRVRRLS 61 (145)
T ss_pred HHHHHHHHH-HHhHhhccCCCCC---CCCCeEEEEECChH-HHHHHHHhhhcccCCCcEEEEECC
Confidence 455655542 2233445555431 22345555555544 556788899999999999987653
No 233
>TIGR00405 L26e_arch ribosomal protein L24p/L26e, archaeal. This protein contains a KOW domain, shared by bacterial NusG and the L24p/L26e family of ribosomal proteins. Although called archaeal NusG in several publications, it is the only close homolog of eukaryotic L26e in archaeal genomes, shares an operon with L11 in many genomes, and has been sequenced from purified ribosomes. It is here designated as a ribosomal protein for these reasons.
Probab=26.56 E-value=2.2e+02 Score=22.86 Aligned_cols=27 Identities=11% Similarity=0.156 Sum_probs=21.9
Q ss_pred CCccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 101 EPRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 101 ~~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
...||-||++....+...+|..+.|..
T Consensus 36 ~fpGYvFV~~~~~~~~~~~i~~~~gv~ 62 (145)
T TIGR00405 36 SLKGYILVEAETKIDMRNPIIGVPHVR 62 (145)
T ss_pred CCCcEEEEEEECcHHHHHHHhCCCCEE
Confidence 368999999998888888888777643
No 234
>COG0225 MsrA Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]
Probab=26.23 E-value=1.7e+02 Score=24.79 Aligned_cols=77 Identities=10% Similarity=0.072 Sum_probs=40.0
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEE-cCHH---HHHHHHHhhCCceeCCeeEEEEEc
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQF-VDPY---EAAEAQHHMNGKRFAGREISVVLA 138 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF-~~~~---~A~~Al~~lng~~l~Gr~i~V~~a 138 (299)
.|.|.==|..++-++|.++|-..-..+.+ ... .......|--+.| .+.+ .|++.++.|+...+.+.+|.+++.
T Consensus 59 ~V~V~yDp~~isy~~LL~~ff~ihDPT~~--nrQ-GnD~GtqYRs~Iy~~~~~q~~~a~~~~~~~q~~~~~~~~IvteI~ 135 (174)
T COG0225 59 AVEVTYDPKVISYEELLEVFFEIHDPTSL--NRQ-GNDRGTQYRSAIYYTNEEQKAIAEASIEELQASGYFKKPIVTEIE 135 (174)
T ss_pred EEEEEeCCccccHHHHHHHHheecCCCCC--Ccc-CCcccccceeEEEEcCHHHHHHHHHHHHHHHHhccCCCCeEEEee
Confidence 56666667788888888887543211111 110 0111222333333 3444 444555566555566777877776
Q ss_pred ccCC
Q 043443 139 AESR 142 (299)
Q Consensus 139 ~~~~ 142 (299)
..+.
T Consensus 136 p~~~ 139 (174)
T COG0225 136 PAKN 139 (174)
T ss_pred cccc
Confidence 5443
No 235
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=26.09 E-value=2.1e+02 Score=19.24 Aligned_cols=49 Identities=22% Similarity=0.278 Sum_probs=29.7
Q ss_pred CHHHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 74 RPEELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 74 te~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
.-.+|-++|.+.| .|..+.+... .. .++.-|.+.+.+.|.++|.. +|..
T Consensus 14 ~La~v~~~l~~~~inI~~i~~~~~---~~-~~~~rl~~~~~~~~~~~L~~-~G~~ 63 (66)
T cd04908 14 RLAAVTEILSEAGINIRALSIADT---SE-FGILRLIVSDPDKAKEALKE-AGFA 63 (66)
T ss_pred hHHHHHHHHHHCCCCEEEEEEEec---CC-CCEEEEEECCHHHHHHHHHH-CCCE
Confidence 4467888887766 6777765432 12 35555667776677776654 4443
No 236
>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=25.83 E-value=2.3e+02 Score=19.56 Aligned_cols=51 Identities=16% Similarity=0.073 Sum_probs=29.4
Q ss_pred CHHHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcC---HHHHHHHHHhhCC
Q 043443 74 RPEELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVD---PYEAAEAQHHMNG 125 (299)
Q Consensus 74 te~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~---~~~A~~Al~~lng 125 (299)
.-.+|.++|..+| .|..|.-.... .....-..||+++. ....+.+++.|..
T Consensus 12 ~L~~vL~~f~~~~vni~~I~Srp~~-~~~~~~~f~id~~~~~~~~~~~~~l~~l~~ 66 (75)
T cd04880 12 ALAKALKVFAERGINLTKIESRPSR-KGLWEYEFFVDFEGHIDDPDVKEALEELKR 66 (75)
T ss_pred HHHHHHHHHHHCCCCEEEEEeeecC-CCCceEEEEEEEECCCCCHHHHHHHHHHHH
Confidence 4567888888886 55555322211 11233456788874 5566677776644
No 237
>PLN02805 D-lactate dehydrogenase [cytochrome]
Probab=25.79 E-value=1.6e+02 Score=29.74 Aligned_cols=51 Identities=18% Similarity=0.131 Sum_probs=35.8
Q ss_pred CCHHHHHHHHh----cCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC
Q 043443 73 CRPEELRAPFE----RFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 73 ~te~dL~~~F~----~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln 124 (299)
.+.-||..+|- .||.|+++.|...+. ......+++.|.+.++|..|+..+.
T Consensus 278 ~~g~dL~~l~~GseGtLGIIT~~tlrl~p~-P~~~~~~~~~f~~~~~a~~av~~i~ 332 (555)
T PLN02805 278 AAGYDLTRLVIGSEGTLGVITEVTLRLQKI-PQHSVVAMCNFPTIKDAADVAIATM 332 (555)
T ss_pred CCCccHHHHhccCCCceEEEEEEEEEeecC-CcceEEEEEEcCCHHHHHHHHHHHH
Confidence 34457888872 578898887754432 2335678899999999998887653
No 238
>PLN02968 Probable N-acetyl-gamma-glutamyl-phosphate reductase
Probab=25.67 E-value=1e+02 Score=29.41 Aligned_cols=31 Identities=13% Similarity=0.150 Sum_probs=22.3
Q ss_pred EEEEeCCCCCCCHHHHHHHHhc-CCCEeEEEec
Q 043443 63 SLLVRNIPLDCRPEELRAPFER-FGVVRDVYLP 94 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~-~G~I~~v~i~ 94 (299)
+|+|. |...++.++|+++|.. |..+..|.+.
T Consensus 280 tv~v~-~~~~~~~~~v~~~~~~~y~~~~fV~~~ 311 (381)
T PLN02968 280 TVYVH-YAPGVTAEDLHQHLKERYEGEEFVKVL 311 (381)
T ss_pred EEEEE-eCCCCCHHHHHHHHHHhCCCCCEEEeC
Confidence 44443 5667899999999998 6766666664
No 239
>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=25.61 E-value=2.2e+02 Score=19.93 Aligned_cols=52 Identities=19% Similarity=0.209 Sum_probs=33.0
Q ss_pred CCC-CCCCHHHHHHHHh-cCCCE-eEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC
Q 043443 68 NIP-LDCRPEELRAPFE-RFGVV-RDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 68 nLp-~~~te~dL~~~F~-~~G~I-~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln 124 (299)
.++ ..++.++|.+... .|+.. ..+.|.... ..| -+|...+.++.+.|++.+.
T Consensus 15 ~~~~~~~s~~~L~~~i~~~~~~~~~~~~l~y~D----~e~-d~v~l~sd~Dl~~a~~~~~ 69 (81)
T cd05992 15 VVVSRSISFEDLRSKIAEKFGLDAVSFKLKYPD----EDG-DLVTISSDEDLEEAIEEAR 69 (81)
T ss_pred EEecCCCCHHHHHHHHHHHhCCCCCcEEEEeeC----CCC-CEEEeCCHHHHHHHHHHHh
Confidence 344 7888888887765 34432 233332211 123 7899999999999998764
No 240
>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=25.24 E-value=1.6e+02 Score=25.10 Aligned_cols=64 Identities=19% Similarity=0.126 Sum_probs=41.3
Q ss_pred CCCCCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCC-CCCccEEEEEEcCHHHHHHHHHhh
Q 043443 58 EQNHGSLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYT-GEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 58 ~~~~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~-g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
+.-...=||+|.+...+-..|-+.|...|.- |.++..+.. ..+.++-+|.|.+.+++..|+..+
T Consensus 15 E~iD~VR~ItN~SSG~~G~~lA~~~~~~Ga~--V~li~g~~~~~~p~~~~~i~v~sa~em~~~~~~~ 79 (185)
T PF04127_consen 15 EPIDPVRFITNRSSGKMGAALAEEAARRGAE--VTLIHGPSSLPPPPGVKVIRVESAEEMLEAVKEL 79 (185)
T ss_dssp EESSSSEEEEES--SHHHHHHHHHHHHTT-E--EEEEE-TTS----TTEEEEE-SSHHHHHHHHHHH
T ss_pred ccCCCceEecCCCcCHHHHHHHHHHHHCCCE--EEEEecCccccccccceEEEecchhhhhhhhccc
Confidence 3334567899999998889999999888753 222222211 235688999999999999998765
No 241
>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=24.95 E-value=13 Score=25.86 Aligned_cols=60 Identities=20% Similarity=0.124 Sum_probs=30.0
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCEeE-EEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhC
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFGVVRD-VYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMN 124 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G~I~~-v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~ln 124 (299)
..|.|+.+...-.-+.+...+...|.... +.+... +..-..-+-.|.+.++|+.++..|.
T Consensus 5 y~vQv~s~~~~~~A~~~~~~l~~~g~~~~~~~~~~~---~~~yrV~~G~f~~~~~A~~~~~~l~ 65 (76)
T PF05036_consen 5 YYVQVGSFSSEENAERLLAKLKKKGPDAYVVQVSKG---GPWYRVRVGPFSSREEAEAALRKLK 65 (76)
T ss_dssp EEEEEEEES-HHHHHHHHHHHHHHT-----EEEEEE---TTCEEEEECCECTCCHHHHHHHHHH
T ss_pred EEEEEEEcCCHHHHHHHHHHHHhcCCCcceEEEecC---CceEEEEECCCCCHHHHHHHHHHHh
Confidence 46777766543333444444444443322 222211 1111222337899999999999887
No 242
>PF13721 SecD-TM1: SecD export protein N-terminal TM region
Probab=24.68 E-value=3.2e+02 Score=20.77 Aligned_cols=58 Identities=7% Similarity=0.112 Sum_probs=38.4
Q ss_pred CEEEEeCCCCCC---CHHHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 62 GSLLVRNIPLDC---RPEELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 62 ~~l~V~nLp~~~---te~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
..|.|......+ +..+|..++..-| .++.+... .+-..|.|.+.++...|.+.|....
T Consensus 32 pAvqIs~~~~~~~~~~~~~v~~~L~~~~I~~k~i~~~--------~~~llirf~~~~~Ql~Ak~~L~~~L 93 (101)
T PF13721_consen 32 PAVQISASSAGVQLPDAFQVEQALKAAGIAVKSIEQE--------GDSLLIRFDSTDQQLKAKDVLSKAL 93 (101)
T ss_pred CcEEEecCCCCccCChHHHHHHHHHHCCCCcceEEee--------CCEEEEEECCHHHHHHHHHHHHHHc
Confidence 357776653322 2357888888776 33444433 2578899999999999988776554
No 243
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=24.39 E-value=95 Score=32.06 Aligned_cols=12 Identities=17% Similarity=0.116 Sum_probs=6.5
Q ss_pred EEEEEcCHHHHH
Q 043443 106 AFVQFVDPYEAA 117 (299)
Q Consensus 106 afVeF~~~~~A~ 117 (299)
+||.|.++..++
T Consensus 695 ~~~k~~de~~~~ 706 (877)
T KOG0151|consen 695 NPVKYDDEDRDK 706 (877)
T ss_pred cccccchhhhHH
Confidence 566665544443
No 244
>COG4010 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.31 E-value=2e+02 Score=23.61 Aligned_cols=46 Identities=17% Similarity=0.178 Sum_probs=37.0
Q ss_pred CCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh
Q 043443 68 NIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 68 nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
.|+..+.++-|+++.+..|.|.++. -.| ..+.|-+.+....||+.+
T Consensus 118 ~L~epl~~eRlqDi~E~hgvIiE~~-E~D---------~V~i~Gd~drVk~aLke~ 163 (170)
T COG4010 118 HLREPLAEERLQDIAETHGVIIEFE-EYD---------LVAIYGDSDRVKKALKEI 163 (170)
T ss_pred ecCchhHHHHHHHHHHhhheeEEee-ecc---------EEEEeccHHHHHHHHHHH
Confidence 4788899999999999999887765 222 456789999999999865
No 245
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=22.94 E-value=90 Score=28.06 Aligned_cols=22 Identities=23% Similarity=0.244 Sum_probs=18.7
Q ss_pred EEEEeCCCCCCCHHHHHHHHhc
Q 043443 63 SLLVRNIPLDCRPEELRAPFER 84 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~ 84 (299)
.++|+|||+.++..-|..++..
T Consensus 107 ~~vv~NlPY~iss~ii~~~l~~ 128 (272)
T PRK00274 107 LKVVANLPYNITTPLLFHLLEE 128 (272)
T ss_pred ceEEEeCCccchHHHHHHHHhc
Confidence 5789999999998888888754
No 246
>TIGR01033 DNA-binding regulatory protein, YebC/PmpR family. This model describes a minimally characterized protein family, restricted to bacteria excepting for some eukaryotic sequences that have possible transit peptides. YebC from E. coli is crystallized, and PA0964 from Pseudomonas aeruginosa has been shown to be a sequence-specific DNA-binding regulatory protein.
Probab=22.71 E-value=2.5e+02 Score=24.97 Aligned_cols=43 Identities=14% Similarity=0.152 Sum_probs=29.0
Q ss_pred CEEEEeCCCCCC--CHHHHHHHHhcCCCEe----EEEeccCCCCCCCccEEEEEEc
Q 043443 62 GSLLVRNIPLDC--RPEELRAPFERFGVVR----DVYLPKDYYTGEPRGFAFVQFV 111 (299)
Q Consensus 62 ~~l~V~nLp~~~--te~dL~~~F~~~G~I~----~v~i~~d~~~g~~~g~afVeF~ 111 (299)
..|+|.-|..+. |..+|+.+|.++|-.. .|.++.+ ..++|+|.
T Consensus 95 vaiiVe~lTDN~nRt~~~ir~~f~K~gg~l~~~gsv~~~Fe-------~kG~i~~~ 143 (238)
T TIGR01033 95 VAIIVECLTDNKNRTASEVRSAFNKNGGSLGEPGSVSYLFS-------RKGVIEVP 143 (238)
T ss_pred eEEEEEEecCCHHhHHHHHHHHHHHcCCeeCCCCceeeeee-------cceEEEEC
Confidence 568888887665 6789999999987432 2444443 25677774
No 247
>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=22.63 E-value=57 Score=24.34 Aligned_cols=47 Identities=15% Similarity=0.221 Sum_probs=26.0
Q ss_pred CCEEEEeCCCCCCCHH---HHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcC
Q 043443 61 HGSLLVRNIPLDCRPE---ELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVD 112 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~---dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~ 112 (299)
..-|||++++..+.+. .|.+.+.+-|.+.-++- +....||.|-++-+
T Consensus 25 ~~GVyVg~~s~rVRe~lW~~v~~~~~~~G~avm~~~-----~~~e~G~~~~t~G~ 74 (87)
T TIGR01873 25 RAGVYVGGVSASVRERIWDYLAQHCPPKGSLVITWS-----SNTCPGFEFFTLGE 74 (87)
T ss_pred CCCcEEcCCCHHHHHHHHHHHHHhCCCCccEEEEEe-----CCCCCCcEEEecCC
Confidence 3459999998877553 34444222244332222 22346788877754
No 248
>PF13291 ACT_4: ACT domain; PDB: 2KO1_B 3IBW_A.
Probab=22.31 E-value=2.8e+02 Score=19.33 Aligned_cols=64 Identities=11% Similarity=0.040 Sum_probs=36.9
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCC
Q 043443 62 GSLLVRNIPLDCRPEELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNG 125 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng 125 (299)
.+|.|......---.+|...|...+ .|..+.+......+......-|+..+.++....|..|..
T Consensus 7 ~~l~i~~~dr~GlL~dI~~~i~~~~~nI~~i~~~~~~~~~~~~~~l~v~V~d~~~L~~ii~~L~~ 71 (80)
T PF13291_consen 7 VRLRIEAEDRPGLLADITSVISENGVNIRSINARTNKDDGTARITLTVEVKDLEHLNQIIRKLRQ 71 (80)
T ss_dssp EEEEEEEE--TTHHHHHHHHHHCSSSEEEEEEEEE--ETTEEEEEEEEEESSHHHHHHHHHHHCT
T ss_pred EEEEEEEEcCCCHHHHHHHHHHHCCCCeEEEEeEEeccCCEEEEEEEEEECCHHHHHHHHHHHHC
Confidence 3455554444445678888888775 677777665321222233334555688888888877754
No 249
>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=22.12 E-value=2.8e+02 Score=19.32 Aligned_cols=50 Identities=14% Similarity=0.064 Sum_probs=28.6
Q ss_pred CHHHHHHHHhcCC-CEeEEEeccCCCCCCC-ccEEEEEEc-CHHHHHHHHHhhCC
Q 043443 74 RPEELRAPFERFG-VVRDVYLPKDYYTGEP-RGFAFVQFV-DPYEAAEAQHHMNG 125 (299)
Q Consensus 74 te~dL~~~F~~~G-~I~~v~i~~d~~~g~~-~g~afVeF~-~~~~A~~Al~~lng 125 (299)
.-.+|.+.|..+| .+..|. .-+..+.. .=+-||+|+ +.++.++||+.|..
T Consensus 13 ~L~~vL~~f~~~~iNlt~Ie--SRP~~~~~~~y~Ffvd~~~~~~~~~~~l~~L~~ 65 (74)
T cd04904 13 ALARALKLFEEFGVNLTHIE--SRPSRRNGSEYEFFVDCEVDRGDLDQLISSLRR 65 (74)
T ss_pred HHHHHHHHHHHCCCcEEEEE--CCCCCCCCceEEEEEEEEcChHHHHHHHHHHHH
Confidence 4567778888876 344443 22222222 224467777 55667778887754
No 250
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=22.12 E-value=1.6e+02 Score=25.30 Aligned_cols=46 Identities=30% Similarity=0.211 Sum_probs=29.9
Q ss_pred CHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh
Q 043443 74 RPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 74 te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
+.++..+++..++.-. +.|..| |...|-+.+...+.++|..||..|
T Consensus 25 ~~~~A~~~l~~~~~p~-~ViKad---Gla~GKGV~i~~~~~eA~~~l~~~ 70 (194)
T PF01071_consen 25 DYEEALEYLEEQGYPY-VVIKAD---GLAAGKGVVIADDREEALEALREI 70 (194)
T ss_dssp SHHHHHHHHHHHSSSE-EEEEES---SSCTTTSEEEESSHHHHHHHHHHH
T ss_pred CHHHHHHHHHhcCCCc-eEEccC---CCCCCCEEEEeCCHHHHHHHHHHh
Confidence 5677777777765432 333333 333444566679999999999866
No 251
>PF09869 DUF2096: Uncharacterized protein conserved in archaea (DUF2096); InterPro: IPR017098 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.08 E-value=2.6e+02 Score=23.52 Aligned_cols=50 Identities=18% Similarity=0.155 Sum_probs=40.0
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhh
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHM 123 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~l 123 (299)
+|-| +|+..+.++-|.++-+-+|.|.+. .+ ..-++.|-+.+..+.||+.|
T Consensus 114 ~iRv-~l~~~i~~erl~ei~E~~gvI~Ef---ee-------~~~V~I~Gdke~Ik~aLKe~ 163 (169)
T PF09869_consen 114 TIRV-KLKKPIQEERLQEISEWHGVIFEF---EE-------DDKVVIEGDKERIKKALKEF 163 (169)
T ss_pred eEEE-ecCccchHHHHHHHHHHhceeEEe---cC-------CcEEEEeccHHHHHHHHHHH
Confidence 4544 689999999999999999988765 11 23478899999999999876
No 252
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=22.07 E-value=98 Score=27.40 Aligned_cols=24 Identities=17% Similarity=0.187 Sum_probs=20.3
Q ss_pred EEEEeCCCCCCCHHHHHHHHhcCC
Q 043443 63 SLLVRNIPLDCRPEELRAPFERFG 86 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~~G 86 (299)
.+.|+|||+.++...|..++..++
T Consensus 96 ~~vvsNlPy~i~~~il~~ll~~~~ 119 (253)
T TIGR00755 96 LKVVSNLPYNISSPLIFKLLEKPK 119 (253)
T ss_pred ceEEEcCChhhHHHHHHHHhccCC
Confidence 478999999999999999986444
No 253
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=21.98 E-value=91 Score=28.61 Aligned_cols=22 Identities=14% Similarity=0.203 Sum_probs=18.9
Q ss_pred EEEEeCCCCCCCHHHHHHHHhc
Q 043443 63 SLLVRNIPLDCRPEELRAPFER 84 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~~ 84 (299)
.+.|.|||+.++...|..++..
T Consensus 103 d~VvaNlPY~Istpil~~ll~~ 124 (294)
T PTZ00338 103 DVCVANVPYQISSPLVFKLLAH 124 (294)
T ss_pred CEEEecCCcccCcHHHHHHHhc
Confidence 4778999999999988888864
No 254
>PRK02886 hypothetical protein; Provisional
Probab=21.79 E-value=2.1e+02 Score=21.38 Aligned_cols=39 Identities=21% Similarity=0.337 Sum_probs=27.2
Q ss_pred HHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCcee
Q 043443 81 PFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRF 128 (299)
Q Consensus 81 ~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l 128 (299)
.+.+||.|..+-=. ..|+ |-|-|.++|+..++.|....|
T Consensus 20 ~LrkyG~I~Y~Skr--------~kYv-vlYvn~~~~e~~~~kl~~l~f 58 (87)
T PRK02886 20 QLRKFGNVHYVSKR--------LKYA-VLYCDMEQVEDIMNKLSSLPF 58 (87)
T ss_pred HHhhcCcEEEEecc--------ccEE-EEEECHHHHHHHHHHHhcCCC
Confidence 35789999876432 2355 457788999999988876543
No 255
>KOG1999 consensus RNA polymerase II transcription elongation factor DSIF/SUPT5H/SPT5 [Transcription]
Probab=21.59 E-value=1.7e+02 Score=31.34 Aligned_cols=34 Identities=15% Similarity=0.197 Sum_probs=27.6
Q ss_pred CCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 101 EPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 101 ~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
.-+||.|||-.....++.||+.|-+..+. +.|-|
T Consensus 208 ~lkGyIYIEA~KqshV~~Ai~gv~niy~~-~~~lV 241 (1024)
T KOG1999|consen 208 HLKGYIYIEADKQSHVKEAIEGVRNIYAN-RILLV 241 (1024)
T ss_pred ccceeEEEEechhHHHHHHHhhhhhheec-cEEEE
Confidence 45899999999999999999988887766 44444
No 256
>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=21.52 E-value=3.4e+02 Score=20.04 Aligned_cols=66 Identities=15% Similarity=0.067 Sum_probs=36.9
Q ss_pred EEEEeCCCCCCCHHHHHHHHh----cCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEE
Q 043443 63 SLLVRNIPLDCRPEELRAPFE----RFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISV 135 (299)
Q Consensus 63 ~l~V~nLp~~~te~dL~~~F~----~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V 135 (299)
-|+|..++..++-++|.+.+. -.- ..-.++++- ..|. .|+|.+.++.+.|+..+.-..=.+-.|+|
T Consensus 10 di~it~~d~~~s~e~L~~~v~~~c~~~~~q~ft~kw~D--EEGD-----p~tiSS~~EL~EA~rl~~~n~~~~l~ihv 80 (83)
T cd06404 10 DIMITSIDPSISLEELCNEVRDMCRFHNDQPFTLKWID--EEGD-----PCTISSQMELEEAFRLYELNKDSELNIHV 80 (83)
T ss_pred cEEEEEcCCCcCHHHHHHHHHHHhCCCCCCcEEEEEEC--CCCC-----ceeecCHHHHHHHHHHHHhcCcccEEEEe
Confidence 478888888888766654443 221 112233322 1232 46788999999998865433222444444
No 257
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.40 E-value=2.5e+02 Score=18.32 Aligned_cols=48 Identities=15% Similarity=0.134 Sum_probs=25.3
Q ss_pred HHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCc
Q 043443 76 EELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGK 126 (299)
Q Consensus 76 ~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~ 126 (299)
.+|.++|.++| .|..+...... .......+|..++.+.+.++|+. +|.
T Consensus 14 ~~i~~~l~~~~~nI~~i~~~~~~--~~~~~~v~~~ve~~~~~~~~L~~-~G~ 62 (65)
T cd04882 14 HEILQILSEEGINIEYMYAFVEK--KGGKALLIFRTEDIEKAIEVLQE-RGV 62 (65)
T ss_pred HHHHHHHHHCCCChhheEEEccC--CCCeEEEEEEeCCHHHHHHHHHH-CCc
Confidence 56667777765 55555442221 11233445555676666666654 444
No 258
>PRK04199 rpl10e 50S ribosomal protein L10e; Reviewed
Probab=21.33 E-value=5.1e+02 Score=21.92 Aligned_cols=26 Identities=15% Similarity=0.111 Sum_probs=15.6
Q ss_pred cEEEEEEc----CHHHHHHHHHhhCCceeCC
Q 043443 104 GFAFVQFV----DPYEAAEAQHHMNGKRFAG 130 (299)
Q Consensus 104 g~afVeF~----~~~~A~~Al~~lng~~l~G 130 (299)
|..++|+. +.+.|..||.. -...|-.
T Consensus 129 G~ilfei~~~~~~~~~akeAlr~-a~~KLP~ 158 (172)
T PRK04199 129 GQKIFTVRVNPEHLEAAKEALRR-AAMKLPT 158 (172)
T ss_pred CCEEEEEEecCCCHHHHHHHHHH-hhccCCC
Confidence 44556665 67788888874 3334433
No 259
>KOG2854 consensus Possible pfkB family carbohydrate kinase [Carbohydrate transport and metabolism]
Probab=21.15 E-value=1e+02 Score=28.91 Aligned_cols=62 Identities=18% Similarity=0.124 Sum_probs=33.4
Q ss_pred CCEEEEeCCCCCCCHHHHHHHHhcCCCEeEEE-----eccC-----CCCCCCccEEEEEEcCHHHHHHHHHh
Q 043443 61 HGSLLVRNIPLDCRPEELRAPFERFGVVRDVY-----LPKD-----YYTGEPRGFAFVQFVDPYEAAEAQHH 122 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~~F~~~G~I~~v~-----i~~d-----~~~g~~~g~afVeF~~~~~A~~Al~~ 122 (299)
...+||.++-..+..+.|..+-+..-+...+. ++.- ..-.+.-.|++|.|.|.++|..-.+.
T Consensus 160 a~v~yv~Gffltv~p~ai~~v~qh~~e~~r~~~lnlsapfI~q~~~~~l~~v~~y~DiifgNe~EA~af~~~ 231 (343)
T KOG2854|consen 160 AKVFYVAGFFLTVSPDAIRKVAQHAAENNRVFTLNLSAPFISQFFKDALDKVLPYADIIFGNEDEAAAFARA 231 (343)
T ss_pred eeEEEEEEEEEEeChHHHHHHHHHHHHhcchhheeccchhHHHHHHHHHHhhcCcceEEEcCHHHHHHHHHh
Confidence 35677888777776655554433222211111 1000 00112246999999999999876653
No 260
>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=21.14 E-value=40 Score=27.59 Aligned_cols=26 Identities=23% Similarity=0.362 Sum_probs=18.1
Q ss_pred CccEEEEEEcCHHHHHHHHHhhCCce
Q 043443 102 PRGFAFVQFVDPYEAAEAQHHMNGKR 127 (299)
Q Consensus 102 ~~g~afVeF~~~~~A~~Al~~lng~~ 127 (299)
+.|..+|-|.+.++|++.++...|..
T Consensus 113 pMg~~~~aF~~~~~A~~F~~~~GG~v 138 (149)
T PF05573_consen 113 PMGPDLIAFASKEDAEAFAKEHGGKV 138 (149)
T ss_dssp TTS--EEEES-HHHHHHHHHHTEEEE
T ss_pred CCCCcccccCCHHHHHHHHHHcCCEE
Confidence 35788999999999999998764443
No 261
>PF14111 DUF4283: Domain of unknown function (DUF4283)
Probab=20.97 E-value=85 Score=25.04 Aligned_cols=34 Identities=21% Similarity=0.133 Sum_probs=27.5
Q ss_pred EEEEeCCCCC-CCHHHHHHHHhcCCCEeEEEeccC
Q 043443 63 SLLVRNIPLD-CRPEELRAPFERFGVVRDVYLPKD 96 (299)
Q Consensus 63 ~l~V~nLp~~-~te~dL~~~F~~~G~I~~v~i~~d 96 (299)
=|.|.|||.. .+++.|+++.+.+|++..++....
T Consensus 106 WVri~glP~~~~~~~~~~~i~~~iG~~i~vD~~t~ 140 (153)
T PF14111_consen 106 WVRIYGLPLHLWSEEILKAIGSKIGEPIEVDENTL 140 (153)
T ss_pred hhhhccCCHHHhhhHHHHHHHHhcCCeEEEEcCCC
Confidence 4667899987 577889999999999999887643
No 262
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=20.82 E-value=2.2e+02 Score=24.62 Aligned_cols=54 Identities=28% Similarity=0.295 Sum_probs=36.0
Q ss_pred CCHHHHHHHHhcCCC---EeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeC
Q 043443 73 CRPEELRAPFERFGV---VRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFA 129 (299)
Q Consensus 73 ~te~dL~~~F~~~G~---I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~ 129 (299)
.+.+++.++...+|. |...++.. .|..++-+...-.+.++|..+...|-|..|.
T Consensus 25 ~s~eea~~~~~~l~~~~~VvKaQvl~---GgRGK~GgVk~~~s~~ea~~~a~~mlg~~l~ 81 (202)
T PF08442_consen 25 TSPEEAREAAKELGGKPLVVKAQVLA---GGRGKAGGVKIAKSPEEAKEAAKEMLGKTLK 81 (202)
T ss_dssp SSHHHHHHHHHHHTTSSEEEEE-SSS---STTTTTTCEEEESSHHHHHHHHHTTTTSEEE
T ss_pred CCHHHHHHHHHHhCCCcEEEEEeEee---cCcccCCceeecCCHHHHHHHHHHHhCCceE
Confidence 467788877776653 45555543 3445553444446889999999999898886
No 263
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.58 E-value=2.8e+02 Score=18.63 Aligned_cols=56 Identities=16% Similarity=0.209 Sum_probs=29.2
Q ss_pred CCCCC-CHHHHHHHHhcCC-CEeEEEeccCCCCCCCccEEEEEEc--CHHHHHHHHHhhCCce
Q 043443 69 IPLDC-RPEELRAPFERFG-VVRDVYLPKDYYTGEPRGFAFVQFV--DPYEAAEAQHHMNGKR 127 (299)
Q Consensus 69 Lp~~~-te~dL~~~F~~~G-~I~~v~i~~d~~~g~~~g~afVeF~--~~~~A~~Al~~lng~~ 127 (299)
++... .-..|.++|.++| .|..+..... ........+|.++ +.+++.++|.. +|..
T Consensus 8 ~~d~pG~l~~i~~~l~~~~inI~~i~~~~~--~~~~~~~v~i~v~~~~~~~~~~~L~~-~G~~ 67 (72)
T cd04883 8 VPDRPGQLADIAAIFKDRGVNIVSVLVYPS--KEEDNKILVFRVQTMNPRPIIEDLRR-AGYE 67 (72)
T ss_pred ECCCCCHHHHHHHHHHHcCCCEEEEEEecc--CCCCeEEEEEEEecCCHHHHHHHHHH-CCCe
Confidence 44443 4467788888876 5666644322 1222334445554 55555666654 3443
No 264
>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=20.46 E-value=2.7e+02 Score=21.45 Aligned_cols=20 Identities=20% Similarity=0.267 Sum_probs=13.9
Q ss_pred CCEEEEeCCCCCCCHHHHHH
Q 043443 61 HGSLLVRNIPLDCRPEELRA 80 (299)
Q Consensus 61 ~~~l~V~nLp~~~te~dL~~ 80 (299)
...||||+++...+.+.|..
T Consensus 6 ~~~l~~g~~~~~~d~~~L~~ 25 (139)
T cd00127 6 TPGLYLGSYPAASDKELLKK 25 (139)
T ss_pred cCCeEECChhHhcCHHHHHH
Confidence 45699999987665555543
No 265
>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=20.40 E-value=3.6e+02 Score=19.81 Aligned_cols=64 Identities=11% Similarity=-0.073 Sum_probs=34.5
Q ss_pred EeCCCC--CCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHHHhhCCceeCCeeEEEEE
Q 043443 66 VRNIPL--DCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQHHMNGKRFAGREISVVL 137 (299)
Q Consensus 66 V~nLp~--~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al~~lng~~l~Gr~i~V~~ 137 (299)
+..|+. .+++++|.+.+...-.+..+.|..-...+ =.|...+..+.+.||..+... |..|.+++
T Consensus 13 rf~~~~~~~~~~~~L~~ev~~rf~l~~f~lKYlDde~-----e~v~lssd~eLeE~~rl~~~~---~~~l~~~v 78 (81)
T cd06396 13 SFLVSDSENTTWASVEAMVKVSFGLNDIQIKYVDEEN-----EEVSVNSQGEYEEALKSAVRQ---GNLLQMNV 78 (81)
T ss_pred EEEecCCCCCCHHHHHHHHHHHhCCCcceeEEEcCCC-----CEEEEEchhhHHHHHHHHHhC---CCEEEEEE
Confidence 334666 78999988887653333333332211111 245556677777787754332 34555543
No 266
>PRK11863 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional
Probab=20.38 E-value=2.6e+02 Score=26.01 Aligned_cols=33 Identities=15% Similarity=0.148 Sum_probs=22.1
Q ss_pred CEEEEeC--CCCCCCHHHHHHHHhc-CCCEeEEEec
Q 043443 62 GSLLVRN--IPLDCRPEELRAPFER-FGVVRDVYLP 94 (299)
Q Consensus 62 ~~l~V~n--Lp~~~te~dL~~~F~~-~G~I~~v~i~ 94 (299)
.||||.- |...++.++|.++|.. |+.-..|.+.
T Consensus 210 ~Ti~~~~~~~~~~~~~~~i~~~~~~~Y~~epfV~v~ 245 (313)
T PRK11863 210 VTVPLHLRLLPGGPTAEDLHAALADHYAGEAFVRVA 245 (313)
T ss_pred EEEEEEecccCCCCCHHHHHHHHHHHcCCCCeEEEe
Confidence 4677764 4777899999999975 4544444443
No 267
>KOG2548 consensus SWAP mRNA splicing regulator [RNA processing and modification]
Probab=20.18 E-value=52 Score=32.59 Aligned_cols=6 Identities=33% Similarity=0.279 Sum_probs=2.4
Q ss_pred HHHHHH
Q 043443 75 PEELRA 80 (299)
Q Consensus 75 e~dL~~ 80 (299)
.++|-.
T Consensus 212 ~~tlnk 217 (653)
T KOG2548|consen 212 METLNK 217 (653)
T ss_pred HHHHHh
Confidence 334443
No 268
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=20.08 E-value=1.3e+02 Score=24.58 Aligned_cols=23 Identities=22% Similarity=0.215 Sum_probs=18.9
Q ss_pred CEEEEeCCCCCCCHHHHHHHHhc
Q 043443 62 GSLLVRNIPLDCRPEELRAPFER 84 (299)
Q Consensus 62 ~~l~V~nLp~~~te~dL~~~F~~ 84 (299)
.-++|+|+|+.++.+.|..++..
T Consensus 78 ~d~vi~n~Py~~~~~~i~~~l~~ 100 (169)
T smart00650 78 PYKVVGNLPYNISTPILFKLLEE 100 (169)
T ss_pred CCEEEECCCcccHHHHHHHHHhc
Confidence 35778999999998888888764
No 269
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=20.04 E-value=1.4e+02 Score=28.21 Aligned_cols=50 Identities=24% Similarity=0.213 Sum_probs=32.8
Q ss_pred CCCEEEEeCC--CC--CCCHHHHHHHHhcCCCEeEEEeccCCCCCCCccEEEEEEcCHHHHHHHH
Q 043443 60 NHGSLLVRNI--PL--DCRPEELRAPFERFGVVRDVYLPKDYYTGEPRGFAFVQFVDPYEAAEAQ 120 (299)
Q Consensus 60 ~~~~l~V~nL--p~--~~te~dL~~~F~~~G~I~~v~i~~d~~~g~~~g~afVeF~~~~~A~~Al 120 (299)
....|||.|= |. .++.++|+.+...... .+.|+.| .||++|.. +++...+
T Consensus 145 ~~~lv~i~nPNNPTG~~~~~~~l~~l~~~~~~--~~~vVvD--------EAY~eF~~-~~~~~l~ 198 (356)
T COG0079 145 KTKLVFLCNPNNPTGTLLPREELRALLEALPE--GGLVVID--------EAYIEFSP-ESSLELL 198 (356)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHhCCC--CcEEEEe--------CchhhcCC-chhhhhc
Confidence 3567888753 22 3578999999987755 3344445 69999998 4444333
Done!