Query 003956
Match_columns 784
No_of_seqs 249 out of 1112
Neff 3.5
Searched_HMMs 46136
Date Thu Mar 28 14:59:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003956.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003956hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5175 MOT2 Transcriptional r 100.0 7.2E-79 1.6E-83 635.8 18.0 229 2-237 10-243 (480)
2 KOG2068 MOT2 transcription fac 100.0 2.7E-59 5.9E-64 489.7 12.1 306 29-349 1-309 (327)
3 PF14570 zf-RING_4: RING/Ubox 99.8 7.8E-22 1.7E-26 158.4 3.1 48 9-61 1-48 (48)
4 PF00076 RRM_1: RNA recognitio 99.5 1.1E-13 2.3E-18 110.9 8.6 70 112-190 1-70 (70)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 1.7E-13 3.6E-18 142.3 12.0 105 109-237 3-112 (352)
6 PLN03134 glycine-rich RNA-bind 99.5 2.5E-13 5.3E-18 129.5 11.1 89 100-197 26-114 (144)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 1.8E-13 3.9E-18 142.0 10.5 79 111-197 271-349 (352)
8 TIGR01659 sex-lethal sex-letha 99.4 2.1E-12 4.6E-17 138.7 12.3 106 108-237 106-216 (346)
9 PF14259 RRM_6: RNA recognitio 99.3 5.8E-12 1.3E-16 102.9 9.2 70 112-190 1-70 (70)
10 TIGR01645 half-pint poly-U bin 99.3 9.9E-12 2.1E-16 142.1 10.8 77 110-194 108-184 (612)
11 smart00362 RRM_2 RNA recogniti 99.3 3.4E-11 7.4E-16 93.8 8.9 72 111-192 1-72 (72)
12 TIGR01628 PABP-1234 polyadenyl 99.2 3.8E-11 8.2E-16 133.9 12.0 103 111-237 2-111 (562)
13 KOG0114 Predicted RNA-binding 99.2 4.1E-11 8.8E-16 111.3 9.5 82 102-194 9-92 (124)
14 PLN03120 nucleic acid binding 99.2 4.4E-11 9.5E-16 124.8 10.2 76 108-195 3-78 (260)
15 KOG0117 Heterogeneous nuclear 99.2 4.6E-11 9.9E-16 131.1 10.4 106 107-237 81-187 (506)
16 KOG0148 Apoptosis-promoting RN 99.2 3.1E-11 6.7E-16 126.2 8.7 77 108-198 163-239 (321)
17 cd00590 RRM RRM (RNA recogniti 99.2 1.1E-10 2.4E-15 91.4 9.6 74 111-193 1-74 (74)
18 COG0724 RNA-binding proteins ( 99.2 1.2E-10 2.6E-15 109.5 10.8 80 109-196 115-194 (306)
19 KOG0125 Ataxin 2-binding prote 99.2 3.2E-11 6.8E-16 128.6 7.6 79 109-197 96-174 (376)
20 TIGR01645 half-pint poly-U bin 99.2 9.3E-11 2E-15 134.2 10.6 81 110-198 205-285 (612)
21 TIGR01659 sex-lethal sex-letha 99.2 1.2E-10 2.6E-15 125.4 10.8 82 108-197 192-275 (346)
22 TIGR01622 SF-CC1 splicing fact 99.2 1.9E-10 4.2E-15 124.3 12.3 117 109-237 89-209 (457)
23 smart00360 RRM RNA recognition 99.2 1.4E-10 2.9E-15 89.9 8.1 71 114-192 1-71 (71)
24 TIGR01648 hnRNP-R-Q heterogene 99.2 1.1E-10 2.5E-15 132.9 10.5 103 108-236 57-160 (578)
25 TIGR01628 PABP-1234 polyadenyl 99.1 1.3E-10 2.8E-15 129.7 10.6 81 108-197 284-364 (562)
26 KOG4206 Spliceosomal protein s 99.1 9.1E-11 2E-15 119.8 8.3 82 111-200 11-93 (221)
27 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.1 2.4E-10 5.3E-15 126.6 12.3 75 108-195 274-349 (481)
28 TIGR01622 SF-CC1 splicing fact 99.1 1.6E-10 3.4E-15 125.0 10.3 79 109-195 186-264 (457)
29 KOG0107 Alternative splicing f 99.1 1.1E-10 2.3E-15 116.2 7.7 78 109-199 10-87 (195)
30 TIGR01642 U2AF_lg U2 snRNP aux 99.1 3.1E-10 6.7E-15 124.1 12.0 81 108-196 294-374 (509)
31 PF13893 RRM_5: RNA recognitio 99.1 2.6E-10 5.7E-15 90.9 7.8 54 131-194 3-56 (56)
32 KOG0111 Cyclophilin-type pepti 99.1 4.8E-11 1.1E-15 122.1 4.3 84 106-197 7-90 (298)
33 PLN03213 repressor of silencin 99.1 2E-10 4.4E-15 127.2 8.5 78 110-199 11-90 (759)
34 KOG0149 Predicted RNA-binding 99.1 1.3E-10 2.7E-15 119.7 6.5 75 110-193 13-87 (247)
35 KOG0122 Translation initiation 99.1 3.8E-10 8.2E-15 116.8 9.2 82 108-197 188-269 (270)
36 smart00361 RRM_1 RNA recogniti 98.9 2E-09 4.4E-14 90.2 7.4 59 131-192 7-70 (70)
37 KOG0121 Nuclear cap-binding pr 98.9 1.3E-09 2.9E-14 104.4 6.9 78 108-193 35-112 (153)
38 KOG4207 Predicted splicing fac 98.9 8.9E-10 1.9E-14 112.2 5.4 77 110-194 14-90 (256)
39 KOG0148 Apoptosis-promoting RN 98.9 1.5E-09 3.2E-14 113.9 7.2 80 111-198 64-143 (321)
40 TIGR01648 hnRNP-R-Q heterogene 98.9 3.7E-09 8.1E-14 120.8 10.0 77 110-202 234-312 (578)
41 PLN03121 nucleic acid binding 98.9 4.2E-09 9.1E-14 109.2 9.4 75 110-196 6-80 (243)
42 KOG0126 Predicted RNA-binding 98.9 2.9E-10 6.2E-15 113.9 0.7 76 110-193 36-111 (219)
43 KOG0105 Alternative splicing f 98.9 2.9E-09 6.3E-14 107.2 6.8 80 110-200 7-86 (241)
44 KOG0145 RNA-binding protein EL 98.9 6.9E-09 1.5E-13 108.6 9.8 79 111-197 280-358 (360)
45 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.9 8.1E-09 1.7E-13 114.6 9.9 79 109-197 394-480 (481)
46 KOG0108 mRNA cleavage and poly 98.8 8.5E-09 1.8E-13 114.5 8.4 79 110-196 19-97 (435)
47 KOG0131 Splicing factor 3b, su 98.8 5.8E-09 1.3E-13 104.6 5.7 81 107-195 7-87 (203)
48 TIGR01642 U2AF_lg U2 snRNP aux 98.8 2.3E-08 4.9E-13 109.7 9.7 71 108-193 174-256 (509)
49 KOG0113 U1 small nuclear ribon 98.7 7.2E-08 1.6E-12 102.5 9.2 86 110-203 102-187 (335)
50 KOG0130 RNA-binding protein RB 98.7 3.5E-08 7.7E-13 95.6 6.2 82 105-194 68-149 (170)
51 KOG0144 RNA-binding protein CU 98.6 2.2E-08 4.9E-13 110.1 5.1 86 105-199 120-208 (510)
52 KOG0127 Nucleolar protein fibr 98.6 9.3E-08 2E-12 107.6 8.2 80 109-197 117-196 (678)
53 KOG2068 MOT2 transcription fac 98.6 2.2E-08 4.8E-13 107.3 3.0 54 7-66 250-303 (327)
54 KOG0117 Heterogeneous nuclear 98.6 8.1E-08 1.7E-12 106.1 7.1 71 110-196 260-330 (506)
55 KOG0147 Transcriptional coacti 98.6 6.1E-08 1.3E-12 109.0 6.2 79 112-198 281-359 (549)
56 KOG0132 RNA polymerase II C-te 98.6 1.2E-07 2.7E-12 109.8 8.7 102 99-222 407-512 (894)
57 KOG0144 RNA-binding protein CU 98.6 1.6E-07 3.4E-12 103.6 8.5 80 111-198 36-118 (510)
58 KOG0145 RNA-binding protein EL 98.5 3.7E-07 8.1E-12 95.9 9.7 105 109-237 41-150 (360)
59 KOG0127 Nucleolar protein fibr 98.5 3.1E-07 6.6E-12 103.6 8.2 114 111-233 294-424 (678)
60 KOG4208 Nucleolar RNA-binding 98.5 4.1E-07 8.8E-12 92.8 7.7 78 109-194 49-127 (214)
61 KOG4661 Hsp27-ERE-TATA-binding 98.3 9.2E-07 2E-11 100.1 7.1 76 112-195 408-483 (940)
62 KOG0123 Polyadenylate-binding 98.3 1.6E-06 3.4E-11 94.8 8.7 83 111-207 3-85 (369)
63 KOG0109 RNA-binding protein LA 98.3 8.9E-07 1.9E-11 94.2 5.1 85 111-211 4-93 (346)
64 KOG0533 RRM motif-containing p 98.2 2.5E-06 5.5E-11 89.0 7.8 75 110-193 84-158 (243)
65 KOG0153 Predicted RNA-binding 98.2 2E-06 4.3E-11 93.1 7.2 74 110-197 229-303 (377)
66 KOG0109 RNA-binding protein LA 98.2 1.9E-06 4.2E-11 91.7 5.2 77 109-201 78-154 (346)
67 KOG0123 Polyadenylate-binding 98.1 5.7E-06 1.2E-10 90.5 8.6 74 112-196 79-152 (369)
68 KOG0146 RNA-binding protein ET 98.1 2.5E-06 5.4E-11 90.1 5.1 80 110-197 286-365 (371)
69 KOG0124 Polypyrimidine tract-b 98.1 2.7E-06 5.9E-11 92.6 5.1 76 110-193 114-189 (544)
70 KOG0131 Splicing factor 3b, su 98.1 3.6E-06 7.8E-11 85.0 5.4 89 99-197 88-177 (203)
71 KOG0110 RNA-binding protein (R 98.1 7E-06 1.5E-10 95.0 8.2 85 107-196 513-597 (725)
72 KOG0415 Predicted peptidyl pro 98.1 6.6E-06 1.4E-10 89.5 7.5 102 86-195 215-317 (479)
73 KOG0151 Predicted splicing reg 98.0 1E-05 2.2E-10 93.8 7.7 109 107-222 172-289 (877)
74 KOG1548 Transcription elongati 98.0 1.5E-05 3.2E-10 86.6 8.4 89 102-199 127-223 (382)
75 KOG1548 Transcription elongati 97.9 2.5E-05 5.4E-10 84.9 8.6 61 131-200 295-357 (382)
76 KOG4660 Protein Mei2, essentia 97.9 6.1E-06 1.3E-10 93.4 3.9 88 97-197 63-150 (549)
77 KOG0124 Polypyrimidine tract-b 97.8 2.8E-05 6E-10 85.0 7.0 78 110-195 211-288 (544)
78 KOG4205 RNA-binding protein mu 97.8 1.4E-05 3.1E-10 86.0 3.9 77 108-193 5-81 (311)
79 KOG0146 RNA-binding protein ET 97.7 7.7E-05 1.7E-09 79.2 7.1 93 90-198 7-102 (371)
80 KOG0147 Transcriptional coacti 97.7 7.5E-05 1.6E-09 84.8 6.8 75 131-219 472-547 (549)
81 KOG4205 RNA-binding protein mu 97.6 9.1E-05 2E-09 80.0 5.8 83 110-201 98-180 (311)
82 KOG4454 RNA binding protein (R 97.6 3.1E-05 6.7E-10 80.3 2.0 73 111-193 11-83 (267)
83 KOG2202 U2 snRNP splicing fact 97.6 3.8E-05 8.2E-10 80.7 2.6 79 134-219 91-175 (260)
84 KOG0110 RNA-binding protein (R 97.5 6.2E-05 1.3E-09 87.4 4.3 78 110-195 614-691 (725)
85 KOG1190 Polypyrimidine tract-b 97.5 0.00024 5.2E-09 78.8 8.1 103 109-238 297-399 (492)
86 KOG0116 RasGAP SH3 binding pro 97.5 0.00018 3.9E-09 80.5 6.6 79 112-199 291-369 (419)
87 PF13920 zf-C3HC4_3: Zinc fing 97.4 7.5E-05 1.6E-09 59.5 2.1 48 5-62 1-49 (50)
88 KOG4212 RNA-binding protein hn 97.4 0.00037 7.9E-09 77.9 8.0 79 106-193 40-120 (608)
89 PF11608 Limkain-b1: Limkain b 97.4 0.00068 1.5E-08 61.7 8.2 71 110-195 3-75 (90)
90 KOG0106 Alternative splicing f 97.4 0.00012 2.7E-09 75.5 3.6 71 111-197 3-73 (216)
91 KOG4212 RNA-binding protein hn 97.3 0.00051 1.1E-08 76.9 6.8 73 108-193 535-607 (608)
92 PF05172 Nup35_RRM: Nup53/35/4 97.2 0.00035 7.7E-09 64.5 3.6 77 109-190 6-84 (100)
93 KOG0120 Splicing factor U2AF, 97.1 0.0011 2.4E-08 75.6 7.4 67 130-199 427-495 (500)
94 KOG1995 Conserved Zn-finger pr 97.1 0.00062 1.4E-08 74.4 5.2 97 106-210 63-167 (351)
95 PF13639 zf-RING_2: Ring finge 97.1 0.00015 3.2E-09 56.3 0.3 44 7-57 1-44 (44)
96 KOG4209 Splicing factor RNPS1, 97.1 0.0011 2.3E-08 69.1 6.5 82 107-197 99-180 (231)
97 KOG1996 mRNA splicing factor [ 97.0 0.00076 1.7E-08 72.6 5.2 66 130-199 304-370 (378)
98 PLN02189 cellulose synthase 96.9 0.0004 8.6E-09 84.2 2.4 50 7-61 35-87 (1040)
99 TIGR00570 cdk7 CDK-activating 96.9 0.0015 3.2E-08 70.8 6.4 55 6-66 3-59 (309)
100 cd00162 RING RING-finger (Real 96.8 0.0012 2.7E-08 48.7 3.3 44 8-59 1-44 (45)
101 PF14605 Nup35_RRM_2: Nup53/35 96.8 0.0023 5E-08 52.5 4.9 52 110-176 2-53 (53)
102 KOG1457 RNA binding protein (c 96.7 0.006 1.3E-07 64.1 8.7 80 110-196 35-117 (284)
103 PLN03208 E3 ubiquitin-protein 96.6 0.002 4.3E-08 65.9 4.1 59 5-67 17-85 (193)
104 PLN02436 cellulose synthase A 96.6 0.0011 2.3E-08 80.9 2.3 49 8-61 38-89 (1094)
105 PF08777 RRM_3: RNA binding mo 96.4 0.0074 1.6E-07 55.8 6.4 58 111-182 3-60 (105)
106 KOG2314 Translation initiation 96.4 0.0057 1.2E-07 70.4 6.5 78 109-192 58-139 (698)
107 PHA02929 N1R/p28-like protein; 96.4 0.0031 6.7E-08 66.2 3.9 51 5-61 173-227 (238)
108 PF04059 RRM_2: RNA recognitio 96.3 0.029 6.4E-07 51.8 9.7 82 109-197 1-87 (97)
109 KOG4211 Splicing factor hnRNP- 96.1 0.039 8.4E-07 63.0 10.9 76 111-198 12-87 (510)
110 KOG3152 TBP-binding protein, a 95.9 0.0055 1.2E-07 65.1 3.0 74 109-188 74-157 (278)
111 KOG0120 Splicing factor U2AF, 95.5 0.01 2.2E-07 68.0 3.6 81 106-194 286-366 (500)
112 smart00504 Ubox Modified RING 95.5 0.013 2.9E-07 47.7 3.2 50 6-65 1-50 (63)
113 PF14634 zf-RING_5: zinc-RING 95.5 0.014 3.1E-07 45.7 3.3 44 8-58 1-44 (44)
114 PF13923 zf-C3HC4_2: Zinc fing 95.4 0.0085 1.8E-07 45.7 1.8 39 9-56 1-39 (39)
115 KOG2177 Predicted E3 ubiquitin 95.4 0.0078 1.7E-07 58.3 1.8 48 4-61 11-58 (386)
116 KOG1456 Heterogeneous nuclear 95.4 0.11 2.3E-06 58.1 10.6 77 108-196 286-362 (494)
117 KOG4210 Nuclear localization s 95.4 0.01 2.2E-07 63.6 2.7 85 111-204 186-274 (285)
118 KOG0226 RNA-binding proteins [ 95.3 0.017 3.7E-07 61.5 4.0 75 111-193 192-266 (290)
119 KOG0106 Alternative splicing f 95.2 0.012 2.7E-07 61.1 2.7 78 98-191 85-165 (216)
120 PLN02195 cellulose synthase A 95.1 0.013 2.8E-07 71.4 3.0 57 1-62 1-60 (977)
121 KOG1190 Polypyrimidine tract-b 95.1 0.035 7.6E-07 62.3 6.1 71 112-194 153-225 (492)
122 KOG1365 RNA-binding protein Fu 95.1 0.024 5.3E-07 63.2 4.7 83 98-191 271-356 (508)
123 PLN02248 cellulose synthase-li 95.1 0.02 4.4E-07 70.5 4.3 50 7-62 125-178 (1135)
124 smart00184 RING Ring finger. E 95.0 0.028 6E-07 40.0 3.2 39 9-56 1-39 (39)
125 KOG0320 Predicted E3 ubiquitin 94.9 0.018 3.8E-07 58.6 2.9 51 7-65 132-182 (187)
126 KOG0317 Predicted E3 ubiquitin 94.9 0.021 4.5E-07 61.6 3.3 54 3-66 236-289 (293)
127 KOG0129 Predicted RNA-binding 94.8 0.056 1.2E-06 62.0 6.5 69 102-178 363-432 (520)
128 KOG4285 Mitotic phosphoprotein 94.6 0.056 1.2E-06 58.9 5.8 65 110-190 198-262 (350)
129 PF00097 zf-C3HC4: Zinc finger 94.6 0.023 5.1E-07 43.1 2.0 41 9-56 1-41 (41)
130 TIGR00599 rad18 DNA repair pro 94.5 0.054 1.2E-06 60.8 5.6 52 4-65 24-75 (397)
131 PF14569 zf-UDP: Zinc-binding 94.5 0.039 8.5E-07 49.6 3.6 54 5-63 8-64 (80)
132 KOG1456 Heterogeneous nuclear 94.5 0.27 5.9E-06 55.1 10.6 77 114-203 127-205 (494)
133 PF05290 Baculo_IE-1: Baculovi 94.2 0.039 8.6E-07 54.0 3.3 56 4-64 78-135 (140)
134 COG5236 Uncharacterized conser 94.1 0.032 7E-07 61.6 2.7 54 3-64 58-111 (493)
135 PHA02926 zinc finger-like prot 93.9 0.062 1.4E-06 56.5 4.2 57 5-61 169-230 (242)
136 KOG0112 Large RNA-binding prot 93.8 0.076 1.7E-06 64.1 5.1 88 106-207 452-543 (975)
137 PLN02638 cellulose synthase A 93.5 0.037 7.9E-07 68.2 2.0 50 7-61 18-70 (1079)
138 KOG2416 Acinus (induces apopto 93.4 0.055 1.2E-06 63.0 3.2 75 108-196 443-521 (718)
139 KOG0129 Predicted RNA-binding 93.3 0.27 5.8E-06 56.7 8.2 81 109-196 259-342 (520)
140 PLN02915 cellulose synthase A 93.3 0.048 1E-06 67.0 2.5 50 7-61 16-68 (1044)
141 KOG1457 RNA binding protein (c 93.1 0.089 1.9E-06 55.6 3.7 63 110-184 211-273 (284)
142 PF13445 zf-RING_UBOX: RING-ty 93.0 0.069 1.5E-06 42.8 2.2 43 9-54 1-43 (43)
143 KOG4211 Splicing factor hnRNP- 92.9 0.24 5.2E-06 56.8 7.1 74 109-192 103-177 (510)
144 PF08952 DUF1866: Domain of un 92.7 0.28 6E-06 48.7 6.4 52 131-196 55-106 (146)
145 KOG4206 Spliceosomal protein s 92.7 0.31 6.7E-06 51.2 7.0 75 107-194 144-219 (221)
146 KOG4307 RNA binding protein RB 92.6 0.31 6.8E-06 58.0 7.6 74 111-193 869-943 (944)
147 PF04641 Rtf2: Rtf2 RING-finge 92.6 0.14 3E-06 54.0 4.4 64 5-75 112-175 (260)
148 PF15227 zf-C3HC4_4: zinc fing 92.5 0.073 1.6E-06 42.0 1.7 42 9-56 1-42 (42)
149 PLN02400 cellulose synthase 92.5 0.058 1.3E-06 66.5 1.7 49 8-61 38-89 (1085)
150 KOG3002 Zn finger protein [Gen 92.1 0.095 2.1E-06 56.9 2.6 47 4-62 46-92 (299)
151 PF12861 zf-Apc11: Anaphase-pr 90.9 0.25 5.5E-06 45.1 3.6 54 5-61 20-82 (85)
152 KOG1855 Predicted RNA-binding 90.8 0.22 4.8E-06 56.4 3.8 89 100-192 220-319 (484)
153 COG5432 RAD18 RING-finger-cont 90.2 0.15 3.2E-06 55.5 1.7 46 7-64 26-73 (391)
154 PF04847 Calcipressin: Calcipr 90.0 0.5 1.1E-05 48.2 5.2 55 131-196 14-70 (184)
155 PF10309 DUF2414: Protein of u 88.7 1.4 3.1E-05 38.1 6.3 57 107-179 3-62 (62)
156 KOG2135 Proteins containing th 88.1 0.24 5.3E-06 56.7 1.6 74 107-194 370-443 (526)
157 PF08675 RNA_bind: RNA binding 86.5 2.2 4.8E-05 39.4 6.5 57 108-180 7-63 (87)
158 COG5574 PEX10 RING-finger-cont 85.8 0.57 1.2E-05 50.5 2.7 52 4-63 213-264 (271)
159 COG5243 HRD1 HRD ubiquitin lig 85.6 0.55 1.2E-05 52.8 2.6 50 5-60 286-344 (491)
160 KOG0802 E3 ubiquitin ligase [P 85.3 0.45 9.7E-06 55.0 1.9 55 4-65 289-345 (543)
161 KOG2193 IGF-II mRNA-binding pr 85.0 1.1 2.3E-05 51.2 4.5 76 110-199 2-78 (584)
162 KOG4307 RNA binding protein RB 84.5 0.6 1.3E-05 55.7 2.4 84 100-192 423-509 (944)
163 KOG1365 RNA-binding protein Fu 84.4 2.6 5.7E-05 47.8 7.1 58 112-178 164-225 (508)
164 KOG0115 RNA-binding protein p5 84.3 1.2 2.5E-05 48.1 4.3 68 104-180 26-93 (275)
165 KOG0128 RNA-binding protein SA 83.0 0.26 5.7E-06 59.5 -1.3 93 108-236 666-758 (881)
166 KOG2164 Predicted E3 ubiquitin 82.9 0.98 2.1E-05 52.3 3.2 51 6-63 186-238 (513)
167 PF12678 zf-rbx1: RING-H2 zinc 82.7 0.97 2.1E-05 39.4 2.4 48 4-57 17-73 (73)
168 KOG0287 Postreplication repair 82.5 0.59 1.3E-05 52.0 1.2 50 6-65 23-72 (442)
169 PF03467 Smg4_UPF3: Smg-4/UPF3 82.4 1.6 3.4E-05 44.1 4.1 70 109-184 7-80 (176)
170 KOG0112 Large RNA-binding prot 82.2 0.35 7.6E-06 58.8 -0.6 78 109-195 372-449 (975)
171 KOG3800 Predicted E3 ubiquitin 82.1 1.8 3.8E-05 47.4 4.5 53 8-65 2-55 (300)
172 PF04564 U-box: U-box domain; 82.0 1.6 3.6E-05 37.7 3.5 52 6-66 4-55 (73)
173 KOG0311 Predicted E3 ubiquitin 81.5 0.44 9.6E-06 53.0 -0.1 51 5-63 42-92 (381)
174 KOG2857 Predicted MYND Zn-fing 80.1 0.7 1.5E-05 46.0 0.7 28 26-62 2-29 (157)
175 KOG4676 Splicing factor, argin 78.4 2.2 4.8E-05 48.4 4.0 75 111-191 9-83 (479)
176 KOG0128 RNA-binding protein SA 78.4 0.97 2.1E-05 54.9 1.3 77 109-194 736-812 (881)
177 KOG2923 Uncharacterized conser 76.5 1.1 2.4E-05 39.3 0.8 33 21-58 20-52 (67)
178 KOG0823 Predicted E3 ubiquitin 76.3 1.8 4E-05 45.9 2.5 59 3-68 44-102 (230)
179 KOG1941 Acetylcholine receptor 75.6 1.3 2.7E-05 50.3 1.2 50 5-58 364-413 (518)
180 PHA02825 LAP/PHD finger-like p 75.4 2.3 5.1E-05 43.0 2.9 50 4-63 6-61 (162)
181 COG5222 Uncharacterized conser 74.2 4.7 0.0001 44.6 4.9 44 7-58 275-318 (427)
182 PF10650 zf-C3H1: Putative zin 74.1 1.8 3.8E-05 31.2 1.2 20 198-217 2-21 (23)
183 KOG4265 Predicted E3 ubiquitin 73.0 1.8 3.8E-05 48.4 1.4 50 4-62 288-337 (349)
184 PF15023 DUF4523: Protein of u 72.6 15 0.00033 37.2 7.7 72 109-193 86-158 (166)
185 PF11767 SET_assoc: Histone ly 72.3 5.1 0.00011 35.1 3.8 30 162-191 36-65 (66)
186 PF07191 zinc-ribbons_6: zinc- 71.8 0.47 1E-05 42.1 -2.6 42 6-62 1-42 (70)
187 COG5216 Uncharacterized conser 70.5 1.6 3.5E-05 38.0 0.4 37 17-58 15-52 (67)
188 KOG0297 TNF receptor-associate 68.9 3.2 6.9E-05 46.6 2.3 53 4-65 19-71 (391)
189 PF11793 FANCL_C: FANCL C-term 68.9 2.9 6.3E-05 36.4 1.6 53 6-61 2-66 (70)
190 KOG1812 Predicted E3 ubiquitin 68.8 3.3 7.2E-05 46.5 2.5 60 6-65 146-207 (384)
191 KOG4574 RNA-binding protein (c 66.6 3.7 8.1E-05 50.3 2.4 71 113-197 302-374 (1007)
192 PF14447 Prok-RING_4: Prokaryo 66.5 2.6 5.6E-05 36.0 0.8 32 26-65 23-54 (55)
193 KOG2591 c-Mpl binding protein, 66.4 9.6 0.00021 45.1 5.5 85 101-203 166-255 (684)
194 KOG4849 mRNA cleavage factor I 65.8 6.5 0.00014 44.3 3.9 74 109-188 80-153 (498)
195 PF14608 zf-CCCH_2: Zinc finge 62.1 4.9 0.00011 27.3 1.3 10 208-217 8-18 (19)
196 KOG4172 Predicted E3 ubiquitin 61.7 3.2 6.9E-05 35.9 0.5 47 6-61 7-54 (62)
197 KOG4185 Predicted E3 ubiquitin 60.0 14 0.00031 39.1 5.0 49 7-60 4-54 (296)
198 PF08274 PhnA_Zn_Ribbon: PhnA 59.8 3.2 7E-05 31.4 0.2 26 7-32 3-29 (30)
199 KOG2193 IGF-II mRNA-binding pr 57.3 0.68 1.5E-05 52.7 -5.4 71 111-193 82-153 (584)
200 KOG0804 Cytoplasmic Zn-finger 56.5 25 0.00054 40.9 6.4 67 109-185 74-141 (493)
201 KOG0804 Cytoplasmic Zn-finger 55.3 6.2 0.00013 45.6 1.5 49 5-61 174-222 (493)
202 COG5220 TFB3 Cdk activating ki 53.4 7.6 0.00017 41.9 1.7 52 6-62 10-65 (314)
203 KOG2879 Predicted E3 ubiquitin 52.7 9 0.0002 42.0 2.2 50 5-61 238-287 (298)
204 smart00356 ZnF_C3H1 zinc finge 51.2 13 0.00028 25.7 2.1 23 196-219 4-27 (27)
205 KOG1815 Predicted E3 ubiquitin 49.1 25 0.00055 40.0 5.1 67 3-72 67-137 (444)
206 KOG1785 Tyrosine kinase negati 44.9 12 0.00026 42.9 1.7 46 7-60 370-415 (563)
207 KOG0824 Predicted E3 ubiquitin 43.0 19 0.00041 40.0 2.7 50 6-64 7-56 (324)
208 COG5183 SSM4 Protein involved 42.7 18 0.00038 44.7 2.7 54 5-65 11-70 (1175)
209 PF02318 FYVE_2: FYVE-type zin 41.5 13 0.00027 35.2 1.1 49 5-58 53-102 (118)
210 PF07576 BRAP2: BRCA1-associat 41.4 1.6E+02 0.0034 28.2 8.2 68 109-185 12-80 (110)
211 KOG1493 Anaphase-promoting com 41.4 25 0.00054 32.4 2.8 54 6-60 20-80 (84)
212 COG5219 Uncharacterized conser 41.1 12 0.00026 46.9 1.0 49 4-60 1467-1522(1525)
213 KOG4210 Nuclear localization s 40.3 16 0.00035 39.6 1.8 109 110-232 89-203 (285)
214 smart00744 RINGv The RING-vari 40.0 31 0.00067 28.3 2.9 46 8-57 1-49 (49)
215 KOG0826 Predicted E3 ubiquitin 39.7 15 0.00033 41.1 1.5 40 6-57 300-342 (357)
216 PF00642 zf-CCCH: Zinc finger 39.5 10 0.00023 27.4 0.2 23 196-218 3-26 (27)
217 PF01485 IBR: IBR domain; Int 38.8 15 0.00033 29.7 1.0 33 5-37 17-55 (64)
218 PF11781 RRN7: RNA polymerase 38.0 16 0.00035 28.5 1.0 25 8-32 10-35 (36)
219 KOG4213 RNA-binding protein La 37.6 30 0.00066 36.2 3.1 63 107-180 109-171 (205)
220 PHA02862 5L protein; Provision 36.3 30 0.00064 35.1 2.7 46 7-62 3-54 (156)
221 KOG0978 E3 ubiquitin ligase in 35.4 23 0.0005 43.1 2.2 51 7-66 644-694 (698)
222 PF04423 Rad50_zn_hook: Rad50 35.3 36 0.00078 28.0 2.7 18 48-65 18-35 (54)
223 KOG3161 Predicted E3 ubiquitin 35.0 19 0.00041 43.5 1.4 48 7-65 12-59 (861)
224 KOG1039 Predicted E3 ubiquitin 34.0 31 0.00067 38.8 2.7 54 5-60 160-220 (344)
225 KOG1729 FYVE finger containing 32.6 9.2 0.0002 41.9 -1.5 60 2-62 164-226 (288)
226 KOG0825 PHD Zn-finger protein 31.9 13 0.00029 45.6 -0.5 58 1-65 118-175 (1134)
227 PF07800 DUF1644: Protein of u 31.5 41 0.0009 34.4 2.9 54 5-60 1-90 (162)
228 PF12773 DZR: Double zinc ribb 30.7 39 0.00085 26.9 2.1 42 9-63 1-42 (50)
229 PF03880 DbpA: DbpA RNA bindin 30.5 43 0.00094 29.0 2.5 60 118-194 10-74 (74)
230 KOG4628 Predicted E3 ubiquitin 30.4 34 0.00074 38.6 2.3 48 8-62 231-279 (348)
231 PF06827 zf-FPG_IleRS: Zinc fi 30.2 4.1 8.8E-05 29.9 -3.3 28 31-58 2-29 (30)
232 PF12906 RINGv: RING-variant d 30.1 35 0.00076 27.7 1.8 41 9-56 1-47 (47)
233 KOG3039 Uncharacterized conser 29.9 33 0.00071 37.5 2.0 56 7-68 222-277 (303)
234 PF05605 zf-Di19: Drought indu 29.8 28 0.00061 28.5 1.2 38 6-58 2-39 (54)
235 PF10571 UPF0547: Uncharacteri 29.7 34 0.00074 25.1 1.5 21 8-31 2-23 (26)
236 smart00064 FYVE Protein presen 29.5 38 0.00082 28.4 2.0 41 1-41 5-45 (68)
237 PRK11595 DNA utilization prote 29.0 41 0.0009 34.8 2.5 40 7-61 6-45 (227)
238 KOG4159 Predicted E3 ubiquitin 28.3 36 0.00078 39.0 2.1 47 6-62 84-130 (398)
239 TIGR00416 sms DNA repair prote 27.3 29 0.00062 39.9 1.1 24 21-58 5-29 (454)
240 TIGR00143 hypF [NiFe] hydrogen 26.8 12 0.00026 45.4 -2.1 51 7-63 69-131 (711)
241 smart00647 IBR In Between Ring 26.7 26 0.00057 28.3 0.5 32 7-38 19-56 (64)
242 KOG2318 Uncharacterized conser 26.4 3.6E+02 0.0079 32.9 9.6 79 109-187 174-296 (650)
243 KOG3702 Nuclear polyadenylated 26.1 59 0.0013 39.5 3.4 76 131-219 530-605 (681)
244 KOG1842 FYVE finger-containing 25.2 27 0.00058 40.7 0.4 39 3-41 177-215 (505)
245 PRK04023 DNA polymerase II lar 24.6 42 0.00091 42.6 1.9 56 5-75 625-686 (1121)
246 PF12677 DUF3797: Domain of un 23.6 34 0.00075 28.9 0.6 26 7-32 14-48 (49)
247 KOG1492 C3H1-type Zn-finger pr 23.1 31 0.00068 37.0 0.4 27 198-225 263-289 (377)
248 PRK11823 DNA repair protein Ra 22.8 41 0.0009 38.5 1.3 24 21-58 5-29 (446)
249 KOG1812 Predicted E3 ubiquitin 22.8 43 0.00093 37.9 1.4 35 7-41 307-342 (384)
250 PF03604 DNA_RNApol_7kD: DNA d 22.5 47 0.001 25.6 1.1 23 9-31 3-26 (32)
251 smart00659 RPOLCX RNA polymera 22.3 45 0.00098 27.1 1.1 11 9-19 5-15 (44)
252 PRK03681 hypA hydrogenase nick 22.1 42 0.0009 31.9 1.0 20 8-27 72-91 (114)
253 COG0724 RNA-binding proteins ( 21.9 1.1E+02 0.0023 29.3 3.7 79 100-186 216-294 (306)
254 KOG3113 Uncharacterized conser 21.8 85 0.0018 34.5 3.3 61 7-75 112-172 (293)
255 KOG1001 Helicase-like transcri 21.7 40 0.00086 41.0 0.9 50 7-65 455-504 (674)
No 1
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=100.00 E-value=7.2e-79 Score=635.84 Aligned_cols=229 Identities=45% Similarity=0.918 Sum_probs=206.5
Q ss_pred CcccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchhccccChHHHHHHH--
Q 003956 2 SDKAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIVGMAANCERAVARM-- 79 (784)
Q Consensus 2 sDe~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~eel~~~~-- 79 (784)
|+|||+.||||||+||+||++|+||+||||||+||||+|+ .+++||||||||.|+++.+.|.++++||+.-++
T Consensus 10 sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~ir-----q~lngrcpacrr~y~denv~~~~~s~ee~kmel~r 84 (480)
T COG5175 10 SEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIR-----QNLNGRCPACRRKYDDENVRYVTLSPEELKMELAR 84 (480)
T ss_pred cccccccCcccccccccccCCcccCCcccHHHHHHHHHHH-----hhccCCChHhhhhccccceeEEecCHHHHHHHHHh
Confidence 4566677999999999999999999999999999999996 469999999999999999999999999986554
Q ss_pred HHHHHHhhhhcCCCCCcCccCCCCccccccCeEEEeCCCCCCChHH---HHHHHHhhccCCceEEEEEeecCCCCcccCC
Q 003956 80 TSERRQKSQKAKPKPSEGRMHLTNVRVIQRNLVYIIGLPINLADED---LLQRKEYFGQYGKVLKVSISRTATGDIQHSA 156 (784)
Q Consensus 80 ~~~kkqK~qk~k~k~se~RK~La~VRVIQRNLVYV~GLP~~IAeED---LLR~~EyFGQYGKI~KIvInrdk~g~~q~~~ 156 (784)
+.+||++++++|+.+-.+||||+++||||||||||+|||+.+++|+ +|+++|||||||+|.||+|++....... .
T Consensus 85 k~erk~rekerke~e~~nrkhlsniRVvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~ns--t 162 (480)
T COG5175 85 KEERKMREKERKEAEGQNRKHLSNIRVVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNS--T 162 (480)
T ss_pred hhhhhccHHHHhhhhcccccccccceeeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEeccccccccc--c
Confidence 3466667777788888899999999999999999999999999999 8999999999999999999987643321 1
Q ss_pred CCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEeecCCccccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhh
Q 003956 157 NNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRACFGTTKYCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFT 236 (784)
Q Consensus 157 ~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRASfGTTKYCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~t 236 (784)
..-+++||||.++|||.+||.++||..+|||.|||+|||||||++||||++|+||+||||||+|+++|+|||+||....+
T Consensus 163 ~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYGTTKYCtsYLRn~~CpNp~CMyLHEpg~e~Ds~tK~el~n~qh 242 (480)
T COG5175 163 ASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYGTTKYCTSYLRNAVCPNPDCMYLHEPGPEKDSLTKDELCNSQH 242 (480)
T ss_pred cccceEEEEecchHHHHHHHHHhccccccCceEeeecCchHHHHHHHcCCCCCCCCeeeecCCCcccccccHHHHhhhhh
Confidence 12356899999999999999999999999999999999999999999999999999999999999999999999987544
Q ss_pred c
Q 003956 237 R 237 (784)
Q Consensus 237 r 237 (784)
.
T Consensus 243 ~ 243 (480)
T COG5175 243 K 243 (480)
T ss_pred h
Confidence 3
No 2
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=100.00 E-value=2.7e-59 Score=489.73 Aligned_cols=306 Identities=40% Similarity=0.675 Sum_probs=253.2
Q ss_pred CChhhhhhHHHHHHhhhccCCCCCCccccccccccchhccccChHHHHHHHHHHHHHhhhhcCCCCCcCccCCCCccccc
Q 003956 29 GYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIVGMAANCERAVARMTSERRQKSQKAKPKPSEGRMHLTNVRVIQ 108 (784)
Q Consensus 29 GYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~eel~~~~~~~kkqK~qk~k~k~se~RK~La~VRVIQ 108 (784)
|||||.||||||++++++ +|||||||++|++++|+++.+.+++++++.+++|| |+++.+.+...+|++|.++||||
T Consensus 1 ~yqIc~~cwh~i~~~~~~---~grcpncr~ky~e~ki~~r~~~~~~l~~~~n~~kk-~e~e~k~~~~s~r~~ls~~rvVq 76 (327)
T KOG2068|consen 1 GYQICDSCWHHIATSAEK---KGRCPNCRTKYKEEKIVLRRVQWESLVAEKNKEKK-KEQEIKRKLSSNRKHLSGVRVVQ 76 (327)
T ss_pred CceeeHHHHhcccccccc---ccCCccccCccchhhhccccccHHHHHHhhhhhhh-hHHHHhhhhhhcccccccchhhh
Confidence 899999999999987754 79999999999999999999999999887766555 88888989999999999999999
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
||+|||+||+..+++|++|++.+||||||+|.||++++++.. +...+..+++||||.++|||.+||+.++|+.++||.
T Consensus 77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~--~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~ 154 (327)
T KOG2068|consen 77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSS--SSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRA 154 (327)
T ss_pred hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCccc--ccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhh
Confidence 999999999999999999999999999999999999987741 123356778999999999999999999999999999
Q ss_pred EEEeecCCccccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhhchhhhhhhcCCccccccCCCCCCCCccccccc
Q 003956 189 LRACFGTTKYCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFTRSRVQQIIGATNNMHRRSGNALPPPADEYINS 268 (784)
Q Consensus 189 LRASfGTTKYCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~tr~~~~~~~g~~~~~~~rsg~~lPpP~~~~~~~ 268 (784)
|||+|||||||++||++..|.|++||||||+++++|+|||+||+.++++. ++..+.++.++|..+..+|+|++.+...
T Consensus 155 lka~~gttkycs~~l~~~~c~~~~cmylhe~~~~~Ds~~k~e~~~~~~~~--~~~~~~~n~~~~~~~~~~p~~l~~~~~~ 232 (327)
T KOG2068|consen 155 LKASLGTTKYCSFYLRNDICQNPDCMYLHEIGDQEDSFTKDEMKSAKHRE--SSRKQTSNIARRSDDKLRPQPLPNLEKQ 232 (327)
T ss_pred hHHhhCCCcchhHHhhhhcccCccccccccccccccccchHHHHHHhhhh--hcccccccceeccCcccCCCcccccccc
Confidence 99999999999999999999999999999999999999999999999985 7777788889999999999999887655
Q ss_pred cccccccCcccCCCCcccCCCCCCCCCCC---CCCCCCCcccccccccccCCCCCCccCCCCCCCCCCCCCCCCCCCccc
Q 003956 269 NITSTAKPIAKNSSNIIENPNNGSCADIV---AGKSNSLPTAASWVMRVSATLPTNKNLSGPVRPPSNQPKASNGPQVPG 345 (784)
Q Consensus 269 ~~~ss~~p~~k~~~~~~~~~~~~s~p~~~---~~~~~aLP~~asW~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s 345 (784)
.+ .|..+.......+.....||-.. ..++++||++++|++..-. -+|...+-...+-.+.....++..|+
T Consensus 233 ---~s-~p~~~~~~~~~~~v~~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~---~~t~~~~~~~~~~~rk~~~~~t~~s~ 305 (327)
T KOG2068|consen 233 ---RS-APDAQLDFSSVTSVPPSCPICYEDLDLTDSNFLPCPCGFRLCLFC---HKTISDGDGRCPGCRKPYERNTKKSE 305 (327)
T ss_pred ---cC-CcccccCCccccccCCCCCCCCCcccccccccccccccccchhhh---hhcccccCCCCCccCCccccCccccc
Confidence 22 66665543333345555554444 6789999999999953322 33443334444444444444555555
Q ss_pred eeee
Q 003956 346 TEVV 349 (784)
Q Consensus 346 ~~v~ 349 (784)
+.+-
T Consensus 306 ~~~~ 309 (327)
T KOG2068|consen 306 TSVQ 309 (327)
T ss_pred cccc
Confidence 4444
No 3
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=99.84 E-value=7.8e-22 Score=158.45 Aligned_cols=48 Identities=50% Similarity=1.383 Sum_probs=30.3
Q ss_pred CCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 9 CPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 9 CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
||+|+|+||+||+.|+||+||||||+|||++|+ ++++|+||+||++|+
T Consensus 1 cp~C~e~~d~~d~~~~PC~Cgf~IC~~C~~~i~-----~~~~g~CPgCr~~Y~ 48 (48)
T PF14570_consen 1 CPLCDEELDETDKDFYPCECGFQICRFCYHDIL-----ENEGGRCPGCREPYK 48 (48)
T ss_dssp -TTTS-B--CCCTT--SSTTS----HHHHHHHT-----TSS-SB-TTT--B--
T ss_pred CCCcccccccCCCccccCcCCCcHHHHHHHHHH-----hccCCCCCCCCCCCC
Confidence 899999999999999999999999999999996 368999999999995
No 4
>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=99.49 E-value=1.1e-13 Score=110.89 Aligned_cols=70 Identities=24% Similarity=0.663 Sum_probs=63.2
Q ss_pred EEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 112 VYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 112 VYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
|||+|||+.+++++|. ++|++||+|..+.|..+..+ ...++|||+|.+.++|.+|++.+||..++|+.||
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 LYVGNLPPDVTEEELR---DFFSQFGKIESIKVMRNSSG------KSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHH---HHHHTTSTEEEEEEEEETTS------SEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHH---HHHHHhhhcccccccccccc------cccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 7999999999999987 69999999999999876332 2467899999999999999999999999999997
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.49 E-value=1.7e-13 Score=142.33 Aligned_cols=105 Identities=16% Similarity=0.395 Sum_probs=86.3
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
++.|||+|||.++++++|. ++|.+||+|..|.|.+++..+ ..+++|||+|.+.++|.+||+.|||..|.|+.
T Consensus 3 ~~~l~V~nLp~~~~e~~l~---~~F~~~G~i~~v~i~~d~~~g-----~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~ 74 (352)
T TIGR01661 3 KTNLIVNYLPQTMTQEEIR---SLFTSIGEIESCKLVRDKVTG-----QSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKT 74 (352)
T ss_pred CcEEEEeCCCCCCCHHHHH---HHHHccCCEEEEEEEEcCCCC-----ccceEEEEEECcHHHHHHHHhhcccEEECCee
Confidence 6889999999999999886 799999999999999876533 24789999999999999999999999999999
Q ss_pred EEEeecCCc-----cccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhhc
Q 003956 189 LRACFGTTK-----YCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFTR 237 (784)
Q Consensus 189 LRASfGTTK-----YCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~tr 237 (784)
|++.|+..+ -+..|+.|.+ ..+|.++|......
T Consensus 75 i~v~~a~~~~~~~~~~~l~v~~l~----------------~~~~~~~l~~~f~~ 112 (352)
T TIGR01661 75 IKVSYARPSSDSIKGANLYVSGLP----------------KTMTQHELESIFSP 112 (352)
T ss_pred EEEEeecccccccccceEEECCcc----------------ccCCHHHHHHHHhc
Confidence 999998543 2334555554 45677777765543
No 6
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.47 E-value=2.5e-13 Score=129.48 Aligned_cols=89 Identities=19% Similarity=0.363 Sum_probs=75.8
Q ss_pred CCCCccccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHh
Q 003956 100 HLTNVRVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSV 179 (784)
Q Consensus 100 ~La~VRVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aL 179 (784)
....+|... +.|||+|||+.+++++|. ++|.+||+|..|.|.++.... ..+++|||+|.+.++|.+||+.|
T Consensus 26 ~~~~~~~~~-~~lfVgnL~~~~te~~L~---~~F~~~G~I~~v~i~~d~~tg-----~~kGfaFV~F~~~e~A~~Al~~l 96 (144)
T PLN03134 26 MLGSLRLMS-TKLFIGGLSWGTDDASLR---DAFAHFGDVVDAKVIVDRETG-----RSRGFGFVNFNDEGAATAAISEM 96 (144)
T ss_pred ccccccCCC-CEEEEeCCCCCCCHHHHH---HHHhcCCCeEEEEEEecCCCC-----CcceEEEEEECCHHHHHHHHHHc
Confidence 344445444 469999999999988876 799999999999998876532 25789999999999999999999
Q ss_pred CCCccCCceEEEeecCCc
Q 003956 180 HSYILDGRPLRACFGTTK 197 (784)
Q Consensus 180 DG~~LdGRvLRASfGTTK 197 (784)
||..|+||.|+|.+++.+
T Consensus 97 ng~~i~Gr~l~V~~a~~~ 114 (144)
T PLN03134 97 DGKELNGRHIRVNPANDR 114 (144)
T ss_pred CCCEECCEEEEEEeCCcC
Confidence 999999999999998764
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.46 E-value=1.8e-13 Score=142.04 Aligned_cols=79 Identities=27% Similarity=0.451 Sum_probs=71.6
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.|||+|||+.+++++|. ++|++||.|..|.|.++.... ..+|+|||+|.+.++|.+||++|||+.|+||.|+
T Consensus 271 ~lfV~NL~~~~~e~~L~---~~F~~fG~v~~v~i~~d~~t~-----~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~ 342 (352)
T TIGR01661 271 CIFVYNLSPDTDETVLW---QLFGPFGAVQNVKIIRDLTTN-----QCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQ 342 (352)
T ss_pred EEEEeCCCCCCCHHHHH---HHHHhCCCeEEEEEeEcCCCC-----CccceEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence 49999999999887776 799999999999999886432 2588999999999999999999999999999999
Q ss_pred EeecCCc
Q 003956 191 ACFGTTK 197 (784)
Q Consensus 191 ASfGTTK 197 (784)
|+|.+.|
T Consensus 343 V~~~~~~ 349 (352)
T TIGR01661 343 VSFKTNK 349 (352)
T ss_pred EEEccCC
Confidence 9999987
No 8
>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=99.38 E-value=2.1e-12 Score=138.73 Aligned_cols=106 Identities=17% Similarity=0.376 Sum_probs=86.9
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
....|||++||+++++++|. ++|.+||+|++|.|.++.... ..+++|||+|.++++|.+||+.|||..+.|+
T Consensus 106 ~~~~LfVgnLp~~~te~~L~---~lF~~~G~V~~v~i~~d~~tg-----~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr 177 (346)
T TIGR01659 106 SGTNLIVNYLPQDMTDRELY---ALFRTIGPINTCRIMRDYKTG-----YSFGYAFVDFGSEADSQRAIKNLNGITVRNK 177 (346)
T ss_pred CCcEEEEeCCCCCCCHHHHH---HHHHhcCCEEEEEEEecCCCC-----ccCcEEEEEEccHHHHHHHHHHcCCCccCCc
Confidence 46789999999999998876 799999999999998876533 2467899999999999999999999999999
Q ss_pred eEEEeecCCc-----cccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhhc
Q 003956 188 PLRACFGTTK-----YCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFTR 237 (784)
Q Consensus 188 vLRASfGTTK-----YCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~tr 237 (784)
+|+|.|+... -...|+.|++ ..+|+|||......
T Consensus 178 ~i~V~~a~p~~~~~~~~~lfV~nLp----------------~~vtee~L~~~F~~ 216 (346)
T TIGR01659 178 RLKVSYARPGGESIKDTNLYVTNLP----------------RTITDDQLDTIFGK 216 (346)
T ss_pred eeeeecccccccccccceeEEeCCC----------------CcccHHHHHHHHHh
Confidence 9999997542 2234555555 56788888876543
No 9
>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=99.33 E-value=5.8e-12 Score=102.91 Aligned_cols=70 Identities=34% Similarity=0.656 Sum_probs=61.8
Q ss_pred EEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 112 VYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 112 VYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
|||+|||+.+++++|. ++|.+||.|.+|.+.+.+.+. .++.|||+|.+.++|.+|++.++|..++||.|+
T Consensus 1 v~i~nlp~~~~~~~l~---~~f~~~g~v~~v~~~~~~~~~------~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~ 70 (70)
T PF14259_consen 1 VYISNLPPSTTEEDLR---NFFSRFGPVEKVRLIKNKDGQ------SRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHH---HHCTTSSBEEEEEEEESTTSS------EEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHH---HHHHhcCCcceEEEEeeeccc------cCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 7999999999998887 699999999999999876532 477899999999999999999999999999986
No 10
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.28 E-value=9.9e-12 Score=142.08 Aligned_cols=77 Identities=14% Similarity=0.353 Sum_probs=68.9
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
..|||+||++.+++++|. ++|.+||.|.+|.|.+++..+ .++|+|||+|.+.++|.+||+.|||..++||.|
T Consensus 108 ~rLfVGnLp~~~tEe~Lr---~lF~~fG~I~sV~I~~D~~Tg-----kskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~I 179 (612)
T TIGR01645 108 CRVYVGSISFELREDTIR---RAFDPFGPIKSINMSWDPATG-----KHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNI 179 (612)
T ss_pred CEEEEcCCCCCCCHHHHH---HHHHccCCEEEEEEeecCCCC-----CcCCeEEEEeCcHHHHHHHHHhcCCeEEeccee
Confidence 569999999999988876 699999999999998876543 257899999999999999999999999999999
Q ss_pred EEeec
Q 003956 190 RACFG 194 (784)
Q Consensus 190 RASfG 194 (784)
++.+.
T Consensus 180 kV~rp 184 (612)
T TIGR01645 180 KVGRP 184 (612)
T ss_pred eeccc
Confidence 99864
No 11
>smart00362 RRM_2 RNA recognition motif.
Probab=99.25 E-value=3.4e-11 Score=93.82 Aligned_cols=72 Identities=29% Similarity=0.621 Sum_probs=64.0
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.|||.|||..++.++|. ++|.+||+|..|.+.++. + .+.+.|||+|.+.++|.+|++.++|..+.|+.|+
T Consensus 1 ~v~i~~l~~~~~~~~l~---~~~~~~g~v~~~~~~~~~-~------~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~ 70 (72)
T smart00362 1 TLFVGNLPPDVTEEDLK---ELFSKFGPIESVKIPKDT-G------KSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLR 70 (72)
T ss_pred CEEEcCCCCcCCHHHHH---HHHHhcCCEEEEEEecCC-C------CCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEe
Confidence 48999999999998987 699999999999988765 2 1466899999999999999999999999999998
Q ss_pred Ee
Q 003956 191 AC 192 (784)
Q Consensus 191 AS 192 (784)
+.
T Consensus 71 v~ 72 (72)
T smart00362 71 VE 72 (72)
T ss_pred eC
Confidence 73
No 12
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.24 E-value=3.8e-11 Score=133.95 Aligned_cols=103 Identities=19% Similarity=0.454 Sum_probs=83.7
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.|||+|||+++++++|. ++|++||.|.+|.|.++..++ ...|+|||+|.+.++|.+||..+|+..+.|+.||
T Consensus 2 sl~VgnLp~~vte~~L~---~~F~~~G~v~~v~v~~d~~t~-----~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~ 73 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLY---DLFKPFGPVLSVRVCRDSVTR-----RSLGYGYVNFQNPADAERALETMNFKRLGGKPIR 73 (562)
T ss_pred eEEEeCCCCCCCHHHHH---HHHHhcCCEEEEEEEecCCCC-----CcceEEEEEECCHHHHHHHHHHhCCCEECCeeEE
Confidence 58999999999988876 799999999999999887643 2467899999999999999999999999999999
Q ss_pred EeecCCc-------cccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhhc
Q 003956 191 ACFGTTK-------YCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFTR 237 (784)
Q Consensus 191 ASfGTTK-------YCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~tr 237 (784)
+.|.... ....|++|.+ ..+|.++|.....+
T Consensus 74 i~~s~~~~~~~~~~~~~vfV~nLp----------------~~~~~~~L~~~F~~ 111 (562)
T TIGR01628 74 IMWSQRDPSLRRSGVGNIFVKNLD----------------KSVDNKALFDTFSK 111 (562)
T ss_pred eecccccccccccCCCceEEcCCC----------------ccCCHHHHHHHHHh
Confidence 9986422 1223444443 56788888776554
No 13
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.23 E-value=4.1e-11 Score=111.28 Aligned_cols=82 Identities=24% Similarity=0.514 Sum_probs=71.8
Q ss_pred CCccccc--cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHh
Q 003956 102 TNVRVIQ--RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSV 179 (784)
Q Consensus 102 a~VRVIQ--RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aL 179 (784)
++.|+-| ..++||.|||.+|+.|++. |+||+||.|..|.|--++.+ +|.|||.|++..||.+|...|
T Consensus 9 ~~~rlppevnriLyirNLp~~ITseemy---dlFGkyg~IrQIRiG~~k~T--------rGTAFVVYedi~dAk~A~dhl 77 (124)
T KOG0114|consen 9 QNIRLPPEVNRILYIRNLPFKITSEEMY---DLFGKYGTIRQIRIGNTKET--------RGTAFVVYEDIFDAKKACDHL 77 (124)
T ss_pred CCCCCChhhheeEEEecCCccccHHHHH---HHhhcccceEEEEecCccCc--------CceEEEEehHhhhHHHHHHHh
Confidence 4455444 4689999999999999997 89999999999999766543 568999999999999999999
Q ss_pred CCCccCCceEEEeec
Q 003956 180 HSYILDGRPLRACFG 194 (784)
Q Consensus 180 DG~~LdGRvLRASfG 194 (784)
.|+.+++|.|.|-|-
T Consensus 78 sg~n~~~ryl~vlyy 92 (124)
T KOG0114|consen 78 SGYNVDNRYLVVLYY 92 (124)
T ss_pred cccccCCceEEEEec
Confidence 999999999999873
No 14
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.21 E-value=4.4e-11 Score=124.82 Aligned_cols=76 Identities=14% Similarity=0.247 Sum_probs=67.5
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
..+.|||+|||+.+++++|. ++|++||+|.+|.|.++.. .+++|||||.+.++|..||. |||..|.||
T Consensus 3 ~~rtVfVgNLs~~tTE~dLr---efFS~~G~I~~V~I~~d~~--------~~GfAFVtF~d~eaAe~All-LnG~~l~gr 70 (260)
T PLN03120 3 QVRTVKVSNVSLKATERDIK---EFFSFSGDIEYVEMQSENE--------RSQIAYVTFKDPQGAETALL-LSGATIVDQ 70 (260)
T ss_pred CCCEEEEeCCCCCCCHHHHH---HHHHhcCCeEEEEEeecCC--------CCCEEEEEeCcHHHHHHHHH-hcCCeeCCc
Confidence 35689999999999998876 7999999999999987653 25689999999999999995 999999999
Q ss_pred eEEEeecC
Q 003956 188 PLRACFGT 195 (784)
Q Consensus 188 vLRASfGT 195 (784)
.|++....
T Consensus 71 ~V~Vt~a~ 78 (260)
T PLN03120 71 SVTITPAE 78 (260)
T ss_pred eEEEEecc
Confidence 99999853
No 15
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=99.21 E-value=4.6e-11 Score=131.08 Aligned_cols=106 Identities=20% Similarity=0.507 Sum_probs=93.2
Q ss_pred cccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCcc-C
Q 003956 107 IQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYIL-D 185 (784)
Q Consensus 107 IQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~L-d 185 (784)
-+-.-||||+||.++.++||. .+|++-|+|-+++|++++..+ ..+|+|||||.++|+|++||+.||+++| -
T Consensus 81 ~~G~EVfvGkIPrD~~EdeLv---plfEkiG~I~elRLMmD~~sG-----~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~ 152 (506)
T KOG0117|consen 81 PRGCEVFVGKIPRDVFEDELV---PLFEKIGKIYELRLMMDPFSG-----DNRGYAFVTFCTKEEAQEAIKELNNYEIRP 152 (506)
T ss_pred CCCceEEecCCCccccchhhH---HHHHhccceeeEEEeecccCC-----CCcceEEEEeecHHHHHHHHHHhhCccccC
Confidence 456889999999999998876 699999999999999986543 2588999999999999999999999998 5
Q ss_pred CceEEEeecCCccccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhhc
Q 003956 186 GRPLRACFGTTKYCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFTR 237 (784)
Q Consensus 186 GRvLRASfGTTKYCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~tr 237 (784)
||.|+|+...++ |..|+.|+| ..++||||.....+
T Consensus 153 GK~igvc~Svan-~RLFiG~IP----------------K~k~keeIlee~~k 187 (506)
T KOG0117|consen 153 GKLLGVCVSVAN-CRLFIGNIP----------------KTKKKEEILEEMKK 187 (506)
T ss_pred CCEeEEEEeeec-ceeEeccCC----------------ccccHHHHHHHHHh
Confidence 999999987765 669999999 88999999876554
No 16
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.21 E-value=3.1e-11 Score=126.24 Aligned_cols=77 Identities=14% Similarity=0.389 Sum_probs=68.4
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
....||||||+.-++|++| | +.|.+||.|.+|+|-+++ ++|||.|.++|.|.+||..|||.++.|.
T Consensus 163 ~NtsVY~G~I~~~lte~~m-r--~~Fs~fG~I~EVRvFk~q-----------GYaFVrF~tkEaAahAIv~mNntei~G~ 228 (321)
T KOG0148|consen 163 DNTSVYVGNIASGLTEDLM-R--QTFSPFGPIQEVRVFKDQ-----------GYAFVRFETKEAAAHAIVQMNNTEIGGQ 228 (321)
T ss_pred CCceEEeCCcCccccHHHH-H--HhcccCCcceEEEEeccc-----------ceEEEEecchhhHHHHHHHhcCceeCce
Confidence 4568999999998886554 4 699999999999999774 3699999999999999999999999999
Q ss_pred eEEEeecCCcc
Q 003956 188 PLRACFGTTKY 198 (784)
Q Consensus 188 vLRASfGTTKY 198 (784)
++||+||.+.-
T Consensus 229 ~VkCsWGKe~~ 239 (321)
T KOG0148|consen 229 LVRCSWGKEGD 239 (321)
T ss_pred EEEEeccccCC
Confidence 99999998753
No 17
>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=99.20 E-value=1.1e-10 Score=91.37 Aligned_cols=74 Identities=31% Similarity=0.607 Sum_probs=65.9
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.|||.|||+.+++++|. ++|.+||.|.++.+.+...+ .+.+.|||+|.+.++|..|++.++|..++|+.|+
T Consensus 1 ~i~i~~l~~~~~~~~i~---~~~~~~g~i~~~~~~~~~~~------~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~ 71 (74)
T cd00590 1 TLFVGNLPPDVTEEDLR---ELFSKFGKVESVRIVRDKDT------KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLR 71 (74)
T ss_pred CEEEeCCCCccCHHHHH---HHHHhcCCEEEEEEeeCCCC------CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence 48999999999998887 69999999999999876543 2467899999999999999999999999999999
Q ss_pred Eee
Q 003956 191 ACF 193 (784)
Q Consensus 191 ASf 193 (784)
+.|
T Consensus 72 v~~ 74 (74)
T cd00590 72 VEF 74 (74)
T ss_pred EeC
Confidence 875
No 18
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.19 E-value=1.2e-10 Score=109.48 Aligned_cols=80 Identities=26% Similarity=0.528 Sum_probs=71.7
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
...|||+|||..+++++|. ++|.+||.|..|.|..++... ..+++|||+|.+.++|..||..++|..|.||.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~---~~F~~~g~~~~~~~~~d~~~~-----~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~ 186 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLR---ELFKKFGPVKRVRLVRDRETG-----KSRGFAFVEFESEESAEKAIEELNGKELEGRP 186 (306)
T ss_pred CceEEEeCCCCCCCHHHHH---HHHHhcCceeEEEeeeccccC-----ccCceEEEEecCHHHHHHHHHHcCCCeECCce
Confidence 4899999999999999987 699999999999998876322 25788999999999999999999999999999
Q ss_pred EEEeecCC
Q 003956 189 LRACFGTT 196 (784)
Q Consensus 189 LRASfGTT 196 (784)
|++.+..-
T Consensus 187 ~~v~~~~~ 194 (306)
T COG0724 187 LRVQKAQP 194 (306)
T ss_pred eEeecccc
Confidence 99999653
No 19
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.18 E-value=3.2e-11 Score=128.57 Aligned_cols=79 Identities=25% Similarity=0.436 Sum_probs=72.0
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
-+.|||.|||.++.+.||. .+|+|||+|++|.|..+..| .+|++||||++.+||.||-++|||..++||+
T Consensus 96 pkRLhVSNIPFrFRdpDL~---aMF~kfG~VldVEIIfNERG-------SKGFGFVTmen~~dadRARa~LHgt~VEGRk 165 (376)
T KOG0125|consen 96 PKRLHVSNIPFRFRDPDLR---AMFEKFGKVLDVEIIFNERG-------SKGFGFVTMENPADADRARAELHGTVVEGRK 165 (376)
T ss_pred CceeEeecCCccccCccHH---HHHHhhCceeeEEEEeccCC-------CCccceEEecChhhHHHHHHHhhcceeeceE
Confidence 3568999999999999986 69999999999999876543 3678999999999999999999999999999
Q ss_pred EEEeecCCc
Q 003956 189 LRACFGTTK 197 (784)
Q Consensus 189 LRASfGTTK 197 (784)
|.|.-+|.+
T Consensus 166 IEVn~ATar 174 (376)
T KOG0125|consen 166 IEVNNATAR 174 (376)
T ss_pred EEEeccchh
Confidence 999999887
No 20
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.16 E-value=9.3e-11 Score=134.22 Aligned_cols=81 Identities=23% Similarity=0.421 Sum_probs=73.0
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
+.|||+||++.+++++|. ++|.+||+|.++.|.++..++ ..+|+|||+|.+.++|.+||..|||+.++|+.|
T Consensus 205 ~rLfVgnLp~~vteedLk---~lFs~FG~I~svrl~~D~~tg-----ksKGfGFVeFe~~e~A~kAI~amNg~elgGr~L 276 (612)
T TIGR01645 205 NRIYVASVHPDLSETDIK---SVFEAFGEIVKCQLARAPTGR-----GHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYL 276 (612)
T ss_pred ceEEeecCCCCCCHHHHH---HHHhhcCCeeEEEEEecCCCC-----CcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEE
Confidence 579999999999988876 699999999999999886543 257899999999999999999999999999999
Q ss_pred EEeecCCcc
Q 003956 190 RACFGTTKY 198 (784)
Q Consensus 190 RASfGTTKY 198 (784)
||.++.++-
T Consensus 277 rV~kAi~pP 285 (612)
T TIGR01645 277 RVGKCVTPP 285 (612)
T ss_pred EEEecCCCc
Confidence 999988764
No 21
>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=99.16 E-value=1.2e-10 Score=125.38 Aligned_cols=82 Identities=21% Similarity=0.515 Sum_probs=71.6
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC-
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDG- 186 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdG- 186 (784)
+...|||+|||+.+++|+|. ++|++||+|.+|.|.+++... .++++|||+|.+.++|.+||+.|||..++|
T Consensus 192 ~~~~lfV~nLp~~vtee~L~---~~F~~fG~V~~v~i~~d~~tg-----~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~ 263 (346)
T TIGR01659 192 KDTNLYVTNLPRTITDDQLD---TIFGKYGQIVQKNILRDKLTG-----TPRGVAFVRFNKREEAQEAISALNNVIPEGG 263 (346)
T ss_pred ccceeEEeCCCCcccHHHHH---HHHHhcCCEEEEEEeecCCCC-----ccceEEEEEECCHHHHHHHHHHhCCCccCCC
Confidence 45679999999999998875 799999999999998876432 257899999999999999999999999987
Q ss_pred -ceEEEeecCCc
Q 003956 187 -RPLRACFGTTK 197 (784)
Q Consensus 187 -RvLRASfGTTK 197 (784)
++|+|.++..+
T Consensus 264 ~~~l~V~~a~~~ 275 (346)
T TIGR01659 264 SQPLTVRLAEEH 275 (346)
T ss_pred ceeEEEEECCcc
Confidence 68999998765
No 22
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.16 E-value=1.9e-10 Score=124.32 Aligned_cols=117 Identities=19% Similarity=0.314 Sum_probs=86.8
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
...|||+|||..+++++|. ++|++||+|..|.|.+++.++ ..+++|||+|.+.++|.+||. |+|..+.|++
T Consensus 89 ~~~l~V~nlp~~~~~~~l~---~~F~~~G~v~~v~i~~d~~~~-----~skg~afVeF~~~e~A~~Al~-l~g~~~~g~~ 159 (457)
T TIGR01622 89 DRTVFVLQLALKARERDLY---EFFSKVGKVRDVQCIKDRNSR-----RSKGVAYVEFYDVESVIKALA-LTGQMLLGRP 159 (457)
T ss_pred CcEEEEeCCCCCCCHHHHH---HHHHhcCCeeEEEEeecCCCC-----CcceEEEEEECCHHHHHHHHH-hCCCEECCee
Confidence 4679999999999999986 799999999999999876543 257899999999999999996 8999999999
Q ss_pred EEEeecCCccccc--cccC--cCCCCCCcccccCCCCCCCCCcHHHHHHhhhc
Q 003956 189 LRACFGTTKYCHA--WIRN--MPCSVPDCLYLHDFGSQEDSFTKDEIVSAFTR 237 (784)
Q Consensus 189 LRASfGTTKYCs~--FLRn--~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~tr 237 (784)
|++.+...+.-.. .... ..-.+..++|+.-+. ...|+++|......
T Consensus 160 i~v~~~~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~---~~~te~~l~~~f~~ 209 (457)
T TIGR01622 160 IIVQSSQAEKNRAAKAATHQPGDIPNFLKLYVGNLH---FNITEQELRQIFEP 209 (457)
T ss_pred eEEeecchhhhhhhhcccccCCCCCCCCEEEEcCCC---CCCCHHHHHHHHHh
Confidence 9998754321110 0000 011223455655554 56889998876554
No 23
>smart00360 RRM RNA recognition motif.
Probab=99.16 E-value=1.4e-10 Score=89.92 Aligned_cols=71 Identities=27% Similarity=0.571 Sum_probs=62.1
Q ss_pred EeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEe
Q 003956 114 IIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRAC 192 (784)
Q Consensus 114 V~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRAS 192 (784)
|.|||..+++++|. ++|.+||.|..|.|.+++... .++++|||+|.+.++|.+||..++|..++|+.|++.
T Consensus 1 i~~l~~~~~~~~l~---~~f~~~g~v~~~~i~~~~~~~-----~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 1 VGNLPPDVTEEELR---ELFSKFGKIESVRLVRDKDTG-----KSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred CCCCCcccCHHHHH---HHHHhhCCEeEEEEEeCCCCC-----CCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence 57999999999987 699999999999998765422 246789999999999999999999999999999874
No 24
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=99.15 E-value=1.1e-10 Score=132.89 Aligned_cols=103 Identities=19% Similarity=0.523 Sum_probs=87.5
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC-C
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD-G 186 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld-G 186 (784)
+...|||+|||+.+++++|. ++|.+||+|.+|.|.++..+. ++++|||+|.+.|+|.+||+.|||..+. |
T Consensus 57 ~~~~lFVgnLp~~~tEd~L~---~~F~~~G~I~~vrl~~D~sG~------sRGfaFV~F~~~e~A~~Ai~~lng~~i~~G 127 (578)
T TIGR01648 57 RGCEVFVGKIPRDLYEDELV---PLFEKAGPIYELRLMMDFSGQ------NRGYAFVTFCGKEEAKEAVKLLNNYEIRPG 127 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHH---HHHHhhCCEEEEEEEECCCCC------ccceEEEEeCCHHHHHHHHHHcCCCeecCC
Confidence 34789999999999988876 799999999999999885543 4789999999999999999999999985 8
Q ss_pred ceEEEeecCCccccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhh
Q 003956 187 RPLRACFGTTKYCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFT 236 (784)
Q Consensus 187 RvLRASfGTTKYCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~t 236 (784)
|.|.+..... .|..|++|++ ...|++||.....
T Consensus 128 r~l~V~~S~~-~~rLFVgNLP----------------~~~TeeeL~eeFs 160 (578)
T TIGR01648 128 RLLGVCISVD-NCRLFVGGIP----------------KNKKREEILEEFS 160 (578)
T ss_pred cccccccccc-CceeEeecCC----------------cchhhHHHHHHhh
Confidence 9998887654 5778998887 5678888876543
No 25
>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=99.15 E-value=1.3e-10 Score=129.74 Aligned_cols=81 Identities=23% Similarity=0.441 Sum_probs=72.6
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
+...|||+||++.+++++|. ++|++||.|..|.|.++..+. .+++|||+|.+.++|.+||..|||..++||
T Consensus 284 ~~~~l~V~nl~~~~~~~~L~---~~F~~~G~i~~~~i~~d~~g~------~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk 354 (562)
T TIGR01628 284 QGVNLYVKNLDDTVTDEKLR---ELFSECGEITSAKVMLDEKGV------SRGFGFVCFSNPEEANRAVTEMHGRMLGGK 354 (562)
T ss_pred CCCEEEEeCCCCccCHHHHH---HHHHhcCCeEEEEEEECCCCC------cCCeEEEEeCCHHHHHHHHHHhcCCeeCCc
Confidence 34569999999999998876 799999999999999885443 478899999999999999999999999999
Q ss_pred eEEEeecCCc
Q 003956 188 PLRACFGTTK 197 (784)
Q Consensus 188 vLRASfGTTK 197 (784)
+|+|.|+..|
T Consensus 355 ~l~V~~a~~k 364 (562)
T TIGR01628 355 PLYVALAQRK 364 (562)
T ss_pred eeEEEeccCc
Confidence 9999998765
No 26
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.14 E-value=9.1e-11 Score=119.76 Aligned_cols=82 Identities=18% Similarity=0.401 Sum_probs=75.7
Q ss_pred eEEEeCCCCCCChHHHHHH-HHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 111 LVYIIGLPINLADEDLLQR-KEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~-~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
++||-+|+.+|..++|+|+ +.+|+|||+|++|++.++... +|.|||.|.+.+.|..|+.+|+|+.+.|+++
T Consensus 11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~Km--------RGQA~VvFk~~~~As~A~r~l~gfpFygK~m 82 (221)
T KOG4206|consen 11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPKM--------RGQAFVVFKETEAASAALRALQGFPFYGKPM 82 (221)
T ss_pred eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCCc--------cCceEEEecChhHHHHHHHHhcCCcccCchh
Confidence 9999999999999998775 899999999999999977653 5679999999999999999999999999999
Q ss_pred EEeecCCcccc
Q 003956 190 RACFGTTKYCH 200 (784)
Q Consensus 190 RASfGTTKYCs 200 (784)
|+.|+.+|-|.
T Consensus 83 riqyA~s~sdi 93 (221)
T KOG4206|consen 83 RIQYAKSDSDI 93 (221)
T ss_pred heecccCccch
Confidence 99999999883
No 27
>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=99.14 E-value=2.4e-10 Score=126.55 Aligned_cols=75 Identities=21% Similarity=0.366 Sum_probs=66.4
Q ss_pred ccCeEEEeCCCC-CCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 003956 108 QRNLVYIIGLPI-NLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDG 186 (784)
Q Consensus 108 QRNLVYV~GLP~-~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdG 186 (784)
+...|||+||++ .+++++|. ++|++||.|.+|.|.+++ +++|||+|.+.++|.+||+.|||..|+|
T Consensus 274 ~~~~l~v~nL~~~~vt~~~L~---~lF~~yG~V~~vki~~~~----------~g~afV~f~~~~~A~~Ai~~lng~~l~g 340 (481)
T TIGR01649 274 PGSVLMVSGLHQEKVNCDRLF---NLFCVYGNVERVKFMKNK----------KETALIEMADPYQAQLALTHLNGVKLFG 340 (481)
T ss_pred CCCEEEEeCCCCCCCCHHHHH---HHHHhcCCeEEEEEEeCC----------CCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence 346899999998 68877665 799999999999998753 4579999999999999999999999999
Q ss_pred ceEEEeecC
Q 003956 187 RPLRACFGT 195 (784)
Q Consensus 187 RvLRASfGT 195 (784)
++|+++|+.
T Consensus 341 ~~l~v~~s~ 349 (481)
T TIGR01649 341 KPLRVCPSK 349 (481)
T ss_pred ceEEEEEcc
Confidence 999999864
No 28
>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=99.14 E-value=1.6e-10 Score=124.99 Aligned_cols=79 Identities=18% Similarity=0.452 Sum_probs=71.3
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
...|||+|||..+++++|. ++|++||.|..|.|.++..++ ..+++|||+|.+.++|.+|++.|||+.+.|+.
T Consensus 186 ~~~l~v~nl~~~~te~~l~---~~f~~~G~i~~v~~~~d~~~g-----~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~ 257 (457)
T TIGR01622 186 FLKLYVGNLHFNITEQELR---QIFEPFGDIEDVQLHRDPETG-----RSKGFGFIQFHDAEEAKEALEVMNGFELAGRP 257 (457)
T ss_pred CCEEEEcCCCCCCCHHHHH---HHHHhcCCeEEEEEEEcCCCC-----ccceEEEEEECCHHHHHHHHHhcCCcEECCEE
Confidence 5689999999999998876 699999999999999876542 24778999999999999999999999999999
Q ss_pred EEEeecC
Q 003956 189 LRACFGT 195 (784)
Q Consensus 189 LRASfGT 195 (784)
|+|.|+.
T Consensus 258 i~v~~a~ 264 (457)
T TIGR01622 258 IKVGYAQ 264 (457)
T ss_pred EEEEEcc
Confidence 9999987
No 29
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.13 E-value=1.1e-10 Score=116.19 Aligned_cols=78 Identities=18% Similarity=0.298 Sum_probs=70.6
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
...|||+||+.+.++.||- ..|+.||+|.+|.|.+.. .++|||+|++..||..|+.+|||..|.|..
T Consensus 10 ~~kVYVGnL~~~a~k~eLE---~~F~~yG~lrsvWvArnP----------PGfAFVEFed~RDA~DAvr~LDG~~~cG~r 76 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELE---RAFSKYGPLRSVWVARNP----------PGFAFVEFEDPRDAEDAVRYLDGKDICGSR 76 (195)
T ss_pred CceEEeccCCCCcchHHHH---HHHHhcCcceeEEEeecC----------CCceEEeccCcccHHHHHhhcCCccccCce
Confidence 3579999999999999986 699999999999999753 457999999999999999999999999999
Q ss_pred EEEeecCCccc
Q 003956 189 LRACFGTTKYC 199 (784)
Q Consensus 189 LRASfGTTKYC 199 (784)
|+|.+.+-++-
T Consensus 77 ~rVE~S~G~~r 87 (195)
T KOG0107|consen 77 IRVELSTGRPR 87 (195)
T ss_pred EEEEeecCCcc
Confidence 99999777665
No 30
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.12 E-value=3.1e-10 Score=124.12 Aligned_cols=81 Identities=12% Similarity=0.240 Sum_probs=71.2
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
+.+.|||+|||..+++++|. ++|.+||.|..|.|.++...+ ...|+|||+|.+.++|.+||+.|||..|+|+
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~---~~f~~~G~i~~~~~~~~~~~g-----~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~ 365 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIK---ELLESFGDLKAFNLIKDIATG-----LSKGYAFCEYKDPSVTDVAIAALNGKDTGDN 365 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHH---HHHHhcCCeeEEEEEecCCCC-----CcCeEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence 45789999999999988876 799999999999998775432 2477899999999999999999999999999
Q ss_pred eEEEeecCC
Q 003956 188 PLRACFGTT 196 (784)
Q Consensus 188 vLRASfGTT 196 (784)
.|+|.++..
T Consensus 366 ~l~v~~a~~ 374 (509)
T TIGR01642 366 KLHVQRACV 374 (509)
T ss_pred EEEEEECcc
Confidence 999999743
No 31
>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=99.11 E-value=2.6e-10 Score=90.88 Aligned_cols=54 Identities=22% Similarity=0.592 Sum_probs=48.6
Q ss_pred HhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEeec
Q 003956 131 EYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRACFG 194 (784)
Q Consensus 131 EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRASfG 194 (784)
++|++||+|.+|.+.++. ++.|||+|.+.++|.+|++.|||..++|++|+|.|+
T Consensus 3 ~~f~~fG~V~~i~~~~~~----------~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 3 KLFSKFGEVKKIKIFKKK----------RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHTTTS-EEEEEEETTS----------TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred HHhCCcccEEEEEEEeCC----------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 799999999999998653 247999999999999999999999999999999985
No 32
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.10 E-value=4.8e-11 Score=122.14 Aligned_cols=84 Identities=19% Similarity=0.370 Sum_probs=74.3
Q ss_pred ccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 003956 106 VIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD 185 (784)
Q Consensus 106 VIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld 185 (784)
-.||+++|||||..+++ |.+|. .-|-.||.|..|.|..+.... ..++++||+|...|||..||..||+.+|.
T Consensus 7 a~~KrtlYVGGladeVt-ekvLh--aAFIPFGDI~dIqiPlDyesq-----kHRgFgFVefe~aEDAaaAiDNMnesEL~ 78 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVT-EKVLH--AAFIPFGDIKDIQIPLDYESQ-----KHRGFGFVEFEEAEDAAAAIDNMNESELF 78 (298)
T ss_pred cccceeEEeccchHHHH-HHHHH--hccccccchhhcccccchhcc-----cccceeEEEeeccchhHHHhhcCchhhhc
Confidence 35799999999999996 56774 799999999999999876643 24889999999999999999999999999
Q ss_pred CceEEEeecCCc
Q 003956 186 GRPLRACFGTTK 197 (784)
Q Consensus 186 GRvLRASfGTTK 197 (784)
||+|||.|+..-
T Consensus 79 GrtirVN~AkP~ 90 (298)
T KOG0111|consen 79 GRTIRVNLAKPE 90 (298)
T ss_pred ceeEEEeecCCc
Confidence 999999998663
No 33
>PLN03213 repressor of silencing 3; Provisional
Probab=99.09 E-value=2e-10 Score=127.22 Aligned_cols=78 Identities=23% Similarity=0.341 Sum_probs=69.8
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCH--HHHHHHHHHhCCCccCCc
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSRE--DDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~k--EDA~kAI~aLDG~~LdGR 187 (784)
-.||||||++.++++||. ..|++||.|..|.|.|.+. ++||||+|... +++.+||..|||..+.||
T Consensus 11 MRIYVGNLSydVTEDDLr---avFSeFGsVkdVEIpRETG---------RGFAFVEMssdddaEeeKAISaLNGAEWKGR 78 (759)
T PLN03213 11 VRLHVGGLGESVGRDDLL---KIFSPMGTVDAVEFVRTKG---------RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGG 78 (759)
T ss_pred eEEEEeCCCCCCCHHHHH---HHHHhcCCeeEEEEecccC---------CceEEEEecCCcHHHHHHHHHHhcCCeecCc
Confidence 458999999999999987 5999999999999995431 67899999987 789999999999999999
Q ss_pred eEEEeecCCccc
Q 003956 188 PLRACFGTTKYC 199 (784)
Q Consensus 188 vLRASfGTTKYC 199 (784)
.|||.-+...|-
T Consensus 79 ~LKVNKAKP~YL 90 (759)
T PLN03213 79 RLRLEKAKEHYL 90 (759)
T ss_pred eeEEeeccHHHH
Confidence 999999987774
No 34
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.09 E-value=1.3e-10 Score=119.67 Aligned_cols=75 Identities=20% Similarity=0.406 Sum_probs=65.0
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
..||||||+|+..+|+|. +||.|||+|++.+|..++.... .+|++||||.+.|.|.||.+.-+ -+||||+-
T Consensus 13 TKifVggL~w~T~~~~l~---~yFeqfGeI~eavvitd~~t~r-----skGyGfVTf~d~~aa~rAc~dp~-piIdGR~a 83 (247)
T KOG0149|consen 13 TKIFVGGLAWETHKETLR---RYFEQFGEIVEAVVITDKNTGR-----SKGYGFVTFRDAEAATRACKDPN-PIIDGRKA 83 (247)
T ss_pred EEEEEcCcccccchHHHH---HHHHHhCceEEEEEEeccCCcc-----ccceeeEEeecHHHHHHHhcCCC-Cccccccc
Confidence 579999999999998876 5999999999999998876542 57889999999999999988754 58999988
Q ss_pred EEee
Q 003956 190 RACF 193 (784)
Q Consensus 190 RASf 193 (784)
.|..
T Consensus 84 Ncnl 87 (247)
T KOG0149|consen 84 NCNL 87 (247)
T ss_pred ccch
Confidence 7665
No 35
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.07 E-value=3.8e-10 Score=116.80 Aligned_cols=82 Identities=23% Similarity=0.425 Sum_probs=74.5
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
..+.|=|.||+.+.+++||. |+|.+||.|.+|.|.+++.++ ..+|+|||+|.+.+||++||..|||+-++.-
T Consensus 188 D~~tvRvtNLsed~~E~dL~---eLf~~fg~i~rvylardK~TG-----~~kGFAFVtF~sRddA~rAI~~LnG~gyd~L 259 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDLE---ELFRPFGPITRVYLARDKETG-----LSKGFAFVTFESRDDAARAIADLNGYGYDNL 259 (270)
T ss_pred ccceeEEecCccccChhHHH---HHhhccCccceeEEEEccccC-----cccceEEEEEecHHHHHHHHHHccCcccceE
Confidence 35789999999999999984 899999999999999998764 2588999999999999999999999999999
Q ss_pred eEEEeecCCc
Q 003956 188 PLRACFGTTK 197 (784)
Q Consensus 188 vLRASfGTTK 197 (784)
+|||.|.+.+
T Consensus 260 ILrvEwskP~ 269 (270)
T KOG0122|consen 260 ILRVEWSKPS 269 (270)
T ss_pred EEEEEecCCC
Confidence 9999998764
No 36
>smart00361 RRM_1 RNA recognition motif.
Probab=98.95 E-value=2e-09 Score=90.21 Aligned_cols=59 Identities=32% Similarity=0.518 Sum_probs=46.9
Q ss_pred Hhhc----cCCceEEEE-EeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEe
Q 003956 131 EYFG----QYGKVLKVS-ISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRAC 192 (784)
Q Consensus 131 EyFG----QYGKI~KIv-Inrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRAS 192 (784)
++|. +||+|.+|. |..++... .+.++|+|||+|.+.++|.+||+.|||..++||+|+++
T Consensus 7 ~~~~~~~~~fG~v~~v~~v~~~~~~~---~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 7 REFSEEEEYFGEVGKINKIYIDNVGY---ENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred HHHHHHHHhcCCeeEEEEEEeCCCCC---CCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence 5777 999999885 44333220 01257889999999999999999999999999999974
No 37
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=98.95 E-value=1.3e-09 Score=104.42 Aligned_cols=78 Identities=21% Similarity=0.399 Sum_probs=70.8
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
+.++|||+||+.-+++|.|. |+|++-|.|.+|+|-.++-.+ .+-|+.||.|...+||..|++.++|+.||.|
T Consensus 35 ~S~tvyVgNlSfyttEEqiy---ELFs~cG~irriiMGLdr~kk-----tpCGFCFVeyy~~~dA~~AlryisgtrLddr 106 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTTEEQIY---ELFSKCGDIRRIIMGLDRFKK-----TPCGFCFVEYYSRDDAEDALRYISGTRLDDR 106 (153)
T ss_pred hcceEEEeeeeeeecHHHHH---HHHHhccchheeEeccccCCc-----CccceEEEEEecchhHHHHHHHhccCccccc
Confidence 47899999999999999987 899999999999997665443 3678999999999999999999999999999
Q ss_pred eEEEee
Q 003956 188 PLRACF 193 (784)
Q Consensus 188 vLRASf 193 (784)
+||+.|
T Consensus 107 ~ir~D~ 112 (153)
T KOG0121|consen 107 PIRIDW 112 (153)
T ss_pred ceeeec
Confidence 999987
No 38
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.93 E-value=8.9e-10 Score=112.21 Aligned_cols=77 Identities=23% Similarity=0.409 Sum_probs=69.5
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
..|-|-||...++.++|.+ .|.+||+|-+|.|.+++.++ ..++||||.|..+.||+.|+++|||.+||||.|
T Consensus 14 ~SLkVdNLTyRTspd~Lrr---vFekYG~vgDVyIPrdr~Tr-----~sRgFaFVrf~~k~daedA~damDG~~ldgRel 85 (256)
T KOG4207|consen 14 TSLKVDNLTYRTSPDDLRR---VFEKYGRVGDVYIPRDRYTR-----QSRGFAFVRFHDKRDAEDALDAMDGAVLDGREL 85 (256)
T ss_pred eeEEecceeccCCHHHHHH---HHHHhCcccceecccccccc-----cccceeEEEeeecchHHHHHHhhcceeecccee
Confidence 4578899999999888774 99999999999999988654 368899999999999999999999999999999
Q ss_pred EEeec
Q 003956 190 RACFG 194 (784)
Q Consensus 190 RASfG 194 (784)
+|.++
T Consensus 86 rVq~a 90 (256)
T KOG4207|consen 86 RVQMA 90 (256)
T ss_pred eehhh
Confidence 99864
No 39
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.93 E-value=1.5e-09 Score=113.90 Aligned_cols=80 Identities=23% Similarity=0.397 Sum_probs=72.3
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
-|||+-|.+.|..|+|. |-|.+||+|.+..|.|+..+. ...+++||.|-+++||++||+.|||.+|.+|.||
T Consensus 64 hvfvgdls~eI~~e~lr---~aF~pFGevS~akvirD~~T~-----KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IR 135 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKLR---EAFAPFGEVSDAKVIRDMNTG-----KSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIR 135 (321)
T ss_pred eEEehhcchhcchHHHH---HHhccccccccceEeecccCC-----cccceeEEeccchHHHHHHHHHhCCeeeccceee
Confidence 59999999999887754 899999999999999987543 2477899999999999999999999999999999
Q ss_pred EeecCCcc
Q 003956 191 ACFGTTKY 198 (784)
Q Consensus 191 ASfGTTKY 198 (784)
..|+|-|-
T Consensus 136 TNWATRKp 143 (321)
T KOG0148|consen 136 TNWATRKP 143 (321)
T ss_pred ccccccCc
Confidence 99999885
No 40
>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=98.91 E-value=3.7e-09 Score=120.75 Aligned_cols=77 Identities=17% Similarity=0.404 Sum_probs=67.2
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccC--CceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQY--GKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQY--GKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
..|||+||++.+++|+|. ++|++| |+|.+|.+.+ ++|||+|.+.++|.+||+.|||..|+|+
T Consensus 234 k~LfVgNL~~~~tee~L~---~~F~~f~~G~I~rV~~~r-------------gfAFVeF~s~e~A~kAi~~lnG~~i~Gr 297 (578)
T TIGR01648 234 KILYVRNLMTTTTEEIIE---KSFSEFKPGKVERVKKIR-------------DYAFVHFEDREDAVKAMDELNGKELEGS 297 (578)
T ss_pred cEEEEeCCCCCCCHHHHH---HHHHhcCCCceEEEEeec-------------CeEEEEeCCHHHHHHHHHHhCCCEECCE
Confidence 579999999999988776 799999 9999997653 2699999999999999999999999999
Q ss_pred eEEEeecCCcccccc
Q 003956 188 PLRACFGTTKYCHAW 202 (784)
Q Consensus 188 vLRASfGTTKYCs~F 202 (784)
.|+|+|++.+--..|
T Consensus 298 ~I~V~~Akp~~~~~~ 312 (578)
T TIGR01648 298 EIEVTLAKPVDKKSY 312 (578)
T ss_pred EEEEEEccCCCcccc
Confidence 999999976543333
No 41
>PLN03121 nucleic acid binding protein; Provisional
Probab=98.91 E-value=4.2e-09 Score=109.22 Aligned_cols=75 Identities=13% Similarity=0.262 Sum_probs=66.0
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
.+|||+||++.+++++|. ++|++||+|..|.|.++.. .+++|||+|.++++|..|+ .|+|..|.|+.|
T Consensus 6 ~TV~V~NLS~~tTE~dLr---efFS~~G~I~~V~I~~D~e--------t~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I 73 (243)
T PLN03121 6 YTAEVTNLSPKATEKDVY---DFFSHCGAIEHVEIIRSGE--------YACTAYVTFKDAYALETAV-LLSGATIVDQRV 73 (243)
T ss_pred eEEEEecCCCCCCHHHHH---HHHHhcCCeEEEEEecCCC--------cceEEEEEECCHHHHHHHH-hcCCCeeCCceE
Confidence 479999999999999876 7999999999999998743 2458999999999999998 699999999999
Q ss_pred EEeecCC
Q 003956 190 RACFGTT 196 (784)
Q Consensus 190 RASfGTT 196 (784)
.+.-...
T Consensus 74 ~It~~~~ 80 (243)
T PLN03121 74 CITRWGQ 80 (243)
T ss_pred EEEeCcc
Confidence 9886443
No 42
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.90 E-value=2.9e-10 Score=113.94 Aligned_cols=76 Identities=24% Similarity=0.518 Sum_probs=70.1
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
--|||||||..+++.||| -.|+|||+|+.|.+.|++.++. ..|+||.-|++......|+..+||..|.||.|
T Consensus 36 A~Iyiggl~~~LtEgDil---~VFSqyGe~vdinLiRDk~TGK-----SKGFaFLcYEDQRSTILAVDN~NGiki~gRti 107 (219)
T KOG0126|consen 36 AYIYIGGLPYELTEGDIL---CVFSQYGEIVDINLIRDKKTGK-----SKGFAFLCYEDQRSTILAVDNLNGIKILGRTI 107 (219)
T ss_pred eEEEECCCcccccCCcEE---EEeeccCceEEEEEEecCCCCc-----ccceEEEEecCccceEEEEeccCCceecceeE
Confidence 469999999999999999 5999999999999999987542 57889999999999999999999999999999
Q ss_pred EEee
Q 003956 190 RACF 193 (784)
Q Consensus 190 RASf 193 (784)
||.+
T Consensus 108 rVDH 111 (219)
T KOG0126|consen 108 RVDH 111 (219)
T ss_pred Eeee
Confidence 9984
No 43
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.88 E-value=2.9e-09 Score=107.21 Aligned_cols=80 Identities=19% Similarity=0.381 Sum_probs=69.6
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
..+||+|||..|.+.||- ++|-+||+|..|.+..... +..+|||.|++..||..||..-||+.++|..|
T Consensus 7 ~~iyvGNLP~diRekeie---DlFyKyg~i~~ieLK~r~g--------~ppfafVeFEd~RDAeDAiygRdGYdydg~rL 75 (241)
T KOG0105|consen 7 RRIYVGNLPGDIREKEIE---DLFYKYGRIREIELKNRPG--------PPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRL 75 (241)
T ss_pred ceEEecCCCcchhhccHH---HHHhhhcceEEEEeccCCC--------CCCeeEEEecCccchhhhhhcccccccCcceE
Confidence 468999999999999986 7999999999999864432 34589999999999999999999999999999
Q ss_pred EEeecCCcccc
Q 003956 190 RACFGTTKYCH 200 (784)
Q Consensus 190 RASfGTTKYCs 200 (784)
||.|...-.-+
T Consensus 76 RVEfprggr~s 86 (241)
T KOG0105|consen 76 RVEFPRGGRSS 86 (241)
T ss_pred EEEeccCCCcc
Confidence 99997665443
No 44
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.88 E-value=6.9e-09 Score=108.63 Aligned_cols=79 Identities=28% Similarity=0.455 Sum_probs=69.9
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.+||.||.++.. |.+|. ++||+||-|..|.|.|+..+.. =.|++|||+.+-+||..||.+|||+.|.+|+|.
T Consensus 280 ciFvYNLspd~d-e~~LW--QlFgpFGAv~nVKvirD~ttnk-----CKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQ 351 (360)
T KOG0145|consen 280 CIFVYNLSPDAD-ESILW--QLFGPFGAVTNVKVIRDFTTNK-----CKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQ 351 (360)
T ss_pred EEEEEecCCCch-HhHHH--HHhCcccceeeEEEEecCCccc-----ccceeEEEecchHHHHHHHHHhcCccccceEEE
Confidence 599999999974 56665 7999999999999999976531 366899999999999999999999999999999
Q ss_pred EeecCCc
Q 003956 191 ACFGTTK 197 (784)
Q Consensus 191 ASfGTTK 197 (784)
|+|-|.|
T Consensus 352 VsFKtnk 358 (360)
T KOG0145|consen 352 VSFKTNK 358 (360)
T ss_pred EEEecCC
Confidence 9998876
No 45
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=98.85 E-value=8.1e-09 Score=114.62 Aligned_cols=79 Identities=20% Similarity=0.366 Sum_probs=68.0
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCc--eEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGK--VLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDG 186 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGK--I~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdG 186 (784)
...|||.|||+.+++|+|. ++|.+||. |.+|.|...+.+ ++++|||.|.+.++|.+||..|||+.|+|
T Consensus 394 s~~L~v~NLp~~~tee~L~---~lF~~~G~~~i~~ik~~~~~~~-------~~~~gfVeF~~~e~A~~Al~~ln~~~l~~ 463 (481)
T TIGR01649 394 SATLHLSNIPLSVSEEDLK---ELFAENGVHKVKKFKFFPKDNE-------RSKMGLLEWESVEDAVEALIALNHHQLNE 463 (481)
T ss_pred CcEEEEecCCCCCCHHHHH---HHHHhcCCccceEEEEecCCCC-------cceeEEEEcCCHHHHHHHHHHhcCCccCC
Confidence 4579999999999988865 79999998 888888644321 35689999999999999999999999999
Q ss_pred ce------EEEeecCCc
Q 003956 187 RP------LRACFGTTK 197 (784)
Q Consensus 187 Rv------LRASfGTTK 197 (784)
+. ||++|++++
T Consensus 464 ~~~~~~~~lkv~fs~~~ 480 (481)
T TIGR01649 464 PNGSAPYHLKVSFSTSR 480 (481)
T ss_pred CCCCccceEEEEeccCC
Confidence 85 999999875
No 46
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.81 E-value=8.5e-09 Score=114.50 Aligned_cols=79 Identities=22% Similarity=0.390 Sum_probs=73.0
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
..|||||||..+++|+|+ ++|+++|.|..+.+..++.++. ++|+||++|.+.++|.+||+.|||.++.||+|
T Consensus 19 ~~v~vgnip~~~se~~l~---~~~~~~g~v~s~~~v~D~~tG~-----~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l 90 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLL---SIFSGVGPVLSFRLVYDRETGK-----PKGFGFCEFTDEETAERAIRNLNGAEFNGRKL 90 (435)
T ss_pred cceEecCCCCcccHHHHH---HHHhccCccceeeecccccCCC-----cCceeeEecCchhhHHHHHHhcCCcccCCceE
Confidence 789999999999999987 7999999999999998887653 68899999999999999999999999999999
Q ss_pred EEeecCC
Q 003956 190 RACFGTT 196 (784)
Q Consensus 190 RASfGTT 196 (784)
|+.|...
T Consensus 91 ~v~~~~~ 97 (435)
T KOG0108|consen 91 RVNYASN 97 (435)
T ss_pred Eeecccc
Confidence 9999654
No 47
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.79 E-value=5.8e-09 Score=104.59 Aligned_cols=81 Identities=25% Similarity=0.369 Sum_probs=71.9
Q ss_pred cccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 003956 107 IQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDG 186 (784)
Q Consensus 107 IQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdG 186 (784)
-|.++||||||+.++++ ++|. |+|.|-|.|+.|.|.+++... ...|++||.|.++|||.-||+-||+..|.|
T Consensus 7 nqd~tiyvgnld~kvs~-~~l~--EL~iqagpVv~i~iPkDrv~~-----~~qGygF~Ef~~eedadYAikiln~VkLYg 78 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSE-ELLY--ELFIQAGPVVNLHIPKDRVTQ-----KHQGYGFAEFRTEEDADYAIKILNMVKLYG 78 (203)
T ss_pred CCCceEEEecCCHHHHH-HHHH--HHHHhcCceeeeecchhhhcc-----cccceeEEEEechhhhHHHHHHHHHHHhcC
Confidence 36789999999999985 5553 999999999999999988653 246789999999999999999999999999
Q ss_pred ceEEEeecC
Q 003956 187 RPLRACFGT 195 (784)
Q Consensus 187 RvLRASfGT 195 (784)
|+||+.-++
T Consensus 79 rpIrv~kas 87 (203)
T KOG0131|consen 79 RPIRVNKAS 87 (203)
T ss_pred ceeEEEecc
Confidence 999999876
No 48
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.77 E-value=2.3e-08 Score=109.65 Aligned_cols=71 Identities=18% Similarity=0.388 Sum_probs=57.1
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCC------------ceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHH
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYG------------KVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRC 175 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYG------------KI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kA 175 (784)
+...|||+|||+.+++++|. ++|.+|+ .|..|.+.+ .+++|||+|.+.|+|..|
T Consensus 174 ~~r~lyVgnLp~~~t~~~l~---~~F~~~~~~~~~~~~~~~~~v~~~~~~~-----------~kg~afVeF~~~e~A~~A 239 (509)
T TIGR01642 174 QARRLYVGGIPPEFVEEAVV---DFFNDLMIATGYHKAEDGKHVSSVNINK-----------EKNFAFLEFRTVEEATFA 239 (509)
T ss_pred cccEEEEeCCCCCCCHHHHH---HHHHHHHHhcCCCCCCCCCceEEEEECC-----------CCCEEEEEeCCHHHHhhh
Confidence 45679999999999999886 6998862 333333332 245799999999999999
Q ss_pred HHHhCCCccCCceEEEee
Q 003956 176 IQSVHSYILDGRPLRACF 193 (784)
Q Consensus 176 I~aLDG~~LdGRvLRASf 193 (784)
| +|||..|.|+.|++..
T Consensus 240 l-~l~g~~~~g~~l~v~r 256 (509)
T TIGR01642 240 M-ALDSIIYSNVFLKIRR 256 (509)
T ss_pred h-cCCCeEeeCceeEecC
Confidence 9 6999999999999864
No 49
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.66 E-value=7.2e-08 Score=102.45 Aligned_cols=86 Identities=16% Similarity=0.397 Sum_probs=72.4
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
-+|||+-|+..+++.+|. ++|..||+|.+|.|.+++.+. .++|+|||.|.++-+-..|-+..||..|+||.|
T Consensus 102 ~TLFv~RLnydT~EskLr---reF~~YG~IkrirlV~d~vTg-----kskGYAFIeye~erdm~~AYK~adG~~Idgrri 173 (335)
T KOG0113|consen 102 KTLFVARLNYDTSESKLR---REFEKYGPIKRIRLVRDKVTG-----KSKGYAFIEYEHERDMKAAYKDADGIKIDGRRI 173 (335)
T ss_pred ceeeeeeccccccHHHHH---HHHHhcCcceeEEEeeecccC-----CccceEEEEeccHHHHHHHHHhccCceecCcEE
Confidence 579999999999877665 699999999999999987643 268899999999999999999999999999999
Q ss_pred EEeecCCccccccc
Q 003956 190 RACFGTTKYCHAWI 203 (784)
Q Consensus 190 RASfGTTKYCs~FL 203 (784)
-|.|---.-...||
T Consensus 174 ~VDvERgRTvkgW~ 187 (335)
T KOG0113|consen 174 LVDVERGRTVKGWL 187 (335)
T ss_pred EEEecccccccccc
Confidence 99984333333344
No 50
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.66 E-value=3.5e-08 Score=95.57 Aligned_cols=82 Identities=15% Similarity=0.332 Sum_probs=71.6
Q ss_pred cccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 003956 105 RVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYIL 184 (784)
Q Consensus 105 RVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~L 184 (784)
|-|--=.|||.|+.+..++|++. +.|+-||+|+.|.++.++.++. -.|+|.|.|.+.++|+.||.++||..|
T Consensus 68 rSVEGwIi~VtgvHeEatEedi~---d~F~dyGeiKNihLNLDRRtGy-----~KGYaLvEYet~keAq~A~~~~Ng~~l 139 (170)
T KOG0130|consen 68 RSVEGWIIFVTGVHEEATEEDIH---DKFADYGEIKNIHLNLDRRTGY-----VKGYALVEYETLKEAQAAIDALNGAEL 139 (170)
T ss_pred cceeeEEEEEeccCcchhHHHHH---HHHhhcccccceeecccccccc-----ccceeeeehHhHHHHHHHHHhccchhh
Confidence 33444479999999999999986 7999999999999997765432 367899999999999999999999999
Q ss_pred CCceEEEeec
Q 003956 185 DGRPLRACFG 194 (784)
Q Consensus 185 dGRvLRASfG 194 (784)
.|..|.|.|.
T Consensus 140 l~q~v~VDw~ 149 (170)
T KOG0130|consen 140 LGQNVSVDWC 149 (170)
T ss_pred hCCceeEEEE
Confidence 9999999984
No 51
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.65 E-value=2.2e-08 Score=110.09 Aligned_cols=86 Identities=20% Similarity=0.466 Sum_probs=75.6
Q ss_pred cccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCC-c
Q 003956 105 RVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSY-I 183 (784)
Q Consensus 105 RVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~-~ 183 (784)
|++-...+||+-|+-+.+|+|+. |+|.+||.|.++.|.|+..+. .+|+|||+|..+|-|..||++|||. .
T Consensus 120 r~~~e~KLFvg~lsK~~te~evr---~iFs~fG~Ied~~ilrd~~~~------sRGcaFV~fstke~A~~Aika~ng~~t 190 (510)
T KOG0144|consen 120 RIVEERKLFVGMLSKQCTENEVR---EIFSRFGHIEDCYILRDPDGL------SRGCAFVKFSTKEMAVAAIKALNGTQT 190 (510)
T ss_pred ccccchhhhhhhccccccHHHHH---HHHHhhCccchhhheeccccc------ccceeEEEEehHHHHHHHHHhhcccee
Confidence 34667789999999999999986 799999999999999988754 4889999999999999999999997 4
Q ss_pred cCC--ceEEEeecCCccc
Q 003956 184 LDG--RPLRACFGTTKYC 199 (784)
Q Consensus 184 LdG--RvLRASfGTTKYC 199 (784)
+.| .+|-|-|+-||.-
T Consensus 191 meGcs~PLVVkFADtqkd 208 (510)
T KOG0144|consen 191 MEGCSQPLVVKFADTQKD 208 (510)
T ss_pred eccCCCceEEEecccCCC
Confidence 666 6899999988764
No 52
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.60 E-value=9.3e-08 Score=107.61 Aligned_cols=80 Identities=24% Similarity=0.478 Sum_probs=71.2
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
+=.+.|.|||+.+.+++|- -+|++||+|..|+|++...++ -.|+|||+|....+|.+||+.+||..++||+
T Consensus 117 k~rLIIRNLPf~~k~~dLk---~vFs~~G~V~Ei~IP~k~dgk------lcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~ 187 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLK---NVFSNFGKVVEIVIPRKKDGK------LCGFAFVQFKEKKDAEKALEFFNGNKIDGRP 187 (678)
T ss_pred cceEEeecCCcccCcHHHH---HHHhhcceEEEEEcccCCCCC------ccceEEEEEeeHHHHHHHHHhccCceecCce
Confidence 4456777899999988865 599999999999999877765 2478999999999999999999999999999
Q ss_pred EEEeecCCc
Q 003956 189 LRACFGTTK 197 (784)
Q Consensus 189 LRASfGTTK 197 (784)
|-|.|+..|
T Consensus 188 VAVDWAV~K 196 (678)
T KOG0127|consen 188 VAVDWAVDK 196 (678)
T ss_pred eEEeeeccc
Confidence 999999876
No 53
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=98.59 E-value=2.2e-08 Score=107.32 Aligned_cols=54 Identities=41% Similarity=1.205 Sum_probs=49.5
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchh
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIV 66 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~ 66 (784)
..||+|.|++|.+|.+|.||+||+++|+||+..|.+ -+|+||+||++|...+..
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~------~~~~~~~~rk~~~~~t~~ 303 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISD------GDGRCPGCRKPYERNTKK 303 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccc------cCCCCCccCCccccCccc
Confidence 689999999999999999999999999999999964 689999999999776553
No 54
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.58 E-value=8.1e-08 Score=106.13 Aligned_cols=71 Identities=23% Similarity=0.559 Sum_probs=63.5
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
-.|||.||+..+++|. |+ +.|++||+|.+|+..++ +|||-|...++|.+|++.+||++|+|..|
T Consensus 260 KvLYVRNL~~~tTeE~-lk--~~F~~~G~veRVkk~rD-------------YaFVHf~eR~davkAm~~~ngkeldG~~i 323 (506)
T KOG0117|consen 260 KVLYVRNLMESTTEET-LK--KLFNEFGKVERVKKPRD-------------YAFVHFAEREDAVKAMKETNGKELDGSPI 323 (506)
T ss_pred eeeeeeccchhhhHHH-HH--HHHHhccceEEeecccc-------------eeEEeecchHHHHHHHHHhcCceecCceE
Confidence 3589999999998655 54 79999999999987754 69999999999999999999999999999
Q ss_pred EEeecCC
Q 003956 190 RACFGTT 196 (784)
Q Consensus 190 RASfGTT 196 (784)
.|.++..
T Consensus 324 EvtLAKP 330 (506)
T KOG0117|consen 324 EVTLAKP 330 (506)
T ss_pred EEEecCC
Confidence 9999854
No 55
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.58 E-value=6.1e-08 Score=108.97 Aligned_cols=79 Identities=20% Similarity=0.455 Sum_probs=69.3
Q ss_pred EEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEE
Q 003956 112 VYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRA 191 (784)
Q Consensus 112 VYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRA 191 (784)
+||++|..++++++++ ..|..||+|..|.+.++...+ ..++++||||.+.++|.+|...|||++|.||.|||
T Consensus 281 l~vgnLHfNite~~lr---~ifepfg~Ie~v~l~~d~~tG-----~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV 352 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLR---GIFEPFGKIENVQLTKDSETG-----RSKGFGFITFVNKEDARKALEQLNGFELAGRLIKV 352 (549)
T ss_pred hhhcccccCchHHHHh---hhccCcccceeeeeccccccc-----cccCcceEEEecHHHHHHHHHHhccceecCceEEE
Confidence 8999999999876665 699999999999998876332 14678999999999999999999999999999999
Q ss_pred eecCCcc
Q 003956 192 CFGTTKY 198 (784)
Q Consensus 192 SfGTTKY 198 (784)
+..|.+-
T Consensus 353 ~~v~~r~ 359 (549)
T KOG0147|consen 353 SVVTERV 359 (549)
T ss_pred EEeeeec
Confidence 9887654
No 56
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.58 E-value=1.2e-07 Score=109.75 Aligned_cols=102 Identities=16% Similarity=0.363 Sum_probs=83.1
Q ss_pred cCCCCcc----ccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHH
Q 003956 99 MHLTNVR----VIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIR 174 (784)
Q Consensus 99 K~La~VR----VIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~k 174 (784)
|-|..|| .|...+||||||+.+++++||- .+|+.||.|..|.|+- ++++|||++.+..||.+
T Consensus 407 kglP~I~pd~isV~SrTLwvG~i~k~v~e~dL~---~~feefGeiqSi~li~-----------~R~cAfI~M~~RqdA~k 472 (894)
T KOG0132|consen 407 KGLPTIPPDHISVCSRTLWVGGIPKNVTEQDLA---NLFEEFGEIQSIILIP-----------PRGCAFIKMVRRQDAEK 472 (894)
T ss_pred ccCCCCCCcceeEeeeeeeeccccchhhHHHHH---HHHHhcccceeEeecc-----------CCceeEEEEeehhHHHH
Confidence 4677777 5677889999999999998875 6999999999999873 35679999999999999
Q ss_pred HHHHhCCCccCCceEEEeecCCccccccccCcCCCCCCcccccCCCCC
Q 003956 175 CIQSVHSYILDGRPLRACFGTTKYCHAWIRNMPCSVPDCLYLHDFGSQ 222 (784)
Q Consensus 175 AI~aLDG~~LdGRvLRASfGTTKYCs~FLRn~~C~N~dCmYLHE~g~~ 222 (784)
|+++|.+..+.++.||+.||.-|--.. .-.|.|-||+|=-
T Consensus 473 alqkl~n~kv~~k~Iki~Wa~g~G~ks--------e~k~~wD~~lGVt 512 (894)
T KOG0132|consen 473 ALQKLSNVKVADKTIKIAWAVGKGPKS--------EYKDYWDVELGVT 512 (894)
T ss_pred HHHHHhcccccceeeEEeeeccCCcch--------hhhhhhhcccCee
Confidence 999999999999999999986653321 1125566666643
No 57
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.55 E-value=1.6e-07 Score=103.59 Aligned_cols=80 Identities=20% Similarity=0.514 Sum_probs=68.8
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCC-ccCC--c
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSY-ILDG--R 187 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~-~LdG--R 187 (784)
.+||+-||...+|+||+ ++|.+||.|.+|.|.||+... ..+++.||+|.+.+||.+||.+|++. +|-| .
T Consensus 36 KlfVgqIprt~sE~dlr---~lFe~yg~V~einl~kDk~t~-----~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~ 107 (510)
T KOG0144|consen 36 KLFVGQIPRTASEKDLR---ELFEKYGNVYEINLIKDKSTG-----QSKGCCFVKYYTRKEADEAINALHNQKTLPGMHH 107 (510)
T ss_pred hheeccCCccccHHHHH---HHHHHhCceeEEEeecccccC-----cccceEEEEeccHHHHHHHHHHhhcccccCCCCc
Confidence 37999999999999987 699999999999999998754 25778999999999999999999985 5655 6
Q ss_pred eEEEeecCCcc
Q 003956 188 PLRACFGTTKY 198 (784)
Q Consensus 188 vLRASfGTTKY 198 (784)
+|++-|+-...
T Consensus 108 pvqvk~Ad~E~ 118 (510)
T KOG0144|consen 108 PVQVKYADGER 118 (510)
T ss_pred ceeecccchhh
Confidence 78888876543
No 58
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.52 E-value=3.7e-07 Score=95.94 Aligned_cols=105 Identities=18% Similarity=0.430 Sum_probs=88.0
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
|..+.|-=||..++.||+. .+|+..|+|..+.+.|++..+ ..-|++||.|.+++||++||..|||-.|..+.
T Consensus 41 kTNLIvNYLPQ~MTqdE~r---SLF~SiGeiEScKLvRDKitG-----qSLGYGFVNYv~p~DAe~AintlNGLrLQ~KT 112 (360)
T KOG0145|consen 41 KTNLIVNYLPQNMTQDELR---SLFGSIGEIESCKLVRDKITG-----QSLGYGFVNYVRPKDAEKAINTLNGLRLQNKT 112 (360)
T ss_pred cceeeeeecccccCHHHHH---HHhhcccceeeeeeeeccccc-----cccccceeeecChHHHHHHHhhhcceeeccce
Confidence 4445777899999999976 599999999999999998754 24568999999999999999999999999999
Q ss_pred EEEeecCC-----ccccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhhc
Q 003956 189 LRACFGTT-----KYCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFTR 237 (784)
Q Consensus 189 LRASfGTT-----KYCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~tr 237 (784)
|||+|+.. |--..|+.|.| ...|..||++...+
T Consensus 113 IKVSyARPSs~~Ik~aNLYvSGlP----------------ktMtqkelE~iFs~ 150 (360)
T KOG0145|consen 113 IKVSYARPSSDSIKDANLYVSGLP----------------KTMTQKELEQIFSP 150 (360)
T ss_pred EEEEeccCChhhhcccceEEecCC----------------ccchHHHHHHHHHH
Confidence 99999854 34445666666 68899999987665
No 59
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.48 E-value=3.1e-07 Score=103.58 Aligned_cols=114 Identities=23% Similarity=0.433 Sum_probs=87.5
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHh-----CC-Ccc
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSV-----HS-YIL 184 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aL-----DG-~~L 184 (784)
+|||.|||+..++|+|. +.|.|||+|.-+.|..++.+. .+.|.|||-|.+..+|.+||.+. +| +.|
T Consensus 294 tVFvRNL~fD~tEEel~---~~fskFG~v~ya~iV~~k~T~-----~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll 365 (678)
T KOG0127|consen 294 TVFVRNLPFDTTEEELK---EHFSKFGEVKYAIIVKDKDTG-----HSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLL 365 (678)
T ss_pred eEEEecCCccccHHHHH---HHHHhhccceeEEEEeccCCC-----CcccceEEEeccHHHHHHHHHhcCccCCCceEEE
Confidence 89999999999988765 899999999998888777654 25778999999999999999998 55 789
Q ss_pred CCceEEEeecCCccccccc-----cCcCCCCCCcccccCCCCC------CCCCcHHHHHH
Q 003956 185 DGRPLRACFGTTKYCHAWI-----RNMPCSVPDCLYLHDFGSQ------EDSFTKDEIVS 233 (784)
Q Consensus 185 dGRvLRASfGTTKYCs~FL-----Rn~~C~N~dCmYLHE~g~~------~DsfTKeEm~~ 233 (784)
+||.|+|..+.|+--..=| +-.+-. .-=+||--.|-- .+.++.+||..
T Consensus 366 ~GR~Lkv~~Av~RkeA~dmeqkk~~Kk~~g-krNLyLa~EG~I~~gt~aAeglS~~Dm~k 424 (678)
T KOG0127|consen 366 DGRLLKVTLAVTRKEAADMEQKKKRKKPKG-KRNLYLAREGLIRDGTPAAEGLSATDMAK 424 (678)
T ss_pred eccEEeeeeccchHHHHHHHHHhhhhccCC-ccceeeeccCccccCChhhcccchhhHHH
Confidence 9999999999886554422 222211 224666554432 45688888875
No 60
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.45 E-value=4.1e-07 Score=92.76 Aligned_cols=78 Identities=22% Similarity=0.460 Sum_probs=69.1
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccC-CceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQY-GKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQY-GKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
...|||.-+|.-+-+-++| .||+|| |.+..+++.|++.++ +..++|||.|.++|.|.-|-+.||++.|.|+
T Consensus 49 ~g~~~~~~~p~g~~e~~~~---~~~~q~~g~v~r~rlsRnkrTG-----NSKgYAFVEFEs~eVA~IaAETMNNYLl~e~ 120 (214)
T KOG4208|consen 49 EGVVYVDHIPHGFFETEIL---NYFRQFGGTVTRFRLSRNKRTG-----NSKGYAFVEFESEEVAKIAAETMNNYLLMEH 120 (214)
T ss_pred ccceeecccccchhHHHHh---hhhhhcCCeeEEEEeecccccC-----CcCceEEEEeccHHHHHHHHHHhhhhhhhhh
Confidence 4789999999999888888 599999 777778888887654 3688999999999999999999999999999
Q ss_pred eEEEeec
Q 003956 188 PLRACFG 194 (784)
Q Consensus 188 vLRASfG 194 (784)
.|.|.|=
T Consensus 121 lL~c~vm 127 (214)
T KOG4208|consen 121 LLECHVM 127 (214)
T ss_pred eeeeEEe
Confidence 9999983
No 61
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.31 E-value=9.2e-07 Score=100.05 Aligned_cols=76 Identities=26% Similarity=0.508 Sum_probs=63.9
Q ss_pred EEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEE
Q 003956 112 VYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRA 191 (784)
Q Consensus 112 VYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRA 191 (784)
+||.||...+.--||. .+|.+||||+-..|..+... |..++|+|||+.+.++|.+||..|+-++|.||+|-|
T Consensus 408 lWVSGLSstTRAtDLK---nlFSKyGKVvGAKVVTNaRs-----PGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISV 479 (940)
T KOG4661|consen 408 LWVSGLSSTTRATDLK---NLFSKYGKVVGAKVVTNARS-----PGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISV 479 (940)
T ss_pred eeeeccccchhhhHHH---HHHHHhcceeceeeeecCCC-----CCcceeEEEEecchHHHHHHHHHhhhhhhcceeeee
Confidence 6999999887766764 69999999996666554432 345899999999999999999999999999999998
Q ss_pred eecC
Q 003956 192 CFGT 195 (784)
Q Consensus 192 SfGT 195 (784)
.-+.
T Consensus 480 EkaK 483 (940)
T KOG4661|consen 480 EKAK 483 (940)
T ss_pred eecc
Confidence 8543
No 62
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.31 E-value=1.6e-06 Score=94.84 Aligned_cols=83 Identities=22% Similarity=0.459 Sum_probs=70.2
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.+||| +.+++..|. ++|.++|+|+.|.|-++. + + -|+|||.|.+++||.+||+.+|...+.|++||
T Consensus 3 sl~vg---~~v~e~~l~---~~f~~~~~v~s~rvc~d~-t-s------lgy~yvnf~~~~da~~A~~~~n~~~~~~~~~r 68 (369)
T KOG0123|consen 3 SLYVG---PDVTEAMLF---DKFSPAGPVLSIRVCRDA-T-S------LGYAYVNFQQPADAERALDTMNFDVLKGKPIR 68 (369)
T ss_pred ceecC---CcCChHHHH---HHhcccCCceeEEEeecC-C-c------cceEEEecCCHHHHHHHHHHcCCcccCCcEEE
Confidence 47888 888876665 799999999999999987 5 2 56899999999999999999999999999999
Q ss_pred EeecCCccccccccCcC
Q 003956 191 ACFGTTKYCHAWIRNMP 207 (784)
Q Consensus 191 ASfGTTKYCs~FLRn~~ 207 (784)
+-|..-.--..|++|.+
T Consensus 69 im~s~rd~~~~~i~nl~ 85 (369)
T KOG0123|consen 69 IMWSQRDPSLVFIKNLD 85 (369)
T ss_pred eehhccCCceeeecCCC
Confidence 99975543336666655
No 63
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.26 E-value=8.9e-07 Score=94.20 Aligned_cols=85 Identities=25% Similarity=0.453 Sum_probs=71.2
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.+||||||.+.++.+|. .+|.|||||++..|.|+ ++||-.+++..|..||+.|+|+.|+|..|.
T Consensus 4 KLFIGNLp~~~~~~elr---~lFe~ygkVlECDIvKN-------------YgFVHiEdktaaedairNLhgYtLhg~nIn 67 (346)
T KOG0109|consen 4 KLFIGNLPREATEQELR---SLFEQYGKVLECDIVKN-------------YGFVHIEDKTAAEDAIRNLHGYTLHGVNIN 67 (346)
T ss_pred chhccCCCcccchHHHH---HHHHhhCceEeeeeecc-------------cceEEeecccccHHHHhhcccceecceEEE
Confidence 57999999999988875 59999999999999865 589999999999999999999999999999
Q ss_pred EeecCCccc---cccccCc--CCCCC
Q 003956 191 ACFGTTKYC---HAWIRNM--PCSVP 211 (784)
Q Consensus 191 ASfGTTKYC---s~FLRn~--~C~N~ 211 (784)
|.-.+.|-- ..|+.|. .|+|+
T Consensus 68 VeaSksKsk~stkl~vgNis~tctn~ 93 (346)
T KOG0109|consen 68 VEASKSKSKASTKLHVGNISPTCTNQ 93 (346)
T ss_pred EEeccccCCCccccccCCCCccccCH
Confidence 988877721 2255553 45554
No 64
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.24 E-value=2.5e-06 Score=89.03 Aligned_cols=75 Identities=28% Similarity=0.547 Sum_probs=68.6
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
..|||.||+..+.++||. |+|.+||.+.++.|..++.|. +-+.|=|+|.+.+||.+||+.++|..|+|+.|
T Consensus 84 ~~v~v~NL~~~V~~~Dl~---eLF~~~~~~~r~~vhy~~~G~------s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~m 154 (243)
T KOG0533|consen 84 TKVNVSNLPYGVIDADLK---ELFAEFGELKRVAVHYDRAGR------SLGTADVSFNRRDDAERAVKKYNGVALDGRPM 154 (243)
T ss_pred ceeeeecCCcCcchHHHH---HHHHHhccceEEeeccCCCCC------CCccceeeecchHhHHHHHHHhcCcccCCcee
Confidence 679999999999999987 899999999999998887764 35679999999999999999999999999999
Q ss_pred EEee
Q 003956 190 RACF 193 (784)
Q Consensus 190 RASf 193 (784)
++..
T Consensus 155 k~~~ 158 (243)
T KOG0533|consen 155 KIEI 158 (243)
T ss_pred eeEE
Confidence 8775
No 65
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.23 E-value=2e-06 Score=93.10 Aligned_cols=74 Identities=23% Similarity=0.510 Sum_probs=63.5
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHh-CCCccCCce
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSV-HSYILDGRP 188 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aL-DG~~LdGRv 188 (784)
.++||+||...+++.+|. +.|.|||.|..|++... .++|||+|.+.+.|++|.+.. |-..++|+.
T Consensus 229 ~tLyIg~l~d~v~e~dIr---dhFyqyGeirsi~~~~~-----------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~R 294 (377)
T KOG0153|consen 229 KTLYIGGLNDEVLEQDIR---DHFYQYGEIRSIRILPR-----------KGCAFVTFTTREAAEKAAEKSFNKLVINGFR 294 (377)
T ss_pred eEEEecccccchhHHHHH---HHHhhcCCeeeEEeecc-----------cccceeeehhhHHHHHHHHhhcceeeecceE
Confidence 379999999999988876 79999999999999843 236999999999999998855 445679999
Q ss_pred EEEeecCCc
Q 003956 189 LRACFGTTK 197 (784)
Q Consensus 189 LRASfGTTK 197 (784)
|++-||.++
T Consensus 295 l~i~Wg~~~ 303 (377)
T KOG0153|consen 295 LKIKWGRPK 303 (377)
T ss_pred EEEEeCCCc
Confidence 999999983
No 66
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.16 E-value=1.9e-06 Score=91.69 Aligned_cols=77 Identities=17% Similarity=0.416 Sum_probs=69.5
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
+.+++|+||.+..+..||. +.|.+||.|++..|.++ ++||-|...|+|..||+.|||.+++|+.
T Consensus 78 stkl~vgNis~tctn~ElR---a~fe~ygpviecdivkd-------------y~fvh~d~~eda~~air~l~~~~~~gk~ 141 (346)
T KOG0109|consen 78 STKLHVGNISPTCTNQELR---AKFEKYGPVIECDIVKD-------------YAFVHFDRAEDAVEAIRGLDNTEFQGKR 141 (346)
T ss_pred ccccccCCCCccccCHHHh---hhhcccCCceeeeeecc-------------eeEEEEeeccchHHHHhcccccccccce
Confidence 5678999999999998976 79999999999988754 6999999999999999999999999999
Q ss_pred EEEeecCCccccc
Q 003956 189 LRACFGTTKYCHA 201 (784)
Q Consensus 189 LRASfGTTKYCs~ 201 (784)
|+|...|.+-...
T Consensus 142 m~vq~stsrlrta 154 (346)
T KOG0109|consen 142 MHVQLSTSRLRTA 154 (346)
T ss_pred eeeeeeccccccC
Confidence 9999998876543
No 67
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.15 E-value=5.7e-06 Score=90.54 Aligned_cols=74 Identities=18% Similarity=0.487 Sum_probs=66.3
Q ss_pred EEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEE
Q 003956 112 VYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRA 191 (784)
Q Consensus 112 VYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRA 191 (784)
|||-+|++.++.++|. ++|+.||+|+.+.|.++..| .+|+ ||.|+++++|.+||..+||..+.|+.|-+
T Consensus 79 ~~i~nl~~~~~~~~~~---d~f~~~g~ilS~kv~~~~~g-------~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~v 147 (369)
T KOG0123|consen 79 VFIKNLDESIDNKSLY---DTFSEFGNILSCKVATDENG-------SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYV 147 (369)
T ss_pred eeecCCCcccCcHHHH---HHHHhhcCeeEEEEEEcCCC-------ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEE
Confidence 9999999999998875 89999999999999988765 3667 99999999999999999999999999987
Q ss_pred eecCC
Q 003956 192 CFGTT 196 (784)
Q Consensus 192 SfGTT 196 (784)
.....
T Consensus 148 g~~~~ 152 (369)
T KOG0123|consen 148 GLFER 152 (369)
T ss_pred eeccc
Confidence 65433
No 68
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.12 E-value=2.5e-06 Score=90.13 Aligned_cols=80 Identities=16% Similarity=0.421 Sum_probs=69.5
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
..+||.-||.++.+.||+ .+|-.||.|+...|--++.+. ..++++||.|.+...|..||++|||++|.-+.|
T Consensus 286 CNlFIYHLPQEFgDaEli---QmF~PFGhivSaKVFvDRATN-----QSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRL 357 (371)
T KOG0146|consen 286 CNLFIYHLPQEFGDAELI---QMFLPFGHIVSAKVFVDRATN-----QSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRL 357 (371)
T ss_pred ceEEEEeCchhhccHHHH---HHhccccceeeeeeeehhccc-----cccceeeEecCCchhHHHHHHHhcchhhhhhhh
Confidence 568999999999999999 599999999977665555443 258899999999999999999999999999999
Q ss_pred EEeecCCc
Q 003956 190 RACFGTTK 197 (784)
Q Consensus 190 RASfGTTK 197 (784)
||..-..|
T Consensus 358 KVQLKRPk 365 (371)
T KOG0146|consen 358 KVQLKRPK 365 (371)
T ss_pred hhhhcCcc
Confidence 99876555
No 69
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.11 E-value=2.7e-06 Score=92.64 Aligned_cols=76 Identities=16% Similarity=0.384 Sum_probs=65.9
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
..||||.|..++.+ |++| .-|..||.|+.|.|.-+..+. ...++|||.|+-+|-|..|++.|||..++||.|
T Consensus 114 cRvYVGSIsfEl~E-DtiR--~AF~PFGPIKSInMSWDp~T~-----kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNi 185 (544)
T KOG0124|consen 114 CRVYVGSISFELRE-DTIR--RAFDPFGPIKSINMSWDPATG-----KHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNI 185 (544)
T ss_pred HheeeeeeEEEech-HHHH--hhccCCCCcceeecccccccc-----cccceEEEEEeCcHHHHHHHHHhccccccCccc
Confidence 45999999999975 5555 599999999999998776543 247789999999999999999999999999999
Q ss_pred EEee
Q 003956 190 RACF 193 (784)
Q Consensus 190 RASf 193 (784)
||..
T Consensus 186 KVgr 189 (544)
T KOG0124|consen 186 KVGR 189 (544)
T ss_pred cccC
Confidence 9873
No 70
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.10 E-value=3.6e-06 Score=84.95 Aligned_cols=89 Identities=22% Similarity=0.343 Sum_probs=71.7
Q ss_pred cCCCCccccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEE-EEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHH
Q 003956 99 MHLTNVRVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKV-SISRTATGDIQHSANNSCCVYITYSREDDAIRCIQ 177 (784)
Q Consensus 99 K~La~VRVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KI-vInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~ 177 (784)
++-.+++|- -.+||+||.+.+. |.+| ++.|..||.|++. .|.++..++ ++++++||.|+..|.+.+||.
T Consensus 88 ~~~~nl~vg--anlfvgNLd~~vD-e~~L--~dtFsafG~l~~~P~i~rd~~tg-----~~~~~g~i~~~sfeasd~ai~ 157 (203)
T KOG0131|consen 88 AHQKNLDVG--ANLFVGNLDPEVD-EKLL--YDTFSAFGVLISPPKIMRDPDTG-----NPKGFGFINYASFEASDAAIG 157 (203)
T ss_pred ccccccccc--ccccccccCcchh-HHHH--HHHHHhccccccCCcccccccCC-----CCCCCeEEechhHHHHHHHHH
Confidence 444555553 5579999999884 6666 3899999999975 566665543 357789999999999999999
Q ss_pred HhCCCccCCceEEEeecCCc
Q 003956 178 SVHSYILDGRPLRACFGTTK 197 (784)
Q Consensus 178 aLDG~~LdGRvLRASfGTTK 197 (784)
+|||..+..|+++++|+..|
T Consensus 158 s~ngq~l~nr~itv~ya~k~ 177 (203)
T KOG0131|consen 158 SMNGQYLCNRPITVSYAFKK 177 (203)
T ss_pred HhccchhcCCceEEEEEEec
Confidence 99999999999999996544
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.09 E-value=7e-06 Score=94.98 Aligned_cols=85 Identities=18% Similarity=0.326 Sum_probs=71.8
Q ss_pred cccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 003956 107 IQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDG 186 (784)
Q Consensus 107 IQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdG 186 (784)
++.+.+||.||++..+.+++. ..|.++|.|+.|.|.+.+.... -.-..|+|||.|.+.++|.+|+++|+|+.|+|
T Consensus 513 ~~~t~lfvkNlnf~Tt~e~l~---~~F~k~G~VlS~~I~kkkd~~~--k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldG 587 (725)
T KOG0110|consen 513 ETETKLFVKNLNFDTTLEDLE---DLFSKQGTVLSIEISKKKDPAN--KYLSMGFGFVEFAKPESAQAALKALQGTVLDG 587 (725)
T ss_pred ccchhhhhhcCCcccchhHHH---HHHHhcCeEEEEEEeccccccc--cccccceeEEEecCHHHHHHHHHHhcCceecC
Confidence 344559999999999999987 6999999999999986655432 11246899999999999999999999999999
Q ss_pred ceEEEeecCC
Q 003956 187 RPLRACFGTT 196 (784)
Q Consensus 187 RvLRASfGTT 196 (784)
+.|.+.|.-+
T Consensus 588 H~l~lk~S~~ 597 (725)
T KOG0110|consen 588 HKLELKISEN 597 (725)
T ss_pred ceEEEEeccC
Confidence 9999998763
No 72
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.09 E-value=6.6e-06 Score=89.53 Aligned_cols=102 Identities=20% Similarity=0.307 Sum_probs=82.3
Q ss_pred hhhhcCCCCCcCccCCCCcccc-ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEE
Q 003956 86 KSQKAKPKPSEGRMHLTNVRVI-QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYI 164 (784)
Q Consensus 86 K~qk~k~k~se~RK~La~VRVI-QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYV 164 (784)
|+.++..-.-|.--.|+..-|. ..|.+||--|+|-.++|||- -+|+.||+|....|.++..++. .-.+|||
T Consensus 215 ~ea~~~A~iLEmvGDlpdAd~~PPeNVLFVCKLNPVTtDeDLe---iIFSrFG~i~sceVIRD~ktgd-----sLqyaFi 286 (479)
T KOG0415|consen 215 KEAKAQAVILEMVGDLPDADVKPPENVLFVCKLNPVTTDEDLE---IIFSRFGKIVSCEVIRDRKTGD-----SLQYAFI 286 (479)
T ss_pred HHHHhhHhHHHHhcCCcccccCCCcceEEEEecCCcccccchh---hHHhhcccceeeeEEecccccc-----hhheeee
Confidence 3443333333455566666654 56999999999999999985 5999999999999999876542 2457999
Q ss_pred EeCCHHHHHHHHHHhCCCccCCceEEEeecC
Q 003956 165 TYSREDDAIRCIQSVHSYILDGRPLRACFGT 195 (784)
Q Consensus 165 TFs~kEDA~kAI~aLDG~~LdGRvLRASfGT 195 (784)
.|.++++..+|.-.||+..||.|.|.|.|..
T Consensus 287 EFen~escE~AyFKMdNvLIDDrRIHVDFSQ 317 (479)
T KOG0415|consen 287 EFENKESCEQAYFKMDNVLIDDRRIHVDFSQ 317 (479)
T ss_pred eecchhhHHHHHhhhcceeeccceEEeehhh
Confidence 9999999999999999999999999999954
No 73
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.02 E-value=1e-05 Score=93.75 Aligned_cols=109 Identities=17% Similarity=0.283 Sum_probs=83.9
Q ss_pred cccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecC--CCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 003956 107 IQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTA--TGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYIL 184 (784)
Q Consensus 107 IQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk--~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~L 184 (784)
-|...||||||++.+.++.||+ .||.||.|..|.|.-.+ .-.. ..+-++||-|-+..||.+|++.|+|..+
T Consensus 172 P~TTNlyv~Nlnpsv~E~~ll~---tfGrfgPlasvKimwpRtEeEk~----r~r~cgfvafmnR~D~era~k~lqg~iv 244 (877)
T KOG0151|consen 172 PQTTNLYVGNLNPSVDENFLLR---TFGRFGPLASVKIMWPRTEEEKR----RERNCGFVAFMNRADAERALKELQGIIV 244 (877)
T ss_pred CcccceeeecCCccccHHHHHH---HhcccCcccceeeecccchhhhc----cccccceeeehhhhhHHHHHHHhcceee
Confidence 4677799999999999999985 99999999999886322 1111 2355799999999999999999999999
Q ss_pred CCceEEEeec-------CCccccccccCcCCCCCCcccccCCCCC
Q 003956 185 DGRPLRACFG-------TTKYCHAWIRNMPCSVPDCLYLHDFGSQ 222 (784)
Q Consensus 185 dGRvLRASfG-------TTKYCs~FLRn~~C~N~dCmYLHE~g~~ 222 (784)
.++.||.-|| +++|----+-...=+.+.|..-|+-...
T Consensus 245 ~~~e~K~gWgk~V~ip~~p~~ipp~~h~~~lp~p~s~Lpfnaqp~ 289 (877)
T KOG0151|consen 245 MEYEMKLGWGKAVPIPNIPIYIPPPLHEATLPPPPSNLPFNAQPG 289 (877)
T ss_pred eeeeeeeccccccccCCccccCCChhhhccCCCCccCCcccCCCC
Confidence 9999999999 4555544444444455666666655444
No 74
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.02 E-value=1.5e-05 Score=86.59 Aligned_cols=89 Identities=20% Similarity=0.308 Sum_probs=74.2
Q ss_pred CCccccccCeEEEeCCCCCCChHHHHHHHHhhccCCceE--------EEEEeecCCCCcccCCCCCcEEEEEeCCHHHHH
Q 003956 102 TNVRVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVL--------KVSISRTATGDIQHSANNSCCVYITYSREDDAI 173 (784)
Q Consensus 102 a~VRVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~--------KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~ 173 (784)
.++--.+...|||.|||..|+.+|++ ++|++.|-|+ +|.+-++..|. ..|-|-|+|.+.|.-.
T Consensus 127 ~~~~~~~Nt~VYVsgLP~DiT~dE~~---~~~sKcGiI~~d~~t~epk~KlYrd~~G~------lKGDaLc~y~K~ESVe 197 (382)
T KOG1548|consen 127 FNPEPKVNTSVYVSGLPLDITVDEFA---EVMSKCGIIMRDPQTGEPKVKLYRDNQGK------LKGDALCCYIKRESVE 197 (382)
T ss_pred cCcccccCceEEecCCCCcccHHHHH---HHHHhcceEeccCCCCCeeEEEEecCCCC------ccCceEEEeecccHHH
Confidence 34445556669999999999999998 6999999998 56777776653 4667999999999999
Q ss_pred HHHHHhCCCccCCceEEEeecCCccc
Q 003956 174 RCIQSVHSYILDGRPLRACFGTTKYC 199 (784)
Q Consensus 174 kAI~aLDG~~LdGRvLRASfGTTKYC 199 (784)
.||+.||+..|.|+.|||.-+.-.+-
T Consensus 198 LA~~ilDe~~~rg~~~rVerAkfq~K 223 (382)
T KOG1548|consen 198 LAIKILDEDELRGKKLRVERAKFQMK 223 (382)
T ss_pred HHHHHhCcccccCcEEEEehhhhhhc
Confidence 99999999999999999997755443
No 75
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.95 E-value=2.5e-05 Score=84.89 Aligned_cols=61 Identities=30% Similarity=0.517 Sum_probs=54.0
Q ss_pred HhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEee--cCCcccc
Q 003956 131 EYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRACF--GTTKYCH 200 (784)
Q Consensus 131 EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRASf--GTTKYCs 200 (784)
+-..+||.|.+|+|.-.+ |-|.|-|+|.+.++|..||+.|+|.+++||+|.|+. |+|+|-.
T Consensus 295 eec~K~G~v~~vvv~d~h---------PdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~DG~t~~~~ 357 (382)
T KOG1548|consen 295 EECEKFGQVRKVVVYDRH---------PDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWDGKTKFQT 357 (382)
T ss_pred HHHHHhCCcceEEEeccC---------CCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeCCcceeee
Confidence 678999999999997432 355699999999999999999999999999999997 8999875
No 76
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.93 E-value=6.1e-06 Score=93.44 Aligned_cols=88 Identities=17% Similarity=0.381 Sum_probs=73.7
Q ss_pred CccCCCCccccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHH
Q 003956 97 GRMHLTNVRVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCI 176 (784)
Q Consensus 97 ~RK~La~VRVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI 176 (784)
.|+++......-...|+|.+||..|++++|+ +.||.||+|..|..-+.+ ++-+||.|.+..+|++|+
T Consensus 63 ~~~~np~~~~~~~~~L~v~nl~~~Vsn~~L~---~~f~~yGeir~ir~t~~~----------~~~~~v~FyDvR~A~~Al 129 (549)
T KOG4660|consen 63 LRPDNPSEKDMNQGTLVVFNLPRSVSNDTLL---RIFGAYGEIREIRETPNK----------RGIVFVEFYDVRDAERAL 129 (549)
T ss_pred CCcCCCCcccCccceEEEEecCCcCCHHHHH---HHHHhhcchhhhhccccc----------CceEEEEEeehHhHHHHH
Confidence 4557777766666788999999999999998 599999999997655433 446999999999999999
Q ss_pred HHhCCCccCCceEEEeecCCc
Q 003956 177 QSVHSYILDGRPLRACFGTTK 197 (784)
Q Consensus 177 ~aLDG~~LdGRvLRASfGTTK 197 (784)
++|++.++.|+.|+...|++.
T Consensus 130 k~l~~~~~~~~~~k~~~~~~~ 150 (549)
T KOG4660|consen 130 KALNRREIAGKRIKRPGGARR 150 (549)
T ss_pred HHHHHHHhhhhhhcCCCcccc
Confidence 999999999999996666554
No 77
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=97.85 E-value=2.8e-05 Score=85.04 Aligned_cols=78 Identities=23% Similarity=0.421 Sum_probs=70.0
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
|.|||..+.+++.++||. ..|.-||+|++..+.+...+.. .+|++||.|.+...-..||..||=|.|+|..|
T Consensus 211 nRiYVaSvHpDLSe~DiK---SVFEAFG~I~~C~LAr~pt~~~-----HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyL 282 (544)
T KOG0124|consen 211 NRIYVASVHPDLSETDIK---SVFEAFGEIVKCQLARAPTGRG-----HKGYGFIEYNNLQSQSEAIASMNLFDLGGQYL 282 (544)
T ss_pred heEEeeecCCCccHHHHH---HHHHhhcceeeEEeeccCCCCC-----ccceeeEEeccccchHHHhhhcchhhcccceE
Confidence 789999999999999986 5999999999999998877642 47889999999999999999999999999999
Q ss_pred EEeecC
Q 003956 190 RACFGT 195 (784)
Q Consensus 190 RASfGT 195 (784)
||--..
T Consensus 283 RVGk~v 288 (544)
T KOG0124|consen 283 RVGKCV 288 (544)
T ss_pred eccccc
Confidence 987433
No 78
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.81 E-value=1.4e-05 Score=86.00 Aligned_cols=77 Identities=22% Similarity=0.418 Sum_probs=61.4
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
....+||+||+|.+++|.|. +||++||+|.+.+|+++.... ..++++||+|++.+.-.+++.. .-..|+||
T Consensus 5 ~~~KlfiGgisw~ttee~Lr---~yf~~~Gev~d~~vm~d~~t~-----rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr 75 (311)
T KOG4205|consen 5 ESGKLFIGGLSWETTEESLR---EYFSQFGEVTDCVVMRDPSTG-----RSRGFGFVTFATPEGVDAVLNA-RTHKLDGR 75 (311)
T ss_pred CCcceeecCcCccccHHHHH---HHhcccCceeeEEEeccCCCC-----CcccccceecCCCcchheeecc-cccccCCc
Confidence 35679999999999987754 899999999999999987653 3688999999998877766554 34577888
Q ss_pred eEEEee
Q 003956 188 PLRACF 193 (784)
Q Consensus 188 vLRASf 193 (784)
.|-+--
T Consensus 76 ~ve~k~ 81 (311)
T KOG4205|consen 76 SVEPKR 81 (311)
T ss_pred ccccee
Confidence 775443
No 79
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=97.69 E-value=7.7e-05 Score=79.20 Aligned_cols=93 Identities=22% Similarity=0.431 Sum_probs=75.0
Q ss_pred cCCCCCcCccCCCCccccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCH
Q 003956 90 AKPKPSEGRMHLTNVRVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSRE 169 (784)
Q Consensus 90 ~k~k~se~RK~La~VRVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~k 169 (784)
.|..++|+|-- ....+|||=|...-.|||++| +|..||.|.++.+.+..++. .+|+|||.|.+.
T Consensus 7 vkpadsesrg~-------~drklfvgml~kqq~e~dvrr---lf~pfG~~~e~tvlrg~dg~------sKGCAFVKf~s~ 70 (371)
T KOG0146|consen 7 VKPADSESRGG-------DDRKLFVGMLNKQQSEDDVRR---LFQPFGNIEECTVLRGPDGN------SKGCAFVKFSSH 70 (371)
T ss_pred ccccccccCCc-------cchhhhhhhhcccccHHHHHH---HhcccCCcceeEEecCCCCC------CCCceEEEeccc
Confidence 45556666543 244678998888888999986 99999999999999988764 467899999999
Q ss_pred HHHHHHHHHhCCCc-cCC--ceEEEeecCCcc
Q 003956 170 DDAIRCIQSVHSYI-LDG--RPLRACFGTTKY 198 (784)
Q Consensus 170 EDA~kAI~aLDG~~-LdG--RvLRASfGTTKY 198 (784)
-||..||.+|+|.. +-| .-|.|-|+-|..
T Consensus 71 ~eAqaAI~aLHgSqTmpGASSSLVVK~ADTdk 102 (371)
T KOG0146|consen 71 AEAQAAINALHGSQTMPGASSSLVVKFADTDK 102 (371)
T ss_pred hHHHHHHHHhcccccCCCCccceEEEeccchH
Confidence 99999999999985 445 568888887643
No 80
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.65 E-value=7.5e-05 Score=84.78 Aligned_cols=75 Identities=21% Similarity=0.401 Sum_probs=63.1
Q ss_pred HhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEeecC-CccccccccCcCCC
Q 003956 131 EYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRACFGT-TKYCHAWIRNMPCS 209 (784)
Q Consensus 131 EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRASfGT-TKYCs~FLRn~~C~ 209 (784)
|-.++||+|..|.|.+.- -|++||.|.+.+.|..|+.+|||.++.||.|.|.|=+ +.|-+.|..-..
T Consensus 472 Eec~k~g~v~hi~vd~ns----------~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~~~~Y~~~FP~~~~-- 539 (549)
T KOG0147|consen 472 EECGKHGKVCHIFVDKNS----------AGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLPLERYHSKFPDSKA-- 539 (549)
T ss_pred HHHHhcCCeeEEEEccCC----------CceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEeehhhhhhhCCCccc--
Confidence 667999999999998642 2579999999999999999999999999999999954 468888875443
Q ss_pred CCCcccccCC
Q 003956 210 VPDCLYLHDF 219 (784)
Q Consensus 210 N~dCmYLHE~ 219 (784)
.|+|+|-.
T Consensus 540 --~~~~~~~~ 547 (549)
T KOG0147|consen 540 --APLLFHTN 547 (549)
T ss_pred --ceeeeecc
Confidence 78888753
No 81
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.57 E-value=9.1e-05 Score=79.95 Aligned_cols=83 Identities=23% Similarity=0.355 Sum_probs=67.2
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
..|||+|||..++++++. +||.|||+|..+++..++... .+++++||+|.+.+...++. ...-..|.|+.+
T Consensus 98 kkiFvGG~~~~~~e~~~r---~yfe~~g~v~~~~~~~d~~~~-----~~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~v 168 (311)
T KOG4205|consen 98 KKIFVGGLPPDTTEEDFK---DYFEQFGKVADVVIMYDKTTS-----RPRGFGFVTFDSEDSVDKVT-LQKFHDFNGKKV 168 (311)
T ss_pred eEEEecCcCCCCchHHHh---hhhhccceeEeeEEeeccccc-----ccccceeeEeccccccceec-ccceeeecCcee
Confidence 469999999999887764 899999999999998887643 25888999999977666654 457788999999
Q ss_pred EEeecCCccccc
Q 003956 190 RACFGTTKYCHA 201 (784)
Q Consensus 190 RASfGTTKYCs~ 201 (784)
.|--++.|--..
T Consensus 169 evkrA~pk~~~~ 180 (311)
T KOG4205|consen 169 EVKRAIPKEVMQ 180 (311)
T ss_pred eEeeccchhhcc
Confidence 998887765544
No 82
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.57 E-value=3.1e-05 Score=80.31 Aligned_cols=73 Identities=21% Similarity=0.261 Sum_probs=64.8
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
+|||++|-..++ ||||- |+|-|-|.|+||.|...+.+. +. +|||.|.++-.-.-||+.+||..+.|+.|+
T Consensus 11 tl~v~n~~~~v~-eelL~--ElfiqaGPV~kv~ip~~~d~~------~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q 80 (267)
T KOG4454|consen 11 TLLVQNMYSGVS-EELLS--ELFIQAGPVYKVGIPSGQDQE------QK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQ 80 (267)
T ss_pred HHHHHhhhhhhh-HHHHH--HHhhccCceEEEeCCCCccCC------Cc-eeeeecccccchhhhhhhcccchhccchhh
Confidence 579999999996 56775 999999999999998877653 24 799999999999999999999999999999
Q ss_pred Eee
Q 003956 191 ACF 193 (784)
Q Consensus 191 ASf 193 (784)
+.+
T Consensus 81 ~~~ 83 (267)
T KOG4454|consen 81 RTL 83 (267)
T ss_pred ccc
Confidence 876
No 83
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.56 E-value=3.8e-05 Score=80.70 Aligned_cols=79 Identities=22% Similarity=0.498 Sum_probs=66.3
Q ss_pred ccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEeecCC-----ccccccccCcCC
Q 003956 134 GQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRACFGTT-----KYCHAWIRNMPC 208 (784)
Q Consensus 134 GQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRASfGTT-----KYCs~FLRn~~C 208 (784)
-+||+|.+++|-.+..- .-.+-|||.|...|+|++|++.|||..+.|++|.|.|..- --|..|-++ .|
T Consensus 91 ~kygEiee~~Vc~Nl~~------hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~rea~C~~~e~~-~C 163 (260)
T KOG2202|consen 91 DKYGEIEELNVCDNLGD------HLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFREAICGQFERT-EC 163 (260)
T ss_pred HHhhhhhhhhhhcccch------hhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchhhhhhcccccc-cC
Confidence 39999999988654321 1355699999999999999999999999999999999632 368889999 88
Q ss_pred CC-CCcccccCC
Q 003956 209 SV-PDCLYLHDF 219 (784)
Q Consensus 209 ~N-~dCmYLHE~ 219 (784)
.- ..|-|+|-.
T Consensus 164 ~rG~~CnFmH~k 175 (260)
T KOG2202|consen 164 SRGGACNFMHVK 175 (260)
T ss_pred CCCCcCcchhhh
Confidence 87 699999977
No 84
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.55 E-value=6.2e-05 Score=87.41 Aligned_cols=78 Identities=14% Similarity=0.310 Sum_probs=68.2
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
+.|.|.|||...+..++. ++|+.||.|..|.|.+. .+.. ..+|++||+|-++.+|.+|+.+|.++.|.||.|
T Consensus 614 tKIlVRNipFeAt~rEVr---~LF~aFGqlksvRlPKK-~~k~----a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrL 685 (725)
T KOG0110|consen 614 TKILVRNIPFEATKREVR---KLFTAFGQLKSVRLPKK-IGKG----AHRGFGFVDFLTPREAKNAFDALGSTHLYGRRL 685 (725)
T ss_pred ceeeeeccchHHHHHHHH---HHHhcccceeeeccchh-hcch----hhccceeeeccCcHHHHHHHHhhcccceechhh
Confidence 579999999999988886 69999999999999876 2222 247889999999999999999999999999999
Q ss_pred EEeecC
Q 003956 190 RACFGT 195 (784)
Q Consensus 190 RASfGT 195 (784)
...|+.
T Consensus 686 VLEwA~ 691 (725)
T KOG0110|consen 686 VLEWAK 691 (725)
T ss_pred heehhc
Confidence 988864
No 85
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.52 E-value=0.00024 Score=78.83 Aligned_cols=103 Identities=23% Similarity=0.281 Sum_probs=78.2
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
..+|.|.+|.+..-..|.| +.+||-||.|.+|.|..++. -.|.|.|.+...|..|+..|+|..+.|++
T Consensus 297 n~vllvsnln~~~VT~d~L--ftlFgvYGdVqRVkil~nkk----------d~ALIQmsd~~qAqLA~~hL~g~~l~gk~ 364 (492)
T KOG1190|consen 297 NVVLLVSNLNEEAVTPDVL--FTLFGVYGDVQRVKILYNKK----------DNALIQMSDGQQAQLAMEHLEGHKLYGKK 364 (492)
T ss_pred ceEEEEecCchhccchhHH--HHHHhhhcceEEEEeeecCC----------cceeeeecchhHHHHHHHHhhcceecCce
Confidence 6789999998774445555 37999999999999987653 24999999999999999999999999999
Q ss_pred EEEeecCCccccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhhch
Q 003956 189 LRACFGTTKYCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFTRS 238 (784)
Q Consensus 189 LRASfGTTKYCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~tr~ 238 (784)
||+.|.. +-.. -+-..|.++.-+||+...+-.+|+
T Consensus 365 lrvt~SK--H~~v-------------qlp~egq~d~glT~dy~~spLhrf 399 (492)
T KOG1190|consen 365 LRVTLSK--HTNV-------------QLPREGQEDQGLTKDYGNSPLHRF 399 (492)
T ss_pred EEEeecc--Cccc-------------cCCCCCCccccccccCCCCchhhc
Confidence 9999852 2211 122334555567777766666653
No 86
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=97.48 E-value=0.00018 Score=80.46 Aligned_cols=79 Identities=19% Similarity=0.401 Sum_probs=64.0
Q ss_pred EEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEE
Q 003956 112 VYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRA 191 (784)
Q Consensus 112 VYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRA 191 (784)
|||.+||.+++..+ |+ +.|.+||.|++..|.....+.. .+ ++|||+|.+.+++..||++- =..++||.|.|
T Consensus 291 i~V~nlP~da~~~~-l~--~~Fk~FG~Ik~~~I~vr~~~~~----~~-~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~V 361 (419)
T KOG0116|consen 291 IFVKNLPPDATPAE-LE--EVFKQFGPIKEGGIQVRSPGGK----NP-CFGFVEFENAAAVQNAIEAS-PLEIGGRKLNV 361 (419)
T ss_pred eEeecCCCCCCHHH-HH--HHHhhcccccccceEEeccCCC----cC-ceEEEEEeecchhhhhhhcC-ccccCCeeEEE
Confidence 99999999999776 54 8999999999998875442221 23 89999999999999999995 67889999999
Q ss_pred eecCCccc
Q 003956 192 CFGTTKYC 199 (784)
Q Consensus 192 SfGTTKYC 199 (784)
.--.+.|-
T Consensus 362 eek~~~~~ 369 (419)
T KOG0116|consen 362 EEKRPGFR 369 (419)
T ss_pred Eecccccc
Confidence 86444443
No 87
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=97.42 E-value=7.5e-05 Score=59.52 Aligned_cols=48 Identities=31% Similarity=0.854 Sum_probs=37.0
Q ss_pred cCCCCCCcccCCCccCCCccccCCCCh-hhhhhHHHHHHhhhccCCCCCCccccccccc
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPCNCGYE-ICVWCWNHIMEMAEKDGTEGRCPACRTAYDK 62 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC~CGYQ-IC~fC~~~I~~~~~k~~~~grCPACRr~Yde 62 (784)
|+..|++|.+.. .|..|.| ||+. +|..|+.+++. ...+||-||+++.+
T Consensus 1 ~~~~C~iC~~~~--~~~~~~p--CgH~~~C~~C~~~~~~------~~~~CP~Cr~~i~~ 49 (50)
T PF13920_consen 1 EDEECPICFENP--RDVVLLP--CGHLCFCEECAERLLK------RKKKCPICRQPIES 49 (50)
T ss_dssp -HSB-TTTSSSB--SSEEEET--TCEEEEEHHHHHHHHH------TTSBBTTTTBB-SE
T ss_pred CcCCCccCCccC--CceEEeC--CCChHHHHHHhHHhcc------cCCCCCcCChhhcC
Confidence 467899999985 4555665 6999 99999999974 57899999998753
No 88
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.42 E-value=0.00037 Score=77.95 Aligned_cols=79 Identities=20% Similarity=0.410 Sum_probs=67.9
Q ss_pred ccccCe-EEEeCCCCCCChHHHHHHHHhh-ccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCc
Q 003956 106 VIQRNL-VYIIGLPINLADEDLLQRKEYF-GQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYI 183 (784)
Q Consensus 106 VIQRNL-VYV~GLP~~IAeEDLLR~~EyF-GQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~ 183 (784)
|-.|+. |||.|||+++.=.+|. ++| .+-|+|.-|.+..+..++ ++++|-|.|.++|.+++|++.||-+.
T Consensus 40 ~~~r~R~vfItNIpyd~rWqdLK---dLvrekvGev~yveLl~D~~GK------~rGcavVEFk~~E~~qKa~E~lnk~~ 110 (608)
T KOG4212|consen 40 VAARDRSVFITNIPYDYRWQDLK---DLVREKVGEVEYVELLFDESGK------ARGCAVVEFKDPENVQKALEKLNKYE 110 (608)
T ss_pred cccccceEEEecCcchhhhHhHH---HHHHHhcCceEeeeeecccCCC------cCCceEEEeeCHHHHHHHHHHhhhcc
Confidence 334554 9999999999877764 566 789999999999888876 47889999999999999999999999
Q ss_pred cCCceEEEee
Q 003956 184 LDGRPLRACF 193 (784)
Q Consensus 184 LdGRvLRASf 193 (784)
+.||.|+|--
T Consensus 111 ~~GR~l~vKE 120 (608)
T KOG4212|consen 111 VNGRELVVKE 120 (608)
T ss_pred ccCceEEEec
Confidence 9999998753
No 89
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=97.41 E-value=0.00068 Score=61.73 Aligned_cols=71 Identities=23% Similarity=0.373 Sum_probs=47.8
Q ss_pred CeEEEeCCCCCCChHHHHHH-HHhhccC-CceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 110 NLVYIIGLPINLADEDLLQR-KEYFGQY-GKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~-~EyFGQY-GKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
++|||.|||.......+..+ ..++.-+ |||+.|. ++.|+|.|.+.|.|.+|.+-|+|..+.|+
T Consensus 3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~---------------~~tAilrF~~~~~A~RA~KRmegEdVfG~ 67 (90)
T PF11608_consen 3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS---------------GGTAILRFPNQEFAERAQKRMEGEDVFGN 67 (90)
T ss_dssp EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-----------------TT-EEEEESSHHHHHHHHHHHTT--SSSS
T ss_pred cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe---------------CCEEEEEeCCHHHHHHHHHhhcccccccc
Confidence 58999999999876655322 4677666 5777762 23699999999999999999999999999
Q ss_pred eEEEeecC
Q 003956 188 PLRACFGT 195 (784)
Q Consensus 188 vLRASfGT 195 (784)
.|.++|..
T Consensus 68 kI~v~~~~ 75 (90)
T PF11608_consen 68 KISVSFSP 75 (90)
T ss_dssp --EEESS-
T ss_pred eEEEEEcC
Confidence 99999853
No 90
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.38 E-value=0.00012 Score=75.55 Aligned_cols=71 Identities=23% Similarity=0.366 Sum_probs=63.3
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.|||+.||+...+++|- ++|-.||+|..|.|. .+++||.|.+.-||..||..+||.+|.|-.+.
T Consensus 3 rv~vg~~~~~~~~~d~E---~~f~~yg~~~d~~mk-------------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~v 66 (216)
T KOG0106|consen 3 RVYIGRLPYRARERDVE---RFFKGYGKIPDADMK-------------NGFGFVEFEDPRDADDAVHDLDGKELCGERLV 66 (216)
T ss_pred ceeecccCCccchhHHH---HHHhhccccccceee-------------cccceeccCchhhhhcccchhcCceecceeee
Confidence 48999999999999987 599999999998875 22579999999999999999999999998899
Q ss_pred EeecCCc
Q 003956 191 ACFGTTK 197 (784)
Q Consensus 191 ASfGTTK 197 (784)
+.|++-+
T Consensus 67 ve~~r~~ 73 (216)
T KOG0106|consen 67 VEHARGK 73 (216)
T ss_pred eeccccc
Confidence 9987754
No 91
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.26 E-value=0.00051 Score=76.87 Aligned_cols=73 Identities=23% Similarity=0.425 Sum_probs=61.5
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
+-..|+|.|||..++= .+|| +-|-.||.|+-..|... ++ .. +-|.|.++++|++|+..|||..|+||
T Consensus 535 Ka~qIiirNlP~dfTW-qmlr--DKfre~G~v~yadime~--Gk------sk--GVVrF~s~edAEra~a~Mngs~l~Gr 601 (608)
T KOG4212|consen 535 KACQIIIRNLPFDFTW-QMLR--DKFREIGHVLYADIMEN--GK------SK--GVVRFFSPEDAERACALMNGSRLDGR 601 (608)
T ss_pred cccEEEEecCCccccH-HHHH--HHHHhccceehhhhhcc--CC------cc--ceEEecCHHHHHHHHHHhccCcccCc
Confidence 4467999999999986 4666 89999999998888432 22 12 38999999999999999999999999
Q ss_pred eEEEee
Q 003956 188 PLRACF 193 (784)
Q Consensus 188 vLRASf 193 (784)
.|+|.|
T Consensus 602 ~I~V~y 607 (608)
T KOG4212|consen 602 NIKVTY 607 (608)
T ss_pred eeeeee
Confidence 999987
No 92
>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=97.16 E-value=0.00035 Score=64.48 Aligned_cols=77 Identities=22% Similarity=0.387 Sum_probs=50.7
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEE-EeecCCCCcc-cCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVS-ISRTATGDIQ-HSANNSCCVYITYSREDDAIRCIQSVHSYILDG 186 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIv-Inrdk~g~~q-~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdG 186 (784)
..-|.|-|.|+..+ ..+| ++|++||.|++.. +.++..+... +.+..+.-..|+|.++.+|.+|++. ||..+.|
T Consensus 6 ~~wVtVFGfp~~~~-~~Vl---~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~-NG~i~~g 80 (100)
T PF05172_consen 6 ETWVTVFGFPPSAS-NQVL---RHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK-NGTIFSG 80 (100)
T ss_dssp CCEEEEE---GGGH-HHHH---HHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT-TTEEETT
T ss_pred CeEEEEEccCHHHH-HHHH---HHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh-CCeEEcC
Confidence 45699999999975 4678 5999999999875 2222111100 1223355799999999999999987 9999999
Q ss_pred ceEE
Q 003956 187 RPLR 190 (784)
Q Consensus 187 RvLR 190 (784)
..|-
T Consensus 81 ~~mv 84 (100)
T PF05172_consen 81 SLMV 84 (100)
T ss_dssp CEEE
T ss_pred cEEE
Confidence 7653
No 93
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.08 E-value=0.0011 Score=75.63 Aligned_cols=67 Identities=18% Similarity=0.394 Sum_probs=55.3
Q ss_pred HHhhccCCceEEEEEeec-CCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEee-cCCccc
Q 003956 130 KEYFGQYGKVLKVSISRT-ATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRACF-GTTKYC 199 (784)
Q Consensus 130 ~EyFGQYGKI~KIvInrd-k~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRASf-GTTKYC 199 (784)
+.-+++||.|..|.|.+. .... ..+ ..|.+||.|++.+++++|.++|.|..+.||++.++| ...||=
T Consensus 427 r~ec~k~g~v~~v~ipr~~~~~~--~~~-G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYydeDkY~ 495 (500)
T KOG0120|consen 427 RTECAKFGAVRSVEIPRPYPDEN--PVP-GTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYDEDKYH 495 (500)
T ss_pred HHHhcccCceeEEecCCCCCCCC--cCC-CcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecCHHHhh
Confidence 467999999999999987 3322 122 356799999999999999999999999999999997 566664
No 94
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=97.08 E-value=0.00062 Score=74.39 Aligned_cols=97 Identities=13% Similarity=0.178 Sum_probs=82.7
Q ss_pred ccccCeEEEeCCCCCCChHHHHHHHHhhccCCceE--------EEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHH
Q 003956 106 VIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVL--------KVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQ 177 (784)
Q Consensus 106 VIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~--------KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~ 177 (784)
+.++..|||-+||..+++.++. ++|.|-|.|. +|.|-+++.+. .+.+-|-|+|.+.--|+.||.
T Consensus 63 ~s~~~ti~v~g~~d~~~~~~~~---~~f~qcg~ikrnK~t~kPki~~y~dkeT~-----~~KGeatvS~~D~~~akaai~ 134 (351)
T KOG1995|consen 63 KSDNETIFVWGCPDSVCENDNA---DFFLQCGVIKRNKRTGKPKIKIYTDKETG-----APKGEATVSYEDPPAAKAAIE 134 (351)
T ss_pred ccccccceeeccCccchHHHHH---HHHhhcceeccCCCCCCcchhcccccccc-----CcCCceeeeecChhhhhhhhh
Confidence 7889999999999999987765 7999999996 45565555432 357789999999999999999
Q ss_pred HhCCCccCCceEEEeecCCccccccccCcCCCC
Q 003956 178 SVHSYILDGRPLRACFGTTKYCHAWIRNMPCSV 210 (784)
Q Consensus 178 aLDG~~LdGRvLRASfGTTKYCs~FLRn~~C~N 210 (784)
..++..+.|.+|+|+++.-+--..|+++..|++
T Consensus 135 ~~agkdf~gn~ikvs~a~~r~~ve~~rg~~~~~ 167 (351)
T KOG1995|consen 135 WFAGKDFCGNTIKVSLAERRTGVESVRGGYPND 167 (351)
T ss_pred hhccccccCCCchhhhhhhccCcccccccccCc
Confidence 999999999999999988776678999988665
No 95
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=97.07 E-value=0.00015 Score=56.34 Aligned_cols=44 Identities=27% Similarity=0.733 Sum_probs=34.3
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccc
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACR 57 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACR 57 (784)
++||+|+++|+. +......+||+.+|.-|+...+.. ++.||-||
T Consensus 1 d~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~~------~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLKR------NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHHH------SSB-TTTH
T ss_pred CCCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHHh------CCcCCccC
Confidence 479999999965 556667779999999998887642 46999998
No 96
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.06 E-value=0.0011 Score=69.11 Aligned_cols=82 Identities=10% Similarity=0.186 Sum_probs=70.9
Q ss_pred cccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 003956 107 IQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDG 186 (784)
Q Consensus 107 IQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdG 186 (784)
+.--.|||+++-...+.+++- +.|.-+|.|..|.|..++..+ .+.++|||.|.+.+.+.+|++ |||..+.|
T Consensus 99 ~d~~sv~v~nvd~~~t~~~~e---~hf~~Cg~i~~~ti~~d~~~~-----~~k~~~yvef~~~~~~~~ay~-l~gs~i~~ 169 (231)
T KOG4209|consen 99 VDAPSVWVGNVDFLVTLTKIE---LHFESCGGINRVTVPKDKFRG-----HPKGFAYVEFSSYELVEEAYK-LDGSEIPG 169 (231)
T ss_pred cCCceEEEeccccccccchhh---heeeccCCccceeeeccccCC-----CcceeEEEecccHhhhHHHhh-cCCccccc
Confidence 345679999999998888843 799999999999998777643 258899999999999999999 99999999
Q ss_pred ceEEEeecCCc
Q 003956 187 RPLRACFGTTK 197 (784)
Q Consensus 187 RvLRASfGTTK 197 (784)
+.+.+++-.+.
T Consensus 170 ~~i~vt~~r~~ 180 (231)
T KOG4209|consen 170 PAIEVTLKRTN 180 (231)
T ss_pred ccceeeeeeee
Confidence 99999986665
No 97
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.03 E-value=0.00076 Score=72.56 Aligned_cols=66 Identities=27% Similarity=0.537 Sum_probs=53.0
Q ss_pred HHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEee-cCCccc
Q 003956 130 KEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRACF-GTTKYC 199 (784)
Q Consensus 130 ~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRASf-GTTKYC 199 (784)
.|-.++||+|.+|+|-.... +.. ..-...||.|.+.++|.+|+-.|||..+.||+++|+| ...||-
T Consensus 304 keEceKyg~V~~viifeip~---~p~-deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn~ekfs 370 (378)
T KOG1996|consen 304 KEECEKYGKVGNVIIFEIPS---QPE-DEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYNLEKFS 370 (378)
T ss_pred HHHHHhhcceeeEEEEecCC---Ccc-chhheeeeeeccHHHHHHHHHhcCCceecceeeeheeccHHhhh
Confidence 48899999999999865532 111 1345689999999999999999999999999999997 444554
No 98
>PLN02189 cellulose synthase
Probab=96.94 E-value=0.0004 Score=84.23 Aligned_cols=50 Identities=28% Similarity=0.891 Sum_probs=43.5
Q ss_pred CCCCCcccCCC--ccCCCccccC-CCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 7 KTCPLCAEEMD--LTDQQLKPCN-CGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 7 ~~CPLC~EelD--~tD~~f~PC~-CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
..|.+|-++++ .+...|..|. |||.+|+.||...+ .+.+..||.|++.|.
T Consensus 35 ~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyeyer-----~eg~q~CpqCkt~Y~ 87 (1040)
T PLN02189 35 QVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEYER-----REGTQNCPQCKTRYK 87 (1040)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhh-----hcCCccCcccCCchh
Confidence 48999999986 5556789997 99999999998775 468899999999997
No 99
>TIGR00570 cdk7 CDK-activating kinase assembly factor MAT1. All proteins in this family for which functions are known are cyclin dependent protein kinases that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. Also known as MAT1 (menage a trois 1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.93 E-value=0.0015 Score=70.80 Aligned_cols=55 Identities=24% Similarity=0.588 Sum_probs=41.2
Q ss_pred CCCCCCcccCCC-ccCC-CccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchh
Q 003956 6 EKTCPLCAEEMD-LTDQ-QLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIV 66 (784)
Q Consensus 6 d~~CPLC~EelD-~tD~-~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~ 66 (784)
+..||+|...-= -.+. .+.- +||+.+|.-|..+|.. ...+.||.|++++....+.
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~-----~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFV-----RGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhc-----CCCCCCCCCCCccchhhcc
Confidence 468999998531 2332 3444 9999999999999963 3467999999999887653
No 100
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=96.81 E-value=0.0012 Score=48.70 Aligned_cols=44 Identities=32% Similarity=0.828 Sum_probs=33.4
Q ss_pred CCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccc
Q 003956 8 TCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTA 59 (784)
Q Consensus 8 ~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~ 59 (784)
.|++|.+.+ . ..+..-+||+.+|.-|+....+. ...+||.||++
T Consensus 1 ~C~iC~~~~--~-~~~~~~~C~H~~c~~C~~~~~~~-----~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEF--R-EPVVLLPCGHVFCRSCIDKWLKS-----GKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhh--h-CceEecCCCChhcHHHHHHHHHh-----CcCCCCCCCCc
Confidence 599999998 2 22333359999999999988642 46789999985
No 101
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.77 E-value=0.0023 Score=52.54 Aligned_cols=52 Identities=25% Similarity=0.645 Sum_probs=42.3
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHH
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCI 176 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI 176 (784)
.-|=|.|.++... +++| ++|.+||+|.++.+... +-.+||+|.+..+|++|+
T Consensus 2 ~wI~V~Gf~~~~~-~~vl---~~F~~fGeI~~~~~~~~-----------~~~~~l~y~~~~~ae~Al 53 (53)
T PF14605_consen 2 TWISVSGFPPDLA-EEVL---EHFASFGEIVDIYVPES-----------TNWMYLKYKSRKDAEKAL 53 (53)
T ss_pred cEEEEEeECchHH-HHHH---HHHHhcCCEEEEEcCCC-----------CcEEEEEECCHHHHHhhC
Confidence 4578999999886 5677 49999999999887721 236999999999999984
No 102
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=96.74 E-value=0.006 Score=64.05 Aligned_cols=80 Identities=15% Similarity=0.324 Sum_probs=56.8
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC---C
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD---G 186 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld---G 186 (784)
+++||.|||.++.-.||. -+|-.|---.--.+..+..+ .| +. ...|||||.+..+|..|+.+|||..+| |
T Consensus 35 RTLFVSGLP~DvKpREiy---nLFR~f~GYEgslLK~Tsk~-~~--~~-~pvaFatF~s~q~A~aamnaLNGvrFDpE~~ 107 (284)
T KOG1457|consen 35 RTLFVSGLPNDVKPREIY---NLFRRFHGYEGSLLKYTSKG-DQ--VC-KPVAFATFTSHQFALAAMNALNGVRFDPETG 107 (284)
T ss_pred ceeeeccCCcccCHHHHH---HHhccCCCccceeeeeccCC-Cc--cc-cceEEEEecchHHHHHHHHHhcCeeeccccC
Confidence 578999999999988885 36655422222222212111 11 12 357999999999999999999999986 7
Q ss_pred ceEEEeecCC
Q 003956 187 RPLRACFGTT 196 (784)
Q Consensus 187 RvLRASfGTT 196 (784)
.+|++.++..
T Consensus 108 stLhiElAKS 117 (284)
T KOG1457|consen 108 STLHIELAKS 117 (284)
T ss_pred ceeEeeehhc
Confidence 8899998754
No 103
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.60 E-value=0.002 Score=65.90 Aligned_cols=59 Identities=19% Similarity=0.548 Sum_probs=42.0
Q ss_pred cCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhh----------ccCCCCCCccccccccccchhc
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAE----------KDGTEGRCPACRTAYDKEKIVG 67 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~----------k~~~~grCPACRr~Ydee~i~~ 67 (784)
++.+||+|.+.+ +|... -+||+..|+-|..+...... ......+||-||+++....+..
T Consensus 17 ~~~~CpICld~~--~dPVv--T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~LvP 85 (193)
T PLN03208 17 GDFDCNICLDQV--RDPVV--TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLVP 85 (193)
T ss_pred CccCCccCCCcC--CCcEE--cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEEE
Confidence 457999999987 45544 36999999999887653210 0123568999999998877653
No 104
>PLN02436 cellulose synthase A
Probab=96.57 E-value=0.0011 Score=80.86 Aligned_cols=49 Identities=29% Similarity=0.892 Sum_probs=42.7
Q ss_pred CCCCcccCC--CccCCCccccC-CCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 8 TCPLCAEEM--DLTDQQLKPCN-CGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 8 ~CPLC~Eel--D~tD~~f~PC~-CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
+|.+|-+++ +.+-..|..|. |||.+|+.||...+ .+.+..||.|++.|.
T Consensus 38 iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer-----~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 38 TCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYER-----REGNQACPQCKTRYK 89 (1094)
T ss_pred cccccccccCcCCCCCEEEeeccCCCccccchhhhhh-----hcCCccCcccCCchh
Confidence 899999998 44556799995 99999999998775 468899999999998
No 105
>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=96.43 E-value=0.0074 Score=55.82 Aligned_cols=58 Identities=24% Similarity=0.403 Sum_probs=37.1
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCC
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSY 182 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~ 182 (784)
+|+|.|+...++-++|. +.|.+||.|.-|.+.+.. -.|||.|.+.+.|.+|+..+.-.
T Consensus 3 il~~~g~~~~~~re~iK---~~f~~~g~V~yVD~~~G~-----------~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIK---EAFSQFGEVAYVDFSRGD-----------TEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp EEEEEE--SS--HHHHH---HHT-SS--EEEEE--TT------------SEEEEEESS---HHHHHHHHHHT
T ss_pred EEEEecCCCCcCHHHHH---HHHHhcCCcceEEecCCC-----------CEEEEEECCcchHHHHHHHHHhc
Confidence 68999999999977764 899999999988776432 25999999999999999987655
No 106
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=96.39 E-value=0.0057 Score=70.42 Aligned_cols=78 Identities=18% Similarity=0.338 Sum_probs=59.8
Q ss_pred cCeEEEeCCCCCCC-hHHHHHH--HHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 003956 109 RNLVYIIGLPINLA-DEDLLQR--KEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD 185 (784)
Q Consensus 109 RNLVYV~GLP~~IA-eEDLLR~--~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld 185 (784)
.+.|+|-|+|---. .-+.||. ..+|.+||+|.++.+..+..|+ ..|++|+.|.+..+|..|++.+||+.|+
T Consensus 58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg------tkG~lf~E~~~~~~A~~aVK~l~G~~ld 131 (698)
T KOG2314|consen 58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG------TKGYLFVEYASMRDAKKAVKSLNGKRLD 131 (698)
T ss_pred ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC------eeeEEEEEecChhhHHHHHHhcccceec
Confidence 46788888874322 2233443 6899999999999998776654 3678999999999999999999999987
Q ss_pred C-ceEEEe
Q 003956 186 G-RPLRAC 192 (784)
Q Consensus 186 G-RvLRAS 192 (784)
- ..+.|.
T Consensus 132 knHtf~v~ 139 (698)
T KOG2314|consen 132 KNHTFFVR 139 (698)
T ss_pred ccceEEee
Confidence 4 445443
No 107
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.36 E-value=0.0031 Score=66.21 Aligned_cols=51 Identities=25% Similarity=0.598 Sum_probs=38.3
Q ss_pred cCCCCCCcccCCCccCC----CccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 5 AEKTCPLCAEEMDLTDQ----QLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~----~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
.+.+||+|+|++..... --...+||+..|.-|...-++ ....||-||+++.
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~------~~~tCPlCR~~~~ 227 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK------EKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh------cCCCCCCCCCEee
Confidence 46899999999753321 124568999999999877653 4678999999765
No 108
>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=96.35 E-value=0.029 Score=51.81 Aligned_cols=82 Identities=18% Similarity=0.237 Sum_probs=63.7
Q ss_pred cCeEEEeCCCCCCChHHHHHH-HHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC--
Q 003956 109 RNLVYIIGLPINLADEDLLQR-KEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD-- 185 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~-~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld-- 185 (784)
|.+|-|.|||-+++.++|+.- .+.| .|+.-=+.+..+.... ...|+|||.|.+.+.|.+=.+..+|..+.
T Consensus 1 RTTvMirNIPn~~t~~~L~~~l~~~~--~g~yDF~YLPiDf~~~-----~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~ 73 (97)
T PF04059_consen 1 RTTVMIRNIPNKYTQEMLIQILDEHF--KGKYDFFYLPIDFKNK-----CNLGYAFVNFTSPQAAIRFYKAFNGKKWPNF 73 (97)
T ss_pred CeeEEEecCCCCCCHHHHHHHHHHhc--cCcceEEEeeeeccCC-----CceEEEEEEcCCHHHHHHHHHHHcCCccccC
Confidence 578999999999999887653 3344 3666667777665433 35889999999999999999999999885
Q ss_pred --CceEEEeecCCc
Q 003956 186 --GRPLRACFGTTK 197 (784)
Q Consensus 186 --GRvLRASfGTTK 197 (784)
.++..++||...
T Consensus 74 ~s~Kvc~i~yAriQ 87 (97)
T PF04059_consen 74 NSKKVCEISYARIQ 87 (97)
T ss_pred CCCcEEEEehhHhh
Confidence 567777877654
No 109
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.08 E-value=0.039 Score=62.97 Aligned_cols=76 Identities=17% Similarity=0.343 Sum_probs=61.2
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.|-+.||||..+++||| ++|+-- .|..+++.++.. + +++-|||.|.+.||+.+|++. |-..+..|.|.
T Consensus 12 ~vr~rGLPwsat~~ei~---~Ff~~~-~I~~~~~~r~~G-r------~sGeA~Ve~~seedv~~Alkk-dR~~mg~RYIE 79 (510)
T KOG4211|consen 12 EVRLRGLPWSATEKEIL---DFFSNC-GIENLEIPRRNG-R------PSGEAYVEFTSEEDVEKALKK-DRESMGHRYIE 79 (510)
T ss_pred EEEecCCCccccHHHHH---HHHhcC-ceeEEEEeccCC-C------cCcceEEEeechHHHHHHHHh-hHHHhCCceEE
Confidence 46678999999999999 699887 477777776632 2 467899999999999999886 88888889998
Q ss_pred EeecCCcc
Q 003956 191 ACFGTTKY 198 (784)
Q Consensus 191 ASfGTTKY 198 (784)
|--++.+-
T Consensus 80 Vf~~~~~e 87 (510)
T KOG4211|consen 80 VFTAGGAE 87 (510)
T ss_pred EEccCCcc
Confidence 87664443
No 110
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=95.89 E-value=0.0055 Score=65.10 Aligned_cols=74 Identities=18% Similarity=0.293 Sum_probs=58.3
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCC---------CcccCCCCCc-EEEEEeCCHHHHHHHHHH
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATG---------DIQHSANNSC-CVYITYSREDDAIRCIQS 178 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g---------~~q~~~~~rg-sAYVTFs~kEDA~kAI~a 178 (784)
...||+++||+.+.-..| | ++|++||+|=.|.+-..... ++ ....+ -++|.|.++..|.++...
T Consensus 74 ~GVvylS~IPp~m~~~rl-R--eil~~yGeVGRvylqpE~~s~~~~r~~~~~n---~~~~y~EGWvEF~~KrvAK~iAe~ 147 (278)
T KOG3152|consen 74 TGVVYLSNIPPYMDPVRL-R--EILSQYGEVGRVYLQPEDDSKRAARKRKGGN---YKKLYSEGWVEFISKRVAKRIAEL 147 (278)
T ss_pred ceEEEeccCCCccCHHHH-H--HHHHhccccceEEecchhhHHHHHHhhcCCC---ccccchhHHHHHHHHHHHHHHHHH
Confidence 478999999999986554 3 89999999999999644321 11 01111 379999999999999999
Q ss_pred hCCCccCCce
Q 003956 179 VHSYILDGRP 188 (784)
Q Consensus 179 LDG~~LdGRv 188 (784)
|||.+|.|+.
T Consensus 148 Lnn~~Iggkk 157 (278)
T KOG3152|consen 148 LNNTPIGGKK 157 (278)
T ss_pred hCCCccCCCC
Confidence 9999999975
No 111
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=95.52 E-value=0.01 Score=67.98 Aligned_cols=81 Identities=15% Similarity=0.298 Sum_probs=68.4
Q ss_pred ccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 003956 106 VIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD 185 (784)
Q Consensus 106 VIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld 185 (784)
.++.+.+||+|||..+.+..++ |..+-||.+.-..+.++.... +..++||-.|.+.-.+..||..|||..+.
T Consensus 286 ~~~~~ki~v~~lp~~l~~~q~~---Ell~~fg~lk~f~lv~d~~~g-----~skg~af~ey~dpsvtd~A~agLnGm~lg 357 (500)
T KOG0120|consen 286 PDSPNKIFVGGLPLYLTEDQVK---ELLDSFGPLKAFRLVKDSATG-----NSKGFAFCEYCDPSVTDQAIAGLNGMQLG 357 (500)
T ss_pred ccccchhhhccCcCccCHHHHH---HHHHhcccchhheeecccccc-----cccceeeeeeeCCcchhhhhcccchhhhc
Confidence 4567899999999999887765 788888888877776655432 34778999999999999999999999999
Q ss_pred CceEEEeec
Q 003956 186 GRPLRACFG 194 (784)
Q Consensus 186 GRvLRASfG 194 (784)
+++|.|..+
T Consensus 358 d~~lvvq~A 366 (500)
T KOG0120|consen 358 DKKLVVQRA 366 (500)
T ss_pred CceeEeehh
Confidence 999998875
No 112
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=95.49 E-value=0.013 Score=47.66 Aligned_cols=50 Identities=20% Similarity=0.287 Sum_probs=38.2
Q ss_pred CCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
+..||+|.+.|+ |.-.. +||+-+|+-|....+. + ++.||-|++++..+.+
T Consensus 1 ~~~Cpi~~~~~~--~Pv~~--~~G~v~~~~~i~~~~~---~---~~~cP~~~~~~~~~~l 50 (63)
T smart00504 1 EFLCPISLEVMK--DPVIL--PSGQTYERRAIEKWLL---S---HGTDPVTGQPLTHEDL 50 (63)
T ss_pred CcCCcCCCCcCC--CCEEC--CCCCEEeHHHHHHHHH---H---CCCCCCCcCCCChhhc
Confidence 357999999985 44443 6799988888887763 2 6899999999866554
No 113
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=95.48 E-value=0.014 Score=45.71 Aligned_cols=44 Identities=27% Similarity=0.785 Sum_probs=36.4
Q ss_pred CCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 8 TCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 8 ~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
.|++|.+++ ..+..++-=.||+.+|.-|...+. .....||.||+
T Consensus 1 ~C~~C~~~~-~~~~~~~l~~CgH~~C~~C~~~~~------~~~~~CP~C~k 44 (44)
T PF14634_consen 1 HCNICFEKY-SEERRPRLTSCGHIFCEKCLKKLK------GKSVKCPICRK 44 (44)
T ss_pred CCcCcCccc-cCCCCeEEcccCCHHHHHHHHhhc------CCCCCCcCCCC
Confidence 499999999 334457788999999999999984 35789999996
No 114
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=95.42 E-value=0.0085 Score=45.70 Aligned_cols=39 Identities=31% Similarity=0.895 Sum_probs=29.7
Q ss_pred CCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccc
Q 003956 9 CPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPAC 56 (784)
Q Consensus 9 CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPAC 56 (784)
||+|++.+.. .+.--+||+-+|.-||.+.++ . +.+||.|
T Consensus 1 C~iC~~~~~~---~~~~~~CGH~fC~~C~~~~~~-----~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELRD---PVVVTPCGHSFCKECIEKYLE-----K-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-SS---EEEECTTSEEEEHHHHHHHHH-----C-TSB-TTT
T ss_pred CCCCCCcccC---cCEECCCCCchhHHHHHHHHH-----C-cCCCcCC
Confidence 8999998743 445578999999999999874 2 5899987
No 115
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=95.39 E-value=0.0078 Score=58.28 Aligned_cols=48 Identities=31% Similarity=0.657 Sum_probs=39.3
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 4 KAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
+++..||+|++.|... .--+||+-+|..|...+.+ ..-+||.||.+|.
T Consensus 11 ~~~~~C~iC~~~~~~p----~~l~C~H~~c~~C~~~~~~------~~~~Cp~cr~~~~ 58 (386)
T KOG2177|consen 11 QEELTCPICLEYFREP----VLLPCGHNFCRACLTRSWE------GPLSCPVCRPPSR 58 (386)
T ss_pred cccccChhhHHHhhcC----ccccccchHhHHHHHHhcC------CCcCCcccCCchh
Confidence 4678999999999765 5567999999999999964 4589999995443
No 116
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.37 E-value=0.11 Score=58.12 Aligned_cols=77 Identities=21% Similarity=0.322 Sum_probs=63.6
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
+-..+-|.||-..--+-|.| ..+|-+||.|.+|..++++.+ .|-|.+.+.++-++||..|||..+.|.
T Consensus 286 ~g~VmMVyGLdh~k~N~drl--FNl~ClYGNV~rvkFmkTk~g----------tamVemgd~~aver~v~hLnn~~lfG~ 353 (494)
T KOG1456|consen 286 PGCVMMVYGLDHGKMNCDRL--FNLFCLYGNVERVKFMKTKPG----------TAMVEMGDAYAVERAVTHLNNIPLFGG 353 (494)
T ss_pred CCcEEEEEeccccccchhhh--hhhhhhcCceeeEEEeecccc----------eeEEEcCcHHHHHHHHHHhccCccccc
Confidence 34568899997654444443 379999999999999988753 499999999999999999999999999
Q ss_pred eEEEeecCC
Q 003956 188 PLRACFGTT 196 (784)
Q Consensus 188 vLRASfGTT 196 (784)
+|.+++..-
T Consensus 354 kl~v~~SkQ 362 (494)
T KOG1456|consen 354 KLNVCVSKQ 362 (494)
T ss_pred eEEEeeccc
Confidence 999987543
No 117
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=95.37 E-value=0.01 Score=63.63 Aligned_cols=85 Identities=18% Similarity=0.312 Sum_probs=70.4
Q ss_pred eEE-EeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 111 LVY-IIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 111 LVY-V~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
++| |++|+..+++++|. ++|+..|.|..|.+.....+. ...++|||.|....++.+|+.. .+..++|+++
T Consensus 186 ~~~~~~~~~f~~~~d~~~---~~~~~~~~i~~~r~~~~~~s~-----~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~ 256 (285)
T KOG4210|consen 186 TIFFVGELDFSLTRDDLK---EHFVSSGEITSVRLPTDEESG-----DSKGFAYVDFSAGNSKKLALND-QTRSIGGRPL 256 (285)
T ss_pred cceeecccccccchHHHh---hhccCcCcceeeccCCCCCcc-----chhhhhhhhhhhchhHHHHhhc-ccCcccCccc
Confidence 456 99999999887765 799999999999998665543 2477899999999999999998 8999999999
Q ss_pred EEeecCCc---ccccccc
Q 003956 190 RACFGTTK---YCHAWIR 204 (784)
Q Consensus 190 RASfGTTK---YCs~FLR 204 (784)
++.++.-. +|..|..
T Consensus 257 ~~~~~~~~~~~~~~~~~~ 274 (285)
T KOG4210|consen 257 RLEEDEPRPKSDGGLFGN 274 (285)
T ss_pred ccccCCCCcccccccccc
Confidence 99998653 5555543
No 118
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=95.28 E-value=0.017 Score=61.54 Aligned_cols=75 Identities=15% Similarity=0.318 Sum_probs=62.6
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.||-|-|.-++++ |+|- ..|.+|-.-.+-.+.|++.++ ...+++||.|.+.+|+.+|+..|||..++.|+|+
T Consensus 192 RIfcgdlgNevnd-~vl~--raf~Kfpsf~~akviRdkRTg-----KSkgygfVSf~~pad~~rAmrem~gkyVgsrpik 263 (290)
T KOG0226|consen 192 RIFCGDLGNEVND-DVLA--RAFKKFPSFQKAKVIRDKRTG-----KSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIK 263 (290)
T ss_pred eeecccccccccH-HHHH--HHHHhccchhhcccccccccc-----ccccceeeeecCHHHHHHHHHhhcccccccchhH
Confidence 4788889888876 4554 499999999999888876543 2467899999999999999999999999999988
Q ss_pred Eee
Q 003956 191 ACF 193 (784)
Q Consensus 191 ASf 193 (784)
+.-
T Consensus 264 lRk 266 (290)
T KOG0226|consen 264 LRK 266 (290)
T ss_pred hhh
Confidence 653
No 119
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=95.20 E-value=0.012 Score=61.13 Aligned_cols=78 Identities=22% Similarity=0.344 Sum_probs=59.4
Q ss_pred ccC-CCCcccccc--CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHH
Q 003956 98 RMH-LTNVRVIQR--NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIR 174 (784)
Q Consensus 98 RK~-La~VRVIQR--NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~k 174 (784)
|+. +...++.-+ -.+.|-+|+.++...+|- ++|.+||++...++. ...+||.|+..++|.+
T Consensus 85 r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~---d~~~~~g~~~~~~~~-------------~~~~~v~Fs~~~da~r 148 (216)
T KOG0106|consen 85 RRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLK---DHFRPAGEVTYVDAR-------------RNFAFVEFSEQEDAKR 148 (216)
T ss_pred ccchhhccCCcccccceeeeccchhhhhHHHHh---hhhcccCCCchhhhh-------------ccccceeehhhhhhhh
Confidence 444 455554333 246667778887767764 799999999544441 2259999999999999
Q ss_pred HHHHhCCCccCCceEEE
Q 003956 175 CIQSVHSYILDGRPLRA 191 (784)
Q Consensus 175 AI~aLDG~~LdGRvLRA 191 (784)
||..|+|..+.|+.|++
T Consensus 149 a~~~l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 149 ALEKLDGKKLNGRRISV 165 (216)
T ss_pred cchhccchhhcCceeee
Confidence 99999999999999998
No 120
>PLN02195 cellulose synthase A
Probab=95.15 E-value=0.013 Score=71.38 Aligned_cols=57 Identities=25% Similarity=0.658 Sum_probs=46.7
Q ss_pred CCcccCCCCCCcccCCCccC--CCcccc-CCCChhhhhhHHHHHHhhhccCCCCCCccccccccc
Q 003956 1 MSDKAEKTCPLCAEEMDLTD--QQLKPC-NCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDK 62 (784)
Q Consensus 1 msDe~d~~CPLC~EelD~tD--~~f~PC-~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yde 62 (784)
|-+-....|.+|-++++++. ..|..| .|||.+|+-||..= +.+.+-.||.|...|.+
T Consensus 1 ~~~~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeye-----r~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 1 MMESGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYE-----IKEGRKVCLRCGGPYDA 60 (977)
T ss_pred CCcCCCccceecccccCcCCCCCeEEEeccCCCccccchhhhh-----hhcCCccCCccCCcccc
Confidence 34445679999999887765 468999 89999999999653 45788999999999983
No 121
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=95.14 E-value=0.035 Score=62.31 Aligned_cols=71 Identities=21% Similarity=0.299 Sum_probs=54.8
Q ss_pred EEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCcc-CC-ceE
Q 003956 112 VYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYIL-DG-RPL 189 (784)
Q Consensus 112 VYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~L-dG-RvL 189 (784)
+.|.++-..++- |+|. .+|.+||+|.||+--... .++.|.|.|.+.+.|..|-.+|||.-+ +| -.|
T Consensus 153 ~iie~m~ypVsl-DVLH--qvFS~fG~VlKIiTF~Kn---------n~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtL 220 (492)
T KOG1190|consen 153 TIIENMFYPVSL-DVLH--QVFSKFGFVLKIITFTKN---------NGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTL 220 (492)
T ss_pred EEeccceeeeEH-HHHH--HHHhhcceeEEEEEEecc---------cchhhhhhccchhhHHHHHHhccCCcccCceeEE
Confidence 344555555553 6774 899999999999765322 366799999999999999999999865 45 589
Q ss_pred EEeec
Q 003956 190 RACFG 194 (784)
Q Consensus 190 RASfG 194 (784)
|+.|.
T Consensus 221 rId~S 225 (492)
T KOG1190|consen 221 RIDFS 225 (492)
T ss_pred Eeehh
Confidence 99985
No 122
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=95.12 E-value=0.024 Score=63.19 Aligned_cols=83 Identities=20% Similarity=0.391 Sum_probs=64.4
Q ss_pred ccCCCCccccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEE---EEEeecCCCCcccCCCCCcEEEEEeCCHHHHHH
Q 003956 98 RMHLTNVRVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLK---VSISRTATGDIQHSANNSCCVYITYSREDDAIR 174 (784)
Q Consensus 98 RK~La~VRVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~K---IvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~k 174 (784)
+.+-...|+ |+.|-..|||...+.|+|| +|||.|-.-++ |.|..+..| .++|-|||.|.+.|+|..
T Consensus 271 ~~~~p~~~~--kdcvRLRGLPy~AtvEdIL---~FlgdFa~~i~f~gVHmv~N~qG------rPSGeAFIqm~nae~a~a 339 (508)
T KOG1365|consen 271 ARLVPPTRS--KDCVRLRGLPYEATVEDIL---DFLGDFATDIRFQGVHMVLNGQG------RPSGEAFIQMRNAERARA 339 (508)
T ss_pred cccCCCCCC--CCeeEecCCChhhhHHHHH---HHHHHHhhhcccceeEEEEcCCC------CcChhhhhhhhhhHHHHH
Confidence 444445554 8999999999999999999 69999987665 344444433 267889999999999999
Q ss_pred HHHHhCCCccCCceEEE
Q 003956 175 CIQSVHSYILDGRPLRA 191 (784)
Q Consensus 175 AI~aLDG~~LdGRvLRA 191 (784)
|.+..+...+.+|.|.+
T Consensus 340 aaqk~hk~~mk~RYiEv 356 (508)
T KOG1365|consen 340 AAQKCHKKLMKSRYIEV 356 (508)
T ss_pred HHHHHHHhhcccceEEE
Confidence 99999987776665554
No 123
>PLN02248 cellulose synthase-like protein
Probab=95.06 E-value=0.02 Score=70.47 Aligned_cols=50 Identities=36% Similarity=1.007 Sum_probs=37.4
Q ss_pred CCC--CCcccCC--CccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccc
Q 003956 7 KTC--PLCAEEM--DLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDK 62 (784)
Q Consensus 7 ~~C--PLC~Eel--D~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yde 62 (784)
..| |-|-.+. |..-....||.|+|.||+-||-.-+ + ..|.||+|+.+|..
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~--~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 125 SSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDAV----K--SGGICPGCKEPYKV 178 (1135)
T ss_pred CcccccCcccccccccccccCCcccccchhHHhHhhhhh----h--cCCCCCCCcccccc
Confidence 455 4566555 2333567999999999999997664 2 38999999999954
No 124
>smart00184 RING Ring finger. E3 ubiquitin-protein ligase activity is intrinsic to the RING domain of c-Cbl and is likely to be a general function of this domain; Various RING fingers exhibit binding activity towards E2 ubiquitin-conjugating enzymes (Ubc' s)
Probab=94.95 E-value=0.028 Score=39.95 Aligned_cols=39 Identities=31% Similarity=0.863 Sum_probs=29.7
Q ss_pred CCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccc
Q 003956 9 CPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPAC 56 (784)
Q Consensus 9 CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPAC 56 (784)
|++|.+.. + ....-+||+.+|..|+..+.+ .....||.|
T Consensus 1 C~iC~~~~--~--~~~~~~C~H~~c~~C~~~~~~-----~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL--K--DPVVLPCGHTFCRSCIRKWLK-----SGNNTCPIC 39 (39)
T ss_pred CCcCccCC--C--CcEEecCCChHHHHHHHHHHH-----hCcCCCCCC
Confidence 89998883 2 344446999999999998864 356789987
No 125
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.94 E-value=0.018 Score=58.62 Aligned_cols=51 Identities=22% Similarity=0.753 Sum_probs=40.6
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
-.||+||+.+ +.+.-.-=+||+-+|.-|....+. ....||-||+..+...+
T Consensus 132 ~~CPiCl~~~--sek~~vsTkCGHvFC~~Cik~alk------~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 132 YKCPICLDSV--SEKVPVSTKCGHVFCSQCIKDALK------NTNKCPTCRKKITHKQF 182 (187)
T ss_pred cCCCceecch--hhccccccccchhHHHHHHHHHHH------hCCCCCCcccccchhhh
Confidence 5799999987 445556779999999999988875 36789999997666554
No 126
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=94.87 E-value=0.021 Score=61.59 Aligned_cols=54 Identities=30% Similarity=0.856 Sum_probs=36.1
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchh
Q 003956 3 DKAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIV 66 (784)
Q Consensus 3 De~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~ 66 (784)
++....|-||+|.+. |... =+||+- |||--|++-..+ ..-||-||....+.++.
T Consensus 236 ~~a~~kC~LCLe~~~--~pSa--TpCGHi---FCWsCI~~w~~e---k~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 236 PEATRKCSLCLENRS--NPSA--TPCGHI---FCWSCILEWCSE---KAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCCceEEEecCCC--CCCc--CcCcch---HHHHHHHHHHcc---ccCCCcccccCCCccee
Confidence 355679999999982 2222 278998 555556654332 22399999998877664
No 127
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=94.77 E-value=0.056 Score=62.01 Aligned_cols=69 Identities=26% Similarity=0.355 Sum_probs=59.2
Q ss_pred CCccccccCeEEEeCCCCCCChHHHHHHHHhhc-cCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHH
Q 003956 102 TNVRVIQRNLVYIIGLPINLADEDLLQRKEYFG-QYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQS 178 (784)
Q Consensus 102 a~VRVIQRNLVYV~GLP~~IAeEDLLR~~EyFG-QYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~a 178 (784)
.+..|-.|-+|||||||..++-+||- .+|. -||.|.=+-|..+.+-+ -|.|.+=|||++...-.+||.+
T Consensus 363 ~sq~lDprrTVFVGgvprpl~A~eLA---~imd~lyGgV~yaGIDtD~k~K-----YPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 363 HNQPIDPRRTVFVGGLPRPLTAEELA---MIMEDLFGGVLYVGIDTDPKLK-----YPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred cCcccCccceEEecCCCCcchHHHHH---HHHHHhcCceEEEEeccCcccC-----CCCCcceeeecccHHHHHHHhh
Confidence 56677788999999999999998886 4886 89999999998886544 3688899999999999999986
No 128
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.65 E-value=0.056 Score=58.91 Aligned_cols=65 Identities=23% Similarity=0.397 Sum_probs=52.8
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
.-|-|-|.|+.-+. -||+ .|.+||.|+|.+..++ +-.-||.|..+-+|.+||.. ||.+|+|-++
T Consensus 198 ~WVTVfGFppg~~s-~vL~---~F~~cG~Vvkhv~~~n-----------gNwMhirYssr~~A~KALsk-ng~ii~g~vm 261 (350)
T KOG4285|consen 198 TWVTVFGFPPGQVS-IVLN---LFSRCGEVVKHVTPSN-----------GNWMHIRYSSRTHAQKALSK-NGTIIDGDVM 261 (350)
T ss_pred ceEEEeccCccchh-HHHH---HHHhhCeeeeeecCCC-----------CceEEEEecchhHHHHhhhh-cCeeeccceE
Confidence 44888999988653 4664 9999999999987622 33699999999999999986 9999999765
Q ss_pred E
Q 003956 190 R 190 (784)
Q Consensus 190 R 190 (784)
-
T Consensus 262 i 262 (350)
T KOG4285|consen 262 I 262 (350)
T ss_pred E
Confidence 4
No 129
>PF00097 zf-C3HC4: Zinc finger, C3HC4 type (RING finger); InterPro: IPR018957 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The C3HC4 type zinc-finger (RING finger) is a cysteine-rich domain of 40 to 60 residues that coordinates two zinc ions, and has the consensus sequence: C-X2-C-X(9-39)-C-X(1-3)-H-X(2-3)-C-X2-C-X(4-48)-C-X2-C where X is any amino acid []. Many proteins containing a RING finger play a key role in the ubiquitination pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1CHC_A 2ECW_A 2Y43_B 1V87_A 2DJB_A 2H0D_B 3RPG_C 3KNV_A 2CKL_B 1JM7_A ....
Probab=94.55 E-value=0.023 Score=43.10 Aligned_cols=41 Identities=29% Similarity=0.730 Sum_probs=33.0
Q ss_pred CCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccc
Q 003956 9 CPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPAC 56 (784)
Q Consensus 9 CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPAC 56 (784)
||+|.+.+.... ..=+||+.+|..|+.++++. .....||.|
T Consensus 1 C~iC~~~~~~~~---~~~~C~H~fC~~C~~~~~~~----~~~~~CP~C 41 (41)
T PF00097_consen 1 CPICLEPFEDPV---ILLPCGHSFCRDCLRKWLEN----SGSVKCPLC 41 (41)
T ss_dssp ETTTSSBCSSEE---EETTTSEEEEHHHHHHHHHH----TSSSBTTTT
T ss_pred CCcCCccccCCC---EEecCCCcchHHHHHHHHHh----cCCccCCcC
Confidence 899999986533 56688999999999999752 567789987
No 130
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.52 E-value=0.054 Score=60.83 Aligned_cols=52 Identities=23% Similarity=0.671 Sum_probs=39.6
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 4 KAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
+.+..||+|.+.|. +-.. =+||+.+|.-|....+. ..+.||.||.++....+
T Consensus 24 e~~l~C~IC~d~~~--~Pvi--tpCgH~FCs~CI~~~l~------~~~~CP~Cr~~~~~~~L 75 (397)
T TIGR00599 24 DTSLRCHICKDFFD--VPVL--TSCSHTFCSLCIRRCLS------NQPKCPLCRAEDQESKL 75 (397)
T ss_pred ccccCCCcCchhhh--CccC--CCCCCchhHHHHHHHHh------CCCCCCCCCCccccccC
Confidence 34579999999884 2222 37999999999988763 24689999999887644
No 131
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=94.48 E-value=0.039 Score=49.65 Aligned_cols=54 Identities=22% Similarity=0.789 Sum_probs=24.9
Q ss_pred cCCCCCCcccCCCc--cCCCcccc-CCCChhhhhhHHHHHHhhhccCCCCCCcccccccccc
Q 003956 5 AEKTCPLCAEEMDL--TDQQLKPC-NCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKE 63 (784)
Q Consensus 5 ~d~~CPLC~EelD~--tD~~f~PC-~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee 63 (784)
....|.+|-+.+-+ +-..|..| .|+|-||+-||..=+ .+.+-.||.|+.+|..-
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYEr-----keg~q~CpqCkt~ykr~ 64 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYER-----KEGNQVCPQCKTRYKRH 64 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHH-----HTS-SB-TTT--B----
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHh-----hcCcccccccCCCcccc
Confidence 35689999998744 44679999 899999999998654 35788999999999743
No 132
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=94.46 E-value=0.27 Score=55.10 Aligned_cols=77 Identities=16% Similarity=0.206 Sum_probs=59.9
Q ss_pred EeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC-C-ceEEE
Q 003956 114 IIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD-G-RPLRA 191 (784)
Q Consensus 114 V~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld-G-RvLRA 191 (784)
|.|--..|+. |+| +.+.-.-|+|+.|+|.+.. +..|-|+|.+.+.|.+|-.+|||..|. | -.||+
T Consensus 127 IlNp~YpItv-DVl--y~Icnp~GkVlRIvIfkkn----------gVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKI 193 (494)
T KOG1456|consen 127 ILNPQYPITV-DVL--YTICNPQGKVLRIVIFKKN----------GVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKI 193 (494)
T ss_pred eecCccccch-hhh--hhhcCCCCceEEEEEEecc----------ceeeEEeechhHHHHHHHhhcccccccccceeEEE
Confidence 3343455664 566 3799999999999998752 345999999999999999999999764 4 69999
Q ss_pred eecCCccccccc
Q 003956 192 CFGTTKYCHAWI 203 (784)
Q Consensus 192 SfGTTKYCs~FL 203 (784)
.|+....-..|-
T Consensus 194 eyAkP~rlnV~k 205 (494)
T KOG1456|consen 194 EYAKPTRLNVQK 205 (494)
T ss_pred EecCcceeeeee
Confidence 999876654443
No 133
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.21 E-value=0.039 Score=53.97 Aligned_cols=56 Identities=27% Similarity=0.787 Sum_probs=43.6
Q ss_pred ccCCCCCCcccCCCccCCCc-cccCC-CChhhhhhHHHHHHhhhccCCCCCCccccccccccc
Q 003956 4 KAEKTCPLCAEEMDLTDQQL-KPCNC-GYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEK 64 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f-~PC~C-GYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~ 64 (784)
.---+|.||-|-- +|..| +|=.| ||.||--||-.+-..+ +....||+|+.-|-.+.
T Consensus 78 ~~lYeCnIC~etS--~ee~FLKPneCCgY~iCn~Cya~LWK~~---~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 78 PKLYECNICKETS--AEERFLKPNECCGYSICNACYANLWKFC---NLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CCceeccCccccc--chhhcCCcccccchHHHHHHHHHHHHHc---ccCCCCCcccccccccc
Confidence 3345899999876 55565 88765 9999999999987643 57899999999876544
No 134
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=94.11 E-value=0.032 Score=61.57 Aligned_cols=54 Identities=26% Similarity=0.589 Sum_probs=43.4
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccc
Q 003956 3 DKAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEK 64 (784)
Q Consensus 3 De~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~ 64 (784)
||+++.|-||.+.+.- ...+ ||++|||.-|--|++.++ +..-||-||.+.++--
T Consensus 58 DEen~~C~ICA~~~TY--s~~~--PC~H~~CH~Ca~RlRALY----~~K~C~~CrTE~e~V~ 111 (493)
T COG5236 58 DEENMNCQICAGSTTY--SARY--PCGHQICHACAVRLRALY----MQKGCPLCRTETEAVV 111 (493)
T ss_pred ccccceeEEecCCceE--EEec--cCCchHHHHHHHHHHHHH----hccCCCccccccceEE
Confidence 6778899999999843 2333 679999999999999865 5678999999887643
No 135
>PHA02926 zinc finger-like protein; Provisional
Probab=93.90 E-value=0.062 Score=56.52 Aligned_cols=57 Identities=28% Similarity=0.611 Sum_probs=37.4
Q ss_pred cCCCCCCcccCCC----ccCCCcc-ccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 5 AEKTCPLCAEEMD----LTDQQLK-PCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 5 ~d~~CPLC~EelD----~tD~~f~-PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
.|.+|++|+|.+- ..|+.|- .=+|++-.|+-|...-++....+.....||-||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 3689999999862 3455553 3389999777777666542111123456999999764
No 136
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.77 E-value=0.076 Score=64.15 Aligned_cols=88 Identities=17% Similarity=0.177 Sum_probs=69.8
Q ss_pred ccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 003956 106 VIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD 185 (784)
Q Consensus 106 VIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld 185 (784)
+.-...++|+||.+......|++ .|+.||.|.+|.+-+. ..+|||.|++..-|+.|...|-|+.|.
T Consensus 452 st~ttr~~sgglg~w~p~~~l~r---~fd~fGpir~Idy~hg-----------q~yayi~yes~~~aq~a~~~~rgap~G 517 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLNR---EFDRFGPIRIIDYRHG-----------QPYAYIQYESPPAAQAATHDMRGAPLG 517 (975)
T ss_pred cccceeeccCCCCCCChHHHHHH---HhhccCcceeeecccC-----------CcceeeecccCccchhhHHHHhcCcCC
Confidence 44556799999999988777765 9999999999876532 226999999999999999999999998
Q ss_pred C--ceEEEeecCC--ccccccccCcC
Q 003956 186 G--RPLRACFGTT--KYCHAWIRNMP 207 (784)
Q Consensus 186 G--RvLRASfGTT--KYCs~FLRn~~ 207 (784)
| +.||+.|+.+ ++-...|.-.+
T Consensus 518 ~P~~r~rvdla~~~~~~Pqq~~~~~p 543 (975)
T KOG0112|consen 518 GPPRRLRVDLASPPGATPQQNLLTSP 543 (975)
T ss_pred CCCcccccccccCCCCChhhhcccCC
Confidence 7 7799999754 45544444444
No 137
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=93.48 E-value=0.037 Score=68.18 Aligned_cols=50 Identities=26% Similarity=0.856 Sum_probs=42.8
Q ss_pred CCCCCcccCCCccCC--Ccccc-CCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 7 KTCPLCAEEMDLTDQ--QLKPC-NCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 7 ~~CPLC~EelD~tD~--~f~PC-~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
.+|.+|-+++.+|.. .|..| .|||-+|+-||.. |+.+.+-.||.|+..|.
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEY-----Er~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEY-----ERKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhh-----hhhcCCccCCccCCchh
Confidence 489999999877654 68999 8999999999964 34578899999999997
No 138
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=93.44 E-value=0.055 Score=63.00 Aligned_cols=75 Identities=20% Similarity=0.283 Sum_probs=57.5
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceE-EEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCcc--
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVL-KVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYIL-- 184 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~-KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~L-- 184 (784)
-.|.|||.||-..++.-.|. +++|+-|.++ ...|.+-+. -+||+|.+.++|..-+.+|||...
T Consensus 443 ~SnvlhI~nLvRPFTlgQLk---elL~rtgg~Vee~WmDkIKS-----------hCyV~yss~eEA~atr~AlhnV~WP~ 508 (718)
T KOG2416|consen 443 PSNVLHIDNLVRPFTLGQLK---ELLGRTGGNVEEFWMDKIKS-----------HCYVSYSSVEEAAATREALHNVQWPP 508 (718)
T ss_pred ccceEeeecccccchHHHHH---HHHhhccCchHHHHHHHhhc-----------ceeEecccHHHHHHHHHHHhccccCC
Confidence 45899999999999866653 8999666554 455544321 279999999999999999999876
Q ss_pred -CCceEEEeecCC
Q 003956 185 -DGRPLRACFGTT 196 (784)
Q Consensus 185 -dGRvLRASfGTT 196 (784)
+++-|-|.|++.
T Consensus 509 sNPK~L~adf~~~ 521 (718)
T KOG2416|consen 509 SNPKHLIADFVRA 521 (718)
T ss_pred CCCceeEeeecch
Confidence 567777777654
No 139
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=93.30 E-value=0.27 Score=56.71 Aligned_cols=81 Identities=17% Similarity=0.282 Sum_probs=50.6
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCc---EEEEEeCCHHHHHHHHHHhCCCccC
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSC---CVYITYSREDDAIRCIQSVHSYILD 185 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rg---sAYVTFs~kEDA~kAI~aLDG~~Ld 185 (784)
.+.|||||||+.|+|+.|. ..|++||.+. |.=.+...... ..| +.| ++|+.|+++..-..-|.+..- .-+
T Consensus 259 S~KVFvGGlp~dise~~i~---~~F~~FGs~~-VdWP~k~~~~~-~~p-pkGs~~YvflvFe~E~sV~~Ll~aC~~-~~~ 331 (520)
T KOG0129|consen 259 SRKVFVGGLPWDITEAQIN---ASFGQFGSVK-VDWPGKANSRG-RAP-PKGSYGYVFLVFEDERSVQSLLSACSE-GEG 331 (520)
T ss_pred ccceeecCCCccccHHHHH---hhcccccceE-eecCCCccccc-cCC-CCCcccEEEEEecchHHHHHHHHHHhh-ccc
Confidence 3579999999999988876 5999999875 22222221111 122 344 899999998766655554332 233
Q ss_pred CceEEEeecCC
Q 003956 186 GRPLRACFGTT 196 (784)
Q Consensus 186 GRvLRASfGTT 196 (784)
+-.++++--|.
T Consensus 332 ~~yf~vss~~~ 342 (520)
T KOG0129|consen 332 NYYFKVSSPTI 342 (520)
T ss_pred ceEEEEecCcc
Confidence 34555665443
No 140
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=93.30 E-value=0.048 Score=67.01 Aligned_cols=50 Identities=30% Similarity=0.902 Sum_probs=42.3
Q ss_pred CCCCCcccCCCccCC--Ccccc-CCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 7 KTCPLCAEEMDLTDQ--QLKPC-NCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 7 ~~CPLC~EelD~tD~--~f~PC-~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
.+|.+|-+++.++.. .|..| .|||.+|+-||..= ..+.+-.||.|+..|.
T Consensus 16 ~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye-----~~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 16 KTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYE-----RSEGNQCCPQCNTRYK 68 (1044)
T ss_pred chhhccccccCcCCCCCEEEEeccCCCccccchhhhh-----hhcCCccCCccCCchh
Confidence 689999999866543 68999 89999999999543 4568889999999997
No 141
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=93.06 E-value=0.089 Score=55.62 Aligned_cols=63 Identities=13% Similarity=0.292 Sum_probs=49.6
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYIL 184 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~L 184 (784)
.++||.||.+++++++|. .+|..|--...+.|- .+. ..+.||+.|+..+.|..|+..|.|+.|
T Consensus 211 stlfianl~~~~~ed~l~---~~~~~~~gf~~l~~~-~~~--------g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 211 STLFIANLGPNCTEDELK---QLLSRYPGFHILKIR-ARG--------GMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhHhhhccCCCCCHHHHH---HHHHhCCCceEEEEe-cCC--------CcceEeecHHHHHHHHHHHHHhhccee
Confidence 579999999999877654 689888765544442 222 256799999999999999999999887
No 142
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=93.01 E-value=0.069 Score=42.76 Aligned_cols=43 Identities=26% Similarity=0.681 Sum_probs=22.6
Q ss_pred CCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCc
Q 003956 9 CPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCP 54 (784)
Q Consensus 9 CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCP 54 (784)
||+|.| |+-++..-+--+||+-||+-|..++.... ....-+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~--~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS--DRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH---S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC--CCCeeeCc
Confidence 999999 86555554556799999999999997421 12456676
No 143
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=92.90 E-value=0.24 Score=56.82 Aligned_cols=74 Identities=18% Similarity=0.363 Sum_probs=56.8
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEE-EEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLK-VSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~K-IvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
.-.|=+.|||+.++++||. ++|.--=-+.+ |.+..++.++ +++-|||.|++.|.|++|++. |...|..|
T Consensus 103 d~vVRLRGLPfscte~dI~---~FFaGL~Iv~~gi~l~~d~rgR------~tGEAfVqF~sqe~ae~Al~r-hre~iGhR 172 (510)
T KOG4211|consen 103 DGVVRLRGLPFSCTEEDIV---EFFAGLEIVPDGILLPMDQRGR------PTGEAFVQFESQESAEIALGR-HRENIGHR 172 (510)
T ss_pred CceEEecCCCccCcHHHHH---HHhcCCcccccceeeeccCCCC------cccceEEEecCHHHHHHHHHH-HHHhhccc
Confidence 3467789999999999998 69987755555 3344454432 578899999999999999887 66777778
Q ss_pred eEEEe
Q 003956 188 PLRAC 192 (784)
Q Consensus 188 vLRAS 192 (784)
.|.+-
T Consensus 173 YIEvF 177 (510)
T KOG4211|consen 173 YIEVF 177 (510)
T ss_pred eEEee
Confidence 77754
No 144
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=92.74 E-value=0.28 Score=48.71 Aligned_cols=52 Identities=23% Similarity=0.497 Sum_probs=40.8
Q ss_pred HhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEeecCC
Q 003956 131 EYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRACFGTT 196 (784)
Q Consensus 131 EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRASfGTT 196 (784)
+.|.+||+++=|++... .-+|||.+-+.|.+|+. +||.++.|+.|++..-|+
T Consensus 55 ~~~~~~GevvLvRfv~~-------------~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtp 106 (146)
T PF08952_consen 55 QKFAQYGEVVLVRFVGD-------------TMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTP 106 (146)
T ss_dssp HHHHCCS-ECEEEEETT-------------CEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE---
T ss_pred HHHHhCCceEEEEEeCC-------------eEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCc
Confidence 69999999887766522 37999999999998855 799999999999997443
No 145
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=92.66 E-value=0.31 Score=51.17 Aligned_cols=75 Identities=13% Similarity=0.368 Sum_probs=62.8
Q ss_pred cccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC-
Q 003956 107 IQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD- 185 (784)
Q Consensus 107 IQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld- 185 (784)
-+.+.+|+.+||.....| +|. .+|.||+=-.+|++...+ ++.|||+|.+...|.-|.+++.|+.+-
T Consensus 144 ppn~ilf~~niP~es~~e-~l~--~lf~qf~g~keir~i~~~----------~~iAfve~~~d~~a~~a~~~lq~~~it~ 210 (221)
T KOG4206|consen 144 PPNNILFLTNIPSESESE-MLS--DLFEQFPGFKEIRLIPPR----------SGIAFVEFLSDRQASAAQQALQGFKITK 210 (221)
T ss_pred CCceEEEEecCCcchhHH-HHH--HHHhhCcccceeEeccCC----------CceeEEecchhhhhHHHhhhhccceecc
Confidence 356789999999998654 453 799999999999987543 346999999999999999999999875
Q ss_pred CceEEEeec
Q 003956 186 GRPLRACFG 194 (784)
Q Consensus 186 GRvLRASfG 194 (784)
...|++.|+
T Consensus 211 ~~~m~i~~a 219 (221)
T KOG4206|consen 211 KNTMQITFA 219 (221)
T ss_pred CceEEeccc
Confidence 778888875
No 146
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=92.57 E-value=0.31 Score=57.96 Aligned_cols=74 Identities=16% Similarity=0.337 Sum_probs=61.8
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEE-EEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLK-VSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~K-IvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
.|-+-|+|.+++-|||+ +||.-|-.+-. |.+-++.+|. +++-+-|-|++.|||.+|...||+..|..|+|
T Consensus 869 V~~~~n~Pf~v~l~dI~---~FF~dY~~~p~sI~~r~nd~G~------pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V 939 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIV---EFFNDYEPDPNSIRIRRNDDGV------PTGECMVAFESQEEARRASMDLDGQKIRNRVV 939 (944)
T ss_pred EEEecCCCccccHHHHH---HHhcccccCCCceeEeecCCCC------cccceeEeecCHHHHHhhhhccccCcccceeE
Confidence 45677999999999999 69999987764 4444554443 57789999999999999999999999999999
Q ss_pred EEee
Q 003956 190 RACF 193 (784)
Q Consensus 190 RASf 193 (784)
++..
T Consensus 940 ~l~i 943 (944)
T KOG4307|consen 940 SLRI 943 (944)
T ss_pred EEEe
Confidence 8754
No 147
>PF04641 Rtf2: Rtf2 RING-finger
Probab=92.55 E-value=0.14 Score=53.98 Aligned_cols=64 Identities=20% Similarity=0.477 Sum_probs=43.7
Q ss_pred cCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchhccccChHHH
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIVGMAANCERA 75 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~eel 75 (784)
..-.||+...+|.-.-+-.+.-+||.. ||+.-|.++ + ....||.|-.+|.++.|+.+....+++
T Consensus 112 ~~~~CPvt~~~~~~~~~fv~l~~cG~V---~s~~alke~--k--~~~~Cp~c~~~f~~~DiI~Lnp~~ee~ 175 (260)
T PF04641_consen 112 GRFICPVTGKEFNGKHKFVYLRPCGCV---FSEKALKEL--K--KSKKCPVCGKPFTEEDIIPLNPPEEEL 175 (260)
T ss_pred ceeECCCCCcccCCceeEEEEcCCCCE---eeHHHHHhh--c--ccccccccCCccccCCEEEecCCccHH
Confidence 346899999999543344455588855 555555443 2 356799999999999887766555543
No 148
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=92.49 E-value=0.073 Score=41.97 Aligned_cols=42 Identities=26% Similarity=0.778 Sum_probs=27.0
Q ss_pred CCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccc
Q 003956 9 CPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPAC 56 (784)
Q Consensus 9 CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPAC 56 (784)
||+|.+-|. .=...+||+..|+.|..++.+. .......||-|
T Consensus 1 CpiC~~~~~----~Pv~l~CGH~FC~~Cl~~~~~~--~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK----DPVSLPCGHSFCRSCLERLWKE--PSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S----SEEE-SSSSEEEHHHHHHHHCC--SSSST---SSS
T ss_pred CCccchhhC----CccccCCcCHHHHHHHHHHHHc--cCCcCCCCcCC
Confidence 899999984 3344688999999999999742 12222689987
No 149
>PLN02400 cellulose synthase
Probab=92.47 E-value=0.058 Score=66.54 Aligned_cols=49 Identities=27% Similarity=0.915 Sum_probs=42.2
Q ss_pred CCCCcccCCCccCC--Ccccc-CCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 8 TCPLCAEEMDLTDQ--QLKPC-NCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 8 ~CPLC~EelD~tD~--~f~PC-~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
+|.+|-+++.+|.. .|..| .|||-+|+-||.. |+.+.+-.||.|+..|.
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEY-----ERkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEY-----ERKDGTQCCPQCKTRYR 89 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhhe-----ecccCCccCcccCCccc
Confidence 89999999866654 68999 8999999999964 35578899999999997
No 150
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=92.13 E-value=0.095 Score=56.91 Aligned_cols=47 Identities=23% Similarity=0.679 Sum_probs=40.9
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccc
Q 003956 4 KAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDK 62 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yde 62 (784)
.+-.+||.|.+.|.+ ..+-|.=|+-+|-.|--+. ..+||.||.++.+
T Consensus 46 ~~lleCPvC~~~l~~---Pi~QC~nGHlaCssC~~~~---------~~~CP~Cr~~~g~ 92 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSP---PIFQCDNGHLACSSCRTKV---------SNKCPTCRLPIGN 92 (299)
T ss_pred hhhccCchhhccCcc---cceecCCCcEehhhhhhhh---------cccCCcccccccc
Confidence 345799999999987 8899999999999998765 4799999999983
No 151
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=90.90 E-value=0.25 Score=45.12 Aligned_cols=54 Identities=22% Similarity=0.586 Sum_probs=34.3
Q ss_pred cCCCCCCcccCCCcc---------CCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 5 AEKTCPLCAEEMDLT---------DQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 5 ~d~~CPLC~EelD~t---------D~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
+|+.|+||..+||.+ |-.+.-+.|+..+-.-|..+=++ ....+++||-||+++.
T Consensus 20 ~dd~CgICr~~fdg~Cp~Ck~Pgd~Cplv~g~C~H~FH~hCI~kWl~---~~~~~~~CPmCR~~w~ 82 (85)
T PF12861_consen 20 NDDVCGICRMPFDGCCPDCKFPGDDCPLVWGKCSHNFHMHCILKWLS---TQSSKGQCPMCRQPWK 82 (85)
T ss_pred CCCceeeEecccccCCCCccCCCCCCceeeccCccHHHHHHHHHHHc---cccCCCCCCCcCCeee
Confidence 467888888888732 22333356777754445444433 3345799999999874
No 152
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=90.81 E-value=0.22 Score=56.44 Aligned_cols=89 Identities=15% Similarity=0.195 Sum_probs=64.4
Q ss_pred CCCCcccc--ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeec---CCCCcccCCC------CCcEEEEEeCC
Q 003956 100 HLTNVRVI--QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRT---ATGDIQHSAN------NSCCVYITYSR 168 (784)
Q Consensus 100 ~La~VRVI--QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrd---k~g~~q~~~~------~rgsAYVTFs~ 168 (784)
.|...+.- |.-+|.|-+||..-..|.|+ ++||.+|.|..|.|.+. ..... +.+. ..-.|+|.|..
T Consensus 220 Plp~~~~eel~srtivaenLP~Dh~~enl~---kiFg~~G~IksIRIckPgaip~d~r-~~~~~~~~~~tk~~AlvEye~ 295 (484)
T KOG1855|consen 220 PLPEFDEEELPSRTIVAENLPLDHSYENLS---KIFGTVGSIKSIRICKPGAIPEDVR-GFPKKYFELQTKECALVEYEE 295 (484)
T ss_pred CCCCccccccccceEEEecCCcchHHHHHH---HHhhcccceeeeeecCCCCCCcccc-cCCccchhhhhhhhhhhhhhh
Confidence 45555543 77889999999998888888 59999999999999765 11111 1111 24579999999
Q ss_pred HHHHHHHHHHhCCCccCCceEEEe
Q 003956 169 EDDAIRCIQSVHSYILDGRPLRAC 192 (784)
Q Consensus 169 kEDA~kAI~aLDG~~LdGRvLRAS 192 (784)
.+-|.+|.+.++....--.-|||-
T Consensus 296 ~~~A~KA~e~~~~e~~wr~glkvk 319 (484)
T KOG1855|consen 296 VEAARKARELLNPEQNWRMGLKVK 319 (484)
T ss_pred hHHHHHHHHhhchhhhhhhcchhh
Confidence 999999999987665543345544
No 153
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=90.17 E-value=0.15 Score=55.54 Aligned_cols=46 Identities=30% Similarity=0.881 Sum_probs=36.8
Q ss_pred CCCCCcccCCCccCCCcccc--CCCChhhhhhHHHHHHhhhccCCCCCCccccccccccc
Q 003956 7 KTCPLCAEEMDLTDQQLKPC--NCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEK 64 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC--~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~ 64 (784)
.-|-||-+-|.+ || +||+-+|-||-.+-+ +.+..||+||.+.-+..
T Consensus 26 lrC~IC~~~i~i------p~~TtCgHtFCslCIR~hL------~~qp~CP~Cr~~~~esr 73 (391)
T COG5432 26 LRCRICDCRISI------PCETTCGHTFCSLCIRRHL------GTQPFCPVCREDPCESR 73 (391)
T ss_pred HHhhhhhheeec------ceecccccchhHHHHHHHh------cCCCCCccccccHHhhh
Confidence 468999888865 88 899999999976554 46889999999776554
No 154
>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=90.04 E-value=0.5 Score=48.20 Aligned_cols=55 Identities=24% Similarity=0.438 Sum_probs=42.6
Q ss_pred HhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhC--CCccCCceEEEeecCC
Q 003956 131 EYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVH--SYILDGRPLRACFGTT 196 (784)
Q Consensus 131 EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLD--G~~LdGRvLRASfGTT 196 (784)
++|.+|+.+..+...+.-. .+-|.|.+.++|.+|...|+ |..+.|..||+-||..
T Consensus 14 ~l~~~~~~~~~~~~L~sFr-----------Ri~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~ 70 (184)
T PF04847_consen 14 ELFSTYDPPVQFSPLKSFR-----------RIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQP 70 (184)
T ss_dssp HHHHTT-SS-EEEEETTTT-----------EEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----
T ss_pred HHHHhcCCceEEEEcCCCC-----------EEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccc
Confidence 7999999999998886542 38999999999999999999 9999999999999943
No 155
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=88.75 E-value=1.4 Score=38.12 Aligned_cols=57 Identities=21% Similarity=0.443 Sum_probs=42.9
Q ss_pred cccCeEEEeCCCCCCChHHHHHHHHhhccC---CceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHh
Q 003956 107 IQRNLVYIIGLPINLADEDLLQRKEYFGQY---GKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSV 179 (784)
Q Consensus 107 IQRNLVYV~GLP~~IAeEDLLR~~EyFGQY---GKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aL 179 (784)
++-+.|+|.|+ ..+..+|++ .||..| ....+|.-.-+. ++=|.|.+.+.|.+|+.+|
T Consensus 3 ~rpeavhirGv-d~lsT~dI~---~y~~~y~~~~~~~~IEWIdDt------------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 3 IRPEAVHIRGV-DELSTDDIK---AYFSEYFDEEGPFRIEWIDDT------------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceeceEEEEcC-CCCCHHHHH---HHHHHhcccCCCceEEEecCC------------cEEEEECCHHHHHHHHHcC
Confidence 45789999998 457788998 599888 124466544332 4789999999999999875
No 156
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=88.12 E-value=0.24 Score=56.66 Aligned_cols=74 Identities=15% Similarity=0.306 Sum_probs=54.2
Q ss_pred cccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 003956 107 IQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDG 186 (784)
Q Consensus 107 IQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdG 186 (784)
++..++-+--.|..+..-..| ...|.+||+|..|.|.... -.|-|||.+..+|-+|- +..|..|+|
T Consensus 370 ~dhs~l~lek~~~glnt~a~l--n~hfA~fG~i~n~qv~~~~-----------~~a~vTF~t~aeag~a~-~s~~avlnn 435 (526)
T KOG2135|consen 370 VDHSPLALEKSPFGLNTIADL--NPHFAQFGEIENIQVDYSS-----------LHAVVTFKTRAEAGEAY-ASHGAVLNN 435 (526)
T ss_pred cccchhhhhccCCCCchHhhh--hhhhhhcCccccccccCch-----------hhheeeeeccccccchh-ccccceecC
Confidence 344455555555555433333 3799999999999886431 13899999999998874 469999999
Q ss_pred ceEEEeec
Q 003956 187 RPLRACFG 194 (784)
Q Consensus 187 RvLRASfG 194 (784)
|.||+-|-
T Consensus 436 r~iKl~wh 443 (526)
T KOG2135|consen 436 RFIKLFWH 443 (526)
T ss_pred ceeEEEEe
Confidence 99999883
No 157
>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=86.49 E-value=2.2 Score=39.36 Aligned_cols=57 Identities=18% Similarity=0.440 Sum_probs=43.8
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhC
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVH 180 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLD 180 (784)
.|.-||-...|......||+ ++|..||.|.=-.|+-+ +|||...+.+.|..++..++
T Consensus 7 ~RdHVFhltFPkeWK~~DI~---qlFspfG~I~VsWi~dT-------------SAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 7 SRDHVFHLTFPKEWKTSDIY---QLFSPFGQIYVSWINDT-------------SAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp SGCCEEEEE--TT--HHHHH---HHCCCCCCEEEEEECTT-------------EEEEEECCCHHHHHHHHHHT
T ss_pred CcceEEEEeCchHhhhhhHH---HHhccCCcEEEEEEcCC-------------cEEEEeecHHHHHHHHHHhc
Confidence 35668888899999999998 69999999875555522 69999999999999999886
No 158
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.76 E-value=0.57 Score=50.45 Aligned_cols=52 Identities=27% Similarity=0.489 Sum_probs=34.2
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccccc
Q 003956 4 KAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKE 63 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee 63 (784)
+.+-.|+||+|++.. +--=+||+-.|++|..-... ...-+.||-||+--...
T Consensus 213 ~~d~kC~lC~e~~~~----ps~t~CgHlFC~~Cl~~~~t----~~k~~~CplCRak~~pk 264 (271)
T COG5574 213 LADYKCFLCLEEPEV----PSCTPCGHLFCLSCLLISWT----KKKYEFCPLCRAKVYPK 264 (271)
T ss_pred ccccceeeeecccCC----cccccccchhhHHHHHHHHH----hhccccCchhhhhccch
Confidence 456789999999952 33338999977777654321 12346799999944333
No 159
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=85.63 E-value=0.55 Score=52.77 Aligned_cols=50 Identities=30% Similarity=0.701 Sum_probs=38.5
Q ss_pred cCCCCCCcccCCCccC---------CCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccc
Q 003956 5 AEKTCPLCAEEMDLTD---------QQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAY 60 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD---------~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Y 60 (784)
+|..|.+||+||=-+| +.-|--|||+-.=+-|+.+-+|. +--||-||+|.
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~ER------qQTCPICr~p~ 344 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLER------QQTCPICRRPV 344 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHHh------ccCCCcccCcc
Confidence 4689999999963444 33356799999989999888762 45699999973
No 160
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=85.27 E-value=0.45 Score=55.01 Aligned_cols=55 Identities=25% Similarity=0.565 Sum_probs=40.3
Q ss_pred ccCCCCCCcccCCCccCCCcccc--CCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 4 KAEKTCPLCAEEMDLTDQQLKPC--NCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f~PC--~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
..+..|++|.|+|-.-+. ..|+ +||+..|..|+-.-.+. .--||-||..+.....
T Consensus 289 ~~~~~C~IC~e~l~~~~~-~~~~rL~C~Hifh~~CL~~W~er------~qtCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHN-ITPKRLPCGHIFHDSCLRSWFER------QQTCPTCRTVLYDYVL 345 (543)
T ss_pred hcCCeeeeechhhccccc-cccceeecccchHHHHHHHHHHH------hCcCCcchhhhhcccc
Confidence 347899999999954332 3344 89999999999777652 5679999995544443
No 161
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=84.96 E-value=1.1 Score=51.25 Aligned_cols=76 Identities=21% Similarity=0.233 Sum_probs=59.3
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCC-ccCCce
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSY-ILDGRP 188 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~-~LdGRv 188 (784)
|.+|+++|.+.++..||. ..||-- |+-.+. ++--..++|||.+.+..-|.+||+.++|. ++.|++
T Consensus 2 nklyignL~p~~~psdl~---svfg~a----k~~~~g-------~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr 67 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLE---SVFGDA----KIPGSG-------QFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKR 67 (584)
T ss_pred CcccccccCCCCChHHHH---HHhccc----cCCCCc-------ceeeecceeeccCCchhhhhhhHHhhchhhhhcCce
Confidence 678999999999988876 488765 222111 11224668999999999999999999997 689999
Q ss_pred EEEeecCCccc
Q 003956 189 LRACFGTTKYC 199 (784)
Q Consensus 189 LRASfGTTKYC 199 (784)
+.+.+...|.-
T Consensus 68 ~e~~~sv~kkq 78 (584)
T KOG2193|consen 68 QEVEHSVPKKQ 78 (584)
T ss_pred eeccchhhHHH
Confidence 99999877643
No 162
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=84.50 E-value=0.6 Score=55.71 Aligned_cols=84 Identities=13% Similarity=0.142 Sum_probs=64.8
Q ss_pred CCCCccccc--cCeEEEeCCCCCCChHHHHHHHHhhccCCceEE-EEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHH
Q 003956 100 HLTNVRVIQ--RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLK-VSISRTATGDIQHSANNSCCVYITYSREDDAIRCI 176 (784)
Q Consensus 100 ~La~VRVIQ--RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~K-IvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI 176 (784)
.=++||+-. -+.|||-+||....+.++.+ +|..--.|.+ |.|.+...+. .+..|||.|.+++++..|.
T Consensus 423 ~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~---~f~~~~~Ved~I~lt~~P~~~------~~~~afv~F~~~~a~~~a~ 493 (944)
T KOG4307|consen 423 PGQNVPFPGGAGGALYVFQLPVMTPIVPPVN---KFMGAAAVEDFIELTRLPTDL------LRPAAFVAFIHPTAPLTAS 493 (944)
T ss_pred CCCCCCCCCCccceEEeccCCccccccchhh---hhhhhhhhhheeEeccCCccc------ccchhhheeccccccchhh
Confidence 344455443 37899999999999888884 8877777777 7776655433 3567999999999999998
Q ss_pred HHhCCCccCCceEEEe
Q 003956 177 QSVHSYILDGRPLRAC 192 (784)
Q Consensus 177 ~aLDG~~LdGRvLRAS 192 (784)
.--.-+.+..|.|||.
T Consensus 494 ~~~~k~y~G~r~irv~ 509 (944)
T KOG4307|consen 494 SVKTKFYPGHRIIRVD 509 (944)
T ss_pred hcccccccCceEEEee
Confidence 8878778888999875
No 163
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=84.37 E-value=2.6 Score=47.79 Aligned_cols=58 Identities=22% Similarity=0.388 Sum_probs=44.9
Q ss_pred EEEeCCCCCCChHHHHHHHHhhccCCc----eEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHH
Q 003956 112 VYIIGLPINLADEDLLQRKEYFGQYGK----VLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQS 178 (784)
Q Consensus 112 VYV~GLP~~IAeEDLLR~~EyFGQYGK----I~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~a 178 (784)
|-..|||...++.|++ +||++--. ..+|...+..+++ ++|-|||.|..+++|..|+..
T Consensus 164 vRmRGLPfdat~~dVv---~FF~~~cpv~~g~egvLFV~rpdgr------pTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 164 VRMRGLPFDATALDVV---EFFGPPCPVTGGTEGVLFVTRPDGR------PTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred EEecCCCCCcchHHHH---HhcCCCCcccCCccceEEEECCCCC------cccceEEEecCHHHHHHHHHH
Confidence 4457999999999998 79985433 3356555555553 577899999999999999876
No 164
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=84.34 E-value=1.2 Score=48.08 Aligned_cols=68 Identities=13% Similarity=0.279 Sum_probs=54.0
Q ss_pred ccccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhC
Q 003956 104 VRVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVH 180 (784)
Q Consensus 104 VRVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLD 180 (784)
||---+-.|||++|...+..|.++ +-|.+||.|..-|+.-+..+. +++-..|.|..+-.|.+|.....
T Consensus 26 ~rfa~~a~l~V~nl~~~~sndll~---~~f~~fg~~e~av~~vD~r~k------~t~eg~v~~~~k~~a~~a~rr~~ 93 (275)
T KOG0115|consen 26 VRFAMHAELYVVNLMQGASNDLLE---QAFRRFGPIERAVAKVDDRGK------PTREGIVEFAKKPNARKAARRCR 93 (275)
T ss_pred EEeeccceEEEEecchhhhhHHHH---HhhhhcCccchheeeeccccc------ccccchhhhhcchhHHHHHHHhc
Confidence 444455789999999999876665 699999999998887665443 35568999999999999998873
No 165
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=83.02 E-value=0.26 Score=59.49 Aligned_cols=93 Identities=19% Similarity=0.210 Sum_probs=68.8
Q ss_pred ccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 108 QRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 108 QRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
+-+.+||.+|++...+++|- +.|+.||-|..|.|......+ ..+|.|||.|...++|.+||...++..+.
T Consensus 666 ~~~~~fvsnl~~~~~~~dl~---~~~~~~~~~e~vqi~~h~n~~-----~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g-- 735 (881)
T KOG0128|consen 666 DLIKIFVSNLSPKMSEEDLS---ERFSPSGTIEVVQIVIHKNEK-----RFRGKAYVEFLKPEHAGAAVAFRDSCFFG-- 735 (881)
T ss_pred HHHHHHHhhcchhhcCchhh---hhcCccchhhhHHHHHHhhcc-----ccccceeeEeecCCchhhhhhhhhhhhhh--
Confidence 33679999999999999986 699999998877665222111 24778999999999999999988876554
Q ss_pred eEEEeecCCccccccccCcCCCCCCcccccCCCCCCCCCcHHHHHHhhh
Q 003956 188 PLRACFGTTKYCHAWIRNMPCSVPDCLYLHDFGSQEDSFTKDEIVSAFT 236 (784)
Q Consensus 188 vLRASfGTTKYCs~FLRn~~C~N~dCmYLHE~g~~~DsfTKeEm~~~~t 236 (784)
.-..||+|.+ -.=|||++.....
T Consensus 736 ----------K~~v~i~g~p----------------f~gt~e~~k~l~~ 758 (881)
T KOG0128|consen 736 ----------KISVAISGPP----------------FQGTKEELKSLAS 758 (881)
T ss_pred ----------hhhhheeCCC----------------CCCchHHHHhhcc
Confidence 2225777766 3457888776543
No 166
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.90 E-value=0.98 Score=52.32 Aligned_cols=51 Identities=27% Similarity=0.649 Sum_probs=38.1
Q ss_pred CCCCCCcccCCCccCCCcccc--CCCChhhhhhHHHHHHhhhccCCCCCCcccccccccc
Q 003956 6 EKTCPLCAEEMDLTDQQLKPC--NCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKE 63 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC--~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee 63 (784)
+..||+|.|+--. || .||+-.|.-|.=+..... +-..-+.||=||.-....
T Consensus 186 ~~~CPICL~~~~~------p~~t~CGHiFC~~CiLqy~~~s-~~~~~~~CPiC~s~I~~k 238 (513)
T KOG2164|consen 186 DMQCPICLEPPSV------PVRTNCGHIFCGPCILQYWNYS-AIKGPCSCPICRSTITLK 238 (513)
T ss_pred CCcCCcccCCCCc------ccccccCceeeHHHHHHHHhhh-cccCCccCCchhhhcccc
Confidence 6789999999854 33 499998888876666543 445778999999965543
No 167
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=82.68 E-value=0.97 Score=39.36 Aligned_cols=48 Identities=23% Similarity=0.618 Sum_probs=30.5
Q ss_pred ccCCCCCCcccCCCcc---------CCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccc
Q 003956 4 KAEKTCPLCAEEMDLT---------DQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACR 57 (784)
Q Consensus 4 e~d~~CPLC~EelD~t---------D~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACR 57 (784)
.+++.|++|.++|+.. +..+.-=+||+....-|..+-++ .+..||-||
T Consensus 17 ~~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~------~~~~CP~CR 73 (73)
T PF12678_consen 17 IADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLK------QNNTCPLCR 73 (73)
T ss_dssp SCCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHT------TSSB-TTSS
T ss_pred CcCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHh------cCCcCCCCC
Confidence 3456699999999322 11111126999977777766653 345999998
No 168
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=82.53 E-value=0.59 Score=52.02 Aligned_cols=50 Identities=20% Similarity=0.674 Sum_probs=39.5
Q ss_pred CCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
-.-|-||.|-|.+ --+-| ||+-+|-||-...+. ...-||+|+.++.|...
T Consensus 23 lLRC~IC~eyf~i--p~itp--CsHtfCSlCIR~~L~------~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 23 LLRCGICFEYFNI--PMITP--CSHTFCSLCIRKFLS------YKPQCPTCCVTVTESDL 72 (442)
T ss_pred HHHHhHHHHHhcC--ceecc--ccchHHHHHHHHHhc------cCCCCCceecccchhhh
Confidence 3579999999976 33444 999999999877763 57889999998887654
No 169
>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=82.40 E-value=1.6 Score=44.06 Aligned_cols=70 Identities=16% Similarity=0.177 Sum_probs=42.3
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhcc-CCceEE--EEE-eecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQ-YGKVLK--VSI-SRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYIL 184 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQ-YGKI~K--IvI-nrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~L 184 (784)
+..|-|..||+.+++++++ +.+.. ||.... .+. ........ +..-..|||.|.+.++...=+..+||..+
T Consensus 7 ~~KvVIR~LPP~LteeeF~---~~i~~~l~~~~~w~y~~g~~~~~~~~---~~~~SRaYi~F~~~~~~~~F~~~~~g~~F 80 (176)
T PF03467_consen 7 GTKVVIRRLPPNLTEEEFW---EQISPWLPDEWDWYYFQGKYGKKSFK---PPTYSRAYINFKNPEDLLEFRDRFDGHVF 80 (176)
T ss_dssp --EEEEEEE-TTS-HHHHC---CCCSS--SSE---EEEEEEES-SSST---TS--EEEEEEESSCHHHHHHHHHCTTEEE
T ss_pred CceEEEeCCCCCCCHHHHH---HHhhhhcccccceEEEecCCCCccCC---CCcceEEEEEeCCHHHHHHHHHhcCCcEE
Confidence 4578899999999998876 45555 665521 111 11111111 11223699999999999999999999766
No 170
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=82.18 E-value=0.35 Score=58.77 Aligned_cols=78 Identities=15% Similarity=0.235 Sum_probs=66.1
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
..+||+++|...+++-+|.+ .|+.||+|.+|.|.+.+.+. ...+|||.|.+-..|-+|...+-|-.|.--.
T Consensus 372 trTLf~Gnl~~kl~eseiR~---af~e~gkve~VDiKtP~~~~------esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~ 442 (975)
T KOG0112|consen 372 TRTLFLGNLDSKLTESEIRP---AFDESGKVEEVDIKTPHIKT------ESAYAFVSLLNTDMTPSAKFEESGPLIGNGT 442 (975)
T ss_pred hhhhhhcCcccchhhhhhhh---hhhhhccccccccccCCCCc------ccchhhhhhhccccCcccchhhcCCccccCc
Confidence 45799999999999988875 99999999999998765432 2457999999999999999999998887668
Q ss_pred EEEeecC
Q 003956 189 LRACFGT 195 (784)
Q Consensus 189 LRASfGT 195 (784)
+|+-||.
T Consensus 443 ~r~glG~ 449 (975)
T KOG0112|consen 443 HRIGLGQ 449 (975)
T ss_pred ccccccc
Confidence 8888874
No 171
>KOG3800 consensus Predicted E3 ubiquitin ligase containing RING finger, subunit of transcription/repair factor TFIIH and CDK-activating kinase assembly factor [Posttranslational modification, protein turnover, chaperones]
Probab=82.05 E-value=1.8 Score=47.39 Aligned_cols=53 Identities=26% Similarity=0.623 Sum_probs=39.1
Q ss_pred CCCCcccCC-CccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 8 TCPLCAEEM-DLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 8 ~CPLC~Eel-D~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
-||.|.-.- =.-|.-++-=+|||.+|--|..+|.. ...+.||.|-+..-...+
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~-----~g~~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFS-----LGPAQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHh-----cCCCCCCcccchhhhccc
Confidence 599996443 12233444459999999999999964 578999999997766655
No 172
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=81.96 E-value=1.6 Score=37.69 Aligned_cols=52 Identities=21% Similarity=0.314 Sum_probs=35.5
Q ss_pred CCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchh
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIV 66 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~ 66 (784)
+-.||||.+.| +|--.. +||+-+|+-|+.+-+. ...+.||-||++...+.+.
T Consensus 4 ~f~CpIt~~lM--~dPVi~--~~G~tyer~~I~~~l~-----~~~~~~P~t~~~l~~~~l~ 55 (73)
T PF04564_consen 4 EFLCPITGELM--RDPVIL--PSGHTYERSAIERWLE-----QNGGTDPFTRQPLSESDLI 55 (73)
T ss_dssp GGB-TTTSSB---SSEEEE--TTSEEEEHHHHHHHHC-----TTSSB-TTT-SB-SGGGSE
T ss_pred ccCCcCcCcHh--hCceeC--CcCCEEcHHHHHHHHH-----cCCCCCCCCCCcCCcccce
Confidence 46899999999 455554 5779988888877753 2479999999999887654
No 173
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.51 E-value=0.44 Score=53.04 Aligned_cols=51 Identities=20% Similarity=0.571 Sum_probs=36.7
Q ss_pred cCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccccc
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKE 63 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee 63 (784)
.+..||+|.+-|.. ..-.=.|++++|.-|.-.-+. ..+.-||.||+-....
T Consensus 42 ~~v~c~icl~llk~---tmttkeClhrfc~~ci~~a~r-----~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 42 IQVICPICLSLLKK---TMTTKECLHRFCFDCIWKALR-----SGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhccHHHHHHHHh---hcccHHHHHHHHHHHHHHHHH-----hcCCCCchHHhhcccc
Confidence 35789999887743 222337999999999765543 3688899999976543
No 174
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=80.09 E-value=0.7 Score=45.99 Aligned_cols=28 Identities=32% Similarity=0.958 Sum_probs=23.5
Q ss_pred cCCCChhhhhhHHHHHHhhhccCCCCCCccccccccc
Q 003956 26 CNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDK 62 (784)
Q Consensus 26 C~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yde 62 (784)
|+| -++|.-|...-+ ..+||+|+.||=.
T Consensus 2 ~kc-t~tC~ic~e~~~--------KYKCpkC~vPYCS 29 (157)
T KOG2857|consen 2 CKC-TTTCVICLESEI--------KYKCPKCSVPYCS 29 (157)
T ss_pred Ccc-eeeehhhhcchh--------hccCCCCCCcccc
Confidence 788 999999997653 5899999999954
No 175
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=78.45 E-value=2.2 Score=48.36 Aligned_cols=75 Identities=12% Similarity=0.267 Sum_probs=54.2
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLR 190 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLR 190 (784)
.|.|.||.+.++.+.|. .+||-.|+|..+.+.-+-... ..|...-.+||-|.+...+.-| +.|-++.+=|+.|-
T Consensus 9 vIqvanispsat~dqm~---tlFg~lGkI~elrlyp~~~d~--~~pv~sRtcyVkf~d~~sv~va-QhLtntvfvdrali 82 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQ---TLFGNLGKIPELRLYPNVDDS--KIPVISRTCYVKFLDSQSVTVA-QHLTNTVFVDRALI 82 (479)
T ss_pred eeeecccCchhhHHHHH---HHHhhccccccccccCCCCCc--cCcceeeeEEEeccCCcceeHH-hhhccceeeeeeEE
Confidence 45699999999998886 699999999999886432211 1233345699999998887776 55666666666554
Q ss_pred E
Q 003956 191 A 191 (784)
Q Consensus 191 A 191 (784)
|
T Consensus 83 v 83 (479)
T KOG4676|consen 83 V 83 (479)
T ss_pred E
Confidence 3
No 176
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=78.40 E-value=0.97 Score=54.89 Aligned_cols=77 Identities=21% Similarity=0.192 Sum_probs=65.2
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
|-.|+|.|.|+.-++|++. .+|.++|.++++.+...+.|+ +.|-|||-|.++.+|.+|...+++..+.-+.
T Consensus 736 K~~v~i~g~pf~gt~e~~k---~l~~~~gn~~~~~~vt~r~gk------pkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~ 806 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELK---SLASKTGNVTSLRLVTVRAGK------PKGKARVDYNTEADASRKVASVDVAGKRENN 806 (881)
T ss_pred hhhhheeCCCCCCchHHHH---hhccccCCccccchhhhhccc------cccceeccCCCcchhhhhcccchhhhhhhcC
Confidence 7789999999999988764 699999999999877666654 4678999999999999999999988887777
Q ss_pred EEEeec
Q 003956 189 LRACFG 194 (784)
Q Consensus 189 LRASfG 194 (784)
+.+..+
T Consensus 807 ~~v~vs 812 (881)
T KOG0128|consen 807 GEVQVS 812 (881)
T ss_pred cccccc
Confidence 666543
No 177
>KOG2923 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.55 E-value=1.1 Score=39.35 Aligned_cols=33 Identities=30% Similarity=0.717 Sum_probs=21.8
Q ss_pred CCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 21 QQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 21 ~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
.-++|||||-+ |.--++..+..+.-.+||.|--
T Consensus 20 ~y~yPCpCGDr-----f~It~edL~~ge~Va~CpsCSL 52 (67)
T KOG2923|consen 20 TYYYPCPCGDR-----FQITLEDLENGEDVARCPSCSL 52 (67)
T ss_pred eEEcCCCCCCe-----eeecHHHHhCCCeeecCCCceE
Confidence 34699999866 2222344445567789999965
No 178
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=76.32 E-value=1.8 Score=45.87 Aligned_cols=59 Identities=20% Similarity=0.522 Sum_probs=41.8
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchhcc
Q 003956 3 DKAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIVGM 68 (784)
Q Consensus 3 De~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~~~ 68 (784)
|...-+|.||.+.- .| .... .||+-.|+=|+++-+.. ......||-|+...+.++++.+
T Consensus 44 ~~~~FdCNICLd~a--kd-PVvT-lCGHLFCWpClyqWl~~---~~~~~~cPVCK~~Vs~~~vvPl 102 (230)
T KOG0823|consen 44 DGGFFDCNICLDLA--KD-PVVT-LCGHLFCWPCLYQWLQT---RPNSKECPVCKAEVSIDTVVPL 102 (230)
T ss_pred CCCceeeeeecccc--CC-CEEe-ecccceehHHHHHHHhh---cCCCeeCCccccccccceEEee
Confidence 34556899997654 22 2333 38999999999988763 2345568999999999988643
No 179
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=75.60 E-value=1.3 Score=50.26 Aligned_cols=50 Identities=30% Similarity=0.733 Sum_probs=44.8
Q ss_pred cCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
-+..|-+|-|.+-+.|.++..-||.+.+=.-|.+-|++ .+..-.||+||+
T Consensus 364 ~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~----~n~~rsCP~Crk 413 (518)
T KOG1941|consen 364 TELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILE----NNGTRSCPNCRK 413 (518)
T ss_pred HhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHH----hCCCCCCccHHH
Confidence 35689999999999999999999999999999999985 467788999995
No 180
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=75.41 E-value=2.3 Score=43.01 Aligned_cols=50 Identities=24% Similarity=0.670 Sum_probs=35.2
Q ss_pred ccCCCCCCcccCCCccCCCccccCC-C-----ChhhhhhHHHHHHhhhccCCCCCCcccccccccc
Q 003956 4 KAEKTCPLCAEEMDLTDQQLKPCNC-G-----YEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKE 63 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f~PC~C-G-----YQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee 63 (784)
..+..|-+|.++-+. ...||.| | +|-|+ .+=++ ....-+||-|+.+|.=.
T Consensus 6 ~~~~~CRIC~~~~~~---~~~PC~CkGs~k~VH~sCL---~rWi~----~s~~~~CeiC~~~Y~i~ 61 (162)
T PHA02825 6 LMDKCCWICKDEYDV---VTNYCNCKNENKIVHKECL---EEWIN----TSKNKSCKICNGPYNIK 61 (162)
T ss_pred CCCCeeEecCCCCCC---ccCCcccCCCchHHHHHHH---HHHHh----cCCCCcccccCCeEEEE
Confidence 456899999999652 4579999 6 56555 33222 23577999999999644
No 181
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=74.21 E-value=4.7 Score=44.61 Aligned_cols=44 Identities=30% Similarity=0.775 Sum_probs=30.9
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
..||||--.|--- ---|| ||.-+|--|....+ -+.+..||.|.+
T Consensus 275 LkCplc~~Llrnp--~kT~c-C~~~fc~eci~~al-----~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRNP--MKTPC-CGHTFCDECIGTAL-----LDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhCc--ccCcc-ccchHHHHHHhhhh-----hhccccCCCccc
Confidence 6899998766321 11144 89999999986543 136899999987
No 182
>PF10650 zf-C3H1: Putative zinc-finger domain; InterPro: IPR019607 This domain is conserved in fungi and might be a zinc-finger domain as it contains three conserved Cs and an H in the C-x8-C-x5-C-x3-H conformation typical of a zinc-finger.
Probab=74.11 E-value=1.8 Score=31.24 Aligned_cols=20 Identities=30% Similarity=0.694 Sum_probs=18.5
Q ss_pred cccccccCcCCCCCCccccc
Q 003956 198 YCHAWIRNMPCSVPDCLYLH 217 (784)
Q Consensus 198 YCs~FLRn~~C~N~dCmYLH 217 (784)
-|.+.|+|..|++++|.|.|
T Consensus 2 lC~yEl~Gg~Cnd~~C~~QH 21 (23)
T PF10650_consen 2 LCPYELTGGVCNDPDCEFQH 21 (23)
T ss_pred CCccccCCCeeCCCCCCccc
Confidence 47889999999999999999
No 183
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.98 E-value=1.8 Score=48.37 Aligned_cols=50 Identities=26% Similarity=0.674 Sum_probs=38.5
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccc
Q 003956 4 KAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDK 62 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yde 62 (784)
|.-.+|=+|+.+- .|....||. -.-+|.-|-.-++ -+..+||=||++..+
T Consensus 288 ~~gkeCVIClse~--rdt~vLPCR-HLCLCs~Ca~~Lr------~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSES--RDTVVLPCR-HLCLCSGCAKSLR------YQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCC--cceEEecch-hhehhHhHHHHHH------HhhcCCCccccchHh
Confidence 3357999999986 788999994 1237888988886 246899999998754
No 184
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=72.63 E-value=15 Score=37.17 Aligned_cols=72 Identities=15% Similarity=0.282 Sum_probs=51.1
Q ss_pred cCeEEEeCCCCCCC-hHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 109 RNLVYIIGLPINLA-DEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 109 RNLVYV~GLP~~IA-eEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
-.+|-|.=|.-++. .||+..--.....||.|..|.+- | +-+|-|+|.+...|-+|+.+... ..-|.
T Consensus 86 MsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c----G--------rqsavVvF~d~~SAC~Av~Af~s-~~pgt 152 (166)
T PF15023_consen 86 MSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC----G--------RQSAVVVFKDITSACKAVSAFQS-RAPGT 152 (166)
T ss_pred ceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec----C--------CceEEEEehhhHHHHHHHHhhcC-CCCCc
Confidence 34556655554443 34442224578999999999764 1 23699999999999999999775 66788
Q ss_pred eEEEee
Q 003956 188 PLRACF 193 (784)
Q Consensus 188 vLRASf 193 (784)
.++++|
T Consensus 153 m~qCsW 158 (166)
T PF15023_consen 153 MFQCSW 158 (166)
T ss_pred eEEeec
Confidence 888876
No 185
>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=72.29 E-value=5.1 Score=35.08 Aligned_cols=30 Identities=17% Similarity=0.419 Sum_probs=27.2
Q ss_pred EEEEeCCHHHHHHHHHHhCCCccCCceEEE
Q 003956 162 VYITYSREDDAIRCIQSVHSYILDGRPLRA 191 (784)
Q Consensus 162 AYVTFs~kEDA~kAI~aLDG~~LdGRvLRA 191 (784)
-||.|.+.+||.+|..+.||..+.+..|..
T Consensus 36 fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M 65 (66)
T PF11767_consen 36 FYIVFNDSKEAERCFRAEDGTLFFTYRMQM 65 (66)
T ss_pred EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence 799999999999999999999998877653
No 186
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=71.79 E-value=0.47 Score=42.07 Aligned_cols=42 Identities=31% Similarity=0.718 Sum_probs=27.1
Q ss_pred CCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccc
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDK 62 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yde 62 (784)
|..||.|-.+|+.+. |-..|..|-.++. ..++||.|..+...
T Consensus 1 e~~CP~C~~~L~~~~--------~~~~C~~C~~~~~-------~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 1 ENTCPKCQQELEWQG--------GHYHCEACQKDYK-------KEAFCPDCGQPLEV 42 (70)
T ss_dssp --B-SSS-SBEEEET--------TEEEETTT--EEE-------EEEE-TTT-SB-EE
T ss_pred CCcCCCCCCccEEeC--------CEEECccccccce-------ecccCCCcccHHHH
Confidence 458999999999877 6667888988874 57899999998754
No 187
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=70.51 E-value=1.6 Score=38.00 Aligned_cols=37 Identities=22% Similarity=0.621 Sum_probs=20.8
Q ss_pred CccCCCc-cccCCCChhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 17 DLTDQQL-KPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 17 D~tD~~f-~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
+...+.| +|||||-+. .--+..++ .-+.-.|||.|--
T Consensus 15 ~~e~~~ftyPCPCGDRF-eIsLeDl~----~GE~VArCPSCSL 52 (67)
T COG5216 15 SREEKTFTYPCPCGDRF-EISLEDLR----NGEVVARCPSCSL 52 (67)
T ss_pred cCCCceEEecCCCCCEe-EEEHHHhh----CCceEEEcCCceE
Confidence 3334444 899998651 00122222 2345689999965
No 188
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=68.87 E-value=3.2 Score=46.61 Aligned_cols=53 Identities=21% Similarity=0.648 Sum_probs=40.9
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 4 KAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
+++..||+|+-.+-. .+.+=.||...|.+|...... ....||+||++-.-+..
T Consensus 19 ~~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~------~~~~cp~~~~~~~~~~~ 71 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLS------NHQKCPVCRQELTQAEE 71 (391)
T ss_pred cccccCccccccccC---CCCCCCCCCcccccccchhhc------cCcCCcccccccchhhc
Confidence 456899999999843 444478999999999988853 27899999997655443
No 189
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=68.87 E-value=2.9 Score=36.35 Aligned_cols=53 Identities=26% Similarity=0.521 Sum_probs=20.1
Q ss_pred CCCCCCcccCCC-ccCCCcccc---CCC---ChhhhhhHHHHHHhhhcc-----CCCCCCcccccccc
Q 003956 6 EKTCPLCAEEMD-LTDQQLKPC---NCG---YEICVWCWNHIMEMAEKD-----GTEGRCPACRTAYD 61 (784)
Q Consensus 6 d~~CPLC~EelD-~tD~~f~PC---~CG---YQIC~fC~~~I~~~~~k~-----~~~grCPACRr~Yd 61 (784)
+..|+||++.+. .....-.-| .|+ +..|+.=|=+= .++. -..|.||.|++++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~---~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLS---LEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHH---HHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHH---cccCCeeecccccCCcCCCCeee
Confidence 578999999875 222333444 675 45566655221 1121 23578999999753
No 190
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.83 E-value=3.3 Score=46.50 Aligned_cols=60 Identities=25% Similarity=0.534 Sum_probs=42.6
Q ss_pred CCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCc--cccccccccch
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCP--ACRTAYDKEKI 65 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCP--ACRr~Ydee~i 65 (784)
...|.+|+.+.--.|..|....|++++|..||.+-++.........+|| .|-.....+..
T Consensus 146 ~~~C~iC~~e~~~~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~~c 207 (384)
T KOG1812|consen 146 KEECGICFVEDPEAEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLESC 207 (384)
T ss_pred cccCccCccccccHhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHHHH
Confidence 4689999944434556666999999999999987776544455667776 46665554443
No 191
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=66.64 E-value=3.7 Score=50.25 Aligned_cols=71 Identities=21% Similarity=0.337 Sum_probs=56.8
Q ss_pred EEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCcc--CCceEE
Q 003956 113 YIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYIL--DGRPLR 190 (784)
Q Consensus 113 YV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~L--dGRvLR 190 (784)
|+-+.+..++-- .| ..+|.+||+|..+...|+-. -|-|.|...|.|..|..++.|.++ -|-+.|
T Consensus 302 ~~~nn~v~~tSs-sL--~~l~s~yg~v~s~wtlr~~N-----------~alvs~~s~~sai~a~dAl~gkevs~~g~Ps~ 367 (1007)
T KOG4574|consen 302 SLENNAVNLTSS-SL--ATLCSDYGSVASAWTLRDLN-----------MALVSFSSVESAILALDALQGKEVSVTGAPSR 367 (1007)
T ss_pred hhhcccccchHH-HH--HHHHHhhcchhhheeccccc-----------chhhhhHHHHHHHHhhhhhcCCcccccCCcee
Confidence 555555555543 34 37999999999999887653 388999999999999999999986 588999
Q ss_pred EeecCCc
Q 003956 191 ACFGTTK 197 (784)
Q Consensus 191 ASfGTTK 197 (784)
|.|+.+-
T Consensus 368 V~~ak~~ 374 (1007)
T KOG4574|consen 368 VSFAKTL 374 (1007)
T ss_pred EEecccc
Confidence 9998763
No 192
>PF14447 Prok-RING_4: Prokaryotic RING finger family 4
Probab=66.55 E-value=2.6 Score=36.03 Aligned_cols=32 Identities=31% Similarity=0.718 Sum_probs=25.2
Q ss_pred cCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 26 CNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 26 C~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
-+||+-||.-||.--+ .+| ||-|-++++...+
T Consensus 23 ~pCgH~I~~~~f~~~r-------Yng-CPfC~~~~~~~~~ 54 (55)
T PF14447_consen 23 LPCGHLICDNCFPGER-------YNG-CPFCGTPFEFDDP 54 (55)
T ss_pred ccccceeeccccChhh-------ccC-CCCCCCcccCCCC
Confidence 4789999999998542 344 9999999987654
No 193
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=66.44 E-value=9.6 Score=45.13 Aligned_cols=85 Identities=19% Similarity=0.306 Sum_probs=57.2
Q ss_pred CCCcccccc-CeEEEeCCCCCCChHHHHHHHHhhcc--CCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHH
Q 003956 101 LTNVRVIQR-NLVYIIGLPINLADEDLLQRKEYFGQ--YGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQ 177 (784)
Q Consensus 101 La~VRVIQR-NLVYV~GLP~~IAeEDLLR~~EyFGQ--YGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~ 177 (784)
...||-++| ..|.+.-||.....|++. .+|.- --+++......+ . .-||||++.+||..|.+
T Consensus 166 gekVrp~~kRcIvilREIpettp~e~Vk---~lf~~encPk~iscefa~N-----------~-nWyITfesd~DAQqAyk 230 (684)
T KOG2591|consen 166 GEKVRPNHKRCIVILREIPETTPIEVVK---ALFKGENCPKVISCEFAHN-----------D-NWYITFESDTDAQQAYK 230 (684)
T ss_pred ccccccCcceeEEEEeecCCCChHHHHH---HHhccCCCCCceeeeeeec-----------C-ceEEEeecchhHHHHHH
Confidence 344665555 566777888888777764 47742 334444443322 1 37999999999999999
Q ss_pred HhCC--CccCCceEEEeecCCccccccc
Q 003956 178 SVHS--YILDGRPLRACFGTTKYCHAWI 203 (784)
Q Consensus 178 aLDG--~~LdGRvLRASfGTTKYCs~FL 203 (784)
.|-. .+|-|++|.|.+-+ |..|+
T Consensus 231 ylreevk~fqgKpImARIKa---intf~ 255 (684)
T KOG2591|consen 231 YLREEVKTFQGKPIMARIKA---INTFF 255 (684)
T ss_pred HHHHHHHhhcCcchhhhhhh---hhccc
Confidence 8865 46889998877643 66655
No 194
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=65.84 E-value=6.5 Score=44.32 Aligned_cols=74 Identities=12% Similarity=0.194 Sum_probs=52.0
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCce
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRP 188 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRv 188 (784)
|=.+|||||-|..+++|||+--.-.|-- .|.+|....++..+ ...|+|.|..-.....++-++-|--.+|.|..
T Consensus 80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~-~~~dmKFFENR~NG-----QSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~ 153 (498)
T KOG4849|consen 80 KYCCYVGNLLWYTTDADLLKALQSTGLA-QFADMKFFENRTNG-----QSKGYALLVLNSDAAVKQTMEILPTKTIHGQS 153 (498)
T ss_pred eEEEEecceeEEeccHHHHHHHHhhhHH-HHhhhhhhhcccCC-----cccceEEEEecchHHHHHHHHhcccceecCCC
Confidence 5578999999999999998632222211 34445443333322 24778999999988888888888888888863
No 195
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=62.06 E-value=4.9 Score=27.27 Aligned_cols=10 Identities=30% Similarity=0.986 Sum_probs=9.7
Q ss_pred CCCC-Cccccc
Q 003956 208 CSVP-DCLYLH 217 (784)
Q Consensus 208 C~N~-dCmYLH 217 (784)
|.|. +|.|.|
T Consensus 8 C~~~~~C~f~H 18 (19)
T PF14608_consen 8 CTNGDNCPFSH 18 (19)
T ss_pred CCCCCcCccCC
Confidence 9998 999999
No 196
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.71 E-value=3.2 Score=35.86 Aligned_cols=47 Identities=30% Similarity=0.714 Sum_probs=33.1
Q ss_pred CCCCCCcccCCCccCCCccccCCCCh-hhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNCGYE-ICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~CGYQ-IC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
+.+|-+|+|-- .|..++.| |+- +|--|--++. ....|.||-||+|..
T Consensus 7 ~dECTICye~p--vdsVlYtC--GHMCmCy~Cg~rl~-----~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEHP--VDSVLYTC--GHMCMCYACGLRLK-----KALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccCc--chHHHHHc--chHHhHHHHHHHHH-----HccCCcCcchhhHHH
Confidence 47899999964 67778865 542 4555555553 348999999999753
No 197
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=60.00 E-value=14 Score=39.11 Aligned_cols=49 Identities=27% Similarity=0.681 Sum_probs=39.8
Q ss_pred CCCCCcccCCCccCCCc--cccCCCChhhhhhHHHHHHhhhccCCCCCCccccccc
Q 003956 7 KTCPLCAEEMDLTDQQL--KPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAY 60 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f--~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Y 60 (784)
..|-+|-++++.-|..- +--+||.-||..|..++. .+....||-||.+-
T Consensus 4 ~~c~~c~~~~s~~~~~~~p~~l~c~h~~c~~c~~~l~-----~~~~i~cpfcR~~~ 54 (296)
T KOG4185|consen 4 PECEICNEDYSSEDGDHIPRVLKCGHTICQNCASKLL-----GNSRILCPFCRETT 54 (296)
T ss_pred CceeecCccccccCcccCCcccccCceehHhHHHHHh-----cCceeeccCCCCcc
Confidence 57999999997664444 334799999999999996 46788999999984
No 198
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=59.85 E-value=3.2 Score=31.45 Aligned_cols=26 Identities=42% Similarity=0.944 Sum_probs=15.2
Q ss_pred CCCCCcccCCCccCCCcccc-CCCChh
Q 003956 7 KTCPLCAEEMDLTDQQLKPC-NCGYEI 32 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC-~CGYQI 32 (784)
..||+|-.+....|...+-| .||||+
T Consensus 3 p~Cp~C~se~~y~D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELLVCPECGHEW 29 (30)
T ss_dssp ---TTT-----EE-SSSEEETTTTEEE
T ss_pred CCCCCCCCcceeccCCEEeCCcccccC
Confidence 57999999999999999999 788874
No 199
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=57.29 E-value=0.68 Score=52.72 Aligned_cols=71 Identities=23% Similarity=0.388 Sum_probs=56.2
Q ss_pred eEEEeCCCCCCChHHHHHHHHhhccCCceEEEEE-eecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 111 LVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSI-SRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 111 LVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvI-nrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
.+-|.++|+.+.-| +|. .+.++||.+..+.+ +.+.. ...+-|||...+.+..||..++|.+|+..-+
T Consensus 82 k~Qirnippql~we-vld--~Ll~qyg~ve~~eqvnt~~e---------tavvnvty~~~~~~~~ai~kl~g~Q~en~~~ 149 (584)
T KOG2193|consen 82 KIQIRNIPPQLQWE-VLD--SLLAQYGTVENCEQVNTDSE---------TAVVNVTYSAQQQHRQAIHKLNGPQLENQHL 149 (584)
T ss_pred hhhHhcCCHHHHHH-HHH--HHHhccCCHhHhhhhccchH---------HHHHHHHHHHHHHHHHHHHhhcchHhhhhhh
Confidence 36677888888754 554 59999999998755 33322 3346789999999999999999999999999
Q ss_pred EEee
Q 003956 190 RACF 193 (784)
Q Consensus 190 RASf 193 (784)
+++|
T Consensus 150 k~~Y 153 (584)
T KOG2193|consen 150 KVGY 153 (584)
T ss_pred hccc
Confidence 8876
No 200
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=56.52 E-value=25 Score=40.95 Aligned_cols=67 Identities=18% Similarity=0.379 Sum_probs=56.3
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCC-ceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYG-KVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD 185 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYG-KI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld 185 (784)
.++|.|.++|.-++--|+|+ |.+.+= .|..|.|.|+... .++.+-|+|.+.++|..=-+..||..+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll~---F~~~~~~~I~~irivRd~~p-------nrymvLIkFr~q~da~~Fy~efNGk~Fn 141 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLR---FCASFIKQISDIRIVRDGMP-------NRYMVLIKFRDQADADTFYEEFNGKQFN 141 (493)
T ss_pred CcEEEEEeccccccHHHHHH---HHHHHhhhhheeEEeecCCC-------ceEEEEEEeccchhHHHHHHHcCCCcCC
Confidence 78899999999999999996 666554 3668889985432 4889999999999999999999998774
No 201
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=55.31 E-value=6.2 Score=45.58 Aligned_cols=49 Identities=27% Similarity=0.574 Sum_probs=29.8
Q ss_pred cCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
|-++||.|.|.||..=.-+.|-.|.+-.=.-|..+- .+-.||-||---.
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w--------~~~scpvcR~~q~ 222 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKW--------WDSSCPVCRYCQS 222 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhc--------ccCcChhhhhhcC
Confidence 457999999999976666666655433212233322 3456777775333
No 202
>COG5220 TFB3 Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, subunit TFB3 [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair]
Probab=53.45 E-value=7.6 Score=41.93 Aligned_cols=52 Identities=25% Similarity=0.661 Sum_probs=37.4
Q ss_pred CCCCCCcccCCCc-cCCCccccC-CCChhhhhhHHHHHHhhhccCCCCCCc--cccccccc
Q 003956 6 EKTCPLCAEEMDL-TDQQLKPCN-CGYEICVWCWNHIMEMAEKDGTEGRCP--ACRTAYDK 62 (784)
Q Consensus 6 d~~CPLC~EelD~-tD~~f~PC~-CGYQIC~fC~~~I~~~~~k~~~~grCP--ACRr~Yde 62 (784)
|.-||+|.-+-=+ -|..|+-=| |=++||--|..||.. .....|| +|-+-.-+
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs-----~GpAqCP~~gC~kILRK 65 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFS-----RGPAQCPYKGCGKILRK 65 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhc-----CCCCCCCCccHHHHHHH
Confidence 4689999755322 234555555 999999999999974 4678999 99874433
No 203
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.73 E-value=9 Score=41.96 Aligned_cols=50 Identities=22% Similarity=0.549 Sum_probs=36.8
Q ss_pred cCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
.+.+||+|-|+=.+ .+.-=+||+..|-+|-..-+. .+--..||+|-.+-.
T Consensus 238 ~~~~C~~Cg~~Pti---P~~~~~C~HiyCY~Ci~ts~~----~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 238 SDTECPVCGEPPTI---PHVIGKCGHIYCYYCIATSRL----WDASFTCPLCGENVE 287 (298)
T ss_pred CCceeeccCCCCCC---Ceeeccccceeehhhhhhhhc----chhhcccCccCCCCc
Confidence 45799999998766 555567999988888876553 223468999987543
No 204
>smart00356 ZnF_C3H1 zinc finger.
Probab=51.22 E-value=13 Score=25.68 Aligned_cols=23 Identities=26% Similarity=0.631 Sum_probs=16.9
Q ss_pred CccccccccCcCCCC-CCcccccCC
Q 003956 196 TKYCHAWIRNMPCSV-PDCLYLHDF 219 (784)
Q Consensus 196 TKYCs~FLRn~~C~N-~dCmYLHE~ 219 (784)
+..|..|+. -.|.. +.|.|+|..
T Consensus 4 ~~~C~~~~~-g~C~~g~~C~~~H~~ 27 (27)
T smart00356 4 TELCKFFKR-GYCPYGDRCKFAHPL 27 (27)
T ss_pred CCcCcCccC-CCCCCCCCcCCCCcC
Confidence 457988944 46765 689999974
No 205
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=49.10 E-value=25 Score=40.02 Aligned_cols=67 Identities=22% Similarity=0.619 Sum_probs=46.3
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCC--CCCc--cccccccccchhccccCh
Q 003956 3 DKAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTE--GRCP--ACRTAYDKEKIVGMAANC 72 (784)
Q Consensus 3 De~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~--grCP--ACRr~Ydee~i~~~~~~~ 72 (784)
+..+..|.+|++..+. .+.-=.||+.+|..||...+...=-.+.. -.|| .|+..-+++.|.......
T Consensus 67 ~~~~~~c~ic~~~~~~---~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s~~ 137 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG---EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVSDK 137 (444)
T ss_pred CCccccCCcccCCCcc---hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecCCH
Confidence 3456899999999976 44445799999999998755421112233 2466 799999988887654443
No 206
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=44.88 E-value=12 Score=42.90 Aligned_cols=46 Identities=30% Similarity=0.733 Sum_probs=35.7
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccc
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAY 60 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Y 60 (784)
+.|-||.| .|+..+-=+||+-+|--|+..--+ .++..-||.||-+.
T Consensus 370 eLCKICae----ndKdvkIEPCGHLlCt~CLa~WQ~----sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 370 ELCKICAE----NDKDVKIEPCGHLLCTSCLAAWQD----SDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHHhhc----cCCCcccccccchHHHHHHHhhcc----cCCCCCCCceeeEe
Confidence 46888876 577788888999999999987642 33456799999866
No 207
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=43.01 E-value=19 Score=40.05 Aligned_cols=50 Identities=22% Similarity=0.474 Sum_probs=34.6
Q ss_pred CCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccc
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEK 64 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~ 64 (784)
..+|++|...+-. . .--.|++..|.-|...-. + +..+-|+-||+|+++.-
T Consensus 7 ~~eC~IC~nt~n~-P---v~l~C~HkFCyiCiKGsy----~-ndk~~CavCR~pids~i 56 (324)
T KOG0824|consen 7 KKECLICYNTGNC-P---VNLYCFHKFCYICIKGSY----K-NDKKTCAVCRFPIDSTI 56 (324)
T ss_pred CCcceeeeccCCc-C---ccccccchhhhhhhcchh----h-cCCCCCceecCCCCcch
Confidence 5789999998843 2 334788986666654432 2 23455999999999874
No 208
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=42.69 E-value=18 Score=44.73 Aligned_cols=54 Identities=24% Similarity=0.660 Sum_probs=41.1
Q ss_pred cCCCCCCcccCCCccCCCccccCCC------ChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPCNCG------YEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC~CG------YQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
|+..|-+|--|=-..|..|-||+|. +|-|+-=|-. .....+|--|.-+|.=++|
T Consensus 11 d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~-------~s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 11 DKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWME-------CSGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred cchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHh-------cCCCcceeeecceeeeeee
Confidence 3589999998887888999999994 3556555533 3467899999998866554
No 209
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=41.46 E-value=13 Score=35.16 Aligned_cols=49 Identities=20% Similarity=0.522 Sum_probs=35.7
Q ss_pred cCCCCCCcccCCCccCCCcccc-CCCChhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPC-NCGYEICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC-~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
++..|.+|..+|.+-+..-..| .|++.||.-|--.. +....-+|-.|++
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~~-----~~~~~WlC~vC~k 102 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVYS-----KKEPIWLCKVCQK 102 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEET-----SSSCCEEEHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCcC-----CCCCCEEChhhHH
Confidence 5679999999998877666888 89999999887653 2334567888876
No 210
>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=41.43 E-value=1.6e+02 Score=28.24 Aligned_cols=68 Identities=16% Similarity=0.289 Sum_probs=47.1
Q ss_pred cCeEEEeCCCCCCChHHHHHHHHhhccCCc-eEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 003956 109 RNLVYIIGLPINLADEDLLQRKEYFGQYGK-VLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILD 185 (784)
Q Consensus 109 RNLVYV~GLP~~IAeEDLLR~~EyFGQYGK-I~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~Ld 185 (784)
+..|.|...|+....-+.|. .+.+.+-+ |..+.|.|+... .++-+-|.|.+.++|..-.+..||..+.
T Consensus 12 ~~~~~~l~vp~~~~~~d~l~--~f~~~~~~~i~~~riird~~p-------nrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 12 RSTLCCLAVPPYMTPSDFLL--FFGAPFREDIEHIRIIRDGTP-------NRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred CceEEEEEeCcccccHHHHH--HhhhcccccEEEEEEeeCCCC-------ceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 45566666666655544442 23344444 446677776432 4889999999999999999999999874
No 211
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=41.39 E-value=25 Score=32.36 Aligned_cols=54 Identities=24% Similarity=0.709 Sum_probs=28.8
Q ss_pred CCCCCCcccCCCccCCC--c--cccCCCChhhhhhHHH--HHH-hhhccCCCCCCccccccc
Q 003956 6 EKTCPLCAEEMDLTDQQ--L--KPCNCGYEICVWCWNH--IME-MAEKDGTEGRCPACRTAY 60 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~--f--~PC~CGYQIC~fC~~~--I~~-~~~k~~~~grCPACRr~Y 60 (784)
+++|-||--+||-.=.. | --||==.-+|+-++|. |.+ .+.+ .-++.||-||+.+
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~-tsq~~CPmcRq~~ 80 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTP-TSQGQCPMCRQTW 80 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCc-cccccCCcchhee
Confidence 34666666665542110 0 0133323467777743 444 3333 4469999999965
No 212
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=41.13 E-value=12 Score=46.85 Aligned_cols=49 Identities=27% Similarity=0.700 Sum_probs=31.6
Q ss_pred ccCCCCCCcccCCCccCCCc--cccCCCChhhhhhHHHHH-----HhhhccCCCCCCccccccc
Q 003956 4 KAEKTCPLCAEEMDLTDQQL--KPCNCGYEICVWCWNHIM-----EMAEKDGTEGRCPACRTAY 60 (784)
Q Consensus 4 e~d~~CPLC~EelD~tD~~f--~PC~CGYQIC~fC~~~I~-----~~~~k~~~~grCPACRr~Y 60 (784)
++-++||+|+--||..|+.+ +.| |- |-|++- .- .+...+.+||-||..+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC--~T-----CknKFH~~CLyKW-f~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRC--AT-----CKNKFHTRCLYKW-FASSARSNCPLCRSEI 1522 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCcccc--ch-----hhhhhhHHHHHHH-HHhcCCCCCCcccccc
Confidence 45689999999999999988 566 10 000000 00 0245788999999744
No 213
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=40.26 E-value=16 Score=39.64 Aligned_cols=109 Identities=13% Similarity=0.117 Sum_probs=74.5
Q ss_pred CeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceE
Q 003956 110 NLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPL 189 (784)
Q Consensus 110 NLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvL 189 (784)
...||+.+.+.+.+++.- .+|-+||.+....+....... + ..++.||-|..++.+..|++..-.+.++++.+
T Consensus 89 ~~~f~g~~s~~~e~~~~~---~~~~~~g~~~~~~~S~~~~~~----~-sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~ 160 (285)
T KOG4210|consen 89 STFFVGELSENIEESEDD---NFSSEAGLRVDARSSSLEDSL----S-SKGGLSVHFAGKSQFFAALEESGSKVLDGNKG 160 (285)
T ss_pred ccccccccccchhhcccc---ccchhhcCcccchhhhhcccc----c-cccceeeccccHHHHHHHHHhhhccccccccc
Confidence 457999999888665332 588999988888776544322 1 35569999999999999999877789999999
Q ss_pred EEeecCCccccccccCcCCCCC-----CcccccC-CCCCCCCCcHHHHH
Q 003956 190 RACFGTTKYCHAWIRNMPCSVP-----DCLYLHD-FGSQEDSFTKDEIV 232 (784)
Q Consensus 190 RASfGTTKYCs~FLRn~~C~N~-----dCmYLHE-~g~~~DsfTKeEm~ 232 (784)
...+.+..- -+.|+.. .+-+.=. .+.-..+.|++|+.
T Consensus 161 ~~dl~~~~~------~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~ 203 (285)
T KOG4210|consen 161 EKDLNTRRG------LRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLK 203 (285)
T ss_pred cCccccccc------ccccchhcccccCccccceeecccccccchHHHh
Confidence 988876643 1122221 2222222 33444567888876
No 214
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=39.96 E-value=31 Score=28.26 Aligned_cols=46 Identities=24% Similarity=0.625 Sum_probs=28.9
Q ss_pred CCCCcccCCCccCCCccccCCCC---hhhhhhHHHHHHhhhccCCCCCCcccc
Q 003956 8 TCPLCAEEMDLTDQQLKPCNCGY---EICVWCWNHIMEMAEKDGTEGRCPACR 57 (784)
Q Consensus 8 ~CPLC~EelD~tD~~f~PC~CGY---QIC~fC~~~I~~~~~k~~~~grCPACR 57 (784)
.|-+|.+..+..+..+.||.|.- -+=.-|+.+=+.. .....||-|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~----~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINE----SGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHH----cCCCcCCCCC
Confidence 48899997777788889999941 1113344444321 1234898884
No 215
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=39.74 E-value=15 Score=41.10 Aligned_cols=40 Identities=28% Similarity=0.693 Sum_probs=27.8
Q ss_pred CCCCCCcccCCCccCCCccccCC---CChhhhhhHHHHHHhhhccCCCCCCcccc
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNC---GYEICVWCWNHIMEMAEKDGTEGRCPACR 57 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~C---GYQIC~fC~~~I~~~~~k~~~~grCPACR 57 (784)
...||+|.-.- --||.| ||-.|--|-.+-+. ..|+||---
T Consensus 300 ~~~CpvClk~r------~Nptvl~vSGyVfCY~Ci~~Yv~------~~~~CPVT~ 342 (357)
T KOG0826|consen 300 REVCPVCLKKR------QNPTVLEVSGYVFCYPCIFSYVV------NYGHCPVTG 342 (357)
T ss_pred cccChhHHhcc------CCCceEEecceEEeHHHHHHHHH------hcCCCCccC
Confidence 37899997654 357766 99977777655542 479998433
No 216
>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....
Probab=39.54 E-value=10 Score=27.36 Aligned_cols=23 Identities=30% Similarity=0.790 Sum_probs=17.8
Q ss_pred CccccccccCcCCCC-CCcccccC
Q 003956 196 TKYCHAWIRNMPCSV-PDCLYLHD 218 (784)
Q Consensus 196 TKYCs~FLRn~~C~N-~dCmYLHE 218 (784)
++-|..|++.-.|.. ..|.|+|.
T Consensus 3 ~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 3 TKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp SSB-HHHHHTS--TTGGGSSSBSS
T ss_pred cccChhhccCCccCCCCCcCccCC
Confidence 678999999889999 78999996
No 217
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=38.82 E-value=15 Score=29.67 Aligned_cols=33 Identities=30% Similarity=0.659 Sum_probs=19.0
Q ss_pred cCCCCCC--cccCCCccCCCc---cccC-CCChhhhhhH
Q 003956 5 AEKTCPL--CAEEMDLTDQQL---KPCN-CGYEICVWCW 37 (784)
Q Consensus 5 ~d~~CPL--C~EelD~tD~~f---~PC~-CGYQIC~fC~ 37 (784)
+-..||- |-..+-..+..- .-|+ |++++|.-|.
T Consensus 17 ~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~ 55 (64)
T PF01485_consen 17 NIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCG 55 (64)
T ss_dssp -CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSST
T ss_pred CccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccC
Confidence 3358877 988886665555 4698 9999888875
No 218
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=37.97 E-value=16 Score=28.52 Aligned_cols=25 Identities=28% Similarity=0.781 Sum_probs=22.7
Q ss_pred CCCCcccCCCccCCCcccc-CCCChh
Q 003956 8 TCPLCAEEMDLTDQQLKPC-NCGYEI 32 (784)
Q Consensus 8 ~CPLC~EelD~tD~~f~PC-~CGYQI 32 (784)
.|+.|-..+...|.-|+-| .||.|+
T Consensus 10 ~C~~C~~~~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 10 PCPVCGSRWFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred cCCCCCCeEeEccCCEEEhhhCceEc
Confidence 4999999999999999999 999874
No 219
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=37.58 E-value=30 Score=36.18 Aligned_cols=63 Identities=19% Similarity=0.205 Sum_probs=41.6
Q ss_pred cccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhC
Q 003956 107 IQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVH 180 (784)
Q Consensus 107 IQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLD 180 (784)
|+...||.- +..-.-++|+ ++-+ |++..|.+-+..... +.-.|++||||.+.+.|..+++.-.
T Consensus 109 ~~~r~v~~K--~td~ql~~l~---qw~~--~k~~nv~mr~~~~k~----~~fkGsvkv~f~tk~qa~a~~~~~e 171 (205)
T KOG4213|consen 109 IKERTVYKK--ITDDQLDDLN---QWAS--GKGHNVKMRRHGNKA----HPFKGSVKVTFQTKEQAFANDDTHE 171 (205)
T ss_pred HHHhhhhcc--CCHHHHHHHH---HHhc--ccceEeeccccCCCC----CCCCCceEEEeecHHHHHhhhhhhh
Confidence 455667777 2222223444 3445 999999887654432 1247789999999999999988644
No 220
>PHA02862 5L protein; Provisional
Probab=36.32 E-value=30 Score=35.11 Aligned_cols=46 Identities=22% Similarity=0.559 Sum_probs=31.6
Q ss_pred CCCCCcccCCCccCCCccccCCC------ChhhhhhHHHHHHhhhccCCCCCCccccccccc
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCG------YEICVWCWNHIMEMAEKDGTEGRCPACRTAYDK 62 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CG------YQIC~fC~~~I~~~~~k~~~~grCPACRr~Yde 62 (784)
..|=+|.++=|. ...||.|. +|-| +.+=+ +....-.||-|+.+|.=
T Consensus 3 diCWIC~~~~~e---~~~PC~C~GS~K~VHq~C---L~~WI----n~S~k~~CeLCkteY~I 54 (156)
T PHA02862 3 DICWICNDVCDE---RNNFCGCNEEYKVVHIKC---MQLWI----NYSKKKECNLCKTKYNI 54 (156)
T ss_pred CEEEEecCcCCC---CcccccccCcchhHHHHH---HHHHH----hcCCCcCccCCCCeEEE
Confidence 569999988543 36999992 3544 33333 23467899999999953
No 221
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=35.39 E-value=23 Score=43.10 Aligned_cols=51 Identities=22% Similarity=0.611 Sum_probs=35.9
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchh
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIV 66 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~ 66 (784)
..||.|-... +.-.-=+||+-+|--|-..-.++ -.-+||.|-++|....|.
T Consensus 644 LkCs~Cn~R~----Kd~vI~kC~H~FC~~Cvq~r~et-----RqRKCP~Cn~aFganDv~ 694 (698)
T KOG0978|consen 644 LKCSVCNTRW----KDAVITKCGHVFCEECVQTRYET-----RQRKCPKCNAAFGANDVH 694 (698)
T ss_pred eeCCCccCch----hhHHHHhcchHHHHHHHHHHHHH-----hcCCCCCCCCCCCccccc
Confidence 5799997332 22233389999777777666553 367999999999877653
No 222
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=35.29 E-value=36 Score=27.97 Aligned_cols=18 Identities=33% Similarity=0.770 Sum_probs=10.1
Q ss_pred CCCCCCccccccccccch
Q 003956 48 GTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 48 ~~~grCPACRr~Ydee~i 65 (784)
..+++||-|.|+++++.-
T Consensus 18 ~~~~~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 18 EAKGCCPLCGRPLDEEHR 35 (54)
T ss_dssp T-SEE-TTT--EE-HHHH
T ss_pred cCCCcCCCCCCCCCHHHH
Confidence 345699999999998764
No 223
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.98 E-value=19 Score=43.50 Aligned_cols=48 Identities=21% Similarity=0.553 Sum_probs=34.0
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
..|++|+.+|=..-.--.--.||.-||.-|...+ .+..|| |.+ |+..+
T Consensus 12 l~c~ic~n~f~~~~~~Pvsl~cghtic~~c~~~l--------yn~scp-~~~--De~~~ 59 (861)
T KOG3161|consen 12 LLCDICLNLFVVQRLEPVSLQCGHTICGHCVQLL--------YNASCP-TKR--DEDSS 59 (861)
T ss_pred hhchHHHHHHHHHhcCcccccccchHHHHHHHhH--------hhccCC-CCc--cccch
Confidence 5799998888553222233489999999999988 467898 554 44433
No 224
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.03 E-value=31 Score=38.84 Aligned_cols=54 Identities=26% Similarity=0.625 Sum_probs=36.9
Q ss_pred cCCCCCCcccCCCccCCC-----cccc-CCCChhhhhhHHHHHHhh-hccCCCCCCccccccc
Q 003956 5 AEKTCPLCAEEMDLTDQQ-----LKPC-NCGYEICVWCWNHIMEMA-EKDGTEGRCPACRTAY 60 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~-----f~PC-~CGYQIC~fC~~~I~~~~-~k~~~~grCPACRr~Y 60 (784)
.+.+|-||||.. .++. |.-- +|-+-.|+-|...=+... ....+...||-||.+-
T Consensus 160 ~~k~CGICme~i--~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 160 SEKECGICMETI--NEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccceehhhhc--cccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 478999999987 4555 6544 488998888876554210 0123468999999854
No 225
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=32.61 E-value=9.2 Score=41.86 Aligned_cols=60 Identities=23% Similarity=0.586 Sum_probs=45.1
Q ss_pred CcccCCCCCCccc-CCCccCCCcccc-CCCChhhhhhHHHHHHhhh-ccCCCCCCccccccccc
Q 003956 2 SDKAEKTCPLCAE-EMDLTDQQLKPC-NCGYEICVWCWNHIMEMAE-KDGTEGRCPACRTAYDK 62 (784)
Q Consensus 2 sDe~d~~CPLC~E-elD~tD~~f~PC-~CGYQIC~fC~~~I~~~~~-k~~~~grCPACRr~Yde 62 (784)
-|.+...|+.|.- +|.+.++..- | .||..+|..|-++++.+-. .+....-|+.|-..|.+
T Consensus 164 PD~ea~~C~~C~~~~Ftl~~RRHH-CR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 164 PDSEATECMVCGCTEFTLSERRHH-CRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELEK 226 (288)
T ss_pred CcccceecccCCCccccHHHHHHH-HHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHhc
Confidence 3667789999999 9999988777 7 8999999999988543211 12223369999888865
No 226
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=31.86 E-value=13 Score=45.58 Aligned_cols=58 Identities=17% Similarity=0.366 Sum_probs=0.0
Q ss_pred CCcccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 1 MSDKAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 1 msDe~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
.+-.+...||.|.--+ ..-.-.-+-+|++.+|--|+.-+-. -..-||-||..|++-.+
T Consensus 118 ~~~~~~~~CP~Ci~s~-~DqL~~~~k~c~H~FC~~Ci~sWsR------~aqTCPiDR~EF~~v~V 175 (1134)
T KOG0825|consen 118 VQTHVENQCPNCLKSC-NDQLEESEKHTAHYFCEECVGSWSR------CAQTCPVDRGEFGEVKV 175 (1134)
T ss_pred hhhhhhhhhhHHHHHH-HHHhhccccccccccHHHHhhhhhh------hcccCchhhhhhheeee
No 227
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=31.48 E-value=41 Score=34.40 Aligned_cols=54 Identities=30% Similarity=0.665 Sum_probs=33.7
Q ss_pred cCCCCCCcccCCCccCCCcccc-----CCCChhhh------hhHHHHHHhhhccC-------------------------
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPC-----NCGYEICV------WCWNHIMEMAEKDG------------------------- 48 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC-----~CGYQIC~------fC~~~I~~~~~k~~------------------------- 48 (784)
||..||+|||-- -.--+.-| .|.--||- -|+++++.+..+..
T Consensus 1 ed~~CpICme~P--HNAVLLlCSS~~kgcRpymc~Ts~rhSNCLdqfkka~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (162)
T PF07800_consen 1 EDVTCPICMEHP--HNAVLLLCSSHEKGCRPYMCDTSYRHSNCLDQFKKAYGKSSSSSSQSSSSAPSDSSSSESSESQEQ 78 (162)
T ss_pred CCccCceeccCC--CceEEEEeccccCCccccccCCccchhHHHHHHHHHhcCCCCccccccccCcCCCccccccccccc
Confidence 468999999964 23344445 24334443 47788776543321
Q ss_pred CCCCCccccccc
Q 003956 49 TEGRCPACRTAY 60 (784)
Q Consensus 49 ~~grCPACRr~Y 60 (784)
.+-.||-||-+.
T Consensus 79 ~~L~CPLCRG~V 90 (162)
T PF07800_consen 79 PELACPLCRGEV 90 (162)
T ss_pred ccccCccccCce
Confidence 366899999854
No 228
>PF12773 DZR: Double zinc ribbon
Probab=30.75 E-value=39 Score=26.88 Aligned_cols=42 Identities=21% Similarity=0.540 Sum_probs=24.3
Q ss_pred CCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccccc
Q 003956 9 CPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKE 63 (784)
Q Consensus 9 CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee 63 (784)
||-|-++++. +.++|.+|-..+.. .+.....||+|.++++..
T Consensus 1 Cp~Cg~~~~~----------~~~fC~~CG~~l~~---~~~~~~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 1 CPHCGTPNPD----------DAKFCPHCGTPLPP---PDQSKKICPNCGAENPPN 42 (50)
T ss_pred CCCcCCcCCc----------cccCChhhcCChhh---ccCCCCCCcCCcCCCcCC
Confidence 5666666643 24456666666531 133456788888876543
No 229
>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=30.47 E-value=43 Score=29.01 Aligned_cols=60 Identities=10% Similarity=0.210 Sum_probs=33.3
Q ss_pred CCCCChHHHHHHHHhhccCCceE-----EEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEe
Q 003956 118 PINLADEDLLQRKEYFGQYGKVL-----KVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRAC 192 (784)
Q Consensus 118 P~~IAeEDLLR~~EyFGQYGKI~-----KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRAS 192 (784)
-..+...+|+ .++..-+.|. +|.|..+ +.||.-.. +.|.+++..|++..+.||.|++.
T Consensus 10 ~dg~~~~~iv---~~i~~~~gi~~~~IG~I~I~~~-------------~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve 72 (74)
T PF03880_consen 10 KDGLTPRDIV---GAICNEAGIPGRDIGRIDIFDN-------------FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVE 72 (74)
T ss_dssp GGT--HHHHH---HHHHTCTTB-GGGEEEEEE-SS--------------EEEEE-T-T-HHHHHHHHTT--SSS----EE
T ss_pred ccCCCHHHHH---HHHHhccCCCHHhEEEEEEeee-------------EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEE
Confidence 4556777887 4777776665 4444321 47877766 58999999999999999999987
Q ss_pred ec
Q 003956 193 FG 194 (784)
Q Consensus 193 fG 194 (784)
.+
T Consensus 73 ~A 74 (74)
T PF03880_consen 73 RA 74 (74)
T ss_dssp E-
T ss_pred EC
Confidence 53
No 230
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.44 E-value=34 Score=38.63 Aligned_cols=48 Identities=23% Similarity=0.612 Sum_probs=32.1
Q ss_pred CCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCC-Cccccccccc
Q 003956 8 TCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGR-CPACRTAYDK 62 (784)
Q Consensus 8 ~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~gr-CPACRr~Yde 62 (784)
.|.||+|++..-|+. +--||++..=.-|-+.=+- ...+ ||-|++....
T Consensus 231 ~CaIClEdY~~Gdkl-RiLPC~H~FH~~CIDpWL~------~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKL-RILPCSHKFHVNCIDPWLT------QTRTFCPVCKRDIRT 279 (348)
T ss_pred eEEEeecccccCCee-eEecCCCchhhccchhhHh------hcCccCCCCCCcCCC
Confidence 899999999776654 3366666544566665542 2334 9999995543
No 231
>PF06827 zf-FPG_IleRS: Zinc finger found in FPG and IleRS; InterPro: IPR010663 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger domain found at the C-terminal in both DNA glycosylase/AP lyase enzymes and in isoleucyl tRNA synthetase. In these two types of enzymes, the C-terminal domain forms a zinc finger. Some related proteins may not bind zinc. DNA glycosylase/AP lyase enzymes are involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. These enzymes have both DNA glycosylase activity (3.2.2 from EC) and AP lyase activity (4.2.99.18 from EC) []. Examples include formamidopyrimidine-DNA glycosylases (Fpg; MutM) and endonuclease VIII (Nei). Formamidopyrimidine-DNA glycosylases (Fpg, MutM) is a trifunctional DNA base excision repair enzyme that removes a wide range of oxidation-damaged bases (N-glycosylase activity; 3.2.2.23 from EC) and cleaves both the 3'- and 5'-phosphodiester bonds of the resulting apurinic/apyrimidinic site (AP lyase activity; 4.2.99.18 from EC). Fpg has a preference for oxidised purines, excising oxidized purine bases such as 7,8-dihydro-8-oxoguanine (8-oxoG). ITs AP (apurinic/apyrimidinic) lyase activity introduces nicks in the DNA strand, cleaving the DNA backbone by beta-delta elimination to generate a single-strand break at the site of the removed base with both 3'- and 5'-phosphates. Fpg is a monomer composed of 2 domains connected by a flexible hinge []. The two DNA-binding motifs (a zinc finger and the helix-two-turns-helix motifs) suggest that the oxidized base is flipped out from double-stranded DNA in the binding mode and excised by a catalytic mechanism similar to that of bifunctional base excision repair enzymes []. Fpg binds one ion of zinc at the C terminus, which contains four conserved and essential cysteines []. Endonuclease VIII (Nei) has the same enzyme activities as Fpg above, but with a preference for oxidized pyrimidines, such as thymine glycol, 5,6-dihydrouracil and 5,6-dihydrothymine [, ]. An Fpg-type zinc finger is also found at the C terminus of isoleucyl tRNA synthetase (6.1.1.5 from EC) [, ]. This enzyme catalyses the attachment of isoleucine to tRNA(Ile). As IleRS can inadvertently accommodate and process structurally similar amino acids such as valine, to avoid such errors it has two additional distinct tRNA(Ile)-dependent editing activities. One activity is designated as 'pre-transfer' editing and involves the hydrolysis of activated Val-AMP. The other activity is designated 'post-transfer' editing and involves deacylation of mischarged Val-tRNA(Ile) []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003824 catalytic activity; PDB: 1K82_C 1Q39_A 2OQ4_B 2OPF_A 1K3X_A 1K3W_A 1Q3B_A 2EA0_A 1Q3C_A 2XZF_A ....
Probab=30.17 E-value=4.1 Score=29.85 Aligned_cols=28 Identities=32% Similarity=0.816 Sum_probs=14.6
Q ss_pred hhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 31 EICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 31 QIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
+-|.-||+.|.++.........||.|-.
T Consensus 2 ~~C~rC~~~~~~~~~~~r~~~~C~rCq~ 29 (30)
T PF06827_consen 2 EKCPRCWNYIEDIGINGRSTYLCPRCQK 29 (30)
T ss_dssp SB-TTT--BBEEEEETTEEEEE-TTTCC
T ss_pred CcCccCCCcceEeEecCCCCeECcCCcC
Confidence 5688899998653222234577888854
No 232
>PF12906 RINGv: RING-variant domain; PDB: 2D8S_A 1VYX_A.
Probab=30.12 E-value=35 Score=27.73 Aligned_cols=41 Identities=27% Similarity=0.827 Sum_probs=21.7
Q ss_pred CCCcccCCCccCCCccccCC-C-----ChhhhhhHHHHHHhhhccCCCCCCccc
Q 003956 9 CPLCAEEMDLTDQQLKPCNC-G-----YEICVWCWNHIMEMAEKDGTEGRCPAC 56 (784)
Q Consensus 9 CPLC~EelD~tD~~f~PC~C-G-----YQIC~fC~~~I~~~~~k~~~~grCPAC 56 (784)
|=+|.++-+..+....||.| | ++-|+.=|-.. ..+..|+.|
T Consensus 1 CrIC~~~~~~~~~li~pC~C~Gs~~~vH~~CL~~W~~~-------~~~~~C~~C 47 (47)
T PF12906_consen 1 CRICLEGEEEDEPLISPCRCKGSMKYVHRSCLERWIRE-------SGNRKCEIC 47 (47)
T ss_dssp ETTTTEE-SSSS-EE-SSS-SSCCGSEECCHHHHHHHH-------HT-SB-TTT
T ss_pred CeEeCCcCCCCCceecccccCCCcchhHHHHHHHHHHh-------cCCCcCCCC
Confidence 56788888766667899999 4 25455444332 234568776
No 233
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=29.95 E-value=33 Score=37.47 Aligned_cols=56 Identities=14% Similarity=0.277 Sum_probs=44.2
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchhcc
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIVGM 68 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~~~ 68 (784)
-.||.|-..|.-|=.--..=+||.-+|.-|-.+++. .++.||-|-++..+..|+..
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir------~D~v~pv~d~plkdrdiI~L 277 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIR------KDMVDPVTDKPLKDRDIIGL 277 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhcc------ccccccCCCCcCcccceEee
Confidence 479999999964333333338999999999999984 47899999999999888643
No 234
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=29.78 E-value=28 Score=28.52 Aligned_cols=38 Identities=21% Similarity=0.546 Sum_probs=24.1
Q ss_pred CCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
.-.||.|-+.||...+ +.++.+.=..+..+..||-|..
T Consensus 2 ~f~CP~C~~~~~~~~L---------------~~H~~~~H~~~~~~v~CPiC~~ 39 (54)
T PF05605_consen 2 SFTCPYCGKGFSESSL---------------VEHCEDEHRSESKNVVCPICSS 39 (54)
T ss_pred CcCCCCCCCccCHHHH---------------HHHHHhHCcCCCCCccCCCchh
Confidence 3579999998876321 1344442223345789999987
No 235
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=29.70 E-value=34 Score=25.14 Aligned_cols=21 Identities=48% Similarity=1.111 Sum_probs=14.3
Q ss_pred CCCCcccCCCccCCCccccC-CCCh
Q 003956 8 TCPLCAEEMDLTDQQLKPCN-CGYE 31 (784)
Q Consensus 8 ~CPLC~EelD~tD~~f~PC~-CGYQ 31 (784)
.||-|-.++-+ .-+-|+ |||.
T Consensus 2 ~CP~C~~~V~~---~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPE---SAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCchh---hcCcCCCCCCC
Confidence 58888777744 556676 7775
No 236
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the PRK11595 DNA utilization protein GntX; Provisional
Probab=29.05 E-value=41 Score=34.82 Aligned_cols=40 Identities=25% Similarity=0.582 Sum_probs=25.8
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCcccccccc
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYD 61 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yd 61 (784)
..|++|-+.+... ...||..|+..+.- ...+||.|-++..
T Consensus 6 ~~C~~C~~~~~~~---------~~~lC~~C~~~l~~------~~~~C~~Cg~~~~ 45 (227)
T PRK11595 6 GLCWLCRMPLALS---------HWGICSVCSRALRT------LKTCCPQCGLPAT 45 (227)
T ss_pred CcCccCCCccCCC---------CCcccHHHHhhCCc------ccCcCccCCCcCC
Confidence 3699998877432 23488999888731 2356777777643
No 238
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.32 E-value=36 Score=39.00 Aligned_cols=47 Identities=26% Similarity=0.702 Sum_probs=34.7
Q ss_pred CCCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccc
Q 003956 6 EKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDK 62 (784)
Q Consensus 6 d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Yde 62 (784)
+-.|-+|+.-|=. .-.. +||+-.|++|.++-++ .+.-||-||-+|-+
T Consensus 84 ef~c~vc~~~l~~---pv~t-pcghs~c~~Cl~r~ld------~~~~cp~Cr~~l~e 130 (398)
T KOG4159|consen 84 EFECCVCSRALYP---PVVT-PCGHSFCLECLDRSLD------QETECPLCRDELVE 130 (398)
T ss_pred hhhhhhhHhhcCC---Cccc-cccccccHHHHHHHhc------cCCCCccccccccc
Confidence 4578888655521 2223 9999999999888643 56789999999976
No 239
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=27.26 E-value=29 Score=39.91 Aligned_cols=24 Identities=33% Similarity=0.887 Sum_probs=16.8
Q ss_pred CCcccc-CCCChhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 21 QQLKPC-NCGYEICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 21 ~~f~PC-~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
+..|-| .|||+- ..-.|+||+|+.
T Consensus 5 ~~~y~C~~Cg~~~--------------~~~~g~Cp~C~~ 29 (454)
T TIGR00416 5 KSKFVCQHCGADS--------------PKWQGKCPACHA 29 (454)
T ss_pred CCeEECCcCCCCC--------------ccccEECcCCCC
Confidence 445678 788881 124699999976
No 240
>TIGR00143 hypF [NiFe] hydrogenase maturation protein HypF. A previously described regulatory effect of HypF mutatation is attributable to loss of activity of a regulatory hydrogenase. A zinc finger-like region CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported the regulatory hypothesis. However, more recent work (PUBMED:11375153) shows the direct effect is on the activity of expressed hydrogenases with nickel/iron centers, rather than on expression.
Probab=26.76 E-value=12 Score=45.42 Aligned_cols=51 Identities=33% Similarity=0.727 Sum_probs=32.7
Q ss_pred CCCCCcccCC-CccCCCc-c---cc-CCCChhhhhhHHHHHHh--hh--cc--CCCCCCcccccccccc
Q 003956 7 KTCPLCAEEM-DLTDQQL-K---PC-NCGYEICVWCWNHIMEM--AE--KD--GTEGRCPACRTAYDKE 63 (784)
Q Consensus 7 ~~CPLC~Eel-D~tD~~f-~---PC-~CGYQIC~fC~~~I~~~--~~--k~--~~~grCPACRr~Ydee 63 (784)
..|+-|..|| |..|+.| | -| .||-+. .|++. +. ++ ..-..||.|.++|.+.
T Consensus 69 a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~------~i~~~lpydr~~t~m~~f~~C~~C~~ey~~p 131 (711)
T TIGR00143 69 ATCSDCLEEMLDKNDRRYLYPFISCTHCGPRF------TIIEALPYDRENTSMADFPLCPDCAKEYKDP 131 (711)
T ss_pred hhHHHHHHHhcCCCcccccCCcccccCCCCCe------EEeecCCCCCCCcCCCCCcCCHHHHHHhcCC
Confidence 5899999998 8888876 3 36 677772 22210 00 11 1236799999999653
No 241
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=26.74 E-value=26 Score=28.34 Aligned_cols=32 Identities=31% Similarity=0.807 Sum_probs=23.2
Q ss_pred CCCC--CcccCCCcc---CCCcccc-CCCChhhhhhHH
Q 003956 7 KTCP--LCAEEMDLT---DQQLKPC-NCGYEICVWCWN 38 (784)
Q Consensus 7 ~~CP--LC~EelD~t---D~~f~PC-~CGYQIC~fC~~ 38 (784)
.-|| -|-..+... +....-| .||+.+|..|..
T Consensus 19 ~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~ 56 (64)
T smart00647 19 KWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKV 56 (64)
T ss_pred cCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCC
Confidence 4688 887666554 4567889 899998877753
No 242
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.45 E-value=3.6e+02 Score=32.86 Aligned_cols=79 Identities=13% Similarity=0.170 Sum_probs=56.5
Q ss_pred cCeEEEeCCCCC-CChHHHHHHHHhhccCC-ceEEEEEeecCCCCc------ccCC------------------------
Q 003956 109 RNLVYIIGLPIN-LADEDLLQRKEYFGQYG-KVLKVSISRTATGDI------QHSA------------------------ 156 (784)
Q Consensus 109 RNLVYV~GLP~~-IAeEDLLR~~EyFGQYG-KI~KIvInrdk~g~~------q~~~------------------------ 156 (784)
.+.|-|+||-|. +.-+||+.-.--|-.|| .|+.|.|-...-|.. -++|
T Consensus 174 T~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~~~ 253 (650)
T KOG2318|consen 174 TKRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEEDV 253 (650)
T ss_pred cceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhhhH
Confidence 367899999987 67788876444566666 999999853321110 0111
Q ss_pred ------------CCCcEEEEEeCCHHHHHHHHHHhCCCccCCc
Q 003956 157 ------------NNSCCVYITYSREDDAIRCIQSVHSYILDGR 187 (784)
Q Consensus 157 ------------~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGR 187 (784)
..-|+|-|+|.+.+.|..--...||.++..-
T Consensus 254 ~~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS 296 (650)
T KOG2318|consen 254 DREKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESS 296 (650)
T ss_pred HHHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccc
Confidence 1136899999999999999999999988643
No 243
>KOG3702 consensus Nuclear polyadenylated RNA binding protein [RNA processing and modification]
Probab=26.11 E-value=59 Score=39.46 Aligned_cols=76 Identities=14% Similarity=0.199 Sum_probs=55.2
Q ss_pred HhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCceEEEeecCCccccccccCcCCCC
Q 003956 131 EYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSVHSYILDGRPLRACFGTTKYCHAWIRNMPCSV 210 (784)
Q Consensus 131 EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aLDG~~LdGRvLRASfGTTKYCs~FLRn~~C~N 210 (784)
..|..++.+.+..+...-... + ....||+.|.++.-|..| .++.+.-+..+.|+.. +-|. -+..|.+
T Consensus 530 ~~s~~~~~ltk~k~l~~Cky~----~-~Ct~a~Ce~~HPtaa~~~-~s~p~k~fa~~~~ks~----p~Ck---~~~kCta 596 (681)
T KOG3702|consen 530 RHSEKKNELTKAKILTRCKYG----P-ACTSAECEFAHPTAAENA-KSLPNKKFASKCLKSH----PGCK---FGKKCTA 596 (681)
T ss_pred hCcccccccccceeeccccCC----C-cCCchhhhhcCCcchhhh-hccccccccccceecc----cccc---ccccccc
Confidence 588889999988876544332 1 233799999999877655 5677777777777754 4564 3778999
Q ss_pred CCcccccCC
Q 003956 211 PDCLYLHDF 219 (784)
Q Consensus 211 ~dCmYLHE~ 219 (784)
.||-|-|--
T Consensus 597 sDC~~sH~~ 605 (681)
T KOG3702|consen 597 SDCNYSHAG 605 (681)
T ss_pred ccCcccccC
Confidence 999999853
No 244
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=25.20 E-value=27 Score=40.68 Aligned_cols=39 Identities=31% Similarity=0.587 Sum_probs=31.3
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCChhhhhhHHHHH
Q 003956 3 DKAEKTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIM 41 (784)
Q Consensus 3 De~d~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~ 41 (784)
|-+...||+|.+.|-+|-+..-===||-.||.+|-.-|-
T Consensus 177 Ds~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~iS 215 (505)
T KOG1842|consen 177 DSSVQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKFIS 215 (505)
T ss_pred CCcccccccccchhhhHHHhhhhhhcchHHHHHHHHhcC
Confidence 455679999999999987665433799999999987664
No 245
>PRK04023 DNA polymerase II large subunit; Validated
Probab=24.62 E-value=42 Score=42.57 Aligned_cols=56 Identities=21% Similarity=0.535 Sum_probs=37.0
Q ss_pred cCCCCCCcccCCCccCCCccccC-CCC-----hhhhhhHHHHHHhhhccCCCCCCccccccccccchhccccChHHH
Q 003956 5 AEKTCPLCAEEMDLTDQQLKPCN-CGY-----EICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIVGMAANCERA 75 (784)
Q Consensus 5 ~d~~CPLC~EelD~tD~~f~PC~-CGY-----QIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~eel 75 (784)
+...||-|-... ..+.|+ ||- ..|..|-... ....||.|-.+-.... .+.++..++
T Consensus 625 g~RfCpsCG~~t-----~~frCP~CG~~Te~i~fCP~CG~~~--------~~y~CPKCG~El~~~s--~~~i~l~~~ 686 (1121)
T PRK04023 625 GRRKCPSCGKET-----FYRRCPFCGTHTEPVYRCPRCGIEV--------EEDECEKCGREPTPYS--KRKIDLKEL 686 (1121)
T ss_pred cCccCCCCCCcC-----CcccCCCCCCCCCcceeCccccCcC--------CCCcCCCCCCCCCccc--eEEecHHHH
Confidence 346899999985 668998 984 4788883322 3467999988665443 233444443
No 246
>PF12677 DUF3797: Domain of unknown function (DUF3797); InterPro: IPR024256 This presumed domain is functionally uncharacterised. This domain family is found in bacteria and viruses, and is approximately 50 amino acids in length. There is a conserved CGN sequence motif.
Probab=23.62 E-value=34 Score=28.89 Aligned_cols=26 Identities=27% Similarity=0.963 Sum_probs=19.0
Q ss_pred CCCCCcccCC--------CccCCCc-cccCCCChh
Q 003956 7 KTCPLCAEEM--------DLTDQQL-KPCNCGYEI 32 (784)
Q Consensus 7 ~~CPLC~Eel--------D~tD~~f-~PC~CGYQI 32 (784)
..||-|-.+. -+.|.-| +.|+||+.|
T Consensus 14 ~~Cp~CGN~~vGngEG~liV~edtfkRtCkCGfni 48 (49)
T PF12677_consen 14 CKCPKCGNDKVGNGEGTLIVEEDTFKRTCKCGFNI 48 (49)
T ss_pred ccCcccCCcEeecCcceEEEeccceeeeecccccc
Confidence 4799997653 4556666 899999875
No 247
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=23.15 E-value=31 Score=37.04 Aligned_cols=27 Identities=26% Similarity=0.662 Sum_probs=21.1
Q ss_pred cccccccCcCCCCCCcccccCCCCCCCC
Q 003956 198 YCHAWIRNMPCSVPDCLYLHDFGSQEDS 225 (784)
Q Consensus 198 YCs~FLRn~~C~N~dCmYLHE~g~~~Ds 225 (784)
-|.+||-| .|.||+|.|+|-.-.+...
T Consensus 263 acryfllg-kcnnpncryvhihysenap 289 (377)
T KOG1492|consen 263 ACRYFLLG-KCNNPNCRYVHIHYSENAP 289 (377)
T ss_pred hhhhhhhc-cCCCCCceEEEEeecCCCc
Confidence 47777765 6999999999987776553
No 248
>PRK11823 DNA repair protein RadA; Provisional
Probab=22.80 E-value=41 Score=38.47 Aligned_cols=24 Identities=38% Similarity=0.832 Sum_probs=16.7
Q ss_pred CCcccc-CCCChhhhhhHHHHHHhhhccCCCCCCccccc
Q 003956 21 QQLKPC-NCGYEICVWCWNHIMEMAEKDGTEGRCPACRT 58 (784)
Q Consensus 21 ~~f~PC-~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr 58 (784)
+..|-| .|||+- ..-.|+||+|..
T Consensus 5 ~~~y~C~~Cg~~~--------------~~~~g~Cp~C~~ 29 (446)
T PRK11823 5 KTAYVCQECGAES--------------PKWLGRCPECGA 29 (446)
T ss_pred CCeEECCcCCCCC--------------cccCeeCcCCCC
Confidence 455668 688881 124799999976
No 249
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.79 E-value=43 Score=37.92 Aligned_cols=35 Identities=26% Similarity=0.759 Sum_probs=27.4
Q ss_pred CCCCCcccCCCccCC-CccccCCCChhhhhhHHHHH
Q 003956 7 KTCPLCAEEMDLTDQ-QLKPCNCGYEICVWCWNHIM 41 (784)
Q Consensus 7 ~~CPLC~EelD~tD~-~f~PC~CGYQIC~fC~~~I~ 41 (784)
..||.|.-.++++.- +..-|.||+|+|.-|....+
T Consensus 307 r~CpkC~~~ie~~~GCnhm~CrC~~~fcy~C~~~~~ 342 (384)
T KOG1812|consen 307 RQCPKCKFMIELSEGCNHMTCRCGHQFCYMCGGDWK 342 (384)
T ss_pred CcCcccceeeeecCCcceEEeeccccchhhcCcchh
Confidence 589999887766554 56899999998888886653
No 250
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=22.46 E-value=47 Score=25.56 Aligned_cols=23 Identities=30% Similarity=0.752 Sum_probs=10.6
Q ss_pred CCCcccCCCccCCCccccC-CCCh
Q 003956 9 CPLCAEEMDLTDQQLKPCN-CGYE 31 (784)
Q Consensus 9 CPLC~EelD~tD~~f~PC~-CGYQ 31 (784)
|.-|-.++++....-.-|+ |||+
T Consensus 3 C~~Cg~~~~~~~~~~irC~~CG~R 26 (32)
T PF03604_consen 3 CGECGAEVELKPGDPIRCPECGHR 26 (32)
T ss_dssp ESSSSSSE-BSTSSTSSBSSSS-S
T ss_pred CCcCCCeeEcCCCCcEECCcCCCe
Confidence 5556666555444444443 4544
No 251
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=22.26 E-value=45 Score=27.14 Aligned_cols=11 Identities=27% Similarity=0.803 Sum_probs=5.0
Q ss_pred CCCcccCCCcc
Q 003956 9 CPLCAEEMDLT 19 (784)
Q Consensus 9 CPLC~EelD~t 19 (784)
|.-|-.++++.
T Consensus 5 C~~Cg~~~~~~ 15 (44)
T smart00659 5 CGECGRENEIK 15 (44)
T ss_pred CCCCCCEeecC
Confidence 44444444443
No 252
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=22.13 E-value=42 Score=31.89 Aligned_cols=20 Identities=25% Similarity=0.654 Sum_probs=9.3
Q ss_pred CCCCcccCCCccCCCccccC
Q 003956 8 TCPLCAEEMDLTDQQLKPCN 27 (784)
Q Consensus 8 ~CPLC~EelD~tD~~f~PC~ 27 (784)
.|+-|-..+.+.+..+++||
T Consensus 72 ~C~~Cg~~~~~~~~~~~~CP 91 (114)
T PRK03681 72 WCETCQQYVTLLTQRVRRCP 91 (114)
T ss_pred EcccCCCeeecCCccCCcCc
Confidence 35555555544444334443
No 253
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=21.90 E-value=1.1e+02 Score=29.31 Aligned_cols=79 Identities=18% Similarity=0.336 Sum_probs=50.3
Q ss_pred CCCCccccccCeEEEeCCCCCCChHHHHHHHHhhccCCceEEEEEeecCCCCcccCCCCCcEEEEEeCCHHHHHHHHHHh
Q 003956 100 HLTNVRVIQRNLVYIIGLPINLADEDLLQRKEYFGQYGKVLKVSISRTATGDIQHSANNSCCVYITYSREDDAIRCIQSV 179 (784)
Q Consensus 100 ~La~VRVIQRNLVYV~GLP~~IAeEDLLR~~EyFGQYGKI~KIvInrdk~g~~q~~~~~rgsAYVTFs~kEDA~kAI~aL 179 (784)
........+...+|+.+++..++.+++. ..|..+|.|..+.+........ .....++.+....++..+....
T Consensus 216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~ 287 (306)
T COG0724 216 RGKALLLEKSDNLYVGNLPLKTAEEELA---DLFKSRGDIVRASLPPSKDGKI-----PKSRSFVGNEASKDALESNSRG 287 (306)
T ss_pred ccccccccccceeeccccccccchhHHH---HhccccccceeeeccCCCCCcc-----cccccccchhHHHhhhhhhccc
Confidence 4444445566789999999999988876 6999999997776654443221 1223346666666666655554
Q ss_pred CCCccCC
Q 003956 180 HSYILDG 186 (784)
Q Consensus 180 DG~~LdG 186 (784)
......+
T Consensus 288 ~~~~~~~ 294 (306)
T COG0724 288 NKKKILG 294 (306)
T ss_pred cceeecc
Confidence 4443333
No 254
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.82 E-value=85 Score=34.53 Aligned_cols=61 Identities=23% Similarity=0.453 Sum_probs=41.1
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccchhccccChHHH
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKIVGMAANCERA 75 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~eel 75 (784)
-.||+=--+|.-+-+-++-=.|| |.|-...+.+ -..--|+-|..+|+++.++.+..++|++
T Consensus 112 fiCPvtgleMng~~~F~~l~~CG---cV~SerAlKe-----ikas~C~~C~a~y~~~dvIvlNg~~E~~ 172 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCG---CVFSERALKE-----IKASVCHVCGAAYQEDDVIVLNGTEEDV 172 (293)
T ss_pred eecccccceecceEEEEEEeccc---eeccHHHHHH-----hhhccccccCCcccccCeEeeCCCHHHH
Confidence 47999888886554444333455 3344544433 2356799999999999887777777754
No 255
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=21.66 E-value=40 Score=40.99 Aligned_cols=50 Identities=26% Similarity=0.779 Sum_probs=38.4
Q ss_pred CCCCCcccCCCccCCCccccCCCChhhhhhHHHHHHhhhccCCCCCCccccccccccch
Q 003956 7 KTCPLCAEEMDLTDQQLKPCNCGYEICVWCWNHIMEMAEKDGTEGRCPACRTAYDKEKI 65 (784)
Q Consensus 7 ~~CPLC~EelD~tD~~f~PC~CGYQIC~fC~~~I~~~~~k~~~~grCPACRr~Ydee~i 65 (784)
..|++|++ .| .+.+=.||+-.|.-||-.-++. ..+..||-||....+...
T Consensus 455 ~~c~ic~~-~~----~~~it~c~h~~c~~c~~~~i~~----~~~~~~~~cr~~l~~~~l 504 (674)
T KOG1001|consen 455 HWCHICCD-LD----SFFITRCGHDFCVECLKKSIQQ----SENAPCPLCRNVLKEKKL 504 (674)
T ss_pred cccccccc-cc----cceeecccchHHHHHHHhcccc----ccCCCCcHHHHHHHHHHH
Confidence 68999999 43 4667789999999999777652 234589999997766554
Done!