Query 004082
Match_columns 775
No_of_seqs 259 out of 917
Neff 3.5
Searched_HMMs 46136
Date Thu Mar 28 17:14:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004082.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004082hhsearch_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 2.9E-79 6.2E-84 638.3 18.7 229 2-238 10-243 (480)
2 KOG2068 MOT2 transcription fac 100.0 2E-59 4.3E-64 490.3 12.2 304 29-349 1-309 (327)
3 PF14570 zf-RING_4: RING/Ubox 99.8 7.2E-22 1.6E-26 158.5 2.8 48 9-61 1-48 (48)
4 PLN03134 glycine-rich RNA-bind 99.5 4.7E-14 1E-18 134.2 11.0 89 101-198 26-114 (144)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 3.8E-14 8.2E-19 146.9 10.9 79 112-198 271-349 (352)
6 PF00076 RRM_1: RNA recognitio 99.5 5.6E-14 1.2E-18 112.4 8.5 70 113-191 1-70 (70)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 2.1E-13 4.6E-18 141.3 10.8 109 110-237 3-111 (352)
8 PF14259 RRM_6: RNA recognitio 99.4 3.5E-12 7.7E-17 104.0 9.0 70 113-191 1-70 (70)
9 KOG0114 Predicted RNA-binding 99.3 7.3E-12 1.6E-16 116.0 8.7 83 103-196 9-93 (124)
10 TIGR01659 sex-lethal sex-letha 99.3 7.1E-12 1.5E-16 134.6 10.0 83 107-197 104-186 (346)
11 KOG0125 Ataxin 2-binding prote 99.3 4.1E-12 8.9E-17 135.0 7.7 79 110-198 96-174 (376)
12 smart00362 RRM_2 RNA recogniti 99.3 1.7E-11 3.7E-16 95.4 8.7 72 112-193 1-72 (72)
13 PLN03120 nucleic acid binding 99.3 1.2E-11 2.7E-16 128.7 10.1 76 109-196 3-78 (260)
14 KOG0111 Cyclophilin-type pepti 99.3 2.6E-12 5.7E-17 131.1 4.6 85 106-198 6-90 (298)
15 KOG4206 Spliceosomal protein s 99.3 8.1E-12 1.8E-16 127.2 7.8 87 107-201 5-93 (221)
16 COG0724 RNA-binding proteins ( 99.2 2.6E-11 5.7E-16 113.7 9.5 80 110-197 115-194 (306)
17 TIGR01659 sex-lethal sex-letha 99.2 3.1E-11 6.7E-16 129.7 10.7 83 108-198 191-275 (346)
18 KOG0107 Alternative splicing f 99.2 1.5E-11 3.2E-16 122.1 7.6 78 110-200 10-87 (195)
19 TIGR01645 half-pint poly-U bin 99.2 2.5E-11 5.5E-16 138.6 10.5 81 110-198 204-284 (612)
20 cd00590 RRM RRM (RNA recogniti 99.2 6.1E-11 1.3E-15 92.7 9.4 74 112-194 1-74 (74)
21 TIGR01628 PABP-1234 polyadenyl 99.2 3.3E-11 7.2E-16 134.2 10.4 82 108-198 283-364 (562)
22 TIGR01622 SF-CC1 splicing fact 99.2 4.7E-11 1E-15 128.8 10.2 79 110-196 186-264 (457)
23 KOG0148 Apoptosis-promoting RN 99.2 3.5E-11 7.5E-16 125.7 8.6 76 109-198 163-238 (321)
24 smart00360 RRM RNA recognition 99.2 5.8E-11 1.3E-15 91.9 7.7 71 115-193 1-71 (71)
25 TIGR01645 half-pint poly-U bin 99.2 6.1E-11 1.3E-15 135.6 10.7 79 110-196 107-185 (612)
26 TIGR01642 U2AF_lg U2 snRNP aux 99.2 8.9E-11 1.9E-15 128.1 11.3 82 109-198 294-375 (509)
27 KOG0122 Translation initiation 99.2 5.9E-11 1.3E-15 122.6 9.2 82 109-198 188-269 (270)
28 PF13893 RRM_5: RNA recognitio 99.2 9E-11 1.9E-15 93.4 7.7 55 131-195 2-56 (56)
29 TIGR01628 PABP-1234 polyadenyl 99.2 8E-11 1.7E-15 131.2 10.0 109 112-237 2-110 (562)
30 PLN03213 repressor of silencin 99.2 6E-11 1.3E-15 131.2 8.4 79 111-201 11-91 (759)
31 KOG0149 Predicted RNA-binding 99.1 4.7E-11 1E-15 122.6 6.1 78 109-195 11-88 (247)
32 KOG4207 Predicted splicing fac 99.1 5.2E-11 1.1E-15 120.9 5.2 81 108-196 11-91 (256)
33 KOG0148 Apoptosis-promoting RN 99.1 9.2E-11 2E-15 122.6 7.0 81 111-199 63-143 (321)
34 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.1 2.2E-10 4.8E-15 126.7 10.4 77 109-198 274-351 (481)
35 KOG0126 Predicted RNA-binding 99.1 2.2E-11 4.7E-16 121.7 1.6 77 110-194 35-111 (219)
36 KOG0145 RNA-binding protein EL 99.1 3.3E-10 7.1E-15 118.2 9.8 81 110-198 278-358 (360)
37 TIGR01622 SF-CC1 splicing fact 99.1 4.4E-10 9.5E-15 121.4 10.2 116 110-237 89-208 (457)
38 KOG0121 Nuclear cap-binding pr 99.1 2.7E-10 5.8E-15 109.0 6.6 78 109-194 35-112 (153)
39 smart00361 RRM_1 RNA recogniti 99.0 6E-10 1.3E-14 93.3 7.6 59 132-193 7-70 (70)
40 TIGR01648 hnRNP-R-Q heterogene 99.0 5.5E-10 1.2E-14 127.3 9.2 90 109-208 57-147 (578)
41 PLN03121 nucleic acid binding 99.0 9.7E-10 2.1E-14 113.7 9.2 75 110-196 5-79 (243)
42 TIGR01648 hnRNP-R-Q heterogene 99.0 1.3E-09 2.8E-14 124.4 9.7 72 111-198 234-307 (578)
43 KOG0131 Splicing factor 3b, su 98.9 8.2E-10 1.8E-14 110.4 5.7 81 108-196 7-87 (203)
44 KOG0105 Alternative splicing f 98.9 1.1E-09 2.4E-14 110.1 6.5 84 111-205 7-90 (241)
45 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.9 3E-09 6.5E-14 117.8 9.7 79 110-198 394-480 (481)
46 KOG0117 Heterogeneous nuclear 98.9 2.9E-09 6.4E-14 117.1 9.1 103 108-235 81-184 (506)
47 KOG0108 mRNA cleavage and poly 98.9 2.9E-09 6.3E-14 118.0 8.0 80 111-198 19-98 (435)
48 KOG0113 U1 small nuclear ribon 98.8 2.3E-08 5E-13 106.0 8.9 87 111-205 102-188 (335)
49 KOG0130 RNA-binding protein RB 98.7 1.6E-08 3.5E-13 97.8 6.1 84 104-195 66-149 (170)
50 KOG0127 Nucleolar protein fibr 98.7 3.1E-08 6.8E-13 111.2 8.3 80 110-198 117-196 (678)
51 KOG0127 Nucleolar protein fibr 98.7 3.8E-08 8.2E-13 110.6 8.5 115 111-234 293-424 (678)
52 TIGR01642 U2AF_lg U2 snRNP aux 98.7 4.5E-08 9.7E-13 107.2 9.0 86 110-197 409-501 (509)
53 KOG0117 Heterogeneous nuclear 98.7 2.7E-08 5.9E-13 109.6 7.0 71 112-198 261-331 (506)
54 KOG0144 RNA-binding protein CU 98.7 1.7E-08 3.8E-13 110.8 4.7 85 106-199 120-207 (510)
55 KOG0145 RNA-binding protein EL 98.6 7.6E-08 1.6E-12 100.9 7.9 83 108-198 39-121 (360)
56 KOG0132 RNA polymerase II C-te 98.6 8.1E-08 1.7E-12 111.1 8.1 107 95-223 402-512 (894)
57 KOG0147 Transcriptional coacti 98.6 5.9E-08 1.3E-12 108.9 6.1 78 113-198 281-358 (549)
58 KOG2068 MOT2 transcription fac 98.5 5.4E-08 1.2E-12 104.3 3.3 54 7-66 250-303 (327)
59 KOG0146 RNA-binding protein ET 98.5 1.1E-07 2.3E-12 100.1 5.0 81 110-198 285-365 (371)
60 KOG4208 Nucleolar RNA-binding 98.4 4E-07 8.7E-12 92.7 7.6 80 110-197 49-129 (214)
61 KOG0124 Polypyrimidine tract-b 98.3 3.9E-07 8.4E-12 99.0 4.9 75 111-193 114-188 (544)
62 KOG0123 Polyadenylate-binding 98.3 1.2E-06 2.5E-11 95.7 8.5 75 113-198 79-153 (369)
63 KOG0131 Splicing factor 3b, su 98.3 5.8E-07 1.3E-11 90.4 5.6 88 101-198 89-177 (203)
64 KOG0533 RRM motif-containing p 98.3 1.1E-06 2.4E-11 91.5 7.9 79 111-198 84-162 (243)
65 KOG0144 RNA-binding protein CU 98.3 8.8E-07 1.9E-11 97.8 7.0 78 113-198 37-117 (510)
66 KOG4661 Hsp27-ERE-TATA-binding 98.3 8.7E-07 1.9E-11 100.1 7.0 77 111-195 406-482 (940)
67 KOG0109 RNA-binding protein LA 98.3 7.1E-07 1.5E-11 94.8 5.1 71 112-198 4-74 (346)
68 KOG0109 RNA-binding protein LA 98.3 9.1E-07 2E-11 94.0 5.1 77 110-202 78-154 (346)
69 KOG0415 Predicted peptidyl pro 98.3 2.7E-06 5.9E-11 92.3 8.7 90 101-198 229-319 (479)
70 KOG0153 Predicted RNA-binding 98.2 2.2E-06 4.7E-11 92.7 7.5 74 111-198 229-303 (377)
71 KOG0123 Polyadenylate-binding 98.2 1.2E-06 2.6E-11 95.7 5.2 84 106-198 266-349 (369)
72 KOG0110 RNA-binding protein (R 98.2 3.6E-06 7.9E-11 97.1 8.8 124 107-238 512-636 (725)
73 KOG0151 Predicted splicing reg 98.2 2.5E-06 5.4E-11 98.4 7.3 111 107-222 171-288 (877)
74 KOG1548 Transcription elongati 98.0 1.7E-05 3.7E-10 86.0 9.5 87 103-198 127-221 (382)
75 KOG0124 Polypyrimidine tract-b 97.9 1.4E-05 3E-10 87.3 6.7 78 110-195 210-287 (544)
76 KOG4660 Protein Mei2, essentia 97.9 5E-06 1.1E-10 94.0 3.5 88 97-198 63-150 (549)
77 KOG1548 Transcription elongati 97.9 2.9E-05 6.2E-10 84.3 7.4 61 132-201 295-357 (382)
78 KOG4205 RNA-binding protein mu 97.8 1.2E-05 2.6E-10 86.6 3.5 75 110-193 6-80 (311)
79 KOG0110 RNA-binding protein (R 97.8 2E-05 4.3E-10 91.3 4.1 79 111-197 614-692 (725)
80 KOG2202 U2 snRNP splicing fact 97.7 1.4E-05 3.1E-10 83.7 2.7 78 136-220 92-175 (260)
81 KOG0106 Alternative splicing f 97.7 2.1E-05 4.5E-10 81.0 3.6 71 112-198 3-73 (216)
82 KOG4205 RNA-binding protein mu 97.7 3.4E-05 7.3E-10 83.1 5.3 84 111-203 98-181 (311)
83 KOG0147 Transcriptional coacti 97.7 5.6E-05 1.2E-09 85.7 6.7 75 132-220 472-547 (549)
84 KOG1995 Conserved Zn-finger pr 97.7 3.6E-05 7.8E-10 83.6 4.8 98 106-211 62-167 (351)
85 KOG4454 RNA binding protein (R 97.6 2E-05 4.4E-10 81.5 1.4 73 112-194 11-83 (267)
86 PF11608 Limkain-b1: Limkain b 97.5 0.00029 6.2E-09 64.0 7.6 71 111-196 3-75 (90)
87 KOG4209 Splicing factor RNPS1, 97.5 0.00015 3.3E-09 75.1 6.6 83 107-198 98-180 (231)
88 KOG0116 RasGAP SH3 binding pro 97.5 0.0002 4.3E-09 80.0 6.9 80 113-201 291-370 (419)
89 KOG1190 Polypyrimidine tract-b 97.4 0.00036 7.8E-09 77.4 8.0 102 110-238 297-398 (492)
90 KOG0146 RNA-binding protein ET 97.4 0.00025 5.4E-09 75.4 6.3 80 111-199 20-102 (371)
91 KOG4212 RNA-binding protein hn 97.4 0.00028 6.1E-09 78.7 6.6 73 110-195 536-608 (608)
92 KOG1457 RNA binding protein (c 97.3 0.00086 1.9E-08 70.0 8.5 81 111-198 35-118 (284)
93 PF13920 zf-C3HC4_3: Zinc fing 97.2 0.00015 3.3E-09 57.7 1.2 47 5-61 1-48 (50)
94 KOG4212 RNA-binding protein hn 97.2 0.0011 2.5E-08 74.1 8.3 77 108-193 41-119 (608)
95 KOG1996 mRNA splicing factor [ 97.2 0.00045 9.7E-09 74.2 4.9 60 131-194 304-363 (378)
96 KOG0120 Splicing factor U2AF, 97.0 0.0014 3E-08 74.8 7.7 62 131-194 427-488 (500)
97 PLN02189 cellulose synthase 97.0 0.00037 8E-09 84.4 2.6 50 7-61 35-87 (1040)
98 TIGR00570 cdk7 CDK-activating 97.0 0.0013 2.8E-08 71.2 6.4 55 6-66 3-59 (309)
99 PF05172 Nup35_RRM: Nup53/35/4 96.9 0.00094 2E-08 61.6 4.1 76 110-190 6-83 (100)
100 PF14605 Nup35_RRM_2: Nup53/35 96.9 0.0018 3.9E-08 53.1 4.9 52 111-177 2-53 (53)
101 PF13639 zf-RING_2: Ring finge 96.8 0.00031 6.7E-09 54.5 0.3 44 7-57 1-44 (44)
102 PF04059 RRM_2: RNA recognitio 96.7 0.012 2.7E-07 54.1 9.8 82 110-198 1-87 (97)
103 PF08777 RRM_3: RNA binding mo 96.7 0.0038 8.2E-08 57.6 6.3 58 112-183 3-60 (105)
104 KOG2314 Translation initiation 96.6 0.0032 6.9E-08 72.3 6.2 78 110-193 58-139 (698)
105 cd00162 RING RING-finger (Real 96.6 0.0024 5.3E-08 47.1 3.3 44 8-59 1-44 (45)
106 PLN02436 cellulose synthase A 96.6 0.0011 2.5E-08 80.5 2.4 50 7-61 37-89 (1094)
107 PLN03208 E3 ubiquitin-protein 96.4 0.003 6.5E-08 64.5 4.3 59 4-66 16-84 (193)
108 PHA02929 N1R/p28-like protein; 96.3 0.0036 7.9E-08 65.6 4.0 52 4-61 172-227 (238)
109 KOG4211 Splicing factor hnRNP- 96.2 0.027 5.8E-07 64.2 10.6 82 112-205 12-93 (510)
110 KOG0120 Splicing factor U2AF, 96.2 0.0038 8.3E-08 71.3 3.7 84 106-197 285-368 (500)
111 KOG4210 Nuclear localization s 96.1 0.003 6.5E-08 67.5 2.5 79 111-198 185-264 (285)
112 KOG0226 RNA-binding proteins [ 95.8 0.0078 1.7E-07 64.0 3.7 74 112-193 192-265 (290)
113 KOG3152 TBP-binding protein, a 95.7 0.0059 1.3E-07 64.8 2.6 78 109-189 73-157 (278)
114 KOG0106 Alternative splicing f 95.7 0.0059 1.3E-07 63.4 2.4 66 111-192 100-165 (216)
115 KOG1190 Polypyrimidine tract-b 95.6 0.014 2.9E-07 65.4 4.8 71 114-196 154-226 (492)
116 KOG1456 Heterogeneous nuclear 95.4 0.059 1.3E-06 60.0 8.6 75 110-196 287-361 (494)
117 KOG1365 RNA-binding protein Fu 95.4 0.016 3.5E-07 64.5 4.3 81 101-192 273-356 (508)
118 smart00504 Ubox Modified RING 95.2 0.02 4.4E-07 46.5 3.5 50 6-65 1-50 (63)
119 PF08952 DUF1866: Domain of un 95.1 0.047 1E-06 53.9 6.3 56 126-198 52-107 (146)
120 PLN02248 cellulose synthase-li 95.1 0.02 4.3E-07 70.5 4.3 50 7-62 125-178 (1135)
121 TIGR00599 rad18 DNA repair pro 95.0 0.039 8.4E-07 61.9 5.8 52 4-65 24-75 (397)
122 KOG2177 Predicted E3 ubiquitin 94.8 0.015 3.3E-07 56.2 2.0 48 4-61 11-58 (386)
123 KOG0320 Predicted E3 ubiquitin 94.7 0.023 4.9E-07 57.8 3.0 52 6-65 131-182 (187)
124 PF13923 zf-C3HC4_2: Zinc fing 94.6 0.019 4E-07 43.8 1.6 39 9-56 1-39 (39)
125 PF14634 zf-RING_5: zinc-RING 94.5 0.041 9E-07 43.1 3.3 44 8-58 1-44 (44)
126 KOG4206 Spliceosomal protein s 94.4 0.098 2.1E-06 54.7 6.9 77 107-196 143-220 (221)
127 smart00184 RING Ring finger. E 94.3 0.05 1.1E-06 38.6 3.3 39 9-56 1-39 (39)
128 PLN02195 cellulose synthase A 94.3 0.031 6.7E-07 68.1 3.3 57 1-62 1-60 (977)
129 PF05290 Baculo_IE-1: Baculovi 94.3 0.039 8.5E-07 53.9 3.4 56 4-64 78-135 (140)
130 PHA02926 zinc finger-like prot 94.1 0.053 1.2E-06 57.0 4.2 57 5-61 169-230 (242)
131 KOG4307 RNA binding protein RB 94.0 0.12 2.6E-06 61.2 7.1 74 112-194 869-943 (944)
132 PF14569 zf-UDP: Zinc-binding 94.0 0.049 1.1E-06 49.0 3.1 53 5-62 8-63 (80)
133 KOG1456 Heterogeneous nuclear 93.4 0.3 6.4E-06 54.7 8.5 71 116-199 128-200 (494)
134 KOG0112 Large RNA-binding prot 93.3 0.091 2E-06 63.5 4.8 78 106-197 451-530 (975)
135 PF00097 zf-C3HC4: Zinc finger 93.2 0.051 1.1E-06 41.2 1.7 41 9-56 1-41 (41)
136 KOG4285 Mitotic phosphoprotein 93.2 0.14 3E-06 55.9 5.5 65 111-191 198-262 (350)
137 KOG1457 RNA binding protein (c 93.2 0.078 1.7E-06 55.9 3.5 64 110-185 210-273 (284)
138 KOG2416 Acinus (induces apopto 93.2 0.062 1.3E-06 62.5 3.0 74 110-197 444-521 (718)
139 KOG0129 Predicted RNA-binding 93.1 0.16 3.4E-06 58.4 6.0 69 103-179 363-432 (520)
140 PLN02638 cellulose synthase A 92.9 0.054 1.2E-06 66.7 2.1 50 7-61 18-70 (1079)
141 KOG4211 Splicing factor hnRNP- 92.3 0.29 6.4E-06 56.1 6.8 74 110-193 103-177 (510)
142 KOG0115 RNA-binding protein p5 92.2 0.18 4E-06 53.9 4.7 107 105-221 26-136 (275)
143 KOG0317 Predicted E3 ubiquitin 91.9 0.13 2.9E-06 55.5 3.4 54 3-66 236-289 (293)
144 PLN02915 cellulose synthase A 91.4 0.12 2.6E-06 63.6 2.7 50 7-61 16-68 (1044)
145 PF15227 zf-C3HC4_4: zinc fing 91.4 0.13 2.9E-06 40.5 2.0 42 9-56 1-42 (42)
146 PLN02400 cellulose synthase 91.4 0.092 2E-06 64.8 1.7 50 7-61 37-89 (1085)
147 PF08675 RNA_bind: RNA binding 91.0 0.61 1.3E-05 42.8 6.1 56 110-181 8-63 (87)
148 KOG3002 Zn finger protein [Gen 90.9 0.17 3.6E-06 55.0 2.8 46 4-61 46-91 (299)
149 COG5236 Uncharacterized conser 90.8 0.16 3.4E-06 56.4 2.6 53 3-63 58-110 (493)
150 KOG0129 Predicted RNA-binding 90.7 0.78 1.7E-05 53.0 7.9 80 111-197 260-342 (520)
151 PF04641 Rtf2: Rtf2 RING-finge 90.4 0.35 7.5E-06 51.0 4.6 64 4-74 111-174 (260)
152 PF10309 DUF2414: Protein of u 90.4 0.8 1.7E-05 39.6 6.0 56 108-180 3-62 (62)
153 PF13445 zf-RING_UBOX: RING-ty 90.0 0.19 4.2E-06 40.2 1.8 33 9-42 1-33 (43)
154 PF04847 Calcipressin: Calcipr 89.8 0.51 1.1E-05 48.1 5.1 57 131-198 13-71 (184)
155 PF12861 zf-Apc11: Anaphase-pr 89.6 0.36 7.9E-06 44.1 3.5 54 5-61 20-82 (85)
156 KOG1855 Predicted RNA-binding 89.5 0.34 7.4E-06 54.9 4.0 90 100-193 219-319 (484)
157 COG5432 RAD18 RING-finger-cont 87.8 0.26 5.6E-06 53.7 1.5 46 7-64 26-73 (391)
158 KOG1365 RNA-binding protein Fu 87.1 1.4 3E-05 49.9 6.6 58 113-179 164-225 (508)
159 PF03467 Smg4_UPF3: Smg-4/UPF3 86.7 0.96 2.1E-05 45.5 4.8 70 110-185 7-80 (176)
160 KOG4172 Predicted E3 ubiquitin 86.2 0.24 5.2E-06 42.4 0.2 48 6-61 7-54 (62)
161 KOG3800 Predicted E3 ubiquitin 85.9 0.96 2.1E-05 49.3 4.5 54 8-66 2-56 (300)
162 KOG4307 RNA binding protein RB 85.5 0.52 1.1E-05 56.1 2.5 79 111-199 435-514 (944)
163 KOG2135 Proteins containing th 85.4 0.39 8.6E-06 55.0 1.5 75 108-197 370-445 (526)
164 KOG2193 IGF-II mRNA-binding pr 85.1 0.96 2.1E-05 51.5 4.2 75 111-199 2-77 (584)
165 KOG0287 Postreplication repair 84.7 0.32 6.9E-06 53.9 0.3 50 6-65 23-72 (442)
166 KOG2164 Predicted E3 ubiquitin 84.2 0.74 1.6E-05 53.2 2.9 51 6-61 186-236 (513)
167 KOG4676 Splicing factor, argin 83.9 1.1 2.3E-05 50.8 3.8 75 112-192 9-83 (479)
168 KOG0128 RNA-binding protein SA 83.7 0.45 9.7E-06 57.5 1.0 78 109-195 735-812 (881)
169 KOG4265 Predicted E3 ubiquitin 83.7 0.53 1.2E-05 52.2 1.5 48 4-62 288-337 (349)
170 PF11767 SET_assoc: Histone ly 83.4 1.7 3.7E-05 37.9 4.2 29 163-191 36-64 (66)
171 PF10650 zf-C3H1: Putative zin 83.4 0.6 1.3E-05 33.5 1.1 20 199-218 2-21 (23)
172 COG5574 PEX10 RING-finger-cont 82.8 0.84 1.8E-05 49.1 2.5 47 4-58 213-259 (271)
173 KOG2857 Predicted MYND Zn-fing 81.2 0.67 1.4E-05 46.1 1.0 28 26-62 2-29 (157)
174 PF12678 zf-rbx1: RING-H2 zinc 81.1 1.3 2.7E-05 38.6 2.5 47 5-57 18-73 (73)
175 COG5243 HRD1 HRD ubiquitin lig 80.9 1.1 2.4E-05 50.4 2.7 50 5-60 286-344 (491)
176 KOG0311 Predicted E3 ubiquitin 80.9 0.43 9.2E-06 53.1 -0.5 51 5-63 42-92 (381)
177 PF04564 U-box: U-box domain; 80.6 0.87 1.9E-05 39.3 1.4 53 5-66 3-55 (73)
178 KOG0802 E3 ubiquitin ligase [P 80.2 0.93 2E-05 52.4 1.9 53 4-63 289-343 (543)
179 PF15023 DUF4523: Protein of u 78.5 8 0.00017 39.1 7.4 73 109-194 85-158 (166)
180 PHA02825 LAP/PHD finger-like p 75.6 2.2 4.9E-05 43.1 2.8 50 4-63 6-61 (162)
181 KOG2923 Uncharacterized conser 75.4 1.2 2.7E-05 39.0 0.8 33 21-58 20-52 (67)
182 KOG0823 Predicted E3 ubiquitin 73.8 2.4 5.1E-05 45.0 2.5 57 3-66 44-100 (230)
183 PF08274 PhnA_Zn_Ribbon: PhnA 73.6 1.2 2.6E-05 33.7 0.2 26 7-32 3-29 (30)
184 COG5222 Uncharacterized conser 73.5 4.5 9.8E-05 44.7 4.6 43 7-58 275-318 (427)
185 KOG0112 Large RNA-binding prot 73.1 0.92 2E-05 55.3 -0.7 79 110-197 372-450 (975)
186 PF07191 zinc-ribbons_6: zinc- 72.3 0.53 1.1E-05 41.7 -2.2 42 6-62 1-42 (70)
187 KOG0128 RNA-binding protein SA 71.4 0.58 1.2E-05 56.7 -2.8 69 110-186 667-735 (881)
188 KOG2591 c-Mpl binding protein, 68.5 7.4 0.00016 46.0 5.1 84 104-205 168-256 (684)
189 KOG0297 TNF receptor-associate 67.3 3.9 8.4E-05 45.9 2.6 52 4-64 19-70 (391)
190 KOG4574 RNA-binding protein (c 63.9 4.1 9E-05 49.8 2.1 83 101-198 290-374 (1007)
191 PF14608 zf-CCCH_2: Zinc finge 63.6 4.2 9.1E-05 27.5 1.2 11 208-218 7-18 (19)
192 smart00356 ZnF_C3H1 zinc finge 62.2 6.5 0.00014 27.1 2.1 23 197-220 4-27 (27)
193 KOG1941 Acetylcholine receptor 61.5 3.3 7.2E-05 47.0 0.7 50 5-58 364-413 (518)
194 COG5216 Uncharacterized conser 61.2 2.6 5.6E-05 36.7 -0.1 34 20-58 18-52 (67)
195 KOG4849 mRNA cleavage factor I 60.3 7.7 0.00017 43.7 3.2 75 110-190 80-154 (498)
196 COG5220 TFB3 Cdk activating ki 60.1 3.9 8.6E-05 44.0 1.0 49 5-58 9-61 (314)
197 KOG1812 Predicted E3 ubiquitin 58.9 6.3 0.00014 44.3 2.3 49 6-55 146-195 (384)
198 KOG0804 Cytoplasmic Zn-finger 55.4 24 0.00053 40.9 6.1 67 110-186 74-141 (493)
199 KOG2193 IGF-II mRNA-binding pr 55.0 0.68 1.5E-05 52.7 -5.9 70 113-194 83-153 (584)
200 KOG4210 Nuclear localization s 54.3 7.3 0.00016 42.2 1.8 109 111-233 89-203 (285)
201 PF11793 FANCL_C: FANCL C-term 53.9 6.5 0.00014 34.2 1.1 52 6-60 2-65 (70)
202 KOG2879 Predicted E3 ubiquitin 53.7 11 0.00023 41.4 2.9 50 4-60 237-286 (298)
203 PF07576 BRAP2: BRCA1-associat 53.5 77 0.0017 30.2 8.2 67 110-186 12-80 (110)
204 PF00642 zf-CCCH: Zinc finger 48.7 7.1 0.00015 28.2 0.5 24 196-219 2-26 (27)
205 COG5183 SSM4 Protein involved 48.6 12 0.00027 45.9 2.7 55 4-65 10-70 (1175)
206 PF03880 DbpA: DbpA RNA bindin 48.0 41 0.00089 29.1 5.1 59 120-195 11-74 (74)
207 TIGR00143 hypF [NiFe] hydrogen 46.2 8.2 0.00018 46.7 0.7 52 6-62 68-130 (711)
208 KOG0826 Predicted E3 ubiquitin 45.9 10 0.00023 42.3 1.4 40 5-56 299-341 (357)
209 KOG4185 Predicted E3 ubiquitin 44.8 16 0.00035 38.6 2.6 49 7-60 4-54 (296)
210 PF02318 FYVE_2: FYVE-type zin 44.7 11 0.00024 35.5 1.2 49 5-58 53-102 (118)
211 KOG0804 Cytoplasmic Zn-finger 44.1 13 0.00028 43.1 1.8 22 5-26 174-195 (493)
212 smart00744 RINGv The RING-vari 44.1 27 0.00058 28.6 3.1 46 8-57 1-49 (49)
213 KOG0825 PHD Zn-finger protein 43.7 18 0.00039 44.5 2.9 58 7-64 97-174 (1134)
214 KOG1493 Anaphase-promoting com 43.5 22 0.00047 32.7 2.7 54 6-60 20-80 (84)
215 COG0068 HypF Hydrogenase matur 40.5 12 0.00025 45.5 0.8 26 6-31 101-132 (750)
216 PF06827 zf-FPG_IleRS: Zinc fi 39.8 3.6 7.9E-05 30.1 -2.2 28 31-58 2-29 (30)
217 KOG0105 Alternative splicing f 39.7 70 0.0015 33.9 6.1 61 110-185 115-175 (241)
218 PF01485 IBR: IBR domain; Int 38.6 16 0.00034 29.5 1.1 34 5-38 17-56 (64)
219 PHA02862 5L protein; Provision 38.2 25 0.00055 35.5 2.6 45 7-61 3-53 (156)
220 KOG0824 Predicted E3 ubiquitin 37.8 24 0.00052 39.2 2.6 50 5-63 6-55 (324)
221 COG5219 Uncharacterized conser 37.3 15 0.00033 46.0 1.0 49 4-60 1467-1522(1525)
222 KOG4628 Predicted E3 ubiquitin 36.3 25 0.00054 39.6 2.4 46 8-61 231-278 (348)
223 KOG3161 Predicted E3 ubiquitin 34.4 16 0.00035 44.0 0.7 48 7-65 12-59 (861)
224 PF12773 DZR: Double zinc ribb 34.3 34 0.00074 27.2 2.3 42 9-63 1-42 (50)
225 KOG4213 RNA-binding protein La 33.1 34 0.00074 35.8 2.7 64 107-181 108-171 (205)
226 KOG1729 FYVE finger containing 32.2 10 0.00022 41.6 -1.3 59 2-61 164-225 (288)
227 KOG4159 Predicted E3 ubiquitin 32.1 28 0.00061 39.8 2.1 47 6-62 84-130 (398)
228 KOG0978 E3 ubiquitin ligase in 30.4 32 0.00069 41.9 2.2 50 7-65 644-693 (698)
229 TIGR00416 sms DNA repair prote 30.3 23 0.0005 40.6 1.1 24 21-58 5-29 (454)
230 PRK11595 DNA utilization prote 30.3 40 0.00087 34.9 2.7 40 7-61 6-45 (227)
231 PF12773 DZR: Double zinc ribb 30.3 42 0.00091 26.7 2.2 29 3-31 9-38 (50)
232 PF04423 Rad50_zn_hook: Rad50 29.3 28 0.00061 28.5 1.1 17 49-65 19-35 (54)
233 KOG1039 Predicted E3 ubiquitin 29.1 42 0.00092 37.7 2.8 55 4-60 159-220 (344)
234 PF10571 UPF0547: Uncharacteri 28.6 37 0.0008 24.9 1.5 21 8-31 2-23 (26)
235 KOG4692 Predicted E3 ubiquitin 28.6 41 0.00089 38.3 2.5 48 2-60 418-466 (489)
236 KOG4019 Calcineurin-mediated s 28.6 74 0.0016 33.4 4.2 95 113-218 13-110 (193)
237 KOG3039 Uncharacterized conser 27.3 43 0.00094 36.5 2.3 55 7-67 222-276 (303)
238 PF11781 RRN7: RNA polymerase 27.2 31 0.00068 26.9 1.0 25 8-32 10-35 (36)
239 KOG1785 Tyrosine kinase negati 26.5 34 0.00073 39.5 1.5 46 7-60 370-415 (563)
240 KOG1040 Polyadenylation factor 26.3 26 0.00056 39.1 0.5 24 196-219 76-99 (325)
241 COG0724 RNA-binding proteins ( 26.1 69 0.0015 30.5 3.3 80 101-188 216-295 (306)
242 PRK11823 DNA repair protein Ra 25.9 34 0.00073 39.1 1.4 24 21-58 5-29 (446)
243 KOG1492 C3H1-type Zn-finger pr 25.8 27 0.00058 37.5 0.5 26 199-225 263-288 (377)
244 PF05605 zf-Di19: Drought indu 25.5 36 0.00077 27.9 1.1 38 6-58 2-39 (54)
245 PRK04023 DNA polymerase II lar 25.1 73 0.0016 40.6 4.0 46 5-63 625-676 (1121)
246 KOG1815 Predicted E3 ubiquitin 25.0 1.1E+02 0.0025 34.9 5.3 66 3-71 67-136 (444)
247 KOG2318 Uncharacterized conser 24.5 2.3E+02 0.0049 34.5 7.5 80 111-190 175-298 (650)
248 KOG0828 Predicted E3 ubiquitin 24.2 59 0.0013 38.5 2.8 14 6-19 571-584 (636)
249 COG1198 PriA Primosomal protei 23.8 49 0.0011 40.6 2.2 53 7-76 445-497 (730)
250 smart00064 FYVE Protein presen 23.6 58 0.0013 27.3 2.0 41 1-41 5-45 (68)
251 PRK03681 hypA hydrogenase nick 23.1 39 0.00084 32.0 1.0 19 9-27 73-91 (114)
252 KOG2891 Surface glycoprotein [ 23.0 32 0.00069 38.1 0.5 90 110-201 149-271 (445)
253 PF02714 DUF221: Domain of unk 22.6 80 0.0017 33.6 3.3 32 163-196 1-32 (325)
254 TIGR00595 priA primosomal prot 22.6 95 0.0021 36.2 4.1 39 7-58 223-261 (505)
255 smart00647 IBR In Between Ring 22.2 46 0.001 26.9 1.1 33 6-38 18-56 (64)
256 PF12677 DUF3797: Domain of un 22.1 38 0.00083 28.6 0.6 26 7-32 14-48 (49)
257 KOG1842 FYVE finger-containing 21.9 35 0.00077 39.7 0.5 39 2-41 176-215 (505)
258 KOG3113 Uncharacterized conser 21.1 90 0.002 34.3 3.3 59 7-75 112-172 (293)
259 PF10272 Tmpp129: Putative tra 21.1 98 0.0021 35.1 3.7 35 24-60 307-350 (358)
260 KOG1001 Helicase-like transcri 20.7 37 0.0008 41.2 0.4 50 7-65 455-504 (674)
261 PRK05580 primosome assembly pr 20.6 1.1E+02 0.0023 37.0 4.1 39 7-58 391-429 (679)
262 cd01121 Sms Sms (bacterial rad 20.2 47 0.001 37.3 1.1 10 49-58 13-22 (372)
263 TIGR00686 phnA alkylphosphonat 20.1 49 0.0011 32.0 1.0 25 7-31 3-28 (109)
264 PF13240 zinc_ribbon_2: zinc-r 20.1 61 0.0013 23.1 1.2 9 9-17 2-10 (23)
No 1
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=100.00 E-value=2.9e-79 Score=638.28 Aligned_cols=229 Identities=46% Similarity=0.955 Sum_probs=204.8
Q ss_pred CcccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccccccchhHHHHHHHHH
Q 004082 2 SDEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERLVAEISM 81 (775)
Q Consensus 2 sde~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~e~l~~~~~~ 81 (775)
|+|+|+.||||||+||+||++|+||+||||||+||||+|+ ++++||||||||.||++.+.|.++++||++.++.+
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 5666777999999999999999999999999999999996 47999999999999999999999999999888653
Q ss_pred --HHHHHhhhhccCcccchhccCccccccccCEEEEeCCCCCCChHH---HHHHHhhhcCCcceeEEEEeecCCcccccc
Q 004082 82 --ERKMKSQKSKTKSSEGKKQQLSSVRVIQRNLVYIVGLPLNLGDED---LLQRREYFGQYGKVLKVSMSRTAAGVIQQF 156 (775)
Q Consensus 82 --~kk~K~qk~K~k~se~RK~~LanVRVIQrNLVYVvGLp~~iaeED---LLr~~EyFGQYGKI~KIvI~rd~~~~~qq~ 156 (775)
+||+++..+|+.+-.+|| ||+++||||||||||+||++.+++|+ +|+++|||||||+|.||+|++..... ..
T Consensus 85 k~erk~rekerke~e~~nrk-hlsniRVvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~--ns 161 (480)
T COG5175 85 KEERKMREKERKEAEGQNRK-HLSNIRVVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSL--NS 161 (480)
T ss_pred hhhhhccHHHHhhhhccccc-ccccceeeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEeccccccc--cc
Confidence 344444444555567899 99999999999999999999999999 89999999999999999999865322 12
Q ss_pred CCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEEecCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhh
Q 004082 157 PNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAY 236 (775)
Q Consensus 157 p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRASfGTTKYCssFLR~~~C~NpdC~YLHE~g~~~DsfTKeem~~~~ 236 (775)
.....++||||.++|||++||.++||..+|||.|||+|||||||++||||++|+||+||||||.|++.|+|||+||....
T Consensus 162 t~~h~gvYITy~~kedAarcIa~vDgs~~DGr~lkatYGTTKYCtsYLRn~~CpNp~CMyLHEpg~e~Ds~tK~el~n~q 241 (480)
T COG5175 162 TASHAGVYITYSTKEDAARCIAEVDGSLLDGRVLKATYGTTKYCTSYLRNAVCPNPDCMYLHEPGPEKDSLTKDELCNSQ 241 (480)
T ss_pred ccccceEEEEecchHHHHHHHHHhccccccCceEeeecCchHHHHHHHcCCCCCCCCeeeecCCCcccccccHHHHhhhh
Confidence 22346889999999999999999999999999999999999999999999999999999999999999999999999865
Q ss_pred cc
Q 004082 237 TR 238 (775)
Q Consensus 237 ~~ 238 (775)
+.
T Consensus 242 h~ 243 (480)
T COG5175 242 HK 243 (480)
T ss_pred hh
Confidence 43
No 2
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=100.00 E-value=2e-59 Score=490.26 Aligned_cols=304 Identities=43% Similarity=0.692 Sum_probs=256.6
Q ss_pred CchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccccccchhHHHHHHHHHHHHHHhhhhccCcccchhccCcccccc
Q 004082 29 GYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERLVAEISMERKMKSQKSKTKSSEGKKQQLSSVRVI 108 (775)
Q Consensus 29 GYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~e~l~~~~~~~kk~K~qk~K~k~se~RK~~LanVRVI 108 (775)
|||||+||||||++++++ +|||||||++|++++|+++++.+++++++.+.++| |+++.|.+...+|+ ||.++|||
T Consensus 1 ~yqIc~~cwh~i~~~~~~---~grcpncr~ky~e~ki~~r~~~~~~l~~~~n~~kk-~e~e~k~~~~s~r~-~ls~~rvV 75 (327)
T KOG2068|consen 1 GYQICDSCWHHIATSAEK---KGRCPNCRTKYKEEKIVLRRVQWESLVAEKNKEKK-KEQEIKRKLSSNRK-HLSGVRVV 75 (327)
T ss_pred CceeeHHHHhcccccccc---ccCCccccCccchhhhccccccHHHHHHhhhhhhh-hHHHHhhhhhhccc-ccccchhh
Confidence 899999999999987765 79999999999999999999999999887776666 88888999999999 89999999
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
|||+|||+||+..+++|++|++.+||||||+|.+|++.+++.. .........+||||.+.|||.+||+.++|+.++||
T Consensus 76 qknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~--~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~ 153 (327)
T KOG2068|consen 76 QKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSS--SSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGR 153 (327)
T ss_pred hhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCccc--ccCCCCCCcccccccchHhhhhHHHHhhhHHhhhh
Confidence 9999999999999999999999999999999999999987741 12334567899999999999999999999999999
Q ss_pred EEEEEecCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhhcccccccccccccccccccCCCCCCCCCcccc
Q 004082 189 SLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTRSRVQQITGTTNNLQRRSGNVLPPPFDDYCH 268 (775)
Q Consensus 189 ~LRASfGTTKYCssFLR~~~C~NpdC~YLHE~g~~~DsfTKeem~~~~~~~~~~~~~g~~~~~qrrsg~~lPpP~~~~~~ 268 (775)
.|+|+|||||||++|||+.+|.|++||||||+|+++|+|||+||+.++++. ++..++.+.++|..+.++|+|++-+..
T Consensus 154 ~lka~~gttkycs~~l~~~~c~~~~cmylhe~~~~~Ds~~k~e~~~~~~~~--~~~~~~~n~~~~~~~~~~p~~l~~~~~ 231 (327)
T KOG2068|consen 154 ALKASLGTTKYCSFYLRNDICQNPDCMYLHEIGDQEDSFTKDEMKSAKHRE--SSRKQTSNIARRSDDKLRPQPLPNLEK 231 (327)
T ss_pred hhHHhhCCCcchhHHhhhhcccCccccccccccccccccchHHHHHHhhhh--hcccccccceeccCcccCCCccccccc
Confidence 999999999999999999999999999999999999999999999999884 777888889999999999999997775
Q ss_pred cCCcccCCCccccCCCCcccccCCCCCCCC---CCCCCCCCccccccccccCCCC-cccc-cCCCCCCCCCCCCCCCccc
Q 004082 269 INSVSTAKPSVKNAANNTASISKDPIPNGS---SARSVALPAAASWGMRASNQQS-VATS-ACSNGPSKQRPDTVGGALA 343 (775)
Q Consensus 269 ~~~~~~~~p~~k~~~~n~~~~~r~s~p~~~---~~~~~aLP~~asW~~~~s~~~~-~~~~-~~~~~~~~~~~~~~~~~~~ 343 (775)
. ...|..+..-++.+......||-.. ..+..+||.+++|++ +.+ .+|. ...+...-.+-+...++.+
T Consensus 232 ~----~s~p~~~~~~~~~~~v~~s~p~~~~~~~~~d~~~lP~~~~~~~----~l~~~~t~~~~~~~~~~~rk~~~~~t~~ 303 (327)
T KOG2068|consen 232 Q----RSAPDAQLDFSSVTSVPPSCPICYEDLDLTDSNFLPCPCGFRL----CLFCHKTISDGDGRCPGCRKPYERNTKK 303 (327)
T ss_pred c----cCCcccccCCccccccCCCCCCCCCcccccccccccccccccc----hhhhhhcccccCCCCCccCCccccCccc
Confidence 4 2277776664555456666666654 568899999999996 443 3433 2333333444445555555
Q ss_pred cccccc
Q 004082 344 FSSAVA 349 (775)
Q Consensus 344 ~s~~~~ 349 (775)
|++.+-
T Consensus 304 s~~~~~ 309 (327)
T KOG2068|consen 304 SETSVQ 309 (327)
T ss_pred cccccc
Confidence 555554
No 3
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=99.84 E-value=7.2e-22 Score=158.47 Aligned_cols=48 Identities=56% Similarity=1.481 Sum_probs=30.3
Q ss_pred CCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 9 CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
||||+|+||+||++|+||+||||||+|||++|+ ++++|+||+||++|+
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 367999999999995
No 4
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.53 E-value=4.7e-14 Score=134.18 Aligned_cols=89 Identities=19% Similarity=0.368 Sum_probs=77.4
Q ss_pred cCccccccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHh
Q 004082 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (775)
Q Consensus 101 ~LanVRVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaL 180 (775)
.+..+|... +.|||+|||+.+++++|. ++|++||+|.+|.|.++..+. .++++|||+|.+.|+|++||+.|
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 444455544 469999999999999886 999999999999999887543 36789999999999999999999
Q ss_pred cCCccCCeEEEEEecCCC
Q 004082 181 HGFVLEGKSLKACFGTTK 198 (775)
Q Consensus 181 DGs~LdGR~LRASfGTTK 198 (775)
||..|+||.|+|.+++.+
T Consensus 97 ng~~i~Gr~l~V~~a~~~ 114 (144)
T PLN03134 97 DGKELNGRHIRVNPANDR 114 (144)
T ss_pred CCCEECCEEEEEEeCCcC
Confidence 999999999999999765
No 5
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.52 E-value=3.8e-14 Score=146.88 Aligned_cols=79 Identities=23% Similarity=0.423 Sum_probs=72.9
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
.|||+|||+.+++++|. ++|++||.|..|.|.++..++ ..+|+|||+|.+.++|.+||++|||..|+||.|+
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 59999999999888875 999999999999999987543 3688999999999999999999999999999999
Q ss_pred EEecCCC
Q 004082 192 ACFGTTK 198 (775)
Q Consensus 192 ASfGTTK 198 (775)
|+|.+.|
T Consensus 343 V~~~~~~ 349 (352)
T TIGR01661 343 VSFKTNK 349 (352)
T ss_pred EEEccCC
Confidence 9999987
No 6
>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=99.51 E-value=5.6e-14 Score=112.38 Aligned_cols=70 Identities=23% Similarity=0.650 Sum_probs=63.7
Q ss_pred EEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 113 VYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
|||+|||+.+++++|. ++|++||+|..+.|.++..+ ..++.|||+|.+.++|.+|++.+||..++|+.||
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 7999999999999996 99999999999999886322 3578999999999999999999999999999997
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=2.1e-13 Score=141.32 Aligned_cols=109 Identities=17% Similarity=0.359 Sum_probs=86.9
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
+++|||+|||+.+++++|. ++|++||+|..|.|.+++.++ ..+|+|||+|.+.+||.+||..|||..|.|+.
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 6899999999999999996 999999999999999987543 35789999999999999999999999999999
Q ss_pred EEEEecCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhhc
Q 004082 190 LKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYT 237 (775)
Q Consensus 190 LRASfGTTKYCssFLR~~~C~NpdC~YLHE~g~~~DsfTKeem~~~~~ 237 (775)
|+|.|+..+.= -. ....+|+.-+. ..+|.++|.....
T Consensus 75 i~v~~a~~~~~--~~------~~~~l~v~~l~---~~~~~~~l~~~f~ 111 (352)
T TIGR01661 75 IKVSYARPSSD--SI------KGANLYVSGLP---KTMTQHELESIFS 111 (352)
T ss_pred EEEEeeccccc--cc------ccceEEECCcc---ccCCHHHHHHHHh
Confidence 99999865421 11 12235555443 2356777766443
No 8
>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=99.35 E-value=3.5e-12 Score=104.05 Aligned_cols=70 Identities=31% Similarity=0.642 Sum_probs=62.2
Q ss_pred EEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 113 VYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
|||.|||+.+++++|. ++|.+||.|.+|.+.+++.+ ..++.|||+|.+.++|.+|++..+|..++||.|+
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---NFFSRFGPVEKVRLIKNKDG------QSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHH---HHCTTSSBEEEEEEEESTTS------SEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHH---HHHHhcCCcceEEEEeeecc------ccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 7999999999999986 89999999999999987542 3578999999999999999999999999999986
No 9
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.30 E-value=7.3e-12 Score=116.04 Aligned_cols=83 Identities=18% Similarity=0.504 Sum_probs=72.4
Q ss_pred ccccccc--cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHh
Q 004082 103 SSVRVIQ--RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (775)
Q Consensus 103 anVRVIQ--rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaL 180 (775)
.+.|+-| ..++||.|||.+++.|++. |+||+||.|..|.|..++.+ +|.|||.|++..||.+|...|
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 3444433 4679999999999999995 99999999999999876654 689999999999999999999
Q ss_pred cCCccCCeEEEEEecC
Q 004082 181 HGFVLEGKSLKACFGT 196 (775)
Q Consensus 181 DGs~LdGR~LRASfGT 196 (775)
.|+.+++|.|.|-|=+
T Consensus 78 sg~n~~~ryl~vlyyq 93 (124)
T KOG0114|consen 78 SGYNVDNRYLVVLYYQ 93 (124)
T ss_pred cccccCCceEEEEecC
Confidence 9999999999998743
No 10
>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=99.30 E-value=7.1e-12 Score=134.56 Aligned_cols=83 Identities=17% Similarity=0.320 Sum_probs=74.5
Q ss_pred ccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 107 VIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
.....+|||++||+.+++++|. ++|.+||+|++|.|.++..+. ..+++|||+|.++++|.+||+.|||..+.
T Consensus 104 ~~~~~~LfVgnLp~~~te~~L~---~lF~~~G~V~~v~i~~d~~tg-----~srGyaFVeF~~~e~A~~Ai~~LnG~~l~ 175 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTDRELY---ALFRTIGPINTCRIMRDYKTG-----YSFGYAFVDFGSEADSQRAIKNLNGITVR 175 (346)
T ss_pred CCCCcEEEEeCCCCCCCHHHHH---HHHHhcCCEEEEEEEecCCCC-----ccCcEEEEEEccHHHHHHHHHHcCCCccC
Confidence 3357889999999999999886 999999999999999887543 35789999999999999999999999999
Q ss_pred CeEEEEEecCC
Q 004082 187 GKSLKACFGTT 197 (775)
Q Consensus 187 GR~LRASfGTT 197 (775)
|++|+|.|+..
T Consensus 176 gr~i~V~~a~p 186 (346)
T TIGR01659 176 NKRLKVSYARP 186 (346)
T ss_pred Cceeeeecccc
Confidence 99999999865
No 11
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.29 E-value=4.1e-12 Score=135.03 Aligned_cols=79 Identities=25% Similarity=0.452 Sum_probs=72.8
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
-+.|||.|||+++.+.||. .+|++||+|++|.|+-+..| ++||+||||++.+||.+|-+.|||..++||+
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 4668999999999999996 89999999999999865433 5789999999999999999999999999999
Q ss_pred EEEEecCCC
Q 004082 190 LKACFGTTK 198 (775)
Q Consensus 190 LRASfGTTK 198 (775)
|.|.-||.+
T Consensus 166 IEVn~ATar 174 (376)
T KOG0125|consen 166 IEVNNATAR 174 (376)
T ss_pred EEEeccchh
Confidence 999999998
No 12
>smart00362 RRM_2 RNA recognition motif.
Probab=99.28 E-value=1.7e-11 Score=95.39 Aligned_cols=72 Identities=25% Similarity=0.577 Sum_probs=64.5
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
.|||.|||..++.++|. ++|.+||+|..|.+.++. + .+.+.|||+|.+.++|.+|++.++|..++|+.|+
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 48999999999999986 899999999999998765 2 2467899999999999999999999999999998
Q ss_pred EE
Q 004082 192 AC 193 (775)
Q Consensus 192 AS 193 (775)
|.
T Consensus 71 v~ 72 (72)
T smart00362 71 VE 72 (72)
T ss_pred eC
Confidence 73
No 13
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.28 E-value=1.2e-11 Score=128.75 Aligned_cols=76 Identities=18% Similarity=0.300 Sum_probs=68.5
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
..+.|||+|||+.+++++|. ++|++||+|.+|.|.++.. .+++|||||.++++|..||. |||..|+||
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 35789999999999999986 9999999999999988753 35799999999999999995 999999999
Q ss_pred EEEEEecC
Q 004082 189 SLKACFGT 196 (775)
Q Consensus 189 ~LRASfGT 196 (775)
.|+|..+.
T Consensus 71 ~V~Vt~a~ 78 (260)
T PLN03120 71 SVTITPAE 78 (260)
T ss_pred eEEEEecc
Confidence 99999854
No 14
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.27 E-value=2.6e-12 Score=131.14 Aligned_cols=85 Identities=14% Similarity=0.318 Sum_probs=76.0
Q ss_pred cccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc
Q 004082 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (775)
Q Consensus 106 RVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L 185 (775)
.-.||++|||+||...+++ .+| +..|-.||.|++|.|+.|..+. ..++|+||+|...|||..||..||+..|
T Consensus 6 ~a~~KrtlYVGGladeVte-kvL--haAFIPFGDI~dIqiPlDyesq-----kHRgFgFVefe~aEDAaaAiDNMnesEL 77 (298)
T KOG0111|consen 6 MANQKRTLYVGGLADEVTE-KVL--HAAFIPFGDIKDIQIPLDYESQ-----KHRGFGFVEFEEAEDAAAAIDNMNESEL 77 (298)
T ss_pred ccccceeEEeccchHHHHH-HHH--Hhccccccchhhcccccchhcc-----cccceeEEEeeccchhHHHhhcCchhhh
Confidence 3467899999999999965 577 6899999999999999987653 3578999999999999999999999999
Q ss_pred CCeEEEEEecCCC
Q 004082 186 EGKSLKACFGTTK 198 (775)
Q Consensus 186 dGR~LRASfGTTK 198 (775)
.||+|||.||..-
T Consensus 78 ~GrtirVN~AkP~ 90 (298)
T KOG0111|consen 78 FGRTIRVNLAKPE 90 (298)
T ss_pred cceeEEEeecCCc
Confidence 9999999999874
No 15
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.27 E-value=8.1e-12 Score=127.18 Aligned_cols=87 Identities=21% Similarity=0.430 Sum_probs=77.5
Q ss_pred ccccC-EEEEeCCCCCCChHHHHHH-HhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCc
Q 004082 107 VIQRN-LVYIVGLPLNLGDEDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV 184 (775)
Q Consensus 107 VIQrN-LVYVvGLp~~iaeEDLLr~-~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~ 184 (775)
.+..| ++||.+|+.++..++|+|. +.+|+|||+|++|++.+.. ..+|.|||.|.+.+.|..|+.+|+|+.
T Consensus 5 ~~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~--------KmRGQA~VvFk~~~~As~A~r~l~gfp 76 (221)
T KOG4206|consen 5 SVNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTP--------KMRGQAFVVFKETEAASAALRALQGFP 76 (221)
T ss_pred ccCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCC--------CccCceEEEecChhHHHHHHHHhcCCc
Confidence 33344 9999999999999998776 9999999999999998754 357899999999999999999999999
Q ss_pred cCCeEEEEEecCCCccc
Q 004082 185 LEGKSLKACFGTTKYCH 201 (775)
Q Consensus 185 LdGR~LRASfGTTKYCs 201 (775)
+-|+++|++||.++-|-
T Consensus 77 FygK~mriqyA~s~sdi 93 (221)
T KOG4206|consen 77 FYGKPMRIQYAKSDSDI 93 (221)
T ss_pred ccCchhheecccCccch
Confidence 99999999999998554
No 16
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.24 E-value=2.6e-11 Score=113.74 Aligned_cols=80 Identities=26% Similarity=0.495 Sum_probs=72.9
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
...|||+|||..+++++|. ++|.+||.|..|.|..++.++ ..+|+|||+|.+.++|..||..++|..|.||.
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 5999999999999999996 999999999999999886432 36789999999999999999999999999999
Q ss_pred EEEEecCC
Q 004082 190 LKACFGTT 197 (775)
Q Consensus 190 LRASfGTT 197 (775)
|+|.++.-
T Consensus 187 ~~v~~~~~ 194 (306)
T COG0724 187 LRVQKAQP 194 (306)
T ss_pred eEeecccc
Confidence 99999664
No 17
>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=99.24 E-value=3.1e-11 Score=129.71 Aligned_cols=83 Identities=23% Similarity=0.484 Sum_probs=73.5
Q ss_pred cccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 108 IQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
++...|||.|||+.+++|+|. ++|++||+|+.|.|.+++.+. .++++|||+|.+.++|++||+.|||..++|
T Consensus 191 ~~~~~lfV~nLp~~vtee~L~---~~F~~fG~V~~v~i~~d~~tg-----~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g 262 (346)
T TIGR01659 191 IKDTNLYVTNLPRTITDDQLD---TIFGKYGQIVQKNILRDKLTG-----TPRGVAFVRFNKREEAQEAISALNNVIPEG 262 (346)
T ss_pred cccceeEEeCCCCcccHHHHH---HHHHhcCCEEEEEEeecCCCC-----ccceEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 346789999999999999885 999999999999999886543 357899999999999999999999999977
Q ss_pred --eEEEEEecCCC
Q 004082 188 --KSLKACFGTTK 198 (775)
Q Consensus 188 --R~LRASfGTTK 198 (775)
+.|+|.|+..+
T Consensus 263 ~~~~l~V~~a~~~ 275 (346)
T TIGR01659 263 GSQPLTVRLAEEH 275 (346)
T ss_pred CceeEEEEECCcc
Confidence 79999998875
No 18
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.23 E-value=1.5e-11 Score=122.09 Aligned_cols=78 Identities=17% Similarity=0.296 Sum_probs=71.4
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
...|||+||+.++++.||- ..|+.||+|.+|+|.+. +.|||||+|+++.||++|+.+|||..|+|..
T Consensus 10 ~~kVYVGnL~~~a~k~eLE---~~F~~yG~lrsvWvArn----------PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r 76 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKRELE---RAFSKYGPLRSVWVARN----------PPGFAFVEFEDPRDAEDAVRYLDGKDICGSR 76 (195)
T ss_pred CceEEeccCCCCcchHHHH---HHHHhcCcceeEEEeec----------CCCceEEeccCcccHHHHHhhcCCccccCce
Confidence 4679999999999999995 89999999999999874 3478999999999999999999999999999
Q ss_pred EEEEecCCCcc
Q 004082 190 LKACFGTTKYC 200 (775)
Q Consensus 190 LRASfGTTKYC 200 (775)
|+|.+-+-++-
T Consensus 77 ~rVE~S~G~~r 87 (195)
T KOG0107|consen 77 IRVELSTGRPR 87 (195)
T ss_pred EEEEeecCCcc
Confidence 99999888764
No 19
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.23 E-value=2.5e-11 Score=138.61 Aligned_cols=81 Identities=22% Similarity=0.404 Sum_probs=74.0
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
.+.|||+||++.+++++|. ++|++||+|+.+.|.++..++ ..+|+|||+|.+.++|.+||..|||+.++|+.
T Consensus 204 ~~rLfVgnLp~~vteedLk---~lFs~FG~I~svrl~~D~~tg-----ksKGfGFVeFe~~e~A~kAI~amNg~elgGr~ 275 (612)
T TIGR01645 204 FNRIYVASVHPDLSETDIK---SVFEAFGEIVKCQLARAPTGR-----GHKGYGFIEYNNLQSQSEAIASMNLFDLGGQY 275 (612)
T ss_pred cceEEeecCCCCCCHHHHH---HHHhhcCCeeEEEEEecCCCC-----CcCCeEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence 3689999999999999885 899999999999999887543 35789999999999999999999999999999
Q ss_pred EEEEecCCC
Q 004082 190 LKACFGTTK 198 (775)
Q Consensus 190 LRASfGTTK 198 (775)
|||.++.++
T Consensus 276 LrV~kAi~p 284 (612)
T TIGR01645 276 LRVGKCVTP 284 (612)
T ss_pred EEEEecCCC
Confidence 999999976
No 20
>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=99.23 E-value=6.1e-11 Score=92.75 Aligned_cols=74 Identities=27% Similarity=0.563 Sum_probs=66.5
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
.|||.|||+.++++++. ++|.+||.|.++.+.++..+ .+.+.|||+|.+.++|..|++.++|..++|+.|+
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 48999999999998886 89999999999999876543 2467899999999999999999999999999999
Q ss_pred EEe
Q 004082 192 ACF 194 (775)
Q Consensus 192 ASf 194 (775)
|.|
T Consensus 72 v~~ 74 (74)
T cd00590 72 VEF 74 (74)
T ss_pred EeC
Confidence 875
No 21
>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=99.22 E-value=3.3e-11 Score=134.23 Aligned_cols=82 Identities=27% Similarity=0.408 Sum_probs=74.1
Q ss_pred cccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 108 IQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
.+...|||+||++.+++++|. ++|++||.|..|.|.++..+ .++|+|||+|.+.++|.+||..|||..++|
T Consensus 283 ~~~~~l~V~nl~~~~~~~~L~---~~F~~~G~i~~~~i~~d~~g------~~~g~gfV~f~~~~~A~~A~~~~~g~~~~g 353 (562)
T TIGR01628 283 AQGVNLYVKNLDDTVTDEKLR---ELFSECGEITSAKVMLDEKG------VSRGFGFVCFSNPEEANRAVTEMHGRMLGG 353 (562)
T ss_pred cCCCEEEEeCCCCccCHHHHH---HHHHhcCCeEEEEEEECCCC------CcCCeEEEEeCCHHHHHHHHHHhcCCeeCC
Confidence 455679999999999999886 99999999999999988543 357899999999999999999999999999
Q ss_pred eEEEEEecCCC
Q 004082 188 KSLKACFGTTK 198 (775)
Q Consensus 188 R~LRASfGTTK 198 (775)
|.|+|.|+..|
T Consensus 354 k~l~V~~a~~k 364 (562)
T TIGR01628 354 KPLYVALAQRK 364 (562)
T ss_pred ceeEEEeccCc
Confidence 99999999876
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=99.20 E-value=4.7e-11 Score=128.81 Aligned_cols=79 Identities=22% Similarity=0.446 Sum_probs=72.4
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
...|||+|||..+++++|. ++|++||.|..|.|.++..++ ..+|+|||+|.+.++|.+||+.|||..|.|+.
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 5789999999999999886 899999999999999886542 35789999999999999999999999999999
Q ss_pred EEEEecC
Q 004082 190 LKACFGT 196 (775)
Q Consensus 190 LRASfGT 196 (775)
|+|.||.
T Consensus 258 i~v~~a~ 264 (457)
T TIGR01622 258 IKVGYAQ 264 (457)
T ss_pred EEEEEcc
Confidence 9999987
No 23
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.20 E-value=3.5e-11 Score=125.73 Aligned_cols=76 Identities=17% Similarity=0.437 Sum_probs=68.3
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
...+|||+|++.-++++ +| ++.|.+||.|..|+|-+++ |+|||.|+++|.|.+||..|||..++|.
T Consensus 163 ~NtsVY~G~I~~~lte~-~m--r~~Fs~fG~I~EVRvFk~q-----------GYaFVrF~tkEaAahAIv~mNntei~G~ 228 (321)
T KOG0148|consen 163 DNTSVYVGNIASGLTED-LM--RQTFSPFGPIQEVRVFKDQ-----------GYAFVRFETKEAAAHAIVQMNNTEIGGQ 228 (321)
T ss_pred CCceEEeCCcCccccHH-HH--HHhcccCCcceEEEEeccc-----------ceEEEEecchhhHHHHHHHhcCceeCce
Confidence 35789999999988765 55 3899999999999998863 5799999999999999999999999999
Q ss_pred EEEEEecCCC
Q 004082 189 SLKACFGTTK 198 (775)
Q Consensus 189 ~LRASfGTTK 198 (775)
.+||+||.+-
T Consensus 229 ~VkCsWGKe~ 238 (321)
T KOG0148|consen 229 LVRCSWGKEG 238 (321)
T ss_pred EEEEeccccC
Confidence 9999999876
No 24
>smart00360 RRM RNA recognition motif.
Probab=99.20 E-value=5.8e-11 Score=91.86 Aligned_cols=71 Identities=25% Similarity=0.521 Sum_probs=62.7
Q ss_pred EeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEE
Q 004082 115 IVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKAC 193 (775)
Q Consensus 115 VvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRAS 193 (775)
|.|||..+++++|. ++|.+||.|..+.|.+++.++ .+++.|||+|.+.++|.+||..++|..++|+.|+|.
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 57999999999996 899999999999998765422 356799999999999999999999999999999874
No 25
>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=99.19 E-value=6.1e-11 Score=135.58 Aligned_cols=79 Identities=19% Similarity=0.367 Sum_probs=70.8
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
...|||+||++.+++++|. ++|++||.|.+|.|.+++.++ .++|+|||+|.+.++|.+||+.|||..++||.
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr---~lF~~fG~I~sV~I~~D~~Tg-----kskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~ 178 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIR---RAFDPFGPIKSINMSWDPATG-----KHKGFAFVEYEVPEAAQLALEQMNGQMLGGRN 178 (612)
T ss_pred CCEEEEcCCCCCCCHHHHH---HHHHccCCEEEEEEeecCCCC-----CcCCeEEEEeCcHHHHHHHHHhcCCeEEecce
Confidence 3569999999999998885 899999999999999887653 36789999999999999999999999999999
Q ss_pred EEEEecC
Q 004082 190 LKACFGT 196 (775)
Q Consensus 190 LRASfGT 196 (775)
|+|.+..
T Consensus 179 IkV~rp~ 185 (612)
T TIGR01645 179 IKVGRPS 185 (612)
T ss_pred eeecccc
Confidence 9998543
No 26
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.18 E-value=8.9e-11 Score=128.14 Aligned_cols=82 Identities=17% Similarity=0.289 Sum_probs=73.2
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
..+.|||+|||..+++++|. ++|.+||.|..+.|.++..++ ..+|+|||+|.+.++|..||+.|||..|+|+
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 45789999999999998886 999999999999998876543 3578999999999999999999999999999
Q ss_pred EEEEEecCCC
Q 004082 189 SLKACFGTTK 198 (775)
Q Consensus 189 ~LRASfGTTK 198 (775)
.|+|.|+...
T Consensus 366 ~l~v~~a~~~ 375 (509)
T TIGR01642 366 KLHVQRACVG 375 (509)
T ss_pred EEEEEECccC
Confidence 9999998543
No 27
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.18 E-value=5.9e-11 Score=122.55 Aligned_cols=82 Identities=18% Similarity=0.399 Sum_probs=75.9
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
-.+.|-|.||+...+++||. |+|.+||.|.+|.|.+|+.++ ..+|||||+|...+||++||..|||.-++.-
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 35789999999999999995 999999999999999998875 4689999999999999999999999999999
Q ss_pred EEEEEecCCC
Q 004082 189 SLKACFGTTK 198 (775)
Q Consensus 189 ~LRASfGTTK 198 (775)
+|||.|++.+
T Consensus 260 ILrvEwskP~ 269 (270)
T KOG0122|consen 260 ILRVEWSKPS 269 (270)
T ss_pred EEEEEecCCC
Confidence 9999999865
No 28
>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=99.17 E-value=9e-11 Score=93.42 Aligned_cols=55 Identities=20% Similarity=0.518 Sum_probs=49.3
Q ss_pred HhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEEec
Q 004082 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFG 195 (775)
Q Consensus 131 ~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRASfG 195 (775)
+++|++||+|.+|.+.++. ++.|||+|.+.++|.+|++.|||..++|++|+|.|+
T Consensus 2 ~~~f~~fG~V~~i~~~~~~----------~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 2 YKLFSKFGEVKKIKIFKKK----------RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHTTTS-EEEEEEETTS----------TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred hHHhCCcccEEEEEEEeCC----------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence 3899999999999997643 368999999999999999999999999999999985
No 29
>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=99.16 E-value=8e-11 Score=131.19 Aligned_cols=109 Identities=16% Similarity=0.359 Sum_probs=84.4
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
.|||+|||+++++++|. ++|++||.|.+|.|.++..+. .+.|+|||+|.+.++|++||..+|+..+.||.||
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 69999999999999886 999999999999999987643 3578999999999999999999999999999999
Q ss_pred EEecCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhhc
Q 004082 192 ACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYT 237 (775)
Q Consensus 192 ASfGTTKYCssFLR~~~C~NpdC~YLHE~g~~~DsfTKeem~~~~~ 237 (775)
+.|....- . + ........|+.-+. ...|.++|.....
T Consensus 74 i~~s~~~~--~-~---~~~~~~~vfV~nLp---~~~~~~~L~~~F~ 110 (562)
T TIGR01628 74 IMWSQRDP--S-L---RRSGVGNIFVKNLD---KSVDNKALFDTFS 110 (562)
T ss_pred eecccccc--c-c---cccCCCceEEcCCC---ccCCHHHHHHHHH
Confidence 99875321 0 1 11122345555443 3556677765443
No 30
>PLN03213 repressor of silencing 3; Provisional
Probab=99.16 E-value=6e-11 Score=131.15 Aligned_cols=79 Identities=25% Similarity=0.384 Sum_probs=71.1
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCH--HHHHHHHHHhcCCccCCe
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKE--EEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~--EDA~rAIqaLDGs~LdGR 188 (775)
..||||||++.++++||. ..|++||.|.+|.|+|++ .+|||||+|... .++.+||..|||..+.||
T Consensus 11 MRIYVGNLSydVTEDDLr---avFSeFGsVkdVEIpRET---------GRGFAFVEMssdddaEeeKAISaLNGAEWKGR 78 (759)
T PLN03213 11 VRLHVGGLGESVGRDDLL---KIFSPMGTVDAVEFVRTK---------GRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGG 78 (759)
T ss_pred eEEEEeCCCCCCCHHHHH---HHHHhcCCeeEEEEeccc---------CCceEEEEecCCcHHHHHHHHHHhcCCeecCc
Confidence 568999999999999996 899999999999999543 168999999987 789999999999999999
Q ss_pred EEEEEecCCCccc
Q 004082 189 SLKACFGTTKYCH 201 (775)
Q Consensus 189 ~LRASfGTTKYCs 201 (775)
.|||.-|...|=.
T Consensus 79 ~LKVNKAKP~YLe 91 (759)
T PLN03213 79 RLRLEKAKEHYLA 91 (759)
T ss_pred eeEEeeccHHHHH
Confidence 9999999888743
No 31
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.14 E-value=4.7e-11 Score=122.64 Aligned_cols=78 Identities=17% Similarity=0.360 Sum_probs=68.2
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
.-+.|||+||+|...+|+|. +||.|||+|+..+|+.|+.++ +++|++||||.+.|.|.+|.+..| -.||||
T Consensus 11 ~~TKifVggL~w~T~~~~l~---~yFeqfGeI~eavvitd~~t~-----rskGyGfVTf~d~~aa~rAc~dp~-piIdGR 81 (247)
T KOG0149|consen 11 TFTKIFVGGLAWETHKETLR---RYFEQFGEIVEAVVITDKNTG-----RSKGYGFVTFRDAEAATRACKDPN-PIIDGR 81 (247)
T ss_pred eEEEEEEcCcccccchHHHH---HHHHHhCceEEEEEEeccCCc-----cccceeeEEeecHHHHHHHhcCCC-Cccccc
Confidence 45789999999999998875 899999999999999998764 467889999999999999998765 479999
Q ss_pred EEEEEec
Q 004082 189 SLKACFG 195 (775)
Q Consensus 189 ~LRASfG 195 (775)
+-.|.+|
T Consensus 82 ~aNcnlA 88 (247)
T KOG0149|consen 82 KANCNLA 88 (247)
T ss_pred ccccchh
Confidence 9988764
No 32
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.12 E-value=5.2e-11 Score=120.90 Aligned_cols=81 Identities=19% Similarity=0.348 Sum_probs=72.6
Q ss_pred cccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 108 IQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
--...|-|-||.+..+.++|. -.|.+||+|-+|.|.+|..+. .++|||||.|..+.||++|+.+|||.+|||
T Consensus 11 ~gm~SLkVdNLTyRTspd~Lr---rvFekYG~vgDVyIPrdr~Tr-----~sRgFaFVrf~~k~daedA~damDG~~ldg 82 (256)
T KOG4207|consen 11 EGMTSLKVDNLTYRTSPDDLR---RVFEKYGRVGDVYIPRDRYTR-----QSRGFAFVRFHDKRDAEDALDAMDGAVLDG 82 (256)
T ss_pred ccceeEEecceeccCCHHHHH---HHHHHhCcccceecccccccc-----cccceeEEEeeecchHHHHHHhhcceeecc
Confidence 334678899999999888875 799999999999999998764 478999999999999999999999999999
Q ss_pred eEEEEEecC
Q 004082 188 KSLKACFGT 196 (775)
Q Consensus 188 R~LRASfGT 196 (775)
|.|+|++|.
T Consensus 83 RelrVq~ar 91 (256)
T KOG4207|consen 83 RELRVQMAR 91 (256)
T ss_pred ceeeehhhh
Confidence 999999864
No 33
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.11 E-value=9.2e-11 Score=122.63 Aligned_cols=81 Identities=21% Similarity=0.363 Sum_probs=74.5
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
=-|||+-|.+.|..|+|. +.|.+||+|.+.+|+||..+. .++|++||.|-+++||++||+.|||.+|++|.|
T Consensus 63 fhvfvgdls~eI~~e~lr---~aF~pFGevS~akvirD~~T~-----KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~I 134 (321)
T KOG0148|consen 63 FHVFVGDLSPEIDNEKLR---EAFAPFGEVSDAKVIRDMNTG-----KSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTI 134 (321)
T ss_pred eeEEehhcchhcchHHHH---HHhccccccccceEeecccCC-----cccceeEEeccchHHHHHHHHHhCCeeecccee
Confidence 358999999999998774 999999999999999997653 467899999999999999999999999999999
Q ss_pred EEEecCCCc
Q 004082 191 KACFGTTKY 199 (775)
Q Consensus 191 RASfGTTKY 199 (775)
|-.|||.|-
T Consensus 135 RTNWATRKp 143 (321)
T KOG0148|consen 135 RTNWATRKP 143 (321)
T ss_pred eccccccCc
Confidence 999999995
No 34
>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=99.11 E-value=2.2e-10 Score=126.73 Aligned_cols=77 Identities=21% Similarity=0.390 Sum_probs=68.1
Q ss_pred ccCEEEEeCCCC-CCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 109 QRNLVYIVGLPL-NLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 109 QrNLVYVvGLp~-~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
+...|||+||++ .+++++|. ++|++||.|.+|.|.++. +++|||+|.+.++|.+||+.|||..|+|
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 68887775 999999999999998752 4689999999999999999999999999
Q ss_pred eEEEEEecCCC
Q 004082 188 KSLKACFGTTK 198 (775)
Q Consensus 188 R~LRASfGTTK 198 (775)
+.|+|+|+..+
T Consensus 341 ~~l~v~~s~~~ 351 (481)
T TIGR01649 341 KPLRVCPSKQQ 351 (481)
T ss_pred ceEEEEEcccc
Confidence 99999986543
No 35
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.10 E-value=2.2e-11 Score=121.67 Aligned_cols=77 Identities=21% Similarity=0.530 Sum_probs=71.8
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
.--|||+|||+.+++.||| -.|+|||+|++|.++||..++ .+.||||..|+++.....|+..|||..|.||.
T Consensus 35 sA~Iyiggl~~~LtEgDil---~VFSqyGe~vdinLiRDk~TG-----KSKGFaFLcYEDQRSTILAVDN~NGiki~gRt 106 (219)
T KOG0126|consen 35 SAYIYIGGLPYELTEGDIL---CVFSQYGEIVDINLIRDKKTG-----KSKGFAFLCYEDQRSTILAVDNLNGIKILGRT 106 (219)
T ss_pred ceEEEECCCcccccCCcEE---EEeeccCceEEEEEEecCCCC-----cccceEEEEecCccceEEEEeccCCceeccee
Confidence 3569999999999999999 899999999999999998875 47899999999999999999999999999999
Q ss_pred EEEEe
Q 004082 190 LKACF 194 (775)
Q Consensus 190 LRASf 194 (775)
|||..
T Consensus 107 irVDH 111 (219)
T KOG0126|consen 107 IRVDH 111 (219)
T ss_pred EEeee
Confidence 99984
No 36
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.09 E-value=3.3e-10 Score=118.18 Aligned_cols=81 Identities=26% Similarity=0.430 Sum_probs=72.2
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
...+||-||.+.. +|.+| +++||+||.|..|.|.||..+. .=+|++||++.+.+||..||..|||..+++|+
T Consensus 278 g~ciFvYNLspd~-de~~L--WQlFgpFGAv~nVKvirD~ttn-----kCKGfgFVtMtNYdEAamAi~sLNGy~lg~rv 349 (360)
T KOG0145|consen 278 GWCIFVYNLSPDA-DESIL--WQLFGPFGAVTNVKVIRDFTTN-----KCKGFGFVTMTNYDEAAMAIASLNGYRLGDRV 349 (360)
T ss_pred eeEEEEEecCCCc-hHhHH--HHHhCcccceeeEEEEecCCcc-----cccceeEEEecchHHHHHHHHHhcCccccceE
Confidence 3679999999996 56666 6999999999999999997652 23678999999999999999999999999999
Q ss_pred EEEEecCCC
Q 004082 190 LKACFGTTK 198 (775)
Q Consensus 190 LRASfGTTK 198 (775)
|.|+|-|.|
T Consensus 350 LQVsFKtnk 358 (360)
T KOG0145|consen 350 LQVSFKTNK 358 (360)
T ss_pred EEEEEecCC
Confidence 999999887
No 37
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.07 E-value=4.4e-10 Score=121.42 Aligned_cols=116 Identities=19% Similarity=0.300 Sum_probs=88.4
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
...|||+|||..+++++|. ++|++||+|..|.|.+++.++ ..+|+|||+|.+.++|.+||. |+|..+.|+.
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 5689999999999999986 999999999999999886543 367899999999999999996 9999999999
Q ss_pred EEEEecCCCccccc--cC--CCCCCCCCCcccccCCCCCCCccHHHHHhhhc
Q 004082 190 LKACFGTTKYCHAW--LR--NVPCTNPDCLYLHEVGSQEDSFTKDEIISAYT 237 (775)
Q Consensus 190 LRASfGTTKYCssF--LR--~~~C~NpdC~YLHE~g~~~DsfTKeem~~~~~ 237 (775)
|+|.+...+.-..- .. ...-.+..++|+.-+. ...|.++|.....
T Consensus 160 i~v~~~~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~---~~~te~~l~~~f~ 208 (457)
T TIGR01622 160 IIVQSSQAEKNRAAKAATHQPGDIPNFLKLYVGNLH---FNITEQELRQIFE 208 (457)
T ss_pred eEEeecchhhhhhhhcccccCCCCCCCCEEEEcCCC---CCCCHHHHHHHHH
Confidence 99987654321110 00 1112234667776665 4578888876543
No 38
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=2.7e-10 Score=108.99 Aligned_cols=78 Identities=15% Similarity=0.346 Sum_probs=71.8
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
+.++|||+||+.-+++|.|. |+|++-|.|.+|+|..|+.+. .+-||.||.|...+||+.|++.++|+.||.|
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 37999999999999999995 999999999999998887653 3678999999999999999999999999999
Q ss_pred EEEEEe
Q 004082 189 SLKACF 194 (775)
Q Consensus 189 ~LRASf 194 (775)
+||+.|
T Consensus 107 ~ir~D~ 112 (153)
T KOG0121|consen 107 PIRIDW 112 (153)
T ss_pred ceeeec
Confidence 999986
No 39
>smart00361 RRM_1 RNA recognition motif.
Probab=99.04 E-value=6e-10 Score=93.28 Aligned_cols=59 Identities=29% Similarity=0.509 Sum_probs=48.0
Q ss_pred hhhc----CCcceeEEE-EeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEE
Q 004082 132 EYFG----QYGKVLKVS-MSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKAC 193 (775)
Q Consensus 132 EyFG----QYGKI~KIv-I~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRAS 193 (775)
++|. +||+|.+|. |..++.+. .+.++|+|||+|.+.+||.+||+.|||..++||.|+|+
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 7777 999999885 54443320 12467899999999999999999999999999999974
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=99.03 E-value=5.5e-10 Score=127.29 Aligned_cols=90 Identities=19% Similarity=0.501 Sum_probs=76.3
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC-C
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE-G 187 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld-G 187 (775)
+...|||+|||+.+++++|. ++|.+||+|.+|.|++|..+ .++++|||+|.+.|+|.+||+.|||..+. |
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---PLFEKAGPIYELRLMMDFSG------QNRGYAFVTFCGKEEAKEAVKLLNNYEIRPG 127 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHH---HHHHhhCCEEEEEEEECCCC------CccceEEEEeCCHHHHHHHHHHcCCCeecCC
Confidence 35789999999999999886 99999999999999998433 35789999999999999999999999985 8
Q ss_pred eEEEEEecCCCccccccCCCC
Q 004082 188 KSLKACFGTTKYCHAWLRNVP 208 (775)
Q Consensus 188 R~LRASfGTTKYCssFLR~~~ 208 (775)
|.|.|..... -|.-|++|.+
T Consensus 128 r~l~V~~S~~-~~rLFVgNLP 147 (578)
T TIGR01648 128 RLLGVCISVD-NCRLFVGGIP 147 (578)
T ss_pred cccccccccc-CceeEeecCC
Confidence 9998887654 3566666644
No 41
>PLN03121 nucleic acid binding protein; Provisional
Probab=99.01 E-value=9.7e-10 Score=113.73 Aligned_cols=75 Identities=13% Similarity=0.298 Sum_probs=66.8
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
-.+|||+||++.+++++|. ++|++||+|.+|.|.++.. .+++|||+|.++++|..|| .|+|..|.|+.
T Consensus 5 g~TV~V~NLS~~tTE~dLr---efFS~~G~I~~V~I~~D~e--------t~gfAfVtF~d~~aaetAl-lLnGa~l~d~~ 72 (243)
T PLN03121 5 GYTAEVTNLSPKATEKDVY---DFFSHCGAIEHVEIIRSGE--------YACTAYVTFKDAYALETAV-LLSGATIVDQR 72 (243)
T ss_pred ceEEEEecCCCCCCHHHHH---HHHHhcCCeEEEEEecCCC--------cceEEEEEECCHHHHHHHH-hcCCCeeCCce
Confidence 3589999999999999985 9999999999999998853 2468999999999999999 69999999999
Q ss_pred EEEEecC
Q 004082 190 LKACFGT 196 (775)
Q Consensus 190 LRASfGT 196 (775)
|.|.-..
T Consensus 73 I~It~~~ 79 (243)
T PLN03121 73 VCITRWG 79 (243)
T ss_pred EEEEeCc
Confidence 9988544
No 42
>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=98.98 E-value=1.3e-09 Score=124.35 Aligned_cols=72 Identities=22% Similarity=0.458 Sum_probs=66.1
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCC--cceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQY--GKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQY--GKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
..|||+||++.+++|+|. ++|++| |+|.+|.+.+ ++|||+|.+.++|.+||+.|||..|+|+
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 679999999999988885 899999 9999997653 4799999999999999999999999999
Q ss_pred EEEEEecCCC
Q 004082 189 SLKACFGTTK 198 (775)
Q Consensus 189 ~LRASfGTTK 198 (775)
.|+|+|++.+
T Consensus 298 ~I~V~~Akp~ 307 (578)
T TIGR01648 298 EIEVTLAKPV 307 (578)
T ss_pred EEEEEEccCC
Confidence 9999999765
No 43
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.95 E-value=8.2e-10 Score=110.44 Aligned_cols=81 Identities=21% Similarity=0.305 Sum_probs=73.0
Q ss_pred cccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 108 IQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
-|.++|||+||+++++++ +| +|+|.|-|+|+.|.|++++.+. ...|++||.|.++|||.-||+-||+..|.|
T Consensus 7 nqd~tiyvgnld~kvs~~-~l--~EL~iqagpVv~i~iPkDrv~~-----~~qGygF~Ef~~eedadYAikiln~VkLYg 78 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSEE-LL--YELFIQAGPVVNLHIPKDRVTQ-----KHQGYGFAEFRTEEDADYAIKILNMVKLYG 78 (203)
T ss_pred CCCceEEEecCCHHHHHH-HH--HHHHHhcCceeeeecchhhhcc-----cccceeEEEEechhhhHHHHHHHHHHHhcC
Confidence 477899999999999765 55 6999999999999999998753 356899999999999999999999999999
Q ss_pred eEEEEEecC
Q 004082 188 KSLKACFGT 196 (775)
Q Consensus 188 R~LRASfGT 196 (775)
|+|||.-++
T Consensus 79 rpIrv~kas 87 (203)
T KOG0131|consen 79 RPIRVNKAS 87 (203)
T ss_pred ceeEEEecc
Confidence 999999888
No 44
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.94 E-value=1.1e-09 Score=110.09 Aligned_cols=84 Identities=15% Similarity=0.361 Sum_probs=72.1
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
..|||+|||..|.+.||- ++|-+||+|..|.+...+. +-.+|||.|++..||+.||..-||..+||-.|
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 468999999999999996 9999999999999864332 34689999999999999999999999999999
Q ss_pred EEEecCCCccccccC
Q 004082 191 KACFGTTKYCHAWLR 205 (775)
Q Consensus 191 RASfGTTKYCssFLR 205 (775)
||.|+.+---++.-+
T Consensus 76 RVEfprggr~s~~~~ 90 (241)
T KOG0105|consen 76 RVEFPRGGRSSSDRR 90 (241)
T ss_pred EEEeccCCCcccccc
Confidence 999988765444333
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=98.92 E-value=3e-09 Score=117.84 Aligned_cols=79 Identities=23% Similarity=0.381 Sum_probs=68.7
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcc--eeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGK--VLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGK--I~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
..+|||.|||..+++|+|. ++|++||. |.+|.|..... .++++|||+|.+.++|.+||..|||..|+|
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---ELFAENGVHKVKKFKFFPKDN-------ERSKMGLLEWESVEDAVEALIALNHHQLNE 463 (481)
T ss_pred CcEEEEecCCCCCCHHHHH---HHHHhcCCccceEEEEecCCC-------CcceeEEEEcCCHHHHHHHHHHhcCCccCC
Confidence 4589999999999998885 99999998 88888864332 135789999999999999999999999999
Q ss_pred eE------EEEEecCCC
Q 004082 188 KS------LKACFGTTK 198 (775)
Q Consensus 188 R~------LRASfGTTK 198 (775)
+. ||++|++++
T Consensus 464 ~~~~~~~~lkv~fs~~~ 480 (481)
T TIGR01649 464 PNGSAPYHLKVSFSTSR 480 (481)
T ss_pred CCCCccceEEEEeccCC
Confidence 85 999999886
No 46
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.91 E-value=2.9e-09 Score=117.05 Aligned_cols=103 Identities=21% Similarity=0.480 Sum_probs=89.2
Q ss_pred cccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc-C
Q 004082 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL-E 186 (775)
Q Consensus 108 IQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L-d 186 (775)
-+-.-|||++||..+-++||. .+|++-|+|-.+++++|+..+ .++|+|||||.++++|++||+.||+..| -
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 567889999999999999987 899999999999999996553 4688999999999999999999999988 6
Q ss_pred CeEEEEEecCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhh
Q 004082 187 GKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISA 235 (775)
Q Consensus 187 GR~LRASfGTTKYCssFLR~~~C~NpdC~YLHE~g~~~DsfTKeem~~~ 235 (775)
||.|+|+...++ |--|+-|.+- .-+|||+...
T Consensus 153 GK~igvc~Svan-~RLFiG~IPK----------------~k~keeIlee 184 (506)
T KOG0117|consen 153 GKLLGVCVSVAN-CRLFIGNIPK----------------TKKKEEILEE 184 (506)
T ss_pred CCEeEEEEeeec-ceeEeccCCc----------------cccHHHHHHH
Confidence 999999987666 7778888874 3467887654
No 47
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.89 E-value=2.9e-09 Score=118.02 Aligned_cols=80 Identities=21% Similarity=0.411 Sum_probs=74.9
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
..|||+|+|+.+++|+|+ ++|+++|.|..+.++.|+.++ ..+|+||++|.+.++|++||+.|||..+.||+|
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---SIFSGVGPVLSFRLVYDRETG-----KPKGFGFCEFTDEETAERAIRNLNGAEFNGRKL 90 (435)
T ss_pred cceEecCCCCcccHHHHH---HHHhccCccceeeecccccCC-----CcCceeeEecCchhhHHHHHHhcCCcccCCceE
Confidence 789999999999999997 999999999999999998775 468899999999999999999999999999999
Q ss_pred EEEecCCC
Q 004082 191 KACFGTTK 198 (775)
Q Consensus 191 RASfGTTK 198 (775)
||.|+...
T Consensus 91 ~v~~~~~~ 98 (435)
T KOG0108|consen 91 RVNYASNR 98 (435)
T ss_pred Eeeccccc
Confidence 99998765
No 48
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.75 E-value=2.3e-08 Score=106.00 Aligned_cols=87 Identities=15% Similarity=0.395 Sum_probs=76.2
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
-+|||.-|+...++..|. ++|..||+|.+|.|+++..++ .++|+|||.|+++.|-..|-+..||..||||.|
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 579999999998776664 899999999999999997764 478999999999999999999999999999999
Q ss_pred EEEecCCCccccccC
Q 004082 191 KACFGTTKYCHAWLR 205 (775)
Q Consensus 191 RASfGTTKYCssFLR 205 (775)
-|.|-.-+--..||-
T Consensus 174 ~VDvERgRTvkgW~P 188 (335)
T KOG0113|consen 174 LVDVERGRTVKGWLP 188 (335)
T ss_pred EEEeccccccccccc
Confidence 999876665566653
No 49
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.73 E-value=1.6e-08 Score=97.77 Aligned_cols=84 Identities=17% Similarity=0.342 Sum_probs=75.8
Q ss_pred cccccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCC
Q 004082 104 SVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF 183 (775)
Q Consensus 104 nVRVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs 183 (775)
-.|-|-...|||.|+-+..++|++- +.|+.||+|+.|-++.|+.++ --+|+|.|.|++.++|..||.++||.
T Consensus 66 PqrSVEGwIi~VtgvHeEatEedi~---d~F~dyGeiKNihLNLDRRtG-----y~KGYaLvEYet~keAq~A~~~~Ng~ 137 (170)
T KOG0130|consen 66 PQRSVEGWIIFVTGVHEEATEEDIH---DKFADYGEIKNIHLNLDRRTG-----YVKGYALVEYETLKEAQAAIDALNGA 137 (170)
T ss_pred CccceeeEEEEEeccCcchhHHHHH---HHHhhcccccceeeccccccc-----cccceeeeehHhHHHHHHHHHhccch
Confidence 3467777899999999999999995 999999999999999887654 24789999999999999999999999
Q ss_pred ccCCeEEEEEec
Q 004082 184 VLEGKSLKACFG 195 (775)
Q Consensus 184 ~LdGR~LRASfG 195 (775)
.|-|+.|.|.|+
T Consensus 138 ~ll~q~v~VDw~ 149 (170)
T KOG0130|consen 138 ELLGQNVSVDWC 149 (170)
T ss_pred hhhCCceeEEEE
Confidence 999999999985
No 50
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.70 E-value=3.1e-08 Score=111.20 Aligned_cols=80 Identities=19% Similarity=0.429 Sum_probs=73.1
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
+..|.|.|||+...+++|. -+|++||+|..|+|++...+. -.|||||+|...-+|..||..+||..|+||+
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 6778889999999999885 899999999999999876653 3489999999999999999999999999999
Q ss_pred EEEEecCCC
Q 004082 190 LKACFGTTK 198 (775)
Q Consensus 190 LRASfGTTK 198 (775)
|-|.||..|
T Consensus 188 VAVDWAV~K 196 (678)
T KOG0127|consen 188 VAVDWAVDK 196 (678)
T ss_pred eEEeeeccc
Confidence 999999988
No 51
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.69 E-value=3.8e-08 Score=110.56 Aligned_cols=115 Identities=22% Similarity=0.438 Sum_probs=91.1
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHh-----cC-Cc
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV-----HG-FV 184 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaL-----DG-s~ 184 (775)
-+|||.|||+..++|+|. +.|.+||+|.-+.|..++.++ .+.|.|||.|.++.+|..||.+. +| ..
T Consensus 293 ~tVFvRNL~fD~tEEel~---~~fskFG~v~ya~iV~~k~T~-----~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~l 364 (678)
T KOG0127|consen 293 KTVFVRNLPFDTTEEELK---EHFSKFGEVKYAIIVKDKDTG-----HSKGTAFVKFKTQIAAQNCIEAASPASEDGSVL 364 (678)
T ss_pred ceEEEecCCccccHHHHH---HHHHhhccceeEEEEeccCCC-----CcccceEEEeccHHHHHHHHHhcCccCCCceEE
Confidence 389999999999988885 999999999999998887764 46789999999999999999998 55 67
Q ss_pred cCCeEEEEEecCCCcccccc-----CCCCCCCCCCcccccCCCC------CCCccHHHHHh
Q 004082 185 LEGKSLKACFGTTKYCHAWL-----RNVPCTNPDCLYLHEVGSQ------EDSFTKDEIIS 234 (775)
Q Consensus 185 LdGR~LRASfGTTKYCssFL-----R~~~C~NpdC~YLHE~g~~------~DsfTKeem~~ 234 (775)
|+||.|+|..|.||--+.=+ +-++-. +-=+||--.|-- .+.++.+||.-
T Consensus 365 l~GR~Lkv~~Av~RkeA~dmeqkk~~Kk~~g-krNLyLa~EG~I~~gt~aAeglS~~Dm~k 424 (678)
T KOG0127|consen 365 LDGRLLKVTLAVTRKEAADMEQKKKRKKPKG-KRNLYLAREGLIRDGTPAAEGLSATDMAK 424 (678)
T ss_pred EeccEEeeeeccchHHHHHHHHHhhhhccCC-ccceeeeccCccccCChhhcccchhhHHH
Confidence 99999999999998666544 222222 235677665532 44688888864
No 52
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.69 E-value=4.5e-08 Score=107.20 Aligned_cols=86 Identities=17% Similarity=0.366 Sum_probs=62.4
Q ss_pred cCEEEEeCCCCC--CC-h---HHHHHH-HhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcC
Q 004082 110 RNLVYIVGLPLN--LG-D---EDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHG 182 (775)
Q Consensus 110 rNLVYVvGLp~~--ia-e---EDLLr~-~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDG 182 (775)
...|+|.||... +. + ++|+.. .+.|++||.|++|+|.++..... .....|+|||+|.+.++|.+||++|||
T Consensus 409 s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~--~~~~~G~~fV~F~~~e~A~~A~~~lnG 486 (509)
T TIGR01642 409 TKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRN--STPGVGKVFLEYADVRSAEKAMEGMNG 486 (509)
T ss_pred ceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCC--cCCCcceEEEEECCHHHHHHHHHHcCC
Confidence 356788888532 11 1 112111 48999999999999987532210 012357899999999999999999999
Q ss_pred CccCCeEEEEEecCC
Q 004082 183 FVLEGKSLKACFGTT 197 (775)
Q Consensus 183 s~LdGR~LRASfGTT 197 (775)
..|+||.|.|.|-.-
T Consensus 487 r~~~gr~v~~~~~~~ 501 (509)
T TIGR01642 487 RKFNDRVVVAAFYGE 501 (509)
T ss_pred CEECCeEEEEEEeCH
Confidence 999999999998543
No 53
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.68 E-value=2.7e-08 Score=109.65 Aligned_cols=71 Identities=23% Similarity=0.510 Sum_probs=64.5
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
.|||.||+..+++|.|. +.|.+||+|.+|+..+| +|||.|...++|.+|++.+||+.|+|..|-
T Consensus 261 vLYVRNL~~~tTeE~lk---~~F~~~G~veRVkk~rD-------------YaFVHf~eR~davkAm~~~ngkeldG~~iE 324 (506)
T KOG0117|consen 261 VLYVRNLMESTTEETLK---KLFNEFGKVERVKKPRD-------------YAFVHFAEREDAVKAMKETNGKELDGSPIE 324 (506)
T ss_pred eeeeeccchhhhHHHHH---HHHHhccceEEeecccc-------------eeEEeecchHHHHHHHHHhcCceecCceEE
Confidence 48999999999877553 89999999999998764 689999999999999999999999999999
Q ss_pred EEecCCC
Q 004082 192 ACFGTTK 198 (775)
Q Consensus 192 ASfGTTK 198 (775)
|.+|..-
T Consensus 325 vtLAKP~ 331 (506)
T KOG0117|consen 325 VTLAKPV 331 (506)
T ss_pred EEecCCh
Confidence 9999763
No 54
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.66 E-value=1.7e-08 Score=110.82 Aligned_cols=85 Identities=21% Similarity=0.440 Sum_probs=76.1
Q ss_pred cccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCc-
Q 004082 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV- 184 (775)
Q Consensus 106 RVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~- 184 (775)
|++-...|||+-|+.+.+++|+. ++|.+||.|.++.|.|+..+ ..+|.|||+|+.+|-|..||++|||..
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---EIFSRFGHIEDCYILRDPDG------LSRGCAFVKFSTKEMAVAAIKALNGTQT 190 (510)
T ss_pred ccccchhhhhhhccccccHHHHH---HHHHhhCccchhhheecccc------cccceeEEEEehHHHHHHHHHhhcccee
Confidence 56778889999999999999995 99999999999999998765 257889999999999999999999976
Q ss_pred cCC--eEEEEEecCCCc
Q 004082 185 LEG--KSLKACFGTTKY 199 (775)
Q Consensus 185 LdG--R~LRASfGTTKY 199 (775)
+.| .+|-|-||-|+.
T Consensus 191 meGcs~PLVVkFADtqk 207 (510)
T KOG0144|consen 191 MEGCSQPLVVKFADTQK 207 (510)
T ss_pred eccCCCceEEEecccCC
Confidence 666 689999999983
No 55
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.62 E-value=7.6e-08 Score=100.91 Aligned_cols=83 Identities=18% Similarity=0.397 Sum_probs=74.6
Q ss_pred cccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 108 IQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
.-|..+.|--||.+++.||+. .+|+-.|+|..+.+.||+.++ .+-|++||.|.+++||++||..+||-.|..
T Consensus 39 ~skTNLIvNYLPQ~MTqdE~r---SLF~SiGeiEScKLvRDKitG-----qSLGYGFVNYv~p~DAe~AintlNGLrLQ~ 110 (360)
T KOG0145|consen 39 ESKTNLIVNYLPQNMTQDELR---SLFGSIGEIESCKLVRDKITG-----QSLGYGFVNYVRPKDAEKAINTLNGLRLQN 110 (360)
T ss_pred cccceeeeeecccccCHHHHH---HHhhcccceeeeeeeeccccc-----cccccceeeecChHHHHHHHhhhcceeecc
Confidence 345677889999999999985 899999999999999998765 245678999999999999999999999999
Q ss_pred eEEEEEecCCC
Q 004082 188 KSLKACFGTTK 198 (775)
Q Consensus 188 R~LRASfGTTK 198 (775)
++|||+||+.-
T Consensus 111 KTIKVSyARPS 121 (360)
T KOG0145|consen 111 KTIKVSYARPS 121 (360)
T ss_pred ceEEEEeccCC
Confidence 99999999876
No 56
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.60 E-value=8.1e-08 Score=111.10 Aligned_cols=107 Identities=17% Similarity=0.365 Sum_probs=87.0
Q ss_pred ccchhccCcccc----ccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCH
Q 004082 95 SEGKKQQLSSVR----VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKE 170 (775)
Q Consensus 95 se~RK~~LanVR----VIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~ 170 (775)
-+-|++-|..|| .|...+|||+||+.++.+.||- .+|+.||.|..|.++. +++.|||++.+.
T Consensus 402 reRr~kglP~I~pd~isV~SrTLwvG~i~k~v~e~dL~---~~feefGeiqSi~li~-----------~R~cAfI~M~~R 467 (894)
T KOG0132|consen 402 RERRKKGLPTIPPDHISVCSRTLWVGGIPKNVTEQDLA---NLFEEFGEIQSIILIP-----------PRGCAFIKMVRR 467 (894)
T ss_pred cccccccCCCCCCcceeEeeeeeeeccccchhhHHHHH---HHHHhcccceeEeecc-----------CCceeEEEEeeh
Confidence 344566788887 5677889999999999999985 8999999999999874 356799999999
Q ss_pred HHHHHHHHHhcCCccCCeEEEEEecCCCccccccCCCCCCCCCCcccccCCCC
Q 004082 171 EEAVRCIQSVHGFVLEGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQ 223 (775)
Q Consensus 171 EDA~rAIqaLDGs~LdGR~LRASfGTTKYCssFLR~~~C~NpdC~YLHE~g~~ 223 (775)
.||.+|+++|....+.++.||+.||..|--.+ .--|.|=||+|=-
T Consensus 468 qdA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks--------e~k~~wD~~lGVt 512 (894)
T KOG0132|consen 468 QDAEKALQKLSNVKVADKTIKIAWAVGKGPKS--------EYKDYWDVELGVT 512 (894)
T ss_pred hHHHHHHHHHhcccccceeeEEeeeccCCcch--------hhhhhhhcccCee
Confidence 99999999999999999999999998873322 1135566666643
No 57
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.58 E-value=5.9e-08 Score=108.92 Aligned_cols=78 Identities=23% Similarity=0.478 Sum_probs=70.8
Q ss_pred EEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEE
Q 004082 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKA 192 (775)
Q Consensus 113 VYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRA 192 (775)
|||++|-++++++.++ ..|..||+|..|.+.++..++ ..+||+||||.+.++|.+|...|||+.|-||.|||
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 8999999999887775 899999999999999986543 35778999999999999999999999999999999
Q ss_pred EecCCC
Q 004082 193 CFGTTK 198 (775)
Q Consensus 193 SfGTTK 198 (775)
+..|-+
T Consensus 353 ~~v~~r 358 (549)
T KOG0147|consen 353 SVVTER 358 (549)
T ss_pred EEeeee
Confidence 998876
No 58
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=98.51 E-value=5.4e-08 Score=104.31 Aligned_cols=54 Identities=44% Similarity=1.262 Sum_probs=49.3
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccc
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIV 66 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~ 66 (775)
..||+|.|++|.+|.+|.||+||+++|+||+.-|.+ -+|+||+||++|...+..
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 689999999999766543
No 59
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.50 E-value=1.1e-07 Score=100.12 Aligned_cols=81 Identities=23% Similarity=0.453 Sum_probs=73.8
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
..++||--||.++.+.||+ ++|-.||.|+...|-.|+.+. .+++|+||.|+++..|..||++|||++|+=++
T Consensus 285 GCNlFIYHLPQEFgDaEli---QmF~PFGhivSaKVFvDRATN-----QSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKR 356 (371)
T KOG0146|consen 285 GCNLFIYHLPQEFGDAELI---QMFLPFGHIVSAKVFVDRATN-----QSKCFGFVSFDNPASAQAAIQAMNGFQIGMKR 356 (371)
T ss_pred cceEEEEeCchhhccHHHH---HHhccccceeeeeeeehhccc-----cccceeeEecCCchhHHHHHHHhcchhhhhhh
Confidence 3678999999999999998 899999999988888787763 46899999999999999999999999999999
Q ss_pred EEEEecCCC
Q 004082 190 LKACFGTTK 198 (775)
Q Consensus 190 LRASfGTTK 198 (775)
|||.+.+.|
T Consensus 357 LKVQLKRPk 365 (371)
T KOG0146|consen 357 LKVQLKRPK 365 (371)
T ss_pred hhhhhcCcc
Confidence 999988777
No 60
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.45 E-value=4e-07 Score=92.69 Aligned_cols=80 Identities=21% Similarity=0.422 Sum_probs=71.3
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCC-cceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQY-GKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQY-GKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
...|||.-+|.-+-+-++| .||+|| |.|+.+++.|++.++ +++|+|||.|+++|.|.-|-+.||++.|.|+
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 5789999999999888888 899999 888888888888765 5789999999999999999999999999999
Q ss_pred EEEEEecCC
Q 004082 189 SLKACFGTT 197 (775)
Q Consensus 189 ~LRASfGTT 197 (775)
.|.|.|=..
T Consensus 121 lL~c~vmpp 129 (214)
T KOG4208|consen 121 LLECHVMPP 129 (214)
T ss_pred eeeeEEeCc
Confidence 999887443
No 61
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.35 E-value=3.9e-07 Score=98.95 Aligned_cols=75 Identities=21% Similarity=0.428 Sum_probs=66.8
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
..|||+.+.+.+.+ |.+| ..|..||.|+.|.|.-|..+. ..++||||+|+-+|.|..|++.|||..++||.|
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 45899999999966 5553 799999999999999887663 457899999999999999999999999999999
Q ss_pred EEE
Q 004082 191 KAC 193 (775)
Q Consensus 191 RAS 193 (775)
||.
T Consensus 186 KVg 188 (544)
T KOG0124|consen 186 KVG 188 (544)
T ss_pred ccc
Confidence 986
No 62
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.34 E-value=1.2e-06 Score=95.74 Aligned_cols=75 Identities=23% Similarity=0.516 Sum_probs=67.9
Q ss_pred EEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEE
Q 004082 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKA 192 (775)
Q Consensus 113 VYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRA 192 (775)
|||-+|++.++.++|. +.|+.||+|+.+.|.++..+ .+|+ ||.|+++++|.+||..+||..+.|+.|-|
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 9999999999999885 99999999999999998765 4677 99999999999999999999999999988
Q ss_pred EecCCC
Q 004082 193 CFGTTK 198 (775)
Q Consensus 193 SfGTTK 198 (775)
.....|
T Consensus 148 g~~~~~ 153 (369)
T KOG0123|consen 148 GLFERK 153 (369)
T ss_pred eeccch
Confidence 755443
No 63
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.34 E-value=5.8e-07 Score=90.43 Aligned_cols=88 Identities=20% Similarity=0.314 Sum_probs=73.3
Q ss_pred cCccccccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEE-EEeecCCccccccCCCceEEEEEeCCHHHHHHHHHH
Q 004082 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKV-SMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (775)
Q Consensus 101 ~LanVRVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KI-vI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqa 179 (775)
+-.+++|- -.+||+||.+.+ +|.+| ++.|+.||.|++. .|.++..++ ++++++||.|+..|.|.+||.+
T Consensus 89 ~~~nl~vg--anlfvgNLd~~v-De~~L--~dtFsafG~l~~~P~i~rd~~tg-----~~~~~g~i~~~sfeasd~ai~s 158 (203)
T KOG0131|consen 89 HQKNLDVG--ANLFVGNLDPEV-DEKLL--YDTFSAFGVLISPPKIMRDPDTG-----NPKGFGFINYASFEASDAAIGS 158 (203)
T ss_pred cccccccc--ccccccccCcch-hHHHH--HHHHHhccccccCCcccccccCC-----CCCCCeEEechhHHHHHHHHHH
Confidence 55566664 678999999987 55677 7999999999873 456665543 5678999999999999999999
Q ss_pred hcCCccCCeEEEEEecCCC
Q 004082 180 VHGFVLEGKSLKACFGTTK 198 (775)
Q Consensus 180 LDGs~LdGR~LRASfGTTK 198 (775)
|||+.+..|+|+|+|+-.|
T Consensus 159 ~ngq~l~nr~itv~ya~k~ 177 (203)
T KOG0131|consen 159 MNGQYLCNRPITVSYAFKK 177 (203)
T ss_pred hccchhcCCceEEEEEEec
Confidence 9999999999999998665
No 64
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.34 E-value=1.1e-06 Score=91.52 Aligned_cols=79 Identities=23% Similarity=0.475 Sum_probs=71.0
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
..|||.|||+.+.++||. |+|.+||.++++.|..++.+. +.|.|=|+|.+.+||++||+.++|..|||+.|
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 779999999999999997 999999999999999887652 45789999999999999999999999999999
Q ss_pred EEEecCCC
Q 004082 191 KACFGTTK 198 (775)
Q Consensus 191 RASfGTTK 198 (775)
++....+-
T Consensus 155 k~~~i~~~ 162 (243)
T KOG0533|consen 155 KIEIISSP 162 (243)
T ss_pred eeEEecCc
Confidence 98765443
No 65
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.32 E-value=8.8e-07 Score=97.77 Aligned_cols=78 Identities=19% Similarity=0.461 Sum_probs=68.0
Q ss_pred EEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCC-ccCC--eE
Q 004082 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF-VLEG--KS 189 (775)
Q Consensus 113 VYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs-~LdG--R~ 189 (775)
+||+-+|..++|+||+ ++|.+||.|..|.|.||+.+. .++|..||+|.+.+||.+||.+|++. .|.| .+
T Consensus 37 lfVgqIprt~sE~dlr---~lFe~yg~V~einl~kDk~t~-----~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~p 108 (510)
T KOG0144|consen 37 LFVGQIPRTASEKDLR---ELFEKYGNVYEINLIKDKSTG-----QSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHP 108 (510)
T ss_pred heeccCCccccHHHHH---HHHHHhCceeEEEeecccccC-----cccceEEEEeccHHHHHHHHHHhhcccccCCCCcc
Confidence 7999999999999997 999999999999999998764 35677899999999999999999996 4666 57
Q ss_pred EEEEecCCC
Q 004082 190 LKACFGTTK 198 (775)
Q Consensus 190 LRASfGTTK 198 (775)
|+|-||-+.
T Consensus 109 vqvk~Ad~E 117 (510)
T KOG0144|consen 109 VQVKYADGE 117 (510)
T ss_pred eeecccchh
Confidence 777777664
No 66
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.32 E-value=8.7e-07 Score=100.13 Aligned_cols=77 Identities=27% Similarity=0.512 Sum_probs=66.1
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
.+++|.||.....--||. .+|++||||+-..|+.+..+ |..++++||||.+.+||.+||..|+-..|+||.|
T Consensus 406 RNlWVSGLSstTRAtDLK---nlFSKyGKVvGAKVVTNaRs-----PGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmI 477 (940)
T KOG4661|consen 406 RNLWVSGLSSTTRATDLK---NLFSKYGKVVGAKVVTNARS-----PGARCYGFVTMSTSAEATKCIEHLHRTELHGRMI 477 (940)
T ss_pred cceeeeccccchhhhHHH---HHHHHhcceeceeeeecCCC-----CCcceeEEEEecchHHHHHHHHHhhhhhhcceee
Confidence 458999999988777885 89999999997777765432 3468899999999999999999999999999999
Q ss_pred EEEec
Q 004082 191 KACFG 195 (775)
Q Consensus 191 RASfG 195 (775)
-|.-+
T Consensus 478 SVEka 482 (940)
T KOG4661|consen 478 SVEKA 482 (940)
T ss_pred eeeec
Confidence 98754
No 67
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.28 E-value=7.1e-07 Score=94.80 Aligned_cols=71 Identities=25% Similarity=0.505 Sum_probs=65.4
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
.+||+|||.+..+.+|. .+|.|||||+...|+++ ++||..+++..|..||+.|+|..|+|..|+
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 58999999999888875 89999999999999874 469999999999999999999999999999
Q ss_pred EEecCCC
Q 004082 192 ACFGTTK 198 (775)
Q Consensus 192 ASfGTTK 198 (775)
|.=.+.|
T Consensus 68 VeaSksK 74 (346)
T KOG0109|consen 68 VEASKSK 74 (346)
T ss_pred EEecccc
Confidence 9988877
No 68
>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=9.1e-07 Score=94.03 Aligned_cols=77 Identities=17% Similarity=0.399 Sum_probs=70.1
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
...++|+||.+..+..||. +.|.+||.|+...|.++ .+||.|...|||..||+.|||.+++|+.
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 5679999999999999985 99999999999998864 6899999999999999999999999999
Q ss_pred EEEEecCCCcccc
Q 004082 190 LKACFGTTKYCHA 202 (775)
Q Consensus 190 LRASfGTTKYCss 202 (775)
|+|+..|.+--..
T Consensus 142 m~vq~stsrlrta 154 (346)
T KOG0109|consen 142 MHVQLSTSRLRTA 154 (346)
T ss_pred eeeeeeccccccC
Confidence 9999999985444
No 69
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.25 E-value=2.7e-06 Score=92.33 Aligned_cols=90 Identities=17% Similarity=0.339 Sum_probs=77.4
Q ss_pred cCccccc-cccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHH
Q 004082 101 QLSSVRV-IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (775)
Q Consensus 101 ~LanVRV-IQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqa 179 (775)
.|...-| -..|.|||.-|.|-.++|||- -+|+.||+|....|.++..++ ..-.+|||.|+++++.+.|.-.
T Consensus 229 DlpdAd~~PPeNVLFVCKLNPVTtDeDLe---iIFSrFG~i~sceVIRD~ktg-----dsLqyaFiEFen~escE~AyFK 300 (479)
T KOG0415|consen 229 DLPDADVKPPENVLFVCKLNPVTTDEDLE---IIFSRFGKIVSCEVIRDRKTG-----DSLQYAFIEFENKESCEQAYFK 300 (479)
T ss_pred CCcccccCCCcceEEEEecCCcccccchh---hHHhhcccceeeeEEeccccc-----chhheeeeeecchhhHHHHHhh
Confidence 4444443 457999999999999999985 699999999999999998765 2345899999999999999999
Q ss_pred hcCCccCCeEEEEEecCCC
Q 004082 180 VHGFVLEGKSLKACFGTTK 198 (775)
Q Consensus 180 LDGs~LdGR~LRASfGTTK 198 (775)
||+..||+|.|.|.|...-
T Consensus 301 MdNvLIDDrRIHVDFSQSV 319 (479)
T KOG0415|consen 301 MDNVLIDDRRIHVDFSQSV 319 (479)
T ss_pred hcceeeccceEEeehhhhh
Confidence 9999999999999997653
No 70
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.24 E-value=2.2e-06 Score=92.75 Aligned_cols=74 Identities=24% Similarity=0.461 Sum_probs=63.5
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHH-hcCCccCCeE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS-VHGFVLEGKS 189 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqa-LDGs~LdGR~ 189 (775)
.+|||+||-..+.+.+|. ++|-|||+|..|++... .+.|||+|.+.+.|+.|... .|-..++|++
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 479999999999988885 99999999999999743 24699999999999998855 4545689999
Q ss_pred EEEEecCCC
Q 004082 190 LKACFGTTK 198 (775)
Q Consensus 190 LRASfGTTK 198 (775)
|++-||.++
T Consensus 295 l~i~Wg~~~ 303 (377)
T KOG0153|consen 295 LKIKWGRPK 303 (377)
T ss_pred EEEEeCCCc
Confidence 999999994
No 71
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.22 E-value=1.2e-06 Score=95.71 Aligned_cols=84 Identities=23% Similarity=0.406 Sum_probs=75.0
Q ss_pred cccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc
Q 004082 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (775)
Q Consensus 106 RVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L 185 (775)
+..+.-.|||-||+..+.++.|. ++|+.||.|..+.|..+..+ ..+|++||.|+..++|.+|+..+||..+
T Consensus 266 ~~~~~~nl~vknld~~~~~e~L~---~~f~~~GeI~s~kv~~~~~g------~skG~gfV~fs~~eeA~~A~~~~n~~~i 336 (369)
T KOG0123|consen 266 VSLQGANLYVKNLDETLSDEKLR---KIFSSFGEITSAKVMVDENG------KSKGFGFVEFSSPEEAKKAMTEMNGRLI 336 (369)
T ss_pred ccccccccccccCccccchhHHH---HHHhcccceeeEEEEeccCC------CccceEEEEcCCHHHHHHHHHhhChhhh
Confidence 45667789999999999998886 89999999999999988765 3578899999999999999999999999
Q ss_pred CCeEEEEEecCCC
Q 004082 186 EGKSLKACFGTTK 198 (775)
Q Consensus 186 dGR~LRASfGTTK 198 (775)
.|+.|.+..+.-+
T Consensus 337 ~~k~l~vav~qr~ 349 (369)
T KOG0123|consen 337 GGKPLYVAVAQRK 349 (369)
T ss_pred cCCchhhhHHhhh
Confidence 9999999988744
No 72
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.20 E-value=3.6e-06 Score=97.11 Aligned_cols=124 Identities=18% Similarity=0.192 Sum_probs=87.2
Q ss_pred ccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 107 VIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
.++.+.+||.||++..+.+++. ..|..+|.|+.|.|.+.+.... ..-+.|+|||.|.++++|.+|+++|+|..|+
T Consensus 512 ~~~~t~lfvkNlnf~Tt~e~l~---~~F~k~G~VlS~~I~kkkd~~~--k~lSmGfgFVEF~~~e~A~~a~k~lqgtvld 586 (725)
T KOG0110|consen 512 EETETKLFVKNLNFDTTLEDLE---DLFSKQGTVLSIEISKKKDPAN--KYLSMGFGFVEFAKPESAQAALKALQGTVLD 586 (725)
T ss_pred cccchhhhhhcCCcccchhHHH---HHHHhcCeEEEEEEeccccccc--cccccceeEEEecCHHHHHHHHHHhcCceec
Confidence 3444559999999999999997 8999999999999976543211 1125689999999999999999999999999
Q ss_pred CeEEEEEecCCCccccccCCCCCCC-CCCcccccCCCCCCCccHHHHHhhhcc
Q 004082 187 GKSLKACFGTTKYCHAWLRNVPCTN-PDCLYLHEVGSQEDSFTKDEIISAYTR 238 (775)
Q Consensus 187 GR~LRASfGTTKYCssFLR~~~C~N-pdC~YLHE~g~~~DsfTKeem~~~~~~ 238 (775)
|+.|.+.|.-.|--..-- .+|.. +-|.-||=-.-+ =..|+.|+....+.
T Consensus 587 GH~l~lk~S~~k~~~~~g--K~~~~kk~~tKIlVRNip-FeAt~rEVr~LF~a 636 (725)
T KOG0110|consen 587 GHKLELKISENKPASTVG--KKKSKKKKGTKILVRNIP-FEATKREVRKLFTA 636 (725)
T ss_pred CceEEEEeccCccccccc--cccccccccceeeeeccc-hHHHHHHHHHHHhc
Confidence 999999987744322222 33333 235555422110 11366666665443
No 73
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.19 E-value=2.5e-06 Score=98.44 Aligned_cols=111 Identities=15% Similarity=0.267 Sum_probs=85.6
Q ss_pred ccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 107 VIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
--|..+|||+||++.+.++.|| ..||.||.|..|.|+-.+.-- .....+-.+||-|.+..||++|++.|+|..+.
T Consensus 171 DP~TTNlyv~Nlnpsv~E~~ll---~tfGrfgPlasvKimwpRtEe--Ek~r~r~cgfvafmnR~D~era~k~lqg~iv~ 245 (877)
T KOG0151|consen 171 DPQTTNLYVGNLNPSVDENFLL---RTFGRFGPLASVKIMWPRTEE--EKRRERNCGFVAFMNRADAERALKELQGIIVM 245 (877)
T ss_pred CCcccceeeecCCccccHHHHH---HHhcccCcccceeeecccchh--hhccccccceeeehhhhhHHHHHHHhcceeee
Confidence 3567889999999999999998 799999999999886322110 01123456799999999999999999999999
Q ss_pred CeEEEEEec-------CCCccccccCCCCCCCCCCcccccCCC
Q 004082 187 GKSLKACFG-------TTKYCHAWLRNVPCTNPDCLYLHEVGS 222 (775)
Q Consensus 187 GR~LRASfG-------TTKYCssFLR~~~C~NpdC~YLHE~g~ 222 (775)
++.||.-|| +++|-.--+-+..=+.+.|..-|+-..
T Consensus 246 ~~e~K~gWgk~V~ip~~p~~ipp~~h~~~lp~p~s~Lpfnaqp 288 (877)
T KOG0151|consen 246 EYEMKLGWGKAVPIPNIPIYIPPPLHEATLPPPPSNLPFNAQP 288 (877)
T ss_pred eeeeeeccccccccCCccccCCChhhhccCCCCccCCcccCCC
Confidence 999999999 456655555556666666766665543
No 74
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=98.04 E-value=1.7e-05 Score=86.01 Aligned_cols=87 Identities=23% Similarity=0.319 Sum_probs=74.4
Q ss_pred ccccccccCEEEEeCCCCCCChHHHHHHHhhhcCCccee--------EEEEeecCCccccccCCCceEEEEEeCCHHHHH
Q 004082 103 SSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVL--------KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAV 174 (775)
Q Consensus 103 anVRVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~--------KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~ 174 (775)
.++--.+...|||.|||..++.+|++ ++|+++|-|. +|.+.++..|. .+|-|-++|-+.|.-.
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 34445666779999999999999998 9999999997 57788877653 4778999999999999
Q ss_pred HHHHHhcCCccCCeEEEEEecCCC
Q 004082 175 RCIQSVHGFVLEGKSLKACFGTTK 198 (775)
Q Consensus 175 rAIqaLDGs~LdGR~LRASfGTTK 198 (775)
.||+.|||..|.|+.|||.-|.-.
T Consensus 198 LA~~ilDe~~~rg~~~rVerAkfq 221 (382)
T KOG1548|consen 198 LAIKILDEDELRGKKLRVERAKFQ 221 (382)
T ss_pred HHHHHhCcccccCcEEEEehhhhh
Confidence 999999999999999999966543
No 75
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=97.95 E-value=1.4e-05 Score=87.27 Aligned_cols=78 Identities=22% Similarity=0.412 Sum_probs=70.2
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
-|.|||..+-+.+.++||. ..|.-||+|+++.+.+.+.+. ..+|++||+|.+...-..||..||=+.|+|+.
T Consensus 210 fnRiYVaSvHpDLSe~DiK---SVFEAFG~I~~C~LAr~pt~~-----~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQy 281 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIK---SVFEAFGEIVKCQLARAPTGR-----GHKGYGFIEYNNLQSQSEAIASMNLFDLGGQY 281 (544)
T ss_pred hheEEeeecCCCccHHHHH---HHHHhhcceeeEEeeccCCCC-----CccceeeEEeccccchHHHhhhcchhhcccce
Confidence 4899999999999999996 899999999999999887542 45788999999999999999999999999999
Q ss_pred EEEEec
Q 004082 190 LKACFG 195 (775)
Q Consensus 190 LRASfG 195 (775)
|||--.
T Consensus 282 LRVGk~ 287 (544)
T KOG0124|consen 282 LRVGKC 287 (544)
T ss_pred Eecccc
Confidence 998643
No 76
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.95 E-value=5e-06 Score=93.96 Aligned_cols=88 Identities=19% Similarity=0.403 Sum_probs=75.4
Q ss_pred chhccCccccccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHH
Q 004082 97 GKKQQLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRC 176 (775)
Q Consensus 97 ~RK~~LanVRVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rA 176 (775)
.|+ ++....+.-...|+|.+||..|.+++|+ ++||.||+|..|..-+ ..++-+||.|-+..+|++|
T Consensus 63 ~~~-~np~~~~~~~~~L~v~nl~~~Vsn~~L~---~~f~~yGeir~ir~t~----------~~~~~~~v~FyDvR~A~~A 128 (549)
T KOG4660|consen 63 LRP-DNPSEKDMNQGTLVVFNLPRSVSNDTLL---RIFGAYGEIREIRETP----------NKRGIVFVEFYDVRDAERA 128 (549)
T ss_pred CCc-CCCCcccCccceEEEEecCCcCCHHHHH---HHHHhhcchhhhhccc----------ccCceEEEEEeehHhHHHH
Confidence 455 6777777777889999999999999998 8999999999966533 3456789999999999999
Q ss_pred HHHhcCCccCCeEEEEEecCCC
Q 004082 177 IQSVHGFVLEGKSLKACFGTTK 198 (775)
Q Consensus 177 IqaLDGs~LdGR~LRASfGTTK 198 (775)
+++|++..+.|+.|+...|+++
T Consensus 129 lk~l~~~~~~~~~~k~~~~~~~ 150 (549)
T KOG4660|consen 129 LKALNRREIAGKRIKRPGGARR 150 (549)
T ss_pred HHHHHHHHhhhhhhcCCCcccc
Confidence 9999999999999997766665
No 77
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.87 E-value=2.9e-05 Score=84.33 Aligned_cols=61 Identities=31% Similarity=0.522 Sum_probs=52.7
Q ss_pred hhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEEe--cCCCccc
Q 004082 132 EYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF--GTTKYCH 201 (775)
Q Consensus 132 EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRASf--GTTKYCs 201 (775)
+--.+||.|.+|+|.-.+ +.|.|-|+|.+.++|..||+.|+|.+++||.|.|+. |+|+|-.
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 678899999999997432 457889999999999999999999999999999885 7777654
No 78
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.82 E-value=1.2e-05 Score=86.55 Aligned_cols=75 Identities=23% Similarity=0.405 Sum_probs=58.8
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
...+||+||++.+++|.|. +||++||+|.+++|+++..++ +.++++||+|++++.-.+++.. .-..||||.
T Consensus 6 ~~KlfiGgisw~ttee~Lr---~yf~~~Gev~d~~vm~d~~t~-----rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ 76 (311)
T KOG4205|consen 6 SGKLFIGGLSWETTEESLR---EYFSQFGEVTDCVVMRDPSTG-----RSRGFGFVTFATPEGVDAVLNA-RTHKLDGRS 76 (311)
T ss_pred CcceeecCcCccccHHHHH---HHhcccCceeeEEEeccCCCC-----CcccccceecCCCcchheeecc-cccccCCcc
Confidence 4568999999999888774 999999999999999998753 5788999999988766666543 233466666
Q ss_pred EEEE
Q 004082 190 LKAC 193 (775)
Q Consensus 190 LRAS 193 (775)
|-+-
T Consensus 77 ve~k 80 (311)
T KOG4205|consen 77 VEPK 80 (311)
T ss_pred ccce
Confidence 6543
No 79
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.75 E-value=2e-05 Score=91.29 Aligned_cols=79 Identities=11% Similarity=0.273 Sum_probs=69.3
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
+.|.|.|||...+..++. ++|+.||.|..|.|++..... ..+||+||+|-.+.||.+|+.+|.+..|-||.|
T Consensus 614 tKIlVRNipFeAt~rEVr---~LF~aFGqlksvRlPKK~~k~-----a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrL 685 (725)
T KOG0110|consen 614 TKILVRNIPFEATKREVR---KLFTAFGQLKSVRLPKKIGKG-----AHRGFGFVDFLTPREAKNAFDALGSTHLYGRRL 685 (725)
T ss_pred ceeeeeccchHHHHHHHH---HHHhcccceeeeccchhhcch-----hhccceeeeccCcHHHHHHHHhhcccceechhh
Confidence 679999999999998885 899999999999998762211 247899999999999999999999999999999
Q ss_pred EEEecCC
Q 004082 191 KACFGTT 197 (775)
Q Consensus 191 RASfGTT 197 (775)
...|+..
T Consensus 686 VLEwA~~ 692 (725)
T KOG0110|consen 686 VLEWAKS 692 (725)
T ss_pred heehhcc
Confidence 9998754
No 80
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.75 E-value=1.4e-05 Score=83.67 Aligned_cols=78 Identities=18% Similarity=0.481 Sum_probs=66.5
Q ss_pred CCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEEecCC-----CccccccCCCCCC
Q 004082 136 QYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTT-----KYCHAWLRNVPCT 210 (775)
Q Consensus 136 QYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRASfGTT-----KYCssFLR~~~C~ 210 (775)
+||+|.+++|-.+..- .-.|.|||.|...|+|++|++.|||-++.|++|.+.|..- .-|-.|-++ .|.
T Consensus 92 kygEiee~~Vc~Nl~~------hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~rea~C~~~e~~-~C~ 164 (260)
T KOG2202|consen 92 KYGEIEELNVCDNLGD------HLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFREAICGQFERT-ECS 164 (260)
T ss_pred Hhhhhhhhhhhcccch------hhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchhhhhhcccccc-cCC
Confidence 9999999988654321 2357899999999999999999999999999999998753 359999999 888
Q ss_pred C-CCCcccccC
Q 004082 211 N-PDCLYLHEV 220 (775)
Q Consensus 211 N-pdC~YLHE~ 220 (775)
- ..|-|+|=.
T Consensus 165 rG~~CnFmH~k 175 (260)
T KOG2202|consen 165 RGGACNFMHVK 175 (260)
T ss_pred CCCcCcchhhh
Confidence 7 799999977
No 81
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.74 E-value=2.1e-05 Score=81.01 Aligned_cols=71 Identities=24% Similarity=0.408 Sum_probs=64.5
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
-|||+.||+...++++- ++|-.||+|.+|.|.. +++||.|.+..||..||..+||..|.|-.+.
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---RFFKGYGKIPDADMKN-------------GFGFVEFEDPRDADDAVHDLDGKELCGERLV 66 (216)
T ss_pred ceeecccCCccchhHHH---HHHhhccccccceeec-------------ccceeccCchhhhhcccchhcCceecceeee
Confidence 48999999999999996 8999999999998742 4679999999999999999999999998899
Q ss_pred EEecCCC
Q 004082 192 ACFGTTK 198 (775)
Q Consensus 192 ASfGTTK 198 (775)
+.|++.+
T Consensus 67 ve~~r~~ 73 (216)
T KOG0106|consen 67 VEHARGK 73 (216)
T ss_pred eeccccc
Confidence 9998864
No 82
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.73 E-value=3.4e-05 Score=83.12 Aligned_cols=84 Identities=20% Similarity=0.325 Sum_probs=68.5
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
..|||+|||+.+.++++. +||.|||+|..++++.|+.+. .+++|+||+|.+++...+ +....-..|.|+.+
T Consensus 98 kkiFvGG~~~~~~e~~~r---~yfe~~g~v~~~~~~~d~~~~-----~~rgFgfv~~~~e~sVdk-v~~~~f~~~~gk~v 168 (311)
T KOG4205|consen 98 KKIFVGGLPPDTTEEDFK---DYFEQFGKVADVVIMYDKTTS-----RPRGFGFVTFDSEDSVDK-VTLQKFHDFNGKKV 168 (311)
T ss_pred eEEEecCcCCCCchHHHh---hhhhccceeEeeEEeeccccc-----ccccceeeEeccccccce-ecccceeeecCcee
Confidence 469999999999888774 999999999999999987653 467899999999665544 44567778999999
Q ss_pred EEEecCCCccccc
Q 004082 191 KACFGTTKYCHAW 203 (775)
Q Consensus 191 RASfGTTKYCssF 203 (775)
.|--|..|--...
T Consensus 169 evkrA~pk~~~~~ 181 (311)
T KOG4205|consen 169 EVKRAIPKEVMQS 181 (311)
T ss_pred eEeeccchhhccc
Confidence 9998888854443
No 83
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.70 E-value=5.6e-05 Score=85.71 Aligned_cols=75 Identities=21% Similarity=0.367 Sum_probs=62.8
Q ss_pred hhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEEecCC-CccccccCCCCCC
Q 004082 132 EYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTT-KYCHAWLRNVPCT 210 (775)
Q Consensus 132 EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRASfGTT-KYCssFLR~~~C~ 210 (775)
|-.++||+|.+|.|.+. +-|++||.|.+.+.|..|+.+|||.+++||.|.|.|=+. .|=+-|..-.
T Consensus 472 Eec~k~g~v~hi~vd~n----------s~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~~~~Y~~~FP~~~--- 538 (549)
T KOG0147|consen 472 EECGKHGKVCHIFVDKN----------SAGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLPLERYHSKFPDSK--- 538 (549)
T ss_pred HHHHhcCCeeEEEEccC----------CCceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEeehhhhhhhCCCcc---
Confidence 77799999999999653 237899999999999999999999999999999999765 5777676543
Q ss_pred CCCCcccccC
Q 004082 211 NPDCLYLHEV 220 (775)
Q Consensus 211 NpdC~YLHE~ 220 (775)
..|+|+|-.
T Consensus 539 -~~~~~~~~~ 547 (549)
T KOG0147|consen 539 -AAPLLFHTN 547 (549)
T ss_pred -cceeeeecc
Confidence 377888754
No 84
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=97.69 E-value=3.6e-05 Score=83.65 Aligned_cols=98 Identities=14% Similarity=0.205 Sum_probs=86.1
Q ss_pred cccccCEEEEeCCCCCCChHHHHHHHhhhcCCccee--------EEEEeecCCccccccCCCceEEEEEeCCHHHHHHHH
Q 004082 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVL--------KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCI 177 (775)
Q Consensus 106 RVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~--------KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAI 177 (775)
.+.+..+|||-+||..++..++. ++|.|-|.|. +|.|.+++.+. .+++-|-|+|++.-.|+.||
T Consensus 62 ~~s~~~ti~v~g~~d~~~~~~~~---~~f~qcg~ikrnK~t~kPki~~y~dkeT~-----~~KGeatvS~~D~~~akaai 133 (351)
T KOG1995|consen 62 DKSDNETIFVWGCPDSVCENDNA---DFFLQCGVIKRNKRTGKPKIKIYTDKETG-----APKGEATVSYEDPPAAKAAI 133 (351)
T ss_pred cccccccceeeccCccchHHHHH---HHHhhcceeccCCCCCCcchhcccccccc-----CcCCceeeeecChhhhhhhh
Confidence 38889999999999999988876 9999999996 56777777653 46788999999999999999
Q ss_pred HHhcCCccCCeEEEEEecCCCccccccCCCCCCC
Q 004082 178 QSVHGFVLEGKSLKACFGTTKYCHAWLRNVPCTN 211 (775)
Q Consensus 178 qaLDGs~LdGR~LRASfGTTKYCssFLR~~~C~N 211 (775)
...+|..+.|.+|+|+++.-+-=-.|.|+.-|.+
T Consensus 134 ~~~agkdf~gn~ikvs~a~~r~~ve~~rg~~~~~ 167 (351)
T KOG1995|consen 134 EWFAGKDFCGNTIKVSLAERRTGVESVRGGYPND 167 (351)
T ss_pred hhhccccccCCCchhhhhhhccCcccccccccCc
Confidence 9999999999999999998886668999998765
No 85
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.61 E-value=2e-05 Score=81.54 Aligned_cols=73 Identities=21% Similarity=0.259 Sum_probs=64.1
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
+|||++|-..+++ +|| .|+|-|-|.|+||.|...+.+ +.+ ||||.|.++-.-.-||+.+||..+.|+.|+
T Consensus 11 tl~v~n~~~~v~e-elL--~ElfiqaGPV~kv~ip~~~d~------~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q 80 (267)
T KOG4454|consen 11 TLLVQNMYSGVSE-ELL--SELFIQAGPVYKVGIPSGQDQ------EQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQ 80 (267)
T ss_pred HHHHHhhhhhhhH-HHH--HHHhhccCceEEEeCCCCccC------CCc-eeeeecccccchhhhhhhcccchhccchhh
Confidence 5899999999865 466 599999999999999877654 234 899999999999999999999999999999
Q ss_pred EEe
Q 004082 192 ACF 194 (775)
Q Consensus 192 ASf 194 (775)
+.+
T Consensus 81 ~~~ 83 (267)
T KOG4454|consen 81 RTL 83 (267)
T ss_pred ccc
Confidence 875
No 86
>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=97.55 E-value=0.00029 Score=64.02 Aligned_cols=71 Identities=27% Similarity=0.438 Sum_probs=49.2
Q ss_pred CEEEEeCCCCCCChHHHHHH-HhhhcCCc-ceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 111 NLVYIVGLPLNLGDEDLLQR-REYFGQYG-KVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~-~EyFGQYG-KI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
.+|||.|||.+.....+..+ ..++..+| +|+.|. ++.|+|.|.+++.|.+|.+-|+|..+.|+
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 68999999999876655322 57777775 666652 34799999999999999999999999999
Q ss_pred EEEEEecC
Q 004082 189 SLKACFGT 196 (775)
Q Consensus 189 ~LRASfGT 196 (775)
.|.|+|..
T Consensus 68 kI~v~~~~ 75 (90)
T PF11608_consen 68 KISVSFSP 75 (90)
T ss_dssp --EEESS-
T ss_pred eEEEEEcC
Confidence 99999864
No 87
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.54 E-value=0.00015 Score=75.14 Aligned_cols=83 Identities=12% Similarity=0.195 Sum_probs=73.4
Q ss_pred ccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 107 VIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
-+.-..|||+++....+.+++- +.|.-+|.|..|.|..++..+ .++++|||.|.+.+.++.|++ |||..|.
T Consensus 98 ~~d~~sv~v~nvd~~~t~~~~e---~hf~~Cg~i~~~ti~~d~~~~-----~~k~~~yvef~~~~~~~~ay~-l~gs~i~ 168 (231)
T KOG4209|consen 98 EVDAPSVWVGNVDFLVTLTKIE---LHFESCGGINRVTVPKDKFRG-----HPKGFAYVEFSSYELVEEAYK-LDGSEIP 168 (231)
T ss_pred ccCCceEEEeccccccccchhh---heeeccCCccceeeeccccCC-----CcceeEEEecccHhhhHHHhh-cCCcccc
Confidence 3455779999999999988864 899999999999888887653 368899999999999999999 9999999
Q ss_pred CeEEEEEecCCC
Q 004082 187 GKSLKACFGTTK 198 (775)
Q Consensus 187 GR~LRASfGTTK 198 (775)
|+.+.|++-.++
T Consensus 169 ~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 169 GPAIEVTLKRTN 180 (231)
T ss_pred cccceeeeeeee
Confidence 999999998887
No 88
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=97.48 E-value=0.0002 Score=80.03 Aligned_cols=80 Identities=16% Similarity=0.362 Sum_probs=65.6
Q ss_pred EEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEE
Q 004082 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKA 192 (775)
Q Consensus 113 VYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRA 192 (775)
|||.+||.+++..+| .+.|.+||.|++..|.....+. ... ++|||+|.+.+++..||++= =..++||.|.|
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 IFVKNLPPDATPAEL---EEVFKQFGPIKEGGIQVRSPGG----KNP-CFGFVEFENAAAVQNAIEAS-PLEIGGRKLNV 361 (419)
T ss_pred eEeecCCCCCCHHHH---HHHHhhcccccccceEEeccCC----CcC-ceEEEEEeecchhhhhhhcC-ccccCCeeEEE
Confidence 999999999988775 4999999999999986543211 123 89999999999999999987 66789999999
Q ss_pred EecCCCccc
Q 004082 193 CFGTTKYCH 201 (775)
Q Consensus 193 SfGTTKYCs 201 (775)
.--.+.|--
T Consensus 362 eek~~~~~g 370 (419)
T KOG0116|consen 362 EEKRPGFRG 370 (419)
T ss_pred Eeccccccc
Confidence 877766544
No 89
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.43 E-value=0.00036 Score=77.38 Aligned_cols=102 Identities=24% Similarity=0.329 Sum_probs=79.7
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
..+|-|.+|.+..-.+|.| .-+||-||.|.+|.|..++. -.|-|.|.+...|..|+.+|+|..+.|++
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 6788999998875556666 58999999999999987643 36999999999999999999999999999
Q ss_pred EEEEecCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhhcc
Q 004082 190 LKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTR 238 (775)
Q Consensus 190 LRASfGTTKYCssFLR~~~C~NpdC~YLHE~g~~~DsfTKeem~~~~~~ 238 (775)
|||.|.... . .-|--.|.++.-+||+...+-.+|
T Consensus 365 lrvt~SKH~---------~------vqlp~egq~d~glT~dy~~spLhr 398 (492)
T KOG1190|consen 365 LRVTLSKHT---------N------VQLPREGQEDQGLTKDYGNSPLHR 398 (492)
T ss_pred EEEeeccCc---------c------ccCCCCCCccccccccCCCCchhh
Confidence 999985432 1 112334555556788777665555
No 90
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=97.41 E-value=0.00025 Score=75.39 Aligned_cols=80 Identities=23% Similarity=0.424 Sum_probs=68.3
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCc-cCC--
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV-LEG-- 187 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~-LdG-- 187 (775)
..+||+=|...-.+||++ .+|..||.|..+.|.+...+ ..+|.|||.|...-||..||.+|+|+. +-|
T Consensus 20 rklfvgml~kqq~e~dvr---rlf~pfG~~~e~tvlrg~dg------~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGAS 90 (371)
T KOG0146|consen 20 RKLFVGMLNKQQSEDDVR---RLFQPFGNIEECTVLRGPDG------NSKGCAFVKFSSHAEAQAAINALHGSQTMPGAS 90 (371)
T ss_pred hhhhhhhhcccccHHHHH---HHhcccCCcceeEEecCCCC------CCCCceEEEeccchHHHHHHHHhcccccCCCCc
Confidence 347888888888899997 69999999999999987665 357789999999999999999999986 555
Q ss_pred eEEEEEecCCCc
Q 004082 188 KSLKACFGTTKY 199 (775)
Q Consensus 188 R~LRASfGTTKY 199 (775)
..|.|-|+-|..
T Consensus 91 SSLVVK~ADTdk 102 (371)
T KOG0146|consen 91 SSLVVKFADTDK 102 (371)
T ss_pred cceEEEeccchH
Confidence 578888988863
No 91
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.38 E-value=0.00028 Score=78.74 Aligned_cols=73 Identities=22% Similarity=0.397 Sum_probs=61.3
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
-..|+|.|||..++=. +| ++-|-.||.|+-+.|+..-. .++ -|.|.++|+|++|+..|||..|+||.
T Consensus 536 a~qIiirNlP~dfTWq-ml--rDKfre~G~v~yadime~Gk--------skG--VVrF~s~edAEra~a~Mngs~l~Gr~ 602 (608)
T KOG4212|consen 536 ACQIIIRNLPFDFTWQ-ML--RDKFREIGHVLYADIMENGK--------SKG--VVRFFSPEDAERACALMNGSRLDGRN 602 (608)
T ss_pred ccEEEEecCCccccHH-HH--HHHHHhccceehhhhhccCC--------ccc--eEEecCHHHHHHHHHHhccCcccCce
Confidence 5679999999999875 55 38999999999888843211 233 79999999999999999999999999
Q ss_pred EEEEec
Q 004082 190 LKACFG 195 (775)
Q Consensus 190 LRASfG 195 (775)
|+|.|.
T Consensus 603 I~V~y~ 608 (608)
T KOG4212|consen 603 IKVTYF 608 (608)
T ss_pred eeeeeC
Confidence 999873
No 92
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=97.29 E-value=0.00086 Score=70.03 Aligned_cols=81 Identities=14% Similarity=0.324 Sum_probs=59.8
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC---C
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE---G 187 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld---G 187 (775)
+++||.|||..+...||. -+|-.|---.-.-+..+..+. .+. +.+|||||.+..+|..|+.+|||..+| |
T Consensus 35 RTLFVSGLP~DvKpREiy---nLFR~f~GYEgslLK~Tsk~~---~~~-~pvaFatF~s~q~A~aamnaLNGvrFDpE~~ 107 (284)
T KOG1457|consen 35 RTLFVSGLPNDVKPREIY---NLFRRFHGYEGSLLKYTSKGD---QVC-KPVAFATFTSHQFALAAMNALNGVRFDPETG 107 (284)
T ss_pred ceeeeccCCcccCHHHHH---HHhccCCCccceeeeeccCCC---ccc-cceEEEEecchHHHHHHHHHhcCeeeccccC
Confidence 578999999999999984 778766433333332221111 111 357999999999999999999999986 7
Q ss_pred eEEEEEecCCC
Q 004082 188 KSLKACFGTTK 198 (775)
Q Consensus 188 R~LRASfGTTK 198 (775)
.+||+.+|...
T Consensus 108 stLhiElAKSN 118 (284)
T KOG1457|consen 108 STLHIELAKSN 118 (284)
T ss_pred ceeEeeehhcC
Confidence 89999998764
No 93
>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=97.17 E-value=0.00015 Score=57.70 Aligned_cols=47 Identities=34% Similarity=0.911 Sum_probs=36.6
Q ss_pred cCCCCCCcccCCCccCCCccccCCCch-hhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 5 GEKTCPLCAEEMDLTDQQLKPCKCGYE-ICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD~~F~PC~CGYQ-IC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
++..|++|.+.. .|..|.| ||.. +|..|+.+++. ...+||-||+++.
T Consensus 1 ~~~~C~iC~~~~--~~~~~~p--CgH~~~C~~C~~~~~~------~~~~CP~Cr~~i~ 48 (50)
T PF13920_consen 1 EDEECPICFENP--RDVVLLP--CGHLCFCEECAERLLK------RKKKCPICRQPIE 48 (50)
T ss_dssp -HSB-TTTSSSB--SSEEEET--TCEEEEEHHHHHHHHH------TTSBBTTTTBB-S
T ss_pred CcCCCccCCccC--CceEEeC--CCChHHHHHHhHHhcc------cCCCCCcCChhhc
Confidence 457899999985 4566665 6899 99999999974 5789999999875
No 94
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.16 E-value=0.0011 Score=74.11 Aligned_cols=77 Identities=17% Similarity=0.346 Sum_probs=66.3
Q ss_pred cccCE-EEEeCCCCCCChHHHHHHHhhh-cCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc
Q 004082 108 IQRNL-VYIVGLPLNLGDEDLLQRREYF-GQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (775)
Q Consensus 108 IQrNL-VYVvGLp~~iaeEDLLr~~EyF-GQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L 185 (775)
..++. |||.|||+.+.=.+|. ++| .+-|+|.-|.+.-|..++ +++.|-|+|.++|.+++|++.||-+.+
T Consensus 41 ~~r~R~vfItNIpyd~rWqdLK---dLvrekvGev~yveLl~D~~GK------~rGcavVEFk~~E~~qKa~E~lnk~~~ 111 (608)
T KOG4212|consen 41 AARDRSVFITNIPYDYRWQDLK---DLVREKVGEVEYVELLFDESGK------ARGCAVVEFKDPENVQKALEKLNKYEV 111 (608)
T ss_pred ccccceEEEecCcchhhhHhHH---HHHHHhcCceEeeeeecccCCC------cCCceEEEeeCHHHHHHHHHHhhhccc
Confidence 33444 9999999999888774 666 478999999999888764 578899999999999999999999999
Q ss_pred CCeEEEEE
Q 004082 186 EGKSLKAC 193 (775)
Q Consensus 186 dGR~LRAS 193 (775)
.||.|+|-
T Consensus 112 ~GR~l~vK 119 (608)
T KOG4212|consen 112 NGRELVVK 119 (608)
T ss_pred cCceEEEe
Confidence 99999975
No 95
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.15 E-value=0.00045 Score=74.21 Aligned_cols=60 Identities=22% Similarity=0.499 Sum_probs=50.4
Q ss_pred HhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEEe
Q 004082 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF 194 (775)
Q Consensus 131 ~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRASf 194 (775)
.+-.++||+|.+|+|-...... . .....+||.|++.++|.+|+-.|||.+++||+++|+|
T Consensus 304 keEceKyg~V~~viifeip~~p---~-deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~F 363 (378)
T KOG1996|consen 304 KEECEKYGKVGNVIIFEIPSQP---E-DEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACF 363 (378)
T ss_pred HHHHHhhcceeeEEEEecCCCc---c-chhheeeeeeccHHHHHHHHHhcCCceecceeeehee
Confidence 4889999999999997654221 1 2345689999999999999999999999999999987
No 96
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=97.05 E-value=0.0014 Score=74.77 Aligned_cols=62 Identities=18% Similarity=0.386 Sum_probs=51.5
Q ss_pred HhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEEe
Q 004082 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF 194 (775)
Q Consensus 131 ~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRASf 194 (775)
+.-+++||.|..|.|++...... .. -..|-+||.|.+.+++++|.++|.|..+.||++.++|
T Consensus 427 r~ec~k~g~v~~v~ipr~~~~~~-~~-~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsY 488 (500)
T KOG0120|consen 427 RTECAKFGAVRSVEIPRPYPDEN-PV-PGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASY 488 (500)
T ss_pred HHHhcccCceeEEecCCCCCCCC-cC-CCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEe
Confidence 56789999999999998732211 11 2456799999999999999999999999999999986
No 97
>PLN02189 cellulose synthase
Probab=96.98 E-value=0.00037 Score=84.39 Aligned_cols=50 Identities=26% Similarity=0.893 Sum_probs=43.8
Q ss_pred CCCCCcccCCC--ccCCCccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 7 KTCPLCAEEMD--LTDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 7 ~~CPLC~EelD--~tD~~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
..|.+|-+++. .+...|..|. |||.+|+.||...+ .+.+..||.|+..|.
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 5566899999 99999999998875 467889999999997
No 98
>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=96.98 E-value=0.0013 Score=71.20 Aligned_cols=55 Identities=24% Similarity=0.653 Sum_probs=41.4
Q ss_pred CCCCCCcccC--CCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccc
Q 004082 6 EKTCPLCAEE--MDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIV 66 (775)
Q Consensus 6 d~~CPLC~Ee--lD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~ 66 (775)
+..||+|... +...=+.+.. +||..+|.-|..+|.. ...+.||.|+++.....+.
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 4689999985 3322223455 9999999999999862 2457899999998887654
No 99
>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=96.92 E-value=0.00094 Score=61.64 Aligned_cols=76 Identities=24% Similarity=0.471 Sum_probs=50.0
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEE-EeecCCccc-cccCCCceEEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVS-MSRTAAGVI-QQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIv-I~rd~~~~~-qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
..-|.|-|.|+..+. .+| ++|++||.|++.. +.++..+.. ...+..+.-++|+|+++.+|.+|++ -||..+.|
T Consensus 6 ~~wVtVFGfp~~~~~-~Vl---~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g 80 (100)
T PF05172_consen 6 ETWVTVFGFPPSASN-QVL---RHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNGTIFSG 80 (100)
T ss_dssp CCEEEEE---GGGHH-HHH---HHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTTEEETT
T ss_pred CeEEEEEccCHHHHH-HHH---HHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCCeEEcC
Confidence 456999999999654 577 8999999999876 222111100 0112335578999999999999998 79999998
Q ss_pred eEE
Q 004082 188 KSL 190 (775)
Q Consensus 188 R~L 190 (775)
..|
T Consensus 81 ~~m 83 (100)
T PF05172_consen 81 SLM 83 (100)
T ss_dssp CEE
T ss_pred cEE
Confidence 766
No 100
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.87 E-value=0.0018 Score=53.11 Aligned_cols=52 Identities=23% Similarity=0.621 Sum_probs=42.1
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHH
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCI 177 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAI 177 (775)
+-|=|.|.++... +++| ++|.+||+|.++.+... +-.+||+|.+..+|++|+
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 4577999998875 4576 79999999999888621 236899999999999984
No 101
>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=96.84 E-value=0.00031 Score=54.47 Aligned_cols=44 Identities=27% Similarity=0.740 Sum_probs=34.1
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCC
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACR 57 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACR 57 (775)
++||+|+++|+. +..+...+||..+|.-|+...+. .++.||-||
T Consensus 1 d~C~IC~~~~~~-~~~~~~l~C~H~fh~~Ci~~~~~------~~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFED-GEKVVKLPCGHVFHRSCIKEWLK------RNNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHT-TSCEEEETTSEEEEHHHHHHHHH------HSSB-TTTH
T ss_pred CCCcCCChhhcC-CCeEEEccCCCeeCHHHHHHHHH------hCCcCCccC
Confidence 479999999975 55666777999999999888764 256999997
No 102
>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=96.72 E-value=0.012 Score=54.14 Aligned_cols=82 Identities=20% Similarity=0.248 Sum_probs=65.0
Q ss_pred cCEEEEeCCCCCCChHHHHHH-HhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC--
Q 004082 110 RNLVYIVGLPLNLGDEDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE-- 186 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~-~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld-- 186 (775)
|++|-|.|||.+++.++|+.- .+.| .|+.-=+.++.|..+. ...|+|||+|.+++.|.+=.++.+|..+.
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 578999999999999988643 3333 4666667787775442 46889999999999999999999999875
Q ss_pred --CeEEEEEecCCC
Q 004082 187 --GKSLKACFGTTK 198 (775)
Q Consensus 187 --GR~LRASfGTTK 198 (775)
.|+..++||+..
T Consensus 74 ~s~Kvc~i~yAriQ 87 (97)
T PF04059_consen 74 NSKKVCEISYARIQ 87 (97)
T ss_pred CCCcEEEEehhHhh
Confidence 577788888764
No 103
>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=96.70 E-value=0.0038 Score=57.65 Aligned_cols=58 Identities=26% Similarity=0.432 Sum_probs=37.9
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCC
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF 183 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs 183 (775)
+|+|.|+...+.-++|. +.|.+||.|.-|.+.+. .-.|||.|.+.+.|++|+..+.-.
T Consensus 3 il~~~g~~~~~~re~iK---~~f~~~g~V~yVD~~~G-----------~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIK---EAFSQFGEVAYVDFSRG-----------DTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp EEEEEE--SS--HHHHH---HHT-SS--EEEEE--TT------------SEEEEEESS---HHHHHHHHHHT
T ss_pred EEEEecCCCCcCHHHHH---HHHHhcCCcceEEecCC-----------CCEEEEEECCcchHHHHHHHHHhc
Confidence 68999999999988874 99999999998887642 126899999999999999887655
No 104
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=96.61 E-value=0.0032 Score=72.33 Aligned_cols=78 Identities=17% Similarity=0.336 Sum_probs=60.6
Q ss_pred cCEEEEeCCCCCC-ChHHHHHH--HhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 110 RNLVYIVGLPLNL-GDEDLLQR--REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 110 rNLVYVvGLp~~i-aeEDLLr~--~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
.+.|+|-|+|--- +.-+.||. ..+|++||+|++++++-+..++ ..|++|+.|.+..+|..||+.+||..||
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 4678888887632 12234444 7899999999999999877764 4689999999999999999999999987
Q ss_pred C-eEEEEE
Q 004082 187 G-KSLKAC 193 (775)
Q Consensus 187 G-R~LRAS 193 (775)
- .++.|.
T Consensus 132 knHtf~v~ 139 (698)
T KOG2314|consen 132 KNHTFFVR 139 (698)
T ss_pred ccceEEee
Confidence 4 355443
No 105
>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=96.56 E-value=0.0024 Score=47.06 Aligned_cols=44 Identities=32% Similarity=0.871 Sum_probs=33.1
Q ss_pred CCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCC
Q 004082 8 TCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSP 59 (775)
Q Consensus 8 ~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~ 59 (775)
.|++|.+.+ . ..+..-+||..+|.-|+..... ....+||.||++
T Consensus 1 ~C~iC~~~~--~-~~~~~~~C~H~~c~~C~~~~~~-----~~~~~Cp~C~~~ 44 (45)
T cd00162 1 ECPICLEEF--R-EPVVLLPCGHVFCRSCIDKWLK-----SGKNTCPLCRTP 44 (45)
T ss_pred CCCcCchhh--h-CceEecCCCChhcHHHHHHHHH-----hCcCCCCCCCCc
Confidence 599999998 2 2333334999999999998864 146789999985
No 106
>PLN02436 cellulose synthase A
Probab=96.55 E-value=0.0011 Score=80.50 Aligned_cols=50 Identities=26% Similarity=0.886 Sum_probs=43.4
Q ss_pred CCCCCcccCC--CccCCCccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 7 KTCPLCAEEM--DLTDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 7 ~~CPLC~Eel--D~tD~~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
.+|.+|-+++ +.+-..|.-|. |||.+|+.||...+ .+.+..||.|+..|.
T Consensus 37 ~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyeyer-----~eg~~~Cpqckt~Y~ 89 (1094)
T PLN02436 37 QTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEYER-----REGNQACPQCKTRYK 89 (1094)
T ss_pred ccccccccccCcCCCCCEEEeeccCCCccccchhhhhh-----hcCCccCcccCCchh
Confidence 3899999998 45556899999 99999999998875 467889999999998
No 107
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.44 E-value=0.003 Score=64.51 Aligned_cols=59 Identities=24% Similarity=0.632 Sum_probs=41.7
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhh----------hcccCCCCCCCCCCCcccccc
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAE----------KEETEGRCPACRSPYDKEKIV 66 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~----------k~~~~grCPACRr~Ydee~i~ 66 (775)
.++.+||+|.+.+ +|... -.||..+|+-|..+...... ......+||-||.++....+.
T Consensus 16 ~~~~~CpICld~~--~dPVv--T~CGH~FC~~CI~~wl~~s~~s~~~~~~~~~~k~~~~CPvCR~~Is~~~Lv 84 (193)
T PLN03208 16 GGDFDCNICLDQV--RDPVV--TLCGHLFCWPCIHKWTYASNNSRQRVDQYDHKREPPKCPVCKSDVSEATLV 84 (193)
T ss_pred CCccCCccCCCcC--CCcEE--cCCCchhHHHHHHHHHHhccccccccccccccCCCCcCCCCCCcCChhcEE
Confidence 3567999999987 45544 36999999999887643110 012346899999999877664
No 108
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.29 E-value=0.0036 Score=65.61 Aligned_cols=52 Identities=23% Similarity=0.588 Sum_probs=38.9
Q ss_pred ccCCCCCCcccCCCccCC----CccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 4 EGEKTCPLCAEEMDLTDQ----QLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~----~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
.++.+||+|+|++..... --...+||...|.-|...-+. ....||-||+++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~------~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK------EKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh------cCCCCCCCCCEee
Confidence 356899999999753321 124568999999999887653 4678999999765
No 109
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.25 E-value=0.027 Score=64.16 Aligned_cols=82 Identities=13% Similarity=0.323 Sum_probs=65.2
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
.|-+.||||+.+++||| ++|+-- .|..+++.++.. .++|-|||.|..+||+.+|++ .|-..+.-|.|-
T Consensus 12 ~vr~rGLPwsat~~ei~---~Ff~~~-~I~~~~~~r~~G-------r~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIE 79 (510)
T KOG4211|consen 12 EVRLRGLPWSATEKEIL---DFFSNC-GIENLEIPRRNG-------RPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIE 79 (510)
T ss_pred EEEecCCCccccHHHHH---HHHhcC-ceeEEEEeccCC-------CcCcceEEEeechHHHHHHHH-hhHHHhCCceEE
Confidence 46688999999999998 999988 588888887632 357889999999999999998 677788889998
Q ss_pred EEecCCCccccccC
Q 004082 192 ACFGTTKYCHAWLR 205 (775)
Q Consensus 192 ASfGTTKYCssFLR 205 (775)
|-=++.+---..+|
T Consensus 80 Vf~~~~~e~d~~~~ 93 (510)
T KOG4211|consen 80 VFTAGGAEADWVMR 93 (510)
T ss_pred EEccCCcccccccc
Confidence 87665554433333
No 110
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.18 E-value=0.0038 Score=71.28 Aligned_cols=84 Identities=19% Similarity=0.311 Sum_probs=72.2
Q ss_pred cccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc
Q 004082 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (775)
Q Consensus 106 RVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L 185 (775)
-..+.+.+||+|||..+.+..++ |+.+-||.+......++..++ +++++||-.|.+.-.+..||.+|||..+
T Consensus 285 ~~~~~~ki~v~~lp~~l~~~q~~---Ell~~fg~lk~f~lv~d~~~g-----~skg~af~ey~dpsvtd~A~agLnGm~l 356 (500)
T KOG0120|consen 285 VPDSPNKIFVGGLPLYLTEDQVK---ELLDSFGPLKAFRLVKDSATG-----NSKGFAFCEYCDPSVTDQAIAGLNGMQL 356 (500)
T ss_pred cccccchhhhccCcCccCHHHHH---HHHHhcccchhheeecccccc-----cccceeeeeeeCCcchhhhhcccchhhh
Confidence 35677999999999999888876 899999999888877776543 4678999999999999999999999999
Q ss_pred CCeEEEEEecCC
Q 004082 186 EGKSLKACFGTT 197 (775)
Q Consensus 186 dGR~LRASfGTT 197 (775)
.|+.|.|..|--
T Consensus 357 gd~~lvvq~A~~ 368 (500)
T KOG0120|consen 357 GDKKLVVQRAIV 368 (500)
T ss_pred cCceeEeehhhc
Confidence 999999886543
No 111
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=96.14 E-value=0.003 Score=67.45 Aligned_cols=79 Identities=15% Similarity=0.290 Sum_probs=69.3
Q ss_pred CEEE-EeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 111 NLVY-IVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 111 NLVY-VvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
-++| |++|+..++.++|. ++|+.+|.|+.|.+..++.+. ...++|||.|....++..|+.. .+..++|++
T Consensus 185 ~~~~~~~~~~f~~~~d~~~---~~~~~~~~i~~~r~~~~~~s~-----~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~ 255 (285)
T KOG4210|consen 185 DTIFFVGELDFSLTRDDLK---EHFVSSGEITSVRLPTDEESG-----DSKGFAYVDFSAGNSKKLALND-QTRSIGGRP 255 (285)
T ss_pred ccceeecccccccchHHHh---hhccCcCcceeeccCCCCCcc-----chhhhhhhhhhhchhHHHHhhc-ccCcccCcc
Confidence 4566 99999999888774 899999999999998776543 3578999999999999999999 899999999
Q ss_pred EEEEecCCC
Q 004082 190 LKACFGTTK 198 (775)
Q Consensus 190 LRASfGTTK 198 (775)
+++.++..+
T Consensus 256 ~~~~~~~~~ 264 (285)
T KOG4210|consen 256 LRLEEDEPR 264 (285)
T ss_pred cccccCCCC
Confidence 999999876
No 112
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=95.81 E-value=0.0078 Score=63.97 Aligned_cols=74 Identities=14% Similarity=0.279 Sum_probs=62.5
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
.||-+-|...+.++ +| ...|.+|=.-.+..|+|+..++ ..+|++||.|.+.+|+.+|+..|||.+++-|+|+
T Consensus 192 RIfcgdlgNevnd~-vl--~raf~Kfpsf~~akviRdkRTg-----KSkgygfVSf~~pad~~rAmrem~gkyVgsrpik 263 (290)
T KOG0226|consen 192 RIFCGDLGNEVNDD-VL--ARAFKKFPSFQKAKVIRDKRTG-----KSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIK 263 (290)
T ss_pred eeecccccccccHH-HH--HHHHHhccchhhcccccccccc-----ccccceeeeecCHHHHHHHHHhhcccccccchhH
Confidence 46778888888664 55 3699999999999999887654 3578899999999999999999999999999998
Q ss_pred EE
Q 004082 192 AC 193 (775)
Q Consensus 192 AS 193 (775)
+-
T Consensus 264 lR 265 (290)
T KOG0226|consen 264 LR 265 (290)
T ss_pred hh
Confidence 65
No 113
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=95.75 E-value=0.0059 Score=64.77 Aligned_cols=78 Identities=19% Similarity=0.310 Sum_probs=58.7
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccc------cCCCc-eEEEEEeCCHHHHHHHHHHhc
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQ------FPNNT-CSVYITYSKEEEAVRCIQSVH 181 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq------~p~~r-gsAYVTFs~~EDA~rAIqaLD 181 (775)
....||+.+||+.+...-| +++|++||+|-.|.+-.......-+ ..... --++|.|.++..|.++...||
T Consensus 73 k~GVvylS~IPp~m~~~rl---Reil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Ln 149 (278)
T KOG3152|consen 73 KTGVVYLSNIPPYMDPVRL---REILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLN 149 (278)
T ss_pred cceEEEeccCCCccCHHHH---HHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhC
Confidence 3588999999999977655 4999999999999996543220000 00001 135899999999999999999
Q ss_pred CCccCCeE
Q 004082 182 GFVLEGKS 189 (775)
Q Consensus 182 Gs~LdGR~ 189 (775)
|.+|+|+.
T Consensus 150 n~~Iggkk 157 (278)
T KOG3152|consen 150 NTPIGGKK 157 (278)
T ss_pred CCccCCCC
Confidence 99999974
No 114
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=95.71 E-value=0.0059 Score=63.37 Aligned_cols=66 Identities=23% Similarity=0.392 Sum_probs=55.3
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
--+.|.+|+.++...+|- ++|++||++...++. ..++||.|+.++||.+||..|+|..+.|+.|
T Consensus 100 ~r~~~~~~~~r~~~qdl~---d~~~~~g~~~~~~~~-------------~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l 163 (216)
T KOG0106|consen 100 FRLIVRNLSLRVSWQDLK---DHFRPAGEVTYVDAR-------------RNFAFVEFSEQEDAKRALEKLDGKKLNGRRI 163 (216)
T ss_pred ceeeeccchhhhhHHHHh---hhhcccCCCchhhhh-------------ccccceeehhhhhhhhcchhccchhhcCcee
Confidence 446677778887777774 999999999555542 2468999999999999999999999999999
Q ss_pred EE
Q 004082 191 KA 192 (775)
Q Consensus 191 RA 192 (775)
++
T Consensus 164 ~~ 165 (216)
T KOG0106|consen 164 SV 165 (216)
T ss_pred ee
Confidence 98
No 115
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=95.60 E-value=0.014 Score=65.39 Aligned_cols=71 Identities=23% Similarity=0.349 Sum_probs=55.5
Q ss_pred EEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc-CC-eEEE
Q 004082 114 YIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL-EG-KSLK 191 (775)
Q Consensus 114 YVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L-dG-R~LR 191 (775)
.|.++-..++- |+| +..|++||.|.||+--.. +.++.|-|.|.+.+.|..|-.+|||..+ +| -.||
T Consensus 154 iie~m~ypVsl-DVL--HqvFS~fG~VlKIiTF~K---------nn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLr 221 (492)
T KOG1190|consen 154 IIENMFYPVSL-DVL--HQVFSKFGFVLKIITFTK---------NNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLR 221 (492)
T ss_pred EeccceeeeEH-HHH--HHHHhhcceeEEEEEEec---------ccchhhhhhccchhhHHHHHHhccCCcccCceeEEE
Confidence 34445455544 577 799999999999986532 2468999999999999999999999865 55 4899
Q ss_pred EEecC
Q 004082 192 ACFGT 196 (775)
Q Consensus 192 ASfGT 196 (775)
+.|..
T Consensus 222 Id~Sk 226 (492)
T KOG1190|consen 222 IDFSK 226 (492)
T ss_pred eehhh
Confidence 88843
No 116
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.36 E-value=0.059 Score=60.02 Aligned_cols=75 Identities=20% Similarity=0.318 Sum_probs=63.7
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
.-.+-|-||...--+-|.| ..+|-+||.|.+|..++++. +.|-|.+.+.++-++||..||+..+.|.+
T Consensus 287 g~VmMVyGLdh~k~N~drl--FNl~ClYGNV~rvkFmkTk~----------gtamVemgd~~aver~v~hLnn~~lfG~k 354 (494)
T KOG1456|consen 287 GCVMMVYGLDHGKMNCDRL--FNLFCLYGNVERVKFMKTKP----------GTAMVEMGDAYAVERAVTHLNNIPLFGGK 354 (494)
T ss_pred CcEEEEEeccccccchhhh--hhhhhhcCceeeEEEeeccc----------ceeEEEcCcHHHHHHHHHHhccCccccce
Confidence 4567889998865555554 58999999999999998753 46899999999999999999999999999
Q ss_pred EEEEecC
Q 004082 190 LKACFGT 196 (775)
Q Consensus 190 LRASfGT 196 (775)
|.+.+..
T Consensus 355 l~v~~Sk 361 (494)
T KOG1456|consen 355 LNVCVSK 361 (494)
T ss_pred EEEeecc
Confidence 9998743
No 117
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=95.36 E-value=0.016 Score=64.49 Aligned_cols=81 Identities=21% Similarity=0.431 Sum_probs=62.6
Q ss_pred cCccccccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeE---EEEeecCCccccccCCCceEEEEEeCCHHHHHHHH
Q 004082 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK---VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCI 177 (775)
Q Consensus 101 ~LanVRVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~K---IvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAI 177 (775)
+....|+ ++.|-+.|||+..+.|||| +|||.|-.-++ |-|..+..+ .++|-|||.|.+.|+|..|.
T Consensus 273 ~~p~~~~--kdcvRLRGLPy~AtvEdIL---~FlgdFa~~i~f~gVHmv~N~qG------rPSGeAFIqm~nae~a~aaa 341 (508)
T KOG1365|consen 273 LVPPTRS--KDCVRLRGLPYEATVEDIL---DFLGDFATDIRFQGVHMVLNGQG------RPSGEAFIQMRNAERARAAA 341 (508)
T ss_pred cCCCCCC--CCeeEecCCChhhhHHHHH---HHHHHHhhhcccceeEEEEcCCC------CcChhhhhhhhhhHHHHHHH
Confidence 3344444 8999999999999999999 99999987654 334444333 36789999999999999999
Q ss_pred HHhcCCccCCeEEEE
Q 004082 178 QSVHGFVLEGKSLKA 192 (775)
Q Consensus 178 qaLDGs~LdGR~LRA 192 (775)
+..+.....+|.|.|
T Consensus 342 qk~hk~~mk~RYiEv 356 (508)
T KOG1365|consen 342 QKCHKKLMKSRYIEV 356 (508)
T ss_pred HHHHHhhcccceEEE
Confidence 999887665555554
No 118
>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=95.24 E-value=0.02 Score=46.55 Aligned_cols=50 Identities=22% Similarity=0.327 Sum_probs=37.8
Q ss_pred CCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccccc
Q 004082 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (775)
Q Consensus 6 d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i 65 (775)
+-.||+|.+.|+ |.... +||+-+|+-|..+... + ++.||-|++++..+.+
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 44433 6799988888887763 2 6899999998865544
No 119
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=95.12 E-value=0.047 Score=53.91 Aligned_cols=56 Identities=27% Similarity=0.567 Sum_probs=43.2
Q ss_pred HHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEEecCCC
Q 004082 126 DLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTTK 198 (775)
Q Consensus 126 DLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRASfGTTK 198 (775)
+|| +.|.+||+|+=|++.- +.-+|||.+-+.|.+|+. +||..+.|+.|++..-|+-
T Consensus 52 ~ll---~~~~~~GevvLvRfv~-------------~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtpd 107 (146)
T PF08952_consen 52 ELL---QKFAQYGEVVLVRFVG-------------DTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTPD 107 (146)
T ss_dssp HHH---HHHHCCS-ECEEEEET-------------TCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE----
T ss_pred HHH---HHHHhCCceEEEEEeC-------------CeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCcc
Confidence 455 8999999988776652 236999999999998876 9999999999999986643
No 120
>PLN02248 cellulose synthase-like protein
Probab=95.08 E-value=0.02 Score=70.46 Aligned_cols=50 Identities=38% Similarity=1.064 Sum_probs=37.2
Q ss_pred CCC--CCcccCC--CccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcc
Q 004082 7 KTC--PLCAEEM--DLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (775)
Q Consensus 7 ~~C--PLC~Eel--D~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yde 62 (775)
..| |-|-... |..-....||.|+|.||+-||-.-+ + ..|.||+|+.+|..
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~--~~~~~~~~~~~~~~ 178 (1135)
T PLN02248 125 SSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDAV----K--SGGICPGCKEPYKV 178 (1135)
T ss_pred CcccccCcccccccccccccCCcccccchhHHhHhhhhh----h--cCCCCCCCcccccc
Confidence 455 4465554 2233568999999999999998765 2 38999999999943
No 121
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.96 E-value=0.039 Score=61.85 Aligned_cols=52 Identities=23% Similarity=0.673 Sum_probs=39.8
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccccc
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i 65 (775)
+++..||+|.+.|. +... =+||..+|.-|...... ..+.||.||.++....+
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 45679999999884 2222 37999999999988763 24689999999887644
No 122
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.82 E-value=0.015 Score=56.24 Aligned_cols=48 Identities=31% Similarity=0.696 Sum_probs=39.2
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
+++..||+|.+.|... .--+||.-+|..|...+.. ..-+||.||.+|.
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 5678999999999765 5567999999999999964 4478999995444
No 123
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.73 E-value=0.023 Score=57.80 Aligned_cols=52 Identities=23% Similarity=0.746 Sum_probs=40.5
Q ss_pred CCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccccc
Q 004082 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (775)
Q Consensus 6 d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i 65 (775)
-..||+||+.+ +.+.-+-=+||.-+|.-|....+. ....||.||+..++..+
T Consensus 131 ~~~CPiCl~~~--sek~~vsTkCGHvFC~~Cik~alk------~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 131 TYKCPICLDSV--SEKVPVSTKCGHVFCSQCIKDALK------NTNKCPTCRKKITHKQF 182 (187)
T ss_pred ccCCCceecch--hhccccccccchhHHHHHHHHHHH------hCCCCCCcccccchhhh
Confidence 36799999987 445556678999999999998874 46789999996665543
No 124
>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=94.59 E-value=0.019 Score=43.79 Aligned_cols=39 Identities=28% Similarity=0.905 Sum_probs=29.7
Q ss_pred CCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCC
Q 004082 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (775)
Q Consensus 9 CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPAC 56 (775)
||+|.+.+.. .+.--+||.-+|.-||.+.++ . +.+||.|
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 5899988
No 125
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=94.48 E-value=0.041 Score=43.09 Aligned_cols=44 Identities=25% Similarity=0.722 Sum_probs=36.6
Q ss_pred CCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 8 TCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 8 ~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
.|++|.+++ ..+..++-=.||..+|.-|+..+. .....||.||+
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 344568888999999999999884 34688999986
No 126
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=94.45 E-value=0.098 Score=54.70 Aligned_cols=77 Identities=14% Similarity=0.409 Sum_probs=64.3
Q ss_pred ccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 107 VIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
--+.+.+++.+||.....| +| ..+|.||+--..|++... .++.|||+|.+...|..|.+++.|+.+-
T Consensus 143 ~ppn~ilf~~niP~es~~e-~l--~~lf~qf~g~keir~i~~----------~~~iAfve~~~d~~a~~a~~~lq~~~it 209 (221)
T KOG4206|consen 143 APPNNILFLTNIPSESESE-ML--SDLFEQFPGFKEIRLIPP----------RSGIAFVEFLSDRQASAAQQALQGFKIT 209 (221)
T ss_pred CCCceEEEEecCCcchhHH-HH--HHHHhhCcccceeEeccC----------CCceeEEecchhhhhHHHhhhhccceec
Confidence 3446889999999998655 44 389999999999998753 2468999999999999999999999886
Q ss_pred -CeEEEEEecC
Q 004082 187 -GKSLKACFGT 196 (775)
Q Consensus 187 -GR~LRASfGT 196 (775)
...|++.|+.
T Consensus 210 ~~~~m~i~~a~ 220 (221)
T KOG4206|consen 210 KKNTMQITFAK 220 (221)
T ss_pred cCceEEecccC
Confidence 8889988863
No 127
>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=94.35 E-value=0.05 Score=38.58 Aligned_cols=39 Identities=31% Similarity=0.860 Sum_probs=29.4
Q ss_pred CCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCC
Q 004082 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (775)
Q Consensus 9 CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPAC 56 (775)
|++|.+.. + ....-+||..+|..|+..+.+ .....||.|
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 3 344446999999999998863 356789987
No 128
>PLN02195 cellulose synthase A
Probab=94.29 E-value=0.031 Score=68.14 Aligned_cols=57 Identities=30% Similarity=0.770 Sum_probs=46.8
Q ss_pred CCcccCCCCCCcccCCCccC--CCccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcc
Q 004082 1 MSDEGEKTCPLCAEEMDLTD--QQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (775)
Q Consensus 1 msde~d~~CPLC~EelD~tD--~~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yde 62 (775)
|-+.....|.+|-++++++. ..|.-|. |||.+|+-||..= +.+.+-.||-|...|.|
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 44556679999999887665 4689998 9999999999753 45688889999999983
No 129
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=94.28 E-value=0.039 Score=53.95 Aligned_cols=56 Identities=25% Similarity=0.771 Sum_probs=43.5
Q ss_pred ccCCCCCCcccCCCccCCCc-cccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccc
Q 004082 4 EGEKTCPLCAEEMDLTDQQL-KPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEK 64 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F-~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~ 64 (775)
.---+|.||-|-- +|.+| +|=. |||.||--||-.+-..+ +....||+|+.-|-.+.
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 3445899999875 56666 8877 59999999999987643 47899999999775443
No 130
>PHA02926 zinc finger-like protein; Provisional
Probab=94.14 E-value=0.053 Score=56.96 Aligned_cols=57 Identities=23% Similarity=0.532 Sum_probs=38.0
Q ss_pred cCCCCCCcccCCC----ccCCCcc-ccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 5 GEKTCPLCAEEMD----LTDQQLK-PCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 5 ~d~~CPLC~EelD----~tD~~F~-PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
.|.+|++|+|.+- ..|+.|- .=.|+.-.|.-|...-++..........||-||..+.
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 4689999999862 4566663 4479999888777766542111112346999999664
No 131
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=93.98 E-value=0.12 Score=61.21 Aligned_cols=74 Identities=20% Similarity=0.412 Sum_probs=62.4
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeE-EEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLK-VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~K-IvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
.|-+.|+|..++-|||+ +||.-|-.+-. |.+-++..+. ++|-+-|-|+.++||.+|...+||..|..|+|
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 99999988865 4444444442 57889999999999999999999999999999
Q ss_pred EEEe
Q 004082 191 KACF 194 (775)
Q Consensus 191 RASf 194 (775)
++.+
T Consensus 940 ~l~i 943 (944)
T KOG4307|consen 940 SLRI 943 (944)
T ss_pred EEEe
Confidence 8765
No 132
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=93.98 E-value=0.049 Score=49.00 Aligned_cols=53 Identities=23% Similarity=0.824 Sum_probs=24.7
Q ss_pred cCCCCCCcccCCCc--cCCCccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcc
Q 004082 5 GEKTCPLCAEEMDL--TDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (775)
Q Consensus 5 ~d~~CPLC~EelD~--tD~~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yde 62 (775)
....|.+|-+.+-+ +-..|.-|. |+|-||+-||..=+ .+.+-.||-|+.+|..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYEr-----keg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYER-----KEGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHH-----HTS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHh-----hcCcccccccCCCccc
Confidence 45789999998744 445799998 99999999999654 2467789999999974
No 133
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=93.42 E-value=0.3 Score=54.75 Aligned_cols=71 Identities=18% Similarity=0.283 Sum_probs=57.7
Q ss_pred eCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc-CC-eEEEEE
Q 004082 116 VGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL-EG-KSLKAC 193 (775)
Q Consensus 116 vGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L-dG-R~LRAS 193 (775)
.|--+.|+. |+| |.+--.-|+|+.|+|.+.. +..|-|+|+..+.|.+|-.+|||..| -| -+||+.
T Consensus 128 lNp~YpItv-DVl--y~Icnp~GkVlRIvIfkkn----------gVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKIe 194 (494)
T KOG1456|consen 128 LNPQYPITV-DVL--YTICNPQGKVLRIVIFKKN----------GVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKIE 194 (494)
T ss_pred ecCccccch-hhh--hhhcCCCCceEEEEEEecc----------ceeeEEeechhHHHHHHHhhcccccccccceeEEEE
Confidence 333344554 677 7899999999999998752 46899999999999999999999986 34 699999
Q ss_pred ecCCCc
Q 004082 194 FGTTKY 199 (775)
Q Consensus 194 fGTTKY 199 (775)
||..-.
T Consensus 195 yAkP~r 200 (494)
T KOG1456|consen 195 YAKPTR 200 (494)
T ss_pred ecCcce
Confidence 998753
No 134
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.31 E-value=0.091 Score=63.45 Aligned_cols=78 Identities=17% Similarity=0.219 Sum_probs=65.0
Q ss_pred cccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc
Q 004082 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (775)
Q Consensus 106 RVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L 185 (775)
.+.--.-++|+||.+.....-|+ ..|+.||.|..|.+-.. ..+|||.|+...-|..|.+.|-|+.|
T Consensus 451 kst~ttr~~sgglg~w~p~~~l~---r~fd~fGpir~Idy~hg-----------q~yayi~yes~~~aq~a~~~~rgap~ 516 (975)
T KOG0112|consen 451 KSTPTTRLQSGGLGPWSPVSRLN---REFDRFGPIRIIDYRHG-----------QPYAYIQYESPPAAQAATHDMRGAPL 516 (975)
T ss_pred ccccceeeccCCCCCCChHHHHH---HHhhccCcceeeecccC-----------CcceeeecccCccchhhHHHHhcCcC
Confidence 45556779999999998776665 79999999999876321 23689999999999999999999999
Q ss_pred CC--eEEEEEecCC
Q 004082 186 EG--KSLKACFGTT 197 (775)
Q Consensus 186 dG--R~LRASfGTT 197 (775)
+| +.|+|.|+-+
T Consensus 517 G~P~~r~rvdla~~ 530 (975)
T KOG0112|consen 517 GGPPRRLRVDLASP 530 (975)
T ss_pred CCCCcccccccccC
Confidence 87 7899998765
No 135
>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=93.23 E-value=0.051 Score=41.21 Aligned_cols=41 Identities=27% Similarity=0.726 Sum_probs=32.7
Q ss_pred CCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCC
Q 004082 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (775)
Q Consensus 9 CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPAC 56 (775)
||+|.+.+.... .-=+||..+|..|+.++.+. .....||.|
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 45678999999999999752 456779987
No 136
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=93.23 E-value=0.14 Score=55.91 Aligned_cols=65 Identities=23% Similarity=0.393 Sum_probs=52.2
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
.-|-|-|.|+.-.. =+| ..|.+||.|+|.+... .+...||.|..+-+|.+||. -||..|+|-++
T Consensus 198 ~WVTVfGFppg~~s-~vL---~~F~~cG~Vvkhv~~~-----------ngNwMhirYssr~~A~KALs-kng~ii~g~vm 261 (350)
T KOG4285|consen 198 TWVTVFGFPPGQVS-IVL---NLFSRCGEVVKHVTPS-----------NGNWMHIRYSSRTHAQKALS-KNGTIIDGDVM 261 (350)
T ss_pred ceEEEeccCccchh-HHH---HHHHhhCeeeeeecCC-----------CCceEEEEecchhHHHHhhh-hcCeeeccceE
Confidence 44778899887543 356 6999999999998762 23478999999999999997 68999998765
Q ss_pred E
Q 004082 191 K 191 (775)
Q Consensus 191 R 191 (775)
-
T Consensus 262 i 262 (350)
T KOG4285|consen 262 I 262 (350)
T ss_pred E
Confidence 3
No 137
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=93.19 E-value=0.078 Score=55.94 Aligned_cols=64 Identities=14% Similarity=0.307 Sum_probs=51.2
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L 185 (775)
-.++||.||.+++++++|. .+|..|--..-+.|- .+. ....|||.|++.|.|..|+..|.|+.|
T Consensus 210 cstlfianl~~~~~ed~l~---~~~~~~~gf~~l~~~-~~~--------g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDELK---QLLSRYPGFHILKIR-ARG--------GMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhhHhhhccCCCCCHHHHH---HHHHhCCCceEEEEe-cCC--------CcceEeecHHHHHHHHHHHHHhhccee
Confidence 4679999999999877664 799999766555552 222 356899999999999999999999887
No 138
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=93.16 E-value=0.062 Score=62.54 Aligned_cols=74 Identities=26% Similarity=0.291 Sum_probs=57.2
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcce-eEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc---
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKV-LKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL--- 185 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI-~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L--- 185 (775)
-|.|||.||-.-++.-.|. +++|+-|.| ...+|-+ .. . -.||+|.+.+||..-+.+|+|...
T Consensus 444 SnvlhI~nLvRPFTlgQLk---elL~rtgg~Vee~WmDk--IK-------S--hCyV~yss~eEA~atr~AlhnV~WP~s 509 (718)
T KOG2416|consen 444 SNVLHIDNLVRPFTLGQLK---ELLGRTGGNVEEFWMDK--IK-------S--HCYVSYSSVEEAAATREALHNVQWPPS 509 (718)
T ss_pred cceEeeecccccchHHHHH---HHHhhccCchHHHHHHH--hh-------c--ceeEecccHHHHHHHHHHHhccccCCC
Confidence 5999999999999887774 899955554 4555532 21 1 259999999999999999999875
Q ss_pred CCeEEEEEecCC
Q 004082 186 EGKSLKACFGTT 197 (775)
Q Consensus 186 dGR~LRASfGTT 197 (775)
+++.|-|.|++.
T Consensus 510 NPK~L~adf~~~ 521 (718)
T KOG2416|consen 510 NPKHLIADFVRA 521 (718)
T ss_pred CCceeEeeecch
Confidence 678888888754
No 139
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=93.07 E-value=0.16 Score=58.40 Aligned_cols=69 Identities=22% Similarity=0.327 Sum_probs=58.5
Q ss_pred ccccccccCEEEEeCCCCCCChHHHHHHHhhhc-CCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHH
Q 004082 103 SSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFG-QYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (775)
Q Consensus 103 anVRVIQrNLVYVvGLp~~iaeEDLLr~~EyFG-QYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqa 179 (775)
.+..+-.+-+|||||||.-++-+||- .+|. -||.|.-|-|-.|.+.+ -++|.+=|||++...=.+||.+
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 44567778899999999999999985 7888 89999999998886544 3678899999999999999985
No 140
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=92.87 E-value=0.054 Score=66.72 Aligned_cols=50 Identities=22% Similarity=0.843 Sum_probs=42.5
Q ss_pred CCCCCcccCCCccCC--CccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 7 KTCPLCAEEMDLTDQ--QLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 7 ~~CPLC~EelD~tD~--~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
.+|.+|-+++.+|.. .|.-|- |||-+|+-||..= +.+.+-.||-|+..|.
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYE-----r~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYE-----RKDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhh-----hhcCCccCCccCCchh
Confidence 489999999876654 689998 9999999999653 4568888999999997
No 141
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=92.33 E-value=0.29 Score=56.07 Aligned_cols=74 Identities=18% Similarity=0.342 Sum_probs=56.2
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeE-EEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK-VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~K-IvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
.-.|=+.|||+.++++||. +||.--=.|.+ |-+..++.+ .+++-|||.|+.+|.|+.|++.- ...|.-|
T Consensus 103 d~vVRLRGLPfscte~dI~---~FFaGL~Iv~~gi~l~~d~rg------R~tGEAfVqF~sqe~ae~Al~rh-re~iGhR 172 (510)
T KOG4211|consen 103 DGVVRLRGLPFSCTEEDIV---EFFAGLEIVPDGILLPMDQRG------RPTGEAFVQFESQESAEIALGRH-RENIGHR 172 (510)
T ss_pred CceEEecCCCccCcHHHHH---HHhcCCcccccceeeeccCCC------CcccceEEEecCHHHHHHHHHHH-HHhhccc
Confidence 4468899999999999997 99998765555 334455433 36889999999999999999853 4566667
Q ss_pred EEEEE
Q 004082 189 SLKAC 193 (775)
Q Consensus 189 ~LRAS 193 (775)
.|-|-
T Consensus 173 YIEvF 177 (510)
T KOG4211|consen 173 YIEVF 177 (510)
T ss_pred eEEee
Confidence 77654
No 142
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=92.19 E-value=0.18 Score=53.90 Aligned_cols=107 Identities=15% Similarity=0.116 Sum_probs=69.9
Q ss_pred ccccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHh--cC
Q 004082 105 VRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV--HG 182 (775)
Q Consensus 105 VRVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaL--DG 182 (775)
||.--+--|||++|...+..|.++ +-|.+||.|...||..|..+ ..++-..|.|..+-.|.+|.... .|
T Consensus 26 ~rfa~~a~l~V~nl~~~~sndll~---~~f~~fg~~e~av~~vD~r~------k~t~eg~v~~~~k~~a~~a~rr~~~~g 96 (275)
T KOG0115|consen 26 VRFAMHAELYVVNLMQGASNDLLE---QAFRRFGPIERAVAKVDDRG------KPTREGIVEFAKKPNARKAARRCREGG 96 (275)
T ss_pred EEeeccceEEEEecchhhhhHHHH---HhhhhcCccchheeeecccc------cccccchhhhhcchhHHHHHHHhccCc
Confidence 454555889999999999887665 89999999999888777544 24556799999999999999888 33
Q ss_pred Cc--cCCeEEEEEecCCCccccccCCCCCCCCCCcccccCC
Q 004082 183 FV--LEGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVG 221 (775)
Q Consensus 183 s~--LdGR~LRASfGTTKYCssFLR~~~C~NpdC~YLHE~g 221 (775)
+- ..|+..-|.=..--||..=+--. |..+.-.|+||.+
T Consensus 97 ~~~~~~~~p~~VeP~eq~~d~~G~~~k-~~~~~~~~~~e~~ 136 (275)
T KOG0115|consen 97 FGGTTGGRPVGVEPMEQPDDNDGGPEK-GGGGGPSGPKERE 136 (275)
T ss_pred cccCCCCCccCCChhhccCCCCcchhh-cCCCCCCCCcccc
Confidence 32 23343333322222333222222 5555555555554
No 143
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=91.92 E-value=0.13 Score=55.51 Aligned_cols=54 Identities=28% Similarity=0.860 Sum_probs=35.1
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccc
Q 004082 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIV 66 (775)
Q Consensus 3 de~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~ 66 (775)
++....|-||+|.+ .|...- +||.- |||.-|++-..+ ..-||-||......++.
T Consensus 236 ~~a~~kC~LCLe~~--~~pSaT--pCGHi---FCWsCI~~w~~e---k~eCPlCR~~~~pskvi 289 (293)
T KOG0317|consen 236 PEATRKCSLCLENR--SNPSAT--PCGHI---FCWSCILEWCSE---KAECPLCREKFQPSKVI 289 (293)
T ss_pred CCCCCceEEEecCC--CCCCcC--cCcch---HHHHHHHHHHcc---ccCCCcccccCCCccee
Confidence 34567899999998 222333 47887 666666653322 23399999988766653
No 144
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=91.43 E-value=0.12 Score=63.61 Aligned_cols=50 Identities=32% Similarity=0.948 Sum_probs=42.0
Q ss_pred CCCCCcccCCCccC--CCccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 7 KTCPLCAEEMDLTD--QQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 7 ~~CPLC~EelD~tD--~~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
.+|.+|-+++.++. ..|.-|- |+|.+|+-||..= ..+.+-.||.|+.+|.
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 68999999986654 3689998 9999999999643 4567888999999997
No 145
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=91.40 E-value=0.13 Score=40.47 Aligned_cols=42 Identities=24% Similarity=0.710 Sum_probs=26.8
Q ss_pred CCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCC
Q 004082 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (775)
Q Consensus 9 CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPAC 56 (775)
||+|.+-|. .=..-+||+..|+.|..++.+. .......||-|
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 899999884 2344678999999999999742 11222579987
No 146
>PLN02400 cellulose synthase
Probab=91.37 E-value=0.092 Score=64.80 Aligned_cols=50 Identities=22% Similarity=0.874 Sum_probs=42.1
Q ss_pred CCCCCcccCCCccCC--CccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 7 KTCPLCAEEMDLTDQ--QLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 7 ~~CPLC~EelD~tD~--~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
.+|.+|-+++.+|.. .|.-|- |+|-+|+-||..= +.+.+-.||-|+..|.
T Consensus 37 qiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYE-----RkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 37 QICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYE-----RKDGTQCCPQCKTRYR 89 (1085)
T ss_pred ceeeecccccCcCCCCCEEEEEccCCCccccchhhee-----cccCCccCcccCCccc
Confidence 389999999866543 689998 9999999999753 4567888999999997
No 147
>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=91.01 E-value=0.61 Score=42.82 Aligned_cols=56 Identities=14% Similarity=0.420 Sum_probs=43.6
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhc
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH 181 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLD 181 (775)
|.-||-...|......||+ ++|..||.|.=-.|+- .+|||...+.+.|..++..++
T Consensus 8 RdHVFhltFPkeWK~~DI~---qlFspfG~I~VsWi~d-------------TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 8 RDHVFHLTFPKEWKTSDIY---QLFSPFGQIYVSWIND-------------TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp GCCEEEEE--TT--HHHHH---HHCCCCCCEEEEEECT-------------TEEEEEECCCHHHHHHHHHHT
T ss_pred cceEEEEeCchHhhhhhHH---HHhccCCcEEEEEEcC-------------CcEEEEeecHHHHHHHHHHhc
Confidence 5567878899999999997 9999999997655541 269999999999999999886
No 148
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.86 E-value=0.17 Score=55.03 Aligned_cols=46 Identities=26% Similarity=0.715 Sum_probs=40.6
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
.+-.+||.|.+.|.+ ..+-|.=|.-.|-.|--+. ..+||.||.++.
T Consensus 46 ~~lleCPvC~~~l~~---Pi~QC~nGHlaCssC~~~~---------~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 46 LDLLDCPVCFNPLSP---PIFQCDNGHLACSSCRTKV---------SNKCPTCRLPIG 91 (299)
T ss_pred hhhccCchhhccCcc---cceecCCCcEehhhhhhhh---------cccCCccccccc
Confidence 445799999999987 8899999999999998765 468999999998
No 149
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=90.80 E-value=0.16 Score=56.38 Aligned_cols=53 Identities=26% Similarity=0.613 Sum_probs=42.9
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccc
Q 004082 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (775)
Q Consensus 3 de~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee 63 (775)
||+++.|-||.+.+.- ...+ ||+.|||.-|--|++.++ +..-||-||.+.++-
T Consensus 58 DEen~~C~ICA~~~TY--s~~~--PC~H~~CH~Ca~RlRALY----~~K~C~~CrTE~e~V 110 (493)
T COG5236 58 DEENMNCQICAGSTTY--SARY--PCGHQICHACAVRLRALY----MQKGCPLCRTETEAV 110 (493)
T ss_pred ccccceeEEecCCceE--EEec--cCCchHHHHHHHHHHHHH----hccCCCccccccceE
Confidence 6778899999999843 3333 579999999999999865 567899999988764
No 150
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=90.65 E-value=0.78 Score=53.03 Aligned_cols=80 Identities=20% Similarity=0.319 Sum_probs=50.4
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCce---EEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTC---SVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rg---sAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
..|||+|||+.++++.|. ..|++||.+. |.=.+.... ....+ +.| +||+-|+++..-..=|.+.-- .-++
T Consensus 260 ~KVFvGGlp~dise~~i~---~~F~~FGs~~-VdWP~k~~~-~~~~p-pkGs~~YvflvFe~E~sV~~Ll~aC~~-~~~~ 332 (520)
T KOG0129|consen 260 RKVFVGGLPWDITEAQIN---ASFGQFGSVK-VDWPGKANS-RGRAP-PKGSYGYVFLVFEDERSVQSLLSACSE-GEGN 332 (520)
T ss_pred cceeecCCCccccHHHHH---hhcccccceE-eecCCCccc-cccCC-CCCcccEEEEEecchHHHHHHHHHHhh-cccc
Confidence 569999999999998886 7999999984 222221111 11122 344 899999998776655554432 2233
Q ss_pred eEEEEEecCC
Q 004082 188 KSLKACFGTT 197 (775)
Q Consensus 188 R~LRASfGTT 197 (775)
-.|+|+--|-
T Consensus 333 ~yf~vss~~~ 342 (520)
T KOG0129|consen 333 YYFKVSSPTI 342 (520)
T ss_pred eEEEEecCcc
Confidence 3556664333
No 151
>PF04641 Rtf2: Rtf2 RING-finger
Probab=90.38 E-value=0.35 Score=50.95 Aligned_cols=64 Identities=27% Similarity=0.659 Sum_probs=42.5
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccccccchhHH
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCER 74 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~e~ 74 (775)
+..-.||++..+|.-.=.-.+.-+|| |.||+.-|.++ + .+..||.|-.+|.++.|+......++
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG---~V~s~~alke~--k--~~~~Cp~c~~~f~~~DiI~Lnp~~ee 174 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCG---CVFSEKALKEL--K--KSKKCPVCGKPFTEEDIIPLNPPEEE 174 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCC---CEeeHHHHHhh--c--ccccccccCCccccCCEEEecCCccH
Confidence 34468999999994322223444566 46666666554 2 35679999999998888766555444
No 152
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=90.37 E-value=0.8 Score=39.59 Aligned_cols=56 Identities=27% Similarity=0.550 Sum_probs=43.3
Q ss_pred cccCEEEEeCCCCCCChHHHHHHHhhhcCC----cceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHh
Q 004082 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQY----GKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (775)
Q Consensus 108 IQrNLVYVvGLp~~iaeEDLLr~~EyFGQY----GKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaL 180 (775)
++-+.|||.|+. ++..+|++ .||..| | ..+|.-.-|. ++=|.|.+.+.|.+|+.+|
T Consensus 3 ~rpeavhirGvd-~lsT~dI~---~y~~~y~~~~~-~~~IEWIdDt------------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 3 IRPEAVHIRGVD-ELSTDDIK---AYFSEYFDEEG-PFRIEWIDDT------------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceeceEEEEcCC-CCCHHHHH---HHHHHhcccCC-CceEEEecCC------------cEEEEECCHHHHHHHHHcC
Confidence 456889999985 47788997 899999 4 3356554442 4689999999999999875
No 153
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=89.98 E-value=0.19 Score=40.18 Aligned_cols=33 Identities=24% Similarity=0.677 Sum_probs=20.0
Q ss_pred CCCcccCCCccCCCccccCCCchhhhhhHhHhHH
Q 004082 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMD 42 (775)
Q Consensus 9 CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~ 42 (775)
||+|.| ++-++..=+--+||+-||+-|..+|..
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~ 33 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSK 33 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHH
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHh
Confidence 999999 865555445566999999999999974
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=89.81 E-value=0.51 Score=48.06 Aligned_cols=57 Identities=26% Similarity=0.461 Sum_probs=42.9
Q ss_pred HhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhc--CCccCCeEEEEEecCCC
Q 004082 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH--GFVLEGKSLKACFGTTK 198 (775)
Q Consensus 131 ~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLD--Gs~LdGR~LRASfGTTK 198 (775)
.++|.+|+.+..+.+.+.- ..+-|.|.+.++|.+|...++ |..+.|..||+-||..-
T Consensus 13 ~~l~~~~~~~~~~~~L~sF-----------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~ 71 (184)
T PF04847_consen 13 EELFSTYDPPVQFSPLKSF-----------RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPT 71 (184)
T ss_dssp HHHHHTT-SS-EEEEETTT-----------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----S
T ss_pred HHHHHhcCCceEEEEcCCC-----------CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcccc
Confidence 4899999999999887532 247899999999999999999 99999999999999443
No 155
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=89.62 E-value=0.36 Score=44.06 Aligned_cols=54 Identities=26% Similarity=0.664 Sum_probs=33.7
Q ss_pred cCCCCCCcccCCCcc---------CCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 5 GEKTCPLCAEEMDLT---------DQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 5 ~d~~CPLC~EelD~t---------D~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
+|+.|+||..+||.+ |-.+.-+.|+..+-.-|..+=++ ....+++||-||+++.
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 22333356777644444444443 2345799999999764
No 156
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=89.54 E-value=0.34 Score=54.94 Aligned_cols=90 Identities=19% Similarity=0.273 Sum_probs=64.9
Q ss_pred ccCccccc--cccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeec---CCccccccCC------CceEEEEEeC
Q 004082 100 QQLSSVRV--IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRT---AAGVIQQFPN------NTCSVYITYS 168 (775)
Q Consensus 100 ~~LanVRV--IQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd---~~~~~qq~p~------~rgsAYVTFs 168 (775)
..|...+. +|--+|.|-+||..-..|.|+ ++||.+|.|..|.|-+- ..... ..+. .+-.|+|.|.
T Consensus 219 sPlp~~~~eel~srtivaenLP~Dh~~enl~---kiFg~~G~IksIRIckPgaip~d~r-~~~~~~~~~~tk~~AlvEye 294 (484)
T KOG1855|consen 219 SPLPEFDEEELPSRTIVAENLPLDHSYENLS---KIFGTVGSIKSIRICKPGAIPEDVR-GFPKKYFELQTKECALVEYE 294 (484)
T ss_pred CCCCCccccccccceEEEecCCcchHHHHHH---HHhhcccceeeeeecCCCCCCcccc-cCCccchhhhhhhhhhhhhh
Confidence 34544443 478899999999998888887 89999999999999764 11110 1111 2345899999
Q ss_pred CHHHHHHHHHHhcCCccCCeEEEEE
Q 004082 169 KEEEAVRCIQSVHGFVLEGKSLKAC 193 (775)
Q Consensus 169 ~~EDA~rAIqaLDGs~LdGR~LRAS 193 (775)
..+.|.+|.+.++....--.-|||-
T Consensus 295 ~~~~A~KA~e~~~~e~~wr~glkvk 319 (484)
T KOG1855|consen 295 EVEAARKARELLNPEQNWRMGLKVK 319 (484)
T ss_pred hhHHHHHHHHhhchhhhhhhcchhh
Confidence 9999999999997766544445544
No 157
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=87.81 E-value=0.26 Score=53.74 Aligned_cols=46 Identities=28% Similarity=0.826 Sum_probs=36.6
Q ss_pred CCCCCcccCCCccCCCcccc--CCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccc
Q 004082 7 KTCPLCAEEMDLTDQQLKPC--KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEK 64 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC--~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~ 64 (775)
.-|-||-+-+.+ || +||.-+|-||..+-+ ..+..||+||.+.-|..
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 469999888865 77 499999999988665 35789999999776554
No 158
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=87.11 E-value=1.4 Score=49.86 Aligned_cols=58 Identities=26% Similarity=0.439 Sum_probs=45.0
Q ss_pred EEEeCCCCCCChHHHHHHHhhhcCCccee----EEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHH
Q 004082 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVL----KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (775)
Q Consensus 113 VYVvGLp~~iaeEDLLr~~EyFGQYGKI~----KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqa 179 (775)
|-..|||+..++.|++ +||++--.|. +|-.++...+ .++|-|||-|..+++|..|++.
T Consensus 164 vRmRGLPfdat~~dVv---~FF~~~cpv~~g~egvLFV~rpdg------rpTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 164 VRMRGLPFDATALDVV---EFFGPPCPVTGGTEGVLFVTRPDG------RPTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred EEecCCCCCcchHHHH---HhcCCCCcccCCccceEEEECCCC------CcccceEEEecCHHHHHHHHHH
Confidence 4457999999999998 9999654443 5555554443 3678999999999999999864
No 159
>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=86.68 E-value=0.96 Score=45.46 Aligned_cols=70 Identities=20% Similarity=0.264 Sum_probs=43.0
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcC-Cccee---EEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQ-YGKVL---KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQ-YGKI~---KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L 185 (775)
+..|-|..||+.+++++++ +.+.. +|... -+.-....... .+..-..|||.|.+.+++..=+..+||..+
T Consensus 7 ~~KvVIR~LPP~LteeeF~---~~i~~~l~~~~~w~y~~g~~~~~~~---~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F 80 (176)
T PF03467_consen 7 GTKVVIRRLPPNLTEEEFW---EQISPWLPDEWDWYYFQGKYGKKSF---KPPTYSRAYINFKNPEDLLEFRDRFDGHVF 80 (176)
T ss_dssp --EEEEEEE-TTS-HHHHC---CCCSS--SSE---EEEEEEES-SSS---TTS--EEEEEEESSCHHHHHHHHHCTTEEE
T ss_pred CceEEEeCCCCCCCHHHHH---HHhhhhcccccceEEEecCCCCccC---CCCcceEEEEEeCCHHHHHHHHHhcCCcEE
Confidence 4578899999999999887 65555 55552 22101111111 111234699999999999999999999775
No 160
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=86.20 E-value=0.24 Score=42.37 Aligned_cols=48 Identities=29% Similarity=0.708 Sum_probs=34.0
Q ss_pred CCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 6 d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
+.+|-+|+|. +.|..++.|.= .=+|--|--+++ .-..|.||-||+|..
T Consensus 7 ~dECTICye~--pvdsVlYtCGH-MCmCy~Cg~rl~-----~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEH--PVDSVLYTCGH-MCMCYACGLRLK-----KALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccC--cchHHHHHcch-HHhHHHHHHHHH-----HccCCcCcchhhHHH
Confidence 4789999996 47788888751 114555655664 347899999999653
No 161
>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=85.85 E-value=0.96 Score=49.27 Aligned_cols=54 Identities=26% Similarity=0.584 Sum_probs=40.1
Q ss_pred CCCCcccCC-CccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccc
Q 004082 8 TCPLCAEEM-DLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIV 66 (775)
Q Consensus 8 ~CPLC~Eel-D~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~ 66 (775)
.||.|.-.- =.-|+-++-=+|||.+|--|.++|.. ...+.||.|-+..-..++.
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~-----~g~~~CpeC~~iLRk~nfr 56 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFS-----LGPAQCPECMVILRKNNFR 56 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHh-----cCCCCCCcccchhhhcccc
Confidence 599997543 12344555559999999999999964 5789999998877666553
No 162
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=85.51 E-value=0.52 Score=56.14 Aligned_cols=79 Identities=10% Similarity=0.166 Sum_probs=64.1
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeE-EEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK-VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~K-IvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
+.|||-+||....+.++. ++|..--.|.+ |.|.+-... ..++-|||.|.+++++..|...-.-++++-|.
T Consensus 435 ~~lyv~~lP~~t~~~~~v---~~f~~~~~Ved~I~lt~~P~~------~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~ 505 (944)
T KOG4307|consen 435 GALYVFQLPVMTPIVPPV---NKFMGAAAVEDFIELTRLPTD------LLRPAAFVAFIHPTAPLTASSVKTKFYPGHRI 505 (944)
T ss_pred ceEEeccCCccccccchh---hhhhhhhhhhheeEeccCCcc------cccchhhheeccccccchhhhcccccccCceE
Confidence 789999999999888888 78888888888 777654432 23567999999999999999988888888899
Q ss_pred EEEEecCCCc
Q 004082 190 LKACFGTTKY 199 (775)
Q Consensus 190 LRASfGTTKY 199 (775)
|||. -.++|
T Consensus 506 irv~-si~~~ 514 (944)
T KOG4307|consen 506 IRVD-SIADY 514 (944)
T ss_pred EEee-chhhH
Confidence 9986 33443
No 163
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=85.44 E-value=0.39 Score=54.98 Aligned_cols=75 Identities=20% Similarity=0.378 Sum_probs=53.2
Q ss_pred cccCEEEEeCCCCCCCh-HHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 108 IQRNLVYIVGLPLNLGD-EDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 108 IQrNLVYVvGLp~~iae-EDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
++..++-+--.|+.+.. ++|+ ..|.+||+|..|.|... .-.|-|||.+..||-+|-. ..|..|+
T Consensus 370 ~dhs~l~lek~~~glnt~a~ln---~hfA~fG~i~n~qv~~~-----------~~~a~vTF~t~aeag~a~~-s~~avln 434 (526)
T KOG2135|consen 370 VDHSPLALEKSPFGLNTIADLN---PHFAQFGEIENIQVDYS-----------SLHAVVTFKTRAEAGEAYA-SHGAVLN 434 (526)
T ss_pred cccchhhhhccCCCCchHhhhh---hhhhhcCccccccccCc-----------hhhheeeeeccccccchhc-cccceec
Confidence 33344444444444333 3444 89999999999998643 1247899999999966654 7899999
Q ss_pred CeEEEEEecCC
Q 004082 187 GKSLKACFGTT 197 (775)
Q Consensus 187 GR~LRASfGTT 197 (775)
||.||+-|-..
T Consensus 435 nr~iKl~whnp 445 (526)
T KOG2135|consen 435 NRFIKLFWHNP 445 (526)
T ss_pred CceeEEEEecC
Confidence 99999988443
No 164
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=85.14 E-value=0.96 Score=51.54 Aligned_cols=75 Identities=25% Similarity=0.349 Sum_probs=59.0
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCc-cCCeE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV-LEGKS 189 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~-LdGR~ 189 (775)
|.+|+++|.+.++..||- ..||.- ++-.+.. .--..++|||.+.+..-|.+||+.++|.. +.|++
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----KIPGSGQ-------FLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKR 67 (584)
T ss_pred CcccccccCCCCChHHHH---HHhccc----cCCCCcc-------eeeecceeeccCCchhhhhhhHHhhchhhhhcCce
Confidence 678999999999998885 788865 2211111 11235789999999999999999999975 89999
Q ss_pred EEEEecCCCc
Q 004082 190 LKACFGTTKY 199 (775)
Q Consensus 190 LRASfGTTKY 199 (775)
+.+.+-..|.
T Consensus 68 ~e~~~sv~kk 77 (584)
T KOG2193|consen 68 QEVEHSVPKK 77 (584)
T ss_pred eeccchhhHH
Confidence 9999887764
No 165
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=84.67 E-value=0.32 Score=53.93 Aligned_cols=50 Identities=20% Similarity=0.668 Sum_probs=39.7
Q ss_pred CCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccccc
Q 004082 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (775)
Q Consensus 6 d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i 65 (775)
-.-|-||.|-|.+ --+-| ||.-+|-||....+. ....||+|+.++.|...
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 3579999999876 34445 999999999988763 57899999998877644
No 166
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.18 E-value=0.74 Score=53.22 Aligned_cols=51 Identities=25% Similarity=0.655 Sum_probs=36.0
Q ss_pred CCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 6 d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
+..||+|.|+-... ... .||.-.|.-|.=+..... +-..-+.||=||.-..
T Consensus 186 ~~~CPICL~~~~~p---~~t-~CGHiFC~~CiLqy~~~s-~~~~~~~CPiC~s~I~ 236 (513)
T KOG2164|consen 186 DMQCPICLEPPSVP---VRT-NCGHIFCGPCILQYWNYS-AIKGPCSCPICRSTIT 236 (513)
T ss_pred CCcCCcccCCCCcc---ccc-ccCceeeHHHHHHHHhhh-cccCCccCCchhhhcc
Confidence 67899999998541 111 199998777777766543 4456688999998544
No 167
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=83.85 E-value=1.1 Score=50.77 Aligned_cols=75 Identities=11% Similarity=0.304 Sum_probs=53.4
Q ss_pred EEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 112 LVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
.|.|.||.+.++.+.+. .+||-.|+|..+.+.-+.... ..+-..-.+||-|.+...+.-|-+ |-++++-|+.|-
T Consensus 9 vIqvanispsat~dqm~---tlFg~lGkI~elrlyp~~~d~--~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdrali 82 (479)
T KOG4676|consen 9 VIQVANISPSATKDQMQ---TLFGNLGKIPELRLYPNVDDS--KIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALI 82 (479)
T ss_pred eeeecccCchhhHHHHH---HHHhhccccccccccCCCCCc--cCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEE
Confidence 45699999999998885 899999999999886432211 122234468999999988777755 555665555554
Q ss_pred E
Q 004082 192 A 192 (775)
Q Consensus 192 A 192 (775)
|
T Consensus 83 v 83 (479)
T KOG4676|consen 83 V 83 (479)
T ss_pred E
Confidence 3
No 168
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=83.75 E-value=0.45 Score=57.55 Aligned_cols=78 Identities=21% Similarity=0.205 Sum_probs=67.1
Q ss_pred ccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR 188 (775)
-|-.|+|.|+|+.-++|++. .+|..+|.++++.+...+.++ ++|-|||-|.++.+|.+|...+|+..+.-+
T Consensus 735 gK~~v~i~g~pf~gt~e~~k---~l~~~~gn~~~~~~vt~r~gk------pkg~a~v~y~~ea~~s~~~~s~d~~~~rE~ 805 (881)
T KOG0128|consen 735 GKISVAISGPPFQGTKEELK---SLASKTGNVTSLRLVTVRAGK------PKGKARVDYNTEADASRKVASVDVAGKREN 805 (881)
T ss_pred hhhhhheeCCCCCCchHHHH---hhccccCCccccchhhhhccc------cccceeccCCCcchhhhhcccchhhhhhhc
Confidence 37889999999999988874 899999999999877666553 678999999999999999999999888777
Q ss_pred EEEEEec
Q 004082 189 SLKACFG 195 (775)
Q Consensus 189 ~LRASfG 195 (775)
.+.+..+
T Consensus 806 ~~~v~vs 812 (881)
T KOG0128|consen 806 NGEVQVS 812 (881)
T ss_pred Ccccccc
Confidence 7776654
No 169
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.75 E-value=0.53 Score=52.23 Aligned_cols=48 Identities=33% Similarity=0.899 Sum_probs=39.7
Q ss_pred ccCCCCCCcccCCCccCCCccccC--CCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcc
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCK--CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~--CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yde 62 (775)
|.-++|=+|+.+- .|....||- | +|.-|-.-++ -...+||=||++..+
T Consensus 288 ~~gkeCVIClse~--rdt~vLPCRHLC---LCs~Ca~~Lr------~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSES--RDTVVLPCRHLC---LCSGCAKSLR------YQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCC--cceEEecchhhe---hhHhHHHHHH------HhhcCCCccccchHh
Confidence 3458999999986 889999998 8 8899999886 246899999997654
No 170
>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=83.42 E-value=1.7 Score=37.90 Aligned_cols=29 Identities=24% Similarity=0.545 Sum_probs=26.1
Q ss_pred EEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 163 VYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 163 AYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
-||.|.+.+||++|..+.||..+.+-.|.
T Consensus 36 fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~ 64 (66)
T PF11767_consen 36 FYIVFNDSKEAERCFRAEDGTLFFTYRMQ 64 (66)
T ss_pred EEEEECChHHHHHHHHhcCCCEEEEEEEE
Confidence 49999999999999999999998877664
No 171
>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=83.41 E-value=0.6 Score=33.49 Aligned_cols=20 Identities=35% Similarity=0.795 Sum_probs=18.7
Q ss_pred ccccccCCCCCCCCCCcccc
Q 004082 199 YCHAWLRNVPCTNPDCLYLH 218 (775)
Q Consensus 199 YCssFLR~~~C~NpdC~YLH 218 (775)
-|.+.|+|..|.+++|.|.|
T Consensus 2 lC~yEl~Gg~Cnd~~C~~QH 21 (23)
T PF10650_consen 2 LCPYELTGGVCNDPDCEFQH 21 (23)
T ss_pred CCccccCCCeeCCCCCCccc
Confidence 48899999999999999999
No 172
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=82.83 E-value=0.84 Score=49.15 Aligned_cols=47 Identities=30% Similarity=0.598 Sum_probs=30.3
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
+.|..|+||+|++.. +.==+||.-.|++|.--... + ..-+.||-||+
T Consensus 213 ~~d~kC~lC~e~~~~----ps~t~CgHlFC~~Cl~~~~t---~-~k~~~CplCRa 259 (271)
T COG5574 213 LADYKCFLCLEEPEV----PSCTPCGHLFCLSCLLISWT---K-KKYEFCPLCRA 259 (271)
T ss_pred ccccceeeeecccCC----cccccccchhhHHHHHHHHH---h-hccccCchhhh
Confidence 456789999999853 22234888866666544221 1 23456999998
No 173
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=81.19 E-value=0.67 Score=46.08 Aligned_cols=28 Identities=39% Similarity=1.055 Sum_probs=23.2
Q ss_pred cCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcc
Q 004082 26 CKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (775)
Q Consensus 26 C~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yde 62 (775)
|+| -++|.-|...-. ..+||+|+.||=.
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 899999988542 5899999999943
No 174
>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=81.11 E-value=1.3 Score=38.63 Aligned_cols=47 Identities=21% Similarity=0.622 Sum_probs=30.1
Q ss_pred cCCCCCCcccCCCcc---------CCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCC
Q 004082 5 GEKTCPLCAEEMDLT---------DQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACR 57 (775)
Q Consensus 5 ~d~~CPLC~EelD~t---------D~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACR 57 (775)
.++.|++|.++|+.. +..+.-=+||..+..-|..+-++ .+..||-||
T Consensus 18 ~~d~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~------~~~~CP~CR 73 (73)
T PF12678_consen 18 ADDNCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLK------QNNTCPLCR 73 (73)
T ss_dssp CCSBETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHT------TSSB-TTSS
T ss_pred cCCcccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHh------cCCcCCCCC
Confidence 455699999999322 12222225899977777777653 344899998
No 175
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=80.92 E-value=1.1 Score=50.36 Aligned_cols=50 Identities=30% Similarity=0.750 Sum_probs=36.5
Q ss_pred cCCCCCCcccCCCccC---------CCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCC
Q 004082 5 GEKTCPLCAEEMDLTD---------QQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD---------~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Y 60 (775)
+|..|.+||+||=-+| ..=|--+||.-.=+-|...-+| -+--||-||+|.
T Consensus 286 ~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLpCGHilHl~CLknW~E------RqQTCPICr~p~ 344 (491)
T COG5243 286 SDRTCTICMDEMFHPDHEPLPRGLDMTPKRLPCGHILHLHCLKNWLE------RQQTCPICRRPV 344 (491)
T ss_pred CCCeEEEecccccCCCCccCcccccCCcccccccceeeHHHHHHHHH------hccCCCcccCcc
Confidence 5789999999964444 2234568998877778777764 245699999973
No 176
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.90 E-value=0.43 Score=53.12 Aligned_cols=51 Identities=20% Similarity=0.560 Sum_probs=36.5
Q ss_pred cCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccc
Q 004082 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee 63 (775)
.+..||+|.+-|.. ..-.=.|+.+||.-|+-.-+. ..+.-||.||+-.+..
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 45789999988754 222336999999888775542 3678899999976543
No 177
>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=80.64 E-value=0.87 Score=39.32 Aligned_cols=53 Identities=21% Similarity=0.366 Sum_probs=35.6
Q ss_pred cCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccc
Q 004082 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIV 66 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~ 66 (775)
++-.||||.+.| +|-... +||+-+|+-|+.+-+. ..++.||-||++...+.+.
T Consensus 3 ~~f~CpIt~~lM--~dPVi~--~~G~tyer~~I~~~l~-----~~~~~~P~t~~~l~~~~l~ 55 (73)
T PF04564_consen 3 DEFLCPITGELM--RDPVIL--PSGHTYERSAIERWLE-----QNGGTDPFTRQPLSESDLI 55 (73)
T ss_dssp GGGB-TTTSSB---SSEEEE--TTSEEEEHHHHHHHHC-----TTSSB-TTT-SB-SGGGSE
T ss_pred cccCCcCcCcHh--hCceeC--CcCCEEcHHHHHHHHH-----cCCCCCCCCCCcCCcccce
Confidence 346899999999 455554 5679988888887753 2478999999998876553
No 178
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.22 E-value=0.93 Score=52.43 Aligned_cols=53 Identities=23% Similarity=0.568 Sum_probs=38.6
Q ss_pred ccCCCCCCcccCCCccCCCccc--cCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccc
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKP--CKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~P--C~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee 63 (775)
..+..|++|.|+|-.-+. -.| -+||+..|..|+-.-.+ ..--||-||..+...
T Consensus 289 ~~~~~C~IC~e~l~~~~~-~~~~rL~C~Hifh~~CL~~W~e------r~qtCP~CR~~~~~~ 343 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHN-ITPKRLPCGHIFHDSCLRSWFE------RQQTCPTCRTVLYDY 343 (543)
T ss_pred hcCCeeeeechhhccccc-cccceeecccchHHHHHHHHHH------HhCcCCcchhhhhcc
Confidence 347899999999954322 333 36999999999887764 256799999944433
No 179
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=78.52 E-value=8 Score=39.07 Aligned_cols=73 Identities=11% Similarity=0.239 Sum_probs=53.8
Q ss_pred ccCEEEEeCCCCCCChHHHHHH-HhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCC
Q 004082 109 QRNLVYIVGLPLNLGDEDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (775)
Q Consensus 109 QrNLVYVvGLp~~iaeEDLLr~-~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdG 187 (775)
.-.+|.|.=|..++...+-|++ -...+.||+|..|.+- .+-+|-|+|.+...|-+|+.|... ..-|
T Consensus 85 PMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c------------GrqsavVvF~d~~SAC~Av~Af~s-~~pg 151 (166)
T PF15023_consen 85 PMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC------------GRQSAVVVFKDITSACKAVSAFQS-RAPG 151 (166)
T ss_pred CceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec------------CCceEEEEehhhHHHHHHHHhhcC-CCCC
Confidence 3456777776666553333333 4678999999998753 234799999999999999999876 6678
Q ss_pred eEEEEEe
Q 004082 188 KSLKACF 194 (775)
Q Consensus 188 R~LRASf 194 (775)
..++++|
T Consensus 152 tm~qCsW 158 (166)
T PF15023_consen 152 TMFQCSW 158 (166)
T ss_pred ceEEeec
Confidence 8888877
No 180
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=75.56 E-value=2.2 Score=43.09 Aligned_cols=50 Identities=24% Similarity=0.689 Sum_probs=34.5
Q ss_pred ccCCCCCCcccCCCccCCCccccCC-C-----chhhhhhHhHhHHhhhhcccCCCCCCCCCCCccc
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKC-G-----YEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~C-G-----YQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee 63 (775)
..+..|-+|.++-+. -..||.| | .|-|+ .+=.+ ....-+||-|+.+|.=.
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 466899999999652 3479999 5 45444 33222 23567899999999643
No 181
>KOG2923 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.39 E-value=1.2 Score=39.04 Aligned_cols=33 Identities=30% Similarity=0.743 Sum_probs=19.4
Q ss_pred CCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 21 QQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 21 ~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
.-++||+||=. |.--++..+..+.-.+||.|--
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 34699999855 1111222233455678999943
No 182
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.85 E-value=2.4 Score=45.01 Aligned_cols=57 Identities=23% Similarity=0.579 Sum_probs=40.3
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccc
Q 004082 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIV 66 (775)
Q Consensus 3 de~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~ 66 (775)
|...-+|.||.+.-. | .... -||.-.|+=|+|+-+.. ......||-|+...+.++++
T Consensus 44 ~~~~FdCNICLd~ak--d-PVvT-lCGHLFCWpClyqWl~~---~~~~~~cPVCK~~Vs~~~vv 100 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAK--D-PVVT-LCGHLFCWPCLYQWLQT---RPNSKECPVCKAEVSIDTVV 100 (230)
T ss_pred CCCceeeeeeccccC--C-CEEe-ecccceehHHHHHHHhh---cCCCeeCCccccccccceEE
Confidence 445568999976542 2 2233 38999999999987753 22345589999999988875
No 183
>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=73.65 E-value=1.2 Score=33.67 Aligned_cols=26 Identities=42% Similarity=0.925 Sum_probs=15.6
Q ss_pred CCCCCcccCCCccCCCccccC-CCchh
Q 004082 7 KTCPLCAEEMDLTDQQLKPCK-CGYEI 32 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~-CGYQI 32 (775)
..||+|-.+....|...+-|+ ||+|+
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 579999999999999999999 99884
No 184
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=73.53 E-value=4.5 Score=44.67 Aligned_cols=43 Identities=33% Similarity=0.875 Sum_probs=30.6
Q ss_pred CCCCCcccCCCccCCCcc-ccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 7 KTCPLCAEEMDLTDQQLK-PCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~-PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
..||||--.|-- ..+ || ||.-+|--|...-+ -+.+..||+|.+
T Consensus 275 LkCplc~~Llrn---p~kT~c-C~~~fc~eci~~al-----~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLRN---PMKTPC-CGHTFCDECIGTAL-----LDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhhC---cccCcc-ccchHHHHHHhhhh-----hhccccCCCccc
Confidence 679999876632 111 33 89998888887543 246899999977
No 185
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=73.09 E-value=0.92 Score=55.30 Aligned_cols=79 Identities=11% Similarity=0.227 Sum_probs=65.6
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
..+||+++|...+++-+|- ..|+.||+|.+|.|.+.+.+ ....+|||.|.+-..|-.|...+-|..|.--.
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 TRTLFLGNLDSKLTESEIR---PAFDESGKVEEVDIKTPHIK------TESAYAFVSLLNTDMTPSAKFEESGPLIGNGT 442 (975)
T ss_pred hhhhhhcCcccchhhhhhh---hhhhhhccccccccccCCCC------cccchhhhhhhccccCcccchhhcCCccccCc
Confidence 3679999999999998885 79999999999999765432 12457899999999999999999998887667
Q ss_pred EEEEecCC
Q 004082 190 LKACFGTT 197 (775)
Q Consensus 190 LRASfGTT 197 (775)
+++-||..
T Consensus 443 ~r~glG~~ 450 (975)
T KOG0112|consen 443 HRIGLGQP 450 (975)
T ss_pred cccccccc
Confidence 77777743
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=72.34 E-value=0.53 Score=41.71 Aligned_cols=42 Identities=33% Similarity=0.775 Sum_probs=26.6
Q ss_pred CCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcc
Q 004082 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (775)
Q Consensus 6 d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yde 62 (775)
|..||.|-.+|+.+. |--.|..|-.++. ..++||.|..+...
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 358999999999877 5556888888874 57899999987654
No 187
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=71.40 E-value=0.58 Score=56.66 Aligned_cols=69 Identities=17% Similarity=0.235 Sum_probs=54.3
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
-..+||.+|++.+.++||- +.|+.||-|..|.|.-....+ .-+|.|||.|..+++|.+||...++..++
T Consensus 667 ~~~~fvsnl~~~~~~~dl~---~~~~~~~~~e~vqi~~h~n~~-----~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDLS---ERFSPSGTIEVVQIVIHKNEK-----RFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHHhhcchhhcCchhh---hhcCccchhhhHHHHHHhhcc-----ccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 3678999999999999995 899999999877664111111 24688999999999999999977776554
No 188
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=68.49 E-value=7.4 Score=45.96 Aligned_cols=84 Identities=19% Similarity=0.308 Sum_probs=57.5
Q ss_pred ccccccc-CEEEEeCCCCCCChHHHHHHHhhhcC--CcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHh
Q 004082 104 SVRVIQR-NLVYIVGLPLNLGDEDLLQRREYFGQ--YGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (775)
Q Consensus 104 nVRVIQr-NLVYVvGLp~~iaeEDLLr~~EyFGQ--YGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaL 180 (775)
.||-++| ..|.+.-||.....|++. -+|.- .=+++.+....+ . .-||||+..+||..|.++|
T Consensus 168 kVrp~~kRcIvilREIpettp~e~Vk---~lf~~encPk~iscefa~N----------~--nWyITfesd~DAQqAykyl 232 (684)
T KOG2591|consen 168 KVRPNHKRCIVILREIPETTPIEVVK---ALFKGENCPKVISCEFAHN----------D--NWYITFESDTDAQQAYKYL 232 (684)
T ss_pred ccccCcceeEEEEeecCCCChHHHHH---HHhccCCCCCceeeeeeec----------C--ceEEEeecchhHHHHHHHH
Confidence 3554444 556677888888777774 57753 345555544321 1 3599999999999999999
Q ss_pred cCC--ccCCeEEEEEecCCCccccccC
Q 004082 181 HGF--VLEGKSLKACFGTTKYCHAWLR 205 (775)
Q Consensus 181 DGs--~LdGR~LRASfGTTKYCssFLR 205 (775)
-.. .|-|+.|.|.+ |-|..|+-
T Consensus 233 reevk~fqgKpImARI---Kaintf~p 256 (684)
T KOG2591|consen 233 REEVKTFQGKPIMARI---KAINTFFP 256 (684)
T ss_pred HHHHHhhcCcchhhhh---hhhhcccC
Confidence 774 58899998655 44776653
No 189
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=67.31 E-value=3.9 Score=45.92 Aligned_cols=52 Identities=21% Similarity=0.691 Sum_probs=40.5
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccc
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEK 64 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~ 64 (775)
+++..||+|+-.+-. .+.+=.||...|.+|...... ....||+||++-.-+.
T Consensus 19 ~~~l~C~~C~~vl~~---p~~~~~cgh~fC~~C~~~~~~------~~~~cp~~~~~~~~~~ 70 (391)
T KOG0297|consen 19 DENLLCPICMSVLRD---PVQTTTCGHRFCAGCLLESLS------NHQKCPVCRQELTQAE 70 (391)
T ss_pred cccccCccccccccC---CCCCCCCCCcccccccchhhc------cCcCCcccccccchhh
Confidence 456899999999853 444468999999999998852 2789999999765443
No 190
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=63.91 E-value=4.1 Score=49.84 Aligned_cols=83 Identities=20% Similarity=0.304 Sum_probs=63.6
Q ss_pred cCccccccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHh
Q 004082 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (775)
Q Consensus 101 ~LanVRVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaL 180 (775)
.+.+|.-.|-. .|+-+.+-..+.--| .-+|.+||+|..++..|+-. -|-|.|...|.|..|..++
T Consensus 290 sisnv~plqp~-~~~~nn~v~~tSssL---~~l~s~yg~v~s~wtlr~~N-----------~alvs~~s~~sai~a~dAl 354 (1007)
T KOG4574|consen 290 SISNVFPLQPK-QSLENNAVNLTSSSL---ATLCSDYGSVASAWTLRDLN-----------MALVSFSSVESAILALDAL 354 (1007)
T ss_pred eecccccCcch-hhhhcccccchHHHH---HHHHHhhcchhhheeccccc-----------chhhhhHHHHHHHHhhhhh
Confidence 34444444432 356666666655444 48999999999999987642 4789999999999999999
Q ss_pred cCCcc--CCeEEEEEecCCC
Q 004082 181 HGFVL--EGKSLKACFGTTK 198 (775)
Q Consensus 181 DGs~L--dGR~LRASfGTTK 198 (775)
.|..+ -|-+.||.|+.+-
T Consensus 355 ~gkevs~~g~Ps~V~~ak~~ 374 (1007)
T KOG4574|consen 355 QGKEVSVTGAPSRVSFAKTL 374 (1007)
T ss_pred cCCcccccCCceeEEecccc
Confidence 99985 6889999999885
No 191
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=63.62 E-value=4.2 Score=27.54 Aligned_cols=11 Identities=45% Similarity=1.081 Sum_probs=10.0
Q ss_pred CCCCC-CCcccc
Q 004082 208 PCTNP-DCLYLH 218 (775)
Q Consensus 208 ~C~Np-dC~YLH 218 (775)
.|.|. +|.|.|
T Consensus 7 ~C~~~~~C~f~H 18 (19)
T PF14608_consen 7 NCTNGDNCPFSH 18 (19)
T ss_pred CCCCCCcCccCC
Confidence 39998 999999
No 192
>smart00356 ZnF_C3H1 zinc finger.
Probab=62.19 E-value=6.5 Score=27.15 Aligned_cols=23 Identities=26% Similarity=0.704 Sum_probs=17.4
Q ss_pred CCccccccCCCCCC-CCCCcccccC
Q 004082 197 TKYCHAWLRNVPCT-NPDCLYLHEV 220 (775)
Q Consensus 197 TKYCssFLR~~~C~-NpdC~YLHE~ 220 (775)
+..|..|+.| .|. .+.|.|+|+.
T Consensus 4 ~~~C~~~~~g-~C~~g~~C~~~H~~ 27 (27)
T smart00356 4 TELCKFFKRG-YCPYGDRCKFAHPL 27 (27)
T ss_pred CCcCcCccCC-CCCCCCCcCCCCcC
Confidence 4579999555 566 5789999974
No 193
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=61.50 E-value=3.3 Score=47.01 Aligned_cols=50 Identities=28% Similarity=0.715 Sum_probs=43.5
Q ss_pred cCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
-+..|-+|-|-+-+.|-++.--+|...+=.-|.+-|++ .+..--||+||+
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 34689999999999999999999999988999999985 356677999994
No 194
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=61.19 E-value=2.6 Score=36.71 Aligned_cols=34 Identities=26% Similarity=0.718 Sum_probs=19.2
Q ss_pred CCCc-cccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 20 DQQL-KPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 20 D~~F-~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
.+.| +|||||-+. .--+..++ .-+.-+|||.|--
T Consensus 18 ~~~ftyPCPCGDRF-eIsLeDl~----~GE~VArCPSCSL 52 (67)
T COG5216 18 EKTFTYPCPCGDRF-EISLEDLR----NGEVVARCPSCSL 52 (67)
T ss_pred CceEEecCCCCCEe-EEEHHHhh----CCceEEEcCCceE
Confidence 3444 899998541 01223332 2345689999954
No 195
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=60.32 E-value=7.7 Score=43.74 Aligned_cols=75 Identities=12% Similarity=0.156 Sum_probs=52.2
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeE
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~ 189 (775)
|-.+||+||-|..+++|||+--.-.|-- .|.+|..-.++..+ .++|+|.|........++-++.|--..|+|+.
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 4678999999999999999532222211 33444443333222 35789999999988888888888888999874
Q ss_pred E
Q 004082 190 L 190 (775)
Q Consensus 190 L 190 (775)
-
T Consensus 154 P 154 (498)
T KOG4849|consen 154 P 154 (498)
T ss_pred C
Confidence 3
No 196
>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=60.13 E-value=3.9 Score=43.96 Aligned_cols=49 Identities=24% Similarity=0.683 Sum_probs=37.0
Q ss_pred cCCCCCCcccCCCc-cCCCccccC-CCchhhhhhHhHhHHhhhhcccCCCCC--CCCC
Q 004082 5 GEKTCPLCAEEMDL-TDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCP--ACRS 58 (775)
Q Consensus 5 ~d~~CPLC~EelD~-tD~~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCP--ACRr 58 (775)
.|..||+|.-.-=+ -|..|+-=| |=..||--|.+||.. -..+.|| +|-+
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs-----~GpAqCP~~gC~k 61 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFS-----RGPAQCPYKGCGK 61 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhc-----CCCCCCCCccHHH
Confidence 34689999865422 355666666 999999999999974 4678999 9965
No 197
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=58.89 E-value=6.3 Score=44.30 Aligned_cols=49 Identities=24% Similarity=0.588 Sum_probs=35.3
Q ss_pred CCCCCCcc-cCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCC
Q 004082 6 EKTCPLCA-EEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPA 55 (775)
Q Consensus 6 d~~CPLC~-EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPA 55 (775)
..+|.+|+ |.++ .|..|..+.|+.++|..||.+-.+.........+||.
T Consensus 146 ~~~C~iC~~e~~~-~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~ 195 (384)
T KOG1812|consen 146 KEECGICFVEDPE-AEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPH 195 (384)
T ss_pred cccCccCcccccc-HhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCC
Confidence 46899999 5554 5566669999999999999976654333444555653
No 198
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=55.45 E-value=24 Score=40.94 Aligned_cols=67 Identities=16% Similarity=0.368 Sum_probs=56.5
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCc-ceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYG-KVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYG-KI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
.++|.|.++|.-++--|+| .|.+.+= .|.+|.|.||... .++.+-|+|.+.+||..=-+..||..+.
T Consensus 74 ~~mLcilaVP~~mt~~Dll---~F~~~~~~~I~~irivRd~~p-------nrymvLIkFr~q~da~~Fy~efNGk~Fn 141 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLL---RFCASFIKQISDIRIVRDGMP-------NRYMVLIKFRDQADADTFYEEFNGKQFN 141 (493)
T ss_pred CcEEEEEeccccccHHHHH---HHHHHHhhhhheeEEeecCCC-------ceEEEEEEeccchhHHHHHHHcCCCcCC
Confidence 7899999999999999999 4666554 4678999996542 4789999999999999999999998863
No 199
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=54.99 E-value=0.68 Score=52.69 Aligned_cols=70 Identities=29% Similarity=0.452 Sum_probs=56.5
Q ss_pred EEEeCCCCCCChHHHHHHHhhhcCCcceeEEEE-eecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEE
Q 004082 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSM-SRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (775)
Q Consensus 113 VYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI-~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LR 191 (775)
+-+.++|+.+.-| +| ..+.++||.+..+.. +.+.. ...+-|||...+.|..||..++|.++....++
T Consensus 83 ~Qirnippql~we-vl--d~Ll~qyg~ve~~eqvnt~~e---------tavvnvty~~~~~~~~ai~kl~g~Q~en~~~k 150 (584)
T KOG2193|consen 83 IQIRNIPPQLQWE-VL--DSLLAQYGTVENCEQVNTDSE---------TAVVNVTYSAQQQHRQAIHKLNGPQLENQHLK 150 (584)
T ss_pred hhHhcCCHHHHHH-HH--HHHHhccCCHhHhhhhccchH---------HHHHHHHHHHHHHHHHHHHhhcchHhhhhhhh
Confidence 5677888888665 55 579999999998765 33332 23457899999999999999999999999999
Q ss_pred EEe
Q 004082 192 ACF 194 (775)
Q Consensus 192 ASf 194 (775)
+.|
T Consensus 151 ~~Y 153 (584)
T KOG2193|consen 151 VGY 153 (584)
T ss_pred ccc
Confidence 887
No 200
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=54.25 E-value=7.3 Score=42.20 Aligned_cols=109 Identities=13% Similarity=0.160 Sum_probs=77.0
Q ss_pred CEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 111 NLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
...||+.+.+.+.+.+. ..+|..+|.+....+....... ..+++.||-|..++.+..|++..-...++++.+
T Consensus 89 ~~~f~g~~s~~~e~~~~---~~~~~~~g~~~~~~~S~~~~~~-----~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~ 160 (285)
T KOG4210|consen 89 STFFVGELSENIEESED---DNFSSEAGLRVDARSSSLEDSL-----SSKGGLSVHFAGKSQFFAALEESGSKVLDGNKG 160 (285)
T ss_pred ccccccccccchhhccc---cccchhhcCcccchhhhhcccc-----ccccceeeccccHHHHHHHHHhhhccccccccc
Confidence 45799999999876644 3789999988888876543322 245678999999999999999777789999999
Q ss_pred EEEecCCCccccccCCCCCCCC-----CCccccc-CCCCCCCccHHHHH
Q 004082 191 KACFGTTKYCHAWLRNVPCTNP-----DCLYLHE-VGSQEDSFTKDEII 233 (775)
Q Consensus 191 RASfGTTKYCssFLR~~~C~Np-----dC~YLHE-~g~~~DsfTKeem~ 233 (775)
...+.+.+- -+.|... .+.+.=. .+.-..+.|++|+.
T Consensus 161 ~~dl~~~~~------~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~ 203 (285)
T KOG4210|consen 161 EKDLNTRRG------LRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLK 203 (285)
T ss_pred cCccccccc------ccccchhcccccCccccceeecccccccchHHHh
Confidence 999877763 2233322 3333333 34445567888876
No 201
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=53.86 E-value=6.5 Score=34.18 Aligned_cols=52 Identities=31% Similarity=0.599 Sum_probs=18.2
Q ss_pred CCCCCCcccCCC-ccCCCcccc---CCCc---hhhhhhHhHhHHhhhhc-----ccCCCCCCCCCCC
Q 004082 6 EKTCPLCAEEMD-LTDQQLKPC---KCGY---EICVWCWHHIMDMAEKE-----ETEGRCPACRSPY 60 (775)
Q Consensus 6 d~~CPLC~EelD-~tD~~F~PC---~CGY---QIC~fC~hrI~~~~~k~-----~~~grCPACRr~Y 60 (775)
+..|+||++.+. .....-.-| .|+. ..|+.=|=+= .++. -..|.||.|+.++
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~---~~~~~~~~~~~~G~CP~C~~~i 65 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLS---LEKSRQSFIPIFGECPYCSSPI 65 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHH---HHSSS-TTT--EEE-TTT-SEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHH---cccCCeeecccccCCcCCCCee
Confidence 468999999865 322323444 5753 4455544321 1111 2346799999864
No 202
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.68 E-value=11 Score=41.36 Aligned_cols=50 Identities=24% Similarity=0.552 Sum_probs=36.9
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCC
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Y 60 (775)
..+.+||+|-|.-.+ .+.-=+||...|-+|...-+. .+.-..||+|-.+-
T Consensus 237 t~~~~C~~Cg~~Pti---P~~~~~C~HiyCY~Ci~ts~~----~~asf~Cp~Cg~~~ 286 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTI---PHVIGKCGHIYCYYCIATSRL----WDASFTCPLCGENV 286 (298)
T ss_pred cCCceeeccCCCCCC---Ceeeccccceeehhhhhhhhc----chhhcccCccCCCC
Confidence 346899999998765 666677999988888876553 22346899996643
No 203
>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=53.48 E-value=77 Score=30.22 Aligned_cols=67 Identities=19% Similarity=0.397 Sum_probs=47.5
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhc-CCc-ceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccC
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFG-QYG-KVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFG-QYG-KI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~Ld 186 (775)
+.+|-|...|+.+..-+.| -+|| .+- .|..++|.|+... .++-|=|.|.+.++|.+=.+..||..+.
T Consensus 12 ~~~~~~l~vp~~~~~~d~l---~~f~~~~~~~i~~~riird~~p-------nrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 12 RSTLCCLAVPPYMTPSDFL---LFFGAPFREDIEHIRIIRDGTP-------NRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred CceEEEEEeCcccccHHHH---HHhhhcccccEEEEEEeeCCCC-------ceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 3556666666665554444 2555 343 4557788876432 4789999999999999999999999874
No 204
>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=48.71 E-value=7.1 Score=28.18 Aligned_cols=24 Identities=29% Similarity=0.704 Sum_probs=18.5
Q ss_pred CCCccccccCCCCCCC-CCCccccc
Q 004082 196 TTKYCHAWLRNVPCTN-PDCLYLHE 219 (775)
Q Consensus 196 TTKYCssFLR~~~C~N-pdC~YLHE 219 (775)
.++-|..|++.-.|.. +.|.|+|.
T Consensus 2 k~~~C~~f~~~g~C~~G~~C~f~H~ 26 (27)
T PF00642_consen 2 KTKLCRFFMRTGTCPFGDKCRFAHG 26 (27)
T ss_dssp TSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred ccccChhhccCCccCCCCCcCccCC
Confidence 3678999999889999 89999996
No 205
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=48.62 E-value=12 Score=45.89 Aligned_cols=55 Identities=27% Similarity=0.678 Sum_probs=41.2
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCc------hhhhhhHhHhHHhhhhcccCCCCCCCCCCCccccc
Q 004082 4 EGEKTCPLCAEEMDLTDQQLKPCKCGY------EICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F~PC~CGY------QIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i 65 (775)
||+..|.+|--|=-..|..|-||+|.= |-|+-=|-- ...+..|--|.-+|.=.+|
T Consensus 10 ~d~~~CRICr~e~~~d~pLfhPCKC~GSIkYiH~eCL~eW~~-------~s~~~kCdiChy~~~Fk~I 70 (1175)
T COG5183 10 EDKRSCRICRTEDIRDDPLFHPCKCSGSIKYIHRECLMEWME-------CSGTKKCDICHYEYKFKDI 70 (1175)
T ss_pred ccchhceeecCCCCCCCcCcccccccchhHHHHHHHHHHHHh-------cCCCcceeeecceeeeeee
Confidence 345999999988888999999999942 445555543 2457789999998865554
No 206
>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=48.02 E-value=41 Score=29.12 Aligned_cols=59 Identities=12% Similarity=0.223 Sum_probs=33.4
Q ss_pred CCCChHHHHHHHhhhcCCccee-----EEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCeEEEEEe
Q 004082 120 LNLGDEDLLQRREYFGQYGKVL-----KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF 194 (775)
Q Consensus 120 ~~iaeEDLLr~~EyFGQYGKI~-----KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~LRASf 194 (775)
..+...+|+ .++..-+.|. +|.|.. .+.||+-.. +.|.+++..|+|..+.||.|+|..
T Consensus 11 dg~~~~~iv---~~i~~~~gi~~~~IG~I~I~~-------------~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~ 73 (74)
T PF03880_consen 11 DGLTPRDIV---GAICNEAGIPGRDIGRIDIFD-------------NFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVER 73 (74)
T ss_dssp GT--HHHHH---HHHHTCTTB-GGGEEEEEE-S-------------S-EEEEE-T-T-HHHHHHHHTT--SSS----EEE
T ss_pred cCCCHHHHH---HHHHhccCCCHHhEEEEEEee-------------eEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEE
Confidence 456677787 6777776655 444432 246888776 479999999999999999999875
Q ss_pred c
Q 004082 195 G 195 (775)
Q Consensus 195 G 195 (775)
|
T Consensus 74 A 74 (74)
T PF03880_consen 74 A 74 (74)
T ss_dssp -
T ss_pred C
Confidence 4
No 207
>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=46.23 E-value=8.2 Score=46.68 Aligned_cols=52 Identities=29% Similarity=0.632 Sum_probs=33.1
Q ss_pred CCCCCCcccCC-CccCCCc----cccC-CCchhhhhh---HhHhHHhhhhcc--cCCCCCCCCCCCcc
Q 004082 6 EKTCPLCAEEM-DLTDQQL----KPCK-CGYEICVWC---WHHIMDMAEKEE--TEGRCPACRSPYDK 62 (775)
Q Consensus 6 d~~CPLC~Eel-D~tD~~F----~PC~-CGYQIC~fC---~hrI~~~~~k~~--~~grCPACRr~Yde 62 (775)
-.+|+-|..|| |+.|+.| -.|+ ||-+..-.= |+|- ++. .-..||.|.++|.+
T Consensus 68 ~a~C~~Cl~E~~dp~~Rry~YpF~nCt~CGPr~~i~~~lpydr~-----~t~m~~f~~C~~C~~ey~~ 130 (711)
T TIGR00143 68 VATCSDCLEEMLDKNDRRYLYPFISCTHCGPRFTIIEALPYDRE-----NTSMADFPLCPDCAKEYKD 130 (711)
T ss_pred hhhHHHHHHHhcCCCcccccCCcccccCCCCCeEEeecCCCCCC-----CcCCCCCcCCHHHHHHhcC
Confidence 36899999998 8999886 3577 877621100 1111 111 23459999999954
No 208
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=45.88 E-value=10 Score=42.31 Aligned_cols=40 Identities=28% Similarity=0.723 Sum_probs=28.6
Q ss_pred cCCCCCCcccCCCccCCCccccCC---CchhhhhhHhHhHHhhhhcccCCCCCCC
Q 004082 5 GEKTCPLCAEEMDLTDQQLKPCKC---GYEICVWCWHHIMDMAEKEETEGRCPAC 56 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD~~F~PC~C---GYQIC~fC~hrI~~~~~k~~~~grCPAC 56 (775)
+...||+|.-.- --||.| ||-.|--|..+-+. ..|+||--
T Consensus 299 ~~~~CpvClk~r------~Nptvl~vSGyVfCY~Ci~~Yv~------~~~~CPVT 341 (357)
T KOG0826|consen 299 DREVCPVCLKKR------QNPTVLEVSGYVFCYPCIFSYVV------NYGHCPVT 341 (357)
T ss_pred ccccChhHHhcc------CCCceEEecceEEeHHHHHHHHH------hcCCCCcc
Confidence 347899997654 457887 99977777666552 47899844
No 209
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=44.80 E-value=16 Score=38.63 Aligned_cols=49 Identities=29% Similarity=0.686 Sum_probs=39.1
Q ss_pred CCCCCcccCCCccCCCc--cccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCC
Q 004082 7 KTCPLCAEEMDLTDQQL--KPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F--~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Y 60 (775)
..|-+|-++++..|..- +--+||.-||..|..++. .+....||-||.+-
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 47999999997664333 446699999999999996 35677899999974
No 210
>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=44.71 E-value=11 Score=35.47 Aligned_cols=49 Identities=24% Similarity=0.573 Sum_probs=33.6
Q ss_pred cCCCCCCcccCCCccCCCccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 5 GEKTCPLCAEEMDLTDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD~~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
++..|.+|-.+|.+-+..-..|. |++.||.-|-... +....-+|-.|++
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 56899999999987776668887 8888888887653 1223445776743
No 211
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=44.12 E-value=13 Score=43.10 Aligned_cols=22 Identities=32% Similarity=0.616 Sum_probs=15.9
Q ss_pred cCCCCCCcccCCCccCCCcccc
Q 004082 5 GEKTCPLCAEEMDLTDQQLKPC 26 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD~~F~PC 26 (775)
+-.+||.|.|.||..=.-+.|=
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~ 195 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTI 195 (493)
T ss_pred cCCCcchhHhhcCccccceeee
Confidence 4579999999999655444443
No 212
>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=44.08 E-value=27 Score=28.61 Aligned_cols=46 Identities=26% Similarity=0.715 Sum_probs=28.7
Q ss_pred CCCCcccCCCccCCCccccCCCc--h-hhhhhHhHhHHhhhhcccCCCCCCCC
Q 004082 8 TCPLCAEEMDLTDQQLKPCKCGY--E-ICVWCWHHIMDMAEKEETEGRCPACR 57 (775)
Q Consensus 8 ~CPLC~EelD~tD~~F~PC~CGY--Q-IC~fC~hrI~~~~~k~~~~grCPACR 57 (775)
.|.+|.+..+..+..+.||.|.- + +=.-|..+=+. ......||-|+
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~----~~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWIN----ESGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHH----HcCCCcCCCCC
Confidence 58999997777788889999941 1 11234444332 12234899884
No 213
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=43.70 E-value=18 Score=44.52 Aligned_cols=58 Identities=24% Similarity=0.436 Sum_probs=37.5
Q ss_pred CCCCCcccCCCccCCCccccC---CCchhhhhhHhHhHHh---hhhc--------------ccCCCCCCCCCCCcccc
Q 004082 7 KTCPLCAEEMDLTDQQLKPCK---CGYEICVWCWHHIMDM---AEKE--------------ETEGRCPACRSPYDKEK 64 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~---CGYQIC~fC~hrI~~~---~~k~--------------~~~grCPACRr~Ydee~ 64 (775)
.+|+.|.-++...|..|--|+ |+...|--|+-...+. +.|. ....-||-||..|++-.
T Consensus 97 ~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v~ 174 (1134)
T KOG0825|consen 97 DTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEVK 174 (1134)
T ss_pred cccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhheee
Confidence 678999988887777888888 7776665555433321 1111 11223999999998643
No 214
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=43.54 E-value=22 Score=32.68 Aligned_cols=54 Identities=26% Similarity=0.741 Sum_probs=28.6
Q ss_pred CCCCCCcccCCCccCCC--c--cccCCCchhhhhhHhH--hHH-hhhhcccCCCCCCCCCCC
Q 004082 6 EKTCPLCAEEMDLTDQQ--L--KPCKCGYEICVWCWHH--IMD-MAEKEETEGRCPACRSPY 60 (775)
Q Consensus 6 d~~CPLC~EelD~tD~~--F--~PC~CGYQIC~fC~hr--I~~-~~~k~~~~grCPACRr~Y 60 (775)
+++|-||--+||-+=.. | --||==.-+|.-++|. |.+ .+.+ ..+|.||-||+.+
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 34566665555532100 0 0133323477777763 443 3323 3569999999965
No 215
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=40.53 E-value=12 Score=45.51 Aligned_cols=26 Identities=35% Similarity=0.763 Sum_probs=19.2
Q ss_pred CCCCCCcccCC-CccCCCc----cccC-CCch
Q 004082 6 EKTCPLCAEEM-DLTDQQL----KPCK-CGYE 31 (775)
Q Consensus 6 d~~CPLC~Eel-D~tD~~F----~PC~-CGYQ 31 (775)
-.+|+-|.+|| |..++.| --|+ ||=+
T Consensus 101 ~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPR 132 (750)
T COG0068 101 AATCEDCLEEIFDPNSRRYLYPFINCTNCGPR 132 (750)
T ss_pred hhhhHHHHHHhcCCCCcceeccccccCCCCcc
Confidence 36899999887 8888775 3476 7754
No 216
>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=39.80 E-value=3.6 Score=30.06 Aligned_cols=28 Identities=32% Similarity=0.815 Sum_probs=14.3
Q ss_pred hhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 31 EICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 31 QIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
+-|.-||+.|.++.........||.|-.
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 4688899998653222233456999953
No 217
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=39.73 E-value=70 Score=33.86 Aligned_cols=61 Identities=18% Similarity=0.237 Sum_probs=50.6
Q ss_pred cCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCcc
Q 004082 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (775)
Q Consensus 110 rNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~L 185 (775)
...|.|.|||+.-.=.||. ++.-+-|.|--..|-+| +.+-|.|.+.||-+-||..|+...+
T Consensus 115 e~RVvVsGLp~SgSWQDLK---DHmReaGdvCfadv~rD------------g~GvV~~~r~eDMkYAvr~ld~~~~ 175 (241)
T KOG0105|consen 115 EYRVVVSGLPPSGSWQDLK---DHMREAGDVCFADVQRD------------GVGVVEYLRKEDMKYAVRKLDDQKF 175 (241)
T ss_pred ceeEEEecCCCCCchHHHH---HHHHhhCCeeeeeeecc------------cceeeeeeehhhHHHHHHhhccccc
Confidence 4678999999998888885 88888999877777654 2458999999999999999988765
No 218
>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=38.59 E-value=16 Score=29.52 Aligned_cols=34 Identities=29% Similarity=0.653 Sum_probs=19.0
Q ss_pred cCCCCCC--cccCCCccCCCc---cccC-CCchhhhhhHh
Q 004082 5 GEKTCPL--CAEEMDLTDQQL---KPCK-CGYEICVWCWH 38 (775)
Q Consensus 5 ~d~~CPL--C~EelD~tD~~F---~PC~-CGYQIC~fC~h 38 (775)
+-..||- |-..+-..+..- .-|+ |++++|.-|-.
T Consensus 17 ~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~ 56 (64)
T PF01485_consen 17 NIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGE 56 (64)
T ss_dssp -CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTS
T ss_pred CccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCc
Confidence 3467877 888876655554 4699 99998877743
No 219
>PHA02862 5L protein; Provisional
Probab=38.18 E-value=25 Score=35.53 Aligned_cols=45 Identities=20% Similarity=0.570 Sum_probs=31.0
Q ss_pred CCCCCcccCCCccCCCccccCCC------chhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCG------YEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CG------YQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
..|-+|-++=+. ...||.|. .|-| ..+=. +....-.||-|+.+|.
T Consensus 3 diCWIC~~~~~e---~~~PC~C~GS~K~VHq~C---L~~WI----n~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCDE---RNNFCGCNEEYKVVHIKC---MQLWI----NYSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCCC---CcccccccCcchhHHHHH---HHHHH----hcCCCcCccCCCCeEE
Confidence 579999998543 36999992 2444 33322 2346778999999996
No 220
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.78 E-value=24 Score=39.20 Aligned_cols=50 Identities=24% Similarity=0.494 Sum_probs=32.5
Q ss_pred cCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccc
Q 004082 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee 63 (775)
-+.+|++|...+-- . .--.|+... ||-.|+-.+ + +..+-|+-||.|.|+.
T Consensus 6 ~~~eC~IC~nt~n~-P---v~l~C~HkF---CyiCiKGsy-~-ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 6 KKKECLICYNTGNC-P---VNLYCFHKF---CYICIKGSY-K-NDKKTCAVCRFPIDST 55 (324)
T ss_pred cCCcceeeeccCCc-C---ccccccchh---hhhhhcchh-h-cCCCCCceecCCCCcc
Confidence 35789999988842 2 344688874 555454321 2 2334499999999986
No 221
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=37.31 E-value=15 Score=45.99 Aligned_cols=49 Identities=29% Similarity=0.701 Sum_probs=32.2
Q ss_pred ccCCCCCCcccCCCccCCCc--cccCCCchhhhhhHhHhH-----HhhhhcccCCCCCCCCCCC
Q 004082 4 EGEKTCPLCAEEMDLTDQQL--KPCKCGYEICVWCWHHIM-----DMAEKEETEGRCPACRSPY 60 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~F--~PC~CGYQIC~fC~hrI~-----~~~~k~~~~grCPACRr~Y 60 (775)
++-++|++|..-++..|+.| +-|+ .|-|++- .- .+.....+||-||..+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~-------TCknKFH~~CLyKW-f~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCA-------TCKNKFHTRCLYKW-FASSARSNCPLCRSEI 1522 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccc-------hhhhhhhHHHHHHH-HHhcCCCCCCcccccc
Confidence 46689999999999999988 5565 1111100 00 0345688999999643
No 222
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.27 E-value=25 Score=39.61 Aligned_cols=46 Identities=26% Similarity=0.729 Sum_probs=30.9
Q ss_pred CCCCcccCCCccCCC-ccccCCCchhhhhhHhHhHHhhhhcccCCC-CCCCCCCCc
Q 004082 8 TCPLCAEEMDLTDQQ-LKPCKCGYEICVWCWHHIMDMAEKEETEGR-CPACRSPYD 61 (775)
Q Consensus 8 ~CPLC~EelD~tD~~-F~PC~CGYQIC~fC~hrI~~~~~k~~~~gr-CPACRr~Yd 61 (775)
+|.||+|++..-|+. ..||.=-|. .-|.+.=+- .... ||-|++...
T Consensus 231 ~CaIClEdY~~GdklRiLPC~H~FH--~~CIDpWL~------~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLRILPCSHKFH--VNCIDPWLT------QTRTFCPVCKRDIR 278 (348)
T ss_pred eEEEeecccccCCeeeEecCCCchh--hccchhhHh------hcCccCCCCCCcCC
Confidence 999999999776653 345544444 667776542 2334 999999553
No 223
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=34.41 E-value=16 Score=43.97 Aligned_cols=48 Identities=21% Similarity=0.562 Sum_probs=33.9
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccccc
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i 65 (775)
..|++|+.++-..-.-=+--.||.-||.-|...+ .+..|| |.+ |+..+
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 5799998888553222233569999999999988 467899 644 55443
No 224
>PF12773 DZR: Double zinc ribbon
Probab=34.28 E-value=34 Score=27.19 Aligned_cols=42 Identities=19% Similarity=0.536 Sum_probs=23.8
Q ss_pred CCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccc
Q 004082 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (775)
Q Consensus 9 CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee 63 (775)
||-|-++++.. ..+|.+|=..+.. .......||+|.++++..
T Consensus 1 Cp~Cg~~~~~~----------~~fC~~CG~~l~~---~~~~~~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 1 CPHCGTPNPDD----------AKFCPHCGTPLPP---PDQSKKICPNCGAENPPN 42 (50)
T ss_pred CCCcCCcCCcc----------ccCChhhcCChhh---ccCCCCCCcCCcCCCcCC
Confidence 66666666541 3455566665531 123456788888866543
No 225
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=33.14 E-value=34 Score=35.77 Aligned_cols=64 Identities=23% Similarity=0.201 Sum_probs=41.4
Q ss_pred ccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhc
Q 004082 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH 181 (775)
Q Consensus 107 VIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLD 181 (775)
-+++..||.. +..-.-++|+ ++-+ |++..|.+-+..... +.-+|.+||||.+.+.|..+++.-+
T Consensus 108 ~~~~r~v~~K--~td~ql~~l~---qw~~--~k~~nv~mr~~~~k~----~~fkGsvkv~f~tk~qa~a~~~~~e 171 (205)
T KOG4213|consen 108 GIKERTVYKK--ITDDQLDDLN---QWAS--GKGHNVKMRRHGNKA----HPFKGSVKVTFQTKEQAFANDDTHE 171 (205)
T ss_pred HHHHhhhhcc--CCHHHHHHHH---HHhc--ccceEeeccccCCCC----CCCCCceEEEeecHHHHHhhhhhhh
Confidence 3555667776 2111223444 4444 999999886543321 1246889999999999999987654
No 226
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=32.19 E-value=10 Score=41.56 Aligned_cols=59 Identities=20% Similarity=0.574 Sum_probs=42.8
Q ss_pred CcccCCCCCCccc-CCCccCCCccccC-CCchhhhhhHhHhHHhhh-hcccCCCCCCCCCCCc
Q 004082 2 SDEGEKTCPLCAE-EMDLTDQQLKPCK-CGYEICVWCWHHIMDMAE-KEETEGRCPACRSPYD 61 (775)
Q Consensus 2 sde~d~~CPLC~E-elD~tD~~F~PC~-CGYQIC~fC~hrI~~~~~-k~~~~grCPACRr~Yd 61 (775)
-|.+...|+.|.- +|.+.++..- |. ||..+|..|-+++..+.. .+....-|+.|-..|.
T Consensus 164 PD~ea~~C~~C~~~~Ftl~~RRHH-CR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~ 225 (288)
T KOG1729|consen 164 PDSEATECMVCGCTEFTLSERRHH-CRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELE 225 (288)
T ss_pred CcccceecccCCCccccHHHHHHH-HHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHh
Confidence 4677889999999 9999998887 76 999999999998543211 1111224899955554
No 227
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.07 E-value=28 Score=39.76 Aligned_cols=47 Identities=28% Similarity=0.705 Sum_probs=35.0
Q ss_pred CCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcc
Q 004082 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (775)
Q Consensus 6 d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yde 62 (775)
+-.|-+|+.-|=. --.. +||.-.|.+|.++-++ ...-||-||-+|-+
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 2222 8999999999998653 56789999999976
No 228
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=30.43 E-value=32 Score=41.90 Aligned_cols=50 Identities=20% Similarity=0.630 Sum_probs=32.9
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccccc
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i 65 (775)
..||.|-... - .-.-=+||.-+|--|.....++ -+-+||.|-++++...|
T Consensus 644 LkCs~Cn~R~--K--d~vI~kC~H~FC~~Cvq~r~et-----RqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 644 LKCSVCNTRW--K--DAVITKCGHVFCEECVQTRYET-----RQRKCPKCNAAFGANDV 693 (698)
T ss_pred eeCCCccCch--h--hHHHHhcchHHHHHHHHHHHHH-----hcCCCCCCCCCCCcccc
Confidence 5799997332 1 2223368888666666654432 36789999999976654
No 229
>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=30.35 E-value=23 Score=40.58 Aligned_cols=24 Identities=33% Similarity=0.924 Sum_probs=16.3
Q ss_pred CCccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 21 QQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 21 ~~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
+..|-|. |||+- . .-.|+||+|+.
T Consensus 5 ~~~y~C~~Cg~~~-----~---------~~~g~Cp~C~~ 29 (454)
T TIGR00416 5 KSKFVCQHCGADS-----P---------KWQGKCPACHA 29 (454)
T ss_pred CCeEECCcCCCCC-----c---------cccEECcCCCC
Confidence 3456687 88871 1 24699999965
No 230
>PRK11595 DNA utilization protein GntX; Provisional
Probab=30.35 E-value=40 Score=34.88 Aligned_cols=40 Identities=28% Similarity=0.639 Sum_probs=26.7
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCc
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Yd 61 (775)
..|.+|-+.+... ...||..|+..|.- ...+||.|-++..
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 12488999988741 2357888887654
No 231
>PF12773 DZR: Double zinc ribbon
Probab=30.28 E-value=42 Score=26.66 Aligned_cols=29 Identities=38% Similarity=0.783 Sum_probs=22.9
Q ss_pred cccCCCCCCcccCCCccCCCccccC-CCch
Q 004082 3 DEGEKTCPLCAEEMDLTDQQLKPCK-CGYE 31 (775)
Q Consensus 3 de~d~~CPLC~EelD~tD~~F~PC~-CGYQ 31 (775)
+++...||.|-..|...+...+.|+ ||+.
T Consensus 9 ~~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 9 PDDAKFCPHCGTPLPPPDQSKKICPNCGAE 38 (50)
T ss_pred CccccCChhhcCChhhccCCCCCCcCCcCC
Confidence 4567899999999986777888886 7775
No 232
>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=29.35 E-value=28 Score=28.53 Aligned_cols=17 Identities=41% Similarity=0.974 Sum_probs=9.4
Q ss_pred cCCCCCCCCCCCccccc
Q 004082 49 TEGRCPACRSPYDKEKI 65 (775)
Q Consensus 49 ~~grCPACRr~Ydee~i 65 (775)
.++.||-|.|+++++.-
T Consensus 19 ~~~~CPlC~r~l~~e~~ 35 (54)
T PF04423_consen 19 AKGCCPLCGRPLDEEHR 35 (54)
T ss_dssp -SEE-TTT--EE-HHHH
T ss_pred CCCcCCCCCCCCCHHHH
Confidence 45599999999988753
No 233
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.12 E-value=42 Score=37.73 Aligned_cols=55 Identities=25% Similarity=0.631 Sum_probs=36.8
Q ss_pred ccCCCCCCcccCCCccCCC-----ccccC-CCchhhhhhHhHhHHhh-hhcccCCCCCCCCCCC
Q 004082 4 EGEKTCPLCAEEMDLTDQQ-----LKPCK-CGYEICVWCWHHIMDMA-EKEETEGRCPACRSPY 60 (775)
Q Consensus 4 e~d~~CPLC~EelD~tD~~-----F~PC~-CGYQIC~fC~hrI~~~~-~k~~~~grCPACRr~Y 60 (775)
..+.+|-||||.. .|+. |.--+ |-+-.|.-|+..=+... ........||-||.+-
T Consensus 159 s~~k~CGICme~i--~ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 159 SSEKECGICMETI--NEKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred cccccceehhhhc--cccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 3478999999987 4444 75555 88888888877655210 0122357899999854
No 234
>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=28.64 E-value=37 Score=24.94 Aligned_cols=21 Identities=48% Similarity=1.116 Sum_probs=13.9
Q ss_pred CCCCcccCCCccCCCccccC-CCch
Q 004082 8 TCPLCAEEMDLTDQQLKPCK-CGYE 31 (775)
Q Consensus 8 ~CPLC~EelD~tD~~F~PC~-CGYQ 31 (775)
.||-|-.++-+ .-+-|+ |||.
T Consensus 2 ~CP~C~~~V~~---~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPE---SAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCchh---hcCcCCCCCCC
Confidence 57777777744 455677 7764
No 235
>KOG4692 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=28.64 E-value=41 Score=38.33 Aligned_cols=48 Identities=25% Similarity=0.688 Sum_probs=32.2
Q ss_pred CcccCCCCCCcccCCCccCCCccccCCCchhhhhhHhH-hHHhhhhcccCCCCCCCCCCC
Q 004082 2 SDEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHH-IMDMAEKEETEGRCPACRSPY 60 (775)
Q Consensus 2 sde~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hr-I~~~~~k~~~~grCPACRr~Y 60 (775)
-|-||..||||+-.- .---|-| |+.+-|--|..+ +++ ..+|==|....
T Consensus 418 p~sEd~lCpICyA~p--i~Avf~P--C~H~SC~~CI~qHlmN-------~k~CFfCktTv 466 (489)
T KOG4692|consen 418 PDSEDNLCPICYAGP--INAVFAP--CSHRSCYGCITQHLMN-------CKRCFFCKTTV 466 (489)
T ss_pred CCcccccCcceeccc--chhhccC--CCCchHHHHHHHHHhc-------CCeeeEeccee
Confidence 366889999998643 1224554 678988888874 432 56788886633
No 236
>KOG4019 consensus Calcineurin-mediated signaling pathway inhibitor DSCR1 [Signal transduction mechanisms; General function prediction only]
Probab=28.61 E-value=74 Score=33.36 Aligned_cols=95 Identities=19% Similarity=0.187 Sum_probs=61.6
Q ss_pred EEEeCCCCCCCh--HHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHhcCCccCCe-E
Q 004082 113 VYIVGLPLNLGD--EDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK-S 189 (775)
Q Consensus 113 VYVvGLp~~iae--EDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR-~ 189 (775)
+.+..+...+-. ++..+-..+|-||-+.....+.| .-+.+=|.|.+++.|++|...+++..|.|+ .
T Consensus 13 ~~~c~i~~~VF~~~~~k~~~~~lFrq~n~~~~fq~lr-----------sfrrvRi~f~~p~~a~~a~i~~~~~~f~~~~~ 81 (193)
T KOG4019|consen 13 IIACDIHEEVFVNREDKALFENLFRQINEDATFQLLR-----------SFRRVRINFSNPEAAADARIKLHSTSFNGKNE 81 (193)
T ss_pred eeeecccHHhhccHHHHHHHHhHHhhhCcchHHHHHH-----------hhceeEEeccChhHHHHHHHHhhhcccCCCce
Confidence 445555554322 22222247777776655443332 223578999999999999999999999998 9
Q ss_pred EEEEecCCCccccccCCCCCCCCCCcccc
Q 004082 190 LKACFGTTKYCHAWLRNVPCTNPDCLYLH 218 (775)
Q Consensus 190 LRASfGTTKYCssFLR~~~C~NpdC~YLH 218 (775)
++.=|+..-|-..--...+-..++=+||=
T Consensus 82 ~k~yfaQ~~~~~~~~q~L~pP~~eKqFLI 110 (193)
T KOG4019|consen 82 LKLYFAQPGHPESNSQYLQPPEPEKQFLI 110 (193)
T ss_pred EEEEEccCCCccccccccCCCChhhceee
Confidence 99999888776553344444444444443
No 237
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=27.27 E-value=43 Score=36.54 Aligned_cols=55 Identities=16% Similarity=0.303 Sum_probs=43.8
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccccccc
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVG 67 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~~ 67 (775)
-.||.|-..|.-|=.--+.=+||--+|.-|-.+++. .++.||-|-+|..+..|..
T Consensus 222 yiCpvtrd~LtNt~~ca~Lr~sg~Vv~~ecvEklir------~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 222 YICPVTRDTLTNTTPCAVLRPSGHVVTKECVEKLIR------KDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred eecccchhhhcCccceEEeccCCcEeeHHHHHHhcc------ccccccCCCCcCcccceEe
Confidence 479999999964433333336999999999999974 5789999999998888864
No 238
>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=27.22 E-value=31 Score=26.93 Aligned_cols=25 Identities=28% Similarity=0.813 Sum_probs=22.2
Q ss_pred CCCCcccCCCccCCCcccc-CCCchh
Q 004082 8 TCPLCAEEMDLTDQQLKPC-KCGYEI 32 (775)
Q Consensus 8 ~CPLC~EelD~tD~~F~PC-~CGYQI 32 (775)
.|+.|-+.+-.+|--|+-| .||.|+
T Consensus 10 ~C~~C~~~~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 10 PCPVCGSRWFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred cCCCCCCeEeEccCCEEEhhhCceEc
Confidence 4999999999999999999 798763
No 239
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=26.49 E-value=34 Score=39.48 Aligned_cols=46 Identities=33% Similarity=0.764 Sum_probs=34.9
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCC
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Y 60 (775)
+.|-||.| .|+..+-=+||.-+|--|+..-.+ .++..-||=||-+.
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 46888887 466677778899999999887753 23455699999865
No 240
>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]
Probab=26.32 E-value=26 Score=39.11 Aligned_cols=24 Identities=33% Similarity=0.761 Sum_probs=13.4
Q ss_pred CCCccccccCCCCCCCCCCccccc
Q 004082 196 TTKYCHAWLRNVPCTNPDCLYLHE 219 (775)
Q Consensus 196 TTKYCssFLR~~~C~NpdC~YLHE 219 (775)
.+.+|..||||.--....|-||||
T Consensus 76 ~~~vcK~~l~glC~kgD~C~Flhe 99 (325)
T KOG1040|consen 76 GKVVCKHWLRGLCKKGDQCEFLHE 99 (325)
T ss_pred CceeehhhhhhhhhccCcCcchhh
Confidence 344566666655555555555555
No 241
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=26.13 E-value=69 Score=30.51 Aligned_cols=80 Identities=15% Similarity=0.312 Sum_probs=51.9
Q ss_pred cCccccccccCEEEEeCCCCCCChHHHHHHHhhhcCCcceeEEEEeecCCccccccCCCceEEEEEeCCHHHHHHHHHHh
Q 004082 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (775)
Q Consensus 101 ~LanVRVIQrNLVYVvGLp~~iaeEDLLr~~EyFGQYGKI~KIvI~rd~~~~~qq~p~~rgsAYVTFs~~EDA~rAIqaL 180 (775)
........+...+|+.+++..+..+++. ..|..+|.|..+.+....... ......|+.+....++..+....
T Consensus 216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~ 287 (306)
T COG0724 216 RGKALLLEKSDNLYVGNLPLKTAEEELA---DLFKSRGDIVRASLPPSKDGK-----IPKSRSFVGNEASKDALESNSRG 287 (306)
T ss_pred ccccccccccceeeccccccccchhHHH---HhccccccceeeeccCCCCCc-----ccccccccchhHHHhhhhhhccc
Confidence 4444455667889999999999988886 899999999776665443321 12233346666666666666554
Q ss_pred cCCccCCe
Q 004082 181 HGFVLEGK 188 (775)
Q Consensus 181 DGs~LdGR 188 (775)
......+.
T Consensus 288 ~~~~~~~~ 295 (306)
T COG0724 288 NKKKILGR 295 (306)
T ss_pred cceeeccc
Confidence 44444433
No 242
>PRK11823 DNA repair protein RadA; Provisional
Probab=25.87 E-value=34 Score=39.11 Aligned_cols=24 Identities=38% Similarity=0.882 Sum_probs=16.2
Q ss_pred CCccccC-CCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 21 QQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 21 ~~F~PC~-CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
+..|-|. |||+- ..-.|+||+|..
T Consensus 5 ~~~y~C~~Cg~~~--------------~~~~g~Cp~C~~ 29 (446)
T PRK11823 5 KTAYVCQECGAES--------------PKWLGRCPECGA 29 (446)
T ss_pred CCeEECCcCCCCC--------------cccCeeCcCCCC
Confidence 4456687 78871 124689999965
No 243
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=25.81 E-value=27 Score=37.50 Aligned_cols=26 Identities=35% Similarity=0.759 Sum_probs=21.2
Q ss_pred ccccccCCCCCCCCCCcccccCCCCCC
Q 004082 199 YCHAWLRNVPCTNPDCLYLHEVGSQED 225 (775)
Q Consensus 199 YCssFLR~~~C~NpdC~YLHE~g~~~D 225 (775)
.|.+||-| +|.||+|.|+|=.-.+..
T Consensus 263 acryfllg-kcnnpncryvhihysena 288 (377)
T KOG1492|consen 263 ACRYFLLG-KCNNPNCRYVHIHYSENA 288 (377)
T ss_pred hhhhhhhc-cCCCCCceEEEEeecCCC
Confidence 47888876 699999999998776655
No 244
>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=25.51 E-value=36 Score=27.89 Aligned_cols=38 Identities=29% Similarity=0.571 Sum_probs=23.0
Q ss_pred CCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 6 d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
.-.||.|-+.+|...+ +.++.+.=..+..+..||-|..
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 3579999997775321 1344432222334688999975
No 245
>PRK04023 DNA polymerase II large subunit; Validated
Probab=25.09 E-value=73 Score=40.57 Aligned_cols=46 Identities=28% Similarity=0.718 Sum_probs=32.9
Q ss_pred cCCCCCCcccCCCccCCCccccC-CCc-----hhhhhhHhHhHHhhhhcccCCCCCCCCCCCccc
Q 004082 5 GEKTCPLCAEEMDLTDQQLKPCK-CGY-----EICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (775)
Q Consensus 5 ~d~~CPLC~EelD~tD~~F~PC~-CGY-----QIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee 63 (775)
+...||-|-... ..+.|+ ||- -.|..|-... ....||.|-.+-...
T Consensus 625 g~RfCpsCG~~t-----~~frCP~CG~~Te~i~fCP~CG~~~--------~~y~CPKCG~El~~~ 676 (1121)
T PRK04023 625 GRRKCPSCGKET-----FYRRCPFCGTHTEPVYRCPRCGIEV--------EEDECEKCGREPTPY 676 (1121)
T ss_pred cCccCCCCCCcC-----CcccCCCCCCCCCcceeCccccCcC--------CCCcCCCCCCCCCcc
Confidence 456899999985 668999 984 4788883332 346799998865543
No 246
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=25.04 E-value=1.1e+02 Score=34.87 Aligned_cols=66 Identities=23% Similarity=0.637 Sum_probs=43.5
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCC--CCC--CCCCCCcccccccccch
Q 004082 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEG--RCP--ACRSPYDKEKIVGMAAK 71 (775)
Q Consensus 3 de~d~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~g--rCP--ACRr~Ydee~i~~~~~~ 71 (775)
+..+..|.+|++..+. .+.-=.||+.+|..||...+...--.+..+ .|| .|+..-+++.|......
T Consensus 67 ~~~~~~c~ic~~~~~~---~~~~~~c~H~~c~~cw~~yl~~kI~~~~~~~i~cp~~~C~a~v~~~~i~~~~s~ 136 (444)
T KOG1815|consen 67 KKGDVQCGICVESYDG---EIIGLGCGHPFCPPCWTGYLGTKIHEGEEAKIKCPAHGCPALVGEDTVEKLVSD 136 (444)
T ss_pred CCccccCCcccCCCcc---hhhhcCCCcHHHHHHHHHHhhheeeccccccccCCCCCccccCCCceeeeecCC
Confidence 3456899999999976 344446899999999997543211112222 344 68888888877655443
No 247
>KOG2318 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.47 E-value=2.3e+02 Score=34.46 Aligned_cols=80 Identities=16% Similarity=0.177 Sum_probs=57.6
Q ss_pred CEEEEeCCCCC-CChHHHHHHHhhhcCCc-ceeEEEEeecCCccc------cccC-------------------------
Q 004082 111 NLVYIVGLPLN-LGDEDLLQRREYFGQYG-KVLKVSMSRTAAGVI------QQFP------------------------- 157 (775)
Q Consensus 111 NLVYVvGLp~~-iaeEDLLr~~EyFGQYG-KI~KIvI~rd~~~~~------qq~p------------------------- 157 (775)
+.|-|+||.|. +.-+||+.--.-|-.+| .|+.|.|....-|.. .++|
T Consensus 175 ~RLAVvNMDWd~v~AkDL~v~~nSFlP~gGsilSV~IYpSeFGkeRM~eEeV~GP~~el~~~~e~~~~s~sD~ee~~~~~ 254 (650)
T KOG2318|consen 175 KRLAVVNMDWDRVKAKDLFVLFNSFLPKGGSILSVKIYPSEFGKERMKEEEVHGPPKELFKPVEEYKESESDDEEEEDVD 254 (650)
T ss_pred ceeeEeccccccccHHHHHHHHHhhcCCCCceeEEEechhhhhHHHhhhhcccCChhhhccccccCcccccchhhhhhHH
Confidence 67899999996 77889875455666777 999999864321100 0112
Q ss_pred -----------CCceEEEEEeCCHHHHHHHHHHhcCCccCCeEE
Q 004082 158 -----------NNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (775)
Q Consensus 158 -----------~~rgsAYVTFs~~EDA~rAIqaLDGs~LdGR~L 190 (775)
..-++|-|+|.+.+.|..--...||..+.---+
T Consensus 255 ~~kLR~Yq~~rLkYYyAVvecDsi~tA~~vYe~CDG~EfEsS~~ 298 (650)
T KOG2318|consen 255 REKLRQYQLNRLKYYYAVVECDSIETAKAVYEECDGIEFESSAN 298 (650)
T ss_pred HHHHHHHHhhhheeEEEEEEecCchHHHHHHHhcCcceeccccc
Confidence 124688999999999999999999988864433
No 248
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.23 E-value=59 Score=38.48 Aligned_cols=14 Identities=29% Similarity=0.819 Sum_probs=11.4
Q ss_pred CCCCCCcccCCCcc
Q 004082 6 EKTCPLCAEEMDLT 19 (775)
Q Consensus 6 d~~CPLC~EelD~t 19 (775)
..+|++||.++|+.
T Consensus 571 t~dC~ICMt~I~l~ 584 (636)
T KOG0828|consen 571 TNDCVICMTPIDLR 584 (636)
T ss_pred cccceEecccccee
Confidence 36899999998763
No 249
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=23.81 E-value=49 Score=40.59 Aligned_cols=53 Identities=25% Similarity=0.560 Sum_probs=35.9
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccccccchhHHHH
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERLV 76 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~e~l~ 76 (775)
..||-|--.|..-... +.-.|.||-++.. .-..||.|-.. .+++.-+--|++.
T Consensus 445 ~~Cp~Cd~~lt~H~~~------~~L~CH~Cg~~~~-------~p~~Cp~Cgs~----~L~~~G~Gterie 497 (730)
T COG1198 445 AECPNCDSPLTLHKAT------GQLRCHYCGYQEP-------IPQSCPECGSE----HLRAVGPGTERIE 497 (730)
T ss_pred ccCCCCCcceEEecCC------CeeEeCCCCCCCC-------CCCCCCCCCCC----eeEEecccHHHHH
Confidence 4789998888664333 6677888888742 35789999664 3555556566653
No 250
>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 PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=23.11 E-value=39 Score=32.03 Aligned_cols=19 Identities=26% Similarity=0.754 Sum_probs=8.4
Q ss_pred CCCcccCCCccCCCccccC
Q 004082 9 CPLCAEEMDLTDQQLKPCK 27 (775)
Q Consensus 9 CPLC~EelD~tD~~F~PC~ 27 (775)
|+-|-..+.+.+..+++||
T Consensus 73 C~~Cg~~~~~~~~~~~~CP 91 (114)
T PRK03681 73 CETCQQYVTLLTQRVRRCP 91 (114)
T ss_pred cccCCCeeecCCccCCcCc
Confidence 4445444444333334444
No 252
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=23.04 E-value=32 Score=38.08 Aligned_cols=90 Identities=18% Similarity=0.339 Sum_probs=54.6
Q ss_pred cCEEEEeCCCCC-----------CChHHHHHHHhhhcCCcceeEEEEee-cC--------CccccccCC-----CceEEE
Q 004082 110 RNLVYIVGLPLN-----------LGDEDLLQRREYFGQYGKVLKVSMSR-TA--------AGVIQQFPN-----NTCSVY 164 (775)
Q Consensus 110 rNLVYVvGLp~~-----------iaeEDLLr~~EyFGQYGKI~KIvI~r-d~--------~~~~qq~p~-----~rgsAY 164 (775)
-.+||+.|||-+ +..|+.|+ ..|..||.|..|.|+. |+ ..+.|+..- --+-||
T Consensus 149 pdti~la~ip~kwf~lkedg~~dlpse~rlr--~a~eafg~ir~vdipicdplr~~mn~kisgiq~~gfg~g~dlffeay 226 (445)
T KOG2891|consen 149 PDTIHLAGIPCKWFALKEDGSEDLPSEDRLR--KAFEAFGEIRNVDIPICDPLREEMNGKISGIQFHGFGFGGDLFFEAY 226 (445)
T ss_pred CCceeecCCcceeeeecccccccCChHHHHH--HHHHHhccceecCCcccchhHHHhcCccccceeeccccCcchhHHHH
Confidence 378999999854 24566774 6999999999888752 11 112221100 012356
Q ss_pred EEeCCHHHHHHHHHHhcCCcc----CCe----EEEEEecCCCccc
Q 004082 165 ITYSKEEEAVRCIQSVHGFVL----EGK----SLKACFGTTKYCH 201 (775)
Q Consensus 165 VTFs~~EDA~rAIqaLDGs~L----dGR----~LRASfGTTKYCs 201 (775)
|.|...---..|+.+|-|..+ +|+ .++|.|-.++.-+
T Consensus 227 vqfmeykgfa~amdalr~~k~akk~d~~ffqanvkvdfdrsrhls 271 (445)
T KOG2891|consen 227 VQFMEYKGFAQAMDALRGMKLAKKGDDGFFQANVKVDFDRSRHLS 271 (445)
T ss_pred HHHHHHHhHHHHHHHHhcchHHhhcCCcccccccccccchhhhhh
Confidence 776666555666666666543 444 5777887777544
No 253
>PF02714 DUF221: Domain of unknown function DUF221; InterPro: IPR003864 This domain is found in a family of hypothetical transmembrane proteins none of which have any known function, the aligned region is at 538 residues at maximum length.; GO: 0016020 membrane
Probab=22.60 E-value=80 Score=33.63 Aligned_cols=32 Identities=13% Similarity=0.180 Sum_probs=22.7
Q ss_pred EEEEeCCHHHHHHHHHHhcCCccCCeEEEEEecC
Q 004082 163 VYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGT 196 (775)
Q Consensus 163 AYVTFs~~EDA~rAIqaLDGs~LdGR~LRASfGT 196 (775)
|||||.+..+|..|.+.+....- +.+++..|.
T Consensus 1 aFVtF~~~~~a~~~~q~~~~~~~--~~~~v~~AP 32 (325)
T PF02714_consen 1 AFVTFNSQKSAQIALQLLLSKRP--NSWRVSPAP 32 (325)
T ss_pred CEEEECCHHHHHHHHHHHhcCCC--CCceEeeCC
Confidence 69999999999999996554332 334554443
No 254
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.56 E-value=95 Score=36.18 Aligned_cols=39 Identities=26% Similarity=0.598 Sum_probs=23.9
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
..||-|--.|..... =+.-.|.||-+.. ....+||.|-.
T Consensus 223 ~~C~~C~~~l~~h~~------~~~l~Ch~Cg~~~-------~~~~~Cp~C~s 261 (505)
T TIGR00595 223 LCCPNCDVSLTYHKK------EGKLRCHYCGYQE-------PIPKTCPQCGS 261 (505)
T ss_pred cCCCCCCCceEEecC------CCeEEcCCCcCcC-------CCCCCCCCCCC
Confidence 468888877754321 1133566776654 24678999965
No 255
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=22.24 E-value=46 Score=26.90 Aligned_cols=33 Identities=33% Similarity=0.781 Sum_probs=23.2
Q ss_pred CCCCC--CcccCCCcc---CCCcccc-CCCchhhhhhHh
Q 004082 6 EKTCP--LCAEEMDLT---DQQLKPC-KCGYEICVWCWH 38 (775)
Q Consensus 6 d~~CP--LC~EelD~t---D~~F~PC-~CGYQIC~fC~h 38 (775)
-.-|| -|-..+... +....-| .||+.+|.-|-.
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~ 56 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKV 56 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCC
Confidence 35688 886666554 4667889 799998777743
No 256
>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=22.07 E-value=38 Score=28.60 Aligned_cols=26 Identities=31% Similarity=0.994 Sum_probs=18.5
Q ss_pred CCCCCcccCC--------CccCCCc-cccCCCchh
Q 004082 7 KTCPLCAEEM--------DLTDQQL-KPCKCGYEI 32 (775)
Q Consensus 7 ~~CPLC~Eel--------D~tD~~F-~PC~CGYQI 32 (775)
..||-|-.+. .+.|-.| +.|+||+.|
T Consensus 14 ~~Cp~CGN~~vGngEG~liV~edtfkRtCkCGfni 48 (49)
T PF12677_consen 14 CKCPKCGNDKVGNGEGTLIVEEDTFKRTCKCGFNI 48 (49)
T ss_pred ccCcccCCcEeecCcceEEEeccceeeeecccccc
Confidence 4688887653 4555556 899999875
No 257
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=21.87 E-value=35 Score=39.69 Aligned_cols=39 Identities=33% Similarity=0.761 Sum_probs=31.8
Q ss_pred CcccCCCCCCcccCCCccCCCccccC-CCchhhhhhHhHhH
Q 004082 2 SDEGEKTCPLCAEEMDLTDQQLKPCK-CGYEICVWCWHHIM 41 (775)
Q Consensus 2 sde~d~~CPLC~EelD~tD~~F~PC~-CGYQIC~fC~hrI~ 41 (775)
.|.+...||+|.+.|-+|=+.. =|- ||-.||.+|-.-|-
T Consensus 176 DDs~V~~CP~Ca~~F~l~rRrH-HCRLCG~VmC~~C~k~iS 215 (505)
T KOG1842|consen 176 DDSSVQFCPECANSFGLTRRRH-HCRLCGRVMCRDCSKFIS 215 (505)
T ss_pred CCCcccccccccchhhhHHHhh-hhhhcchHHHHHHHHhcC
Confidence 4556689999999999986654 466 99999999988764
No 258
>KOG3113 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.08 E-value=90 Score=34.29 Aligned_cols=59 Identities=19% Similarity=0.495 Sum_probs=39.1
Q ss_pred CCCCCcccCCCccCCCc--cccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCcccccccccchhHHH
Q 004082 7 KTCPLCAEEMDLTDQQL--KPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERL 75 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F--~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i~~~~~~~e~l 75 (775)
-.||+=--+|.-+=+-+ ++|.| .|-...+++. ..--|+-|..+|+++.++....+.|++
T Consensus 112 fiCPvtgleMng~~~F~~l~~CGc-----V~SerAlKei-----kas~C~~C~a~y~~~dvIvlNg~~E~~ 172 (293)
T KOG3113|consen 112 FICPVTGLEMNGKYRFCALRCCGC-----VFSERALKEI-----KASVCHVCGAAYQEDDVIVLNGTEEDV 172 (293)
T ss_pred eecccccceecceEEEEEEeccce-----eccHHHHHHh-----hhccccccCCcccccCeEeeCCCHHHH
Confidence 36888888886443333 45554 4555555443 356799999999998887666666643
No 259
>PF10272 Tmpp129: Putative transmembrane protein precursor; InterPro: IPR018801 This entry consists of proteins conserved from worms to humans. They are purported to be transmembrane protein-precursors but their function is unknown.
Probab=21.06 E-value=98 Score=35.15 Aligned_cols=35 Identities=23% Similarity=0.758 Sum_probs=23.2
Q ss_pred cccCCCchhhhhhHhHhHHhhhhccc---------CCCCCCCCCCC
Q 004082 24 KPCKCGYEICVWCWHHIMDMAEKEET---------EGRCPACRSPY 60 (775)
Q Consensus 24 ~PC~CGYQIC~fC~hrI~~~~~k~~~---------~grCPACRr~Y 60 (775)
.+|-|.=-=|+-|.-++.. .+.+. ..-||.||+.+
T Consensus 307 ~~C~CRPmWC~~Cm~kwFa--srQd~~~~~~Wl~~~~~CPtCRa~F 350 (358)
T PF10272_consen 307 QQCYCRPMWCLECMGKWFA--SRQDQQHPETWLSGKCPCPTCRAKF 350 (358)
T ss_pred ccccccchHHHHHHHHHhh--hcCCCCChhhhhcCCCCCCCCcccc
Confidence 3677777778888888763 33322 23499999965
No 260
>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]
Probab=20.68 E-value=37 Score=41.20 Aligned_cols=50 Identities=26% Similarity=0.777 Sum_probs=37.9
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCCCCccccc
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr~Ydee~i 65 (775)
..|++|++ .| .+++=.||.-.|.-||-.-.+. ..+..||-||...++...
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 4667789999999999877642 244589999997666544
No 261
>PRK05580 primosome assembly protein PriA; Validated
Probab=20.56 E-value=1.1e+02 Score=37.04 Aligned_cols=39 Identities=26% Similarity=0.533 Sum_probs=23.9
Q ss_pred CCCCCcccCCCccCCCccccCCCchhhhhhHhHhHHhhhhcccCCCCCCCCC
Q 004082 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~CGYQIC~fC~hrI~~~~~k~~~~grCPACRr 58 (775)
..||-|-..|...- . =+.-.|.||-+.. ....+||.|-.
T Consensus 391 ~~C~~C~~~l~~h~-~-----~~~l~Ch~Cg~~~-------~~~~~Cp~Cg~ 429 (679)
T PRK05580 391 AECPHCDASLTLHR-F-----QRRLRCHHCGYQE-------PIPKACPECGS 429 (679)
T ss_pred cCCCCCCCceeEEC-C-----CCeEECCCCcCCC-------CCCCCCCCCcC
Confidence 46788877774321 1 1233577787654 24578999955
No 262
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=20.21 E-value=47 Score=37.26 Aligned_cols=10 Identities=40% Similarity=1.092 Sum_probs=8.1
Q ss_pred cCCCCCCCCC
Q 004082 49 TEGRCPACRS 58 (775)
Q Consensus 49 ~~grCPACRr 58 (775)
-.|+||+|..
T Consensus 13 ~~g~cp~c~~ 22 (372)
T cd01121 13 WLGKCPECGE 22 (372)
T ss_pred ccEECcCCCC
Confidence 4699999965
No 263
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=20.13 E-value=49 Score=31.96 Aligned_cols=25 Identities=36% Similarity=0.770 Sum_probs=15.1
Q ss_pred CCCCCcccCCCccCCCccccC-CCch
Q 004082 7 KTCPLCAEEMDLTDQQLKPCK-CGYE 31 (775)
Q Consensus 7 ~~CPLC~EelD~tD~~F~PC~-CGYQ 31 (775)
.-||-|-.++.-.|..++-|| |||.
T Consensus 3 p~CP~C~seytY~dg~~~iCpeC~~E 28 (109)
T TIGR00686 3 PPCPKCNSEYTYHDGTQLICPSCLYE 28 (109)
T ss_pred CcCCcCCCcceEecCCeeECcccccc
Confidence 357777777666665555555 5444
No 264
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=20.12 E-value=61 Score=23.07 Aligned_cols=9 Identities=44% Similarity=1.364 Sum_probs=4.8
Q ss_pred CCCcccCCC
Q 004082 9 CPLCAEEMD 17 (775)
Q Consensus 9 CPLC~EelD 17 (775)
||-|-.+++
T Consensus 2 Cp~CG~~~~ 10 (23)
T PF13240_consen 2 CPNCGAEIE 10 (23)
T ss_pred CcccCCCCC
Confidence 555555553
Done!