Query 001872
Match_columns 1002
No_of_seqs 257 out of 738
Neff 3.2
Searched_HMMs 46136
Date Thu Mar 28 11:16:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001872.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001872hhsearch_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 3.3E-79 7.2E-84 649.4 15.1 229 2-238 10-243 (480)
2 KOG2068 MOT2 transcription fac 100.0 3.3E-60 7.1E-65 505.9 12.4 304 29-349 1-309 (327)
3 PF14570 zf-RING_4: RING/Ubox 99.8 1.7E-21 3.7E-26 160.2 2.7 48 9-61 1-48 (48)
4 PLN03134 glycine-rich RNA-bind 99.5 2.6E-13 5.6E-18 132.0 10.9 89 101-198 26-114 (144)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 2.1E-13 4.6E-18 144.2 10.7 80 112-199 271-350 (352)
6 PF00076 RRM_1: RNA recognitio 99.4 4.3E-13 9.3E-18 109.6 8.2 70 113-191 1-70 (70)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 1.2E-12 2.5E-17 138.7 10.4 109 110-237 3-111 (352)
8 PF14259 RRM_6: RNA recognitio 99.3 2.3E-11 5E-16 101.6 8.6 70 113-191 1-70 (70)
9 KOG0114 Predicted RNA-binding 99.2 2.7E-11 5.9E-16 114.9 8.6 75 110-195 18-92 (124)
10 TIGR01659 sex-lethal sex-letha 99.2 3.1E-11 6.7E-16 132.4 9.9 111 108-237 105-215 (346)
11 smart00362 RRM_2 RNA recogniti 99.2 1.3E-10 2.7E-15 92.5 8.6 72 112-193 1-72 (72)
12 KOG0148 Apoptosis-promoting RN 99.2 6.1E-11 1.3E-15 126.6 8.5 75 110-198 164-238 (321)
13 PLN03120 nucleic acid binding 99.2 9.7E-11 2.1E-15 124.8 10.0 75 110-196 4-78 (260)
14 KOG0107 Alternative splicing f 99.2 5.9E-11 1.3E-15 120.5 7.5 79 110-201 10-88 (195)
15 KOG4206 Spliceosomal protein s 99.2 5.9E-11 1.3E-15 123.7 7.6 87 107-201 5-93 (221)
16 TIGR01659 sex-lethal sex-letha 99.1 1.3E-10 2.9E-15 127.5 10.6 83 108-198 191-275 (346)
17 COG0724 RNA-binding proteins ( 99.1 1.5E-10 3.3E-15 110.8 9.4 80 110-197 115-194 (306)
18 KOG0122 Translation initiation 99.1 1.3E-10 2.9E-15 122.6 9.2 82 109-198 188-269 (270)
19 TIGR01645 half-pint poly-U bin 99.1 1.4E-10 3.1E-15 135.2 10.4 81 110-198 204-284 (612)
20 KOG0111 Cyclophilin-type pepti 99.1 3.4E-11 7.3E-16 125.8 4.6 84 107-198 7-90 (298)
21 cd00590 RRM RRM (RNA recogniti 99.1 3.3E-10 7.3E-15 90.5 9.2 74 112-194 1-74 (74)
22 TIGR01645 half-pint poly-U bin 99.1 2.3E-10 5E-15 133.6 10.9 79 110-196 107-185 (612)
23 TIGR01628 PABP-1234 polyadenyl 99.1 2.3E-10 5.1E-15 130.1 10.3 82 108-198 283-364 (562)
24 TIGR01642 U2AF_lg U2 snRNP aux 99.1 4.2E-10 9.1E-15 125.4 11.6 82 109-198 294-375 (509)
25 smart00360 RRM RNA recognition 99.1 3.3E-10 7.1E-15 89.6 7.7 71 115-193 1-71 (71)
26 TIGR01622 SF-CC1 splicing fact 99.1 3.1E-10 6.7E-15 125.1 10.1 79 110-196 186-264 (457)
27 KOG0125 Ataxin 2-binding prote 99.1 1.7E-10 3.7E-15 125.5 7.6 79 110-198 96-174 (376)
28 PF13893 RRM_5: RNA recognitio 99.1 4.2E-10 9.1E-15 91.7 7.7 55 131-195 2-56 (56)
29 TIGR01628 PABP-1234 polyadenyl 99.1 4.2E-10 9.2E-15 128.0 9.8 109 112-237 2-110 (562)
30 KOG0145 RNA-binding protein EL 99.0 5.7E-10 1.2E-14 118.8 9.6 81 110-198 278-358 (360)
31 KOG0149 Predicted RNA-binding 99.0 2.1E-10 4.6E-15 120.4 6.2 78 109-195 11-88 (247)
32 KOG0121 Nuclear cap-binding pr 99.0 4.5E-10 9.7E-15 109.9 6.5 77 110-194 36-112 (153)
33 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.0 1.1E-09 2.5E-14 123.7 10.3 76 109-197 274-350 (481)
34 PLN03213 repressor of silencin 99.0 9E-10 1.9E-14 124.4 8.2 78 111-200 11-90 (759)
35 KOG4207 Predicted splicing fac 99.0 4.4E-10 9.6E-15 116.7 5.3 80 109-196 12-91 (256)
36 TIGR01622 SF-CC1 splicing fact 99.0 2E-09 4.4E-14 118.7 10.0 116 110-237 89-208 (457)
37 KOG0148 Apoptosis-promoting RN 99.0 9.4E-10 2E-14 117.6 7.0 80 112-199 64-143 (321)
38 smart00361 RRM_1 RNA recogniti 98.9 2.9E-09 6.3E-14 91.3 7.5 59 132-193 7-70 (70)
39 KOG0126 Predicted RNA-binding 98.9 4.2E-10 9.1E-15 115.1 2.1 76 111-194 36-111 (219)
40 TIGR01648 hnRNP-R-Q heterogene 98.9 2.8E-09 6E-14 124.2 8.9 101 109-235 57-158 (578)
41 TIGR01648 hnRNP-R-Q heterogene 98.9 4.3E-09 9.4E-14 122.6 9.6 73 111-199 234-308 (578)
42 KOG0105 Alternative splicing f 98.9 3.1E-09 6.6E-14 109.2 6.9 85 111-206 7-91 (241)
43 PLN03121 nucleic acid binding 98.9 6.1E-09 1.3E-13 110.3 9.1 76 110-197 5-80 (243)
44 KOG0117 Heterogeneous nuclear 98.8 1.2E-08 2.5E-13 114.8 8.8 105 106-235 79-184 (506)
45 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.8 1.4E-08 2.9E-13 115.1 9.4 79 110-198 394-480 (481)
46 KOG0131 Splicing factor 3b, su 98.8 5.7E-09 1.2E-13 106.9 5.5 81 108-196 7-87 (203)
47 KOG0108 mRNA cleavage and poly 98.8 1.1E-08 2.5E-13 115.8 8.0 79 111-197 19-97 (435)
48 KOG0113 U1 small nuclear ribon 98.7 6.2E-08 1.3E-12 105.0 9.0 87 111-205 102-188 (335)
49 KOG0144 RNA-binding protein CU 98.6 4.6E-08 1E-12 109.8 4.6 85 106-199 120-207 (510)
50 KOG0127 Nucleolar protein fibr 98.5 1.6E-07 3.4E-12 107.9 8.1 81 110-199 117-197 (678)
51 KOG0130 RNA-binding protein RB 98.5 1.2E-07 2.5E-12 94.1 6.1 84 104-195 66-149 (170)
52 KOG2068 MOT2 transcription fac 98.5 4.2E-08 9.1E-13 107.4 3.3 53 7-65 250-302 (327)
53 TIGR01642 U2AF_lg U2 snRNP aux 98.5 1.6E-07 3.5E-12 105.1 7.9 85 111-197 410-501 (509)
54 KOG0117 Heterogeneous nuclear 98.5 1.3E-07 2.8E-12 106.7 6.7 70 112-197 261-330 (506)
55 KOG0127 Nucleolar protein fibr 98.5 2E-07 4.4E-12 106.9 8.4 115 111-234 293-424 (678)
56 KOG0132 RNA polymerase II C-te 98.4 6.1E-07 1.3E-11 106.1 8.3 106 96-223 403-512 (894)
57 KOG0147 Transcriptional coacti 98.3 5.8E-07 1.2E-11 103.3 6.1 78 113-198 281-358 (549)
58 KOG0145 RNA-binding protein EL 98.3 1.3E-06 2.9E-11 93.7 7.7 81 110-198 41-121 (360)
59 KOG0144 RNA-binding protein CU 98.3 1.2E-06 2.6E-11 98.7 6.7 81 113-201 37-120 (510)
60 KOG4208 Nucleolar RNA-binding 98.3 1.9E-06 4.2E-11 89.8 7.5 80 110-197 49-129 (214)
61 KOG4661 Hsp27-ERE-TATA-binding 98.2 2E-06 4.4E-11 99.1 6.7 77 112-196 407-483 (940)
62 KOG0124 Polypyrimidine tract-b 98.2 1.2E-06 2.6E-11 97.2 4.8 75 111-193 114-188 (544)
63 KOG0109 RNA-binding protein LA 98.2 1.4E-06 3E-11 94.7 5.0 71 112-198 4-74 (346)
64 KOG0146 RNA-binding protein ET 98.2 1.4E-06 3E-11 93.8 4.9 83 110-200 285-367 (371)
65 KOG0533 RRM motif-containing p 98.2 4E-06 8.6E-11 89.5 7.8 75 111-194 84-158 (243)
66 KOG0131 Splicing factor 3b, su 98.2 2.2E-06 4.8E-11 88.3 5.5 88 101-198 89-177 (203)
67 KOG0109 RNA-binding protein LA 98.2 1.9E-06 4.2E-11 93.6 5.2 83 110-208 78-160 (346)
68 KOG0123 Polyadenylate-binding 98.1 5.7E-06 1.2E-10 92.4 8.4 70 113-193 79-148 (369)
69 KOG0153 Predicted RNA-binding 98.1 5.5E-06 1.2E-10 91.6 7.7 77 111-201 229-306 (377)
70 KOG0151 Predicted splicing reg 98.1 4.4E-06 9.6E-11 98.4 7.3 111 108-223 172-289 (877)
71 KOG0415 Predicted peptidyl pro 98.1 8.6E-06 1.9E-10 90.4 8.0 82 108-197 237-318 (479)
72 KOG0110 RNA-binding protein (R 98.0 1.1E-05 2.5E-10 95.1 8.9 124 107-238 512-636 (725)
73 KOG0123 Polyadenylate-binding 98.0 9.9E-06 2.1E-10 90.6 7.7 72 112-197 3-74 (369)
74 KOG4660 Protein Mei2, essentia 97.9 8.5E-06 1.8E-10 94.1 3.5 88 97-198 63-150 (549)
75 KOG4205 RNA-binding protein mu 97.8 1.4E-05 3.1E-10 87.8 4.1 78 110-196 6-83 (311)
76 KOG1548 Transcription elongati 97.8 0.00011 2.4E-09 81.6 9.7 88 103-199 127-222 (382)
77 KOG0124 Polypyrimidine tract-b 97.6 9.1E-05 2E-09 82.8 6.6 76 110-193 210-285 (544)
78 KOG1548 Transcription elongati 97.6 0.00014 3E-09 81.0 7.6 62 132-202 295-358 (382)
79 KOG0147 Transcriptional coacti 97.6 9.4E-05 2E-09 85.7 6.5 75 132-220 472-547 (549)
80 KOG4205 RNA-binding protein mu 97.6 8.1E-05 1.8E-09 82.1 5.3 85 111-204 98-182 (311)
81 KOG0106 Alternative splicing f 97.5 7.5E-05 1.6E-09 78.8 3.5 71 112-198 3-73 (216)
82 KOG4454 RNA binding protein (R 97.5 4.6E-05 9.9E-10 80.8 1.6 73 112-194 11-83 (267)
83 KOG0110 RNA-binding protein (R 97.4 0.00011 2.4E-09 87.1 4.0 79 110-196 613-691 (725)
84 KOG1190 Polypyrimidine tract-b 97.3 0.00053 1.2E-08 77.7 7.9 103 110-239 297-399 (492)
85 KOG0116 RasGAP SH3 binding pro 97.3 0.00043 9.3E-09 79.1 6.9 90 101-201 281-370 (419)
86 KOG2202 U2 snRNP splicing fact 97.3 0.00012 2.5E-09 78.8 2.3 79 135-220 91-175 (260)
87 PF11608 Limkain-b1: Limkain b 97.3 0.00093 2E-08 62.4 7.5 71 111-196 3-75 (90)
88 KOG4209 Splicing factor RNPS1, 97.2 0.00049 1.1E-08 73.1 6.4 84 106-198 97-180 (231)
89 KOG4212 RNA-binding protein hn 97.1 0.00092 2E-08 76.4 6.5 72 110-194 536-607 (608)
90 KOG0146 RNA-binding protein ET 97.0 0.001 2.2E-08 72.5 6.3 77 113-198 22-101 (371)
91 KOG1996 mRNA splicing factor [ 97.0 0.00059 1.3E-08 75.0 4.5 60 131-194 304-363 (378)
92 PLN02189 cellulose synthase 97.0 0.00033 7.2E-09 86.5 2.5 50 7-61 35-87 (1040)
93 KOG0120 Splicing factor U2AF, 97.0 0.0016 3.5E-08 75.8 7.6 62 131-194 427-488 (500)
94 KOG1995 Conserved Zn-finger pr 97.0 0.0008 1.7E-08 75.2 4.8 98 106-211 62-167 (351)
95 PF05172 Nup35_RRM: Nup53/35/4 96.9 0.0011 2.4E-08 62.7 4.8 76 110-190 6-83 (100)
96 KOG1457 RNA binding protein (c 96.8 0.0039 8.4E-08 66.8 8.4 80 111-197 35-117 (284)
97 TIGR00570 cdk7 CDK-activating 96.8 0.0019 4.1E-08 71.5 6.4 56 5-66 2-59 (309)
98 PF14605 Nup35_RRM_2: Nup53/35 96.6 0.0031 6.7E-08 53.2 4.8 52 111-177 2-53 (53)
99 PF13920 zf-C3HC4_3: Zinc fing 96.6 0.00099 2.1E-08 54.5 1.8 47 5-61 1-48 (50)
100 PF13639 zf-RING_2: Ring finge 96.6 0.00056 1.2E-08 54.5 0.3 44 7-57 1-44 (44)
101 PLN02436 cellulose synthase A 96.6 0.001 2.3E-08 82.5 2.4 50 7-61 37-89 (1094)
102 KOG4212 RNA-binding protein hn 96.6 0.005 1.1E-07 70.6 7.5 77 108-193 41-119 (608)
103 cd00162 RING RING-finger (Real 96.3 0.004 8.6E-08 47.1 3.3 45 8-60 1-45 (45)
104 KOG2314 Translation initiation 96.3 0.0061 1.3E-07 71.6 6.0 77 110-192 58-138 (698)
105 PLN03208 E3 ubiquitin-protein 96.3 0.004 8.7E-08 65.2 4.0 59 4-66 16-84 (193)
106 PF08777 RRM_3: RNA binding mo 96.2 0.011 2.3E-07 56.2 6.0 58 112-183 3-60 (105)
107 KOG4211 Splicing factor hnRNP- 96.1 0.035 7.6E-07 64.6 10.7 86 112-209 12-97 (510)
108 PHA02929 N1R/p28-like protein; 96.1 0.0056 1.2E-07 65.8 4.1 52 4-61 172-227 (238)
109 PF04059 RRM_2: RNA recognitio 96.0 0.047 1E-06 51.8 9.3 82 110-198 1-87 (97)
110 KOG3152 TBP-binding protein, a 95.7 0.0042 9.2E-08 67.4 1.5 78 109-189 73-157 (278)
111 PLN02248 cellulose synthase-li 95.6 0.011 2.5E-07 74.0 4.4 51 7-63 125-179 (1135)
112 KOG0120 Splicing factor U2AF, 95.3 0.012 2.6E-07 68.9 3.4 85 104-196 283-367 (500)
113 KOG4210 Nuclear localization s 95.3 0.0097 2.1E-07 65.1 2.4 86 111-205 185-274 (285)
114 smart00504 Ubox Modified RING 95.2 0.022 4.8E-07 47.6 3.8 50 6-65 1-50 (63)
115 KOG1456 Heterogeneous nuclear 95.1 0.064 1.4E-06 61.1 8.2 75 110-196 287-361 (494)
116 KOG1190 Polypyrimidine tract-b 94.8 0.034 7.3E-07 63.8 5.0 70 115-196 155-226 (492)
117 KOG2177 Predicted E3 ubiquitin 94.8 0.015 3.3E-07 57.4 1.9 48 4-61 11-58 (386)
118 TIGR00599 rad18 DNA repair pro 94.6 0.053 1.2E-06 62.2 5.9 52 4-65 24-75 (397)
119 KOG0106 Alternative splicing f 94.6 0.02 4.3E-07 61.0 2.3 75 102-192 89-165 (216)
120 KOG1365 RNA-binding protein Fu 94.5 0.034 7.4E-07 63.3 4.0 81 101-192 273-356 (508)
121 PLN02195 cellulose synthase A 94.4 0.029 6.2E-07 69.9 3.4 57 1-62 1-60 (977)
122 PF13923 zf-C3HC4_2: Zinc fing 94.2 0.026 5.7E-07 44.2 1.6 39 9-56 1-39 (39)
123 KOG0226 RNA-binding proteins [ 94.1 0.043 9.3E-07 60.0 3.6 73 113-193 193-265 (290)
124 KOG4285 Mitotic phosphoprotein 94.1 0.081 1.8E-06 59.0 5.7 65 111-191 198-262 (350)
125 PF08952 DUF1866: Domain of un 94.0 0.12 2.7E-06 52.4 6.3 52 132-197 55-106 (146)
126 PF14634 zf-RING_5: zinc-RING 93.7 0.068 1.5E-06 43.1 3.1 44 8-58 1-44 (44)
127 COG5236 Uncharacterized conser 93.6 0.042 9.2E-07 62.0 2.6 53 3-65 58-112 (493)
128 PF14569 zf-UDP: Zinc-binding 93.6 0.061 1.3E-06 49.7 3.1 53 5-62 8-63 (80)
129 smart00184 RING Ring finger. E 93.5 0.08 1.7E-06 38.5 3.1 39 9-56 1-39 (39)
130 KOG0320 Predicted E3 ubiquitin 93.3 0.066 1.4E-06 55.9 3.2 52 6-65 131-182 (187)
131 KOG2416 Acinus (induces apopto 92.9 0.067 1.4E-06 63.6 2.9 74 110-197 444-521 (718)
132 KOG1456 Heterogeneous nuclear 92.8 0.4 8.6E-06 55.0 8.5 72 115-199 127-200 (494)
133 PF05290 Baculo_IE-1: Baculovi 92.7 0.094 2E-06 52.7 3.2 55 4-63 78-134 (140)
134 KOG4206 Spliceosomal protein s 92.5 0.31 6.7E-06 52.4 6.8 76 108-196 144-220 (221)
135 PHA02926 zinc finger-like prot 92.3 0.14 3.1E-06 55.2 4.1 57 5-61 169-230 (242)
136 PF00097 zf-C3HC4: Zinc finger 92.2 0.078 1.7E-06 41.3 1.5 41 9-56 1-41 (41)
137 PLN02915 cellulose synthase A 92.2 0.09 1.9E-06 66.1 2.8 50 7-61 16-68 (1044)
138 KOG4307 RNA binding protein RB 92.2 0.32 6.8E-06 59.1 7.1 75 112-194 869-943 (944)
139 KOG0129 Predicted RNA-binding 91.9 0.27 5.9E-06 57.9 6.1 105 103-215 363-486 (520)
140 KOG4211 Splicing factor hnRNP- 91.5 0.41 8.9E-06 56.2 6.9 74 110-193 103-177 (510)
141 PLN02638 cellulose synthase A 91.5 0.1 2.2E-06 65.8 2.3 50 7-61 18-70 (1079)
142 KOG1457 RNA binding protein (c 91.2 0.18 3.9E-06 54.6 3.4 64 110-185 210-273 (284)
143 PF04641 Rtf2: Rtf2 RING-finge 91.1 0.24 5.3E-06 53.3 4.3 63 4-73 111-173 (260)
144 KOG0129 Predicted RNA-binding 90.7 0.77 1.7E-05 54.3 8.1 78 111-194 260-339 (520)
145 KOG0112 Large RNA-binding prot 90.7 0.22 4.8E-06 61.6 3.9 78 106-197 451-530 (975)
146 PF15227 zf-C3HC4_4: zinc fing 90.6 0.19 4.2E-06 40.7 2.3 42 9-56 1-42 (42)
147 KOG3002 Zn finger protein [Gen 90.6 0.19 4.1E-06 55.9 3.0 47 3-61 45-91 (299)
148 PLN02400 cellulose synthase 89.7 0.15 3.2E-06 64.4 1.5 49 8-61 38-89 (1085)
149 PF13445 zf-RING_UBOX: RING-ty 89.7 0.21 4.6E-06 41.1 1.9 43 9-54 1-43 (43)
150 KOG1855 Predicted RNA-binding 89.6 0.32 7E-06 56.4 3.9 89 100-192 219-318 (484)
151 KOG0115 RNA-binding protein p5 88.6 0.61 1.3E-05 51.3 4.9 107 105-221 26-136 (275)
152 KOG0317 Predicted E3 ubiquitin 88.6 0.38 8.2E-06 53.5 3.4 53 3-65 236-288 (293)
153 PF10309 DUF2414: Protein of u 87.9 1.4 3.1E-05 39.2 5.9 56 108-180 3-62 (62)
154 PF04847 Calcipressin: Calcipr 87.4 0.9 2E-05 47.5 5.2 56 131-197 13-70 (184)
155 COG5243 HRD1 HRD ubiquitin lig 85.5 0.6 1.3E-05 53.6 2.9 50 5-60 286-344 (491)
156 COG5432 RAD18 RING-finger-cont 85.2 0.4 8.7E-06 53.5 1.4 45 7-63 26-72 (391)
157 KOG0802 E3 ubiquitin ligase [P 85.0 0.45 9.7E-06 56.2 1.7 55 4-65 289-345 (543)
158 KOG2164 Predicted E3 ubiquitin 83.8 0.79 1.7E-05 54.2 3.0 49 6-61 186-236 (513)
159 KOG3800 Predicted E3 ubiquitin 83.7 1.2 2.6E-05 49.7 4.2 53 8-65 2-55 (300)
160 KOG4307 RNA binding protein RB 83.5 0.74 1.6E-05 56.1 2.6 74 111-193 435-509 (944)
161 KOG2857 Predicted MYND Zn-fing 83.4 0.52 1.1E-05 48.0 1.2 28 26-62 2-29 (157)
162 PF08675 RNA_bind: RNA binding 82.4 3.5 7.6E-05 39.1 6.0 56 110-181 8-63 (87)
163 PF04564 U-box: U-box domain; 81.6 1 2.2E-05 40.0 2.1 52 5-65 3-54 (73)
164 KOG2135 Proteins containing th 81.4 0.7 1.5E-05 54.3 1.4 55 131-197 391-445 (526)
165 COG5574 PEX10 RING-finger-cont 81.4 0.99 2.2E-05 49.8 2.4 48 4-59 213-260 (271)
166 KOG4676 Splicing factor, argin 81.2 1.4 3.1E-05 50.9 3.7 74 112-191 9-82 (479)
167 KOG1365 RNA-binding protein Fu 81.1 3.8 8.3E-05 47.6 6.9 58 113-179 164-225 (508)
168 KOG0311 Predicted E3 ubiquitin 80.5 0.39 8.5E-06 54.7 -1.0 51 5-63 42-92 (381)
169 PF12861 zf-Apc11: Anaphase-pr 79.9 2.2 4.8E-05 40.2 3.8 54 5-61 20-82 (85)
170 PF10650 zf-C3H1: Putative zin 79.4 1 2.3E-05 33.4 1.2 20 199-218 2-21 (23)
171 PF11767 SET_assoc: Histone ly 78.8 2.9 6.3E-05 37.6 4.1 29 163-191 36-64 (66)
172 PF03467 Smg4_UPF3: Smg-4/UPF3 78.5 3.3 7E-05 42.9 5.0 70 110-185 7-80 (176)
173 PF12678 zf-rbx1: RING-H2 zinc 75.9 2.3 5E-05 38.0 2.7 47 5-57 18-73 (73)
174 KOG2193 IGF-II mRNA-binding pr 75.2 3.2 6.9E-05 48.7 4.1 77 111-201 2-79 (584)
175 KOG2923 Uncharacterized conser 73.4 1.5 3.3E-05 39.6 0.9 33 21-58 20-52 (67)
176 KOG4265 Predicted E3 ubiquitin 72.6 1.8 4E-05 49.3 1.5 50 4-62 288-337 (349)
177 PF07191 zinc-ribbons_6: zinc- 72.1 0.57 1.2E-05 42.7 -2.0 42 6-62 1-42 (70)
178 KOG0128 RNA-binding protein SA 71.4 1.7 3.8E-05 53.9 1.1 76 110-194 736-811 (881)
179 KOG2591 c-Mpl binding protein, 70.5 6.1 0.00013 47.7 5.1 84 104-205 168-256 (684)
180 KOG0823 Predicted E3 ubiquitin 70.3 3.1 6.7E-05 45.3 2.5 57 3-66 44-100 (230)
181 PHA02825 LAP/PHD finger-like p 67.9 4 8.8E-05 42.4 2.6 49 4-62 6-60 (162)
182 KOG1941 Acetylcholine receptor 66.5 2.3 5E-05 49.3 0.7 50 5-58 364-413 (518)
183 KOG0128 RNA-binding protein SA 66.3 0.69 1.5E-05 57.3 -3.7 70 109-186 666-735 (881)
184 KOG0287 Postreplication repair 65.3 2.3 4.9E-05 48.7 0.3 51 5-65 22-72 (442)
185 KOG0297 TNF receptor-associate 64.7 6.5 0.00014 45.3 3.8 51 4-63 19-69 (391)
186 KOG0112 Large RNA-binding prot 63.9 1.7 3.8E-05 54.3 -0.9 78 110-196 372-449 (975)
187 PF15023 DUF4523: Protein of u 63.2 26 0.00057 36.5 7.3 71 110-194 86-158 (166)
188 PF14608 zf-CCCH_2: Zinc finge 60.6 5.5 0.00012 27.9 1.4 16 200-218 2-18 (19)
189 COG5216 Uncharacterized conser 60.2 2.9 6.3E-05 37.5 0.0 34 20-58 18-52 (67)
190 PF08274 PhnA_Zn_Ribbon: PhnA 60.1 3.5 7.6E-05 32.2 0.4 26 7-32 3-29 (30)
191 COG5222 Uncharacterized conser 58.4 15 0.00033 41.8 5.0 43 7-58 275-318 (427)
192 COG5220 TFB3 Cdk activating ki 56.7 4 8.8E-05 45.0 0.4 52 5-61 9-64 (314)
193 KOG4172 Predicted E3 ubiquitin 56.3 3.7 7.9E-05 36.5 -0.0 47 6-61 7-54 (62)
194 KOG4185 Predicted E3 ubiquitin 53.3 23 0.0005 38.5 5.4 49 7-60 4-54 (296)
195 PF11793 FANCL_C: FANCL C-term 52.9 6.9 0.00015 35.0 1.2 53 6-61 2-66 (70)
196 KOG4849 mRNA cleavage factor I 52.6 13 0.00027 43.1 3.3 75 110-190 80-154 (498)
197 KOG2879 Predicted E3 ubiquitin 51.3 13 0.00027 41.9 3.0 51 4-61 237-287 (298)
198 KOG1812 Predicted E3 ubiquitin 50.8 9.9 0.00022 43.8 2.3 57 6-63 146-205 (384)
199 KOG4574 RNA-binding protein (c 49.2 9.8 0.00021 47.9 2.0 83 101-198 290-374 (1007)
200 smart00356 ZnF_C3H1 zinc finge 45.8 18 0.00039 25.8 2.2 23 197-220 4-27 (27)
201 COG5183 SSM4 Protein involved 45.7 13 0.00029 46.7 2.3 55 4-65 10-70 (1175)
202 KOG0804 Cytoplasmic Zn-finger 45.4 11 0.00024 44.7 1.5 23 5-27 174-196 (493)
203 KOG4210 Nuclear localization s 44.5 24 0.00052 39.4 3.9 109 111-233 89-203 (285)
204 PF02318 FYVE_2: FYVE-type zin 42.4 13 0.00029 36.0 1.4 49 5-58 53-102 (118)
205 KOG0824 Predicted E3 ubiquitin 41.4 20 0.00043 40.8 2.7 49 6-63 7-55 (324)
206 PF01485 IBR: IBR domain; Int 41.3 16 0.00034 30.4 1.5 34 5-38 17-56 (64)
207 PF06827 zf-FPG_IleRS: Zinc fi 41.1 3.8 8.3E-05 30.9 -2.0 28 31-58 2-29 (30)
208 KOG0826 Predicted E3 ubiquitin 40.7 15 0.00032 42.2 1.6 43 5-59 299-344 (357)
209 KOG3039 Uncharacterized conser 40.3 20 0.00043 40.0 2.4 51 7-67 222-276 (303)
210 KOG1729 FYVE finger containing 38.4 6.8 0.00015 43.9 -1.4 60 2-62 164-226 (288)
211 KOG4628 Predicted E3 ubiquitin 38.3 22 0.00048 41.0 2.5 47 8-61 231-278 (348)
212 KOG2193 IGF-II mRNA-binding pr 37.8 1.8 4E-05 50.5 -6.0 71 113-195 83-154 (584)
213 PF00642 zf-CCCH: Zinc finger 36.7 9.7 0.00021 28.4 -0.4 24 196-219 2-26 (27)
214 COG5219 Uncharacterized conser 36.3 15 0.00033 46.9 0.9 50 4-60 1467-1522(1525)
215 PF03880 DbpA: DbpA RNA bindin 36.1 66 0.0014 28.7 4.6 59 120-195 11-74 (74)
216 KOG1815 Predicted E3 ubiquitin 33.8 58 0.0013 38.1 5.0 66 3-71 67-136 (444)
217 KOG4213 RNA-binding protein La 33.6 33 0.00071 36.9 2.6 64 107-181 108-171 (205)
218 KOG3161 Predicted E3 ubiquitin 33.5 21 0.00046 44.1 1.4 48 7-65 12-59 (861)
219 KOG1785 Tyrosine kinase negati 33.3 19 0.0004 42.4 0.9 46 7-60 370-415 (563)
220 PRK04023 DNA polymerase II lar 33.1 44 0.00096 43.3 4.1 56 5-75 625-686 (1121)
221 PRK11595 DNA utilization prote 32.4 36 0.00078 36.2 2.8 40 7-61 6-45 (227)
222 PF12773 DZR: Double zinc ribb 31.3 43 0.00093 27.5 2.5 42 9-63 1-42 (50)
223 KOG1492 C3H1-type Zn-finger pr 31.0 19 0.00042 39.4 0.6 26 199-225 263-288 (377)
224 PF07576 BRAP2: BRCA1-associat 30.4 2.6E+02 0.0056 27.6 8.0 66 111-186 13-80 (110)
225 KOG0825 PHD Zn-finger protein 30.1 15 0.00032 46.2 -0.6 57 7-63 97-173 (1134)
226 KOG4159 Predicted E3 ubiquitin 30.1 33 0.00072 40.2 2.2 49 5-63 83-131 (398)
227 TIGR00416 sms DNA repair prote 29.5 25 0.00054 41.4 1.1 24 21-58 5-29 (454)
228 PF05605 zf-Di19: Drought indu 29.2 28 0.00062 29.3 1.1 39 6-59 2-40 (54)
229 PF04423 Rad50_zn_hook: Rad50 29.1 27 0.00059 29.5 1.0 17 49-65 19-35 (54)
230 KOG0804 Cytoplasmic Zn-finger 28.3 1.4E+02 0.003 36.1 6.7 66 110-185 74-140 (493)
231 PHA02862 5L protein; Provision 28.3 43 0.00093 34.9 2.4 45 7-61 3-53 (156)
232 smart00744 RINGv The RING-vari 28.1 60 0.0013 27.4 2.9 46 8-57 1-49 (49)
233 KOG0978 E3 ubiquitin ligase in 27.2 35 0.00076 42.6 1.9 50 7-65 644-693 (698)
234 PF10571 UPF0547: Uncharacteri 27.1 40 0.00087 25.6 1.5 21 8-31 2-23 (26)
235 KOG0105 Alternative splicing f 26.3 1.5E+02 0.0033 32.4 6.0 61 110-185 115-175 (241)
236 PF11781 RRN7: RNA polymerase 26.3 34 0.00074 27.6 1.1 25 8-32 10-35 (36)
237 smart00064 FYVE Protein presen 26.1 50 0.0011 28.5 2.1 41 1-41 5-45 (68)
238 PF12861 zf-Apc11: Anaphase-pr 25.7 41 0.00089 32.0 1.6 29 30-67 21-49 (85)
239 KOG1842 FYVE finger-containing 25.5 25 0.00055 41.8 0.3 40 2-41 176-215 (505)
240 KOG1493 Anaphase-promoting com 24.9 57 0.0012 31.0 2.4 54 6-60 20-80 (84)
241 PRK11823 DNA repair protein Ra 24.7 37 0.0008 39.8 1.4 24 21-58 5-29 (446)
242 COG5178 PRP8 U5 snRNP spliceos 24.5 41 0.00088 44.2 1.7 18 780-797 13-33 (2365)
243 PF12773 DZR: Double zinc ribb 24.1 65 0.0014 26.4 2.3 29 3-31 9-38 (50)
244 PF08747 DUF1788: Domain of un 23.9 42 0.00092 33.5 1.5 9 110-118 62-70 (126)
245 PRK03681 hypA hydrogenase nick 23.2 39 0.00084 33.0 1.0 19 9-27 73-91 (114)
246 KOG2891 Surface glycoprotein [ 22.7 34 0.00074 38.8 0.6 90 110-201 149-271 (445)
247 PF12677 DUF3797: Domain of un 22.2 37 0.00081 29.6 0.6 26 7-32 14-48 (49)
248 KOG0825 PHD Zn-finger protein 21.9 55 0.0012 41.5 2.1 26 783-808 945-970 (1134)
249 PF03833 PolC_DP2: DNA polymer 20.5 34 0.00073 43.6 0.0 41 7-60 656-702 (900)
250 KOG1039 Predicted E3 ubiquitin 20.2 77 0.0017 36.7 2.7 54 5-60 160-220 (344)
251 smart00647 IBR In Between Ring 20.1 59 0.0013 27.1 1.4 33 6-38 18-56 (64)
252 cd01121 Sms Sms (bacterial rad 20.1 49 0.0011 38.1 1.2 10 49-58 13-22 (372)
No 1
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=100.00 E-value=3.3e-79 Score=649.45 Aligned_cols=229 Identities=46% Similarity=0.948 Sum_probs=207.9
Q ss_pred CcccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhccchhhHHHHHHH--
Q 001872 2 SDEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERLVAEI-- 79 (1002)
Q Consensus 2 sDd~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i~~~~~~~eel~a~~-- 79 (1002)
|+|+|+.||||||+||+||++|+||+||||||+||||+|+ ++++||||||||.||++++.|..+++||+..++
T Consensus 10 sedeed~cplcie~mditdknf~pc~cgy~ic~fc~~~ir-----q~lngrcpacrr~y~denv~~~~~s~ee~kmel~r 84 (480)
T COG5175 10 SEDEEDYCPLCIEPMDITDKNFFPCPCGYQICQFCYNNIR-----QNLNGRCPACRRKYDDENVRYVTLSPEELKMELAR 84 (480)
T ss_pred cccccccCcccccccccccCCcccCCcccHHHHHHHHHHH-----hhccCCChHhhhhccccceeEEecCHHHHHHHHHh
Confidence 4566677999999999999999999999999999999996 479999999999999999999999999998776
Q ss_pred HHHHhhhhhhcccCCccccccccccccccccCEEEEeCCCCCCChhH---HhhhhhhhcCCCceeEEEEeecCCCccccc
Q 001872 80 SMERKMKSQKSKTKSSEGKKQQLSSVRVIQRNLVYIVGLPLNLGDED---LLQRREYFGQYGKVLKVSMSRTAAGVIQQF 156 (1002)
Q Consensus 80 ~~~kKqK~qk~K~k~se~RK~~LanVRVIQrNLVYV~GLp~kIAdEE---LLRk~EyFGQYGKIiKIvI~rd~~t~~qq~ 156 (1002)
+.++|++++++|+.+-.+|| ||+++||||||||||+||++++++|+ +|+++|||||||+|+||+|++...... .
T Consensus 85 k~erk~rekerke~e~~nrk-hlsniRVvQKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~n--s 161 (480)
T COG5175 85 KEERKMREKERKEAEGQNRK-HLSNIRVVQKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLN--S 161 (480)
T ss_pred hhhhhccHHHHhhhhccccc-ccccceeeecceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccc--c
Confidence 33556566666677778999 99999999999999999999999999 899999999999999999998764321 2
Q ss_pred CCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEecCCCCcccccCCCCCCCCCCcccccCCCCCCcccHHHHHhhh
Q 001872 157 PNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAY 236 (1002)
Q Consensus 157 p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASFGTTKYCs~FLRn~~C~NpdCmYLHE~g~~~DsfTKeEm~~~~ 236 (1002)
....+++||||.++|||++||++|||..+|||.|||+|||||||++||||++|.||+||||||.|++.|+|||+||....
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 23447899999999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred cc
Q 001872 237 TR 238 (1002)
Q Consensus 237 t~ 238 (1002)
+.
T Consensus 242 h~ 243 (480)
T COG5175 242 HK 243 (480)
T ss_pred hh
Confidence 65
No 2
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=100.00 E-value=3.3e-60 Score=505.89 Aligned_cols=304 Identities=43% Similarity=0.693 Sum_probs=261.9
Q ss_pred CCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhccchhhHHHHHHHHHHHhhhhhhcccCCcccccccccccccc
Q 001872 29 GYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERLVAEISMERKMKSQKSKTKSSEGKKQQLSSVRVI 108 (1002)
Q Consensus 29 GYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i~~~~~~~eel~a~~~~~kKqK~qk~K~k~se~RK~~LanVRVI 108 (1002)
|||||+||||||++++++ +|||||||++|++++|+++...+++++++++++|| |+++.|.+...+|+ ||.++|||
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 799999999999987765 79999999999999999999999999998877766 88999999999999 89999999
Q ss_pred ccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 109 QrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
|||+|||+||+..+++|++|++.+||||||+|.||++.+++... ...+.+.++||||.++|||.+||+.++|+.++||
T Consensus 76 qknlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~--s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~ 153 (327)
T KOG2068|consen 76 QKNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSS--SSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGR 153 (327)
T ss_pred hhhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccc--cCCCCCCcccccccchHhhhhHHHHhhhHHhhhh
Confidence 99999999999999999999999999999999999999987421 2334567799999999999999999999999999
Q ss_pred EEEEEecCCCCcccccCCCCCCCCCCcccccCCCCCCcccHHHHHhhhccccccccccCCcccccccCCCCCCCCCcccc
Q 001872 189 SLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTRSRVQQITGTTNNLQRRSGNVLPPPFDDYCH 268 (1002)
Q Consensus 189 ~LRASFGTTKYCs~FLRn~~C~NpdCmYLHE~g~~~DsfTKeEm~~~~t~~~~~~~tg~~~~~Qr~sg~~lPpP~~~~~~ 268 (1002)
.|+|+|||||||++||++.+|.|++||||||+++++|+|||+||+.++++. ++.+++.+.+||..+..+|+|++.+..
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 999999999999999999999999999999999999999999999999984 677888899999999999999988776
Q ss_pred cCCcCCCCCccccCCCcccccCCCCCCCCC---CCCCCCCCCcCccccccccCCCc-ccc-cCCCCCCCCCCCCCCCccc
Q 001872 269 INSVSTAKPSVKNAANNTASISKDPIPNGS---SARSVALPAAASWGMRASNQQSV-ATS-ACSNGPSKQRPDTVGGALA 343 (1002)
Q Consensus 269 ~~~~ss~~p~~k~~~~n~~~~~r~~~p~~s---~~~s~ALPssAsWa~r~s~~~~~-~~~-~~~~~~~~~~~~~~~~~~~ 343 (1002)
. .+ .|..+...+..+.+....||-.+ ..++.+||.+++|++ +.+. +|. ...+...-.+.+...++.+
T Consensus 232 ~---~s-~p~~~~~~~~~~~v~~s~p~~~~~~~~~d~~~lP~~~~~~~----~l~~~~t~~~~~~~~~~~rk~~~~~t~~ 303 (327)
T KOG2068|consen 232 Q---RS-APDAQLDFSSVTSVPPSCPICYEDLDLTDSNFLPCPCGFRL----CLFCHKTISDGDGRCPGCRKPYERNTKK 303 (327)
T ss_pred c---cC-CcccccCCccccccCCCCCCCCCcccccccccccccccccc----hhhhhhcccccCCCCCccCCccccCccc
Confidence 5 22 67766555555566676666665 779999999999994 4432 443 3444555556667777777
Q ss_pred cccccc
Q 001872 344 FSSAVA 349 (1002)
Q Consensus 344 ~ss~v~ 349 (1002)
|++.+-
T Consensus 304 s~~~~~ 309 (327)
T KOG2068|consen 304 SETSVQ 309 (327)
T ss_pred cccccc
Confidence 777666
No 3
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=99.83 E-value=1.7e-21 Score=160.25 Aligned_cols=48 Identities=56% Similarity=1.481 Sum_probs=30.3
Q ss_pred CCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 9 CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
||+|+|+||+||++|+||+||||||+||||+|+ ++++|+||+||++|+
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 357999999999995
No 4
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=99.46 E-value=2.6e-13 Score=132.04 Aligned_cols=89 Identities=19% Similarity=0.355 Sum_probs=76.2
Q ss_pred ccccccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001872 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (1002)
Q Consensus 101 ~LanVRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaL 180 (1002)
.+..+|-... .|||.||++.+++++|. ++|.+||+|.+|.|.++..+.. ..++|||+|.+.|+|++||+.|
T Consensus 26 ~~~~~~~~~~-~lfVgnL~~~~te~~L~---~~F~~~G~I~~v~i~~d~~tg~-----~kGfaFV~F~~~e~A~~Al~~l 96 (144)
T PLN03134 26 MLGSLRLMST-KLFIGGLSWGTDDASLR---DAFAHFGDVVDAKVIVDRETGR-----SRGFGFVNFNDEGAATAAISEM 96 (144)
T ss_pred ccccccCCCC-EEEEeCCCCCCCHHHHH---HHHhcCCCeEEEEEEecCCCCC-----cceEEEEEECCHHHHHHHHHHc
Confidence 3444454444 59999999999888875 9999999999999999887652 4568999999999999999999
Q ss_pred CCCccCCeEEEEEecCCC
Q 001872 181 HGFVLEGKSLKACFGTTK 198 (1002)
Q Consensus 181 NGs~LDGR~LRASFGTTK 198 (1002)
||..|+||.|+|.+++.|
T Consensus 97 ng~~i~Gr~l~V~~a~~~ 114 (144)
T PLN03134 97 DGKELNGRHIRVNPANDR 114 (144)
T ss_pred CCCEECCEEEEEEeCCcC
Confidence 999999999999998764
No 5
>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=144.23 Aligned_cols=80 Identities=23% Similarity=0.398 Sum_probs=72.5
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.|||+|||+.+++++|. ++|++||.|..|.|.++..++. .+|+|||+|.+.++|.+||++|||..++||.|+
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---QLFGPFGAVQNVKIIRDLTTNQ-----CKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQ 342 (352)
T ss_pred EEEEeCCCCCCCHHHHH---HHHHhCCCeEEEEEeEcCCCCC-----ccceEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence 59999999999877764 8999999999999999986643 456899999999999999999999999999999
Q ss_pred EEecCCCC
Q 001872 192 ACFGTTKY 199 (1002)
Q Consensus 192 ASFGTTKY 199 (1002)
|+|.+.|-
T Consensus 343 V~~~~~~~ 350 (352)
T TIGR01661 343 VSFKTNKA 350 (352)
T ss_pred EEEccCCC
Confidence 99999873
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=99.43 E-value=4.3e-13 Score=109.65 Aligned_cols=70 Identities=23% Similarity=0.650 Sum_probs=62.8
Q ss_pred EEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 113 VYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
|||+|||+.+++++|. ++|++||+|..|.|..+... ...+.|||+|.+.++|.+|++.+||..++|+.||
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 7999999999998985 89999999999999987222 2356899999999999999999999999999997
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.39 E-value=1.2e-12 Score=138.68 Aligned_cols=109 Identities=17% Similarity=0.358 Sum_probs=86.3
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
++.|||+|||+++++++|. ++|++||+|..|.|.+++.++. ..++|||+|.+.+||.+||..|||..+.|+.
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---SLFTSIGEIESCKLVRDKVTGQ-----SLGYGFVNYVRPEDAEKAVNSLNGLRLQNKT 74 (352)
T ss_pred CcEEEEeCCCCCCCHHHHH---HHHHccCCEEEEEEEEcCCCCc-----cceEEEEEECcHHHHHHHHhhcccEEECCee
Confidence 6889999999999988885 9999999999999999877642 4568999999999999999999999999999
Q ss_pred EEEEecCCCCcccccCCCCCCCCCCcccccCCCCCCcccHHHHHhhhc
Q 001872 190 LKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYT 237 (1002)
Q Consensus 190 LRASFGTTKYCs~FLRn~~C~NpdCmYLHE~g~~~DsfTKeEm~~~~t 237 (1002)
|+|.|+..+. .-+ ....+|+.-+.. .+|.++|.....
T Consensus 75 i~v~~a~~~~--~~~------~~~~l~v~~l~~---~~~~~~l~~~f~ 111 (352)
T TIGR01661 75 IKVSYARPSS--DSI------KGANLYVSGLPK---TMTQHELESIFS 111 (352)
T ss_pred EEEEeecccc--ccc------ccceEEECCccc---cCCHHHHHHHHh
Confidence 9999986432 111 122355554443 356777776443
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=99.25 E-value=2.3e-11 Score=101.56 Aligned_cols=70 Identities=30% Similarity=0.595 Sum_probs=61.4
Q ss_pred EEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 113 VYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
|||.|||+.+++++|. ++|.+||.|.+|.+.+++. + ..++.|||+|.+.++|.+|++..+|..++||.|+
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---NFFSRFGPVEKVRLIKNKD-G-----QSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR 70 (70)
T ss_dssp EEEESSTTT--HHHHH---HHCTTSSBEEEEEEEESTT-S-----SEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred CEEeCCCCCCCHHHHH---HHHHhcCCcceEEEEeeec-c-----ccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence 7999999999988885 8999999999999998765 2 1356899999999999999999999999999986
No 9
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.23 E-value=2.7e-11 Score=114.90 Aligned_cols=75 Identities=19% Similarity=0.515 Sum_probs=68.6
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
.-++||.|||.+|+.|++ +|+||+||.|..|.|..++.| +|.|||.|++..||.+|...|.|+.+++|.
T Consensus 18 nriLyirNLp~~ITseem---ydlFGkyg~IrQIRiG~~k~T--------rGTAFVVYedi~dAk~A~dhlsg~n~~~ry 86 (124)
T KOG0114|consen 18 NRILYIRNLPFKITSEEM---YDLFGKYGTIRQIRIGNTKET--------RGTAFVVYEDIFDAKKACDHLSGYNVDNRY 86 (124)
T ss_pred heeEEEecCCccccHHHH---HHHhhcccceEEEEecCccCc--------CceEEEEehHhhhHHHHHHHhcccccCCce
Confidence 357999999999999999 499999999999999887765 368999999999999999999999999999
Q ss_pred EEEEec
Q 001872 190 LKACFG 195 (1002)
Q Consensus 190 LRASFG 195 (1002)
|+|-|=
T Consensus 87 l~vlyy 92 (124)
T KOG0114|consen 87 LVVLYY 92 (124)
T ss_pred EEEEec
Confidence 999873
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=99.22 E-value=3.1e-11 Score=132.42 Aligned_cols=111 Identities=16% Similarity=0.309 Sum_probs=85.8
Q ss_pred cccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 108 IQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
....+|||.+||+.+++++|. ++|.+||+|++|.|.++..+.. ..++|||+|.++++|.+||+.|||..+.|
T Consensus 105 ~~~~~LfVgnLp~~~te~~L~---~lF~~~G~V~~v~i~~d~~tg~-----srGyaFVeF~~~e~A~~Ai~~LnG~~l~g 176 (346)
T TIGR01659 105 NSGTNLIVNYLPQDMTDRELY---ALFRTIGPINTCRIMRDYKTGY-----SFGYAFVDFGSEADSQRAIKNLNGITVRN 176 (346)
T ss_pred CCCcEEEEeCCCCCCCHHHHH---HHHHhcCCEEEEEEEecCCCCc-----cCcEEEEEEccHHHHHHHHHHcCCCccCC
Confidence 346789999999999988874 9999999999999999877653 34679999999999999999999999999
Q ss_pred eEEEEEecCCCCcccccCCCCCCCCCCcccccCCCCCCcccHHHHHhhhc
Q 001872 188 KSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYT 237 (1002)
Q Consensus 188 R~LRASFGTTKYCs~FLRn~~C~NpdCmYLHE~g~~~DsfTKeEm~~~~t 237 (1002)
+.|+|.|+...... ....-+|+--+ ...+|.|||.....
T Consensus 177 r~i~V~~a~p~~~~--------~~~~~lfV~nL---p~~vtee~L~~~F~ 215 (346)
T TIGR01659 177 KRLKVSYARPGGES--------IKDTNLYVTNL---PRTITDDQLDTIFG 215 (346)
T ss_pred ceeeeecccccccc--------cccceeEEeCC---CCcccHHHHHHHHH
Confidence 99999998653211 01112343333 23567788876543
No 11
>smart00362 RRM_2 RNA recognition motif.
Probab=99.17 E-value=1.3e-10 Score=92.46 Aligned_cols=72 Identities=25% Similarity=0.577 Sum_probs=63.5
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.|||.|||..++.++|. ++|.+||+|..|.+..+. . ...+.|||+|.+.++|.+|++.++|..+.|+.|+
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 48999999999988885 899999999999998765 1 1345799999999999999999999999999998
Q ss_pred EE
Q 001872 192 AC 193 (1002)
Q Consensus 192 AS 193 (1002)
|.
T Consensus 71 v~ 72 (72)
T smart00362 71 VE 72 (72)
T ss_pred eC
Confidence 73
No 12
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.16 E-value=6.1e-11 Score=126.56 Aligned_cols=75 Identities=17% Similarity=0.434 Sum_probs=67.0
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
..+|||+||+.-+++ ++|| +.|.+||.|.+|+|-+++ ++|||.|+++|.|++||..|||.++.|.+
T Consensus 164 NtsVY~G~I~~~lte-~~mr--~~Fs~fG~I~EVRvFk~q-----------GYaFVrF~tkEaAahAIv~mNntei~G~~ 229 (321)
T KOG0148|consen 164 NTSVYVGNIASGLTE-DLMR--QTFSPFGPIQEVRVFKDQ-----------GYAFVRFETKEAAAHAIVQMNNTEIGGQL 229 (321)
T ss_pred CceEEeCCcCccccH-HHHH--HhcccCCcceEEEEeccc-----------ceEEEEecchhhHHHHHHHhcCceeCceE
Confidence 578999999998764 5554 799999999999998873 36899999999999999999999999999
Q ss_pred EEEEecCCC
Q 001872 190 LKACFGTTK 198 (1002)
Q Consensus 190 LRASFGTTK 198 (1002)
+||+||.+.
T Consensus 230 VkCsWGKe~ 238 (321)
T KOG0148|consen 230 VRCSWGKEG 238 (321)
T ss_pred EEEeccccC
Confidence 999999763
No 13
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.16 E-value=9.7e-11 Score=124.82 Aligned_cols=75 Identities=17% Similarity=0.292 Sum_probs=67.0
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
.+.|||+||++.+++++|. ++|++||+|.+|.|.++.. .+++|||||.+.++|..||. |||..|+||.
T Consensus 4 ~rtVfVgNLs~~tTE~dLr---efFS~~G~I~~V~I~~d~~--------~~GfAFVtF~d~eaAe~All-LnG~~l~gr~ 71 (260)
T PLN03120 4 VRTVKVSNVSLKATERDIK---EFFSFSGDIEYVEMQSENE--------RSQIAYVTFKDPQGAETALL-LSGATIVDQS 71 (260)
T ss_pred CCEEEEeCCCCCCCHHHHH---HHHHhcCCeEEEEEeecCC--------CCCEEEEEeCcHHHHHHHHH-hcCCeeCCce
Confidence 4689999999999988874 9999999999999998753 23589999999999999995 9999999999
Q ss_pred EEEEecC
Q 001872 190 LKACFGT 196 (1002)
Q Consensus 190 LRASFGT 196 (1002)
|+|....
T Consensus 72 V~Vt~a~ 78 (260)
T PLN03120 72 VTITPAE 78 (260)
T ss_pred EEEEecc
Confidence 9999854
No 14
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.15 E-value=5.9e-11 Score=120.54 Aligned_cols=79 Identities=16% Similarity=0.286 Sum_probs=71.4
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
...|||+||+.++++.||- ..|+.||+|.+|.|.+. +.++|||+|++..||++|+.+|||..|+|..
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 4569999999999999984 89999999999999874 2357999999999999999999999999999
Q ss_pred EEEEecCCCCcc
Q 001872 190 LKACFGTTKYCH 201 (1002)
Q Consensus 190 LRASFGTTKYCs 201 (1002)
|+|.+.+-++--
T Consensus 77 ~rVE~S~G~~r~ 88 (195)
T KOG0107|consen 77 IRVELSTGRPRG 88 (195)
T ss_pred EEEEeecCCccc
Confidence 999999888763
No 15
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.15 E-value=5.9e-11 Score=123.67 Aligned_cols=87 Identities=21% Similarity=0.425 Sum_probs=76.9
Q ss_pred ccccC-EEEEeCCCCCCChhHHhhh-hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCc
Q 001872 107 VIQRN-LVYIVGLPLNLGDEDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV 184 (1002)
Q Consensus 107 VIQrN-LVYV~GLp~kIAdEELLRk-~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~ 184 (1002)
.+..| ++||-+|+.+|..++|.|. +.+|+|||+|++|++.+... -+|.|||.|.+.+.|..|+++|+|+.
T Consensus 5 ~~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~K--------mRGQA~VvFk~~~~As~A~r~l~gfp 76 (221)
T KOG4206|consen 5 SVNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPK--------MRGQAFVVFKETEAASAALRALQGFP 76 (221)
T ss_pred ccCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCC--------ccCceEEEecChhHHHHHHHHhcCCc
Confidence 34444 9999999999998888765 99999999999999987654 35689999999999999999999999
Q ss_pred cCCeEEEEEecCCCCcc
Q 001872 185 LEGKSLKACFGTTKYCH 201 (1002)
Q Consensus 185 LDGR~LRASFGTTKYCs 201 (1002)
+.|+++|++|+.+|-|-
T Consensus 77 FygK~mriqyA~s~sdi 93 (221)
T KOG4206|consen 77 FYGKPMRIQYAKSDSDI 93 (221)
T ss_pred ccCchhheecccCccch
Confidence 99999999999988763
No 16
>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=99.15 E-value=1.3e-10 Score=127.52 Aligned_cols=83 Identities=23% Similarity=0.480 Sum_probs=72.7
Q ss_pred cccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 108 IQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
++...|||.|||+.+++|+|. ++|++||+|++|.|.+++.+.. +.++|||+|.+.|+|++||+.|||..++|
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---TIFGKYGQIVQKNILRDKLTGT-----PRGVAFVRFNKREEAQEAISALNNVIPEG 262 (346)
T ss_pred cccceeEEeCCCCcccHHHHH---HHHHhcCCEEEEEEeecCCCCc-----cceEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 346679999999999988874 8999999999999999876542 45689999999999999999999999977
Q ss_pred --eEEEEEecCCC
Q 001872 188 --KSLKACFGTTK 198 (1002)
Q Consensus 188 --R~LRASFGTTK 198 (1002)
+.|+|.++..+
T Consensus 263 ~~~~l~V~~a~~~ 275 (346)
T TIGR01659 263 GSQPLTVRLAEEH 275 (346)
T ss_pred CceeEEEEECCcc
Confidence 68999998875
No 17
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.14 E-value=1.5e-10 Score=110.77 Aligned_cols=80 Identities=26% Similarity=0.483 Sum_probs=72.5
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
...|||+|||..+++++|. ++|.+||.|..|.|..++.++. ..++|||+|.+.++|..||..++|..+.||.
T Consensus 115 ~~~l~v~nL~~~~~~~~l~---~~F~~~g~~~~~~~~~d~~~~~-----~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~ 186 (306)
T COG0724 115 NNTLFVGNLPYDVTEEDLR---ELFKKFGPVKRVRLVRDRETGK-----SRGFAFVEFESEESAEKAIEELNGKELEGRP 186 (306)
T ss_pred CceEEEeCCCCCCCHHHHH---HHHHhcCceeEEEeeeccccCc-----cCceEEEEecCHHHHHHHHHHcCCCeECCce
Confidence 5899999999999999985 8999999999999999875442 4568999999999999999999999999999
Q ss_pred EEEEecCC
Q 001872 190 LKACFGTT 197 (1002)
Q Consensus 190 LRASFGTT 197 (1002)
|+|.+.+-
T Consensus 187 ~~v~~~~~ 194 (306)
T COG0724 187 LRVQKAQP 194 (306)
T ss_pred eEeecccc
Confidence 99999764
No 18
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.13 E-value=1.3e-10 Score=122.61 Aligned_cols=82 Identities=18% Similarity=0.423 Sum_probs=75.0
Q ss_pred ccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 109 QrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
-.+.|-|.||+..+.+++|. |+|.+||.|.+|.|.+++.|+. .+|+|||+|...|||++||..|||+-+|.-
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---ELFRPFGPITRVYLARDKETGL-----SKGFAFVTFESRDDAARAIADLNGYGYDNL 259 (270)
T ss_pred ccceeEEecCccccChhHHH---HHhhccCccceeEEEEccccCc-----ccceEEEEEecHHHHHHHHHHccCcccceE
Confidence 46778889999999988884 9999999999999999999874 467899999999999999999999999999
Q ss_pred EEEEEecCCC
Q 001872 189 SLKACFGTTK 198 (1002)
Q Consensus 189 ~LRASFGTTK 198 (1002)
+|||.|.+.+
T Consensus 260 ILrvEwskP~ 269 (270)
T KOG0122|consen 260 ILRVEWSKPS 269 (270)
T ss_pred EEEEEecCCC
Confidence 9999999865
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=99.13 E-value=1.4e-10 Score=135.24 Aligned_cols=81 Identities=22% Similarity=0.384 Sum_probs=72.9
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
.+.|||+||++.+++++|. ++|++||+|.+|.|.++..++. .+|+|||+|.+.++|.+||..|||+.++|+.
T Consensus 204 ~~rLfVgnLp~~vteedLk---~lFs~FG~I~svrl~~D~~tgk-----sKGfGFVeFe~~e~A~kAI~amNg~elgGr~ 275 (612)
T TIGR01645 204 FNRIYVASVHPDLSETDIK---SVFEAFGEIVKCQLARAPTGRG-----HKGYGFIEYNNLQSQSEAIASMNLFDLGGQY 275 (612)
T ss_pred cceEEeecCCCCCCHHHHH---HHHhhcCCeeEEEEEecCCCCC-----cCCeEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence 3679999999999988874 8999999999999999877642 4567999999999999999999999999999
Q ss_pred EEEEecCCC
Q 001872 190 LKACFGTTK 198 (1002)
Q Consensus 190 LRASFGTTK 198 (1002)
|||.++.++
T Consensus 276 LrV~kAi~p 284 (612)
T TIGR01645 276 LRVGKCVTP 284 (612)
T ss_pred EEEEecCCC
Confidence 999998865
No 20
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.13 E-value=3.4e-11 Score=125.75 Aligned_cols=84 Identities=15% Similarity=0.321 Sum_probs=74.5
Q ss_pred ccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001872 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (1002)
Q Consensus 107 VIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LD 186 (1002)
-.||+++||+||...++ |.+| +.-|-.||.|.+|.|+.|.++.+ .++++||+|...|||..||..||+.+|.
T Consensus 7 a~~KrtlYVGGladeVt-ekvL--haAFIPFGDI~dIqiPlDyesqk-----HRgFgFVefe~aEDAaaAiDNMnesEL~ 78 (298)
T KOG0111|consen 7 ANQKRTLYVGGLADEVT-EKVL--HAAFIPFGDIKDIQIPLDYESQK-----HRGFGFVEFEEAEDAAAAIDNMNESELF 78 (298)
T ss_pred cccceeEEeccchHHHH-HHHH--Hhccccccchhhcccccchhccc-----ccceeEEEeeccchhHHHhhcCchhhhc
Confidence 35788999999999985 6677 58999999999999999887643 3567999999999999999999999999
Q ss_pred CeEEEEEecCCC
Q 001872 187 GKSLKACFGTTK 198 (1002)
Q Consensus 187 GR~LRASFGTTK 198 (1002)
||+|||.|+..-
T Consensus 79 GrtirVN~AkP~ 90 (298)
T KOG0111|consen 79 GRTIRVNLAKPE 90 (298)
T ss_pred ceeEEEeecCCc
Confidence 999999999763
No 21
>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=99.13 E-value=3.3e-10 Score=90.49 Aligned_cols=74 Identities=27% Similarity=0.552 Sum_probs=65.8
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.|||.|||+.++++++. ++|.+||.|.++.+..+..+. +.+.|||+|.+.++|..|++.++|..++|+.|.
T Consensus 1 ~i~i~~l~~~~~~~~i~---~~~~~~g~i~~~~~~~~~~~~------~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~ 71 (74)
T cd00590 1 TLFVGNLPPDVTEEDLR---ELFSKFGKVESVRIVRDKDTK------SKGFAFVEFEDEEDAEKALEALNGKELGGRPLR 71 (74)
T ss_pred CEEEeCCCCccCHHHHH---HHHHhcCCEEEEEEeeCCCCC------cceEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence 48999999999988886 899999999999999876541 356899999999999999999999999999999
Q ss_pred EEe
Q 001872 192 ACF 194 (1002)
Q Consensus 192 ASF 194 (1002)
|.|
T Consensus 72 v~~ 74 (74)
T cd00590 72 VEF 74 (74)
T ss_pred EeC
Confidence 875
No 22
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.11 E-value=2.3e-10 Score=133.56 Aligned_cols=79 Identities=19% Similarity=0.355 Sum_probs=70.0
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
...|||+||++.+++++|. ++|.+||.|.+|.|.+++.++. +.++|||+|.+.++|.+||+.|||..++||.
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr---~lF~~fG~I~sV~I~~D~~Tgk-----skGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~ 178 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIR---RAFDPFGPIKSINMSWDPATGK-----HKGFAFVEYEVPEAAQLALEQMNGQMLGGRN 178 (612)
T ss_pred CCEEEEcCCCCCCCHHHHH---HHHHccCCEEEEEEeecCCCCC-----cCCeEEEEeCcHHHHHHHHHhcCCeEEecce
Confidence 3469999999999888874 8999999999999999887653 4568999999999999999999999999999
Q ss_pred EEEEecC
Q 001872 190 LKACFGT 196 (1002)
Q Consensus 190 LRASFGT 196 (1002)
|+|.+..
T Consensus 179 IkV~rp~ 185 (612)
T TIGR01645 179 IKVGRPS 185 (612)
T ss_pred eeecccc
Confidence 9998543
No 23
>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=99.10 E-value=2.3e-10 Score=130.11 Aligned_cols=82 Identities=27% Similarity=0.408 Sum_probs=72.2
Q ss_pred cccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 108 IQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
.+...|||.||++.+++++|. ++|++||.|.+|.|.++..+ ..+++|||+|.+.++|.+||..|||..++|
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 345679999999999988875 89999999999999998432 245689999999999999999999999999
Q ss_pred eEEEEEecCCC
Q 001872 188 KSLKACFGTTK 198 (1002)
Q Consensus 188 R~LRASFGTTK 198 (1002)
|.|+|.|+..|
T Consensus 354 k~l~V~~a~~k 364 (562)
T TIGR01628 354 KPLYVALAQRK 364 (562)
T ss_pred ceeEEEeccCc
Confidence 99999998755
No 24
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.09 E-value=4.2e-10 Score=125.43 Aligned_cols=82 Identities=17% Similarity=0.313 Sum_probs=72.6
Q ss_pred ccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 109 QrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
..+.|||+|||..+++++|. ++|.+||.|..|.|.++..++. ..++|||+|.+.++|..||+.|||..++|+
T Consensus 294 ~~~~l~v~nlp~~~~~~~l~---~~f~~~G~i~~~~~~~~~~~g~-----~~g~afv~f~~~~~a~~A~~~l~g~~~~~~ 365 (509)
T TIGR01642 294 SKDRIYIGNLPLYLGEDQIK---ELLESFGDLKAFNLIKDIATGL-----SKGYAFCEYKDPSVTDVAIAALNGKDTGDN 365 (509)
T ss_pred CCCEEEEeCCCCCCCHHHHH---HHHHhcCCeeEEEEEecCCCCC-----cCeEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence 45789999999999888875 9999999999999998876542 456899999999999999999999999999
Q ss_pred EEEEEecCCC
Q 001872 189 SLKACFGTTK 198 (1002)
Q Consensus 189 ~LRASFGTTK 198 (1002)
.|+|.|+...
T Consensus 366 ~l~v~~a~~~ 375 (509)
T TIGR01642 366 KLHVQRACVG 375 (509)
T ss_pred EEEEEECccC
Confidence 9999998643
No 25
>smart00360 RRM RNA recognition motif.
Probab=99.09 E-value=3.3e-10 Score=89.58 Aligned_cols=71 Identities=25% Similarity=0.521 Sum_probs=62.1
Q ss_pred EeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEE
Q 001872 115 IVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKAC 193 (1002)
Q Consensus 115 V~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRAS 193 (1002)
|.|||..+++++|. ++|.+||.|..|.|.+++.++ ...+.|||+|.+.++|.+||..++|..++|+.|+|+
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 57999999988885 899999999999998876533 245689999999999999999999999999999874
No 26
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.09 E-value=3.1e-10 Score=125.08 Aligned_cols=79 Identities=22% Similarity=0.435 Sum_probs=71.4
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
...|||+|||..+++++|. ++|++||.|.+|.|.++..++. ..++|||+|.+.++|.+||..|||..+.|+.
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---QIFEPFGDIEDVQLHRDPETGR-----SKGFGFIQFHDAEEAKEALEVMNGFELAGRP 257 (457)
T ss_pred CCEEEEcCCCCCCCHHHHH---HHHHhcCCeEEEEEEEcCCCCc-----cceEEEEEECCHHHHHHHHHhcCCcEECCEE
Confidence 5679999999999988874 8999999999999999876542 3467999999999999999999999999999
Q ss_pred EEEEecC
Q 001872 190 LKACFGT 196 (1002)
Q Consensus 190 LRASFGT 196 (1002)
|+|.|++
T Consensus 258 i~v~~a~ 264 (457)
T TIGR01622 258 IKVGYAQ 264 (457)
T ss_pred EEEEEcc
Confidence 9999987
No 27
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.08 E-value=1.7e-10 Score=125.55 Aligned_cols=79 Identities=25% Similarity=0.455 Sum_probs=70.6
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
-+.|||.|||.++.|.||. .+|++||+|++|.|..+..+ ++ |++||||++.+||+||-++|+|..++||+
T Consensus 96 pkRLhVSNIPFrFRdpDL~---aMF~kfG~VldVEIIfNERG------SK-GFGFVTmen~~dadRARa~LHgt~VEGRk 165 (376)
T KOG0125|consen 96 PKRLHVSNIPFRFRDPDLR---AMFEKFGKVLDVEIIFNERG------SK-GFGFVTMENPADADRARAELHGTVVEGRK 165 (376)
T ss_pred CceeEeecCCccccCccHH---HHHHhhCceeeEEEEeccCC------CC-ccceEEecChhhHHHHHHHhhcceeeceE
Confidence 3558999999999999984 89999999999999876432 24 46799999999999999999999999999
Q ss_pred EEEEecCCC
Q 001872 190 LKACFGTTK 198 (1002)
Q Consensus 190 LRASFGTTK 198 (1002)
|.|.-+|.+
T Consensus 166 IEVn~ATar 174 (376)
T KOG0125|consen 166 IEVNNATAR 174 (376)
T ss_pred EEEeccchh
Confidence 999999988
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=99.07 E-value=4.2e-10 Score=91.71 Aligned_cols=55 Identities=20% Similarity=0.518 Sum_probs=49.1
Q ss_pred hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEec
Q 001872 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFG 195 (1002)
Q Consensus 131 ~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASFG 195 (1002)
+++|++||+|.+|.+.++. ++.|||+|.+.++|.+|++.|||..++|+.|+|+|+
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 3899999999999997653 257999999999999999999999999999999985
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=99.05 E-value=4.2e-10 Score=128.04 Aligned_cols=109 Identities=16% Similarity=0.338 Sum_probs=84.4
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.|||+|||+++++++|. ++|++||.|.+|.|.++..++. ..++|||+|.+.+||++||..+|+..+.|+.||
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---DLFKPFGPVLSVRVCRDSVTRR-----SLGYGYVNFQNPADAERALETMNFKRLGGKPIR 73 (562)
T ss_pred eEEEeCCCCCCCHHHHH---HHHHhcCCEEEEEEEecCCCCC-----cceEEEEEECCHHHHHHHHHHhCCCEECCeeEE
Confidence 59999999999988874 9999999999999999987653 456899999999999999999999999999999
Q ss_pred EEecCCCCcccccCCCCCCCCCCcccccCCCCCCcccHHHHHhhhc
Q 001872 192 ACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYT 237 (1002)
Q Consensus 192 ASFGTTKYCs~FLRn~~C~NpdCmYLHE~g~~~DsfTKeEm~~~~t 237 (1002)
+.|....- -+ ........|+.-+. ...|.++|.....
T Consensus 74 i~~s~~~~---~~---~~~~~~~vfV~nLp---~~~~~~~L~~~F~ 110 (562)
T TIGR01628 74 IMWSQRDP---SL---RRSGVGNIFVKNLD---KSVDNKALFDTFS 110 (562)
T ss_pred eecccccc---cc---cccCCCceEEcCCC---ccCCHHHHHHHHH
Confidence 99864321 11 11123345655443 3567777776544
No 30
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.05 E-value=5.7e-10 Score=118.81 Aligned_cols=81 Identities=26% Similarity=0.424 Sum_probs=72.7
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
.-++||.+|.+.. +|.+| .++||+||.|..|+|.+|..+.. ++| ++|||+.+.+||..||..|||+.+.+|+
T Consensus 278 g~ciFvYNLspd~-de~~L--WQlFgpFGAv~nVKvirD~ttnk----CKG-fgFVtMtNYdEAamAi~sLNGy~lg~rv 349 (360)
T KOG0145|consen 278 GWCIFVYNLSPDA-DESIL--WQLFGPFGAVTNVKVIRDFTTNK----CKG-FGFVTMTNYDEAAMAIASLNGYRLGDRV 349 (360)
T ss_pred eeEEEEEecCCCc-hHhHH--HHHhCcccceeeEEEEecCCccc----ccc-eeEEEecchHHHHHHHHHhcCccccceE
Confidence 3579999999995 67777 58999999999999999987642 566 5799999999999999999999999999
Q ss_pred EEEEecCCC
Q 001872 190 LKACFGTTK 198 (1002)
Q Consensus 190 LRASFGTTK 198 (1002)
|.|+|.|.|
T Consensus 350 LQVsFKtnk 358 (360)
T KOG0145|consen 350 LQVSFKTNK 358 (360)
T ss_pred EEEEEecCC
Confidence 999999987
No 31
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.04 E-value=2.1e-10 Score=120.44 Aligned_cols=78 Identities=17% Similarity=0.348 Sum_probs=67.0
Q ss_pred ccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 109 QrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
.-..|||+||+|...+|+|. +||.|||+|++.+|..|+.+++ +.+++||||.+.|.|.||.+.-| -.||||
T Consensus 11 ~~TKifVggL~w~T~~~~l~---~yFeqfGeI~eavvitd~~t~r-----skGyGfVTf~d~~aa~rAc~dp~-piIdGR 81 (247)
T KOG0149|consen 11 TFTKIFVGGLAWETHKETLR---RYFEQFGEIVEAVVITDKNTGR-----SKGYGFVTFRDAEAATRACKDPN-PIIDGR 81 (247)
T ss_pred eEEEEEEcCcccccchHHHH---HHHHHhCceEEEEEEeccCCcc-----ccceeeEEeecHHHHHHHhcCCC-Cccccc
Confidence 34679999999999888874 7999999999999999998875 34567999999999999999755 479999
Q ss_pred EEEEEec
Q 001872 189 SLKACFG 195 (1002)
Q Consensus 189 ~LRASFG 195 (1002)
+-.|.++
T Consensus 82 ~aNcnlA 88 (247)
T KOG0149|consen 82 KANCNLA 88 (247)
T ss_pred ccccchh
Confidence 9987764
No 32
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.01 E-value=4.5e-10 Score=109.94 Aligned_cols=77 Identities=16% Similarity=0.324 Sum_probs=70.8
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
-++|||+||+..+++|.| +|+|++.|.|.+|+|..++-+. + +.+++||.|...+||+.|++.++|+.||.|+
T Consensus 36 S~tvyVgNlSfyttEEqi---yELFs~cG~irriiMGLdr~kk---t--pCGFCFVeyy~~~dA~~AlryisgtrLddr~ 107 (153)
T KOG0121|consen 36 SCTVYVGNLSFYTTEEQI---YELFSKCGDIRRIIMGLDRFKK---T--PCGFCFVEYYSRDDAEDALRYISGTRLDDRP 107 (153)
T ss_pred cceEEEeeeeeeecHHHH---HHHHHhccchheeEeccccCCc---C--ccceEEEEEecchhHHHHHHHhccCcccccc
Confidence 789999999999998888 5999999999999999887654 2 5688999999999999999999999999999
Q ss_pred EEEEe
Q 001872 190 LKACF 194 (1002)
Q Consensus 190 LRASF 194 (1002)
||+.|
T Consensus 108 ir~D~ 112 (153)
T KOG0121|consen 108 IRIDW 112 (153)
T ss_pred eeeec
Confidence 99975
No 33
>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=99.00 E-value=1.1e-09 Score=123.66 Aligned_cols=76 Identities=21% Similarity=0.389 Sum_probs=66.6
Q ss_pred ccCEEEEeCCCC-CCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 109 QRNLVYIVGLPL-NLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 109 QrNLVYV~GLp~-kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
....|||.||++ .+++++|. ++|++||.|.+|+|.+++ +++|||+|.+.++|.+||+.|||..|+|
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 68766663 999999999999998752 3579999999999999999999999999
Q ss_pred eEEEEEecCC
Q 001872 188 KSLKACFGTT 197 (1002)
Q Consensus 188 R~LRASFGTT 197 (1002)
+.|+|+|...
T Consensus 341 ~~l~v~~s~~ 350 (481)
T TIGR01649 341 KPLRVCPSKQ 350 (481)
T ss_pred ceEEEEEccc
Confidence 9999998644
No 34
>PLN03213 repressor of silencing 3; Provisional
Probab=98.98 E-value=9e-10 Score=124.40 Aligned_cols=78 Identities=26% Similarity=0.374 Sum_probs=69.1
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCH--HHHHHHHHHhCCCccCCe
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKE--EEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~--EDA~rAIqaLNGs~LDGR 188 (1002)
-.|||+||++.++++||. ..|++||.|.+|.|+++ ++ ++||||+|... +++.+||..|||..+.||
T Consensus 11 MRIYVGNLSydVTEDDLr---avFSeFGsVkdVEIpRE--TG-------RGFAFVEMssdddaEeeKAISaLNGAEWKGR 78 (759)
T PLN03213 11 VRLHVGGLGESVGRDDLL---KIFSPMGTVDAVEFVRT--KG-------RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGG 78 (759)
T ss_pred eEEEEeCCCCCCCHHHHH---HHHHhcCCeeEEEEecc--cC-------CceEEEEecCCcHHHHHHHHHHhcCCeecCc
Confidence 458999999999999985 89999999999999944 22 46899999987 789999999999999999
Q ss_pred EEEEEecCCCCc
Q 001872 189 SLKACFGTTKYC 200 (1002)
Q Consensus 189 ~LRASFGTTKYC 200 (1002)
.|||.-+..+|=
T Consensus 79 ~LKVNKAKP~YL 90 (759)
T PLN03213 79 RLRLEKAKEHYL 90 (759)
T ss_pred eeEEeeccHHHH
Confidence 999999987763
No 35
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=98.98 E-value=4.4e-10 Score=116.71 Aligned_cols=80 Identities=19% Similarity=0.363 Sum_probs=71.1
Q ss_pred ccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 109 QrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
-...|-|-||.+.++-++|. -.|.+||+|-+|.|++|+.|. .+.+||||.|..+.||++|+++|||.+||||
T Consensus 12 gm~SLkVdNLTyRTspd~Lr---rvFekYG~vgDVyIPrdr~Tr-----~sRgFaFVrf~~k~daedA~damDG~~ldgR 83 (256)
T KOG4207|consen 12 GMTSLKVDNLTYRTSPDDLR---RVFEKYGRVGDVYIPRDRYTR-----QSRGFAFVRFHDKRDAEDALDAMDGAVLDGR 83 (256)
T ss_pred cceeEEecceeccCCHHHHH---HHHHHhCcccceecccccccc-----cccceeEEEeeecchHHHHHHhhcceeeccc
Confidence 34567899999999877774 699999999999999998875 2567899999999999999999999999999
Q ss_pred EEEEEecC
Q 001872 189 SLKACFGT 196 (1002)
Q Consensus 189 ~LRASFGT 196 (1002)
.|+|+++.
T Consensus 84 elrVq~ar 91 (256)
T KOG4207|consen 84 ELRVQMAR 91 (256)
T ss_pred eeeehhhh
Confidence 99999763
No 36
>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=98.96 E-value=2e-09 Score=118.73 Aligned_cols=116 Identities=19% Similarity=0.297 Sum_probs=87.9
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
..+|||+|||..+++++|. ++|++||+|..|.|.+++.++. ..++|||+|.+.++|.+||. |+|..+.|+.
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---EFFSKVGKVRDVQCIKDRNSRR-----SKGVAYVEFYDVESVIKALA-LTGQMLLGRP 159 (457)
T ss_pred CcEEEEeCCCCCCCHHHHH---HHHHhcCCeeEEEEeecCCCCC-----cceEEEEEECCHHHHHHHHH-hCCCEECCee
Confidence 5679999999999988885 9999999999999999876642 45689999999999999996 8999999999
Q ss_pred EEEEecCCCCcccc--c--CCCCCCCCCCcccccCCCCCCcccHHHHHhhhc
Q 001872 190 LKACFGTTKYCHAW--L--RNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYT 237 (1002)
Q Consensus 190 LRASFGTTKYCs~F--L--Rn~~C~NpdCmYLHE~g~~~DsfTKeEm~~~~t 237 (1002)
|++.+...+.-..- . ....-.+..++|+.-+. ...|.++|.....
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 99987543321110 0 01112234667776665 4578888876543
No 37
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.96 E-value=9.4e-10 Score=117.64 Aligned_cols=80 Identities=21% Similarity=0.371 Sum_probs=72.9
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
-|||+-|.+.|..|.|. |-|.+||+|.+.+|.||..|.. ++ +++||.|-+++||++||+.|||.+|++|.||
T Consensus 64 hvfvgdls~eI~~e~lr---~aF~pFGevS~akvirD~~T~K----sK-GYgFVSf~~k~dAEnAI~~MnGqWlG~R~IR 135 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKLR---EAFAPFGEVSDAKVIRDMNTGK----SK-GYGFVSFPNKEDAENAIQQMNGQWLGRRTIR 135 (321)
T ss_pred eEEehhcchhcchHHHH---HHhccccccccceEeecccCCc----cc-ceeEEeccchHHHHHHHHHhCCeeeccceee
Confidence 49999999999887763 9999999999999999988764 34 4679999999999999999999999999999
Q ss_pred EEecCCCC
Q 001872 192 ACFGTTKY 199 (1002)
Q Consensus 192 ASFGTTKY 199 (1002)
-.|+|-|-
T Consensus 136 TNWATRKp 143 (321)
T KOG0148|consen 136 TNWATRKP 143 (321)
T ss_pred ccccccCc
Confidence 99999987
No 38
>smart00361 RRM_1 RNA recognition motif.
Probab=98.92 E-value=2.9e-09 Score=91.28 Aligned_cols=59 Identities=29% Similarity=0.509 Sum_probs=47.7
Q ss_pred hhhc----CCCceeEEE-EeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEE
Q 001872 132 EYFG----QYGKVLKVS-MSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKAC 193 (1002)
Q Consensus 132 EyFG----QYGKIiKIv-I~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRAS 193 (1002)
++|. +||+|.+|. |..++.+. .+.+.++|||+|.+.+||.+||+.|||..++||.|+|+
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 999999985 55554331 01245789999999999999999999999999999974
No 39
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.91 E-value=4.2e-10 Score=115.12 Aligned_cols=76 Identities=21% Similarity=0.525 Sum_probs=70.4
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~L 190 (1002)
--|||+|||+.+++.||| -.|+|||.|++|.+++|+.|+. +.||||..|+++.....|+..+||..|.||.|
T Consensus 36 A~Iyiggl~~~LtEgDil---~VFSqyGe~vdinLiRDk~TGK-----SKGFaFLcYEDQRSTILAVDN~NGiki~gRti 107 (219)
T KOG0126|consen 36 AYIYIGGLPYELTEGDIL---CVFSQYGEIVDINLIRDKKTGK-----SKGFAFLCYEDQRSTILAVDNLNGIKILGRTI 107 (219)
T ss_pred eEEEECCCcccccCCcEE---EEeeccCceEEEEEEecCCCCc-----ccceEEEEecCccceEEEEeccCCceecceeE
Confidence 458999999999999999 7999999999999999999874 45689999999999999999999999999999
Q ss_pred EEEe
Q 001872 191 KACF 194 (1002)
Q Consensus 191 RASF 194 (1002)
||..
T Consensus 108 rVDH 111 (219)
T KOG0126|consen 108 RVDH 111 (219)
T ss_pred Eeee
Confidence 9973
No 40
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=98.90 E-value=2.8e-09 Score=124.16 Aligned_cols=101 Identities=18% Similarity=0.450 Sum_probs=80.9
Q ss_pred ccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC-C
Q 001872 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE-G 187 (1002)
Q Consensus 109 QrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LD-G 187 (1002)
+...|||++||+.+++++|. ++|.+||+|.+|+|++|. ++. .+++|||+|.+.|+|.+||+.|||..+. |
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---PLFEKAGPIYELRLMMDF-SGQ-----NRGYAFVTFCGKEEAKEAVKLLNNYEIRPG 127 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHH---HHHHhhCCEEEEEEEECC-CCC-----ccceEEEEeCCHHHHHHHHHHcCCCeecCC
Confidence 35789999999999888874 899999999999999984 332 4568999999999999999999999984 8
Q ss_pred eEEEEEecCCCCcccccCCCCCCCCCCcccccCCCCCCcccHHHHHhh
Q 001872 188 KSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISA 235 (1002)
Q Consensus 188 R~LRASFGTTKYCs~FLRn~~C~NpdCmYLHE~g~~~DsfTKeEm~~~ 235 (1002)
|.|.+..... -|.-|++|.+ ...|++||...
T Consensus 128 r~l~V~~S~~-~~rLFVgNLP----------------~~~TeeeL~ee 158 (578)
T TIGR01648 128 RLLGVCISVD-NCRLFVGGIP----------------KNKKREEILEE 158 (578)
T ss_pred cccccccccc-CceeEeecCC----------------cchhhHHHHHH
Confidence 9998876643 3556666543 24577777654
No 41
>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=98.88 E-value=4.3e-09 Score=122.57 Aligned_cols=73 Identities=22% Similarity=0.439 Sum_probs=65.6
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCC--CceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQY--GKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQY--GKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
..|||.||++.+++|+|. ++|++| |+|.+|.+.+ .+|||+|.+.|+|++||+.|||..|+|+
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 579999999999877774 899999 9999998753 2699999999999999999999999999
Q ss_pred EEEEEecCCCC
Q 001872 189 SLKACFGTTKY 199 (1002)
Q Consensus 189 ~LRASFGTTKY 199 (1002)
.|+|+|++.+-
T Consensus 298 ~I~V~~Akp~~ 308 (578)
T TIGR01648 298 EIEVTLAKPVD 308 (578)
T ss_pred EEEEEEccCCC
Confidence 99999997653
No 42
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.87 E-value=3.1e-09 Score=109.24 Aligned_cols=85 Identities=15% Similarity=0.358 Sum_probs=72.9
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~L 190 (1002)
-.|||+|||..|.+.||- ++|-+||+|..|.+...+. +-.+|||+|++..||++||..-||+.+||..|
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 458999999999999984 9999999999999864332 23589999999999999999999999999999
Q ss_pred EEEecCCCCcccccCC
Q 001872 191 KACFGTTKYCHAWLRN 206 (1002)
Q Consensus 191 RASFGTTKYCs~FLRn 206 (1002)
||.|..+-.-++.-++
T Consensus 76 RVEfprggr~s~~~~G 91 (241)
T KOG0105|consen 76 RVEFPRGGRSSSDRRG 91 (241)
T ss_pred EEEeccCCCccccccc
Confidence 9999988765555444
No 43
>PLN03121 nucleic acid binding protein; Provisional
Probab=98.87 E-value=6.1e-09 Score=110.31 Aligned_cols=76 Identities=13% Similarity=0.283 Sum_probs=66.2
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
-.+|||+||++++++++|. |+|++||+|.+|.|.++..+ +++|||||.++++|..|| .|+|..|.|+.
T Consensus 5 g~TV~V~NLS~~tTE~dLr---efFS~~G~I~~V~I~~D~et--------~gfAfVtF~d~~aaetAl-lLnGa~l~d~~ 72 (243)
T PLN03121 5 GYTAEVTNLSPKATEKDVY---DFFSHCGAIEHVEIIRSGEY--------ACTAYVTFKDAYALETAV-LLSGATIVDQR 72 (243)
T ss_pred ceEEEEecCCCCCCHHHHH---HHHHhcCCeEEEEEecCCCc--------ceEEEEEECCHHHHHHHH-hcCCCeeCCce
Confidence 3579999999999988874 99999999999999988543 358999999999999999 69999999999
Q ss_pred EEEEecCC
Q 001872 190 LKACFGTT 197 (1002)
Q Consensus 190 LRASFGTT 197 (1002)
|.+.-...
T Consensus 73 I~It~~~~ 80 (243)
T PLN03121 73 VCITRWGQ 80 (243)
T ss_pred EEEEeCcc
Confidence 99885443
No 44
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.80 E-value=1.2e-08 Score=114.80 Aligned_cols=105 Identities=21% Similarity=0.444 Sum_probs=89.0
Q ss_pred cccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001872 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (1002)
Q Consensus 106 RVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L 185 (1002)
+--+..-|||++||..+-++||. .+|++-|+|-+++++.|+..+. .+++|||||.++|+|.+||+.||+++|
T Consensus 79 ~p~~G~EVfvGkIPrD~~EdeLv---plfEkiG~I~elRLMmD~~sG~-----nRGYAFVtf~~Ke~Aq~Aik~lnn~Ei 150 (506)
T KOG0117|consen 79 PPPRGCEVFVGKIPRDVFEDELV---PLFEKIGKIYELRLMMDPFSGD-----NRGYAFVTFCTKEEAQEAIKELNNYEI 150 (506)
T ss_pred CCCCCceEEecCCCccccchhhH---HHHHhccceeeEEEeecccCCC-----CcceEEEEeecHHHHHHHHHHhhCccc
Confidence 33667889999999999888875 8999999999999999977653 456899999999999999999999988
Q ss_pred -CCeEEEEEecCCCCcccccCCCCCCCCCCcccccCCCCCCcccHHHHHhh
Q 001872 186 -EGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISA 235 (1002)
Q Consensus 186 -DGR~LRASFGTTKYCs~FLRn~~C~NpdCmYLHE~g~~~DsfTKeEm~~~ 235 (1002)
-||.|+|+-..++ |--|+.|++= .-+||||...
T Consensus 151 r~GK~igvc~Svan-~RLFiG~IPK----------------~k~keeIlee 184 (506)
T KOG0117|consen 151 RPGKLLGVCVSVAN-CRLFIGNIPK----------------TKKKEEILEE 184 (506)
T ss_pred cCCCEeEEEEeeec-ceeEeccCCc----------------cccHHHHHHH
Confidence 6999999976665 7778888773 3578888764
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=98.79 E-value=1.4e-08 Score=115.05 Aligned_cols=79 Identities=23% Similarity=0.374 Sum_probs=67.8
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCc--eeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGK--VLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGK--IiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
..+|||.|||..+++|+|. ++|.+||. |.+|+|...... ++++|||+|.+.++|.+||..|||..|+|
T Consensus 394 s~~L~v~NLp~~~tee~L~---~lF~~~G~~~i~~ik~~~~~~~-------~~~~gfVeF~~~e~A~~Al~~ln~~~l~~ 463 (481)
T TIGR01649 394 SATLHLSNIPLSVSEEDLK---ELFAENGVHKVKKFKFFPKDNE-------RSKMGLLEWESVEDAVEALIALNHHQLNE 463 (481)
T ss_pred CcEEEEecCCCCCCHHHHH---HHHHhcCCccceEEEEecCCCC-------cceeEEEEcCCHHHHHHHHHHhcCCccCC
Confidence 3579999999999888874 89999998 888888643321 24579999999999999999999999999
Q ss_pred eE------EEEEecCCC
Q 001872 188 KS------LKACFGTTK 198 (1002)
Q Consensus 188 R~------LRASFGTTK 198 (1002)
+. ||++|++++
T Consensus 464 ~~~~~~~~lkv~fs~~~ 480 (481)
T TIGR01649 464 PNGSAPYHLKVSFSTSR 480 (481)
T ss_pred CCCCccceEEEEeccCC
Confidence 85 999999886
No 46
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.79 E-value=5.7e-09 Score=106.86 Aligned_cols=81 Identities=21% Similarity=0.293 Sum_probs=72.3
Q ss_pred cccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 108 IQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
-|.++|||+||+.+++ |++| +|+|.|-|+|+.|.|++++.+.. ..+++||+|.++|||.-||+-||+..|.|
T Consensus 7 nqd~tiyvgnld~kvs-~~~l--~EL~iqagpVv~i~iPkDrv~~~-----~qGygF~Ef~~eedadYAikiln~VkLYg 78 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVS-EELL--YELFIQAGPVVNLHIPKDRVTQK-----HQGYGFAEFRTEEDADYAIKILNMVKLYG 78 (203)
T ss_pred CCCceEEEecCCHHHH-HHHH--HHHHHhcCceeeeecchhhhccc-----ccceeEEEEechhhhHHHHHHHHHHHhcC
Confidence 4778999999999996 5555 69999999999999999998753 34578999999999999999999999999
Q ss_pred eEEEEEecC
Q 001872 188 KSLKACFGT 196 (1002)
Q Consensus 188 R~LRASFGT 196 (1002)
|+|||.-++
T Consensus 79 rpIrv~kas 87 (203)
T KOG0131|consen 79 RPIRVNKAS 87 (203)
T ss_pred ceeEEEecc
Confidence 999999887
No 47
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.77 E-value=1.1e-08 Score=115.78 Aligned_cols=79 Identities=22% Similarity=0.392 Sum_probs=73.6
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~L 190 (1002)
..|||+|||+.+++|+|+ ++|+.+|.|..+.++.|+.+++ .++++|++|.+.|+|++||+.|||..+.||.|
T Consensus 19 ~~v~vgnip~~~se~~l~---~~~~~~g~v~s~~~v~D~~tG~-----~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l 90 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLL---SIFSGVGPVLSFRLVYDRETGK-----PKGFGFCEFTDEETAERAIRNLNGAEFNGRKL 90 (435)
T ss_pred cceEecCCCCcccHHHHH---HHHhccCccceeeecccccCCC-----cCceeeEecCchhhHHHHHHhcCCcccCCceE
Confidence 779999999999999986 9999999999999999999874 56689999999999999999999999999999
Q ss_pred EEEecCC
Q 001872 191 KACFGTT 197 (1002)
Q Consensus 191 RASFGTT 197 (1002)
||.|+..
T Consensus 91 ~v~~~~~ 97 (435)
T KOG0108|consen 91 RVNYASN 97 (435)
T ss_pred Eeecccc
Confidence 9999765
No 48
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.66 E-value=6.2e-08 Score=105.00 Aligned_cols=87 Identities=15% Similarity=0.398 Sum_probs=74.6
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~L 190 (1002)
-++||+-|++.+++..| + ++|..||+|.+|.|+++..|+. +.++|||+|+++.|...|-+..+|..||||.|
T Consensus 102 ~TLFv~RLnydT~EskL-r--reF~~YG~IkrirlV~d~vTgk-----skGYAFIeye~erdm~~AYK~adG~~Idgrri 173 (335)
T KOG0113|consen 102 KTLFVARLNYDTSESKL-R--REFEKYGPIKRIRLVRDKVTGK-----SKGYAFIEYEHERDMKAAYKDADGIKIDGRRI 173 (335)
T ss_pred ceeeeeeccccccHHHH-H--HHHHhcCcceeEEEeeecccCC-----ccceEEEEeccHHHHHHHHHhccCceecCcEE
Confidence 57999999999865554 3 8999999999999999988863 56789999999999999999999999999999
Q ss_pred EEEecCCCCcccccC
Q 001872 191 KACFGTTKYCHAWLR 205 (1002)
Q Consensus 191 RASFGTTKYCs~FLR 205 (1002)
-|.|-..+---.||.
T Consensus 174 ~VDvERgRTvkgW~P 188 (335)
T KOG0113|consen 174 LVDVERGRTVKGWLP 188 (335)
T ss_pred EEEeccccccccccc
Confidence 998866655555653
No 49
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.56 E-value=4.6e-08 Score=109.76 Aligned_cols=85 Identities=21% Similarity=0.459 Sum_probs=74.2
Q ss_pred cccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCc-
Q 001872 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV- 184 (1002)
Q Consensus 106 RVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~- 184 (1002)
|++-...+||+=|+-+.+++|+- |+|.+||.|.+|.|.++.... .+|+|||+|+.+|-|..||++|||..
T Consensus 120 r~~~e~KLFvg~lsK~~te~evr---~iFs~fG~Ied~~ilrd~~~~------sRGcaFV~fstke~A~~Aika~ng~~t 190 (510)
T KOG0144|consen 120 RIVEERKLFVGMLSKQCTENEVR---EIFSRFGHIEDCYILRDPDGL------SRGCAFVKFSTKEMAVAAIKALNGTQT 190 (510)
T ss_pred ccccchhhhhhhccccccHHHHH---HHHHhhCccchhhheeccccc------ccceeEEEEehHHHHHHHHHhhcccee
Confidence 66778889999999999999984 999999999999999987643 45679999999999999999999975
Q ss_pred cCC--eEEEEEecCCCC
Q 001872 185 LEG--KSLKACFGTTKY 199 (1002)
Q Consensus 185 LDG--R~LRASFGTTKY 199 (1002)
+.| .+|-|-|+-||.
T Consensus 191 meGcs~PLVVkFADtqk 207 (510)
T KOG0144|consen 191 MEGCSQPLVVKFADTQK 207 (510)
T ss_pred eccCCCceEEEecccCC
Confidence 666 589999998864
No 50
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.54 E-value=1.6e-07 Score=107.87 Aligned_cols=81 Identities=19% Similarity=0.436 Sum_probs=71.6
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
+-.+.|.|||+.+.+++|- -+|++||+|..|+|++...+.- .|+|||+|....+|..||..+||..|+||+
T Consensus 117 k~rLIIRNLPf~~k~~dLk---~vFs~~G~V~Ei~IP~k~dgkl------cGFaFV~fk~~~dA~~Al~~~N~~~i~gR~ 187 (678)
T KOG0127|consen 117 KWRLIIRNLPFKCKKPDLK---NVFSNFGKVVEIVIPRKKDGKL------CGFAFVQFKEKKDAEKALEFFNGNKIDGRP 187 (678)
T ss_pred cceEEeecCCcccCcHHHH---HHHhhcceEEEEEcccCCCCCc------cceEEEEEeeHHHHHHHHHhccCceecCce
Confidence 5667788899999888774 7999999999999998776542 368999999999999999999999999999
Q ss_pred EEEEecCCCC
Q 001872 190 LKACFGTTKY 199 (1002)
Q Consensus 190 LRASFGTTKY 199 (1002)
|-|.|+..|-
T Consensus 188 VAVDWAV~Kd 197 (678)
T KOG0127|consen 188 VAVDWAVDKD 197 (678)
T ss_pred eEEeeecccc
Confidence 9999998863
No 51
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.53 E-value=1.2e-07 Score=94.12 Aligned_cols=84 Identities=17% Similarity=0.354 Sum_probs=75.1
Q ss_pred cccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCC
Q 001872 104 SVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF 183 (1002)
Q Consensus 104 nVRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs 183 (1002)
-.|-|-...|||.|+-+..++|++ ++.|+.||+|+.|.++.|+.++- -.++|.|.|++.++|..||.++||.
T Consensus 66 PqrSVEGwIi~VtgvHeEatEedi---~d~F~dyGeiKNihLNLDRRtGy-----~KGYaLvEYet~keAq~A~~~~Ng~ 137 (170)
T KOG0130|consen 66 PQRSVEGWIIFVTGVHEEATEEDI---HDKFADYGEIKNIHLNLDRRTGY-----VKGYALVEYETLKEAQAAIDALNGA 137 (170)
T ss_pred CccceeeEEEEEeccCcchhHHHH---HHHHhhcccccceeecccccccc-----ccceeeeehHhHHHHHHHHHhccch
Confidence 346677788999999999999998 49999999999999999987763 3467999999999999999999999
Q ss_pred ccCCeEEEEEec
Q 001872 184 VLEGKSLKACFG 195 (1002)
Q Consensus 184 ~LDGR~LRASFG 195 (1002)
.|-|..|.|.|.
T Consensus 138 ~ll~q~v~VDw~ 149 (170)
T KOG0130|consen 138 ELLGQNVSVDWC 149 (170)
T ss_pred hhhCCceeEEEE
Confidence 999999999985
No 52
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=98.53 E-value=4.2e-08 Score=107.41 Aligned_cols=53 Identities=45% Similarity=1.297 Sum_probs=48.9
Q ss_pred CCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
..||+|.|++|.+|.+|.||+||+++|+||+..|.+ -+++||+||++|...+.
T Consensus 250 ~s~p~~~~~~~~~d~~~lP~~~~~~~~l~~~~t~~~------~~~~~~~~rk~~~~~t~ 302 (327)
T KOG2068|consen 250 PSCPICYEDLDLTDSNFLPCPCGFRLCLFCHKTISD------GDGRCPGCRKPYERNTK 302 (327)
T ss_pred CCCCCCCCcccccccccccccccccchhhhhhcccc------cCCCCCccCCccccCcc
Confidence 689999999999999999999999999999999975 68999999999976654
No 53
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.53 E-value=1.6e-07 Score=105.07 Aligned_cols=85 Identities=18% Similarity=0.388 Sum_probs=61.3
Q ss_pred CEEEEeCCCCC--C-Ch---hHHhhh-hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCC
Q 001872 111 NLVYIVGLPLN--L-GD---EDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF 183 (1002)
Q Consensus 111 NLVYV~GLp~k--I-Ad---EELLRk-~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs 183 (1002)
..|+|.||... + .+ ++|+.. .+.|++||.|++|+|.++..... .. ...|.|||+|.+.++|.+||++|||.
T Consensus 410 ~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~-~~-~~~G~~fV~F~~~e~A~~A~~~lnGr 487 (509)
T TIGR01642 410 KVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRN-ST-PGVGKVFLEYADVRSAEKAMEGMNGR 487 (509)
T ss_pred eEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCC-cC-CCcceEEEEECCHHHHHHHHHHcCCC
Confidence 45788887532 1 11 122111 48999999999999987532211 01 12357999999999999999999999
Q ss_pred ccCCeEEEEEecCC
Q 001872 184 VLEGKSLKACFGTT 197 (1002)
Q Consensus 184 ~LDGR~LRASFGTT 197 (1002)
.++||.|.|.|-..
T Consensus 488 ~~~gr~v~~~~~~~ 501 (509)
T TIGR01642 488 KFNDRVVVAAFYGE 501 (509)
T ss_pred EECCeEEEEEEeCH
Confidence 99999999998543
No 54
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.52 E-value=1.3e-07 Score=106.66 Aligned_cols=70 Identities=23% Similarity=0.543 Sum_probs=63.2
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.|||.||+..+++|- |+ +.|.+||+|.+|+..+| +|||-|...+||.+|++.+||+.|+|..|.
T Consensus 261 vLYVRNL~~~tTeE~-lk--~~F~~~G~veRVkk~rD-------------YaFVHf~eR~davkAm~~~ngkeldG~~iE 324 (506)
T KOG0117|consen 261 VLYVRNLMESTTEET-LK--KLFNEFGKVERVKKPRD-------------YAFVHFAEREDAVKAMKETNGKELDGSPIE 324 (506)
T ss_pred eeeeeccchhhhHHH-HH--HHHHhccceEEeecccc-------------eeEEeecchHHHHHHHHHhcCceecCceEE
Confidence 389999999987554 53 89999999999998765 689999999999999999999999999999
Q ss_pred EEecCC
Q 001872 192 ACFGTT 197 (1002)
Q Consensus 192 ASFGTT 197 (1002)
|+++..
T Consensus 325 vtLAKP 330 (506)
T KOG0117|consen 325 VTLAKP 330 (506)
T ss_pred EEecCC
Confidence 999875
No 55
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.52 E-value=2e-07 Score=106.92 Aligned_cols=115 Identities=22% Similarity=0.442 Sum_probs=92.1
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh-----CC-Cc
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV-----HG-FV 184 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaL-----NG-s~ 184 (1002)
-+|||.|||+..++|+| ++.|.+||+|.-+.|.+++.|.+ +-|.|||-|.+.++|..||.+. +| ..
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 KTVFVRNLPFDTTEEEL---KEHFSKFGEVKYAIIVKDKDTGH-----SKGTAFVKFKTQIAAQNCIEAASPASEDGSVL 364 (678)
T ss_pred ceEEEecCCccccHHHH---HHHHHhhccceeEEEEeccCCCC-----cccceEEEeccHHHHHHHHHhcCccCCCceEE
Confidence 38999999999987777 49999999999999999988864 4567999999999999999998 45 67
Q ss_pred cCCeEEEEEecCCCCccccc-----CCCCCCCCCCcccccCCCC------CCcccHHHHHh
Q 001872 185 LEGKSLKACFGTTKYCHAWL-----RNVPCTNPDCLYLHEVGSQ------EDSFTKDEIIS 234 (1002)
Q Consensus 185 LDGR~LRASFGTTKYCs~FL-----Rn~~C~NpdCmYLHE~g~~------~DsfTKeEm~~ 234 (1002)
|+||.|+|..+.||--..=| +-++-. +--+||---|-- .+.++.+||..
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 99999999999998777655 222222 235777666532 45688888875
No 56
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=98.39 E-value=6.1e-07 Score=106.14 Aligned_cols=106 Identities=17% Similarity=0.369 Sum_probs=85.6
Q ss_pred ccccccccccc----ccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHH
Q 001872 96 EGKKQQLSSVR----VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEE 171 (1002)
Q Consensus 96 e~RK~~LanVR----VIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~E 171 (1002)
+-|+.-|..|| .|.-.+|||+||+.++.+.||- .+|+.||.|..|.++. +++.|||++.+..
T Consensus 403 eRr~kglP~I~pd~isV~SrTLwvG~i~k~v~e~dL~---~~feefGeiqSi~li~-----------~R~cAfI~M~~Rq 468 (894)
T KOG0132|consen 403 ERRKKGLPTIPPDHISVCSRTLWVGGIPKNVTEQDLA---NLFEEFGEIQSIILIP-----------PRGCAFIKMVRRQ 468 (894)
T ss_pred ccccccCCCCCCcceeEeeeeeeeccccchhhHHHHH---HHHHhcccceeEeecc-----------CCceeEEEEeehh
Confidence 34444777777 4677889999999999888874 8999999999999874 2457999999999
Q ss_pred HHHHHHHHhCCCccCCeEEEEEecCCCCcccccCCCCCCCCCCcccccCCCC
Q 001872 172 EAVRCIQSVHGFVLEGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQ 223 (1002)
Q Consensus 172 DA~rAIqaLNGs~LDGR~LRASFGTTKYCs~FLRn~~C~NpdCmYLHE~g~~ 223 (1002)
||.+|+++|....+.++.||+.||..|---+ .--|.|=||+|=-
T Consensus 469 dA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks--------e~k~~wD~~lGVt 512 (894)
T KOG0132|consen 469 DAEKALQKLSNVKVADKTIKIAWAVGKGPKS--------EYKDYWDVELGVT 512 (894)
T ss_pred HHHHHHHHHhcccccceeeEEeeeccCCcch--------hhhhhhhcccCee
Confidence 9999999999999999999999998764322 1136677777743
No 57
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.33 E-value=5.8e-07 Score=103.31 Aligned_cols=78 Identities=23% Similarity=0.470 Sum_probs=69.1
Q ss_pred EEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEE
Q 001872 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKA 192 (1002)
Q Consensus 113 VYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRA 192 (1002)
+||++|-.+++++.++ ..|..||+|..|.+.++..++. ++ +++||||.+.|+|.+|...|||++|-||.|||
T Consensus 281 l~vgnLHfNite~~lr---~ifepfg~Ie~v~l~~d~~tG~----sk-gfGfi~f~~~~~ar~a~e~lngfelAGr~ikV 352 (549)
T KOG0147|consen 281 LYVGNLHFNITEDMLR---GIFEPFGKIENVQLTKDSETGR----SK-GFGFITFVNKEDARKALEQLNGFELAGRLIKV 352 (549)
T ss_pred hhhcccccCchHHHHh---hhccCcccceeeeecccccccc----cc-CcceEEEecHHHHHHHHHHhccceecCceEEE
Confidence 8999999999866654 7999999999999999986653 34 46799999999999999999999999999999
Q ss_pred EecCCC
Q 001872 193 CFGTTK 198 (1002)
Q Consensus 193 SFGTTK 198 (1002)
+..|-+
T Consensus 353 ~~v~~r 358 (549)
T KOG0147|consen 353 SVVTER 358 (549)
T ss_pred EEeeee
Confidence 988765
No 58
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=98.30 E-value=1.3e-06 Score=93.73 Aligned_cols=81 Identities=19% Similarity=0.406 Sum_probs=71.5
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
|..+.|-=||..++.||+. .+|+--|+|..+++.+|+.++. +=+++||.|.+++||++||..+||-.|-.+.
T Consensus 41 kTNLIvNYLPQ~MTqdE~r---SLF~SiGeiEScKLvRDKitGq-----SLGYGFVNYv~p~DAe~AintlNGLrLQ~KT 112 (360)
T KOG0145|consen 41 KTNLIVNYLPQNMTQDELR---SLFGSIGEIESCKLVRDKITGQ-----SLGYGFVNYVRPKDAEKAINTLNGLRLQNKT 112 (360)
T ss_pred cceeeeeecccccCHHHHH---HHhhcccceeeeeeeecccccc-----ccccceeeecChHHHHHHHhhhcceeeccce
Confidence 4556788899999999974 8999999999999999998862 2245799999999999999999999999999
Q ss_pred EEEEecCCC
Q 001872 190 LKACFGTTK 198 (1002)
Q Consensus 190 LRASFGTTK 198 (1002)
|||+|+...
T Consensus 113 IKVSyARPS 121 (360)
T KOG0145|consen 113 IKVSYARPS 121 (360)
T ss_pred EEEEeccCC
Confidence 999999764
No 59
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.27 E-value=1.2e-06 Score=98.72 Aligned_cols=81 Identities=19% Similarity=0.416 Sum_probs=68.2
Q ss_pred EEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCC-ccCC--eE
Q 001872 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF-VLEG--KS 189 (1002)
Q Consensus 113 VYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs-~LDG--R~ 189 (1002)
+||+-||...+++||+ +||.+||.|..|.|.||+.++. +.+++||+|.+.+||.+||.+|+.. +|.| ..
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---ELFEKYGNVYEINLIKDKSTGQ-----SKGCCFVKYYTRKEADEAINALHNQKTLPGMHHP 108 (510)
T ss_pred heeccCCccccHHHHH---HHHHHhCceeEEEeecccccCc-----ccceEEEEeccHHHHHHHHHHhhcccccCCCCcc
Confidence 7999999999999986 8999999999999999998862 3456899999999999999999985 4666 46
Q ss_pred EEEEecCCCCcc
Q 001872 190 LKACFGTTKYCH 201 (1002)
Q Consensus 190 LRASFGTTKYCs 201 (1002)
|.|-|+-+..=.
T Consensus 109 vqvk~Ad~E~er 120 (510)
T KOG0144|consen 109 VQVKYADGERER 120 (510)
T ss_pred eeecccchhhhc
Confidence 777777664433
No 60
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.26 E-value=1.9e-06 Score=89.84 Aligned_cols=80 Identities=21% Similarity=0.422 Sum_probs=70.4
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCC-CceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQY-GKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQY-GKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
...|||.-+|.-+-+-++| .||+|| |.+..+++.|++.|+ ++.++|||.|+++|.|.-|-..||++.+.|+
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 5789999999998888887 799999 888888888988876 4667899999999999999999999999999
Q ss_pred EEEEEecCC
Q 001872 189 SLKACFGTT 197 (1002)
Q Consensus 189 ~LRASFGTT 197 (1002)
.|.|.|=..
T Consensus 121 lL~c~vmpp 129 (214)
T KOG4208|consen 121 LLECHVMPP 129 (214)
T ss_pred eeeeEEeCc
Confidence 999887543
No 61
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.20 E-value=2e-06 Score=99.13 Aligned_cols=77 Identities=27% Similarity=0.511 Sum_probs=65.5
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.++|.||...+.-.+|. .+|++||||+-..|+.+..+ |..+++.|||+++.+||.+||..|+-..|.||.|-
T Consensus 407 NlWVSGLSstTRAtDLK---nlFSKyGKVvGAKVVTNaRs-----PGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmIS 478 (940)
T KOG4661|consen 407 NLWVSGLSSTTRATDLK---NLFSKYGKVVGAKVVTNARS-----PGARCYGFVTMSTSAEATKCIEHLHRTELHGRMIS 478 (940)
T ss_pred ceeeeccccchhhhHHH---HHHHHhcceeceeeeecCCC-----CCcceeEEEEecchHHHHHHHHHhhhhhhcceeee
Confidence 48999999987777764 89999999998877766543 34568899999999999999999999999999999
Q ss_pred EEecC
Q 001872 192 ACFGT 196 (1002)
Q Consensus 192 ASFGT 196 (1002)
|.-+.
T Consensus 479 VEkaK 483 (940)
T KOG4661|consen 479 VEKAK 483 (940)
T ss_pred eeecc
Confidence 87543
No 62
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.20 E-value=1.2e-06 Score=97.16 Aligned_cols=75 Identities=23% Similarity=0.419 Sum_probs=67.2
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~L 190 (1002)
..|||+-|.+.+. ||++| .-|..||.|+.|.|..|..|.. ..++|||+|+-.|.|..|++.|||..++||.|
T Consensus 114 cRvYVGSIsfEl~-EDtiR--~AF~PFGPIKSInMSWDp~T~k-----HKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNi 185 (544)
T KOG0124|consen 114 CRVYVGSISFELR-EDTIR--RAFDPFGPIKSINMSWDPATGK-----HKGFAFVEYEVPEAAQLALEQMNGQMLGGRNI 185 (544)
T ss_pred HheeeeeeEEEec-hHHHH--hhccCCCCcceeeccccccccc-----ccceEEEEEeCcHHHHHHHHHhccccccCccc
Confidence 4589999999995 67675 6999999999999999998864 34579999999999999999999999999999
Q ss_pred EEE
Q 001872 191 KAC 193 (1002)
Q Consensus 191 RAS 193 (1002)
+|.
T Consensus 186 KVg 188 (544)
T KOG0124|consen 186 KVG 188 (544)
T ss_pred ccc
Confidence 987
No 63
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.19 E-value=1.4e-06 Score=94.66 Aligned_cols=71 Identities=25% Similarity=0.505 Sum_probs=65.1
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.+||+|||.+....+|. .+|.+||||+.+.|.|+ ++||-.+++..|+.||+.|+|+.|+|..|+
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 58999999998877763 79999999999999875 469999999999999999999999999999
Q ss_pred EEecCCC
Q 001872 192 ACFGTTK 198 (1002)
Q Consensus 192 ASFGTTK 198 (1002)
|.=.+.|
T Consensus 68 VeaSksK 74 (346)
T KOG0109|consen 68 VEASKSK 74 (346)
T ss_pred EEecccc
Confidence 9998888
No 64
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.19 E-value=1.4e-06 Score=93.84 Aligned_cols=83 Identities=23% Similarity=0.422 Sum_probs=74.2
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
...+||.-||.+..+.||+ .+|-.||.|+..+|-.|+.|.. +.+++||.|.+...|..||++|||++|+=+.
T Consensus 285 GCNlFIYHLPQEFgDaEli---QmF~PFGhivSaKVFvDRATNQ-----SKCFGFVSfDNp~SaQaAIqAMNGFQIGMKR 356 (371)
T KOG0146|consen 285 GCNLFIYHLPQEFGDAELI---QMFLPFGHIVSAKVFVDRATNQ-----SKCFGFVSFDNPASAQAAIQAMNGFQIGMKR 356 (371)
T ss_pred cceEEEEeCchhhccHHHH---HHhccccceeeeeeeehhcccc-----ccceeeEecCCchhHHHHHHHhcchhhhhhh
Confidence 4568999999999999998 7999999999999988888752 4577899999999999999999999999999
Q ss_pred EEEEecCCCCc
Q 001872 190 LKACFGTTKYC 200 (1002)
Q Consensus 190 LRASFGTTKYC 200 (1002)
|||.+...|-.
T Consensus 357 LKVQLKRPkda 367 (371)
T KOG0146|consen 357 LKVQLKRPKDA 367 (371)
T ss_pred hhhhhcCcccc
Confidence 99998877743
No 65
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.17 E-value=4e-06 Score=89.46 Aligned_cols=75 Identities=24% Similarity=0.510 Sum_probs=68.0
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~L 190 (1002)
..|||.||++.+.++||. |+|.+||.++++.|..++.+. +-+.|=|+|.+.+||++||+.++|..+||+.|
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 679999999999999996 999999999999999887664 34678999999999999999999999999999
Q ss_pred EEEe
Q 001872 191 KACF 194 (1002)
Q Consensus 191 RASF 194 (1002)
++..
T Consensus 155 k~~~ 158 (243)
T KOG0533|consen 155 KIEI 158 (243)
T ss_pred eeEE
Confidence 8764
No 66
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.16 E-value=2.2e-06 Score=88.30 Aligned_cols=88 Identities=20% Similarity=0.314 Sum_probs=72.8
Q ss_pred ccccccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEE-EEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHH
Q 001872 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKV-SMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (1002)
Q Consensus 101 ~LanVRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKI-vI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqa 179 (1002)
+-.+++|- -.+||++|.+.+ +|.+| ++.|+.||.|++. .|+++..|+ ++++++||.|+..|.|.+||.+
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 44566664 668999999987 57777 7999999999873 466766654 3566789999999999999999
Q ss_pred hCCCccCCeEEEEEecCCC
Q 001872 180 VHGFVLEGKSLKACFGTTK 198 (1002)
Q Consensus 180 LNGs~LDGR~LRASFGTTK 198 (1002)
|||..+..|+++++|+.-|
T Consensus 159 ~ngq~l~nr~itv~ya~k~ 177 (203)
T KOG0131|consen 159 MNGQYLCNRPITVSYAFKK 177 (203)
T ss_pred hccchhcCCceEEEEEEec
Confidence 9999999999999998654
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=98.16 E-value=1.9e-06 Score=93.56 Aligned_cols=83 Identities=16% Similarity=0.315 Sum_probs=72.9
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
...++|+||.++.+..||. +.|.+||.|+.+.|.++ .+||-|+..|||..||+.|||.+++|+.
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 4568999999999999974 89999999999999865 5899999999999999999999999999
Q ss_pred EEEEecCCCCcccccCCCC
Q 001872 190 LKACFGTTKYCHAWLRNVP 208 (1002)
Q Consensus 190 LRASFGTTKYCs~FLRn~~ 208 (1002)
|+|+..|++--..--=|-+
T Consensus 142 m~vq~stsrlrtapgmgDq 160 (346)
T KOG0109|consen 142 MHVQLSTSRLRTAPGMGDQ 160 (346)
T ss_pred eeeeeeccccccCCCCCCH
Confidence 9999999986665443433
No 68
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.13 E-value=5.7e-06 Score=92.45 Aligned_cols=70 Identities=23% Similarity=0.546 Sum_probs=64.1
Q ss_pred EEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEE
Q 001872 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKA 192 (1002)
Q Consensus 113 VYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRA 192 (1002)
|||-+|++.+++++| ++.|+.||+|+.+.|.++..+ .+++ ||.|+++++|.+||..+||..+.|+.|-|
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 VFIKNLDESIDNKSL---YDTFSEFGNILSCKVATDENG-------SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYV 147 (369)
T ss_pred eeecCCCcccCcHHH---HHHHHhhcCeeEEEEEEcCCC-------ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEE
Confidence 999999999999998 599999999999999998765 3456 99999999999999999999999998877
Q ss_pred E
Q 001872 193 C 193 (1002)
Q Consensus 193 S 193 (1002)
.
T Consensus 148 g 148 (369)
T KOG0123|consen 148 G 148 (369)
T ss_pred e
Confidence 5
No 69
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.12 E-value=5.5e-06 Score=91.63 Aligned_cols=77 Identities=23% Similarity=0.433 Sum_probs=64.2
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh-CCCccCCeE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV-HGFVLEGKS 189 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaL-NGs~LDGR~ 189 (1002)
.++||+||...+++.+|. ++|-|||.|..|+|... . +.|||||.+.+.|+.|.... |-..++|+.
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----------K-GCAFVTFTTREAAEKAAEKSFNKLVINGFR 294 (377)
T ss_pred eEEEecccccchhHHHHH---HHHhhcCCeeeEEeecc----------c-ccceeeehhhHHHHHHHHhhcceeeecceE
Confidence 379999999999877774 89999999999999743 2 36999999999999998654 444589999
Q ss_pred EEEEecCCCCcc
Q 001872 190 LKACFGTTKYCH 201 (1002)
Q Consensus 190 LRASFGTTKYCs 201 (1002)
|++.||.+|.-.
T Consensus 295 l~i~Wg~~~~~a 306 (377)
T KOG0153|consen 295 LKIKWGRPKQAA 306 (377)
T ss_pred EEEEeCCCcccc
Confidence 999999994433
No 70
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=98.11 E-value=4.4e-06 Score=98.37 Aligned_cols=111 Identities=15% Similarity=0.260 Sum_probs=88.2
Q ss_pred cccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 108 IQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
-|...|||+||++++.++.|| ..||.||+|..|.|+..+.--- ....+..+||-|-+..||++|++.|+|..+.+
T Consensus 172 P~TTNlyv~Nlnpsv~E~~ll---~tfGrfgPlasvKimwpRtEeE--k~r~r~cgfvafmnR~D~era~k~lqg~iv~~ 246 (877)
T KOG0151|consen 172 PQTTNLYVGNLNPSVDENFLL---RTFGRFGPLASVKIMWPRTEEE--KRRERNCGFVAFMNRADAERALKELQGIIVME 246 (877)
T ss_pred CcccceeeecCCccccHHHHH---HHhcccCcccceeeecccchhh--hccccccceeeehhhhhHHHHHHHhcceeeee
Confidence 456779999999999988888 6999999999999986443211 01234567999999999999999999999999
Q ss_pred eEEEEEec-------CCCCcccccCCCCCCCCCCcccccCCCC
Q 001872 188 KSLKACFG-------TTKYCHAWLRNVPCTNPDCLYLHEVGSQ 223 (1002)
Q Consensus 188 R~LRASFG-------TTKYCs~FLRn~~C~NpdCmYLHE~g~~ 223 (1002)
+.+|.-|| +++|----|-...=+.+.|..-|+-...
T Consensus 247 ~e~K~gWgk~V~ip~~p~~ipp~~h~~~lp~p~s~Lpfnaqp~ 289 (877)
T KOG0151|consen 247 YEMKLGWGKAVPIPNIPIYIPPPLHEATLPPPPSNLPFNAQPG 289 (877)
T ss_pred eeeeeccccccccCCccccCCChhhhccCCCCccCCcccCCCC
Confidence 99999999 5666666666666677777777765543
No 71
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.07 E-value=8.6e-06 Score=90.42 Aligned_cols=82 Identities=16% Similarity=0.318 Sum_probs=74.1
Q ss_pred cccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 108 IQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
-..|.+||.-|++-+++|+|- =+|+.||+|..+.|.++..++. .=.+|||.|+++|+.+.|.-.||+..||.
T Consensus 237 PPeNVLFVCKLNPVTtDeDLe---iIFSrFG~i~sceVIRD~ktgd-----sLqyaFiEFen~escE~AyFKMdNvLIDD 308 (479)
T KOG0415|consen 237 PPENVLFVCKLNPVTTDEDLE---IIFSRFGKIVSCEVIRDRKTGD-----SLQYAFIEFENKESCEQAYFKMDNVLIDD 308 (479)
T ss_pred CCcceEEEEecCCcccccchh---hHHhhcccceeeeEEecccccc-----hhheeeeeecchhhHHHHHhhhcceeecc
Confidence 357999999999999999984 6999999999999999998874 23479999999999999999999999999
Q ss_pred eEEEEEecCC
Q 001872 188 KSLKACFGTT 197 (1002)
Q Consensus 188 R~LRASFGTT 197 (1002)
|.|.|.|..+
T Consensus 309 rRIHVDFSQS 318 (479)
T KOG0415|consen 309 RRIHVDFSQS 318 (479)
T ss_pred ceEEeehhhh
Confidence 9999999765
No 72
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.05 E-value=1.1e-05 Score=95.09 Aligned_cols=124 Identities=18% Similarity=0.229 Sum_probs=89.8
Q ss_pred ccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001872 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (1002)
Q Consensus 107 VIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LD 186 (1002)
.++.+.+||.||++..+.+++. ..|..+|.|+.|.|.+.+.... ..+ +.|++||.|.+.|+|.+|+++|+|+.|+
T Consensus 512 ~~~~t~lfvkNlnf~Tt~e~l~---~~F~k~G~VlS~~I~kkkd~~~-k~l-SmGfgFVEF~~~e~A~~a~k~lqgtvld 586 (725)
T KOG0110|consen 512 EETETKLFVKNLNFDTTLEDLE---DLFSKQGTVLSIEISKKKDPAN-KYL-SMGFGFVEFAKPESAQAALKALQGTVLD 586 (725)
T ss_pred cccchhhhhhcCCcccchhHHH---HHHHhcCeEEEEEEeccccccc-ccc-ccceeEEEecCHHHHHHHHHHhcCceec
Confidence 3445559999999999999986 8999999999999987654322 122 4567899999999999999999999999
Q ss_pred CeEEEEEecCCCCcccccCCCCCCC-CCCcccccCCCCCCcccHHHHHhhhcc
Q 001872 187 GKSLKACFGTTKYCHAWLRNVPCTN-PDCLYLHEVGSQEDSFTKDEIISAYTR 238 (1002)
Q Consensus 187 GR~LRASFGTTKYCs~FLRn~~C~N-pdCmYLHE~g~~~DsfTKeEm~~~~t~ 238 (1002)
|+.|.+.|.-+|--..-- .+|.. +.|.-||=-.-+ =..|+.|+....+.
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 999999988755444433 44443 346655533211 12466677665444
No 73
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.03 E-value=9.9e-06 Score=90.57 Aligned_cols=72 Identities=21% Similarity=0.381 Sum_probs=62.7
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.+||+ +.++++.| +++|.++|+|+.|.|-+|. | . -++|||.|.+++||++||+.+|...+.|+.||
T Consensus 3 sl~vg---~~v~e~~l---~~~f~~~~~v~s~rvc~d~-t-s------lgy~yvnf~~~~da~~A~~~~n~~~~~~~~~r 68 (369)
T KOG0123|consen 3 SLYVG---PDVTEAML---FDKFSPAGPVLSIRVCRDA-T-S------LGYAYVNFQQPADAERALDTMNFDVLKGKPIR 68 (369)
T ss_pred ceecC---CcCChHHH---HHHhcccCCceeEEEeecC-C-c------cceEEEecCCHHHHHHHHHHcCCcccCCcEEE
Confidence 57888 77776665 4999999999999999997 6 2 35799999999999999999999999999999
Q ss_pred EEecCC
Q 001872 192 ACFGTT 197 (1002)
Q Consensus 192 ASFGTT 197 (1002)
+-|..-
T Consensus 69 im~s~r 74 (369)
T KOG0123|consen 69 IMWSQR 74 (369)
T ss_pred eehhcc
Confidence 987654
No 74
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.86 E-value=8.5e-06 Score=94.12 Aligned_cols=88 Identities=19% Similarity=0.403 Sum_probs=73.3
Q ss_pred ccccccccccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHH
Q 001872 97 GKKQQLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRC 176 (1002)
Q Consensus 97 ~RK~~LanVRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rA 176 (1002)
.|+ ++......-.-.|+|.+||..|++++|+ ++||.||+|..|..-. +..+-+||.|-+..+|++|
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 445 5666666667779999999999999987 7999999999966532 3456799999999999999
Q ss_pred HHHhCCCccCCeEEEEEecCCC
Q 001872 177 IQSVHGFVLEGKSLKACFGTTK 198 (1002)
Q Consensus 177 IqaLNGs~LDGR~LRASFGTTK 198 (1002)
+++|++..+.|+.|+...|+++
T Consensus 129 lk~l~~~~~~~~~~k~~~~~~~ 150 (549)
T KOG4660|consen 129 LKALNRREIAGKRIKRPGGARR 150 (549)
T ss_pred HHHHHHHHhhhhhhcCCCcccc
Confidence 9999999999999996666654
No 75
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.81 E-value=1.4e-05 Score=87.79 Aligned_cols=78 Identities=23% Similarity=0.407 Sum_probs=62.2
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
...+||+||++.+++|.| .+||++||+|.+++|++++.+. +++++.||+|++.+.-.+++.. .-..||||.
T Consensus 6 ~~KlfiGgisw~ttee~L---r~yf~~~Gev~d~~vm~d~~t~-----rsrgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ 76 (311)
T KOG4205|consen 6 SGKLFIGGLSWETTEESL---REYFSQFGEVTDCVVMRDPSTG-----RSRGFGFVTFATPEGVDAVLNA-RTHKLDGRS 76 (311)
T ss_pred CcceeecCcCccccHHHH---HHHhcccCceeeEEEeccCCCC-----CcccccceecCCCcchheeecc-cccccCCcc
Confidence 456999999999987766 3999999999999999998875 3567889999998877776664 446688888
Q ss_pred EEEEecC
Q 001872 190 LKACFGT 196 (1002)
Q Consensus 190 LRASFGT 196 (1002)
|-+-=+.
T Consensus 77 ve~k~av 83 (311)
T KOG4205|consen 77 VEPKRAV 83 (311)
T ss_pred ccceecc
Confidence 7654443
No 76
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.75 E-value=0.00011 Score=81.61 Aligned_cols=88 Identities=23% Similarity=0.314 Sum_probs=72.3
Q ss_pred ccccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCcee--------EEEEeecCCCcccccCCCCcEEEEEeCCHHHHH
Q 001872 103 SSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVL--------KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAV 174 (1002)
Q Consensus 103 anVRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIi--------KIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~ 174 (1002)
.++-..+...|||.|||..|+.+|++ ++|+++|-|. +|.+-++..+. ..|-|-|+|-+.|...
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 44455666779999999999999997 8999999987 46666665542 2346899999999999
Q ss_pred HHHHHhCCCccCCeEEEEEecCCCC
Q 001872 175 RCIQSVHGFVLEGKSLKACFGTTKY 199 (1002)
Q Consensus 175 rAIqaLNGs~LDGR~LRASFGTTKY 199 (1002)
.||+.||+..+.|+.|||+-+.-.+
T Consensus 198 LA~~ilDe~~~rg~~~rVerAkfq~ 222 (382)
T KOG1548|consen 198 LAIKILDEDELRGKKLRVERAKFQM 222 (382)
T ss_pred HHHHHhCcccccCcEEEEehhhhhh
Confidence 9999999999999999999765443
No 77
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=97.62 E-value=9.1e-05 Score=82.75 Aligned_cols=76 Identities=22% Similarity=0.427 Sum_probs=68.0
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
-|.|||.-+-+.+.++||. ..|.-||+|+++.+.+.+.++. ++ +++||+|.+...-..||..||=+.|+|..
T Consensus 210 fnRiYVaSvHpDLSe~DiK---SVFEAFG~I~~C~LAr~pt~~~----Hk-GyGfiEy~n~qs~~eAiasMNlFDLGGQy 281 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIK---SVFEAFGEIVKCQLARAPTGRG----HK-GYGFIEYNNLQSQSEAIASMNLFDLGGQY 281 (544)
T ss_pred hheEEeeecCCCccHHHHH---HHHHhhcceeeEEeeccCCCCC----cc-ceeeEEeccccchHHHhhhcchhhcccce
Confidence 4889999999999999985 7999999999999999876642 24 46799999999999999999999999999
Q ss_pred EEEE
Q 001872 190 LKAC 193 (1002)
Q Consensus 190 LRAS 193 (1002)
|||-
T Consensus 282 LRVG 285 (544)
T KOG0124|consen 282 LRVG 285 (544)
T ss_pred Eecc
Confidence 9986
No 78
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.60 E-value=0.00014 Score=80.95 Aligned_cols=62 Identities=31% Similarity=0.513 Sum_probs=52.9
Q ss_pred hhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEe--cCCCCccc
Q 001872 132 EYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF--GTTKYCHA 202 (1002)
Q Consensus 132 EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASF--GTTKYCs~ 202 (1002)
+--.+||.|.+|+|.-.+ +-|-|=|+|.+.++|..||+.|+|.+++||+|.|+. |+|||-..
T Consensus 295 eec~K~G~v~~vvv~d~h---------PdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~DG~t~~~~e 358 (382)
T KOG1548|consen 295 EECEKFGQVRKVVVYDRH---------PDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWDGKTKFQTE 358 (382)
T ss_pred HHHHHhCCcceEEEeccC---------CCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeCCcceeeee
Confidence 678999999999997432 335689999999999999999999999999999885 78887643
No 79
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.59 E-value=9.4e-05 Score=85.69 Aligned_cols=75 Identities=21% Similarity=0.367 Sum_probs=63.3
Q ss_pred hhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEecCC-CCcccccCCCCCC
Q 001872 132 EYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTT-KYCHAWLRNVPCT 210 (1002)
Q Consensus 132 EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASFGTT-KYCs~FLRn~~C~ 210 (1002)
|-.++||+|..|.|-+. .-|++||.|.+.++|..|+.+|||-+++||.|.|.|=+. .|=+-|..-.
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 67799999999999653 226799999999999999999999999999999999765 7777776644
Q ss_pred CCCCcccccC
Q 001872 211 NPDCLYLHEV 220 (1002)
Q Consensus 211 NpdCmYLHE~ 220 (1002)
..|+|+|-.
T Consensus 539 -~~~~~~~~~ 547 (549)
T KOG0147|consen 539 -AAPLLFHTN 547 (549)
T ss_pred -cceeeeecc
Confidence 378888753
No 80
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.56 E-value=8.1e-05 Score=82.06 Aligned_cols=85 Identities=20% Similarity=0.293 Sum_probs=68.7
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~L 190 (1002)
..|||+|||..+.++++. +||.|||+|..++++.|+.+.+ +++++||+|...+...++.. ..-..|.|+.+
T Consensus 98 kkiFvGG~~~~~~e~~~r---~yfe~~g~v~~~~~~~d~~~~~-----~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~v 168 (311)
T KOG4205|consen 98 KKIFVGGLPPDTTEEDFK---DYFEQFGKVADVVIMYDKTTSR-----PRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKV 168 (311)
T ss_pred eEEEecCcCCCCchHHHh---hhhhccceeEeeEEeecccccc-----cccceeeEeccccccceecc-cceeeecCcee
Confidence 469999999999877763 9999999999999999987753 45678999999766655544 57788999999
Q ss_pred EEEecCCCCccccc
Q 001872 191 KACFGTTKYCHAWL 204 (1002)
Q Consensus 191 RASFGTTKYCs~FL 204 (1002)
.|--++.|-=....
T Consensus 169 evkrA~pk~~~~~~ 182 (311)
T KOG4205|consen 169 EVKRAIPKEVMQST 182 (311)
T ss_pred eEeeccchhhcccc
Confidence 99888877665544
No 81
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.48 E-value=7.5e-05 Score=78.81 Aligned_cols=71 Identities=24% Similarity=0.408 Sum_probs=63.6
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
-|||+.||+...++++- ++|-.||+|.+|.|.. +++||.|.+.-||.+||..+||.+|.|..+.
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 48999999999999985 8999999999998841 3569999999999999999999999998899
Q ss_pred EEecCCC
Q 001872 192 ACFGTTK 198 (1002)
Q Consensus 192 ASFGTTK 198 (1002)
+.|++.+
T Consensus 67 ve~~r~~ 73 (216)
T KOG0106|consen 67 VEHARGK 73 (216)
T ss_pred eeccccc
Confidence 9998853
No 82
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.46 E-value=4.6e-05 Score=80.78 Aligned_cols=73 Identities=22% Similarity=0.250 Sum_probs=64.1
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
+|||.+|...++ |||| .|+|-|-|.|+||.|...+... +. +|||.|.++-...-||+.+||..+.|+.|+
T Consensus 11 tl~v~n~~~~v~-eelL--~ElfiqaGPV~kv~ip~~~d~~------~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q 80 (267)
T KOG4454|consen 11 TLLVQNMYSGVS-EELL--SELFIQAGPVYKVGIPSGQDQE------QK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQ 80 (267)
T ss_pred HHHHHhhhhhhh-HHHH--HHHhhccCceEEEeCCCCccCC------Cc-eeeeecccccchhhhhhhcccchhccchhh
Confidence 479999999985 6777 5999999999999999876642 23 799999999999999999999999999999
Q ss_pred EEe
Q 001872 192 ACF 194 (1002)
Q Consensus 192 ASF 194 (1002)
+.+
T Consensus 81 ~~~ 83 (267)
T KOG4454|consen 81 RTL 83 (267)
T ss_pred ccc
Confidence 874
No 83
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.40 E-value=0.00011 Score=87.06 Aligned_cols=79 Identities=11% Similarity=0.262 Sum_probs=67.5
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
-+.|.|.|||...+.+++- ++|+.||.|..|.|++..... ..+|++||+|-.+.||.+|+.+|.+..|.||.
T Consensus 613 ~tKIlVRNipFeAt~rEVr---~LF~aFGqlksvRlPKK~~k~-----a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRr 684 (725)
T KOG0110|consen 613 GTKILVRNIPFEATKREVR---KLFTAFGQLKSVRLPKKIGKG-----AHRGFGFVDFLTPREAKNAFDALGSTHLYGRR 684 (725)
T ss_pred cceeeeeccchHHHHHHHH---HHHhcccceeeeccchhhcch-----hhccceeeeccCcHHHHHHHHhhcccceechh
Confidence 3679999999999888884 899999999999999862211 13567899999999999999999999999999
Q ss_pred EEEEecC
Q 001872 190 LKACFGT 196 (1002)
Q Consensus 190 LRASFGT 196 (1002)
|...|+.
T Consensus 685 LVLEwA~ 691 (725)
T KOG0110|consen 685 LVLEWAK 691 (725)
T ss_pred hheehhc
Confidence 9988764
No 84
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.32 E-value=0.00053 Score=77.74 Aligned_cols=103 Identities=23% Similarity=0.313 Sum_probs=82.4
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
..+|-|.+|.+..-.+|.| .-+||-||.|.+|.|...+. -.|-|.|.+...|.-|+.+|+|..+.|+.
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 6788999998875566766 58999999999999998653 36999999999999999999999999999
Q ss_pred EEEEecCCCCcccccCCCCCCCCCCcccccCCCCCCcccHHHHHhhhccc
Q 001872 190 LKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTRS 239 (1002)
Q Consensus 190 LRASFGTTKYCs~FLRn~~C~NpdCmYLHE~g~~~DsfTKeEm~~~~t~~ 239 (1002)
|||+|..- .=.-|-.-|.++.-+||+...+..+|.
T Consensus 365 lrvt~SKH---------------~~vqlp~egq~d~glT~dy~~spLhrf 399 (492)
T KOG1190|consen 365 LRVTLSKH---------------TNVQLPREGQEDQGLTKDYGNSPLHRF 399 (492)
T ss_pred EEEeeccC---------------ccccCCCCCCccccccccCCCCchhhc
Confidence 99998642 112233456666678888877776663
No 85
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=97.29 E-value=0.00043 Score=79.11 Aligned_cols=90 Identities=14% Similarity=0.269 Sum_probs=69.6
Q ss_pred ccccccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001872 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (1002)
Q Consensus 101 ~LanVRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaL 180 (1002)
+....++.-. |||.+||.+++..+| .+.|-+||.|++..|........ .. +++||+|.+.+++..||++-
T Consensus 281 ~~~~~~~~~~--i~V~nlP~da~~~~l---~~~Fk~FG~Ik~~~I~vr~~~~~----~~-~fgFV~f~~~~~~~~~i~As 350 (419)
T KOG0116|consen 281 NQEPRADGLG--IFVKNLPPDATPAEL---EEVFKQFGPIKEGGIQVRSPGGK----NP-CFGFVEFENAAAVQNAIEAS 350 (419)
T ss_pred Ccceeecccc--eEeecCCCCCCHHHH---HHHHhhcccccccceEEeccCCC----cC-ceEEEEEeecchhhhhhhcC
Confidence 3444444333 999999999987665 49999999999999987542221 23 78999999999999999985
Q ss_pred CCCccCCeEEEEEecCCCCcc
Q 001872 181 HGFVLEGKSLKACFGTTKYCH 201 (1002)
Q Consensus 181 NGs~LDGR~LRASFGTTKYCs 201 (1002)
-..++||.|.|.--.+.|--
T Consensus 351 -p~~ig~~kl~Veek~~~~~g 370 (419)
T KOG0116|consen 351 -PLEIGGRKLNVEEKRPGFRG 370 (419)
T ss_pred -ccccCCeeEEEEeccccccc
Confidence 67799999999876665543
No 86
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.29 E-value=0.00012 Score=78.85 Aligned_cols=79 Identities=18% Similarity=0.475 Sum_probs=67.0
Q ss_pred cCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEecC-----CCCcccccCCCCC
Q 001872 135 GQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGT-----TKYCHAWLRNVPC 209 (1002)
Q Consensus 135 GQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASFGT-----TKYCs~FLRn~~C 209 (1002)
-+||+|.+++|-.+..- .-.+-|||.|...|+|++|++.|||-++.|++|.|.|.. ..-|-.|-++ .|
T Consensus 91 ~kygEiee~~Vc~Nl~~------hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~rea~C~~~e~~-~C 163 (260)
T KOG2202|consen 91 DKYGEIEELNVCDNLGD------HLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFREAICGQFERT-EC 163 (260)
T ss_pred HHhhhhhhhhhhcccch------hhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchhhhhhcccccc-cC
Confidence 39999999988654321 123579999999999999999999999999999999875 3569999999 89
Q ss_pred CC-CCCcccccC
Q 001872 210 TN-PDCLYLHEV 220 (1002)
Q Consensus 210 ~N-pdCmYLHE~ 220 (1002)
.. ..|-|+|=.
T Consensus 164 ~rG~~CnFmH~k 175 (260)
T KOG2202|consen 164 SRGGACNFMHVK 175 (260)
T ss_pred CCCCcCcchhhh
Confidence 88 699999977
No 87
>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=97.26 E-value=0.00093 Score=62.38 Aligned_cols=71 Identities=27% Similarity=0.438 Sum_probs=48.6
Q ss_pred CEEEEeCCCCCCChhHHhhh-hhhhcCCC-ceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 111 NLVYIVGLPLNLGDEDLLQR-REYFGQYG-KVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk-~EyFGQYG-KIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
.+|||.|||....-..+-.+ ..++.-+| ||+.|. ++.|+|.|.+.|.|.+|.+-|+|..+.|+
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 68999999999865555322 57887775 666652 24699999999999999999999999999
Q ss_pred EEEEEecC
Q 001872 189 SLKACFGT 196 (1002)
Q Consensus 189 ~LRASFGT 196 (1002)
.|.|+|..
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 88
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.25 E-value=0.00049 Score=73.11 Aligned_cols=84 Identities=12% Similarity=0.203 Sum_probs=73.1
Q ss_pred cccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001872 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (1002)
Q Consensus 106 RVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L 185 (1002)
+-+.--.|||+++....+.+++ .+.|.-+|.|..|.|..++.++. +.++|||.|.+.+.+..|++ |||..+
T Consensus 97 ~~~d~~sv~v~nvd~~~t~~~~---e~hf~~Cg~i~~~ti~~d~~~~~-----~k~~~yvef~~~~~~~~ay~-l~gs~i 167 (231)
T KOG4209|consen 97 KEVDAPSVWVGNVDFLVTLTKI---ELHFESCGGINRVTVPKDKFRGH-----PKGFAYVEFSSYELVEEAYK-LDGSEI 167 (231)
T ss_pred hccCCceEEEeccccccccchh---hheeeccCCccceeeeccccCCC-----cceeEEEecccHhhhHHHhh-cCCccc
Confidence 3445566999999999888885 38999999999999998876642 45689999999999999999 999999
Q ss_pred CCeEEEEEecCCC
Q 001872 186 EGKSLKACFGTTK 198 (1002)
Q Consensus 186 DGR~LRASFGTTK 198 (1002)
.|+.+.+++-.|.
T Consensus 168 ~~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 168 PGPAIEVTLKRTN 180 (231)
T ss_pred ccccceeeeeeee
Confidence 9999999998887
No 89
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.06 E-value=0.00092 Score=76.37 Aligned_cols=72 Identities=21% Similarity=0.405 Sum_probs=60.3
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
-..|+|.+||..++= .+|| +-|-.||.|+-+.|+..-. .. .-|.|.++|+|++|++.|||..|+||.
T Consensus 536 a~qIiirNlP~dfTW-qmlr--DKfre~G~v~yadime~Gk-------sk---GVVrF~s~edAEra~a~Mngs~l~Gr~ 602 (608)
T KOG4212|consen 536 ACQIIIRNLPFDFTW-QMLR--DKFREIGHVLYADIMENGK-------SK---GVVRFFSPEDAERACALMNGSRLDGRN 602 (608)
T ss_pred ccEEEEecCCccccH-HHHH--HHHHhccceehhhhhccCC-------cc---ceEEecCHHHHHHHHHHhccCcccCce
Confidence 566999999999875 4454 8999999999988853211 12 279999999999999999999999999
Q ss_pred EEEEe
Q 001872 190 LKACF 194 (1002)
Q Consensus 190 LRASF 194 (1002)
|+|.|
T Consensus 603 I~V~y 607 (608)
T KOG4212|consen 603 IKVTY 607 (608)
T ss_pred eeeee
Confidence 99988
No 90
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=97.04 E-value=0.001 Score=72.49 Aligned_cols=77 Identities=22% Similarity=0.432 Sum_probs=64.7
Q ss_pred EEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCc-cCC--eE
Q 001872 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV-LEG--KS 189 (1002)
Q Consensus 113 VYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~-LDG--R~ 189 (1002)
+||+=|...-.+||++ .+|..||.|.++-|.+...+. ..+.|||.|.+..||..||.+|+|+. +-| ..
T Consensus 22 lfvgml~kqq~e~dvr---rlf~pfG~~~e~tvlrg~dg~------sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSS 92 (371)
T KOG0146|consen 22 LFVGMLNKQQSEDDVR---RLFQPFGNIEECTVLRGPDGN------SKGCAFVKFSSHAEAQAAINALHGSQTMPGASSS 92 (371)
T ss_pred hhhhhhcccccHHHHH---HHhcccCCcceeEEecCCCCC------CCCceEEEeccchHHHHHHHHhcccccCCCCccc
Confidence 7888888888889987 599999999999999876653 34579999999999999999999986 455 46
Q ss_pred EEEEecCCC
Q 001872 190 LKACFGTTK 198 (1002)
Q Consensus 190 LRASFGTTK 198 (1002)
|.|-|+-|.
T Consensus 93 LVVK~ADTd 101 (371)
T KOG0146|consen 93 LVVKFADTD 101 (371)
T ss_pred eEEEeccch
Confidence 888888763
No 91
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.04 E-value=0.00059 Score=74.95 Aligned_cols=60 Identities=22% Similarity=0.506 Sum_probs=51.0
Q ss_pred hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEe
Q 001872 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF 194 (1002)
Q Consensus 131 ~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASF 194 (1002)
.|-.++||+|.+|+|-....-.. .....+||.|++.++|.+|+-.|||..++||+++|+|
T Consensus 304 keEceKyg~V~~viifeip~~p~----deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~F 363 (378)
T KOG1996|consen 304 KEECEKYGKVGNVIIFEIPSQPE----DEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACF 363 (378)
T ss_pred HHHHHhhcceeeEEEEecCCCcc----chhheeeeeeccHHHHHHHHHhcCCceecceeeehee
Confidence 48899999999999976643211 2345689999999999999999999999999999986
No 92
>PLN02189 cellulose synthase
Probab=97.00 E-value=0.00033 Score=86.52 Aligned_cols=50 Identities=26% Similarity=0.893 Sum_probs=43.7
Q ss_pred CCCCCcccCCC--ccCCCccccC-CCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 7 KTCPLCAEEMD--LTDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 7 ~~CPLC~EeLD--lTD~~FkPC~-CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
..|.+|-++++ .+...|..|. |||.+|+.||...+ .+.+..||.|+..|.
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 5556889997 99999999999876 357889999999997
No 93
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.97 E-value=0.0016 Score=75.82 Aligned_cols=62 Identities=19% Similarity=0.432 Sum_probs=51.4
Q ss_pred hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEe
Q 001872 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF 194 (1002)
Q Consensus 131 ~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASF 194 (1002)
+.-+++||.|..|.|++.-.... ..+ ..+.+||.|.+.+++.+|.++|.|..+.||+|.++|
T Consensus 427 r~ec~k~g~v~~v~ipr~~~~~~-~~~-G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsY 488 (500)
T KOG0120|consen 427 RTECAKFGAVRSVEIPRPYPDEN-PVP-GTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASY 488 (500)
T ss_pred HHHhcccCceeEEecCCCCCCCC-cCC-CcccEEEEecChHHHHHHHHHccCceeCCcEEEEEe
Confidence 46799999999999998732221 122 346799999999999999999999999999999986
No 94
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=96.96 E-value=0.0008 Score=75.16 Aligned_cols=98 Identities=14% Similarity=0.203 Sum_probs=84.8
Q ss_pred cccccCEEEEeCCCCCCChhHHhhhhhhhcCCCcee--------EEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHH
Q 001872 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVL--------KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCI 177 (1002)
Q Consensus 106 RVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIi--------KIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAI 177 (1002)
.+.+..+|||-+|+..++...+. ++|.|.|.|. +|.|-++++|.. +.+-|=|||++.-.|+.||
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---DFFLQCGVIKRNKRTGKPKIKIYTDKETGA-----PKGEATVSYEDPPAAKAAI 133 (351)
T ss_pred cccccccceeeccCccchHHHHH---HHHhhcceeccCCCCCCcchhccccccccC-----cCCceeeeecChhhhhhhh
Confidence 48899999999999999877765 9999999996 466777776653 4567999999999999999
Q ss_pred HHhCCCccCCeEEEEEecCCCCcccccCCCCCCC
Q 001872 178 QSVHGFVLEGKSLKACFGTTKYCHAWLRNVPCTN 211 (1002)
Q Consensus 178 qaLNGs~LDGR~LRASFGTTKYCs~FLRn~~C~N 211 (1002)
.-.++..+.|.+|+|++++-+-=-.|.++..|++
T Consensus 134 ~~~agkdf~gn~ikvs~a~~r~~ve~~rg~~~~~ 167 (351)
T KOG1995|consen 134 EWFAGKDFCGNTIKVSLAERRTGVESVRGGYPND 167 (351)
T ss_pred hhhccccccCCCchhhhhhhccCcccccccccCc
Confidence 9999999999999999988777779999999765
No 95
>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=0.0011 Score=62.70 Aligned_cols=76 Identities=24% Similarity=0.473 Sum_probs=50.1
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEE-EeecCCCcc-cccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVS-MSRTAAGVI-QQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIv-I~rd~~t~~-qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
..-|.|-|.|+.. ...+| ++|++||.|++.+ +.++..+-. ...+..+.-++|+|+++.+|.+|++. ||..+.|
T Consensus 6 ~~wVtVFGfp~~~-~~~Vl---~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~-NG~i~~g 80 (100)
T PF05172_consen 6 ETWVTVFGFPPSA-SNQVL---RHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQK-NGTIFSG 80 (100)
T ss_dssp CCEEEEE---GGG-HHHHH---HHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTT-TTEEETT
T ss_pred CeEEEEEccCHHH-HHHHH---HHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHh-CCeEEcC
Confidence 4569999999996 46677 7999999999886 222111000 01123455689999999999999996 9999998
Q ss_pred eEE
Q 001872 188 KSL 190 (1002)
Q Consensus 188 R~L 190 (1002)
..|
T Consensus 81 ~~m 83 (100)
T PF05172_consen 81 SLM 83 (100)
T ss_dssp CEE
T ss_pred cEE
Confidence 755
No 96
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=96.84 E-value=0.0039 Score=66.85 Aligned_cols=80 Identities=14% Similarity=0.328 Sum_probs=58.2
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC---C
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE---G 187 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LD---G 187 (1002)
+++||.|||..+.-.||. -+|-.|---.-..+-.+-... .+++ ..|||||.+..+|..|+.+|||..+| |
T Consensus 35 RTLFVSGLP~DvKpREiy---nLFR~f~GYEgslLK~Tsk~~---~~~~-pvaFatF~s~q~A~aamnaLNGvrFDpE~~ 107 (284)
T KOG1457|consen 35 RTLFVSGLPNDVKPREIY---NLFRRFHGYEGSLLKYTSKGD---QVCK-PVAFATFTSHQFALAAMNALNGVRFDPETG 107 (284)
T ss_pred ceeeeccCCcccCHHHHH---HHhccCCCccceeeeeccCCC---cccc-ceEEEEecchHHHHHHHHHhcCeeeccccC
Confidence 468999999999888884 677766443333332221111 1222 46899999999999999999999886 7
Q ss_pred eEEEEEecCC
Q 001872 188 KSLKACFGTT 197 (1002)
Q Consensus 188 R~LRASFGTT 197 (1002)
.+|++.++..
T Consensus 108 stLhiElAKS 117 (284)
T KOG1457|consen 108 STLHIELAKS 117 (284)
T ss_pred ceeEeeehhc
Confidence 8999988865
No 97
>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=96.83 E-value=0.0019 Score=71.50 Aligned_cols=56 Identities=23% Similarity=0.615 Sum_probs=41.5
Q ss_pred cCCCCCCcccCCCc-cCC-CccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchh
Q 001872 5 GEKTCPLCAEEMDL-TDQ-QLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIV 66 (1002)
Q Consensus 5 ~d~~CPLC~EeLDl-TD~-~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i~ 66 (1002)
++..||+|...-=+ .+. .+.- +||..+|.-|..+|.. ...+.||.|++++....+.
T Consensus 2 d~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~-----~~~~~CP~C~~~lrk~~fr 59 (309)
T TIGR00570 2 DDQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFV-----RGSGSCPECDTPLRKNNFR 59 (309)
T ss_pred CCCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhc-----CCCCCCCCCCCccchhhcc
Confidence 34789999985322 233 3444 9999999999999963 2457999999999877653
No 98
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.64 E-value=0.0031 Score=53.17 Aligned_cols=52 Identities=23% Similarity=0.621 Sum_probs=42.2
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHH
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCI 177 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAI 177 (1002)
.-|=|.|.++... +++| ++|.+||+|.++.+... +-.+||+|.+..+|++|+
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 4578999998864 6666 69999999999988621 236899999999999984
No 99
>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=96.63 E-value=0.00099 Score=54.50 Aligned_cols=47 Identities=34% Similarity=0.911 Sum_probs=36.5
Q ss_pred cCCCCCCcccCCCccCCCccccCCCCc-chhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPCKCGYE-ICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC~CGYQ-IC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
++..|++|.+.. .|..|.| ||.. +|..|+.+++. ...+||-||+++.
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 467899999985 3556665 6899 99999999974 5789999999875
No 100
>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=96.62 E-value=0.00056 Score=54.48 Aligned_cols=44 Identities=27% Similarity=0.740 Sum_probs=34.5
Q ss_pred CCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCC
Q 001872 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACR 57 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACR 57 (1002)
++||+|+|+|+. +......+||..+|.-|+...+. .+..||-||
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 479999999965 55666777999999999988764 256999998
No 101
>PLN02436 cellulose synthase A
Probab=96.59 E-value=0.001 Score=82.49 Aligned_cols=50 Identities=26% Similarity=0.886 Sum_probs=43.2
Q ss_pred CCCCCcccCC--CccCCCccccC-CCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 7 KTCPLCAEEM--DLTDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 7 ~~CPLC~EeL--DlTD~~FkPC~-CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
.+|.+|-+++ +.+-..|.-|. |||.+|+.||...+ .+.+..||.|+..|+
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 45556899995 99999999999876 357889999999997
No 102
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=96.59 E-value=0.005 Score=70.65 Aligned_cols=77 Identities=17% Similarity=0.346 Sum_probs=64.6
Q ss_pred cccCE-EEEeCCCCCCChhHHhhhhhhh-cCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001872 108 IQRNL-VYIVGLPLNLGDEDLLQRREYF-GQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (1002)
Q Consensus 108 IQrNL-VYV~GLp~kIAdEELLRk~EyF-GQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L 185 (1002)
..++. |||.+||+.+.=.+|. ++| .+-|.|.-|.+.-|..+. .++.|-|+|.++|.+++|++.||-+.+
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 9999999998777763 555 467999999999988764 356799999999999999999999999
Q ss_pred CCeEEEEE
Q 001872 186 EGKSLKAC 193 (1002)
Q Consensus 186 DGR~LRAS 193 (1002)
.||.|+|-
T Consensus 112 ~GR~l~vK 119 (608)
T KOG4212|consen 112 NGRELVVK 119 (608)
T ss_pred cCceEEEe
Confidence 99999985
No 103
>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=96.32 E-value=0.004 Score=47.12 Aligned_cols=45 Identities=31% Similarity=0.834 Sum_probs=33.7
Q ss_pred CCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001872 8 TCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (1002)
Q Consensus 8 ~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpY 60 (1002)
.|++|.+.+. ..+..-+||..+|.-|+...... ...+||.||+++
T Consensus 1 ~C~iC~~~~~---~~~~~~~C~H~~c~~C~~~~~~~-----~~~~Cp~C~~~~ 45 (45)
T cd00162 1 ECPICLEEFR---EPVVLLPCGHVFCRSCIDKWLKS-----GKNTCPLCRTPI 45 (45)
T ss_pred CCCcCchhhh---CceEecCCCChhcHHHHHHHHHh-----CcCCCCCCCCcC
Confidence 5999999982 23333359999999999988641 467899999853
No 104
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=96.27 E-value=0.0061 Score=71.61 Aligned_cols=77 Identities=17% Similarity=0.340 Sum_probs=59.7
Q ss_pred cCEEEEeCCCCCCC-hhHHhhh--hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001872 110 RNLVYIVGLPLNLG-DEDLLQR--REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (1002)
Q Consensus 110 rNLVYV~GLp~kIA-dEELLRk--~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LD 186 (1002)
.+.|+|-|+|---. .-+.||. ..+|++||+|.+++++.+..++ ..|.+|+.|.+..+|..|++.+||+.||
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 46788889885422 2234443 7899999999999999887765 2357999999999999999999999987
Q ss_pred C-eEEEE
Q 001872 187 G-KSLKA 192 (1002)
Q Consensus 187 G-R~LRA 192 (1002)
- .++.|
T Consensus 132 knHtf~v 138 (698)
T KOG2314|consen 132 KNHTFFV 138 (698)
T ss_pred ccceEEe
Confidence 4 34444
No 105
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.25 E-value=0.004 Score=65.18 Aligned_cols=59 Identities=24% Similarity=0.632 Sum_probs=42.1
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhh----------ccccCCCCCCCCCCCcccchh
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAE----------KEETEGRCPACRSPYDKEKIV 66 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~----------K~~~~grCPACRrpYdEe~i~ 66 (1002)
+++.+||+|.+.+ +|... -+||...|+-|..+...... ......+||-||+++....+.
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 3568999999987 35544 36999999999987653210 012356899999999877664
No 106
>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=96.17 E-value=0.011 Score=56.18 Aligned_cols=58 Identities=26% Similarity=0.430 Sum_probs=37.4
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCC
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF 183 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs 183 (1002)
+|+|.|+...+..++|- +.|.+||.|.-|.+.+.. -.+||.|.+.+.|.+|+.++.-.
T Consensus 3 il~~~g~~~~~~re~iK---~~f~~~g~V~yVD~~~G~-----------~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDIK---EAFSQFGEVAYVDFSRGD-----------TEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp EEEEEE--SS--HHHHH---HHT-SS--EEEEE--TT------------SEEEEEESS---HHHHHHHHHHT
T ss_pred EEEEecCCCCcCHHHHH---HHHHhcCCcceEEecCCC-----------CEEEEEECCcchHHHHHHHHHhc
Confidence 68999999999877773 999999999988886531 25899999999999999887654
No 107
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.07 E-value=0.035 Score=64.65 Aligned_cols=86 Identities=13% Similarity=0.281 Sum_probs=69.1
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.|-+.||||..+.+||| ++|+-. +|..++++++.. .+++-|||+|..+||+.+|++. |-..+.-|.|-
T Consensus 12 ~vr~rGLPwsat~~ei~---~Ff~~~-~I~~~~~~r~~G-------r~sGeA~Ve~~seedv~~Alkk-dR~~mg~RYIE 79 (510)
T KOG4211|consen 12 EVRLRGLPWSATEKEIL---DFFSNC-GIENLEIPRRNG-------RPSGEAYVEFTSEEDVEKALKK-DRESMGHRYIE 79 (510)
T ss_pred EEEecCCCccccHHHHH---HHHhcC-ceeEEEEeccCC-------CcCcceEEEeechHHHHHHHHh-hHHHhCCceEE
Confidence 46678999999999998 899999 688888877532 2456899999999999999985 77888899999
Q ss_pred EEecCCCCcccccCCCCC
Q 001872 192 ACFGTTKYCHAWLRNVPC 209 (1002)
Q Consensus 192 ASFGTTKYCs~FLRn~~C 209 (1002)
|-=++.+---..+|...=
T Consensus 80 Vf~~~~~e~d~~~~~~g~ 97 (510)
T KOG4211|consen 80 VFTAGGAEADWVMRPGGP 97 (510)
T ss_pred EEccCCccccccccCCCC
Confidence 887776666555554443
No 108
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.06 E-value=0.0056 Score=65.75 Aligned_cols=52 Identities=23% Similarity=0.588 Sum_probs=39.2
Q ss_pred ccCCCCCCcccCCCccCC----CccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 4 EGEKTCPLCAEEMDLTDQ----QLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~----~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
.++.+||+|+|++..... --...+||...|.-|...-+. ....||-||+++.
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 346899999999753321 124568999999999887753 4678999999764
No 109
>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=95.99 E-value=0.047 Score=51.76 Aligned_cols=82 Identities=20% Similarity=0.248 Sum_probs=65.1
Q ss_pred cCEEEEeCCCCCCChhHHhhh-hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC--
Q 001872 110 RNLVYIVGLPLNLGDEDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE-- 186 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk-~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LD-- 186 (1002)
|++|=|.|||.+++.++|+.- .+.| .|+.-=+.++.|-.+. +..|+|||.|.+.+.|.+=.++.+|..+.
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 578999999999999887642 3444 4777778888886654 34578999999999999999999999875
Q ss_pred --CeEEEEEecCCC
Q 001872 187 --GKSLKACFGTTK 198 (1002)
Q Consensus 187 --GR~LRASFGTTK 198 (1002)
.++..++||+..
T Consensus 74 ~s~Kvc~i~yAriQ 87 (97)
T PF04059_consen 74 NSKKVCEISYARIQ 87 (97)
T ss_pred CCCcEEEEehhHhh
Confidence 567788887754
No 110
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=95.74 E-value=0.0042 Score=67.36 Aligned_cols=78 Identities=21% Similarity=0.323 Sum_probs=59.3
Q ss_pred ccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccC----CC--C-cEEEEEeCCHHHHHHHHHHhC
Q 001872 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFP----NN--T-CSVYITYSKEEEAVRCIQSVH 181 (1002)
Q Consensus 109 QrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p----~~--g-gsAYVTFs~~EDA~rAIqaLN 181 (1002)
....||+.+||+.+.---| ++||++||.|-.|.+-......+.+.. +. . --+||.|.++..|.++...||
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 4588999999999965554 399999999999999765443110000 00 0 125999999999999999999
Q ss_pred CCccCCeE
Q 001872 182 GFVLEGKS 189 (1002)
Q Consensus 182 Gs~LDGR~ 189 (1002)
|.+|+|+.
T Consensus 150 n~~Iggkk 157 (278)
T KOG3152|consen 150 NTPIGGKK 157 (278)
T ss_pred CCccCCCC
Confidence 99999974
No 111
>PLN02248 cellulose synthase-like protein
Probab=95.55 E-value=0.011 Score=73.98 Aligned_cols=51 Identities=35% Similarity=1.025 Sum_probs=38.4
Q ss_pred CCC--CCcccCC--CccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001872 7 KTC--PLCAEEM--DLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (1002)
Q Consensus 7 ~~C--PLC~EeL--DlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe 63 (1002)
..| +-|-... |..-....||.|+|.||+-||-.-+. ..|.||+|+.+|...
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~ 179 (1135)
T PLN02248 125 SSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDAVK------SGGICPGCKEPYKVT 179 (1135)
T ss_pred CcccccCcccccccccccccCCcccccchhHHhHhhhhhh------cCCCCCCCccccccc
Confidence 456 4566555 33335689999999999999987652 389999999999543
No 112
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=95.34 E-value=0.012 Score=68.88 Aligned_cols=85 Identities=19% Similarity=0.302 Sum_probs=71.9
Q ss_pred cccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCC
Q 001872 104 SVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF 183 (1002)
Q Consensus 104 nVRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs 183 (1002)
.+-..+.+.+||+|||..+.+..++ |+.+-||.+....+.++..++ +..++||-.|.+.-....||..|||.
T Consensus 283 t~~~~~~~ki~v~~lp~~l~~~q~~---Ell~~fg~lk~f~lv~d~~~g-----~skg~af~ey~dpsvtd~A~agLnGm 354 (500)
T KOG0120|consen 283 TDVPDSPNKIFVGGLPLYLTEDQVK---ELLDSFGPLKAFRLVKDSATG-----NSKGFAFCEYCDPSVTDQAIAGLNGM 354 (500)
T ss_pred cCcccccchhhhccCcCccCHHHHH---HHHHhcccchhheeecccccc-----cccceeeeeeeCCcchhhhhcccchh
Confidence 3346778999999999999877775 888888999888888877653 24567999999999999999999999
Q ss_pred ccCCeEEEEEecC
Q 001872 184 VLEGKSLKACFGT 196 (1002)
Q Consensus 184 ~LDGR~LRASFGT 196 (1002)
.+.++.|.|+.+-
T Consensus 355 ~lgd~~lvvq~A~ 367 (500)
T KOG0120|consen 355 QLGDKKLVVQRAI 367 (500)
T ss_pred hhcCceeEeehhh
Confidence 9999999988654
No 113
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=95.30 E-value=0.0097 Score=65.14 Aligned_cols=86 Identities=14% Similarity=0.213 Sum_probs=71.1
Q ss_pred CEEE-EeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 111 NLVY-IVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 111 NLVY-V~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
-++| |++|+..+++++|. ++|+.+|.|+.|.+..++.+.. ..++|||.|....++..|+.. ....++|++
T Consensus 185 ~~~~~~~~~~f~~~~d~~~---~~~~~~~~i~~~r~~~~~~s~~-----~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~ 255 (285)
T KOG4210|consen 185 DTIFFVGELDFSLTRDDLK---EHFVSSGEITSVRLPTDEESGD-----SKGFAYVDFSAGNSKKLALND-QTRSIGGRP 255 (285)
T ss_pred ccceeecccccccchHHHh---hhccCcCcceeeccCCCCCccc-----hhhhhhhhhhhchhHHHHhhc-ccCcccCcc
Confidence 3466 99999999877763 8999999999999998877653 345789999999999999998 888999999
Q ss_pred EEEEecCCC---CcccccC
Q 001872 190 LKACFGTTK---YCHAWLR 205 (1002)
Q Consensus 190 LRASFGTTK---YCs~FLR 205 (1002)
+++.++.-. +|.-|..
T Consensus 256 ~~~~~~~~~~~~~~~~~~~ 274 (285)
T KOG4210|consen 256 LRLEEDEPRPKSDGGLFGN 274 (285)
T ss_pred cccccCCCCcccccccccc
Confidence 999998764 4544443
No 114
>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=95.23 E-value=0.022 Score=47.56 Aligned_cols=50 Identities=22% Similarity=0.327 Sum_probs=38.1
Q ss_pred CCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 6 d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
+..||+|.+.|+ |.... +||+-+|+-|...... + ++.||-|++++..+.+
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 357999999986 44433 6799988888887763 1 6899999999865544
No 115
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.15 E-value=0.064 Score=61.11 Aligned_cols=75 Identities=20% Similarity=0.318 Sum_probs=63.7
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
.-.+-|.||...--+-|.| ..+|-+||.|.+|..++++. +.|-|++.+.++.++||..||+..+.|..
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 3468899998765455555 48999999999999999754 36899999999999999999999999999
Q ss_pred EEEEecC
Q 001872 190 LKACFGT 196 (1002)
Q Consensus 190 LRASFGT 196 (1002)
|.+++..
T Consensus 355 l~v~~Sk 361 (494)
T KOG1456|consen 355 LNVCVSK 361 (494)
T ss_pred EEEeecc
Confidence 9998764
No 116
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=94.82 E-value=0.034 Score=63.76 Aligned_cols=70 Identities=23% Similarity=0.363 Sum_probs=54.0
Q ss_pred EeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc-CC-eEEEE
Q 001872 115 IVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL-EG-KSLKA 192 (1002)
Q Consensus 115 V~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L-DG-R~LRA 192 (1002)
|.++-+.++ =|+| +.+|++||+|.||+--.. +.++.|-|.|.+.+.|..|-.+|||.-| +| ..||+
T Consensus 155 ie~m~ypVs-lDVL--HqvFS~fG~VlKIiTF~K---------nn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrI 222 (492)
T KOG1190|consen 155 IENMFYPVS-LDVL--HQVFSKFGFVLKIITFTK---------NNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRI 222 (492)
T ss_pred eccceeeeE-HHHH--HHHHhhcceeEEEEEEec---------ccchhhhhhccchhhHHHHHHhccCCcccCceeEEEe
Confidence 334444443 3666 799999999999986532 3568899999999999999999999765 55 48888
Q ss_pred EecC
Q 001872 193 CFGT 196 (1002)
Q Consensus 193 SFGT 196 (1002)
.|..
T Consensus 223 d~Sk 226 (492)
T KOG1190|consen 223 DFSK 226 (492)
T ss_pred ehhh
Confidence 8754
No 117
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.75 E-value=0.015 Score=57.42 Aligned_cols=48 Identities=31% Similarity=0.696 Sum_probs=39.4
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
+++..||+|.+.|... .--+||.-+|..|...+.+ ..-+||.||.++.
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 5678999999999855 5567999999999999964 4579999995444
No 118
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.61 E-value=0.053 Score=62.19 Aligned_cols=52 Identities=23% Similarity=0.673 Sum_probs=40.1
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
+++..||+|.+.|. +-.. =+||..+|.-|....+. ..+.||.||.++.+..+
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 45689999999884 3322 37999999999998763 24689999999886544
No 119
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=94.59 E-value=0.02 Score=61.00 Aligned_cols=75 Identities=23% Similarity=0.374 Sum_probs=57.0
Q ss_pred ccccccccc--CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHH
Q 001872 102 LSSVRVIQR--NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (1002)
Q Consensus 102 LanVRVIQr--NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqa 179 (1002)
+...+|.-+ --+.|-+|+.++...+| .++|++||++...+++ ...++|.|+..+||.+||..
T Consensus 89 ~~~~~~p~~s~~r~~~~~~~~r~~~qdl---~d~~~~~g~~~~~~~~-------------~~~~~v~Fs~~~da~ra~~~ 152 (216)
T KOG0106|consen 89 SRRYRPPSRTHFRLIVRNLSLRVSWQDL---KDHFRPAGEVTYVDAR-------------RNFAFVEFSEQEDAKRALEK 152 (216)
T ss_pred hhccCCcccccceeeeccchhhhhHHHH---hhhhcccCCCchhhhh-------------ccccceeehhhhhhhhcchh
Confidence 444454332 23556667777766676 4899999999555442 13589999999999999999
Q ss_pred hCCCccCCeEEEE
Q 001872 180 VHGFVLEGKSLKA 192 (1002)
Q Consensus 180 LNGs~LDGR~LRA 192 (1002)
|+|..+.|+.|++
T Consensus 153 l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 153 LDGKKLNGRRISV 165 (216)
T ss_pred ccchhhcCceeee
Confidence 9999999999998
No 120
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=94.48 E-value=0.034 Score=63.35 Aligned_cols=81 Identities=21% Similarity=0.431 Sum_probs=62.9
Q ss_pred ccccccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeE---EEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHH
Q 001872 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK---VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCI 177 (1002)
Q Consensus 101 ~LanVRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiK---IvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAI 177 (1002)
+....|+ |++|-+.|||+..+.|+|| ++||.|-+-++ |.|..+..+ .++|-|||.|.+.|+|..|.
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 5555555 9999999999999999999 89999987654 345444433 25678999999999999999
Q ss_pred HHhCCCccCCeEEEE
Q 001872 178 QSVHGFVLEGKSLKA 192 (1002)
Q Consensus 178 qaLNGs~LDGR~LRA 192 (1002)
+..+.....+|+|.+
T Consensus 342 qk~hk~~mk~RYiEv 356 (508)
T KOG1365|consen 342 QKCHKKLMKSRYIEV 356 (508)
T ss_pred HHHHHhhcccceEEE
Confidence 998876655555554
No 121
>PLN02195 cellulose synthase A
Probab=94.40 E-value=0.029 Score=69.86 Aligned_cols=57 Identities=30% Similarity=0.800 Sum_probs=46.7
Q ss_pred CCcccCCCCCCcccCCCccC--CCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001872 1 MSDEGEKTCPLCAEEMDLTD--QQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (1002)
Q Consensus 1 msDd~d~~CPLC~EeLDlTD--~~FkPC-~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdE 62 (1002)
|-+-....|.+|-++++++. ..|.-| .|+|.+|+-||..=+ .+.+-.||-|...|.|
T Consensus 1 ~~~~~~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCyeyer-----~eg~q~CpqCkt~Yk~ 60 (977)
T PLN02195 1 MMESGAPICATCGEEVGVDSNGEAFVACHECSYPLCKACLEYEI-----KEGRKVCLRCGGPYDA 60 (977)
T ss_pred CCcCCCccceecccccCcCCCCCeEEEeccCCCccccchhhhhh-----hcCCccCCccCCcccc
Confidence 33445679999999887765 468899 899999999997654 4688899999999984
No 122
>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=94.18 E-value=0.026 Score=44.20 Aligned_cols=39 Identities=31% Similarity=0.980 Sum_probs=29.7
Q ss_pred CCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCC
Q 001872 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (1002)
Q Consensus 9 CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPAC 56 (1002)
||+|.+.+. | .+.--+||.-+|.-||.+.++ . +.+||.|
T Consensus 1 C~iC~~~~~--~-~~~~~~CGH~fC~~C~~~~~~-----~-~~~CP~C 39 (39)
T PF13923_consen 1 CPICLDELR--D-PVVVTPCGHSFCKECIEKYLE-----K-NPKCPVC 39 (39)
T ss_dssp ETTTTSB-S--S-EEEECTTSEEEEHHHHHHHHH-----C-TSB-TTT
T ss_pred CCCCCCccc--C-cCEECCCCCchhHHHHHHHHH-----C-cCCCcCC
Confidence 899999885 2 444578999999999999874 2 5899988
No 123
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=94.11 E-value=0.043 Score=59.96 Aligned_cols=73 Identities=15% Similarity=0.292 Sum_probs=59.9
Q ss_pred EEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEE
Q 001872 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKA 192 (1002)
Q Consensus 113 VYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRA 192 (1002)
||-+-|.-.+.+ |+| ..-|.+|=.-.+-.|.+++.++. .. ++.||.|.+.+|+.+|+..|||..++.|+|++
T Consensus 193 IfcgdlgNevnd-~vl--~raf~Kfpsf~~akviRdkRTgK----Sk-gygfVSf~~pad~~rAmrem~gkyVgsrpikl 264 (290)
T KOG0226|consen 193 IFCGDLGNEVND-DVL--ARAFKKFPSFQKAKVIRDKRTGK----SK-GYGFVSFRDPADYVRAMREMNGKYVGSRPIKL 264 (290)
T ss_pred eecccccccccH-HHH--HHHHHhccchhhccccccccccc----cc-cceeeeecCHHHHHHHHHhhcccccccchhHh
Confidence 567777777765 555 35899999999999999887763 34 45799999999999999999999999999875
Q ss_pred E
Q 001872 193 C 193 (1002)
Q Consensus 193 S 193 (1002)
-
T Consensus 265 R 265 (290)
T KOG0226|consen 265 R 265 (290)
T ss_pred h
Confidence 4
No 124
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.10 E-value=0.081 Score=58.97 Aligned_cols=65 Identities=23% Similarity=0.401 Sum_probs=52.5
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~L 190 (1002)
.-|-|-|.++.-. .-+| ..|.+||.|+|+|... .+...||.|..+-+|.+||.. ||..|+|-++
T Consensus 198 ~WVTVfGFppg~~-s~vL---~~F~~cG~Vvkhv~~~-----------ngNwMhirYssr~~A~KALsk-ng~ii~g~vm 261 (350)
T KOG4285|consen 198 TWVTVFGFPPGQV-SIVL---NLFSRCGEVVKHVTPS-----------NGNWMHIRYSSRTHAQKALSK-NGTIIDGDVM 261 (350)
T ss_pred ceEEEeccCccch-hHHH---HHHHhhCeeeeeecCC-----------CCceEEEEecchhHHHHhhhh-cCeeeccceE
Confidence 4478889988743 3456 6999999999999752 245789999999999999986 9999999765
Q ss_pred E
Q 001872 191 K 191 (1002)
Q Consensus 191 R 191 (1002)
-
T Consensus 262 i 262 (350)
T KOG4285|consen 262 I 262 (350)
T ss_pred E
Confidence 3
No 125
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=93.99 E-value=0.12 Score=52.39 Aligned_cols=52 Identities=25% Similarity=0.539 Sum_probs=41.4
Q ss_pred hhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEecCC
Q 001872 132 EYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTT 197 (1002)
Q Consensus 132 EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASFGTT 197 (1002)
+.|.+||.++=|++.- ..-+|||.+-+.|.+|+. +||.++.|+.|++...|+
T Consensus 55 ~~~~~~GevvLvRfv~-------------~~mwVTF~dg~sALaals-~dg~~v~g~~l~i~LKtp 106 (146)
T PF08952_consen 55 QKFAQYGEVVLVRFVG-------------DTMWVTFRDGQSALAALS-LDGIQVNGRTLKIRLKTP 106 (146)
T ss_dssp HHHHCCS-ECEEEEET-------------TCEEEEESSCHHHHHHHH-GCCSEETTEEEEEEE---
T ss_pred HHHHhCCceEEEEEeC-------------CeEEEEECccHHHHHHHc-cCCcEECCEEEEEEeCCc
Confidence 7899999988776642 236999999999998887 799999999999997654
No 126
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=93.66 E-value=0.068 Score=43.08 Aligned_cols=44 Identities=25% Similarity=0.722 Sum_probs=36.5
Q ss_pred CCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001872 8 TCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (1002)
Q Consensus 8 ~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRr 58 (1002)
.|++|.+++ ..+..++-=.||..+|.-|...+. .....||.||+
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 334557888999999999999884 34789999996
No 127
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.62 E-value=0.042 Score=61.97 Aligned_cols=53 Identities=26% Similarity=0.625 Sum_probs=43.7
Q ss_pred cccCCCCCCcccCCCccCCCcccc--CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 3 DEGEKTCPLCAEEMDLTDQQLKPC--KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~FkPC--~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
|||++.|-+|.+.+. +-| ||+.|||.-|--|++.+ .+..-||-||.+.++-.|
T Consensus 58 DEen~~C~ICA~~~T------Ys~~~PC~H~~CH~Ca~RlRAL----Y~~K~C~~CrTE~e~V~f 112 (493)
T COG5236 58 DEENMNCQICAGSTT------YSARYPCGHQICHACAVRLRAL----YMQKGCPLCRTETEAVVF 112 (493)
T ss_pred ccccceeEEecCCce------EEEeccCCchHHHHHHHHHHHH----HhccCCCccccccceEEE
Confidence 677899999999985 344 78999999999999975 467889999999876433
No 128
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=93.60 E-value=0.061 Score=49.71 Aligned_cols=53 Identities=25% Similarity=0.836 Sum_probs=24.7
Q ss_pred cCCCCCCcccCCCcc--CCCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001872 5 GEKTCPLCAEEMDLT--DQQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlT--D~~FkPC-~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdE 62 (1002)
....|.+|-+.+-++ -..|.-| .|+|-||+-||..=+. +.+-.||-|+.+|..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYErk-----eg~q~CpqCkt~ykr 63 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYERK-----EGNQVCPQCKTRYKR 63 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHHHH-----TS-SB-TTT--B---
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHHhh-----cCcccccccCCCccc
Confidence 457899999987544 4679999 8999999999997653 467889999999974
No 129
>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=93.50 E-value=0.08 Score=38.54 Aligned_cols=39 Identities=31% Similarity=0.872 Sum_probs=29.6
Q ss_pred CCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCC
Q 001872 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (1002)
Q Consensus 9 CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPAC 56 (1002)
|++|.+.. .....-+||..+|..|+..+.+ .....||.|
T Consensus 1 C~iC~~~~----~~~~~~~C~H~~c~~C~~~~~~-----~~~~~CP~C 39 (39)
T smart00184 1 CPICLEEL----KDPVVLPCGHTFCRSCIRKWLK-----SGNNTCPIC 39 (39)
T ss_pred CCcCccCC----CCcEEecCCChHHHHHHHHHHH-----hCcCCCCCC
Confidence 89998883 3344446999999999998864 356789987
No 130
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.29 E-value=0.066 Score=55.90 Aligned_cols=52 Identities=23% Similarity=0.740 Sum_probs=41.0
Q ss_pred CCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 6 d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
-..||+||+.+. .+.-.-=+||.-+|.-|....+. ....||-||+..+++.+
T Consensus 131 ~~~CPiCl~~~s--ek~~vsTkCGHvFC~~Cik~alk------~~~~CP~C~kkIt~k~~ 182 (187)
T KOG0320|consen 131 TYKCPICLDSVS--EKVPVSTKCGHVFCSQCIKDALK------NTNKCPTCRKKITHKQF 182 (187)
T ss_pred ccCCCceecchh--hccccccccchhHHHHHHHHHHH------hCCCCCCcccccchhhh
Confidence 357999999874 45546679999999999998875 36789999997766544
No 131
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=92.92 E-value=0.067 Score=63.63 Aligned_cols=74 Identities=26% Similarity=0.286 Sum_probs=55.9
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCce-eEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc---
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKV-LKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL--- 185 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKI-iKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L--- 185 (1002)
-|.|||.||-.-++.-.|. ++.|+-|.| ....| |+. ++ -+||+|.+.+||..-+.+|+|..+
T Consensus 444 SnvlhI~nLvRPFTlgQLk---elL~rtgg~Vee~Wm--DkI--------KS-hCyV~yss~eEA~atr~AlhnV~WP~s 509 (718)
T KOG2416|consen 444 SNVLHIDNLVRPFTLGQLK---ELLGRTGGNVEEFWM--DKI--------KS-HCYVSYSSVEEAAATREALHNVQWPPS 509 (718)
T ss_pred cceEeeecccccchHHHHH---HHHhhccCchHHHHH--HHh--------hc-ceeEecccHHHHHHHHHHHhccccCCC
Confidence 6999999998888877763 899955554 44444 222 12 269999999999999999999875
Q ss_pred CCeEEEEEecCC
Q 001872 186 EGKSLKACFGTT 197 (1002)
Q Consensus 186 DGR~LRASFGTT 197 (1002)
+++-|-|.|++.
T Consensus 510 NPK~L~adf~~~ 521 (718)
T KOG2416|consen 510 NPKHLIADFVRA 521 (718)
T ss_pred CCceeEeeecch
Confidence 567787777753
No 132
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=92.78 E-value=0.4 Score=54.99 Aligned_cols=72 Identities=19% Similarity=0.302 Sum_probs=58.2
Q ss_pred EeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc-CC-eEEEE
Q 001872 115 IVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL-EG-KSLKA 192 (1002)
Q Consensus 115 V~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L-DG-R~LRA 192 (1002)
|.|--+.|+ -|+| |.+.-.-|+|++|+|.+.. +..|-|+|++.+.|.+|-.+|||..| -| -+||+
T Consensus 127 IlNp~YpIt-vDVl--y~Icnp~GkVlRIvIfkkn----------gVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKI 193 (494)
T KOG1456|consen 127 ILNPQYPIT-VDVL--YTICNPQGKVLRIVIFKKN----------GVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKI 193 (494)
T ss_pred eecCccccc-hhhh--hhhcCCCCceEEEEEEecc----------ceeeEEeechhHHHHHHHhhcccccccccceeEEE
Confidence 444445565 4666 6899999999999999752 46799999999999999999999876 34 69999
Q ss_pred EecCCCC
Q 001872 193 CFGTTKY 199 (1002)
Q Consensus 193 SFGTTKY 199 (1002)
.|+..-.
T Consensus 194 eyAkP~r 200 (494)
T KOG1456|consen 194 EYAKPTR 200 (494)
T ss_pred EecCcce
Confidence 9997644
No 133
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=92.75 E-value=0.094 Score=52.70 Aligned_cols=55 Identities=25% Similarity=0.784 Sum_probs=43.3
Q ss_pred ccCCCCCCcccCCCccCCCc-cccCC-CCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001872 4 EGEKTCPLCAEEMDLTDQQL-KPCKC-GYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F-kPC~C-GYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe 63 (1002)
.---+|.+|-|-- +|..| +|=.| ||.||--||-.+-..+ +....||+|+.-|..+
T Consensus 78 ~~lYeCnIC~etS--~ee~FLKPneCCgY~iCn~Cya~LWK~~---~~ypvCPvCkTSFKss 134 (140)
T PF05290_consen 78 PKLYECNICKETS--AEERFLKPNECCGYSICNACYANLWKFC---NLYPVCPVCKTSFKSS 134 (140)
T ss_pred CCceeccCccccc--chhhcCCcccccchHHHHHHHHHHHHHc---ccCCCCCccccccccc
Confidence 3345899999875 45555 88765 9999999999998754 4789999999977554
No 134
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=92.48 E-value=0.31 Score=52.38 Aligned_cols=76 Identities=13% Similarity=0.409 Sum_probs=63.2
Q ss_pred cccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC-
Q 001872 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE- 186 (1002)
Q Consensus 108 IQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LD- 186 (1002)
-+.+.+++.+||.... .++| ..+|.||.--..|++... .++.|||+|.+...|.-|.+++.|+.+-
T Consensus 144 ppn~ilf~~niP~es~-~e~l--~~lf~qf~g~keir~i~~----------~~~iAfve~~~d~~a~~a~~~lq~~~it~ 210 (221)
T KOG4206|consen 144 PPNNILFLTNIPSESE-SEML--SDLFEQFPGFKEIRLIPP----------RSGIAFVEFLSDRQASAAQQALQGFKITK 210 (221)
T ss_pred CCceEEEEecCCcchh-HHHH--HHHHhhCcccceeEeccC----------CCceeEEecchhhhhHHHhhhhccceecc
Confidence 3467899999999975 4555 489999999999998753 3457999999999999999999999875
Q ss_pred CeEEEEEecC
Q 001872 187 GKSLKACFGT 196 (1002)
Q Consensus 187 GR~LRASFGT 196 (1002)
..+++++|+.
T Consensus 211 ~~~m~i~~a~ 220 (221)
T KOG4206|consen 211 KNTMQITFAK 220 (221)
T ss_pred CceEEecccC
Confidence 7888888763
No 135
>PHA02926 zinc finger-like protein; Provisional
Probab=92.31 E-value=0.14 Score=55.19 Aligned_cols=57 Identities=23% Similarity=0.532 Sum_probs=38.5
Q ss_pred cCCCCCCcccCCC----ccCCCcc-ccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 5 GEKTCPLCAEEMD----LTDQQLK-PCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 5 ~d~~CPLC~EeLD----lTD~~Fk-PC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
.|.+|++|+|.+- ..|+.|- .=+|+.-.|.-|...-++..........||-||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 3689999999862 3455553 3389999888888776642111122456999999764
No 136
>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=92.21 E-value=0.078 Score=41.33 Aligned_cols=41 Identities=27% Similarity=0.726 Sum_probs=32.9
Q ss_pred CCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCC
Q 001872 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (1002)
Q Consensus 9 CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPAC 56 (1002)
||+|.+.+.... ..=+||..+|..|+.++++. .....||-|
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 899999986333 56688999999999999752 467789987
No 137
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=92.19 E-value=0.09 Score=66.07 Aligned_cols=50 Identities=30% Similarity=0.891 Sum_probs=42.3
Q ss_pred CCCCCcccCCCccCC--Ccccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 7 KTCPLCAEEMDLTDQ--QLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~--~FkPC-~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
.+|.+|-+++.+|.. .|.-| .|+|-+|+-||..=+ .+.+-.||.|+..|.
T Consensus 16 ~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cyeye~-----~~g~~~cp~c~t~y~ 68 (1044)
T PLN02915 16 KTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYEYER-----SEGNQCCPQCNTRYK 68 (1044)
T ss_pred chhhccccccCcCCCCCEEEEeccCCCccccchhhhhh-----hcCCccCCccCCchh
Confidence 689999999866543 67899 899999999997643 467889999999997
No 138
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=92.16 E-value=0.32 Score=59.09 Aligned_cols=75 Identities=17% Similarity=0.284 Sum_probs=61.2
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.|-+-|+|.+++-|||+ |+|.-|-.|-.-++.+..+.+ -+++-+-|-|+..|||.+|...+|+..|..|+|.
T Consensus 869 V~~~~n~Pf~v~l~dI~---~FF~dY~~~p~sI~~r~nd~G-----~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~ 940 (944)
T KOG4307|consen 869 VLSCNNFPFDVTLEDIV---EFFNDYEPDPNSIRIRRNDDG-----VPTGECMVAFESQEEARRASMDLDGQKIRNRVVS 940 (944)
T ss_pred EEEecCCCccccHHHHH---HHhcccccCCCceeEeecCCC-----CcccceeEeecCHHHHHhhhhccccCcccceeEE
Confidence 35677999999999999 899999877765555433322 1567899999999999999999999999999988
Q ss_pred EEe
Q 001872 192 ACF 194 (1002)
Q Consensus 192 ASF 194 (1002)
+-.
T Consensus 941 l~i 943 (944)
T KOG4307|consen 941 LRI 943 (944)
T ss_pred EEe
Confidence 754
No 139
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=91.93 E-value=0.27 Score=57.87 Aligned_cols=105 Identities=20% Similarity=0.323 Sum_probs=73.5
Q ss_pred ccccccccCEEEEeCCCCCCChhHHhhhhhhhc-CCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh-
Q 001872 103 SSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFG-QYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV- 180 (1002)
Q Consensus 103 anVRVIQrNLVYV~GLp~kIAdEELLRk~EyFG-QYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaL- 180 (1002)
.+..+--+-+|||+|||.-++-+||- .+|. -||.|.=|-|-.|.+.+ -+.|.+=|||++...-.+||.+-
T Consensus 363 ~sq~lDprrTVFVGgvprpl~A~eLA---~imd~lyGgV~yaGIDtD~k~K-----YPkGaGRVtFsnqqsYi~AIsarF 434 (520)
T KOG0129|consen 363 HNQPIDPRRTVFVGGLPRPLTAEELA---MIMEDLFGGVLYVGIDTDPKLK-----YPKGAGRVTFSNQQAYIKAISARF 434 (520)
T ss_pred cCcccCccceEEecCCCCcchHHHHH---HHHHHhcCceEEEEeccCcccC-----CCCCcceeeecccHHHHHHHhhhe
Confidence 45566778899999999999988874 6887 89999999998886654 24567899999999999999861
Q ss_pred ---CCCccCCe-----------EEEEEec---CCCCcccccCCCCCCCCCCc
Q 001872 181 ---HGFVLEGK-----------SLKACFG---TTKYCHAWLRNVPCTNPDCL 215 (1002)
Q Consensus 181 ---NGs~LDGR-----------~LRASFG---TTKYCs~FLRn~~C~NpdCm 215 (1002)
+-..++=| .--.+=| -.|+..+|-+++.|..--|-
T Consensus 435 vql~h~d~~KRVEIkPYv~eDq~CdeC~g~~c~~q~aPfFC~n~~C~QYYCe 486 (520)
T KOG0129|consen 435 VQLDHTDIDKRVEIKPYVMEDQLCDECGGRRCGGQFAPFFCRNATCFQYYCE 486 (520)
T ss_pred EEEeccccceeeeecceeccccchhhhcCeeccCccCCcccCCccHHhhhch
Confidence 11112221 1112223 23666677777777775554
No 140
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=91.51 E-value=0.41 Score=56.24 Aligned_cols=74 Identities=19% Similarity=0.378 Sum_probs=56.0
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeE-EEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK-VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiK-IvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
...|=+.|||+.++++||. |+|.--=-+.+ |-+..++.. .+++-|||.|+.+|.|+.|++. |-..|.-|
T Consensus 103 d~vVRLRGLPfscte~dI~---~FFaGL~Iv~~gi~l~~d~rg------R~tGEAfVqF~sqe~ae~Al~r-hre~iGhR 172 (510)
T KOG4211|consen 103 DGVVRLRGLPFSCTEEDIV---EFFAGLEIVPDGILLPMDQRG------RPTGEAFVQFESQESAEIALGR-HRENIGHR 172 (510)
T ss_pred CceEEecCCCccCcHHHHH---HHhcCCcccccceeeeccCCC------CcccceEEEecCHHHHHHHHHH-HHHhhccc
Confidence 3457889999999999996 89998854444 223444332 2678899999999999999986 55677778
Q ss_pred EEEEE
Q 001872 189 SLKAC 193 (1002)
Q Consensus 189 ~LRAS 193 (1002)
.|-|-
T Consensus 173 YIEvF 177 (510)
T KOG4211|consen 173 YIEVF 177 (510)
T ss_pred eEEee
Confidence 87764
No 141
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=91.51 E-value=0.1 Score=65.80 Aligned_cols=50 Identities=22% Similarity=0.799 Sum_probs=42.8
Q ss_pred CCCCCcccCCCccCC--Ccccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 7 KTCPLCAEEMDLTDQ--QLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~--~FkPC-~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
.+|.+|-+++.+|.. .|.-| .|||-+|+-||..=+ .+.+-.||-|+..|.
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEYEr-----~eG~q~CPqCktrYk 70 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEYER-----KDGNQSCPQCKTKYK 70 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCCCccccchhhhhh-----hcCCccCCccCCchh
Confidence 489999999877654 67899 899999999997644 468889999999996
No 142
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=91.23 E-value=0.18 Score=54.64 Aligned_cols=64 Identities=14% Similarity=0.321 Sum_probs=50.0
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L 185 (1002)
..++||.||.+++++++| | .+|..|--...++|-.. +....|||.|+..|.|..|+..|.|+.|
T Consensus 210 cstlfianl~~~~~ed~l-~--~~~~~~~gf~~l~~~~~---------~g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDEL-K--QLLSRYPGFHILKIRAR---------GGMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhhHhhhccCCCCCHHHH-H--HHHHhCCCceEEEEecC---------CCcceEeecHHHHHHHHHHHHHhhccee
Confidence 467999999999876555 3 78998876665555321 1345799999999999999999999876
No 143
>PF04641 Rtf2: Rtf2 RING-finger
Probab=91.07 E-value=0.24 Score=53.33 Aligned_cols=63 Identities=27% Similarity=0.667 Sum_probs=41.8
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhccchhhH
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCE 73 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i~~~~~~~e 73 (1002)
+..-.||++..+|.-.=.-.+.-+|| |.||+.-|.++ + ....||.|-.+|.++.|+.+.+..+
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG---~V~s~~alke~--k--~~~~Cp~c~~~f~~~DiI~Lnp~~e 173 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCG---CVFSEKALKEL--K--KSKKCPVCGKPFTEEDIIPLNPPEE 173 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCC---CEeeHHHHHhh--c--ccccccccCCccccCCEEEecCCcc
Confidence 34468999999994322233445788 45566655543 2 3567999999999888876654443
No 144
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=90.70 E-value=0.77 Score=54.27 Aligned_cols=78 Identities=19% Similarity=0.318 Sum_probs=48.9
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCC--cEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNT--CSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~g--gsAYVTFs~~EDA~rAIqaLNGs~LDGR 188 (1002)
..|||+|||+.|++++|. ..|++||.+. |.=..... .....|..| ++||+.|+++.....=|.+.-- .-++-
T Consensus 260 ~KVFvGGlp~dise~~i~---~~F~~FGs~~-VdWP~k~~-~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~-~~~~~ 333 (520)
T KOG0129|consen 260 RKVFVGGLPWDITEAQIN---ASFGQFGSVK-VDWPGKAN-SRGRAPPKGSYGYVFLVFEDERSVQSLLSACSE-GEGNY 333 (520)
T ss_pred cceeecCCCccccHHHHH---hhcccccceE-eecCCCcc-ccccCCCCCcccEEEEEecchHHHHHHHHHHhh-cccce
Confidence 459999999999988875 7999999873 33332111 111233222 4799999998776655555432 22333
Q ss_pred EEEEEe
Q 001872 189 SLKACF 194 (1002)
Q Consensus 189 ~LRASF 194 (1002)
.++|+-
T Consensus 334 yf~vss 339 (520)
T KOG0129|consen 334 YFKVSS 339 (520)
T ss_pred EEEEec
Confidence 555653
No 145
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=90.67 E-value=0.22 Score=61.64 Aligned_cols=78 Identities=17% Similarity=0.219 Sum_probs=64.1
Q ss_pred cccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001872 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (1002)
Q Consensus 106 RVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L 185 (1002)
.+.--.-++|+||.+.....-|+ ..|+.||.|..|.+-+. ..+|||.|+...-|..|...|-|+.+
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 34555678999999998777766 69999999999876321 13689999999999999999999999
Q ss_pred CC--eEEEEEecCC
Q 001872 186 EG--KSLKACFGTT 197 (1002)
Q Consensus 186 DG--R~LRASFGTT 197 (1002)
+| +.|||.|+.+
T Consensus 517 G~P~~r~rvdla~~ 530 (975)
T KOG0112|consen 517 GGPPRRLRVDLASP 530 (975)
T ss_pred CCCCcccccccccC
Confidence 87 7799998754
No 146
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=90.62 E-value=0.19 Score=40.71 Aligned_cols=42 Identities=24% Similarity=0.710 Sum_probs=27.3
Q ss_pred CCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCC
Q 001872 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (1002)
Q Consensus 9 CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPAC 56 (1002)
||+|.+.|. .=..-+||+..|+.|..++.+. .......||-|
T Consensus 1 CpiC~~~~~----~Pv~l~CGH~FC~~Cl~~~~~~--~~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK----DPVSLPCGHSFCRSCLERLWKE--PSGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S----SEEE-SSSSEEEHHHHHHHHCC--SSSST---SSS
T ss_pred CCccchhhC----CccccCCcCHHHHHHHHHHHHc--cCCcCCCCcCC
Confidence 899999984 3344688999999999999742 12222689987
No 147
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.57 E-value=0.19 Score=55.89 Aligned_cols=47 Identities=28% Similarity=0.747 Sum_probs=41.1
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
+.+-.+||.|.+.|. ...+-|.=|.-.|-.|--+. ..+||.||.++.
T Consensus 45 ~~~lleCPvC~~~l~---~Pi~QC~nGHlaCssC~~~~---------~~~CP~Cr~~~g 91 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLS---PPIFQCDNGHLACSSCRTKV---------SNKCPTCRLPIG 91 (299)
T ss_pred chhhccCchhhccCc---ccceecCCCcEehhhhhhhh---------cccCCccccccc
Confidence 345579999999998 78899999999999998766 469999999998
No 148
>PLN02400 cellulose synthase
Probab=89.74 E-value=0.15 Score=64.45 Aligned_cols=49 Identities=22% Similarity=0.855 Sum_probs=42.1
Q ss_pred CCCCcccCCCccCC--Ccccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 8 TCPLCAEEMDLTDQ--QLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 8 ~CPLC~EeLDlTD~--~FkPC-~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
+|.+|-+++.+|.. .|.-| .|+|-+|+-||..=+ .+.+-.||-|+..|.
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYER-----keGnq~CPQCkTrYk 89 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYER-----KDGTQCCPQCKTRYR 89 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhheec-----ccCCccCcccCCccc
Confidence 89999999876654 68899 899999999997643 468889999999997
No 149
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=89.73 E-value=0.21 Score=41.12 Aligned_cols=43 Identities=23% Similarity=0.677 Sum_probs=22.2
Q ss_pred CCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCC
Q 001872 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCP 54 (1002)
Q Consensus 9 CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCP 54 (1002)
||+|.| ++-++..-+--+||+-||+-|..++.... ....-+||
T Consensus 1 CpIc~e-~~~~~n~P~~L~CGH~~c~~cl~~l~~~~--~~~~~kCP 43 (43)
T PF13445_consen 1 CPICKE-FSTEENPPMVLPCGHVFCKDCLQKLSKKS--DRNRFKCP 43 (43)
T ss_dssp -TTT-----TTSS-EEE-SSS-EEEHHHHHHHHHH---S-S-B--T
T ss_pred CCcccc-ccCCCCCCEEEeCccHHHHHHHHHHHhcC--CCCeeeCc
Confidence 999999 86555544556799999999999997421 12345676
No 150
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=89.64 E-value=0.32 Score=56.37 Aligned_cols=89 Identities=19% Similarity=0.266 Sum_probs=64.0
Q ss_pred ccccccccc--ccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeec---CCCcccccCC------CCcEEEEEeC
Q 001872 100 QQLSSVRVI--QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRT---AAGVIQQFPN------NTCSVYITYS 168 (1002)
Q Consensus 100 ~~LanVRVI--QrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd---~~t~~qq~p~------~ggsAYVTFs 168 (1002)
..|...+.- |--+|.|-+||..-..|.|+ ++||.+|.|..|.|-+. ....+ +.+. ..-.|+|.|+
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 344444443 77789999999998888887 79999999999999875 22211 1221 2345899999
Q ss_pred CHHHHHHHHHHhCCCccCCeEEEE
Q 001872 169 KEEEAVRCIQSVHGFVLEGKSLKA 192 (1002)
Q Consensus 169 ~~EDA~rAIqaLNGs~LDGR~LRA 192 (1002)
..+.|.+|.+.++....--.-|||
T Consensus 295 ~~~~A~KA~e~~~~e~~wr~glkv 318 (484)
T KOG1855|consen 295 EVEAARKARELLNPEQNWRMGLKV 318 (484)
T ss_pred hhHHHHHHHHhhchhhhhhhcchh
Confidence 999999999998766543333444
No 151
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=88.61 E-value=0.61 Score=51.33 Aligned_cols=107 Identities=15% Similarity=0.119 Sum_probs=69.8
Q ss_pred ccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh--CC
Q 001872 105 VRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV--HG 182 (1002)
Q Consensus 105 VRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaL--NG 182 (1002)
||.--+--|||++|...+..|.++ +-|.+||.|.+-||..|-... .++-..|.|..+-.|.+|.... .|
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---QAFRRFGPIERAVAKVDDRGK------PTREGIVEFAKKPNARKAARRCREGG 96 (275)
T ss_pred EEeeccceEEEEecchhhhhHHHH---HhhhhcCccchheeeeccccc------ccccchhhhhcchhHHHHHHHhccCc
Confidence 454555889999999998877765 799999999998887765432 2345689999999999999887 33
Q ss_pred C--ccCCeEEEEEecCCCCcccccCCCCCCCCCCcccccCC
Q 001872 183 F--VLEGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVG 221 (1002)
Q Consensus 183 s--~LDGR~LRASFGTTKYCs~FLRn~~C~NpdCmYLHE~g 221 (1002)
+ ...|+..-|.=-.--||..=|--. |..+.-.|+||-+
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 3 234444433322223333322222 5555555555544
No 152
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=88.57 E-value=0.38 Score=53.46 Aligned_cols=53 Identities=28% Similarity=0.789 Sum_probs=34.3
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
++.+..|-||+|.+. |...- |||.-.|++| |++...+ ..-||-||+.....++
T Consensus 236 ~~a~~kC~LCLe~~~--~pSaT--pCGHiFCWsC---I~~w~~e---k~eCPlCR~~~~pskv 288 (293)
T KOG0317|consen 236 PEATRKCSLCLENRS--NPSAT--PCGHIFCWSC---ILEWCSE---KAECPLCREKFQPSKV 288 (293)
T ss_pred CCCCCceEEEecCCC--CCCcC--cCcchHHHHH---HHHHHcc---ccCCCcccccCCCcce
Confidence 355689999999982 22222 7899855555 5553322 2239999998876554
No 153
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=87.91 E-value=1.4 Score=39.17 Aligned_cols=56 Identities=27% Similarity=0.528 Sum_probs=43.2
Q ss_pred cccCEEEEeCCCCCCChhHHhhhhhhhcCC----CceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001872 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQY----GKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (1002)
Q Consensus 108 IQrNLVYV~GLp~kIAdEELLRk~EyFGQY----GKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaL 180 (1002)
++-+.|||.|+.. +..++++ .||..| + ..+|.-.-|. ++=|.|.+.+.|.+|+.+|
T Consensus 3 ~rpeavhirGvd~-lsT~dI~---~y~~~y~~~~~-~~~IEWIdDt------------ScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 3 IRPEAVHIRGVDE-LSTDDIK---AYFSEYFDEEG-PFRIEWIDDT------------SCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceeceEEEEcCCC-CCHHHHH---HHHHHhcccCC-CceEEEecCC------------cEEEEECCHHHHHHHHHcC
Confidence 4568899999854 6778987 799988 4 3356554442 5789999999999999875
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=87.43 E-value=0.9 Score=47.49 Aligned_cols=56 Identities=27% Similarity=0.469 Sum_probs=42.6
Q ss_pred hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhC--CCccCCeEEEEEecCC
Q 001872 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH--GFVLEGKSLKACFGTT 197 (1002)
Q Consensus 131 ~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLN--Gs~LDGR~LRASFGTT 197 (1002)
.++|.+|+.+..+++.+.- ..+-|.|.+.++|.+|...++ +..+.|..||+-||..
T Consensus 13 ~~l~~~~~~~~~~~~L~sF-----------rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~ 70 (184)
T PF04847_consen 13 EELFSTYDPPVQFSPLKSF-----------RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQP 70 (184)
T ss_dssp HHHHHTT-SS-EEEEETTT-----------TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----
T ss_pred HHHHHhcCCceEEEEcCCC-----------CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccc
Confidence 4899999999999887542 147999999999999999999 9999999999999943
No 155
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=85.53 E-value=0.6 Score=53.58 Aligned_cols=50 Identities=30% Similarity=0.750 Sum_probs=38.3
Q ss_pred cCCCCCCcccCCCccC---------CCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001872 5 GEKTCPLCAEEMDLTD---------QQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD---------~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpY 60 (1002)
+|..|.+||+||=-+| ..-|--|||...=+-|...-+| -.--||-||+|.
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 5689999999974444 3335579999988889888875 255799999984
No 156
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=85.23 E-value=0.4 Score=53.51 Aligned_cols=45 Identities=29% Similarity=0.789 Sum_probs=35.6
Q ss_pred CCCCCcccCCCccCCCcccc--CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001872 7 KTCPLCAEEMDLTDQQLKPC--KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC--~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe 63 (1002)
.-|-+|-+-|. -|| +||.-+|-||-.+-+ ..+..||+||.+.-|.
T Consensus 26 lrC~IC~~~i~------ip~~TtCgHtFCslCIR~hL------~~qp~CP~Cr~~~~es 72 (391)
T COG5432 26 LRCRICDCRIS------IPCETTCGHTFCSLCIRRHL------GTQPFCPVCREDPCES 72 (391)
T ss_pred HHhhhhhheee------cceecccccchhHHHHHHHh------cCCCCCccccccHHhh
Confidence 46889988775 578 899999999977554 3588999999976544
No 157
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.98 E-value=0.45 Score=56.24 Aligned_cols=55 Identities=22% Similarity=0.546 Sum_probs=40.5
Q ss_pred ccCCCCCCcccCCCccCCCcccc--CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPC--KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC--~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
..+..|++|.|+|---+. ..|+ +||+..|..|.-.-.+ ..--||-||..+.....
T Consensus 289 ~~~~~C~IC~e~l~~~~~-~~~~rL~C~Hifh~~CL~~W~e------r~qtCP~CR~~~~~~~~ 345 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHN-ITPKRLPCGHIFHDSCLRSWFE------RQQTCPTCRTVLYDYVL 345 (543)
T ss_pred hcCCeeeeechhhccccc-cccceeecccchHHHHHHHHHH------HhCcCCcchhhhhcccc
Confidence 347899999999953322 4444 8999999999987764 26689999995544333
No 158
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.81 E-value=0.79 Score=54.23 Aligned_cols=49 Identities=29% Similarity=0.678 Sum_probs=37.5
Q ss_pred CCCCCCcccCCCccCCCcccc--CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 6 EKTCPLCAEEMDLTDQQLKPC--KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 6 d~~CPLC~EeLDlTD~~FkPC--~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
+..||+|.|+-. .|| .||.-.|.-|.=+..... +-..-+.||=||.-..
T Consensus 186 ~~~CPICL~~~~------~p~~t~CGHiFC~~CiLqy~~~s-~~~~~~~CPiC~s~I~ 236 (513)
T KOG2164|consen 186 DMQCPICLEPPS------VPVRTNCGHIFCGPCILQYWNYS-AIKGPCSCPICRSTIT 236 (513)
T ss_pred CCcCCcccCCCC------cccccccCceeeHHHHHHHHhhh-cccCCccCCchhhhcc
Confidence 678999999875 233 499999998887777644 4456789999998443
No 159
>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=83.75 E-value=1.2 Score=49.73 Aligned_cols=53 Identities=26% Similarity=0.608 Sum_probs=39.8
Q ss_pred CCCCcccCC-CccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 8 TCPLCAEEM-DLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 8 ~CPLC~EeL-DlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
-||.|.-.- =--|.-++-=+|||.+|--|.++|.. ...+.||.|-++.-..++
T Consensus 2 ~Cp~CKt~~Y~np~lk~~in~C~H~lCEsCvd~iF~-----~g~~~CpeC~~iLRk~nf 55 (300)
T KOG3800|consen 2 ACPKCKTDRYLNPDLKLMINECGHRLCESCVDRIFS-----LGPAQCPECMVILRKNNF 55 (300)
T ss_pred CCcccccceecCccceeeeccccchHHHHHHHHHHh-----cCCCCCCcccchhhhccc
Confidence 599996543 11234444459999999999999964 578999999998876665
No 160
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=83.46 E-value=0.74 Score=56.12 Aligned_cols=74 Identities=9% Similarity=0.159 Sum_probs=59.9
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeE-EEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK-VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiK-IvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
+.|||-+||......++. ++|..--.|.+ |.|.+-.... .+.-|||.|.+++++..|...-.-+.++-|.
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---NKFMGAAAVEDFIELTRLPTDL------LRPAAFVAFIHPTAPLTASSVKTKFYPGHRI 505 (944)
T ss_pred ceEEeccCCccccccchh---hhhhhhhhhhheeEeccCCccc------ccchhhheeccccccchhhhcccccccCceE
Confidence 889999999999888887 68887778888 7776544332 2456899999999999999887777788899
Q ss_pred EEEE
Q 001872 190 LKAC 193 (1002)
Q Consensus 190 LRAS 193 (1002)
|||.
T Consensus 506 irv~ 509 (944)
T KOG4307|consen 506 IRVD 509 (944)
T ss_pred EEee
Confidence 9975
No 161
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=83.42 E-value=0.52 Score=48.02 Aligned_cols=28 Identities=39% Similarity=1.055 Sum_probs=23.7
Q ss_pred cCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001872 26 CKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (1002)
Q Consensus 26 C~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdE 62 (1002)
|+| -++|.-|...-. ..+||+|+.||=.
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 888 999999988542 6899999999953
No 162
>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=82.35 E-value=3.5 Score=39.15 Aligned_cols=56 Identities=14% Similarity=0.422 Sum_probs=42.1
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhC
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH 181 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLN 181 (1002)
|.-||-+..|..-...||+ ++|..||.|.=-.|+ + .+|||...+.+.|..++..++
T Consensus 8 RdHVFhltFPkeWK~~DI~---qlFspfG~I~VsWi~-d------------TSAfV~l~~r~~~~~v~~~~~ 63 (87)
T PF08675_consen 8 RDHVFHLTFPKEWKTSDIY---QLFSPFGQIYVSWIN-D------------TSAFVALHNRDQAKVVMNTLK 63 (87)
T ss_dssp GCCEEEEE--TT--HHHHH---HHCCCCCCEEEEEEC-T------------TEEEEEECCCHHHHHHHHHHT
T ss_pred cceEEEEeCchHhhhhhHH---HHhccCCcEEEEEEc-C------------CcEEEEeecHHHHHHHHHHhc
Confidence 4457777799999899996 899999998654443 1 279999999999999999886
No 163
>PF04564 U-box: U-box domain; InterPro: IPR003613 Quality control of intracellular proteins is essential for cellular homeostasis. Molecular chaperones recognise and contribute to the refolding of misfolded or unfolded proteins, whereas the ubiquitin-proteasome system mediates the degradation of such abnormal proteins. Ubiquitin-protein ligases (E3s) determine the substrate specificity for ubiquitylation and have been classified into HECT and RING-finger families. More recently, however, U-box proteins, which contain a domain (the U box) of about 70 amino acids that is conserved from yeast to humans, have been identified as a new type of E3 []. Members of the U-box family of proteins constitute a class of ubiquitin-protein ligases (E3s) distinct from the HECT-type and RING finger-containing E3 families []. Using yeast two-hybrid technology, all mammalian U-box proteins have been reported to interact with molecular chaperones or co-chaperones, including Hsp90, Hsp70, DnaJc7, EKN1, CRN, and VCP. This suggests that the function of U box-type E3s is to mediate the degradation of unfolded or misfolded proteins in conjunction with molecular chaperones as receptors that recognise such abnormal proteins [, ]. Unlike the RING finger domain, IPR001841 from INTERPRO, that is stabilised by Zn2+ ions coordinated by the cysteines and a histidine, the U-box scaffold is probably stabilised by a system of salt-bridges and hydrogen bonds. The charged and polar residues that participate in this network of bonds are more strongly conserved in the U-box proteins than in classic RING fingers, which supports their role in maintaining the stability of the U box. Thus, the U box appears to have evolved from a RING finger domain by appropriation of a new set of residues required to stabilise its structure, concomitant with the loss of the original, metal-chelating residues [].; GO: 0004842 ubiquitin-protein ligase activity, 0016567 protein ubiquitination, 0000151 ubiquitin ligase complex; PDB: 1T1H_A 2C2L_D 2C2V_V 1WGM_A 2KR4_A 3L1Z_B 3L1X_A 2KRE_A 3M63_A 2QIZ_A ....
Probab=81.55 E-value=1 Score=40.04 Aligned_cols=52 Identities=21% Similarity=0.353 Sum_probs=35.2
Q ss_pred cCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
++-.||||.+.|. |--.- +||+-+|+-|+.+-+. ...+.||-|+++...+.+
T Consensus 3 ~~f~CpIt~~lM~--dPVi~--~~G~tyer~~I~~~l~-----~~~~~~P~t~~~l~~~~l 54 (73)
T PF04564_consen 3 DEFLCPITGELMR--DPVIL--PSGHTYERSAIERWLE-----QNGGTDPFTRQPLSESDL 54 (73)
T ss_dssp GGGB-TTTSSB-S--SEEEE--TTSEEEEHHHHHHHHC-----TTSSB-TTT-SB-SGGGS
T ss_pred cccCCcCcCcHhh--CceeC--CcCCEEcHHHHHHHHH-----cCCCCCCCCCCcCCcccc
Confidence 3568999999995 55444 5779988888887753 247899999999887655
No 164
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=81.36 E-value=0.7 Score=54.27 Aligned_cols=55 Identities=20% Similarity=0.389 Sum_probs=45.1
Q ss_pred hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEecCC
Q 001872 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTT 197 (1002)
Q Consensus 131 ~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASFGTT 197 (1002)
...|.+||+|..|.|.... -.|-|||.+..||-+|-+ ..|..|+||.||+-|-.-
T Consensus 391 n~hfA~fG~i~n~qv~~~~-----------~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whnp 445 (526)
T KOG2135|consen 391 NPHFAQFGEIENIQVDYSS-----------LHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHNP 445 (526)
T ss_pred hhhhhhcCccccccccCch-----------hhheeeeeccccccchhc-cccceecCceeEEEEecC
Confidence 3899999999999986541 247899999999977765 589999999999987543
No 165
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.36 E-value=0.99 Score=49.82 Aligned_cols=48 Identities=27% Similarity=0.534 Sum_probs=32.6
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCC
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSP 59 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrp 59 (1002)
+.|-.|+||+|++. .+-==+||.-.|++|.--... . ..-..||-||+-
T Consensus 213 ~~d~kC~lC~e~~~----~ps~t~CgHlFC~~Cl~~~~t-~---~k~~~CplCRak 260 (271)
T COG5574 213 LADYKCFLCLEEPE----VPSCTPCGHLFCLSCLLISWT-K---KKYEFCPLCRAK 260 (271)
T ss_pred ccccceeeeecccC----CcccccccchhhHHHHHHHHH-h---hccccCchhhhh
Confidence 45678999999985 222227899977777665332 1 134679999983
No 166
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=81.21 E-value=1.4 Score=50.89 Aligned_cols=74 Identities=11% Similarity=0.322 Sum_probs=52.0
Q ss_pred EEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 112 LVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
.|.|.+|.+.++.+.| +-+||-.|+|..+.+.-+.... ..+-..-.+||-|.+...+..|-. |-.+.+=|+.|-
T Consensus 9 vIqvanispsat~dqm---~tlFg~lGkI~elrlyp~~~d~--~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvdrali 82 (479)
T KOG4676|consen 9 VIQVANISPSATKDQM---QTLFGNLGKIPELRLYPNVDDS--KIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVDRALI 82 (479)
T ss_pred eeeecccCchhhHHHH---HHHHhhccccccccccCCCCCc--cCcceeeeEEEeccCCcceeHHhh-hccceeeeeeEE
Confidence 3569999999998888 4899999999999986532211 122223468999999888877755 455555455443
No 167
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=81.08 E-value=3.8 Score=47.58 Aligned_cols=58 Identities=26% Similarity=0.417 Sum_probs=44.5
Q ss_pred EEEeCCCCCCChhHHhhhhhhhcCCCce----eEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHH
Q 001872 113 VYIVGLPLNLGDEDLLQRREYFGQYGKV----LKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (1002)
Q Consensus 113 VYV~GLp~kIAdEELLRk~EyFGQYGKI----iKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqa 179 (1002)
|-..|||+..+..+++ ++|++--.| .+|...+...++ ++|-|||.|..+|+|..|++.
T Consensus 164 vRmRGLPfdat~~dVv---~FF~~~cpv~~g~egvLFV~rpdgr------pTGdAFvlfa~ee~aq~aL~k 225 (508)
T KOG1365|consen 164 VRMRGLPFDATALDVV---EFFGPPCPVTGGTEGVLFVTRPDGR------PTGDAFVLFACEEDAQFALRK 225 (508)
T ss_pred EEecCCCCCcchHHHH---HhcCCCCcccCCccceEEEECCCCC------cccceEEEecCHHHHHHHHHH
Confidence 4457999999999998 999954333 356555554432 567899999999999999975
No 168
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=80.47 E-value=0.39 Score=54.65 Aligned_cols=51 Identities=20% Similarity=0.584 Sum_probs=37.2
Q ss_pred cCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe 63 (1002)
.+..||+|.+-|. +..-.=.|+.+||.-|.-.-+. ..+.-||.||+..+..
T Consensus 42 ~~v~c~icl~llk---~tmttkeClhrfc~~ci~~a~r-----~gn~ecptcRk~l~Sk 92 (381)
T KOG0311|consen 42 IQVICPICLSLLK---KTMTTKECLHRFCFDCIWKALR-----SGNNECPTCRKKLVSK 92 (381)
T ss_pred hhhccHHHHHHHH---hhcccHHHHHHHHHHHHHHHHH-----hcCCCCchHHhhcccc
Confidence 4578999998875 2233347999999999775542 3678899999977543
No 169
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=79.85 E-value=2.2 Score=40.22 Aligned_cols=54 Identities=26% Similarity=0.664 Sum_probs=32.6
Q ss_pred cCCCCCCcccCCCcc---------CCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 5 GEKTCPLCAEEMDLT---------DQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlT---------D~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
+|++|++|-.+||.+ |-.+.-+.|+..+-.-|..+=++ ....+++||=||+++.
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 22222345666544444444433 2345799999999874
No 170
>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=79.39 E-value=1 Score=33.37 Aligned_cols=20 Identities=35% Similarity=0.795 Sum_probs=18.9
Q ss_pred CcccccCCCCCCCCCCcccc
Q 001872 199 YCHAWLRNVPCTNPDCLYLH 218 (1002)
Q Consensus 199 YCs~FLRn~~C~NpdCmYLH 218 (1002)
-|.+.|+|..|+.++|.|.|
T Consensus 2 lC~yEl~Gg~Cnd~~C~~QH 21 (23)
T PF10650_consen 2 LCPYELTGGVCNDPDCEFQH 21 (23)
T ss_pred CCccccCCCeeCCCCCCccc
Confidence 48999999999999999998
No 171
>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=78.82 E-value=2.9 Score=37.59 Aligned_cols=29 Identities=24% Similarity=0.545 Sum_probs=25.6
Q ss_pred EEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 163 VYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 163 AYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
-||.|.+.+||++|..+.||..+.+-.|.
T Consensus 36 fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~ 64 (66)
T PF11767_consen 36 FYIVFNDSKEAERCFRAEDGTLFFTYRMQ 64 (66)
T ss_pred EEEEECChHHHHHHHHhcCCCEEEEEEEE
Confidence 49999999999999999999988776654
No 172
>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=78.54 E-value=3.3 Score=42.86 Aligned_cols=70 Identities=20% Similarity=0.268 Sum_probs=41.9
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcC-CCceeE--EEE-eecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQ-YGKVLK--VSM-SRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQ-YGKIiK--IvI-~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L 185 (1002)
+..|-|..||+.+++++++ +.... +|.... .+. ....... .+..-..|||.|.+.+++..=++.+||..+
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 4568899999999999887 55555 555521 111 1111111 111223599999999999999999999765
No 173
>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=75.86 E-value=2.3 Score=38.04 Aligned_cols=47 Identities=21% Similarity=0.622 Sum_probs=30.3
Q ss_pred cCCCCCCcccCCCcc---------CCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCC
Q 001872 5 GEKTCPLCAEEMDLT---------DQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACR 57 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlT---------D~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACR 57 (1002)
+++.|++|.++|+.. +..+.-=+||.....-|..+-++ .+..||-||
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 11111126899988888877653 344999998
No 174
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=75.18 E-value=3.2 Score=48.67 Aligned_cols=77 Identities=26% Similarity=0.344 Sum_probs=59.7
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCc-cCCeE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV-LEGKS 189 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~-LDGR~ 189 (1002)
|.+|+++|.+.++-.+|- ..||.- |+-.+. +.--+.++|||.+.+..-|.+||+.++|.. +.|+.
T Consensus 2 nklyignL~p~~~psdl~---svfg~a----k~~~~g-------~fl~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr 67 (584)
T KOG2193|consen 2 NKLYIGNLSPQVTPSDLE---SVFGDA----KIPGSG-------QFLVKSGYAFVDCPDQQWANKAIETLSGKVELQGKR 67 (584)
T ss_pred CcccccccCCCCChHHHH---HHhccc----cCCCCc-------ceeeecceeeccCCchhhhhhhHHhhchhhhhcCce
Confidence 679999999999988874 688765 221111 122245689999999999999999999975 89999
Q ss_pred EEEEecCCCCcc
Q 001872 190 LKACFGTTKYCH 201 (1002)
Q Consensus 190 LRASFGTTKYCs 201 (1002)
+.+.+...|.--
T Consensus 68 ~e~~~sv~kkqr 79 (584)
T KOG2193|consen 68 QEVEHSVPKKQR 79 (584)
T ss_pred eeccchhhHHHH
Confidence 999988876543
No 175
>KOG2923 consensus Uncharacterized conserved protein [Function unknown]
Probab=73.44 E-value=1.5 Score=39.63 Aligned_cols=33 Identities=30% Similarity=0.743 Sum_probs=20.3
Q ss_pred CCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001872 21 QQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (1002)
Q Consensus 21 ~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRr 58 (1002)
.-++|||||=. |.--++..+.-+.-.+||.|--
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 34599999855 1112233334456789999964
No 176
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=72.59 E-value=1.8 Score=49.33 Aligned_cols=50 Identities=30% Similarity=0.758 Sum_probs=38.5
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdE 62 (1002)
|.-++|=+|+-+- .|....||- -.-+|.-|-.-++ -...+||=||++..+
T Consensus 288 ~~gkeCVIClse~--rdt~vLPCR-HLCLCs~Ca~~Lr------~q~n~CPICRqpi~~ 337 (349)
T KOG4265|consen 288 ESGKECVICLSES--RDTVVLPCR-HLCLCSGCAKSLR------YQTNNCPICRQPIEE 337 (349)
T ss_pred cCCCeeEEEecCC--cceEEecch-hhehhHhHHHHHH------HhhcCCCccccchHh
Confidence 4458999999886 589999993 1237889999886 246899999997753
No 177
>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=72.14 E-value=0.57 Score=42.69 Aligned_cols=42 Identities=33% Similarity=0.775 Sum_probs=27.2
Q ss_pred CCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001872 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (1002)
Q Consensus 6 d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdE 62 (1002)
|..||.|-.+|+.++ |--.|..|-.++. ..++||.|..+...
T Consensus 1 e~~CP~C~~~L~~~~--------~~~~C~~C~~~~~-------~~a~CPdC~~~Le~ 42 (70)
T PF07191_consen 1 ENTCPKCQQELEWQG--------GHYHCEACQKDYK-------KEAFCPDCGQPLEV 42 (70)
T ss_dssp --B-SSS-SBEEEET--------TEEEETTT--EEE-------EEEE-TTT-SB-EE
T ss_pred CCcCCCCCCccEEeC--------CEEECccccccce-------ecccCCCcccHHHH
Confidence 458999999999877 5667889998874 57899999998754
No 178
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=71.42 E-value=1.7 Score=53.94 Aligned_cols=76 Identities=21% Similarity=0.213 Sum_probs=63.6
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
|-.|+|.|.|..-++|++- .+|..+|.++++.+...+.+. +.+-|||-|.++.+|.+|...+++..+.-+.
T Consensus 736 K~~v~i~g~pf~gt~e~~k---~l~~~~gn~~~~~~vt~r~gk------pkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~ 806 (881)
T KOG0128|consen 736 KISVAISGPPFQGTKEELK---SLASKTGNVTSLRLVTVRAGK------PKGKARVDYNTEADASRKVASVDVAGKRENN 806 (881)
T ss_pred hhhhheeCCCCCCchHHHH---hhccccCCccccchhhhhccc------cccceeccCCCcchhhhhcccchhhhhhhcC
Confidence 7789999999998888863 899999999999877655443 4567999999999999999999988877666
Q ss_pred EEEEe
Q 001872 190 LKACF 194 (1002)
Q Consensus 190 LRASF 194 (1002)
+.+.-
T Consensus 807 ~~v~v 811 (881)
T KOG0128|consen 807 GEVQV 811 (881)
T ss_pred ccccc
Confidence 66554
No 179
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=70.47 E-value=6.1 Score=47.71 Aligned_cols=84 Identities=18% Similarity=0.302 Sum_probs=57.4
Q ss_pred ccccccc-CEEEEeCCCCCCChhHHhhhhhhhcC--CCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001872 104 SVRVIQR-NLVYIVGLPLNLGDEDLLQRREYFGQ--YGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (1002)
Q Consensus 104 nVRVIQr-NLVYV~GLp~kIAdEELLRk~EyFGQ--YGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaL 180 (1002)
.||-++| ..|.+.-||.....|++. -+|.- .=|++.+....+ . .-||||++.+||..|.++|
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 3565554 455566788887777763 57753 346666665432 2 3599999999999999998
Q ss_pred CCC--ccCCeEEEEEecCCCCcccccC
Q 001872 181 HGF--VLEGKSLKACFGTTKYCHAWLR 205 (1002)
Q Consensus 181 NGs--~LDGR~LRASFGTTKYCs~FLR 205 (1002)
-.. ++-|+.|.|-..+ |..|+-
T Consensus 233 reevk~fqgKpImARIKa---intf~p 256 (684)
T KOG2591|consen 233 REEVKTFQGKPIMARIKA---INTFFP 256 (684)
T ss_pred HHHHHhhcCcchhhhhhh---hhcccC
Confidence 753 5889998865544 776653
No 180
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.28 E-value=3.1 Score=45.32 Aligned_cols=57 Identities=23% Similarity=0.573 Sum_probs=40.9
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchh
Q 001872 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIV 66 (1002)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i~ 66 (1002)
|...-+|.||.+.-. | .... .||.-.|+=|.|+-+... .....||-|+...+.++++
T Consensus 44 ~~~~FdCNICLd~ak--d-PVvT-lCGHLFCWpClyqWl~~~---~~~~~cPVCK~~Vs~~~vv 100 (230)
T KOG0823|consen 44 DGGFFDCNICLDLAK--D-PVVT-LCGHLFCWPCLYQWLQTR---PNSKECPVCKAEVSIDTVV 100 (230)
T ss_pred CCCceeeeeeccccC--C-CEEe-ecccceehHHHHHHHhhc---CCCeeCCccccccccceEE
Confidence 455678999976542 2 2333 389999999999887532 2345689999999988875
No 181
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=67.90 E-value=4 Score=42.43 Aligned_cols=49 Identities=24% Similarity=0.682 Sum_probs=34.1
Q ss_pred ccCCCCCCcccCCCccCCCccccCC-C-----CcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKC-G-----YEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~C-G-----YQIC~fC~h~I~~~~~K~~~~grCPACRrpYdE 62 (1002)
..+..|-+|.++-+ . -..||.| | .|-|+ .+=.+ ....-+|+-|+.+|.=
T Consensus 6 ~~~~~CRIC~~~~~-~--~~~PC~CkGs~k~VH~sCL---~rWi~----~s~~~~CeiC~~~Y~i 60 (162)
T PHA02825 6 LMDKCCWICKDEYD-V--VTNYCNCKNENKIVHKECL---EEWIN----TSKNKSCKICNGPYNI 60 (162)
T ss_pred CCCCeeEecCCCCC-C--ccCCcccCCCchHHHHHHH---HHHHh----cCCCCcccccCCeEEE
Confidence 56789999999975 2 3479999 5 45444 33332 2357799999999963
No 182
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=66.51 E-value=2.3 Score=49.33 Aligned_cols=50 Identities=28% Similarity=0.715 Sum_probs=44.3
Q ss_pred cCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRr 58 (1002)
-+.-|-+|-|-+-+.|.++.--||...+=.-|.+.|++ .+..-.||+||+
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 34689999999999999999999999999999999985 356788999994
No 183
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=66.27 E-value=0.69 Score=57.27 Aligned_cols=70 Identities=17% Similarity=0.236 Sum_probs=55.2
Q ss_pred ccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001872 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (1002)
Q Consensus 109 QrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LD 186 (1002)
+-+.+||.+|++++++++|- +.|+.||-|..|.|......+ .-+|.|||.|...++|.+||...++..++
T Consensus 666 ~~~~~fvsnl~~~~~~~dl~---~~~~~~~~~e~vqi~~h~n~~-----~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 666 DLIKIFVSNLSPKMSEEDLS---ERFSPSGTIEVVQIVIHKNEK-----RFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHHHhhcchhhcCchhh---hhcCccchhhhHHHHHHhhcc-----ccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 34679999999999999984 899999999887776322222 13467999999999999999987776554
No 184
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=65.28 E-value=2.3 Score=48.68 Aligned_cols=51 Identities=18% Similarity=0.604 Sum_probs=38.7
Q ss_pred cCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
+-.-|-+|.|-|.+- -+- +||.-+|-||-...+. ...-||+|+.++.|.-.
T Consensus 22 ~lLRC~IC~eyf~ip--~it--pCsHtfCSlCIR~~L~------~~p~CP~C~~~~~Es~L 72 (442)
T KOG0287|consen 22 DLLRCGICFEYFNIP--MIT--PCSHTFCSLCIRKFLS------YKPQCPTCCVTVTESDL 72 (442)
T ss_pred HHHHHhHHHHHhcCc--eec--cccchHHHHHHHHHhc------cCCCCCceecccchhhh
Confidence 346799999988632 223 4999999999887763 57889999998877644
No 185
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=64.75 E-value=6.5 Score=45.26 Aligned_cols=51 Identities=22% Similarity=0.729 Sum_probs=40.5
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe 63 (1002)
|++..||+|+-.+- ..+.+=.||...|.+|...... ....||+||++..-+
T Consensus 19 ~~~l~C~~C~~vl~---~p~~~~~cgh~fC~~C~~~~~~------~~~~cp~~~~~~~~~ 69 (391)
T KOG0297|consen 19 DENLLCPICMSVLR---DPVQTTTCGHRFCAGCLLESLS------NHQKCPVCRQELTQA 69 (391)
T ss_pred cccccCcccccccc---CCCCCCCCCCcccccccchhhc------cCcCCcccccccchh
Confidence 45689999999985 4444478999999999998853 278999999977544
No 186
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=63.93 E-value=1.7 Score=54.25 Aligned_cols=78 Identities=12% Similarity=0.227 Sum_probs=63.6
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
.-+||+++|..++++.+|- -.|+.||+|.+|.|-+.+... ...+|||.|.+...|-+|...+-|-.|.--.
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---PAFDESGKVEEVDIKTPHIKT------ESAYAFVSLLNTDMTPSAKFEESGPLIGNGT 442 (975)
T ss_pred hhhhhhcCcccchhhhhhh---hhhhhhccccccccccCCCCc------ccchhhhhhhccccCcccchhhcCCccccCc
Confidence 3579999999999988874 699999999999997654332 2346899999999999999999988876667
Q ss_pred EEEEecC
Q 001872 190 LKACFGT 196 (1002)
Q Consensus 190 LRASFGT 196 (1002)
+++-||.
T Consensus 443 ~r~glG~ 449 (975)
T KOG0112|consen 443 HRIGLGQ 449 (975)
T ss_pred ccccccc
Confidence 7777773
No 187
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=63.22 E-value=26 Score=36.52 Aligned_cols=71 Identities=14% Similarity=0.292 Sum_probs=49.7
Q ss_pred cCEEEEeCCCCCCCh-hHHhhh-hhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001872 110 RNLVYIVGLPLNLGD-EDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (1002)
Q Consensus 110 rNLVYV~GLp~kIAd-EELLRk-~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDG 187 (1002)
..+|-|.=|.-++.- ||+ ++ -...+.||.|..|-+- .+-+|-|+|.+...|-+|+.+..- ..-|
T Consensus 86 MsTIVVRWlkknm~~~edl-~sV~~~Ls~fGpI~SVT~c------------GrqsavVvF~d~~SAC~Av~Af~s-~~pg 151 (166)
T PF15023_consen 86 MSTIVVRWLKKNMQPTEDL-KSVIQRLSVFGPIQSVTLC------------GRQSAVVVFKDITSACKAVSAFQS-RAPG 151 (166)
T ss_pred ceeEEeehhhhcCChHHHH-HHHHHHHHhcCCcceeeec------------CCceEEEEehhhHHHHHHHHhhcC-CCCC
Confidence 345666555444432 343 32 4678999999998753 223699999999999999998764 5668
Q ss_pred eEEEEEe
Q 001872 188 KSLKACF 194 (1002)
Q Consensus 188 R~LRASF 194 (1002)
..++|+|
T Consensus 152 tm~qCsW 158 (166)
T PF15023_consen 152 TMFQCSW 158 (166)
T ss_pred ceEEeec
Confidence 8888776
No 188
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=60.58 E-value=5.5 Score=27.93 Aligned_cols=16 Identities=38% Similarity=0.841 Sum_probs=12.5
Q ss_pred cccccCCCCCCCC-CCcccc
Q 001872 200 CHAWLRNVPCTNP-DCLYLH 218 (1002)
Q Consensus 200 Cs~FLRn~~C~Np-dCmYLH 218 (1002)
|.+|.. |.|. +|.|.|
T Consensus 2 Ck~~~~---C~~~~~C~f~H 18 (19)
T PF14608_consen 2 CKFGPN---CTNGDNCPFSH 18 (19)
T ss_pred CcCcCC---CCCCCcCccCC
Confidence 554443 9999 999999
No 189
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=60.24 E-value=2.9 Score=37.50 Aligned_cols=34 Identities=26% Similarity=0.718 Sum_probs=19.9
Q ss_pred CCCc-cccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001872 20 DQQL-KPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (1002)
Q Consensus 20 D~~F-kPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRr 58 (1002)
.+.| +|||||-+. .--+..++ .-+.-.|||.|--
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 01223333 2345689999965
No 190
>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=60.10 E-value=3.5 Score=32.22 Aligned_cols=26 Identities=42% Similarity=0.948 Sum_probs=15.3
Q ss_pred CCCCCcccCCCccCCCcccc-CCCCcc
Q 001872 7 KTCPLCAEEMDLTDQQLKPC-KCGYEI 32 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC-~CGYQI 32 (1002)
..||+|-.+....|...+-| .||+|+
T Consensus 3 p~Cp~C~se~~y~D~~~~vCp~C~~ew 29 (30)
T PF08274_consen 3 PKCPLCGSEYTYEDGELLVCPECGHEW 29 (30)
T ss_dssp ---TTT-----EE-SSSEEETTTTEEE
T ss_pred CCCCCCCCcceeccCCEEeCCcccccC
Confidence 57999999999999999999 789884
No 191
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=58.40 E-value=15 Score=41.76 Aligned_cols=43 Identities=33% Similarity=0.904 Sum_probs=31.0
Q ss_pred CCCCCcccCCCccCCCcc-ccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001872 7 KTCPLCAEEMDLTDQQLK-PCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~Fk-PC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRr 58 (1002)
..||||--.|- ..-+ || ||.-+|--|....+ -+.+..||+|.|
T Consensus 275 LkCplc~~Llr---np~kT~c-C~~~fc~eci~~al-----~dsDf~CpnC~r 318 (427)
T COG5222 275 LKCPLCHCLLR---NPMKTPC-CGHTFCDECIGTAL-----LDSDFKCPNCSR 318 (427)
T ss_pred ccCcchhhhhh---CcccCcc-ccchHHHHHHhhhh-----hhccccCCCccc
Confidence 68999987663 1111 34 89998888887543 246899999988
No 192
>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=56.66 E-value=4 Score=44.96 Aligned_cols=52 Identities=23% Similarity=0.625 Sum_probs=37.7
Q ss_pred cCCCCCCcccCCCc-cCCCccccC-CCCcchhhhhHHhHHhhhccccCCCCC--CCCCCCc
Q 001872 5 GEKTCPLCAEEMDL-TDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCP--ACRSPYD 61 (1002)
Q Consensus 5 ~d~~CPLC~EeLDl-TD~~FkPC~-CGYQIC~fC~h~I~~~~~K~~~~grCP--ACRrpYd 61 (1002)
.|..||+|.-+-=+ -|..|+-=| |=..||--|.+||.. .....|| +|-+-.-
T Consensus 9 ~d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs-----~GpAqCP~~gC~kILR 64 (314)
T COG5220 9 EDRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFS-----RGPAQCPYKGCGKILR 64 (314)
T ss_pred hcccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhc-----CCCCCCCCccHHHHHH
Confidence 34689999765422 244555556 889999999999974 4678999 9977443
No 193
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.28 E-value=3.7 Score=36.51 Aligned_cols=47 Identities=32% Similarity=0.772 Sum_probs=33.1
Q ss_pred CCCCCCcccCCCccCCCccccCCCC-cchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 6 EKTCPLCAEEMDLTDQQLKPCKCGY-EICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 6 d~~CPLC~EeLDlTD~~FkPC~CGY-QIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
+.+|-+|+|- ..|..++.| |. -+|--|--++. .-..|.||-||+|..
T Consensus 7 ~dECTICye~--pvdsVlYtC--GHMCmCy~Cg~rl~-----~~~~g~CPiCRapi~ 54 (62)
T KOG4172|consen 7 SDECTICYEH--PVDSVLYTC--GHMCMCYACGLRLK-----KALHGCCPICRAPIK 54 (62)
T ss_pred ccceeeeccC--cchHHHHHc--chHHhHHHHHHHHH-----HccCCcCcchhhHHH
Confidence 4789999996 457888876 33 24455555553 347999999999753
No 194
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=53.26 E-value=23 Score=38.46 Aligned_cols=49 Identities=29% Similarity=0.686 Sum_probs=39.7
Q ss_pred CCCCCcccCCCccCCCc--cccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001872 7 KTCPLCAEEMDLTDQQL--KPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~F--kPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpY 60 (1002)
..|-+|-++++..|..- +--+||.-||..|..++. .+....||=||.+-
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 57999999997664433 445799999999999996 35778999999984
No 195
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=52.92 E-value=6.9 Score=35.00 Aligned_cols=53 Identities=30% Similarity=0.590 Sum_probs=19.2
Q ss_pred CCCCCCcccCCC-ccCCCcccc---CCCC---cchhhhhHHhHHhhhcc-----ccCCCCCCCCCCCc
Q 001872 6 EKTCPLCAEEMD-LTDQQLKPC---KCGY---EICVWCWHHIMDMAEKE-----ETEGRCPACRSPYD 61 (1002)
Q Consensus 6 d~~CPLC~EeLD-lTD~~FkPC---~CGY---QIC~fC~h~I~~~~~K~-----~~~grCPACRrpYd 61 (1002)
+..|++|++.+. .....-.-| .|+. ..|+.=|=+= .++. -..|.||.|++++.
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~---~~~~~~~~~~~~G~CP~C~~~i~ 66 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLS---LEKSRQSFIPIFGECPYCSSPIS 66 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHH---HHSSS-TTT--EEE-TTT-SEEE
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHH---cccCCeeecccccCCcCCCCeee
Confidence 578999999865 222323444 6764 4455544321 1121 23578999999653
No 196
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=52.60 E-value=13 Score=43.11 Aligned_cols=75 Identities=12% Similarity=0.156 Sum_probs=51.9
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~ 189 (1002)
|=.+||+||.|..+++|||+--.-.|-- .|.+|+.-.++..+ .+.++|.|.........+-++.|--.+|.|+.
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 3468999999999999998632222221 44555554444433 13467999999888888888888888898874
Q ss_pred E
Q 001872 190 L 190 (1002)
Q Consensus 190 L 190 (1002)
-
T Consensus 154 P 154 (498)
T KOG4849|consen 154 P 154 (498)
T ss_pred C
Confidence 3
No 197
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.29 E-value=13 Score=41.89 Aligned_cols=51 Identities=24% Similarity=0.528 Sum_probs=37.6
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
..+.+||+|-|.=. ..+--=+||...|-+|-..-+. .+.--+||+|-.+-.
T Consensus 237 t~~~~C~~Cg~~Pt---iP~~~~~C~HiyCY~Ci~ts~~----~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPT---IPHVIGKCGHIYCYYCIATSRL----WDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCC---CCeeeccccceeehhhhhhhhc----chhhcccCccCCCCc
Confidence 35689999999865 4555567999999999886653 223469999987543
No 198
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.83 E-value=9.9 Score=43.84 Aligned_cols=57 Identities=26% Similarity=0.592 Sum_probs=38.9
Q ss_pred CCCCCCcc-cCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCC--CCCCCccc
Q 001872 6 EKTCPLCA-EEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPA--CRSPYDKE 63 (1002)
Q Consensus 6 d~~CPLC~-EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPA--CRrpYdEe 63 (1002)
...|.+|+ |.++ .|..|..+.|+.++|..||.+-.+.........+||. |-.....+
T Consensus 146 ~~~C~iC~~e~~~-~~~~f~~~~C~H~fC~~C~k~~iev~~~~~~~~~C~~~~C~~~l~~~ 205 (384)
T KOG1812|consen 146 KEECGICFVEDPE-AEDMFSVLKCGHRFCKDCVKQHIEVKLLSGTVIRCPHDGCESRLTLE 205 (384)
T ss_pred cccCccCcccccc-HhhhHHHhcccchhhhHHhHHHhhhhhccCCCccCCCCCCCccCCHH
Confidence 46899999 5554 5566669999999999999966554334445566653 44444433
No 199
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=49.25 E-value=9.8 Score=47.87 Aligned_cols=83 Identities=20% Similarity=0.304 Sum_probs=62.0
Q ss_pred ccccccccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001872 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (1002)
Q Consensus 101 ~LanVRVIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaL 180 (1002)
.+.+|-..|-. .|+-+.+-..+.-.| .-+|.+||+|+.+...++-. -|-|.|...|.|..|..++
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 34445544433 355555555554343 48999999999999877632 4789999999999999999
Q ss_pred CCCcc--CCeEEEEEecCCC
Q 001872 181 HGFVL--EGKSLKACFGTTK 198 (1002)
Q Consensus 181 NGs~L--DGR~LRASFGTTK 198 (1002)
.|..+ -|-+.||.|+.+-
T Consensus 355 ~gkevs~~g~Ps~V~~ak~~ 374 (1007)
T KOG4574|consen 355 QGKEVSVTGAPSRVSFAKTL 374 (1007)
T ss_pred cCCcccccCCceeEEecccc
Confidence 99985 6889999999873
No 200
>smart00356 ZnF_C3H1 zinc finger.
Probab=45.79 E-value=18 Score=25.76 Aligned_cols=23 Identities=26% Similarity=0.625 Sum_probs=17.7
Q ss_pred CCCcccccCCCCCCC-CCCcccccC
Q 001872 197 TKYCHAWLRNVPCTN-PDCLYLHEV 220 (1002)
Q Consensus 197 TKYCs~FLRn~~C~N-pdCmYLHE~ 220 (1002)
+..|..|+. -.|.. +.|-|+|+.
T Consensus 4 ~~~C~~~~~-g~C~~g~~C~~~H~~ 27 (27)
T smart00356 4 TELCKFFKR-GYCPYGDRCKFAHPL 27 (27)
T ss_pred CCcCcCccC-CCCCCCCCcCCCCcC
Confidence 568999944 46775 689999974
No 201
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=45.66 E-value=13 Score=46.70 Aligned_cols=55 Identities=27% Similarity=0.678 Sum_probs=41.5
Q ss_pred ccCCCCCCcccCCCccCCCccccCCCC------cchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 4 EGEKTCPLCAEEMDLTDQQLKPCKCGY------EICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~FkPC~CGY------QIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
||+..|-+|--|=-..|..|-||+|.= |-|+-=|-. .....+|--|.-+|.=++|
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 445999999888878899999999942 446555543 2357899999999875555
No 202
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=45.41 E-value=11 Score=44.70 Aligned_cols=23 Identities=30% Similarity=0.559 Sum_probs=16.4
Q ss_pred cCCCCCCcccCCCccCCCccccC
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPCK 27 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC~ 27 (1002)
+-.+||.|.|.||.+=.-+.|=.
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~ 196 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTIL 196 (493)
T ss_pred cCCCcchhHhhcCccccceeeee
Confidence 45799999999996554444433
No 203
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=44.55 E-value=24 Score=39.35 Aligned_cols=109 Identities=13% Similarity=0.164 Sum_probs=77.4
Q ss_pred CEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001872 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (1002)
Q Consensus 111 NLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~L 190 (1002)
...||+.+.+.+.+++. ..+|..+|.+....+....... +..+ +.||-|..++.+..|++..-...++++.+
T Consensus 89 ~~~f~g~~s~~~e~~~~---~~~~~~~g~~~~~~~S~~~~~~----~sk~-~~s~~f~~ks~~~~~l~~s~~~~~~~~~~ 160 (285)
T KOG4210|consen 89 STFFVGELSENIEESED---DNFSSEAGLRVDARSSSLEDSL----SSKG-GLSVHFAGKSQFFAALEESGSKVLDGNKG 160 (285)
T ss_pred ccccccccccchhhccc---cccchhhcCcccchhhhhcccc----cccc-ceeeccccHHHHHHHHHhhhccccccccc
Confidence 45789999888866544 3789999988888877644332 2344 57999999999999999876679999999
Q ss_pred EEEecCCCCcccccCCCCCCCC-----CCccccc-CCCCCCcccHHHHH
Q 001872 191 KACFGTTKYCHAWLRNVPCTNP-----DCLYLHE-VGSQEDSFTKDEII 233 (1002)
Q Consensus 191 RASFGTTKYCs~FLRn~~C~Np-----dCmYLHE-~g~~~DsfTKeEm~ 233 (1002)
.+.+.+.+- -+.|+.. .+.+.=. .+.-..+.|++|+.
T Consensus 161 ~~dl~~~~~------~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~ 203 (285)
T KOG4210|consen 161 EKDLNTRRG------LRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLK 203 (285)
T ss_pred cCccccccc------ccccchhcccccCccccceeecccccccchHHHh
Confidence 999887765 2223221 3444333 44556677888877
No 204
>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=42.44 E-value=13 Score=35.96 Aligned_cols=49 Identities=24% Similarity=0.588 Sum_probs=32.8
Q ss_pred cCCCCCCcccCCCccCCCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC-~CGYQIC~fC~h~I~~~~~K~~~~grCPACRr 58 (1002)
++..|.+|..+|.+-+..-..| .|++.||.-|-... +....-+|-.|.+
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 5689999999998777666778 78888888886653 1223445666654
No 205
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.37 E-value=20 Score=40.85 Aligned_cols=49 Identities=24% Similarity=0.548 Sum_probs=32.2
Q ss_pred CCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001872 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (1002)
Q Consensus 6 d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe 63 (1002)
+.+|++|...+- .. .--+|+...|.-|..--. + +..+-|+-||+|.|+.
T Consensus 7 ~~eC~IC~nt~n-~P---v~l~C~HkFCyiCiKGsy----~-ndk~~CavCR~pids~ 55 (324)
T KOG0824|consen 7 KKECLICYNTGN-CP---VNLYCFHKFCYICIKGSY----K-NDKKTCAVCRFPIDST 55 (324)
T ss_pred CCcceeeeccCC-cC---ccccccchhhhhhhcchh----h-cCCCCCceecCCCCcc
Confidence 578999998884 22 334678875554444321 2 2345599999999987
No 206
>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=41.26 E-value=16 Score=30.41 Aligned_cols=34 Identities=29% Similarity=0.671 Sum_probs=19.8
Q ss_pred cCCCCCC--cccCCCccCCCcc---ccC-CCCcchhhhhH
Q 001872 5 GEKTCPL--CAEEMDLTDQQLK---PCK-CGYEICVWCWH 38 (1002)
Q Consensus 5 ~d~~CPL--C~EeLDlTD~~Fk---PC~-CGYQIC~fC~h 38 (1002)
+-.-||- |-..+-..+..-. -|+ |++++|.-|-.
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 3468977 9888866666554 698 99998888753
No 207
>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=41.12 E-value=3.8 Score=30.89 Aligned_cols=28 Identities=32% Similarity=0.815 Sum_probs=15.8
Q ss_pred cchhhhhHHhHHhhhccccCCCCCCCCC
Q 001872 31 EICVWCWHHIMDMAEKEETEGRCPACRS 58 (1002)
Q Consensus 31 QIC~fC~h~I~~~~~K~~~~grCPACRr 58 (1002)
+-|.-||+.|.+..........||.|-.
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 5688999998754333344678999864
No 208
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=40.70 E-value=15 Score=42.19 Aligned_cols=43 Identities=28% Similarity=0.709 Sum_probs=30.6
Q ss_pred cCCCCCCcccCCCccCCCccccCC---CCcchhhhhHHhHHhhhccccCCCCCCCCCC
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPCKC---GYEICVWCWHHIMDMAEKEETEGRCPACRSP 59 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC~C---GYQIC~fC~h~I~~~~~K~~~~grCPACRrp 59 (1002)
+...||+|.-.- --||.| ||-.|--|-.+-+. ..|+||---.|
T Consensus 299 ~~~~CpvClk~r------~Nptvl~vSGyVfCY~Ci~~Yv~------~~~~CPVT~~p 344 (357)
T KOG0826|consen 299 DREVCPVCLKKR------QNPTVLEVSGYVFCYPCIFSYVV------NYGHCPVTGYP 344 (357)
T ss_pred ccccChhHHhcc------CCCceEEecceEEeHHHHHHHHH------hcCCCCccCCc
Confidence 347999997644 357877 99988888765542 47999865444
No 209
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=40.33 E-value=20 Score=39.98 Aligned_cols=51 Identities=20% Similarity=0.516 Sum_probs=44.1
Q ss_pred CCCCCcccCCCccCCCcccc----CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhc
Q 001872 7 KTCPLCAEEMDLTDQQLKPC----KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVG 67 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC----~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i~~ 67 (1002)
-.||.|-..|. |--|| +||-.+|.-|-.+++. .++.||-|-+|..|..|..
T Consensus 222 yiCpvtrd~Lt----Nt~~ca~Lr~sg~Vv~~ecvEklir------~D~v~pv~d~plkdrdiI~ 276 (303)
T KOG3039|consen 222 YICPVTRDTLT----NTTPCAVLRPSGHVVTKECVEKLIR------KDMVDPVTDKPLKDRDIIG 276 (303)
T ss_pred eecccchhhhc----CccceEEeccCCcEeeHHHHHHhcc------ccccccCCCCcCcccceEe
Confidence 47999999994 66777 8999999999999974 5789999999999988864
No 210
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=38.42 E-value=6.8 Score=43.89 Aligned_cols=60 Identities=22% Similarity=0.572 Sum_probs=44.4
Q ss_pred CcccCCCCCCccc-CCCccCCCcccc-CCCCcchhhhhHHhHHhhh-ccccCCCCCCCCCCCcc
Q 001872 2 SDEGEKTCPLCAE-EMDLTDQQLKPC-KCGYEICVWCWHHIMDMAE-KEETEGRCPACRSPYDK 62 (1002)
Q Consensus 2 sDd~d~~CPLC~E-eLDlTD~~FkPC-~CGYQIC~fC~h~I~~~~~-K~~~~grCPACRrpYdE 62 (1002)
-|.+...|+.|.- +|.++++..- | .||..+|..|-+++..+-. .+....-|+.|-..|.+
T Consensus 164 PD~ea~~C~~C~~~~Ftl~~RRHH-CR~CG~ivC~~Cs~n~~~l~~~~~k~~rvC~~CF~el~~ 226 (288)
T KOG1729|consen 164 PDSEATECMVCGCTEFTLSERRHH-CRNCGDIVCAPCSRNRFLLPNLSTKPIRVCDICFEELEK 226 (288)
T ss_pred CcccceecccCCCccccHHHHHHH-HHhcchHhhhhhhcCcccccccCCCCceecHHHHHHHhc
Confidence 3677899999999 9999998877 8 8999999999998543211 11122268888777754
No 211
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.32 E-value=22 Score=41.04 Aligned_cols=47 Identities=23% Similarity=0.577 Sum_probs=31.6
Q ss_pred CCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCC-CCCCCCCCc
Q 001872 8 TCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGR-CPACRSPYD 61 (1002)
Q Consensus 8 ~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~gr-CPACRrpYd 61 (1002)
+|.+|+|++..-|+.= -.||+...=.-|-+.=+. ...+ ||-|++...
T Consensus 231 ~CaIClEdY~~GdklR-iLPC~H~FH~~CIDpWL~------~~r~~CPvCK~di~ 278 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLR-ILPCSHKFHVNCIDPWLT------QTRTFCPVCKRDIR 278 (348)
T ss_pred eEEEeecccccCCeee-EecCCCchhhccchhhHh------hcCccCCCCCCcCC
Confidence 9999999997766643 355555443667765542 2334 999999653
No 212
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=37.78 E-value=1.8 Score=50.48 Aligned_cols=71 Identities=25% Similarity=0.394 Sum_probs=55.9
Q ss_pred EEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEe-ecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001872 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMS-RTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (1002)
Q Consensus 113 VYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~-rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LR 191 (1002)
+-|.++|+...- ++| ..+.++||.+..+.+. .+.++ ..+-|||...+.+.-||..++|.++....++
T Consensus 83 ~Qirnippql~w-evl--d~Ll~qyg~ve~~eqvnt~~et---------avvnvty~~~~~~~~ai~kl~g~Q~en~~~k 150 (584)
T KOG2193|consen 83 IQIRNIPPQLQW-EVL--DSLLAQYGTVENCEQVNTDSET---------AVVNVTYSAQQQHRQAIHKLNGPQLENQHLK 150 (584)
T ss_pred hhHhcCCHHHHH-HHH--HHHHhccCCHhHhhhhccchHH---------HHHHHHHHHHHHHHHHHHhhcchHhhhhhhh
Confidence 556778888764 445 4799999999987653 33332 3467899999999999999999999999999
Q ss_pred EEec
Q 001872 192 ACFG 195 (1002)
Q Consensus 192 ASFG 195 (1002)
+.|-
T Consensus 151 ~~Yi 154 (584)
T KOG2193|consen 151 VGYI 154 (584)
T ss_pred cccC
Confidence 8863
No 213
>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=36.66 E-value=9.7 Score=28.39 Aligned_cols=24 Identities=29% Similarity=0.704 Sum_probs=18.6
Q ss_pred CCCCcccccCCCCCCC-CCCccccc
Q 001872 196 TTKYCHAWLRNVPCTN-PDCLYLHE 219 (1002)
Q Consensus 196 TTKYCs~FLRn~~C~N-pdCmYLHE 219 (1002)
.|+-|..|++.-.|.. ..|.|+|.
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 3688999999999999 79999996
No 214
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=36.27 E-value=15 Score=46.90 Aligned_cols=50 Identities=28% Similarity=0.657 Sum_probs=31.9
Q ss_pred ccCCCCCCcccCCCccCCCc--cccCCCCcchhhhhHHhHH----hhhccccCCCCCCCCCCC
Q 001872 4 EGEKTCPLCAEEMDLTDQQL--KPCKCGYEICVWCWHHIMD----MAEKEETEGRCPACRSPY 60 (1002)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F--kPC~CGYQIC~fC~h~I~~----~~~K~~~~grCPACRrpY 60 (1002)
++-++|++|.-.||..|+.+ +-|+ .|-|++-. --.+...+.+||-||..+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC~-------TCknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRCA-------TCKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCccccc-------hhhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 45689999999999999988 5661 01010000 000245688999999754
No 215
>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=36.12 E-value=66 Score=28.71 Aligned_cols=59 Identities=12% Similarity=0.236 Sum_probs=32.0
Q ss_pred CCCChhHHhhhhhhhcCCCcee-----EEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEe
Q 001872 120 LNLGDEDLLQRREYFGQYGKVL-----KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF 194 (1002)
Q Consensus 120 ~kIAdEELLRk~EyFGQYGKIi-----KIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LDGR~LRASF 194 (1002)
..+...+|+ .++..-+.|. +|.|.. . +.||+-.. +.|.+++.+|++..+.||.|++.-
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------------N-FSFVEVPE-EVAEKVLEALNGKKIKGKKVRVER 73 (74)
T ss_dssp GT--HHHHH---HHHHTCTTB-GGGEEEEEE-S------------S--EEEEE-T-T-HHHHHHHHTT--SSS----EEE
T ss_pred cCCCHHHHH---HHHHhccCCCHHhEEEEEEee------------e-EEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEE
Confidence 345566776 5666665554 455532 2 46888777 579999999999999999999875
Q ss_pred c
Q 001872 195 G 195 (1002)
Q Consensus 195 G 195 (1002)
+
T Consensus 74 A 74 (74)
T PF03880_consen 74 A 74 (74)
T ss_dssp -
T ss_pred C
Confidence 3
No 216
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.76 E-value=58 Score=38.09 Aligned_cols=66 Identities=21% Similarity=0.593 Sum_probs=45.6
Q ss_pred cccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCC--CC--CCCCCCCcccchhccchh
Q 001872 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEG--RC--PACRSPYDKEKIVGMAAK 71 (1002)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~g--rC--PACRrpYdEe~i~~~~~~ 71 (1002)
+..+..|.+|++..+. .+.-=.||+.+|..||..-++...-.+..+ .| +.|+...+++.|......
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 3456899999999975 344447899999999997554322233333 34 469998888888765544
No 217
>KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=33.56 E-value=33 Score=36.89 Aligned_cols=64 Identities=25% Similarity=0.251 Sum_probs=40.8
Q ss_pred ccccCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhC
Q 001872 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH 181 (1002)
Q Consensus 107 VIQrNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLN 181 (1002)
-|++-.||.. +..-.-++|+ ++-+ |++..|.+-+..... .+ -.|++||||.+.+.|..|++.-.
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---HP-FKGSVKVTFQTKEQAFANDDTHE 171 (205)
T ss_pred HHHHhhhhcc--CCHHHHHHHH---HHhc--ccceEeeccccCCCC---CC-CCCceEEEeecHHHHHhhhhhhh
Confidence 4556667776 1111123443 4444 999998886543332 12 34689999999999999998643
No 218
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=33.48 E-value=21 Score=44.08 Aligned_cols=48 Identities=21% Similarity=0.562 Sum_probs=34.2
Q ss_pred CCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
..|++|+.++=..-.--.--.||.-||.-|...+ .+..|| |.+ |+..+
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 5799998887433333334589999999999988 467899 655 55443
No 219
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=33.33 E-value=19 Score=42.41 Aligned_cols=46 Identities=33% Similarity=0.764 Sum_probs=36.2
Q ss_pred CCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001872 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpY 60 (1002)
+.|-+|.| .|+..+-=|||.-+|--|+..-.+ .++..-||=||-+.
T Consensus 370 eLCKICae----ndKdvkIEPCGHLlCt~CLa~WQ~----sd~gq~CPFCRcEI 415 (563)
T KOG1785|consen 370 ELCKICAE----NDKDVKIEPCGHLLCTSCLAAWQD----SDEGQTCPFCRCEI 415 (563)
T ss_pred HHHHHhhc----cCCCcccccccchHHHHHHHhhcc----cCCCCCCCceeeEe
Confidence 46888876 467788888999999999987753 33466799999866
No 220
>PRK04023 DNA polymerase II large subunit; Validated
Probab=33.14 E-value=44 Score=43.33 Aligned_cols=56 Identities=25% Similarity=0.588 Sum_probs=37.4
Q ss_pred cCCCCCCcccCCCccCCCccccC-CCC-----cchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhccchhhHHH
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPCK-CGY-----EICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERL 75 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC~-CGY-----QIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i~~~~~~~eel 75 (1002)
+...||-|-.+. ..+.|+ ||- -.|.-|-... ....||.|-.+-... ..+.++..++
T Consensus 625 g~RfCpsCG~~t-----~~frCP~CG~~Te~i~fCP~CG~~~--------~~y~CPKCG~El~~~--s~~~i~l~~~ 686 (1121)
T PRK04023 625 GRRKCPSCGKET-----FYRRCPFCGTHTEPVYRCPRCGIEV--------EEDECEKCGREPTPY--SKRKIDLKEL 686 (1121)
T ss_pred cCccCCCCCCcC-----CcccCCCCCCCCCcceeCccccCcC--------CCCcCCCCCCCCCcc--ceEEecHHHH
Confidence 346899999985 668998 984 4788883332 346799999876543 2334444443
No 221
>PRK11595 DNA utilization protein GntX; Provisional
Probab=32.36 E-value=36 Score=36.16 Aligned_cols=40 Identities=28% Similarity=0.639 Sum_probs=27.1
Q ss_pred CCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
..|.+|-+.++.. ...||..|+..+.- ...+||.|-++..
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 3699998877422 12489999988741 2357888887754
No 222
>PF12773 DZR: Double zinc ribbon
Probab=31.30 E-value=43 Score=27.45 Aligned_cols=42 Identities=19% Similarity=0.536 Sum_probs=23.6
Q ss_pred CCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001872 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (1002)
Q Consensus 9 CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe 63 (1002)
||-|-++++.. ..+|.+|=..+.. .+.....||+|.++++..
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 56666665422 3455566665531 123456788888876543
No 223
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=31.00 E-value=19 Score=39.44 Aligned_cols=26 Identities=35% Similarity=0.759 Sum_probs=21.6
Q ss_pred CcccccCCCCCCCCCCcccccCCCCCC
Q 001872 199 YCHAWLRNVPCTNPDCLYLHEVGSQED 225 (1002)
Q Consensus 199 YCs~FLRn~~C~NpdCmYLHE~g~~~D 225 (1002)
-|.+||-| +|.||+|-|+|-.-.+..
T Consensus 263 acryfllg-kcnnpncryvhihysena 288 (377)
T KOG1492|consen 263 ACRYFLLG-KCNNPNCRYVHIHYSENA 288 (377)
T ss_pred hhhhhhhc-cCCCCCceEEEEeecCCC
Confidence 48888877 699999999998776655
No 224
>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=30.38 E-value=2.6e+02 Score=27.57 Aligned_cols=66 Identities=15% Similarity=0.258 Sum_probs=45.2
Q ss_pred CEEEEeCCCCCCCh-hHHhhhhhhhcCCC-ceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001872 111 NLVYIVGLPLNLGD-EDLLQRREYFGQYG-KVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (1002)
Q Consensus 111 NLVYV~GLp~kIAd-EELLRk~EyFGQYG-KIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~LD 186 (1002)
.+|-|...|+.... ++|+ .+.+.+- .|..++|.++... .++-|-|.|.+.++|..-.+..||..+.
T Consensus 13 ~~~~~l~vp~~~~~~d~l~---~f~~~~~~~i~~~riird~~p-------nrymVLikF~~~~~Ad~Fy~~fNGk~Fn 80 (110)
T PF07576_consen 13 STLCCLAVPPYMTPSDFLL---FFGAPFREDIEHIRIIRDGTP-------NRYMVLIKFRDQESADEFYEEFNGKPFN 80 (110)
T ss_pred ceEEEEEeCcccccHHHHH---HhhhcccccEEEEEEeeCCCC-------ceEEEEEEECCHHHHHHHHHHhCCCccC
Confidence 45566666665544 4454 2333343 3557778776432 3588999999999999999999998863
No 225
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=30.12 E-value=15 Score=46.22 Aligned_cols=57 Identities=23% Similarity=0.425 Sum_probs=34.3
Q ss_pred CCCCCcccCCCccCCCccccC---CCCcchhhhhHHhHHh---hhcc--------------ccCCCCCCCCCCCccc
Q 001872 7 KTCPLCAEEMDLTDQQLKPCK---CGYEICVWCWHHIMDM---AEKE--------------ETEGRCPACRSPYDKE 63 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC~---CGYQIC~fC~h~I~~~---~~K~--------------~~~grCPACRrpYdEe 63 (1002)
..|+.|.-++...|..|--|+ |+...|--|.-..++. +.|. .-..-||-||..|++-
T Consensus 97 ~Ss~~C~~E~S~~~ds~~i~P~~~~~~~~CP~Ci~s~~DqL~~~~k~c~H~FC~~Ci~sWsR~aqTCPiDR~EF~~v 173 (1134)
T KOG0825|consen 97 DTSPVCEKEHSPDVDSSNICPVQTHVENQCPNCLKSCNDQLEESEKHTAHYFCEECVGSWSRCAQTCPVDRGEFGEV 173 (1134)
T ss_pred cccchhheecCCcccccCcCchhhhhhhhhhHHHHHHHHHhhccccccccccHHHHhhhhhhhcccCchhhhhhhee
Confidence 578888888876677777777 6555554443322220 0011 1234699999999764
No 226
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=30.10 E-value=33 Score=40.23 Aligned_cols=49 Identities=27% Similarity=0.674 Sum_probs=36.1
Q ss_pred cCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001872 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe 63 (1002)
.+-.|-+|+.-|= .--.. +||.-.|.+|.++-++ ...-||-||-+|-+-
T Consensus 83 sef~c~vc~~~l~---~pv~t-pcghs~c~~Cl~r~ld------~~~~cp~Cr~~l~e~ 131 (398)
T KOG4159|consen 83 SEFECCVCSRALY---PPVVT-PCGHSFCLECLDRSLD------QETECPLCRDELVEL 131 (398)
T ss_pred chhhhhhhHhhcC---CCccc-cccccccHHHHHHHhc------cCCCCcccccccccc
Confidence 3467888866552 22222 8999999999998654 467899999999763
No 227
>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=29.48 E-value=25 Score=41.35 Aligned_cols=24 Identities=33% Similarity=0.920 Sum_probs=16.6
Q ss_pred CCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001872 21 QQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (1002)
Q Consensus 21 ~~FkPC-~CGYQIC~fC~h~I~~~~~K~~~~grCPACRr 58 (1002)
+..|-| .|||+- ..-.|+||+|+.
T Consensus 5 ~~~y~C~~Cg~~~--------------~~~~g~Cp~C~~ 29 (454)
T TIGR00416 5 KSKFVCQHCGADS--------------PKWQGKCPACHA 29 (454)
T ss_pred CCeEECCcCCCCC--------------ccccEECcCCCC
Confidence 445678 788872 124689999976
No 228
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=29.16 E-value=28 Score=29.34 Aligned_cols=39 Identities=28% Similarity=0.571 Sum_probs=23.9
Q ss_pred CCCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCC
Q 001872 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSP 59 (1002)
Q Consensus 6 d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrp 59 (1002)
.-.||.|-+++|...+ + .++.+.=..+..+..||-|...
T Consensus 2 ~f~CP~C~~~~~~~~L--------------~-~H~~~~H~~~~~~v~CPiC~~~ 40 (54)
T PF05605_consen 2 SFTCPYCGKGFSESSL--------------V-EHCEDEHRSESKNVVCPICSSR 40 (54)
T ss_pred CcCCCCCCCccCHHHH--------------H-HHHHhHCcCCCCCccCCCchhh
Confidence 4579999998774332 1 3333311223457899999873
No 229
>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=29.15 E-value=27 Score=29.51 Aligned_cols=17 Identities=41% Similarity=0.974 Sum_probs=9.4
Q ss_pred cCCCCCCCCCCCcccch
Q 001872 49 TEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 49 ~~grCPACRrpYdEe~i 65 (1002)
.+++||-|.|+++++.-
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 45599999999988754
No 230
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=28.27 E-value=1.4e+02 Score=36.06 Aligned_cols=66 Identities=17% Similarity=0.375 Sum_probs=55.3
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCC-ceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYG-KVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYG-KIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L 185 (1002)
.++|.|..+|..++--|+|+ |.+.+= .|..|.|.||... .++.+-|+|.+.+||..=-+..||..+
T Consensus 74 ~~mLcilaVP~~mt~~Dll~---F~~~~~~~I~~irivRd~~p-------nrymvLIkFr~q~da~~Fy~efNGk~F 140 (493)
T KOG0804|consen 74 STMLCILAVPAYMTSHDLLR---FCASFIKQISDIRIVRDGMP-------NRYMVLIKFRDQADADTFYEEFNGKQF 140 (493)
T ss_pred CcEEEEEeccccccHHHHHH---HHHHHhhhhheeEEeecCCC-------ceEEEEEEeccchhHHHHHHHcCCCcC
Confidence 78899999999999999994 555443 4778999996543 358899999999999999999999886
No 231
>PHA02862 5L protein; Provisional
Probab=28.26 E-value=43 Score=34.91 Aligned_cols=45 Identities=20% Similarity=0.614 Sum_probs=30.9
Q ss_pred CCCCCcccCCCccCCCccccCCC------CcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001872 7 KTCPLCAEEMDLTDQQLKPCKCG------YEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC~CG------YQIC~fC~h~I~~~~~K~~~~grCPACRrpYd 61 (1002)
..|=+|-++=| ....||.|. .|-| ..+=++ ......||-|+.+|.
T Consensus 3 diCWIC~~~~~---e~~~PC~C~GS~K~VHq~C---L~~WIn----~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCD---ERNNFCGCNEEYKVVHIKC---MQLWIN----YSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCC---CCcccccccCcchhHHHHH---HHHHHh----cCCCcCccCCCCeEE
Confidence 57999998854 226999992 2444 333332 346789999999995
No 232
>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=28.14 E-value=60 Score=27.43 Aligned_cols=46 Identities=24% Similarity=0.675 Sum_probs=28.9
Q ss_pred CCCCcccCCCccCCCccccCCCC--c-chhhhhHHhHHhhhccccCCCCCCCC
Q 001872 8 TCPLCAEEMDLTDQQLKPCKCGY--E-ICVWCWHHIMDMAEKEETEGRCPACR 57 (1002)
Q Consensus 8 ~CPLC~EeLDlTD~~FkPC~CGY--Q-IC~fC~h~I~~~~~K~~~~grCPACR 57 (1002)
.|-+|.++.+..+.-+.||.|.- + +=.-|..+=+.. .....||-|.
T Consensus 1 ~CrIC~~~~~~~~~l~~PC~C~G~~~~vH~~Cl~~W~~~----~~~~~C~iC~ 49 (49)
T smart00744 1 ICRICHDEGDEGDPLVSPCRCKGSLKYVHQECLERWINE----SGNKTCEICK 49 (49)
T ss_pred CccCCCCCCCCCCeeEeccccCCchhHHHHHHHHHHHHH----cCCCcCCCCC
Confidence 48899987777788889999941 1 113344444321 1234898884
No 233
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=27.21 E-value=35 Score=42.57 Aligned_cols=50 Identities=20% Similarity=0.639 Sum_probs=35.1
Q ss_pred CCCCCcccCCCccCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001872 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i 65 (1002)
..||.|-... +.-.-=+||.-+|--|-..-.++ -.-+||.|-+++.-.-|
T Consensus 644 LkCs~Cn~R~----Kd~vI~kC~H~FC~~Cvq~r~et-----RqRKCP~Cn~aFganDv 693 (698)
T KOG0978|consen 644 LKCSVCNTRW----KDAVITKCGHVFCEECVQTRYET-----RQRKCPKCNAAFGANDV 693 (698)
T ss_pred eeCCCccCch----hhHHHHhcchHHHHHHHHHHHHH-----hcCCCCCCCCCCCcccc
Confidence 5799997333 12222389999888888866554 36899999999876544
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=27.13 E-value=40 Score=25.61 Aligned_cols=21 Identities=48% Similarity=1.187 Sum_probs=14.2
Q ss_pred CCCCcccCCCccCCCccccC-CCCc
Q 001872 8 TCPLCAEEMDLTDQQLKPCK-CGYE 31 (1002)
Q Consensus 8 ~CPLC~EeLDlTD~~FkPC~-CGYQ 31 (1002)
.||-|-.++- ..-+-|+ |||.
T Consensus 2 ~CP~C~~~V~---~~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVP---ESAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCch---hhcCcCCCCCCC
Confidence 5888877774 4456676 7775
No 235
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=26.31 E-value=1.5e+02 Score=32.40 Aligned_cols=61 Identities=18% Similarity=0.237 Sum_probs=48.9
Q ss_pred cCEEEEeCCCCCCChhHHhhhhhhhcCCCceeEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001872 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (1002)
Q Consensus 110 rNLVYV~GLp~kIAdEELLRk~EyFGQYGKIiKIvI~rd~~t~~qq~p~~ggsAYVTFs~~EDA~rAIqaLNGs~L 185 (1002)
..-|.|.|||+.-.=.||. +..-+-|.|--..|-+| +..-|.|.++||-+-||+.|+...+
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 4567899999998877874 78888898877777655 2358999999999999999886554
No 236
>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=26.30 E-value=34 Score=27.60 Aligned_cols=25 Identities=28% Similarity=0.813 Sum_probs=22.5
Q ss_pred CCCCcccCCCccCCCcccc-CCCCcc
Q 001872 8 TCPLCAEEMDLTDQQLKPC-KCGYEI 32 (1002)
Q Consensus 8 ~CPLC~EeLDlTD~~FkPC-~CGYQI 32 (1002)
.|+.|-..+..+|--|+-| .||.|+
T Consensus 10 ~C~~C~~~~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 10 PCPVCGSRWFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred cCCCCCCeEeEccCCEEEhhhCceEc
Confidence 4999999999999999999 999873
No 237
>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 PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=25.74 E-value=41 Score=32.05 Aligned_cols=29 Identities=31% Similarity=0.720 Sum_probs=22.4
Q ss_pred CcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhc
Q 001872 30 YEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVG 67 (1002)
Q Consensus 30 YQIC~fC~h~I~~~~~K~~~~grCPACRrpYdEe~i~~ 67 (1002)
-..|..|...+ +|-||.|+.|-|+-++++
T Consensus 21 dd~CgICr~~f---------dg~Cp~Ck~Pgd~Cplv~ 49 (85)
T PF12861_consen 21 DDVCGICRMPF---------DGCCPDCKFPGDDCPLVW 49 (85)
T ss_pred CCceeeEeccc---------ccCCCCccCCCCCCceee
Confidence 34566777666 689999999999887764
No 239
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=25.53 E-value=25 Score=41.81 Aligned_cols=40 Identities=30% Similarity=0.577 Sum_probs=32.2
Q ss_pred CcccCCCCCCcccCCCccCCCccccCCCCcchhhhhHHhH
Q 001872 2 SDEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIM 41 (1002)
Q Consensus 2 sDd~d~~CPLC~EeLDlTD~~FkPC~CGYQIC~fC~h~I~ 41 (1002)
.|-+...||+|.+.|-+|-+..-===||-.||.+|-.-|-
T Consensus 176 DDs~V~~CP~Ca~~F~l~rRrHHCRLCG~VmC~~C~k~iS 215 (505)
T KOG1842|consen 176 DDSSVQFCPECANSFGLTRRRHHCRLCGRVMCRDCSKFIS 215 (505)
T ss_pred CCCcccccccccchhhhHHHhhhhhhcchHHHHHHHHhcC
Confidence 3556689999999999987765422799999999998774
No 240
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=24.93 E-value=57 Score=30.97 Aligned_cols=54 Identities=26% Similarity=0.741 Sum_probs=28.3
Q ss_pred CCCCCCcccCCCccCCC--c--cccCCCCcchhhhhHH--hHH-hhhccccCCCCCCCCCCC
Q 001872 6 EKTCPLCAEEMDLTDQQ--L--KPCKCGYEICVWCWHH--IMD-MAEKEETEGRCPACRSPY 60 (1002)
Q Consensus 6 d~~CPLC~EeLDlTD~~--F--kPC~CGYQIC~fC~h~--I~~-~~~K~~~~grCPACRrpY 60 (1002)
+++|-||--+||-+=.. | --||==.-+|.-++|. |.+ .+.+ ..++.||-||+.+
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 34566665555532110 0 0133323467777773 333 3333 3459999999965
No 241
>PRK11823 DNA repair protein RadA; Provisional
Probab=24.71 E-value=37 Score=39.79 Aligned_cols=24 Identities=38% Similarity=0.877 Sum_probs=16.5
Q ss_pred CCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001872 21 QQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (1002)
Q Consensus 21 ~~FkPC-~CGYQIC~fC~h~I~~~~~K~~~~grCPACRr 58 (1002)
+..|-| .|||+- ..-.|+||+|..
T Consensus 5 ~~~y~C~~Cg~~~--------------~~~~g~Cp~C~~ 29 (446)
T PRK11823 5 KTAYVCQECGAES--------------PKWLGRCPECGA 29 (446)
T ss_pred CCeEECCcCCCCC--------------cccCeeCcCCCC
Confidence 445667 678872 124789999965
No 242
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=24.46 E-value=41 Score=44.20 Aligned_cols=18 Identities=56% Similarity=1.285 Sum_probs=12.7
Q ss_pred CCCCCCCCCCCCC---CCCCC
Q 001872 780 SAPPGFSVPSRAP---PPGFT 797 (1002)
Q Consensus 780 SaPPGFS~psR~P---ppGFS 797 (1002)
-.||||-.||.+| |||.-
T Consensus 13 ppppg~epps~pppPppPg~~ 33 (2365)
T COG5178 13 PPPPGFEPPSQPPPPPPPGVN 33 (2365)
T ss_pred ccCCCCCCCCCCCCccCCCcc
Confidence 3588998887655 55875
No 243
>PF12773 DZR: Double zinc ribbon
Probab=24.12 E-value=65 Score=26.43 Aligned_cols=29 Identities=38% Similarity=0.799 Sum_probs=23.3
Q ss_pred cccCCCCCCcccCCCccCCCcccc-CCCCc
Q 001872 3 DEGEKTCPLCAEEMDLTDQQLKPC-KCGYE 31 (1002)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~FkPC-~CGYQ 31 (1002)
+++...||.|-..|...+...+.| .||+.
T Consensus 9 ~~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 9 PDDAKFCPHCGTPLPPPDQSKKICPNCGAE 38 (50)
T ss_pred CccccCChhhcCChhhccCCCCCCcCCcCC
Confidence 456789999999998777778888 77775
No 244
>PF08747 DUF1788: Domain of unknown function (DUF1788); InterPro: IPR014858 This entry represents a putative uncharacterised protein of length around 200 amino acids.
Probab=23.95 E-value=42 Score=33.48 Aligned_cols=9 Identities=33% Similarity=1.051 Sum_probs=4.0
Q ss_pred cCEEEEeCC
Q 001872 110 RNLVYIVGL 118 (1002)
Q Consensus 110 rNLVYV~GL 118 (1002)
+..|+|.|+
T Consensus 62 ~~vv~ltGv 70 (126)
T PF08747_consen 62 RDVVFLTGV 70 (126)
T ss_pred CcEEEEeCc
Confidence 344444443
No 245
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=23.16 E-value=39 Score=32.97 Aligned_cols=19 Identities=26% Similarity=0.754 Sum_probs=8.5
Q ss_pred CCCcccCCCccCCCccccC
Q 001872 9 CPLCAEEMDLTDQQLKPCK 27 (1002)
Q Consensus 9 CPLC~EeLDlTD~~FkPC~ 27 (1002)
|+-|-..+.+.+..+++||
T Consensus 73 C~~Cg~~~~~~~~~~~~CP 91 (114)
T PRK03681 73 CETCQQYVTLLTQRVRRCP 91 (114)
T ss_pred cccCCCeeecCCccCCcCc
Confidence 4555544444444334443
No 246
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=22.74 E-value=34 Score=38.80 Aligned_cols=90 Identities=18% Similarity=0.352 Sum_probs=58.1
Q ss_pred cCEEEEeCCCCC-----------CChhHHhhhhhhhcCCCceeEEEEeecCC---------CcccccC-C----CCcEEE
Q 001872 110 RNLVYIVGLPLN-----------LGDEDLLQRREYFGQYGKVLKVSMSRTAA---------GVIQQFP-N----NTCSVY 164 (1002)
Q Consensus 110 rNLVYV~GLp~k-----------IAdEELLRk~EyFGQYGKIiKIvI~rd~~---------t~~qq~p-~----~ggsAY 164 (1002)
-.+||+.|||-+ +..|+.|+ ..|..||.|-.|.|+.-.. .+.|+.. . --+-||
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 468999999853 24466675 6999999999998864221 1222111 0 112368
Q ss_pred EEeCCHHHHHHHHHHhCCCcc----CCe----EEEEEecCCCCcc
Q 001872 165 ITYSKEEEAVRCIQSVHGFVL----EGK----SLKACFGTTKYCH 201 (1002)
Q Consensus 165 VTFs~~EDA~rAIqaLNGs~L----DGR----~LRASFGTTKYCs 201 (1002)
|.|-..---..|+.+|-|..+ +|+ .++|.|-.++.-+
T Consensus 227 vqfmeykgfa~amdalr~~k~akk~d~~ffqanvkvdfdrsrhls 271 (445)
T KOG2891|consen 227 VQFMEYKGFAQAMDALRGMKLAKKGDDGFFQANVKVDFDRSRHLS 271 (445)
T ss_pred HHHHHHHhHHHHHHHHhcchHHhhcCCcccccccccccchhhhhh
Confidence 888877777788888887654 554 5677777766543
No 247
>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=22.20 E-value=37 Score=29.57 Aligned_cols=26 Identities=31% Similarity=0.994 Sum_probs=18.7
Q ss_pred CCCCCcccCC--------CccCCCc-cccCCCCcc
Q 001872 7 KTCPLCAEEM--------DLTDQQL-KPCKCGYEI 32 (1002)
Q Consensus 7 ~~CPLC~EeL--------DlTD~~F-kPC~CGYQI 32 (1002)
..||-|-.+. .+.|--| +.|+||+.|
T Consensus 14 ~~Cp~CGN~~vGngEG~liV~edtfkRtCkCGfni 48 (49)
T PF12677_consen 14 CKCPKCGNDKVGNGEGTLIVEEDTFKRTCKCGFNI 48 (49)
T ss_pred ccCcccCCcEeecCcceEEEeccceeeeecccccc
Confidence 4689997653 4455555 899999875
No 248
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=21.87 E-value=55 Score=41.54 Aligned_cols=26 Identities=23% Similarity=0.380 Sum_probs=18.2
Q ss_pred CCCCCCCCCCCCCCCCcccccccccc
Q 001872 783 PGFSVPSRAPPPGFTSHERVDQSFDT 808 (1002)
Q Consensus 783 PGFS~psR~PppGFSs~~r~~q~~d~ 808 (1002)
||--.|.|+|||-=.+.+|.-|-.+.
T Consensus 945 ~~~~p~~~pp~~~~~~~~~~~~~~g~ 970 (1134)
T KOG0825|consen 945 QGLPPPPPPPPPSQQVNYIASQPDGK 970 (1134)
T ss_pred CCCCCCCCCCChhhccchhccCCchh
Confidence 66666778888877777776665554
No 249
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=20.48 E-value=34 Score=43.58 Aligned_cols=41 Identities=32% Similarity=0.863 Sum_probs=0.0
Q ss_pred CCCCCcccCCCccCCCccccC-CCCc-----chhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001872 7 KTCPLCAEEMDLTDQQLKPCK-CGYE-----ICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (1002)
Q Consensus 7 ~~CPLC~EeLDlTD~~FkPC~-CGYQ-----IC~fC~h~I~~~~~K~~~~grCPACRrpY 60 (1002)
..||-|-.+ ..+.-|+ ||-. .|..|-...- ...||.|.++-
T Consensus 656 r~Cp~Cg~~-----t~~~~Cp~CG~~T~~~~~Cp~C~~~~~--------~~~C~~C~~~~ 702 (900)
T PF03833_consen 656 RRCPKCGKE-----TFYNRCPECGSHTEPVYVCPDCGIEVE--------EDECPKCGRET 702 (900)
T ss_dssp ------------------------------------------------------------
T ss_pred ccCcccCCc-----chhhcCcccCCccccceeccccccccC--------ccccccccccC
Confidence 468888665 4566784 8743 6777777662 34788887753
No 250
>KOG1039 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.18 E-value=77 Score=36.71 Aligned_cols=54 Identities=26% Similarity=0.647 Sum_probs=37.0
Q ss_pred cCCCCCCcccCCCccCCC-----ccccC-CCCcchhhhhHHhHHh-hhccccCCCCCCCCCCC
Q 001872 5 GEKTCPLCAEEMDLTDQQ-----LKPCK-CGYEICVWCWHHIMDM-AEKEETEGRCPACRSPY 60 (1002)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~-----FkPC~-CGYQIC~fC~h~I~~~-~~K~~~~grCPACRrpY 60 (1002)
.+.+|-+|||..- ++. |.--+ |-+-.|.-|...=+.. .........||-||.+-
T Consensus 160 ~~k~CGICme~i~--ek~~~~~rfgilpnC~H~~Cl~Cir~wr~~~q~~~~~sksCP~CRv~s 220 (344)
T KOG1039|consen 160 SEKECGICMETIN--EKAASERRFGILPNCNHSFCLNCIRKWRQATQFESKTSKSCPFCRVPS 220 (344)
T ss_pred ccccceehhhhcc--ccchhhhhcccCCCcchhhhhcHhHhhhhhhccccccccCCCcccCcc
Confidence 4789999999863 455 75554 8899888887765521 00123467899999865
No 251
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=20.09 E-value=59 Score=27.09 Aligned_cols=33 Identities=33% Similarity=0.781 Sum_probs=23.7
Q ss_pred CCCCC--CcccCCCcc---CCCcccc-CCCCcchhhhhH
Q 001872 6 EKTCP--LCAEEMDLT---DQQLKPC-KCGYEICVWCWH 38 (1002)
Q Consensus 6 d~~CP--LC~EeLDlT---D~~FkPC-~CGYQIC~fC~h 38 (1002)
-.-|| -|-..+... +....-| .||+.+|.-|..
T Consensus 18 ~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~ 56 (64)
T smart00647 18 LKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKV 56 (64)
T ss_pred ccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCC
Confidence 34598 887666554 4567889 899998877744
No 252
>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=20.06 E-value=49 Score=38.09 Aligned_cols=10 Identities=40% Similarity=1.092 Sum_probs=8.3
Q ss_pred cCCCCCCCCC
Q 001872 49 TEGRCPACRS 58 (1002)
Q Consensus 49 ~~grCPACRr 58 (1002)
-.|+||+|..
T Consensus 13 ~~g~cp~c~~ 22 (372)
T cd01121 13 WLGKCPECGE 22 (372)
T ss_pred ccEECcCCCC
Confidence 4799999976
Done!