Query 001894
Match_columns 999
No_of_seqs 248 out of 748
Neff 3.2
Searched_HMMs 46136
Date Thu Mar 28 11:47:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001894.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001894hhsearch_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 4.2E-80 9.2E-85 656.1 18.2 237 2-246 10-251 (480)
2 KOG2068 MOT2 transcription fac 100.0 7.9E-61 1.7E-65 510.4 12.4 304 29-347 1-309 (327)
3 PF14570 zf-RING_4: RING/Ubox 99.8 1.6E-21 3.5E-26 160.3 2.7 48 9-61 1-48 (48)
4 PLN03134 glycine-rich RNA-bind 99.5 3E-13 6.5E-18 131.5 11.0 89 101-198 26-114 (144)
5 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.5 2.8E-13 6.1E-18 143.2 10.9 80 112-199 271-350 (352)
6 PF00076 RRM_1: RNA recognitio 99.4 4.9E-13 1.1E-17 109.3 8.2 70 113-191 1-70 (70)
7 TIGR01661 ELAV_HUD_SF ELAV/HuD 99.4 1.5E-12 3.2E-17 137.8 10.5 110 110-238 3-112 (352)
8 KOG0114 Predicted RNA-binding 99.3 1.8E-11 3.9E-16 116.1 8.7 82 103-195 9-92 (124)
9 PF14259 RRM_6: RNA recognitio 99.2 3E-11 6.6E-16 100.8 8.8 70 113-191 1-70 (70)
10 TIGR01659 sex-lethal sex-letha 99.2 3.9E-11 8.5E-16 131.6 10.0 113 107-238 104-216 (346)
11 KOG0148 Apoptosis-promoting RN 99.2 3.9E-11 8.4E-16 128.0 8.6 76 109-198 163-238 (321)
12 KOG0111 Cyclophilin-type pepti 99.2 1.6E-11 3.6E-16 128.0 4.7 83 107-197 7-89 (298)
13 smart00362 RRM_2 RNA recogniti 99.2 1.6E-10 3.4E-15 91.9 8.7 72 112-193 1-72 (72)
14 PLN03120 nucleic acid binding 99.1 1.4E-10 3E-15 123.7 10.0 76 109-196 3-78 (260)
15 TIGR01659 sex-lethal sex-letha 99.1 1.6E-10 3.4E-15 126.9 10.6 83 108-198 191-275 (346)
16 COG0724 RNA-binding proteins ( 99.1 1.7E-10 3.7E-15 110.3 9.5 80 110-197 115-194 (306)
17 cd00590 RRM RRM (RNA recogniti 99.1 3.5E-10 7.6E-15 90.3 9.3 74 112-194 1-74 (74)
18 KOG0107 Alternative splicing f 99.1 1E-10 2.2E-15 118.7 7.5 80 110-202 10-89 (195)
19 TIGR01645 half-pint poly-U bin 99.1 1.8E-10 3.8E-15 134.5 10.5 81 110-198 204-284 (612)
20 TIGR01645 half-pint poly-U bin 99.1 2E-10 4.4E-15 134.0 11.0 78 111-196 108-185 (612)
21 KOG0149 Predicted RNA-binding 99.1 6.6E-11 1.4E-15 124.2 6.2 77 110-195 12-88 (247)
22 KOG4206 Spliceosomal protein s 99.1 1.1E-10 2.4E-15 121.6 7.7 88 106-201 4-93 (221)
23 KOG0125 Ataxin 2-binding prote 99.1 1.2E-10 2.6E-15 126.7 7.7 80 109-198 95-174 (376)
24 KOG0122 Translation initiation 99.1 2.7E-10 5.9E-15 120.2 9.2 82 109-198 188-269 (270)
25 TIGR01628 PABP-1234 polyadenyl 99.1 3.1E-10 6.6E-15 129.1 10.4 82 108-198 283-364 (562)
26 smart00360 RRM RNA recognition 99.1 3.6E-10 7.9E-15 89.3 7.7 71 115-193 1-71 (71)
27 TIGR01642 U2AF_lg U2 snRNP aux 99.1 5.3E-10 1.2E-14 124.6 11.7 83 108-198 293-375 (509)
28 TIGR01622 SF-CC1 splicing fact 99.1 3.6E-10 7.8E-15 124.5 10.2 79 110-196 186-264 (457)
29 KOG4207 Predicted splicing fac 99.1 1.1E-10 2.4E-15 121.0 5.5 82 107-196 10-91 (256)
30 PF13893 RRM_5: RNA recognitio 99.1 4.5E-10 9.8E-15 91.5 7.8 55 131-195 2-56 (56)
31 TIGR01628 PABP-1234 polyadenyl 99.0 4.8E-10 1E-14 127.5 9.8 110 112-238 2-111 (562)
32 TIGR01622 SF-CC1 splicing fact 99.0 1.7E-09 3.7E-14 119.2 12.6 117 110-238 89-209 (457)
33 KOG0145 RNA-binding protein EL 99.0 8.6E-10 1.9E-14 117.5 9.7 81 110-198 278-358 (360)
34 KOG0121 Nuclear cap-binding pr 99.0 4.8E-10 1E-14 109.7 6.5 78 109-194 35-112 (153)
35 TIGR01649 hnRNP-L_PTB hnRNP-L/ 99.0 1.1E-09 2.5E-14 123.6 10.4 76 109-197 274-350 (481)
36 KOG0148 Apoptosis-promoting RN 99.0 5.2E-10 1.1E-14 119.5 7.0 80 112-199 64-143 (321)
37 KOG0126 Predicted RNA-binding 99.0 1.4E-10 3.1E-15 118.4 2.1 76 111-194 36-111 (219)
38 PLN03213 repressor of silencin 99.0 1.1E-09 2.4E-14 123.6 8.3 78 111-200 11-90 (759)
39 smart00361 RRM_1 RNA recogniti 98.9 3E-09 6.4E-14 91.2 7.6 59 132-193 7-70 (70)
40 PLN03121 nucleic acid binding 98.9 3.9E-09 8.5E-14 111.7 9.2 74 111-196 6-79 (243)
41 TIGR01648 hnRNP-R-Q heterogene 98.9 3.3E-09 7.1E-14 123.5 9.0 102 109-236 57-159 (578)
42 KOG0105 Alternative splicing f 98.9 2.3E-09 4.9E-14 110.1 6.7 85 111-206 7-91 (241)
43 TIGR01648 hnRNP-R-Q heterogene 98.9 4.5E-09 9.7E-14 122.4 9.7 77 111-203 234-312 (578)
44 KOG0117 Heterogeneous nuclear 98.8 9.2E-09 2E-13 115.5 8.9 107 107-238 80-187 (506)
45 TIGR01649 hnRNP-L_PTB hnRNP-L/ 98.8 1.7E-08 3.6E-13 114.3 9.4 79 110-198 394-480 (481)
46 KOG0108 mRNA cleavage and poly 98.8 1.4E-08 3.1E-13 114.9 8.0 79 111-197 19-97 (435)
47 KOG0131 Splicing factor 3b, su 98.8 8.9E-09 1.9E-13 105.4 5.6 81 108-196 7-87 (203)
48 KOG0113 U1 small nuclear ribon 98.7 3E-08 6.5E-13 107.4 9.0 88 110-205 101-188 (335)
49 KOG0130 RNA-binding protein RB 98.6 5E-08 1.1E-12 96.6 6.1 84 104-195 66-149 (170)
50 KOG0144 RNA-binding protein CU 98.6 3.4E-08 7.3E-13 110.8 4.7 85 106-199 120-207 (510)
51 KOG0127 Nucleolar protein fibr 98.5 1.4E-07 3.1E-12 108.1 8.2 80 110-198 117-196 (678)
52 TIGR01642 U2AF_lg U2 snRNP aux 98.5 1.4E-07 3.1E-12 105.5 8.1 85 110-196 409-500 (509)
53 KOG0127 Nucleolar protein fibr 98.5 1.8E-07 3.9E-12 107.3 8.5 115 112-235 294-425 (678)
54 KOG2068 MOT2 transcription fac 98.5 4.7E-08 1E-12 107.0 3.3 53 7-65 250-302 (327)
55 KOG0117 Heterogeneous nuclear 98.5 1.4E-07 3.1E-12 106.2 6.8 71 111-197 260-330 (506)
56 KOG0132 RNA polymerase II C-te 98.4 6.5E-07 1.4E-11 105.9 8.4 108 96-225 403-514 (894)
57 KOG0147 Transcriptional coacti 98.3 5.1E-07 1.1E-11 103.7 6.2 78 113-198 281-358 (549)
58 KOG0145 RNA-binding protein EL 98.3 1.4E-06 3E-11 93.6 7.9 82 109-198 40-121 (360)
59 KOG4208 Nucleolar RNA-binding 98.3 1.4E-06 3E-11 90.9 7.6 81 109-197 48-129 (214)
60 KOG0144 RNA-binding protein CU 98.3 1E-06 2.2E-11 99.3 6.9 79 113-199 37-118 (510)
61 KOG0124 Polypyrimidine tract-b 98.3 6.9E-07 1.5E-11 99.0 4.8 75 111-193 114-188 (544)
62 KOG0109 RNA-binding protein LA 98.2 9.8E-07 2.1E-11 95.8 5.2 81 110-206 78-158 (346)
63 KOG4661 Hsp27-ERE-TATA-binding 98.2 1.7E-06 3.7E-11 99.7 6.5 76 112-195 407-482 (940)
64 KOG0109 RNA-binding protein LA 98.2 1.3E-06 2.9E-11 94.8 5.1 71 112-198 4-74 (346)
65 KOG0131 Splicing factor 3b, su 98.2 2E-06 4.4E-11 88.6 5.6 88 101-198 89-177 (203)
66 KOG0153 Predicted RNA-binding 98.2 4E-06 8.6E-11 92.7 7.8 78 111-202 229-307 (377)
67 KOG0146 RNA-binding protein ET 98.1 2.1E-06 4.5E-11 92.6 4.9 81 111-199 286-366 (371)
68 KOG0415 Predicted peptidyl pro 98.1 5.6E-06 1.2E-10 91.8 8.0 82 108-197 237-318 (479)
69 KOG0123 Polyadenylate-binding 98.1 6.3E-06 1.4E-10 92.1 8.4 71 113-194 79-149 (369)
70 KOG0533 RRM motif-containing p 98.1 6.9E-06 1.5E-10 87.7 7.9 76 111-195 84-159 (243)
71 KOG0110 RNA-binding protein (R 98.1 9.3E-06 2E-10 95.8 8.9 124 107-238 512-636 (725)
72 KOG0123 Polyadenylate-binding 98.0 1.1E-05 2.4E-10 90.2 7.7 72 112-197 3-74 (369)
73 KOG0151 Predicted splicing reg 98.0 1.1E-05 2.3E-10 95.3 7.4 111 108-223 172-289 (877)
74 KOG4205 RNA-binding protein mu 97.9 6.8E-06 1.5E-10 90.3 3.7 77 110-195 6-82 (311)
75 KOG4660 Protein Mei2, essentia 97.8 1.3E-05 2.8E-10 92.7 3.6 88 97-198 63-150 (549)
76 KOG1548 Transcription elongati 97.7 0.00017 3.6E-09 80.3 9.8 89 102-199 126-222 (382)
77 KOG0124 Polypyrimidine tract-b 97.7 6.6E-05 1.4E-09 83.8 6.7 76 110-193 210-285 (544)
78 KOG0147 Transcriptional coacti 97.7 5.2E-05 1.1E-09 87.7 6.1 75 132-220 472-547 (549)
79 KOG4205 RNA-binding protein mu 97.6 6.2E-05 1.3E-09 82.9 5.4 86 110-204 97-182 (311)
80 KOG2202 U2 snRNP splicing fact 97.5 3.2E-05 6.8E-10 83.0 1.8 79 135-220 91-175 (260)
81 KOG1548 Transcription elongati 97.5 0.00021 4.6E-09 79.5 7.7 62 132-202 295-358 (382)
82 KOG4454 RNA binding protein (R 97.4 4.9E-05 1.1E-09 80.5 1.6 73 112-194 11-83 (267)
83 KOG0106 Alternative splicing f 97.4 9.8E-05 2.1E-09 77.9 3.5 71 112-198 3-73 (216)
84 KOG0110 RNA-binding protein (R 97.3 0.00017 3.6E-09 85.6 4.0 78 111-196 614-691 (725)
85 KOG1190 Polypyrimidine tract-b 97.2 0.0008 1.7E-08 76.3 7.9 106 110-242 297-402 (492)
86 KOG0116 RasGAP SH3 binding pro 97.2 0.00058 1.3E-08 78.0 7.0 90 101-201 281-370 (419)
87 KOG1996 mRNA splicing factor [ 97.1 0.00042 9.2E-09 76.0 4.6 61 131-195 304-364 (378)
88 PF11608 Limkain-b1: Limkain b 97.1 0.0015 3.4E-08 60.9 7.4 71 111-196 3-75 (90)
89 KOG4212 RNA-binding protein hn 97.1 0.00083 1.8E-08 76.7 6.5 72 110-194 536-607 (608)
90 KOG4209 Splicing factor RNPS1, 97.1 0.00096 2.1E-08 70.9 6.7 84 106-198 97-180 (231)
91 KOG0146 RNA-binding protein ET 97.1 0.00096 2.1E-08 72.6 6.3 76 113-197 22-100 (371)
92 PLN02189 cellulose synthase 97.0 0.00033 7.1E-09 86.5 2.5 50 7-61 35-87 (1040)
93 PF05172 Nup35_RRM: Nup53/35/4 97.0 0.00075 1.6E-08 63.9 4.2 76 110-190 6-83 (100)
94 KOG0120 Splicing factor U2AF, 97.0 0.0017 3.7E-08 75.6 7.8 62 131-194 427-488 (500)
95 KOG1995 Conserved Zn-finger pr 97.0 0.00079 1.7E-08 75.2 4.8 98 106-211 62-167 (351)
96 TIGR00570 cdk7 CDK-activating 96.8 0.0021 4.5E-08 71.2 6.4 54 6-65 3-58 (309)
97 KOG4212 RNA-binding protein hn 96.8 0.0032 6.9E-08 72.1 7.6 78 107-193 40-119 (608)
98 KOG1457 RNA binding protein (c 96.7 0.0055 1.2E-07 65.7 8.5 80 111-197 35-117 (284)
99 PF14605 Nup35_RRM_2: Nup53/35 96.7 0.0026 5.7E-08 53.5 4.9 52 111-177 2-53 (53)
100 PF13920 zf-C3HC4_3: Zinc fing 96.6 0.00097 2.1E-08 54.5 1.8 47 5-61 1-48 (50)
101 PLN02436 cellulose synthase A 96.6 0.001 2.2E-08 82.5 2.5 50 7-61 37-89 (1094)
102 PF13639 zf-RING_2: Ring finge 96.6 0.00058 1.3E-08 54.3 0.3 44 7-57 1-44 (44)
103 PF08777 RRM_3: RNA binding mo 96.3 0.008 1.7E-07 56.9 6.1 58 112-183 3-60 (105)
104 cd00162 RING RING-finger (Real 96.3 0.004 8.8E-08 47.1 3.3 45 8-60 1-45 (45)
105 PLN03208 E3 ubiquitin-protein 96.3 0.0039 8.5E-08 65.2 4.0 59 4-66 16-84 (193)
106 KOG2314 Translation initiation 96.2 0.0068 1.5E-07 71.2 6.0 77 110-192 58-138 (698)
107 PHA02929 N1R/p28-like protein; 96.1 0.0054 1.2E-07 65.9 4.1 52 4-61 172-227 (238)
108 KOG4211 Splicing factor hnRNP- 96.1 0.036 7.8E-07 64.5 10.7 111 112-237 12-125 (510)
109 PF04059 RRM_2: RNA recognitio 96.0 0.046 9.9E-07 51.8 9.3 82 110-198 1-87 (97)
110 KOG3152 TBP-binding protein, a 95.8 0.0043 9.3E-08 67.3 2.0 78 109-189 73-157 (278)
111 PLN02248 cellulose synthase-li 95.5 0.012 2.5E-07 73.9 4.4 51 7-63 125-179 (1135)
112 KOG4210 Nuclear localization s 95.5 0.0078 1.7E-07 65.9 2.4 85 112-205 186-274 (285)
113 smart00504 Ubox Modified RING 95.3 0.021 4.6E-07 47.7 3.8 50 6-65 1-50 (63)
114 KOG0120 Splicing factor U2AF, 95.1 0.016 3.5E-07 67.8 3.4 84 105-196 284-367 (500)
115 KOG1456 Heterogeneous nuclear 95.0 0.13 2.9E-06 58.7 10.2 76 110-197 287-362 (494)
116 KOG0106 Alternative splicing f 95.0 0.013 2.9E-07 62.2 2.4 75 102-192 89-165 (216)
117 KOG1190 Polypyrimidine tract-b 95.0 0.028 6.1E-07 64.4 4.9 69 116-196 156-226 (492)
118 KOG2177 Predicted E3 ubiquitin 94.7 0.015 3.3E-07 57.4 1.8 48 4-61 11-58 (386)
119 PLN02195 cellulose synthase A 94.5 0.026 5.5E-07 70.3 3.4 57 1-62 1-60 (977)
120 KOG1365 RNA-binding protein Fu 94.5 0.035 7.6E-07 63.2 4.0 81 101-192 273-356 (508)
121 KOG4285 Mitotic phosphoprotein 94.2 0.075 1.6E-06 59.2 5.8 65 111-191 198-262 (350)
122 PF13923 zf-C3HC4_2: Zinc fing 94.2 0.027 5.8E-07 44.1 1.7 39 9-56 1-39 (39)
123 KOG0226 RNA-binding proteins [ 94.1 0.044 9.5E-07 59.9 3.6 73 113-193 193-265 (290)
124 PF08952 DUF1866: Domain of un 94.1 0.12 2.6E-06 52.5 6.4 52 132-197 55-106 (146)
125 TIGR00599 rad18 DNA repair pro 93.9 0.091 2E-06 60.3 5.9 52 4-65 24-75 (397)
126 KOG0320 Predicted E3 ubiquitin 93.8 0.042 9.1E-07 57.3 2.8 52 6-65 131-182 (187)
127 COG5236 Uncharacterized conser 93.8 0.037 8E-07 62.4 2.6 53 3-65 58-112 (493)
128 PF14634 zf-RING_5: zinc-RING 93.7 0.069 1.5E-06 43.0 3.2 44 8-58 1-44 (44)
129 PF14569 zf-UDP: Zinc-binding 93.5 0.064 1.4E-06 49.6 3.1 53 5-62 8-63 (80)
130 smart00184 RING Ring finger. E 93.5 0.082 1.8E-06 38.5 3.1 39 9-56 1-39 (39)
131 PF05290 Baculo_IE-1: Baculovi 92.7 0.097 2.1E-06 52.6 3.2 57 3-64 77-135 (140)
132 KOG0129 Predicted RNA-binding 92.6 0.2 4.4E-06 58.9 6.2 69 103-179 363-432 (520)
133 KOG2416 Acinus (induces apopto 92.3 0.089 1.9E-06 62.6 2.9 75 109-197 443-521 (718)
134 PLN02915 cellulose synthase A 92.2 0.088 1.9E-06 66.1 2.9 50 7-61 16-68 (1044)
135 PHA02926 zinc finger-like prot 92.2 0.15 3.3E-06 55.0 4.1 57 5-61 169-230 (242)
136 PF00097 zf-C3HC4: Zinc finger 92.1 0.095 2.1E-06 40.8 1.9 41 9-56 1-41 (41)
137 KOG4206 Spliceosomal protein s 92.1 0.39 8.4E-06 51.7 7.0 76 108-196 144-220 (221)
138 KOG0129 Predicted RNA-binding 91.9 0.49 1.1E-05 55.8 8.2 78 112-195 261-340 (520)
139 KOG4211 Splicing factor hnRNP- 91.9 0.35 7.6E-06 56.7 6.9 73 111-193 104-177 (510)
140 PLN02400 cellulose synthase 91.7 0.085 1.8E-06 66.5 1.8 49 8-61 38-89 (1085)
141 KOG4307 RNA binding protein RB 91.7 0.39 8.4E-06 58.3 7.1 75 112-194 869-943 (944)
142 PLN02638 cellulose synthase A 91.6 0.097 2.1E-06 65.9 2.3 50 7-61 18-70 (1079)
143 KOG1457 RNA binding protein (c 91.4 0.17 3.6E-06 54.8 3.5 64 110-185 210-273 (284)
144 PF04641 Rtf2: Rtf2 RING-finge 91.2 0.23 5.1E-06 53.4 4.4 64 4-74 111-174 (260)
145 KOG3002 Zn finger protein [Gen 90.6 0.18 4E-06 56.0 3.0 47 3-61 45-91 (299)
146 KOG0112 Large RNA-binding prot 90.6 0.23 4.9E-06 61.5 3.9 77 107-197 452-530 (975)
147 PF15227 zf-C3HC4_4: zinc fing 90.5 0.2 4.4E-06 40.6 2.4 42 9-56 1-42 (42)
148 KOG1456 Heterogeneous nuclear 89.6 1.3 2.8E-05 51.1 8.5 72 115-199 127-200 (494)
149 PF13445 zf-RING_UBOX: RING-ty 89.6 0.22 4.8E-06 41.0 1.9 43 9-54 1-43 (43)
150 KOG0317 Predicted E3 ubiquitin 88.4 0.4 8.6E-06 53.3 3.4 53 3-65 236-288 (293)
151 KOG1855 Predicted RNA-binding 88.2 0.47 1E-05 55.1 4.0 90 100-193 219-319 (484)
152 KOG0115 RNA-binding protein p5 87.4 0.78 1.7E-05 50.5 4.8 69 104-181 25-93 (275)
153 PF04847 Calcipressin: Calcipr 87.4 0.94 2E-05 47.3 5.3 56 131-197 13-70 (184)
154 PF10309 DUF2414: Protein of u 87.0 1.8 3.8E-05 38.6 6.0 56 108-180 3-62 (62)
155 COG5432 RAD18 RING-finger-cont 85.0 0.41 9E-06 53.4 1.4 45 7-63 26-72 (391)
156 COG5243 HRD1 HRD ubiquitin lig 85.0 0.67 1.4E-05 53.2 2.9 50 5-60 286-344 (491)
157 KOG0802 E3 ubiquitin ligase [P 84.2 0.51 1.1E-05 55.8 1.7 54 4-64 289-344 (543)
158 KOG2164 Predicted E3 ubiquitin 84.1 0.76 1.6E-05 54.4 3.0 48 6-60 186-235 (513)
159 KOG4307 RNA binding protein RB 84.0 0.68 1.5E-05 56.4 2.6 74 111-193 435-509 (944)
160 KOG3800 Predicted E3 ubiquitin 83.6 1.3 2.7E-05 49.6 4.2 53 8-65 2-55 (300)
161 KOG2857 Predicted MYND Zn-fing 83.2 0.54 1.2E-05 47.9 1.2 28 26-62 2-29 (157)
162 PF08675 RNA_bind: RNA binding 82.6 3.5 7.7E-05 39.1 6.1 56 110-181 8-63 (87)
163 PF04564 U-box: U-box domain; 81.5 0.96 2.1E-05 40.1 2.0 52 5-65 3-54 (73)
164 COG5574 PEX10 RING-finger-cont 81.3 1 2.2E-05 49.8 2.4 47 4-58 213-259 (271)
165 KOG1365 RNA-binding protein Fu 80.4 4.2 9.1E-05 47.2 6.9 69 113-191 164-236 (508)
166 KOG0311 Predicted E3 ubiquitin 79.7 0.43 9.3E-06 54.3 -1.0 50 5-62 42-91 (381)
167 PF10650 zf-C3H1: Putative zin 79.5 1 2.2E-05 33.4 1.2 20 199-218 2-21 (23)
168 KOG2135 Proteins containing th 79.5 0.93 2E-05 53.3 1.5 54 131-196 391-444 (526)
169 PF11767 SET_assoc: Histone ly 79.0 2.9 6.3E-05 37.6 4.1 29 163-191 36-64 (66)
170 PF12861 zf-Apc11: Anaphase-pr 78.7 2.6 5.5E-05 39.8 3.8 54 5-61 20-82 (85)
171 KOG4676 Splicing factor, argin 77.7 2.2 4.8E-05 49.4 3.8 74 112-191 9-82 (479)
172 PF03467 Smg4_UPF3: Smg-4/UPF3 76.8 4 8.6E-05 42.2 5.0 70 110-185 7-80 (176)
173 KOG0128 RNA-binding protein SA 76.2 1.1 2.5E-05 55.4 1.1 78 109-195 735-812 (881)
174 KOG2193 IGF-II mRNA-binding pr 76.2 2.9 6.3E-05 48.9 4.2 76 111-200 2-78 (584)
175 PF12678 zf-rbx1: RING-H2 zinc 75.5 2.4 5.3E-05 37.9 2.7 47 5-57 18-73 (73)
176 KOG4265 Predicted E3 ubiquitin 73.0 1.8 3.9E-05 49.4 1.5 50 4-62 288-337 (349)
177 PF07191 zinc-ribbons_6: zinc- 72.2 0.56 1.2E-05 42.7 -2.1 42 6-62 1-42 (70)
178 KOG2591 c-Mpl binding protein, 71.9 5.4 0.00012 48.1 5.1 84 104-205 168-256 (684)
179 KOG2923 Uncharacterized conser 71.8 1.7 3.8E-05 39.2 0.9 33 21-58 20-52 (67)
180 KOG0823 Predicted E3 ubiquitin 70.5 3 6.5E-05 45.4 2.5 57 3-66 44-100 (230)
181 KOG0112 Large RNA-binding prot 69.0 1.2 2.6E-05 55.6 -0.9 77 111-196 373-449 (975)
182 KOG1941 Acetylcholine receptor 68.9 1.9 4.2E-05 49.9 0.7 51 4-58 363-413 (518)
183 PHA02825 LAP/PHD finger-like p 68.1 4 8.7E-05 42.5 2.6 49 4-62 6-60 (162)
184 KOG0287 Postreplication repair 65.8 2.2 4.7E-05 48.8 0.3 51 5-65 22-72 (442)
185 PF15023 DUF4523: Protein of u 65.3 23 0.0005 36.9 7.3 71 111-195 87-159 (166)
186 KOG0128 RNA-binding protein SA 65.3 0.93 2E-05 56.2 -2.8 69 110-186 667-735 (881)
187 KOG0297 TNF receptor-associate 64.6 4.8 0.0001 46.3 2.7 51 4-63 19-69 (391)
188 PF14608 zf-CCCH_2: Zinc finge 61.5 5.1 0.00011 28.1 1.4 16 200-218 2-18 (19)
189 PF08274 PhnA_Zn_Ribbon: PhnA 61.0 3.2 7E-05 32.4 0.4 26 7-32 3-29 (30)
190 COG5222 Uncharacterized conser 59.1 15 0.00032 41.9 5.1 43 7-58 275-318 (427)
191 COG5216 Uncharacterized conser 57.8 3.4 7.3E-05 37.1 0.0 34 20-58 18-52 (67)
192 KOG4172 Predicted E3 ubiquitin 56.6 3.4 7.4E-05 36.7 -0.1 47 6-61 7-54 (62)
193 COG5220 TFB3 Cdk activating ki 56.5 4.2 9E-05 44.9 0.4 51 6-61 10-64 (314)
194 PF11793 FANCL_C: FANCL C-term 53.6 6.6 0.00014 35.1 1.2 53 6-61 2-66 (70)
195 KOG2879 Predicted E3 ubiquitin 51.4 13 0.00027 41.9 3.0 51 4-61 237-287 (298)
196 KOG1812 Predicted E3 ubiquitin 50.5 10 0.00022 43.8 2.3 57 6-63 146-205 (384)
197 KOG4574 RNA-binding protein (c 50.2 9.3 0.0002 48.0 2.0 82 101-197 290-373 (1007)
198 KOG4849 mRNA cleavage factor I 48.5 16 0.00035 42.3 3.3 74 110-189 80-153 (498)
199 smart00356 ZnF_C3H1 zinc finge 47.8 16 0.00034 26.0 2.1 23 197-220 4-27 (27)
200 COG5183 SSM4 Protein involved 45.7 13 0.00029 46.7 2.3 55 4-65 10-70 (1175)
201 KOG4210 Nuclear localization s 44.3 24 0.00053 39.3 3.9 109 111-233 89-203 (285)
202 KOG0804 Cytoplasmic Zn-finger 43.7 12 0.00026 44.4 1.5 23 5-27 174-196 (493)
203 KOG2193 IGF-II mRNA-binding pr 43.3 1.3 2.9E-05 51.6 -6.0 71 113-195 83-154 (584)
204 PF01485 IBR: IBR domain; Int 43.0 14 0.00031 30.6 1.5 35 4-38 16-56 (64)
205 COG0068 HypF Hydrogenase matur 42.9 5 0.00011 49.6 -1.7 52 6-62 101-163 (750)
206 KOG4185 Predicted E3 ubiquitin 42.7 19 0.00042 39.0 2.8 49 7-60 4-54 (296)
207 KOG3039 Uncharacterized conser 42.1 18 0.00039 40.3 2.5 51 7-67 222-276 (303)
208 PF02318 FYVE_2: FYVE-type zin 41.9 14 0.0003 35.8 1.4 49 5-58 53-102 (118)
209 PF06827 zf-FPG_IleRS: Zinc fi 41.3 3.8 8.2E-05 30.9 -2.0 28 31-58 2-29 (30)
210 KOG1729 FYVE finger containing 41.0 5.8 0.00013 44.4 -1.4 60 2-62 164-226 (288)
211 KOG0826 Predicted E3 ubiquitin 40.1 15 0.00033 42.1 1.6 44 5-60 299-345 (357)
212 PF00642 zf-CCCH: Zinc finger 38.8 9.4 0.0002 28.4 -0.2 24 196-219 2-26 (27)
213 KOG0824 Predicted E3 ubiquitin 38.8 23 0.00049 40.4 2.6 49 6-63 7-55 (324)
214 COG5219 Uncharacterized conser 37.4 14 0.0003 47.2 0.8 50 4-60 1467-1522(1525)
215 KOG4628 Predicted E3 ubiquitin 36.7 24 0.00052 40.7 2.5 48 8-62 231-279 (348)
216 PF03880 DbpA: DbpA RNA bindin 35.3 70 0.0015 28.5 4.7 59 120-195 11-74 (74)
217 PRK11595 DNA utilization prote 32.7 35 0.00077 36.2 2.8 40 7-61 6-45 (227)
218 PF12773 DZR: Double zinc ribb 32.7 40 0.00086 27.6 2.5 42 9-63 1-42 (50)
219 KOG1815 Predicted E3 ubiquitin 32.5 64 0.0014 37.8 5.0 66 3-71 67-136 (444)
220 KOG1785 Tyrosine kinase negati 32.4 20 0.00043 42.2 0.9 46 7-60 370-415 (563)
221 KOG3161 Predicted E3 ubiquitin 32.4 22 0.00048 43.9 1.4 48 7-65 12-59 (861)
222 PRK04023 DNA polymerase II lar 32.3 46 0.00099 43.2 4.0 56 5-75 625-686 (1121)
223 KOG1492 C3H1-type Zn-finger pr 30.9 19 0.00042 39.4 0.6 27 198-225 262-288 (377)
224 PF07576 BRAP2: BRCA1-associat 30.5 2.6E+02 0.0056 27.6 8.0 66 111-186 13-80 (110)
225 KOG0825 PHD Zn-finger protein 29.4 15 0.00032 46.1 -0.6 55 1-62 118-172 (1134)
226 KOG4159 Predicted E3 ubiquitin 29.2 35 0.00075 40.0 2.2 48 6-63 84-131 (398)
227 TIGR00416 sms DNA repair prote 29.1 25 0.00055 41.3 1.1 24 21-58 5-29 (454)
228 smart00744 RINGv The RING-vari 28.5 59 0.0013 27.5 2.9 46 8-57 1-49 (49)
229 KOG2891 Surface glycoprotein [ 28.1 24 0.00052 39.9 0.7 90 110-201 149-271 (445)
230 KOG0978 E3 ubiquitin ligase in 27.7 34 0.00074 42.7 1.9 50 7-65 644-693 (698)
231 PF04423 Rad50_zn_hook: Rad50 27.6 30 0.00065 29.2 1.0 17 49-65 19-35 (54)
232 PF05605 zf-Di19: Drought indu 27.3 32 0.00069 29.1 1.1 39 6-59 2-40 (54)
233 PHA02862 5L protein; Provision 27.1 47 0.001 34.6 2.4 48 7-61 3-53 (156)
234 PF12861 zf-Apc11: Anaphase-pr 27.0 38 0.00082 32.3 1.7 29 30-67 21-49 (85)
235 PF10571 UPF0547: Uncharacteri 26.8 41 0.00089 25.5 1.5 21 8-31 2-23 (26)
236 KOG0804 Cytoplasmic Zn-finger 26.1 1.6E+02 0.0035 35.5 6.7 66 110-185 74-140 (493)
237 smart00064 FYVE Protein presen 26.0 50 0.0011 28.5 2.1 41 1-41 5-45 (68)
238 KOG4213 RNA-binding protein La 25.6 55 0.0012 35.3 2.7 64 107-181 108-171 (205)
239 PF11781 RRN7: RNA polymerase 25.4 37 0.0008 27.4 1.1 26 7-32 9-35 (36)
240 KOG1842 FYVE finger-containing 24.8 26 0.00057 41.7 0.3 40 2-41 176-215 (505)
241 PRK11823 DNA repair protein Ra 24.5 37 0.00081 39.7 1.4 24 21-58 5-29 (446)
242 KOG0105 Alternative splicing f 24.4 1.7E+02 0.0038 31.9 6.0 61 110-185 115-175 (241)
243 COG5178 PRP8 U5 snRNP spliceos 24.3 41 0.00089 44.1 1.7 18 777-794 13-33 (2365)
244 PF08747 DUF1788: Domain of un 24.1 42 0.00091 33.5 1.5 15 974-988 97-112 (126)
245 PF12773 DZR: Double zinc ribb 24.1 65 0.0014 26.4 2.4 29 3-31 9-38 (50)
246 PRK03681 hypA hydrogenase nick 23.0 40 0.00086 32.9 1.0 20 8-27 72-91 (114)
247 PF12677 DUF3797: Domain of un 22.7 36 0.00078 29.7 0.6 26 7-32 14-48 (49)
248 KOG1493 Anaphase-promoting com 21.6 73 0.0016 30.3 2.4 54 6-60 20-80 (84)
249 smart00647 IBR In Between Ring 21.4 53 0.0012 27.3 1.4 34 5-38 17-56 (64)
250 PF03833 PolC_DP2: DNA polymer 20.1 35 0.00075 43.4 0.0 41 7-60 656-702 (900)
No 1
>COG5175 MOT2 Transcriptional repressor [Transcription]
Probab=100.00 E-value=4.2e-80 Score=656.12 Aligned_cols=237 Identities=45% Similarity=0.912 Sum_probs=212.1
Q ss_pred CcccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhcccchhHHHHHHH--
Q 001894 2 SDEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERLVAEI-- 79 (999)
Q Consensus 2 sDd~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i~~~~~~~eel~a~~-- 79 (999)
|+|+|+.||||||+||+||++|+||+||||||+||||+|+ ++++||||||||.|+|+++.|..+++||+..++
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 5667777999999999999999999999999999999996 479999999999999999999999999997766
Q ss_pred HHHHHhhhhhcccCCccccccccccccccccCEEEEeCCCCCCChHH---HhhhhhhhcCCCceEEEEEeecCCCccccc
Q 001894 80 SMERKMKSQKSKTKSSEGKKQQLSSVRVIQRNLVYIVGLPLNLGDED---LLQRREYFGQYGKVLKVSMSRTAAGVIQQF 156 (999)
Q Consensus 80 ~~~kKqK~qk~K~k~se~RK~~LanVRVIQRNLVYVvGLp~~IAdED---LLRk~EyFGQYGKI~KIvInrdk~T~~qq~ 156 (999)
+.++|++++++|+.+-.+|| ||+++||||||||||+||++++++|+ +|+++|||||||+|.||+|++...... .
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 33556566666666778999 99999999999999999999999999 899999999999999999998764321 1
Q ss_pred CCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEcCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhc
Q 001894 157 PNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAY 236 (999)
Q Consensus 157 p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASFGTTKYCssFLRn~~C~NpdCmYLHE~g~~~DsfTKeem~~~~ 236 (999)
....+++||||.++|||++||++|||+.+|||.|||+|||||||++||||++|.||+||||||.|++.|+|||+||....
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 12347899999999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred ccccccccCc
Q 001894 237 TRVQQITGTT 246 (999)
Q Consensus 237 tr~~~~~g~~ 246 (999)
+..+..++..
T Consensus 242 h~~~~s~~~n 251 (480)
T COG5175 242 HKLHGSEVRN 251 (480)
T ss_pred hhcccccccc
Confidence 7755554433
No 2
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=100.00 E-value=7.9e-61 Score=510.44 Aligned_cols=304 Identities=43% Similarity=0.691 Sum_probs=263.3
Q ss_pred CCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhcccchhHHHHHHHHHHHHhhhhhcccCCcccccccccccccc
Q 001894 29 GYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERLVAEISMERKMKSQKSKTKSSEGKKQQLSSVRVI 108 (999)
Q Consensus 29 GYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i~~~~~~~eel~a~~~~~kKqK~qk~K~k~se~RK~~LanVRVI 108 (999)
|||||+||||||++++++ +|||||||++|++++|+++...+++++++++++|| |+++.|.+..++|+ ||.++|||
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 799999999999987755 79999999999999999999999999988877766 88999999999999 89999999
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
|||+|||+||+..+++|++|++.+||||||+|.||++++++... ...+.+.++||||+++|||.+||+.++|+.++||
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 2335567899999999999999999999999999
Q ss_pred EEEEEEcCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhcccccccccCccccccccCCCCCCCCCcccccC
Q 001894 189 SLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTRVQQITGTTNNLQRRSGNVLPPPFDDYCHIN 268 (999)
Q Consensus 189 vLRASFGTTKYCssFLRn~~C~NpdCmYLHE~g~~~DsfTKeem~~~~tr~~~~~g~~~~~Qr~sg~~lPpP~~~~~~~~ 268 (999)
.|+|+|||||||++||++.+|.|++||||||+|+++|+||||||+.++++.++.+++++.++|..+.++|+|++.+...
T Consensus 154 ~lka~~gttkycs~~l~~~~c~~~~cmylhe~~~~~Ds~~k~e~~~~~~~~~~~~~~~n~~~~~~~~~~p~~l~~~~~~- 232 (327)
T KOG2068|consen 154 ALKASLGTTKYCSFYLRNDICQNPDCMYLHEIGDQEDSFTKDEMKSAKHRESSRKQTSNIARRSDDKLRPQPLPNLEKQ- 232 (327)
T ss_pred hhHHhhCCCcchhHHhhhhcccCccccccccccccccccchHHHHHHhhhhhcccccccceeccCcccCCCcccccccc-
Confidence 9999999999999999999999999999999999999999999999999988888888889999899999999877665
Q ss_pred CccCCCCccccCCCCccccCCCCCCCCC---CCCCCCCCCcCccccccccCCCc-ccc-cCCCCCCCCCCCCCCCccccc
Q 001894 269 SVSTAKPSVKNAANNTASISKDPIPNGS---SARSVALPAAASWGMRASNQQSV-ATS-ACSNGPSKQRPDTVGGALAFS 343 (999)
Q Consensus 269 ~~ss~~p~~k~~~~n~~~~~r~~pp~~s---~~~~~ALPssAsWa~r~s~~~~~-~~~-~~~~~~~~~~~~~~~~~~~~s 343 (999)
.+ .|..+...+..+.+....||-.+ ..++.+||.+++|++ +.+. +|. ...+.....+.+...++.+|+
T Consensus 233 --~s-~p~~~~~~~~~~~v~~s~p~~~~~~~~~d~~~lP~~~~~~~----~l~~~~t~~~~~~~~~~~rk~~~~~t~~s~ 305 (327)
T KOG2068|consen 233 --RS-APDAQLDFSSVTSVPPSCPICYEDLDLTDSNFLPCPCGFRL----CLFCHKTISDGDGRCPGCRKPYERNTKKSE 305 (327)
T ss_pred --cC-CcccccCCccccccCCCCCCCCCcccccccccccccccccc----hhhhhhcccccCCCCCccCCccccCccccc
Confidence 22 67766555555566777676666 679999999999994 4432 443 444455555666777777777
Q ss_pred cccc
Q 001894 344 SAVA 347 (999)
Q Consensus 344 s~v~ 347 (999)
+.+-
T Consensus 306 ~~~~ 309 (327)
T KOG2068|consen 306 TSVQ 309 (327)
T ss_pred cccc
Confidence 7666
No 3
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=99.83 E-value=1.6e-21 Score=160.34 Aligned_cols=48 Identities=56% Similarity=1.481 Sum_probs=30.3
Q ss_pred CCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 9 CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
||+|+|+||+||++|+||+||||||+||||+|+ ++++|+||+||++|+
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=3e-13 Score=131.54 Aligned_cols=89 Identities=19% Similarity=0.355 Sum_probs=76.8
Q ss_pred ccccccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001894 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (999)
Q Consensus 101 ~LanVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaL 180 (999)
.+..+|-... .|||.||++.+++++|. ++|.+||+|.+|.|.++..+.. ..++|||+|.+.|+|++||+.|
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 4444555554 59999999999888884 9999999999999999887652 4568999999999999999999
Q ss_pred CCCccCCeEEEEEEcCCC
Q 001894 181 HGFVLEGKSLKACFGTTK 198 (999)
Q Consensus 181 NGs~LDGRvLRASFGTTK 198 (999)
||..|+||.|+|.+++.|
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=99.45 E-value=2.8e-13 Score=143.24 Aligned_cols=80 Identities=23% Similarity=0.398 Sum_probs=72.6
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.|||+|||+.+++++|. ++|++||.|..|.|.++..++. .+++|||+|.+.++|.+||++|||..++||.|+
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 59999999999877774 9999999999999999986652 467899999999999999999999999999999
Q ss_pred EEEcCCCc
Q 001894 192 ACFGTTKY 199 (999)
Q Consensus 192 ASFGTTKY 199 (999)
|+|.+.|-
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=99.42 E-value=4.9e-13 Score=109.26 Aligned_cols=70 Identities=21% Similarity=0.603 Sum_probs=62.8
Q ss_pred EEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 113 VYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
|||.|||+.+++++|. ++|++||+|..|.|..+.. + ...+.|||+|.+.++|.+|++.+||..++|+.||
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---DFFSQFGKIESIKVMRNSS-G-----KSKGYAFVEFESEEDAEKALEELNGKKINGRKIR 70 (70)
T ss_dssp EEEESETTTSSHHHHH---HHHHTTSTEEEEEEEEETT-S-----SEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred cEEcCCCCcCCHHHHH---HHHHHhhhccccccccccc-c-----cccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence 7999999999999985 8999999999999998722 2 2456899999999999999999999999999997
No 7
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=99.38 E-value=1.5e-12 Score=137.79 Aligned_cols=110 Identities=17% Similarity=0.354 Sum_probs=86.9
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
++.|||+|||++++++||. ++|++||+|..|.|.+++.++. ..++|||+|.+.|||.+||+.|||..+.|+.
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 6889999999999999984 9999999999999999877642 4568999999999999999999999999999
Q ss_pred EEEEEcCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhccc
Q 001894 190 LKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTR 238 (999)
Q Consensus 190 LRASFGTTKYCssFLRn~~C~NpdCmYLHE~g~~~DsfTKeem~~~~tr 238 (999)
|+|.|+..+. .-+ ....+|+.-+. ..+|.+||......
T Consensus 75 i~v~~a~~~~--~~~------~~~~l~v~~l~---~~~~~~~l~~~f~~ 112 (352)
T TIGR01661 75 IKVSYARPSS--DSI------KGANLYVSGLP---KTMTQHELESIFSP 112 (352)
T ss_pred EEEEeecccc--ccc------ccceEEECCcc---ccCCHHHHHHHHhc
Confidence 9999986432 111 12235554443 34577777766443
No 8
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=99.25 E-value=1.8e-11 Score=116.10 Aligned_cols=82 Identities=18% Similarity=0.503 Sum_probs=71.8
Q ss_pred ccccccc--cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001894 103 SSVRVIQ--RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (999)
Q Consensus 103 anVRVIQ--RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaL 180 (999)
.+.|+-| .-++||.|||.+|+.|++ +|+||+||.|..|.|..++.| +|.|||.|++.+||.+|++.|
T Consensus 9 ~~~rlppevnriLyirNLp~~ITseem---ydlFGkyg~IrQIRiG~~k~T--------rGTAFVVYedi~dAk~A~dhl 77 (124)
T KOG0114|consen 9 QNIRLPPEVNRILYIRNLPFKITSEEM---YDLFGKYGTIRQIRIGNTKET--------RGTAFVVYEDIFDAKKACDHL 77 (124)
T ss_pred CCCCCChhhheeEEEecCCccccHHHH---HHHhhcccceEEEEecCccCc--------CceEEEEehHhhhHHHHHHHh
Confidence 3445444 357999999999999999 599999999999999887765 368999999999999999999
Q ss_pred CCCccCCeEEEEEEc
Q 001894 181 HGFVLEGKSLKACFG 195 (999)
Q Consensus 181 NGs~LDGRvLRASFG 195 (999)
.|+.+++|.|.|-|=
T Consensus 78 sg~n~~~ryl~vlyy 92 (124)
T KOG0114|consen 78 SGYNVDNRYLVVLYY 92 (124)
T ss_pred cccccCCceEEEEec
Confidence 999999999999873
No 9
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=99.24 E-value=3e-11 Score=100.79 Aligned_cols=70 Identities=30% Similarity=0.595 Sum_probs=61.4
Q ss_pred EEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 113 VYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
|||.|||+.+++++|. ++|.+||.|.+|.+.+++. + ..++.|||+|.+.++|.+|++..+|..++||.|+
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 7999999999998885 8999999999999998765 2 2456899999999999999999999999999986
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=99.21 E-value=3.9e-11 Score=131.59 Aligned_cols=113 Identities=16% Similarity=0.305 Sum_probs=86.9
Q ss_pred ccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001894 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (999)
Q Consensus 107 VIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD 186 (999)
......|||.+||+.+++++|. ++|.+||+|++|.|.++..+.. ..++|||+|.++|+|.+||+.|||..+.
T Consensus 104 ~~~~~~LfVgnLp~~~te~~L~---~lF~~~G~V~~v~i~~d~~tg~-----srGyaFVeF~~~e~A~~Ai~~LnG~~l~ 175 (346)
T TIGR01659 104 NNSGTNLIVNYLPQDMTDRELY---ALFRTIGPINTCRIMRDYKTGY-----SFGYAFVDFGSEADSQRAIKNLNGITVR 175 (346)
T ss_pred CCCCcEEEEeCCCCCCCHHHHH---HHHHhcCCEEEEEEEecCCCCc-----cCcEEEEEEccHHHHHHHHHHcCCCccC
Confidence 3356789999999999988874 9999999999999999877653 3568999999999999999999999999
Q ss_pred CeEEEEEEcCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhccc
Q 001894 187 GKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTR 238 (999)
Q Consensus 187 GRvLRASFGTTKYCssFLRn~~C~NpdCmYLHE~g~~~DsfTKeem~~~~tr 238 (999)
|+.|+|.|++..... ....-+|+--+ ...+|.|||......
T Consensus 176 gr~i~V~~a~p~~~~--------~~~~~lfV~nL---p~~vtee~L~~~F~~ 216 (346)
T TIGR01659 176 NKRLKVSYARPGGES--------IKDTNLYVTNL---PRTITDDQLDTIFGK 216 (346)
T ss_pred Cceeeeecccccccc--------cccceeEEeCC---CCcccHHHHHHHHHh
Confidence 999999998653211 01112333322 345678888776543
No 11
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.19 E-value=3.9e-11 Score=127.98 Aligned_cols=76 Identities=18% Similarity=0.446 Sum_probs=67.4
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
....|||+||+.-+++ |+| ++.|.+||.|.+|+|-+++ ++|||.|+++|.|.+||..|||..+.|.
T Consensus 163 ~NtsVY~G~I~~~lte-~~m--r~~Fs~fG~I~EVRvFk~q-----------GYaFVrF~tkEaAahAIv~mNntei~G~ 228 (321)
T KOG0148|consen 163 DNTSVYVGNIASGLTE-DLM--RQTFSPFGPIQEVRVFKDQ-----------GYAFVRFETKEAAAHAIVQMNNTEIGGQ 228 (321)
T ss_pred CCceEEeCCcCccccH-HHH--HHhcccCCcceEEEEeccc-----------ceEEEEecchhhHHHHHHHhcCceeCce
Confidence 3578999999998865 555 4899999999999998873 4789999999999999999999999999
Q ss_pred EEEEEEcCCC
Q 001894 189 SLKACFGTTK 198 (999)
Q Consensus 189 vLRASFGTTK 198 (999)
++||+||++-
T Consensus 229 ~VkCsWGKe~ 238 (321)
T KOG0148|consen 229 LVRCSWGKEG 238 (321)
T ss_pred EEEEeccccC
Confidence 9999999763
No 12
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=99.17 E-value=1.6e-11 Score=127.99 Aligned_cols=83 Identities=16% Similarity=0.320 Sum_probs=74.2
Q ss_pred ccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001894 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (999)
Q Consensus 107 VIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD 186 (999)
-.||+++||+||...++ |.+| +..|-.||.|++|.|+.|.++.. .++++||+|...|||..||..||+++|.
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 35789999999999984 5666 68999999999999999987643 4568999999999999999999999999
Q ss_pred CeEEEEEEcCC
Q 001894 187 GKSLKACFGTT 197 (999)
Q Consensus 187 GRvLRASFGTT 197 (999)
||+|||.|+..
T Consensus 79 GrtirVN~AkP 89 (298)
T KOG0111|consen 79 GRTIRVNLAKP 89 (298)
T ss_pred ceeEEEeecCC
Confidence 99999999976
No 13
>smart00362 RRM_2 RNA recognition motif.
Probab=99.16 E-value=1.6e-10 Score=91.85 Aligned_cols=72 Identities=25% Similarity=0.577 Sum_probs=63.5
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.|||.|||..++.++|. ++|.+||+|..|.+..+. . ...+.|||+|.+.++|.+|++.++|..+.|+.|+
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 38999999999998984 899999999999998765 1 1345799999999999999999999999999998
Q ss_pred EE
Q 001894 192 AC 193 (999)
Q Consensus 192 AS 193 (999)
|.
T Consensus 71 v~ 72 (72)
T smart00362 71 VE 72 (72)
T ss_pred eC
Confidence 73
No 14
>PLN03120 nucleic acid binding protein; Provisional
Probab=99.14 E-value=1.4e-10 Score=123.66 Aligned_cols=76 Identities=18% Similarity=0.321 Sum_probs=67.4
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
..+.|||+||++.+++++| +++|++||+|.+|.|.++.. .+++|||||.++++|..||. |||..|+||
T Consensus 3 ~~rtVfVgNLs~~tTE~dL---refFS~~G~I~~V~I~~d~~--------~~GfAFVtF~d~eaAe~All-LnG~~l~gr 70 (260)
T PLN03120 3 QVRTVKVSNVSLKATERDI---KEFFSFSGDIEYVEMQSENE--------RSQIAYVTFKDPQGAETALL-LSGATIVDQ 70 (260)
T ss_pred CCCEEEEeCCCCCCCHHHH---HHHHHhcCCeEEEEEeecCC--------CCCEEEEEeCcHHHHHHHHH-hcCCeeCCc
Confidence 3468999999999998888 49999999999999998753 24589999999999999995 999999999
Q ss_pred EEEEEEcC
Q 001894 189 SLKACFGT 196 (999)
Q Consensus 189 vLRASFGT 196 (999)
.|+|....
T Consensus 71 ~V~Vt~a~ 78 (260)
T PLN03120 71 SVTITPAE 78 (260)
T ss_pred eEEEEecc
Confidence 99999853
No 15
>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=99.14 E-value=1.6e-10 Score=126.90 Aligned_cols=83 Identities=23% Similarity=0.494 Sum_probs=72.8
Q ss_pred cccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 108 IQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
++...|||.|||+.+++|+| +++|++||+|++|.|.+++.+.. ++++|||+|.+.|+|++||+.|||..++|
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 IKDTNLYVTNLPRTITDDQL---DTIFGKYGQIVQKNILRDKLTGT-----PRGVAFVRFNKREEAQEAISALNNVIPEG 262 (346)
T ss_pred cccceeEEeCCCCcccHHHH---HHHHHhcCCEEEEEEeecCCCCc-----cceEEEEEECCHHHHHHHHHHhCCCccCC
Confidence 34567999999999998887 38999999999999999876642 45689999999999999999999999977
Q ss_pred --eEEEEEEcCCC
Q 001894 188 --KSLKACFGTTK 198 (999)
Q Consensus 188 --RvLRASFGTTK 198 (999)
+.|+|.++..+
T Consensus 263 ~~~~l~V~~a~~~ 275 (346)
T TIGR01659 263 GSQPLTVRLAEEH 275 (346)
T ss_pred CceeEEEEECCcc
Confidence 78999998775
No 16
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=99.14 E-value=1.7e-10 Score=110.31 Aligned_cols=80 Identities=26% Similarity=0.483 Sum_probs=72.6
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
...|||+|||+.+++++|. ++|.+||.|..|.|..++.++. ..++|||+|.+.++|..||..++|..+.||.
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 5999999999999999985 9999999999999999875542 4568999999999999999999999999999
Q ss_pred EEEEEcCC
Q 001894 190 LKACFGTT 197 (999)
Q Consensus 190 LRASFGTT 197 (999)
|+|.+.+-
T Consensus 187 ~~v~~~~~ 194 (306)
T COG0724 187 LRVQKAQP 194 (306)
T ss_pred eEeecccc
Confidence 99999764
No 17
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=99.12 E-value=3.5e-10 Score=90.32 Aligned_cols=74 Identities=27% Similarity=0.552 Sum_probs=65.8
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.|||.|||+.++++++. ++|.+||.|.++.+..+..+. +.+.|||+|.+.++|..|++.++|..++|+.|.
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 38999999999988885 899999999999999876541 356899999999999999999999999999999
Q ss_pred EEE
Q 001894 192 ACF 194 (999)
Q Consensus 192 ASF 194 (999)
|.|
T Consensus 72 v~~ 74 (74)
T cd00590 72 VEF 74 (74)
T ss_pred EeC
Confidence 875
No 18
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=99.12 E-value=1e-10 Score=118.74 Aligned_cols=80 Identities=16% Similarity=0.301 Sum_probs=71.8
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
...|||+||+.+.++.|| ...|+.||+|-+|.|.+. +.++|||+|++..||++|+.+|||..|+|..
T Consensus 10 ~~kVYVGnL~~~a~k~eL---E~~F~~yG~lrsvWvArn----------PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r 76 (195)
T KOG0107|consen 10 NTKVYVGNLGSRATKREL---ERAFSKYGPLRSVWVARN----------PPGFAFVEFEDPRDAEDAVRYLDGKDICGSR 76 (195)
T ss_pred CceEEeccCCCCcchHHH---HHHHHhcCcceeEEEeec----------CCCceEEeccCcccHHHHHhhcCCccccCce
Confidence 456999999999999998 489999999999999874 2358999999999999999999999999999
Q ss_pred EEEEEcCCCcccc
Q 001894 190 LKACFGTTKYCHA 202 (999)
Q Consensus 190 LRASFGTTKYCss 202 (999)
|+|.+.+-++--.
T Consensus 77 ~rVE~S~G~~r~~ 89 (195)
T KOG0107|consen 77 IRVELSTGRPRGS 89 (195)
T ss_pred EEEEeecCCcccc
Confidence 9999998887633
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=99.12 E-value=1.8e-10 Score=134.48 Aligned_cols=81 Identities=22% Similarity=0.384 Sum_probs=72.8
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
.+.|||+||++.+.+++|. ++|++||+|++|.|.+++.++. .+++|||+|.+.++|.+||..|||+.++|+.
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 3679999999999888874 8999999999999999877642 4568999999999999999999999999999
Q ss_pred EEEEEcCCC
Q 001894 190 LKACFGTTK 198 (999)
Q Consensus 190 LRASFGTTK 198 (999)
|||.++.++
T Consensus 276 LrV~kAi~p 284 (612)
T TIGR01645 276 LRVGKCVTP 284 (612)
T ss_pred EEEEecCCC
Confidence 999998865
No 20
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=99.12 E-value=2e-10 Score=133.97 Aligned_cols=78 Identities=21% Similarity=0.396 Sum_probs=69.7
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
..|||+||++.+++++| +++|.+||.|.+|.|.+++.++. +.++|||+|.+.|+|.+||+.|||..++||.|
T Consensus 108 ~rLfVGnLp~~~tEe~L---r~lF~~fG~I~sV~I~~D~~Tgk-----skGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~I 179 (612)
T TIGR01645 108 CRVYVGSISFELREDTI---RRAFDPFGPIKSINMSWDPATGK-----HKGFAFVEYEVPEAAQLALEQMNGQMLGGRNI 179 (612)
T ss_pred CEEEEcCCCCCCCHHHH---HHHHHccCCEEEEEEeecCCCCC-----cCCeEEEEeCcHHHHHHHHHhcCCeEEeccee
Confidence 46999999999988887 48999999999999999987653 45689999999999999999999999999999
Q ss_pred EEEEcC
Q 001894 191 KACFGT 196 (999)
Q Consensus 191 RASFGT 196 (999)
+|.+..
T Consensus 180 kV~rp~ 185 (612)
T TIGR01645 180 KVGRPS 185 (612)
T ss_pred eecccc
Confidence 998543
No 21
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=99.12 E-value=6.6e-11 Score=124.19 Aligned_cols=77 Identities=18% Similarity=0.383 Sum_probs=67.0
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
-..|||+||+|+..+|+| ++||.|||+|++.+|..|+.+++ +.+++||||.+.|.|.+|.+.-+ -.||||.
T Consensus 12 ~TKifVggL~w~T~~~~l---~~yFeqfGeI~eavvitd~~t~r-----skGyGfVTf~d~~aa~rAc~dp~-piIdGR~ 82 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETL---RRYFEQFGEIVEAVVITDKNTGR-----SKGYGFVTFRDAEAATRACKDPN-PIIDGRK 82 (247)
T ss_pred EEEEEEcCcccccchHHH---HHHHHHhCceEEEEEEeccCCcc-----ccceeeEEeecHHHHHHHhcCCC-Ccccccc
Confidence 457999999999988887 48999999999999999998875 34567999999999999999765 5799999
Q ss_pred EEEEEc
Q 001894 190 LKACFG 195 (999)
Q Consensus 190 LRASFG 195 (999)
-.|.++
T Consensus 83 aNcnlA 88 (247)
T KOG0149|consen 83 ANCNLA 88 (247)
T ss_pred cccchh
Confidence 988764
No 22
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=99.12 E-value=1.1e-10 Score=121.59 Aligned_cols=88 Identities=20% Similarity=0.414 Sum_probs=77.1
Q ss_pred cccccC-EEEEeCCCCCCChHHHhhh-hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCC
Q 001894 106 RVIQRN-LVYIVGLPLNLGDEDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF 183 (999)
Q Consensus 106 RVIQRN-LVYVvGLp~~IAdEDLLRk-~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs 183 (999)
+.+-.| ++||-+|+.+|..++|.|. +.+|+|||+|++|++.+... -+|.|||.|.+.+.|..|+.+|+|+
T Consensus 4 ~~~~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~K--------mRGQA~VvFk~~~~As~A~r~l~gf 75 (221)
T KOG4206|consen 4 MSVNPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTPK--------MRGQAFVVFKETEAASAALRALQGF 75 (221)
T ss_pred cccCCCceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCCC--------ccCceEEEecChhHHHHHHHHhcCC
Confidence 344455 9999999999998888765 89999999999999987643 3568999999999999999999999
Q ss_pred ccCCeEEEEEEcCCCccc
Q 001894 184 VLEGKSLKACFGTTKYCH 201 (999)
Q Consensus 184 ~LDGRvLRASFGTTKYCs 201 (999)
.+-|+++|++|+.+|-|-
T Consensus 76 pFygK~mriqyA~s~sdi 93 (221)
T KOG4206|consen 76 PFYGKPMRIQYAKSDSDI 93 (221)
T ss_pred cccCchhheecccCccch
Confidence 999999999999887663
No 23
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=99.11 E-value=1.2e-10 Score=126.68 Aligned_cols=80 Identities=26% Similarity=0.475 Sum_probs=71.4
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
.-+.+||.|||.++.+.|| +.+|+|||+|++|.|..+..+ +.|++||||++.+||++|-++|||+.++||
T Consensus 95 ~pkRLhVSNIPFrFRdpDL---~aMF~kfG~VldVEIIfNERG-------SKGFGFVTmen~~dadRARa~LHgt~VEGR 164 (376)
T KOG0125|consen 95 TPKRLHVSNIPFRFRDPDL---RAMFEKFGKVLDVEIIFNERG-------SKGFGFVTMENPADADRARAELHGTVVEGR 164 (376)
T ss_pred CCceeEeecCCccccCccH---HHHHHhhCceeeEEEEeccCC-------CCccceEEecChhhHHHHHHHhhcceeece
Confidence 3456899999999999998 489999999999999876433 234679999999999999999999999999
Q ss_pred EEEEEEcCCC
Q 001894 189 SLKACFGTTK 198 (999)
Q Consensus 189 vLRASFGTTK 198 (999)
+|.|.-+|.+
T Consensus 165 kIEVn~ATar 174 (376)
T KOG0125|consen 165 KIEVNNATAR 174 (376)
T ss_pred EEEEeccchh
Confidence 9999999988
No 24
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=99.09 E-value=2.7e-10 Score=120.22 Aligned_cols=82 Identities=18% Similarity=0.436 Sum_probs=75.6
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
-.+.|-|.||+....++|| .|+|.+||.|.+|.|.+++.|+. .+|+|||+|.+.|||++||..|||+-+|.-
T Consensus 188 D~~tvRvtNLsed~~E~dL---~eLf~~fg~i~rvylardK~TG~-----~kGFAFVtF~sRddA~rAI~~LnG~gyd~L 259 (270)
T KOG0122|consen 188 DEATVRVTNLSEDMREDDL---EELFRPFGPITRVYLARDKETGL-----SKGFAFVTFESRDDAARAIADLNGYGYDNL 259 (270)
T ss_pred ccceeEEecCccccChhHH---HHHhhccCccceeEEEEccccCc-----ccceEEEEEecHHHHHHHHHHccCcccceE
Confidence 5678999999999999898 49999999999999999999874 467899999999999999999999999999
Q ss_pred EEEEEEcCCC
Q 001894 189 SLKACFGTTK 198 (999)
Q Consensus 189 vLRASFGTTK 198 (999)
+|||.|.+.+
T Consensus 260 ILrvEwskP~ 269 (270)
T KOG0122|consen 260 ILRVEWSKPS 269 (270)
T ss_pred EEEEEecCCC
Confidence 9999999865
No 25
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=99.09 E-value=3.1e-10 Score=129.13 Aligned_cols=82 Identities=27% Similarity=0.408 Sum_probs=72.2
Q ss_pred cccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 108 IQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
.+...|||.||++.+++++|. ++|++||.|++|.|.++..+ ..+++|||+|.+.|+|.+||..|||..++|
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 345679999999999988884 89999999999999998432 245689999999999999999999999999
Q ss_pred eEEEEEEcCCC
Q 001894 188 KSLKACFGTTK 198 (999)
Q Consensus 188 RvLRASFGTTK 198 (999)
|.|+|.|+..|
T Consensus 354 k~l~V~~a~~k 364 (562)
T TIGR01628 354 KPLYVALAQRK 364 (562)
T ss_pred ceeEEEeccCc
Confidence 99999998765
No 26
>smart00360 RRM RNA recognition motif.
Probab=99.09 E-value=3.6e-10 Score=89.28 Aligned_cols=71 Identities=25% Similarity=0.521 Sum_probs=62.2
Q ss_pred EeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEE
Q 001894 115 IVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKAC 193 (999)
Q Consensus 115 VvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRAS 193 (999)
|.|||..+++++|. ++|.+||.|..|.|.+++.+. ...+.|||+|.+.++|.+||..++|..++|+.|+|.
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 57999999998985 899999999999998876533 245689999999999999999999999999999874
No 27
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=99.08 E-value=5.3e-10 Score=124.56 Aligned_cols=83 Identities=17% Similarity=0.294 Sum_probs=73.0
Q ss_pred cccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 108 IQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
-..+.|||+|||+.+++++|. ++|.+||.|..|.|.++..++. ..++|||+|.+.++|..||+.|||..++|
T Consensus 293 ~~~~~l~v~nlp~~~~~~~l~---~~f~~~G~i~~~~~~~~~~~g~-----~~g~afv~f~~~~~a~~A~~~l~g~~~~~ 364 (509)
T TIGR01642 293 DSKDRIYIGNLPLYLGEDQIK---ELLESFGDLKAFNLIKDIATGL-----SKGYAFCEYKDPSVTDVAIAALNGKDTGD 364 (509)
T ss_pred CCCCEEEEeCCCCCCCHHHHH---HHHHhcCCeeEEEEEecCCCCC-----cCeEEEEEECCHHHHHHHHHHcCCCEECC
Confidence 345789999999999888874 9999999999999998876542 45689999999999999999999999999
Q ss_pred eEEEEEEcCCC
Q 001894 188 KSLKACFGTTK 198 (999)
Q Consensus 188 RvLRASFGTTK 198 (999)
+.|+|.|+...
T Consensus 365 ~~l~v~~a~~~ 375 (509)
T TIGR01642 365 NKLHVQRACVG 375 (509)
T ss_pred eEEEEEECccC
Confidence 99999998543
No 28
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=99.08 E-value=3.6e-10 Score=124.50 Aligned_cols=79 Identities=22% Similarity=0.435 Sum_probs=71.5
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
...|||+|||..+++++|. ++|++||.|.+|.|.++..++. ..++|||+|.+.++|.+||..|||..+.|+.
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 8999999999999999876642 3568999999999999999999999999999
Q ss_pred EEEEEcC
Q 001894 190 LKACFGT 196 (999)
Q Consensus 190 LRASFGT 196 (999)
|+|.|++
T Consensus 258 i~v~~a~ 264 (457)
T TIGR01622 258 IKVGYAQ 264 (457)
T ss_pred EEEEEcc
Confidence 9999987
No 29
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=99.07 E-value=1.1e-10 Score=121.02 Aligned_cols=82 Identities=21% Similarity=0.385 Sum_probs=72.3
Q ss_pred ccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001894 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (999)
Q Consensus 107 VIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD 186 (999)
|--...|-|-||++.++-++| +..|.+||+|-+|.|++|+.|. ...+||||.|..+.||++|+++|||.+||
T Consensus 10 v~gm~SLkVdNLTyRTspd~L---rrvFekYG~vgDVyIPrdr~Tr-----~sRgFaFVrf~~k~daedA~damDG~~ld 81 (256)
T KOG4207|consen 10 VEGMTSLKVDNLTYRTSPDDL---RRVFEKYGRVGDVYIPRDRYTR-----QSRGFAFVRFHDKRDAEDALDAMDGAVLD 81 (256)
T ss_pred cccceeEEecceeccCCHHHH---HHHHHHhCcccceecccccccc-----cccceeEEEeeecchHHHHHHhhcceeec
Confidence 334456889999999988887 4799999999999999998876 35678999999999999999999999999
Q ss_pred CeEEEEEEcC
Q 001894 187 GKSLKACFGT 196 (999)
Q Consensus 187 GRvLRASFGT 196 (999)
||.|+|+++.
T Consensus 82 gRelrVq~ar 91 (256)
T KOG4207|consen 82 GRELRVQMAR 91 (256)
T ss_pred cceeeehhhh
Confidence 9999998753
No 30
>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=4.5e-10 Score=91.51 Aligned_cols=55 Identities=20% Similarity=0.518 Sum_probs=49.1
Q ss_pred hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEc
Q 001894 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFG 195 (999)
Q Consensus 131 ~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASFG 195 (999)
+++|++||+|.+|.+.++. ++.|||+|.+.++|.+|++.+||..++|+.|+|+|+
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 4899999999999997653 257999999999999999999999999999999985
No 31
>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=4.8e-10 Score=127.55 Aligned_cols=110 Identities=15% Similarity=0.343 Sum_probs=85.1
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.|||++||+.+++++|. ++|++||.|.+|.|.++..++. ..++|||+|.+.+||++||..+|+..+.||.||
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 59999999999988884 9999999999999999987653 456899999999999999999999999999999
Q ss_pred EEEcCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhccc
Q 001894 192 ACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTR 238 (999)
Q Consensus 192 ASFGTTKYCssFLRn~~C~NpdCmYLHE~g~~~DsfTKeem~~~~tr 238 (999)
+.|....- -+ ........|+.-+. ...|.++|.....+
T Consensus 74 i~~s~~~~---~~---~~~~~~~vfV~nLp---~~~~~~~L~~~F~~ 111 (562)
T TIGR01628 74 IMWSQRDP---SL---RRSGVGNIFVKNLD---KSVDNKALFDTFSK 111 (562)
T ss_pred eecccccc---cc---cccCCCceEEcCCC---ccCCHHHHHHHHHh
Confidence 99864321 11 11122345555443 45677777766544
No 32
>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=99.02 E-value=1.7e-09 Score=119.24 Aligned_cols=117 Identities=19% Similarity=0.292 Sum_probs=88.7
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
...|||+|||+.+++++|. ++|++||+|..|.|.+++.++. ..++|||+|.+.++|.+||. ++|..+.|+.
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 4579999999999999984 9999999999999999876642 45789999999999999996 8999999999
Q ss_pred EEEEEcCCCccccc--c--CCCCCCCCCCcccccCCCCCCCccHHHHHhhccc
Q 001894 190 LKACFGTTKYCHAW--L--RNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTR 238 (999)
Q Consensus 190 LRASFGTTKYCssF--L--Rn~~C~NpdCmYLHE~g~~~DsfTKeem~~~~tr 238 (999)
|++.+...+.-..- . ......+..++|+.-+. ...|.++|......
T Consensus 160 i~v~~~~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~---~~~te~~l~~~f~~ 209 (457)
T TIGR01622 160 IIVQSSQAEKNRAAKAATHQPGDIPNFLKLYVGNLH---FNITEQELRQIFEP 209 (457)
T ss_pred eEEeecchhhhhhhhcccccCCCCCCCCEEEEcCCC---CCCCHHHHHHHHHh
Confidence 99987643221110 0 01112234667776665 45788888776543
No 33
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=99.02 E-value=8.6e-10 Score=117.47 Aligned_cols=81 Identities=26% Similarity=0.424 Sum_probs=72.8
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
-..+||.+|.++. +|.+| +++||+||.|..|.|.+|..|.. ++| ++|||+.+.+||.-||.+|||+.+.+|+
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 69999999999999999987742 555 5799999999999999999999999999
Q ss_pred EEEEEcCCC
Q 001894 190 LKACFGTTK 198 (999)
Q Consensus 190 LRASFGTTK 198 (999)
|.|+|.|.|
T Consensus 350 LQVsFKtnk 358 (360)
T KOG0145|consen 350 LQVSFKTNK 358 (360)
T ss_pred EEEEEecCC
Confidence 999999987
No 34
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=99.01 E-value=4.8e-10 Score=109.71 Aligned_cols=78 Identities=15% Similarity=0.327 Sum_probs=71.4
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
+-++|||+||+.-+++|.| +|+|++.|.|.+|+|..++-+. + +.+++||.|...+||+.|++.++|+.||.|
T Consensus 35 ~S~tvyVgNlSfyttEEqi---yELFs~cG~irriiMGLdr~kk---t--pCGFCFVeyy~~~dA~~AlryisgtrLddr 106 (153)
T KOG0121|consen 35 KSCTVYVGNLSFYTTEEQI---YELFSKCGDIRRIIMGLDRFKK---T--PCGFCFVEYYSRDDAEDALRYISGTRLDDR 106 (153)
T ss_pred hcceEEEeeeeeeecHHHH---HHHHHhccchheeEeccccCCc---C--ccceEEEEEecchhHHHHHHHhccCccccc
Confidence 5789999999999999998 5999999999999999887664 2 568899999999999999999999999999
Q ss_pred EEEEEE
Q 001894 189 SLKACF 194 (999)
Q Consensus 189 vLRASF 194 (999)
+||+.|
T Consensus 107 ~ir~D~ 112 (153)
T KOG0121|consen 107 PIRIDW 112 (153)
T ss_pred ceeeec
Confidence 999975
No 35
>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=123.57 Aligned_cols=76 Identities=21% Similarity=0.366 Sum_probs=66.7
Q ss_pred ccCEEEEeCCCC-CCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 109 QRNLVYIVGLPL-NLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 109 QRNLVYVvGLp~-~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
....|||.||++ .+++++| +++|++||.|.+|.|.+++ +++|||+|.+.++|.+||+.|||..++|
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 PGSVLMVSGLHQEKVNCDRL---FNLFCVYGNVERVKFMKNK----------KETALIEMADPYQAQLALTHLNGVKLFG 340 (481)
T ss_pred CCCEEEEeCCCCCCCCHHHH---HHHHHhcCCeEEEEEEeCC----------CCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence 346899999998 6877666 4999999999999998762 3579999999999999999999999999
Q ss_pred eEEEEEEcCC
Q 001894 188 KSLKACFGTT 197 (999)
Q Consensus 188 RvLRASFGTT 197 (999)
+.|+|+|...
T Consensus 341 ~~l~v~~s~~ 350 (481)
T TIGR01649 341 KPLRVCPSKQ 350 (481)
T ss_pred ceEEEEEccc
Confidence 9999998644
No 36
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.00 E-value=5.2e-10 Score=119.54 Aligned_cols=80 Identities=23% Similarity=0.397 Sum_probs=73.2
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
-|||+-|.+.|..|+| +|-|.+||+|.+.+|.||..|.. ..+++||.|-+++||++||+.|||.+|++|.||
T Consensus 64 hvfvgdls~eI~~e~l---r~aF~pFGevS~akvirD~~T~K-----sKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IR 135 (321)
T KOG0148|consen 64 HVFVGDLSPEIDNEKL---REAFAPFGEVSDAKVIRDMNTGK-----SKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIR 135 (321)
T ss_pred eEEehhcchhcchHHH---HHHhccccccccceEeecccCCc-----ccceeEEeccchHHHHHHHHHhCCeeeccceee
Confidence 4999999999988777 49999999999999999988753 345689999999999999999999999999999
Q ss_pred EEEcCCCc
Q 001894 192 ACFGTTKY 199 (999)
Q Consensus 192 ASFGTTKY 199 (999)
-.|+|-|-
T Consensus 136 TNWATRKp 143 (321)
T KOG0148|consen 136 TNWATRKP 143 (321)
T ss_pred ccccccCc
Confidence 99999987
No 37
>KOG0126 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.98 E-value=1.4e-10 Score=118.45 Aligned_cols=76 Identities=21% Similarity=0.525 Sum_probs=70.5
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
--|||+|||+.+++.||| -.|+|||+|++|.+.+|+.|+. +.||||..|+++.....|+..+||..|.||.|
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 358999999999999999 7999999999999999999874 45689999999999999999999999999999
Q ss_pred EEEE
Q 001894 191 KACF 194 (999)
Q Consensus 191 RASF 194 (999)
||..
T Consensus 108 rVDH 111 (219)
T KOG0126|consen 108 RVDH 111 (219)
T ss_pred Eeee
Confidence 9983
No 38
>PLN03213 repressor of silencing 3; Provisional
Probab=98.96 E-value=1.1e-09 Score=123.59 Aligned_cols=78 Identities=26% Similarity=0.374 Sum_probs=69.2
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCH--HHHHHHHHHhCCCccCCe
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKE--EEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~--EDA~rAIqaLNGs~LDGR 188 (999)
-.|||+||++.++++||. ..|++||.|.+|.|+++ ++ ++||||+|... +++.+||..|||..+.||
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 358999999999999984 89999999999999944 22 46899999987 789999999999999999
Q ss_pred EEEEEEcCCCcc
Q 001894 189 SLKACFGTTKYC 200 (999)
Q Consensus 189 vLRASFGTTKYC 200 (999)
.|||.-+..+|=
T Consensus 79 ~LKVNKAKP~YL 90 (759)
T PLN03213 79 RLRLEKAKEHYL 90 (759)
T ss_pred eeEEeeccHHHH
Confidence 999999987764
No 39
>smart00361 RRM_1 RNA recognition motif.
Probab=98.92 E-value=3e-09 Score=91.19 Aligned_cols=59 Identities=29% Similarity=0.509 Sum_probs=47.8
Q ss_pred hhhc----CCCceEEEE-EeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEE
Q 001894 132 EYFG----QYGKVLKVS-MSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKAC 193 (999)
Q Consensus 132 EyFG----QYGKI~KIv-Inrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRAS 193 (999)
++|. +||+|.+|. |..++.+. .+.+.++|||+|.+.+||.+||..|||..++||.|+|+
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 01345789999999999999999999999999999974
No 40
>PLN03121 nucleic acid binding protein; Provisional
Probab=98.90 E-value=3.9e-09 Score=111.69 Aligned_cols=74 Identities=14% Similarity=0.287 Sum_probs=65.7
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
.+|||+||++++++++| +|+|++||+|.+|.|.++..+ +++|||+|.++++|..|| .|+|..|.|+.|
T Consensus 6 ~TV~V~NLS~~tTE~dL---refFS~~G~I~~V~I~~D~et--------~gfAfVtF~d~~aaetAl-lLnGa~l~d~~I 73 (243)
T PLN03121 6 YTAEVTNLSPKATEKDV---YDFFSHCGAIEHVEIIRSGEY--------ACTAYVTFKDAYALETAV-LLSGATIVDQRV 73 (243)
T ss_pred eEEEEecCCCCCCHHHH---HHHHHhcCCeEEEEEecCCCc--------ceEEEEEECCHHHHHHHH-hcCCCeeCCceE
Confidence 47999999999999888 599999999999999988543 358999999999999999 699999999999
Q ss_pred EEEEcC
Q 001894 191 KACFGT 196 (999)
Q Consensus 191 RASFGT 196 (999)
.+.-..
T Consensus 74 ~It~~~ 79 (243)
T PLN03121 74 CITRWG 79 (243)
T ss_pred EEEeCc
Confidence 988544
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=98.89 E-value=3.3e-09 Score=123.54 Aligned_cols=102 Identities=18% Similarity=0.471 Sum_probs=81.7
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC-C
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE-G 187 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD-G 187 (999)
+...|||++||+.+++++|. ++|.+||+|.+|.|++| .++ ..+++|||+|.+.|+|.+||+.|||..+. |
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---PLFEKAGPIYELRLMMD-FSG-----QNRGYAFVTFCGKEEAKEAVKLLNNYEIRPG 127 (578)
T ss_pred CCCEEEeCCCCCCCCHHHHH---HHHHhhCCEEEEEEEEC-CCC-----CccceEEEEeCCHHHHHHHHHHcCCCeecCC
Confidence 34789999999999888884 99999999999999998 433 24568999999999999999999999984 8
Q ss_pred eEEEEEEcCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhc
Q 001894 188 KSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAY 236 (999)
Q Consensus 188 RvLRASFGTTKYCssFLRn~~C~NpdCmYLHE~g~~~DsfTKeem~~~~ 236 (999)
|.|.+..... -|.-|++|.+ ...|++||....
T Consensus 128 r~l~V~~S~~-~~rLFVgNLP----------------~~~TeeeL~eeF 159 (578)
T TIGR01648 128 RLLGVCISVD-NCRLFVGGIP----------------KNKKREEILEEF 159 (578)
T ss_pred cccccccccc-CceeEeecCC----------------cchhhHHHHHHh
Confidence 9998876643 3556666543 345777776653
No 42
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=98.89 E-value=2.3e-09 Score=110.15 Aligned_cols=85 Identities=15% Similarity=0.371 Sum_probs=72.6
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
-.+||+|||..|.+.|| .++|-|||+|..|.+...+. +-.+|||.|++..||++||..-||..+||-.|
T Consensus 7 ~~iyvGNLP~diRekei---eDlFyKyg~i~~ieLK~r~g--------~ppfafVeFEd~RDAeDAiygRdGYdydg~rL 75 (241)
T KOG0105|consen 7 RRIYVGNLPGDIREKEI---EDLFYKYGRIREIELKNRPG--------PPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRL 75 (241)
T ss_pred ceEEecCCCcchhhccH---HHHHhhhcceEEEEeccCCC--------CCCeeEEEecCccchhhhhhcccccccCcceE
Confidence 35899999999999999 49999999999999865432 23589999999999999999999999999999
Q ss_pred EEEEcCCCccccccCC
Q 001894 191 KACFGTTKYCHAWLRN 206 (999)
Q Consensus 191 RASFGTTKYCssFLRn 206 (999)
||.|..+-.-++.-++
T Consensus 76 RVEfprggr~s~~~~G 91 (241)
T KOG0105|consen 76 RVEFPRGGRSSSDRRG 91 (241)
T ss_pred EEEeccCCCccccccc
Confidence 9999987665544444
No 43
>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=4.5e-09 Score=122.40 Aligned_cols=77 Identities=21% Similarity=0.429 Sum_probs=67.2
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCC--CceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQY--GKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQY--GKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
..|||.||++.+++|+|. ++|++| |+|.+|.+.+ .+|||+|.+.|+|.+||++|||..|+||
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 579999999999887774 899999 9999998753 3699999999999999999999999999
Q ss_pred EEEEEEcCCCccccc
Q 001894 189 SLKACFGTTKYCHAW 203 (999)
Q Consensus 189 vLRASFGTTKYCssF 203 (999)
.|+|+|++.+--..+
T Consensus 298 ~I~V~~Akp~~~~~~ 312 (578)
T TIGR01648 298 EIEVTLAKPVDKKSY 312 (578)
T ss_pred EEEEEEccCCCcccc
Confidence 999999976543333
No 44
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.82 E-value=9.2e-09 Score=115.55 Aligned_cols=107 Identities=21% Similarity=0.465 Sum_probs=90.4
Q ss_pred ccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc-
Q 001894 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL- 185 (999)
Q Consensus 107 VIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~L- 185 (999)
--+-.-|||++||..+-++||. .+|++-|+|-++++++|+..+ ..+++|||||.++|+|.+||+.+|+.+|
T Consensus 80 p~~G~EVfvGkIPrD~~EdeLv---plfEkiG~I~elRLMmD~~sG-----~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir 151 (506)
T KOG0117|consen 80 PPRGCEVFVGKIPRDVFEDELV---PLFEKIGKIYELRLMMDPFSG-----DNRGYAFVTFCTKEEAQEAIKELNNYEIR 151 (506)
T ss_pred CCCCceEEecCCCccccchhhH---HHHHhccceeeEEEeecccCC-----CCcceEEEEeecHHHHHHHHHHhhCcccc
Confidence 3667789999999999888885 899999999999999997765 2567899999999999999999999988
Q ss_pred CCeEEEEEEcCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhccc
Q 001894 186 EGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTR 238 (999)
Q Consensus 186 DGRvLRASFGTTKYCssFLRn~~C~NpdCmYLHE~g~~~DsfTKeem~~~~tr 238 (999)
-||.|+|+...++ |--|+.|++= .-|||||.....+
T Consensus 152 ~GK~igvc~Svan-~RLFiG~IPK----------------~k~keeIlee~~k 187 (506)
T KOG0117|consen 152 PGKLLGVCVSVAN-CRLFIGNIPK----------------TKKKEEILEEMKK 187 (506)
T ss_pred CCCEeEEEEeeec-ceeEeccCCc----------------cccHHHHHHHHHh
Confidence 7999999977665 7778888773 3467888766444
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=98.78 E-value=1.7e-08 Score=114.27 Aligned_cols=79 Identities=23% Similarity=0.394 Sum_probs=67.8
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCc--eEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGK--VLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGK--I~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
...|||.|||..+++|+| .++|.+||. |.+|+|...... ++++|||+|.+.++|.+||..|||..|+|
T Consensus 394 s~~L~v~NLp~~~tee~L---~~lF~~~G~~~i~~ik~~~~~~~-------~~~~gfVeF~~~e~A~~Al~~ln~~~l~~ 463 (481)
T TIGR01649 394 SATLHLSNIPLSVSEEDL---KELFAENGVHKVKKFKFFPKDNE-------RSKMGLLEWESVEDAVEALIALNHHQLNE 463 (481)
T ss_pred CcEEEEecCCCCCCHHHH---HHHHHhcCCccceEEEEecCCCC-------cceeEEEEcCCHHHHHHHHHHhcCCccCC
Confidence 357999999999988887 399999998 888888644321 24579999999999999999999999999
Q ss_pred eE------EEEEEcCCC
Q 001894 188 KS------LKACFGTTK 198 (999)
Q Consensus 188 Rv------LRASFGTTK 198 (999)
+. ||++|++++
T Consensus 464 ~~~~~~~~lkv~fs~~~ 480 (481)
T TIGR01649 464 PNGSAPYHLKVSFSTSR 480 (481)
T ss_pred CCCCccceEEEEeccCC
Confidence 95 999999886
No 46
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=98.76 E-value=1.4e-08 Score=114.92 Aligned_cols=79 Identities=22% Similarity=0.392 Sum_probs=73.6
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
..|||+|||+.+.+|+|+ ++|+++|.|..+.++.|+.++. .++++|++|.+.|+|++||+.+||..+.||.|
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 9999999999999999998874 56789999999999999999999999999999
Q ss_pred EEEEcCC
Q 001894 191 KACFGTT 197 (999)
Q Consensus 191 RASFGTT 197 (999)
||.|...
T Consensus 91 ~v~~~~~ 97 (435)
T KOG0108|consen 91 RVNYASN 97 (435)
T ss_pred Eeecccc
Confidence 9999854
No 47
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.75 E-value=8.9e-09 Score=105.44 Aligned_cols=81 Identities=20% Similarity=0.289 Sum_probs=72.2
Q ss_pred cccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 108 IQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
-|.++|||+||++++++ ++| +|+|.|-|.|+.|.|++++.+.. ..+++||.|.++|||.-||+-||+..|.|
T Consensus 7 nqd~tiyvgnld~kvs~-~~l--~EL~iqagpVv~i~iPkDrv~~~-----~qGygF~Ef~~eedadYAikiln~VkLYg 78 (203)
T KOG0131|consen 7 NQDATLYVGNLDEKVSE-ELL--YELFIQAGPVVNLHIPKDRVTQK-----HQGYGFAEFRTEEDADYAIKILNMVKLYG 78 (203)
T ss_pred CCCceEEEecCCHHHHH-HHH--HHHHHhcCceeeeecchhhhccc-----ccceeEEEEechhhhHHHHHHHHHHHhcC
Confidence 47789999999999964 555 69999999999999999998752 34578999999999999999999999999
Q ss_pred eEEEEEEcC
Q 001894 188 KSLKACFGT 196 (999)
Q Consensus 188 RvLRASFGT 196 (999)
|+|||.-++
T Consensus 79 rpIrv~kas 87 (203)
T KOG0131|consen 79 RPIRVNKAS 87 (203)
T ss_pred ceeEEEecc
Confidence 999999887
No 48
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=98.73 E-value=3e-08 Score=107.36 Aligned_cols=88 Identities=16% Similarity=0.399 Sum_probs=76.0
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
--++||.-|++.+.+..| .++|..||+|.+|.|++++.|+. +.++|||.|+++.|...|-+..+|..||||.
T Consensus 101 y~TLFv~RLnydT~EskL---rreF~~YG~IkrirlV~d~vTgk-----skGYAFIeye~erdm~~AYK~adG~~Idgrr 172 (335)
T KOG0113|consen 101 YKTLFVARLNYDTSESKL---RREFEKYGPIKRIRLVRDKVTGK-----SKGYAFIEYEHERDMKAAYKDADGIKIDGRR 172 (335)
T ss_pred cceeeeeeccccccHHHH---HHHHHhcCcceeEEEeeecccCC-----ccceEEEEeccHHHHHHHHHhccCceecCcE
Confidence 357999999999865555 48999999999999999988863 5678999999999999999999999999999
Q ss_pred EEEEEcCCCccccccC
Q 001894 190 LKACFGTTKYCHAWLR 205 (999)
Q Consensus 190 LRASFGTTKYCssFLR 205 (999)
|-|.|-..+---.||-
T Consensus 173 i~VDvERgRTvkgW~P 188 (335)
T KOG0113|consen 173 ILVDVERGRTVKGWLP 188 (335)
T ss_pred EEEEeccccccccccc
Confidence 9999876666666653
No 49
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=98.62 E-value=5e-08 Score=96.61 Aligned_cols=84 Identities=17% Similarity=0.354 Sum_probs=75.7
Q ss_pred cccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCC
Q 001894 104 SVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF 183 (999)
Q Consensus 104 nVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs 183 (999)
-.|-|--..|||.|+-+..++|++ ++.|+.||+|+.|-++.|+.|+. -.++|.|.|++.++|..||.++||.
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 346677789999999999999998 59999999999999999988763 3468999999999999999999999
Q ss_pred ccCCeEEEEEEc
Q 001894 184 VLEGKSLKACFG 195 (999)
Q Consensus 184 ~LDGRvLRASFG 195 (999)
.|-|..|.|.|.
T Consensus 138 ~ll~q~v~VDw~ 149 (170)
T KOG0130|consen 138 ELLGQNVSVDWC 149 (170)
T ss_pred hhhCCceeEEEE
Confidence 999999999985
No 50
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.59 E-value=3.4e-08 Score=110.80 Aligned_cols=85 Identities=22% Similarity=0.486 Sum_probs=74.3
Q ss_pred cccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCc-
Q 001894 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV- 184 (999)
Q Consensus 106 RVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~- 184 (999)
|++-...+||+-|+.+.+++|+ +|+|.+||.|.+|.|.++.... .+++|||+|+.+|-|..||++|||..
T Consensus 120 r~~~e~KLFvg~lsK~~te~ev---r~iFs~fG~Ied~~ilrd~~~~------sRGcaFV~fstke~A~~Aika~ng~~t 190 (510)
T KOG0144|consen 120 RIVEERKLFVGMLSKQCTENEV---REIFSRFGHIEDCYILRDPDGL------SRGCAFVKFSTKEMAVAAIKALNGTQT 190 (510)
T ss_pred ccccchhhhhhhccccccHHHH---HHHHHhhCccchhhheeccccc------ccceeEEEEehHHHHHHHHHhhcccee
Confidence 6677888999999999999998 5999999999999999987543 45679999999999999999999975
Q ss_pred cCC--eEEEEEEcCCCc
Q 001894 185 LEG--KSLKACFGTTKY 199 (999)
Q Consensus 185 LDG--RvLRASFGTTKY 199 (999)
+.| .+|-|-|+-||.
T Consensus 191 meGcs~PLVVkFADtqk 207 (510)
T KOG0144|consen 191 MEGCSQPLVVKFADTQK 207 (510)
T ss_pred eccCCCceEEEecccCC
Confidence 666 589999998864
No 51
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.55 E-value=1.4e-07 Score=108.08 Aligned_cols=80 Identities=19% Similarity=0.454 Sum_probs=70.9
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
+..+.|.|||+.+.+++|- -+|++||+|..|+|++...+.- .|+|||+|....+|..||..+||..|+||.
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 5567788899999888873 7999999999999998776641 368999999999999999999999999999
Q ss_pred EEEEEcCCC
Q 001894 190 LKACFGTTK 198 (999)
Q Consensus 190 LRASFGTTK 198 (999)
|-|.|+..|
T Consensus 188 VAVDWAV~K 196 (678)
T KOG0127|consen 188 VAVDWAVDK 196 (678)
T ss_pred eEEeeeccc
Confidence 999999876
No 52
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=98.55 E-value=1.4e-07 Score=105.46 Aligned_cols=85 Identities=18% Similarity=0.373 Sum_probs=61.6
Q ss_pred cCEEEEeCCCCC--CC-h---HHHhhh-hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCC
Q 001894 110 RNLVYIVGLPLN--LG-D---EDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHG 182 (999)
Q Consensus 110 RNLVYVvGLp~~--IA-d---EDLLRk-~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNG 182 (999)
...|+|.||... +. + ++++.. .+.|++||+|++|+|.+...... .. ...|+|||+|.+.++|.+||.+|||
T Consensus 409 s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~-~~-~~~G~~fV~F~~~e~A~~A~~~lnG 486 (509)
T TIGR01642 409 TKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRN-ST-PGVGKVFLEYADVRSAEKAMEGMNG 486 (509)
T ss_pred ceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCC-cC-CCcceEEEEECCHHHHHHHHHHcCC
Confidence 355788887532 11 1 122111 48999999999999987532211 01 1235799999999999999999999
Q ss_pred CccCCeEEEEEEcC
Q 001894 183 FVLEGKSLKACFGT 196 (999)
Q Consensus 183 s~LDGRvLRASFGT 196 (999)
..++||.|.|.|-.
T Consensus 487 r~~~gr~v~~~~~~ 500 (509)
T TIGR01642 487 RKFNDRVVVAAFYG 500 (509)
T ss_pred CEECCeEEEEEEeC
Confidence 99999999999854
No 53
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=98.53 E-value=1.8e-07 Score=107.31 Aligned_cols=115 Identities=22% Similarity=0.438 Sum_probs=91.8
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh-----CC-Ccc
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV-----HG-FVL 185 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaL-----NG-s~L 185 (999)
+|||.|||+..++|+| .+.|.|||+|.-+.|..++.|.+ +.|.|||-|.++++|..||.+. +| ..|
T Consensus 294 tVFvRNL~fD~tEEel---~~~fskFG~v~ya~iV~~k~T~~-----skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll 365 (678)
T KOG0127|consen 294 TVFVRNLPFDTTEEEL---KEHFSKFGEVKYAIIVKDKDTGH-----SKGTAFVKFKTQIAAQNCIEAASPASEDGSVLL 365 (678)
T ss_pred eEEEecCCccccHHHH---HHHHHhhccceeEEEEeccCCCC-----cccceEEEeccHHHHHHHHHhcCccCCCceEEE
Confidence 8999999999988887 49999999999999999998863 4568999999999999999998 45 679
Q ss_pred CCeEEEEEEcCCCcccccc-----CCCCCCCCCCcccccCCCC------CCCccHHHHHhh
Q 001894 186 EGKSLKACFGTTKYCHAWL-----RNVPCTNPDCLYLHEVGSQ------EDSFTKDEIISA 235 (999)
Q Consensus 186 DGRvLRASFGTTKYCssFL-----Rn~~C~NpdCmYLHE~g~~------~DsfTKeem~~~ 235 (999)
+||.|+|..+.||--..=| +-++-. +--+||---|-- .+.++.+||.-.
T Consensus 366 ~GR~Lkv~~Av~RkeA~dmeqkk~~Kk~~g-krNLyLa~EG~I~~gt~aAeglS~~Dm~kR 425 (678)
T KOG0127|consen 366 DGRLLKVTLAVTRKEAADMEQKKKRKKPKG-KRNLYLAREGLIRDGTPAAEGLSATDMAKR 425 (678)
T ss_pred eccEEeeeeccchHHHHHHHHHhhhhccCC-ccceeeeccCccccCChhhcccchhhHHHH
Confidence 9999999999998776655 222222 235777665532 456888888643
No 54
>KOG2068 consensus MOT2 transcription factor [Transcription]
Probab=98.52 E-value=4.7e-08 Score=106.98 Aligned_cols=53 Identities=45% Similarity=1.297 Sum_probs=48.9
Q ss_pred CCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
..||+|.|++|.+|.+|.||+||+++|+||+..|.+ -+++||+||++|...+.
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 689999999999999999999999999999999974 68999999999976654
No 55
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=98.51 E-value=1.4e-07 Score=106.24 Aligned_cols=71 Identities=23% Similarity=0.544 Sum_probs=63.6
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
..+||.||+..+++|- | .+.|.+||+|.+|+..+| +|||-|...+||.+|++.+||..|+|..|
T Consensus 260 KvLYVRNL~~~tTeE~-l--k~~F~~~G~veRVkk~rD-------------YaFVHf~eR~davkAm~~~ngkeldG~~i 323 (506)
T KOG0117|consen 260 KVLYVRNLMESTTEET-L--KKLFNEFGKVERVKKPRD-------------YAFVHFAEREDAVKAMKETNGKELDGSPI 323 (506)
T ss_pred eeeeeeccchhhhHHH-H--HHHHHhccceEEeecccc-------------eeEEeecchHHHHHHHHHhcCceecCceE
Confidence 3489999999987555 4 389999999999998755 68999999999999999999999999999
Q ss_pred EEEEcCC
Q 001894 191 KACFGTT 197 (999)
Q Consensus 191 RASFGTT 197 (999)
.|++++.
T Consensus 324 EvtLAKP 330 (506)
T KOG0117|consen 324 EVTLAKP 330 (506)
T ss_pred EEEecCC
Confidence 9999965
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=6.5e-07 Score=105.89 Aligned_cols=108 Identities=17% Similarity=0.344 Sum_probs=86.1
Q ss_pred ccccccccccc----ccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHH
Q 001894 96 EGKKQQLSSVR----VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEE 171 (999)
Q Consensus 96 e~RK~~LanVR----VIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~E 171 (999)
+-||.-|..|| .|.-.+|||+||+.++.+.|| ...|+.||.|..|.++. +++.|||++.+..
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 ERRKKGLPTIPPDHISVCSRTLWVGGIPKNVTEQDL---ANLFEEFGEIQSIILIP-----------PRGCAFIKMVRRQ 468 (894)
T ss_pred ccccccCCCCCCcceeEeeeeeeeccccchhhHHHH---HHHHHhcccceeEeecc-----------CCceeEEEEeehh
Confidence 34444777777 567778999999999998887 48999999999999864 2457999999999
Q ss_pred HHHHHHHHhCCCccCCeEEEEEEcCCCccccccCCCCCCCCCCcccccCCCCCC
Q 001894 172 EAVRCIQSVHGFVLEGKSLKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQED 225 (999)
Q Consensus 172 DA~rAIqaLNGs~LDGRvLRASFGTTKYCssFLRn~~C~NpdCmYLHE~g~~~D 225 (999)
||.+|+++|....+.++.||+.||..|---+ .--|.|=||+|=-..
T Consensus 469 dA~kalqkl~n~kv~~k~Iki~Wa~g~G~ks--------e~k~~wD~~lGVt~I 514 (894)
T KOG0132|consen 469 DAEKALQKLSNVKVADKTIKIAWAVGKGPKS--------EYKDYWDVELGVTYI 514 (894)
T ss_pred HHHHHHHHHhcccccceeeEEeeeccCCcch--------hhhhhhhcccCeeEe
Confidence 9999999999999999999999997653221 113667777775433
No 57
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=98.35 E-value=5.1e-07 Score=103.69 Aligned_cols=78 Identities=23% Similarity=0.470 Sum_probs=69.2
Q ss_pred EEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEE
Q 001894 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKA 192 (999)
Q Consensus 113 VYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRA 192 (999)
+||++|-.+++++.+. ..|..||+|..|.+.++..|+. ++ +++||||.+.|+|.+|...|||++|-||.|||
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 8999999999766653 7999999999999999987763 34 46799999999999999999999999999999
Q ss_pred EEcCCC
Q 001894 193 CFGTTK 198 (999)
Q Consensus 193 SFGTTK 198 (999)
+..|-+
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=98.31 E-value=1.4e-06 Score=93.60 Aligned_cols=82 Identities=20% Similarity=0.430 Sum_probs=71.8
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
-|..+.|-=||..++.||+ +.+|+--|+|..+.+.||+.++. +=++.||.|.+++||++||..+||-.|-.+
T Consensus 40 skTNLIvNYLPQ~MTqdE~---rSLF~SiGeiEScKLvRDKitGq-----SLGYGFVNYv~p~DAe~AintlNGLrLQ~K 111 (360)
T KOG0145|consen 40 SKTNLIVNYLPQNMTQDEL---RSLFGSIGEIESCKLVRDKITGQ-----SLGYGFVNYVRPKDAEKAINTLNGLRLQNK 111 (360)
T ss_pred ccceeeeeecccccCHHHH---HHHhhcccceeeeeeeecccccc-----ccccceeeecChHHHHHHHhhhcceeeccc
Confidence 3445678889999999998 48999999999999999998862 234679999999999999999999999999
Q ss_pred EEEEEEcCCC
Q 001894 189 SLKACFGTTK 198 (999)
Q Consensus 189 vLRASFGTTK 198 (999)
.|||+|+..-
T Consensus 112 TIKVSyARPS 121 (360)
T KOG0145|consen 112 TIKVSYARPS 121 (360)
T ss_pred eEEEEeccCC
Confidence 9999999763
No 59
>KOG4208 consensus Nucleolar RNA-binding protein NIFK [General function prediction only]
Probab=98.30 E-value=1.4e-06 Score=90.85 Aligned_cols=81 Identities=21% Similarity=0.409 Sum_probs=71.0
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCC-CceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQY-GKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQY-GKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
-...|||.-+|.-+-+-++| -||+|| |.+..+++.|++.|+ ++.++|||.|+++|.|.-|-+.||++.+.|
T Consensus 48 ~~g~~~~~~~p~g~~e~~~~---~~~~q~~g~v~r~rlsRnkrTG-----NSKgYAFVEFEs~eVA~IaAETMNNYLl~e 119 (214)
T KOG4208|consen 48 IEGVVYVDHIPHGFFETEIL---NYFRQFGGTVTRFRLSRNKRTG-----NSKGYAFVEFESEEVAKIAAETMNNYLLME 119 (214)
T ss_pred CccceeecccccchhHHHHh---hhhhhcCCeeEEEEeecccccC-----CcCceEEEEeccHHHHHHHHHHhhhhhhhh
Confidence 35779999999999888887 799999 888888888998876 466789999999999999999999999999
Q ss_pred eEEEEEEcCC
Q 001894 188 KSLKACFGTT 197 (999)
Q Consensus 188 RvLRASFGTT 197 (999)
+.|.|.|=..
T Consensus 120 ~lL~c~vmpp 129 (214)
T KOG4208|consen 120 HLLECHVMPP 129 (214)
T ss_pred heeeeEEeCc
Confidence 9999887543
No 60
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=98.30 E-value=1e-06 Score=99.27 Aligned_cols=79 Identities=19% Similarity=0.436 Sum_probs=67.6
Q ss_pred EEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCC-ccCC--eE
Q 001894 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF-VLEG--KS 189 (999)
Q Consensus 113 VYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs-~LDG--Rv 189 (999)
+||+-||....++||+ ++|.+||.|.+|.|.||+.++. +.+++||+|.+.+||.+||.+|++. .|.| .+
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 7999999999999985 8999999999999999998862 3457899999999999999999985 4655 57
Q ss_pred EEEEEcCCCc
Q 001894 190 LKACFGTTKY 199 (999)
Q Consensus 190 LRASFGTTKY 199 (999)
|+|-|+-+..
T Consensus 109 vqvk~Ad~E~ 118 (510)
T KOG0144|consen 109 VQVKYADGER 118 (510)
T ss_pred eeecccchhh
Confidence 8887775533
No 61
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=98.27 E-value=6.9e-07 Score=99.00 Aligned_cols=75 Identities=23% Similarity=0.419 Sum_probs=67.2
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
..|||+-|.+.+. ||++| .-|..||.|+.|.|+.|..|.. ..++|||.|+-+|.|..|++.|||..++||.|
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 66664 7999999999999999998863 34689999999999999999999999999999
Q ss_pred EEE
Q 001894 191 KAC 193 (999)
Q Consensus 191 RAS 193 (999)
+|.
T Consensus 186 KVg 188 (544)
T KOG0124|consen 186 KVG 188 (544)
T ss_pred ccc
Confidence 987
No 62
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.25 E-value=9.8e-07 Score=95.78 Aligned_cols=81 Identities=17% Similarity=0.364 Sum_probs=72.2
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
...++|+||.++.+..|+ ++.|.+||.|+++.|.++ ++||-|...|||..||+.|||.+++|+.
T Consensus 78 stkl~vgNis~tctn~El---Ra~fe~ygpviecdivkd-------------y~fvh~d~~eda~~air~l~~~~~~gk~ 141 (346)
T KOG0109|consen 78 STKLHVGNISPTCTNQEL---RAKFEKYGPVIECDIVKD-------------YAFVHFDRAEDAVEAIRGLDNTEFQGKR 141 (346)
T ss_pred ccccccCCCCccccCHHH---hhhhcccCCceeeeeecc-------------eeEEEEeeccchHHHHhcccccccccce
Confidence 455899999999999998 599999999999999865 6899999999999999999999999999
Q ss_pred EEEEEcCCCccccccCC
Q 001894 190 LKACFGTTKYCHAWLRN 206 (999)
Q Consensus 190 LRASFGTTKYCssFLRn 206 (999)
|+|+..|.+--..--=|
T Consensus 142 m~vq~stsrlrtapgmg 158 (346)
T KOG0109|consen 142 MHVQLSTSRLRTAPGMG 158 (346)
T ss_pred eeeeeeccccccCCCCC
Confidence 99999999866654333
No 63
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=98.21 E-value=1.7e-06 Score=99.73 Aligned_cols=76 Identities=28% Similarity=0.517 Sum_probs=66.0
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.++|.||+..+.-.||. .+|++||||+-..|+++..+ |..+++.|||+++.+||.+||..|+-..|.||.|-
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 37999999988777873 89999999998888876544 34578899999999999999999999999999999
Q ss_pred EEEc
Q 001894 192 ACFG 195 (999)
Q Consensus 192 ASFG 195 (999)
|.-+
T Consensus 479 VEka 482 (940)
T KOG4661|consen 479 VEKA 482 (940)
T ss_pred eeec
Confidence 8744
No 64
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=98.21 E-value=1.3e-06 Score=94.81 Aligned_cols=71 Identities=27% Similarity=0.538 Sum_probs=65.1
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.+||+|||.+....+| +.+|.|||||+++.|.|+ ++||-.+++..|.+||+.|+|..|+|..|+
T Consensus 4 KLFIGNLp~~~~~~el---r~lFe~ygkVlECDIvKN-------------YgFVHiEdktaaedairNLhgYtLhg~nIn 67 (346)
T KOG0109|consen 4 KLFIGNLPREATEQEL---RSLFEQYGKVLECDIVKN-------------YGFVHIEDKTAAEDAIRNLHGYTLHGVNIN 67 (346)
T ss_pred chhccCCCcccchHHH---HHHHHhhCceEeeeeecc-------------cceEEeecccccHHHHhhcccceecceEEE
Confidence 4799999999877776 489999999999999875 469999999999999999999999999999
Q ss_pred EEEcCCC
Q 001894 192 ACFGTTK 198 (999)
Q Consensus 192 ASFGTTK 198 (999)
|.=.+.|
T Consensus 68 VeaSksK 74 (346)
T KOG0109|consen 68 VEASKSK 74 (346)
T ss_pred EEecccc
Confidence 9988888
No 65
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=98.18 E-value=2e-06 Score=88.57 Aligned_cols=88 Identities=20% Similarity=0.314 Sum_probs=72.3
Q ss_pred ccccccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEE-EEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHH
Q 001894 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKV-SMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (999)
Q Consensus 101 ~LanVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KI-vInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqa 179 (999)
+-.+++|- -.+||++|.+.+ +|.+| ++.|+.||.|++. .|.++..|+ ++++++||.|.+.|.|.+||.+
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 44555555 457999999987 66777 7999999999874 466676654 4567889999999999999999
Q ss_pred hCCCccCCeEEEEEEcCCC
Q 001894 180 VHGFVLEGKSLKACFGTTK 198 (999)
Q Consensus 180 LNGs~LDGRvLRASFGTTK 198 (999)
|||..+..|+++++|+.-|
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 66
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.16 E-value=4e-06 Score=92.69 Aligned_cols=78 Identities=24% Similarity=0.457 Sum_probs=64.8
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCC-CccCCeE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHG-FVLEGKS 189 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNG-s~LDGRv 189 (999)
.++||+||-..+++.+| ++.|-|||.|..|+|... . +.|||||.+++.|+.|....-. ..++|+.
T Consensus 229 ~tLyIg~l~d~v~e~dI---rdhFyqyGeirsi~~~~~----------~-~CAFv~ftTR~aAE~Aae~~~n~lvI~G~R 294 (377)
T KOG0153|consen 229 KTLYIGGLNDEVLEQDI---RDHFYQYGEIRSIRILPR----------K-GCAFVTFTTREAAEKAAEKSFNKLVINGFR 294 (377)
T ss_pred eEEEecccccchhHHHH---HHHHhhcCCeeeEEeecc----------c-ccceeeehhhHHHHHHHHhhcceeeecceE
Confidence 37999999999988887 599999999999999753 2 3699999999999999865444 4589999
Q ss_pred EEEEEcCCCcccc
Q 001894 190 LKACFGTTKYCHA 202 (999)
Q Consensus 190 LRASFGTTKYCss 202 (999)
|++.||.+|.-..
T Consensus 295 l~i~Wg~~~~~a~ 307 (377)
T KOG0153|consen 295 LKIKWGRPKQAAQ 307 (377)
T ss_pred EEEEeCCCccccc
Confidence 9999999944333
No 67
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=98.14 E-value=2.1e-06 Score=92.56 Aligned_cols=81 Identities=23% Similarity=0.435 Sum_probs=73.6
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
..+||.-||.++.+.||+ ..|-.||.|+..+|-.|+.|.. +.++.||.|.+...|..||++|||++|+=+.|
T Consensus 286 CNlFIYHLPQEFgDaEli---QmF~PFGhivSaKVFvDRATNQ-----SKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRL 357 (371)
T KOG0146|consen 286 CNLFIYHLPQEFGDAELI---QMFLPFGHIVSAKVFVDRATNQ-----SKCFGFVSFDNPASAQAAIQAMNGFQIGMKRL 357 (371)
T ss_pred ceEEEEeCchhhccHHHH---HHhccccceeeeeeeehhcccc-----ccceeeEecCCchhHHHHHHHhcchhhhhhhh
Confidence 458999999999999998 7999999999999999988862 46788999999999999999999999999999
Q ss_pred EEEEcCCCc
Q 001894 191 KACFGTTKY 199 (999)
Q Consensus 191 RASFGTTKY 199 (999)
||.+...|-
T Consensus 358 KVQLKRPkd 366 (371)
T KOG0146|consen 358 KVQLKRPKD 366 (371)
T ss_pred hhhhcCccc
Confidence 999887764
No 68
>KOG0415 consensus Predicted peptidyl prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=5.6e-06 Score=91.81 Aligned_cols=82 Identities=16% Similarity=0.318 Sum_probs=74.3
Q ss_pred cccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 108 IQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
-..|.+||.-|+|-+++|||- =+|+.||+|..+.|.++..|+. .=.+|||.|+++|+.+.|.-.||+..||.
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 467999999999999999983 6999999999999999998864 33579999999999999999999999999
Q ss_pred eEEEEEEcCC
Q 001894 188 KSLKACFGTT 197 (999)
Q Consensus 188 RvLRASFGTT 197 (999)
|.|.|.|..+
T Consensus 309 rRIHVDFSQS 318 (479)
T KOG0415|consen 309 RRIHVDFSQS 318 (479)
T ss_pred ceEEeehhhh
Confidence 9999999854
No 69
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.12 E-value=6.3e-06 Score=92.07 Aligned_cols=71 Identities=23% Similarity=0.548 Sum_probs=64.6
Q ss_pred EEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEE
Q 001894 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKA 192 (999)
Q Consensus 113 VYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRA 192 (999)
|||-+|++.++.++| ++.|+.||+|+.|.|.++..+ .+++ ||.|+++++|.+||..+||..+.|+.|-|
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 EE
Q 001894 193 CF 194 (999)
Q Consensus 193 SF 194 (999)
.-
T Consensus 148 g~ 149 (369)
T KOG0123|consen 148 GL 149 (369)
T ss_pred ee
Confidence 53
No 70
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=98.10 E-value=6.9e-06 Score=87.67 Aligned_cols=76 Identities=24% Similarity=0.483 Sum_probs=68.1
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
..|||.||++.+.++||. |+|.+||.++++.|..++.+. +-+.|=|+|.+.+||++||+.++|..+||+.|
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 679999999999999995 999999999999998887654 34678999999999999999999999999999
Q ss_pred EEEEc
Q 001894 191 KACFG 195 (999)
Q Consensus 191 RASFG 195 (999)
++..-
T Consensus 155 k~~~i 159 (243)
T KOG0533|consen 155 KIEII 159 (243)
T ss_pred eeEEe
Confidence 87643
No 71
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=98.08 E-value=9.3e-06 Score=95.77 Aligned_cols=124 Identities=18% Similarity=0.229 Sum_probs=90.7
Q ss_pred ccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001894 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (999)
Q Consensus 107 VIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD 186 (999)
.++.+.+||.||++..+.+++. ..|.++|.|+.|.|.+.+.... ..+ +.|++||.|.+.|+|.+|+++|+|+.|+
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 3455559999999999999985 8999999999999987654432 123 4567899999999999999999999999
Q ss_pred CeEEEEEEcCCCccccccCCCCCCC-CCCcccccCCCCCCCccHHHHHhhccc
Q 001894 187 GKSLKACFGTTKYCHAWLRNVPCTN-PDCLYLHEVGSQEDSFTKDEIISAYTR 238 (999)
Q Consensus 187 GRvLRASFGTTKYCssFLRn~~C~N-pdCmYLHE~g~~~DsfTKeem~~~~tr 238 (999)
|+.|.+.|.-+|--..-= .+|.. +.|.-||=-.-+ =-.|+.|+....+.
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 999999988755444332 44443 346666633211 11367777766554
No 72
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=98.02 E-value=1.1e-05 Score=90.21 Aligned_cols=72 Identities=21% Similarity=0.381 Sum_probs=63.0
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.+||+ +.++++.| ++.|.++|+|+.|.|-+|. | . -++|||+|.+++||++||+.+|...+.|+.||
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 77766666 4999999999999999997 6 2 35799999999999999999999999999999
Q ss_pred EEEcCC
Q 001894 192 ACFGTT 197 (999)
Q Consensus 192 ASFGTT 197 (999)
+-|..-
T Consensus 69 im~s~r 74 (369)
T KOG0123|consen 69 IMWSQR 74 (369)
T ss_pred eehhcc
Confidence 988743
No 73
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=97.99 E-value=1.1e-05 Score=95.27 Aligned_cols=111 Identities=15% Similarity=0.260 Sum_probs=88.0
Q ss_pred cccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 108 IQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
-|...|||+||++.+.++.|| ..||.||.|..|.|+-.+.--- ....+..+||-|-+..||++|++.|+|..+.+
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 6999999999999975432110 01234567999999999999999999999999
Q ss_pred eEEEEEEc-------CCCccccccCCCCCCCCCCcccccCCCC
Q 001894 188 KSLKACFG-------TTKYCHAWLRNVPCTNPDCLYLHEVGSQ 223 (999)
Q Consensus 188 RvLRASFG-------TTKYCssFLRn~~C~NpdCmYLHE~g~~ 223 (999)
+.+|.-|| +++|----|-...=+.+.|..-|+-...
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 5667666666666677777777765543
No 74
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.91 E-value=6.8e-06 Score=90.28 Aligned_cols=77 Identities=23% Similarity=0.401 Sum_probs=61.6
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
...+||+||+|.+++|.| ++||++||+|.+++|++++.+.+ .+++.||+|++.+.-.+++.. .-..||||.
T Consensus 6 ~~KlfiGgisw~ttee~L---r~yf~~~Gev~d~~vm~d~~t~r-----srgFgfv~f~~~~~v~~vl~~-~~h~~dgr~ 76 (311)
T KOG4205|consen 6 SGKLFIGGLSWETTEESL---REYFSQFGEVTDCVVMRDPSTGR-----SRGFGFVTFATPEGVDAVLNA-RTHKLDGRS 76 (311)
T ss_pred CcceeecCcCccccHHHH---HHHhcccCceeeEEEeccCCCCC-----cccccceecCCCcchheeecc-cccccCCcc
Confidence 345899999999977776 49999999999999999988753 567889999998877766654 446788888
Q ss_pred EEEEEc
Q 001894 190 LKACFG 195 (999)
Q Consensus 190 LRASFG 195 (999)
|-+.=+
T Consensus 77 ve~k~a 82 (311)
T KOG4205|consen 77 VEPKRA 82 (311)
T ss_pred ccceec
Confidence 765433
No 75
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=97.80 E-value=1.3e-05 Score=92.70 Aligned_cols=88 Identities=19% Similarity=0.403 Sum_probs=73.3
Q ss_pred ccccccccccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHH
Q 001894 97 GKKQQLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRC 176 (999)
Q Consensus 97 ~RK~~LanVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rA 176 (999)
.|+ ++....+.-.-.|+|.+||..+.+++|+ +.||.||+|..|..-. +..+-+||.|-+..+|++|
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 5666666667778999999999999997 7999999999966532 3446789999999999999
Q ss_pred HHHhCCCccCCeEEEEEEcCCC
Q 001894 177 IQSVHGFVLEGKSLKACFGTTK 198 (999)
Q Consensus 177 IqaLNGs~LDGRvLRASFGTTK 198 (999)
+++|++..+.|+.|++..|+++
T Consensus 129 lk~l~~~~~~~~~~k~~~~~~~ 150 (549)
T KOG4660|consen 129 LKALNRREIAGKRIKRPGGARR 150 (549)
T ss_pred HHHHHHHHhhhhhhcCCCcccc
Confidence 9999999999999997666654
No 76
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.68 E-value=0.00017 Score=80.28 Aligned_cols=89 Identities=21% Similarity=0.306 Sum_probs=72.5
Q ss_pred cccccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEE--------EEEeecCCCcccccCCCCcEEEEEeCCHHHH
Q 001894 102 LSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK--------VSMSRTAAGVIQQFPNNTCSVYITYSKEEEA 173 (999)
Q Consensus 102 LanVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~K--------IvInrdk~T~~qq~p~~ggsAYVTFsr~EDA 173 (999)
-.++-..+...|||.|||..|+.+|++ ++|+++|-|.+ |.+-++..+. ..|-|-|+|-+.|..
T Consensus 126 ~~~~~~~~Nt~VYVsgLP~DiT~dE~~---~~~sKcGiI~~d~~t~epk~KlYrd~~G~------lKGDaLc~y~K~ESV 196 (382)
T KOG1548|consen 126 WFNPEPKVNTSVYVSGLPLDITVDEFA---EVMSKCGIIMRDPQTGEPKVKLYRDNQGK------LKGDALCCYIKRESV 196 (382)
T ss_pred ccCcccccCceEEecCCCCcccHHHHH---HHHHhcceEeccCCCCCeeEEEEecCCCC------ccCceEEEeecccHH
Confidence 345556667779999999999999997 89999999864 5666665432 235689999999999
Q ss_pred HHHHHHhCCCccCCeEEEEEEcCCCc
Q 001894 174 VRCIQSVHGFVLEGKSLKACFGTTKY 199 (999)
Q Consensus 174 ~rAIqaLNGs~LDGRvLRASFGTTKY 199 (999)
..||+.||+..+.|+.|||.-+.-.+
T Consensus 197 eLA~~ilDe~~~rg~~~rVerAkfq~ 222 (382)
T KOG1548|consen 197 ELAIKILDEDELRGKKLRVERAKFQM 222 (382)
T ss_pred HHHHHHhCcccccCcEEEEehhhhhh
Confidence 99999999999999999998765433
No 77
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=97.68 E-value=6.6e-05 Score=83.81 Aligned_cols=76 Identities=22% Similarity=0.424 Sum_probs=67.9
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
-|.|||.-+-+.+.++||. ..|.-||+|+++.+.+.+.++. ..++.||.|.+...-..||..||=+.|+|.+
T Consensus 210 fnRiYVaSvHpDLSe~DiK---SVFEAFG~I~~C~LAr~pt~~~-----HkGyGfiEy~n~qs~~eAiasMNlFDLGGQy 281 (544)
T KOG0124|consen 210 FNRIYVASVHPDLSETDIK---SVFEAFGEIVKCQLARAPTGRG-----HKGYGFIEYNNLQSQSEAIASMNLFDLGGQY 281 (544)
T ss_pred hheEEeeecCCCccHHHHH---HHHHhhcceeeEEeeccCCCCC-----ccceeeEEeccccchHHHhhhcchhhcccce
Confidence 3889999999999999984 7999999999999999876642 3456799999999999999999999999999
Q ss_pred EEEE
Q 001894 190 LKAC 193 (999)
Q Consensus 190 LRAS 193 (999)
|||-
T Consensus 282 LRVG 285 (544)
T KOG0124|consen 282 LRVG 285 (544)
T ss_pred Eecc
Confidence 9986
No 78
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=97.68 E-value=5.2e-05 Score=87.74 Aligned_cols=75 Identities=21% Similarity=0.367 Sum_probs=63.6
Q ss_pred hhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEcCC-CccccccCCCCCC
Q 001894 132 EYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTT-KYCHAWLRNVPCT 210 (999)
Q Consensus 132 EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASFGTT-KYCssFLRn~~C~ 210 (999)
|-.++||+|..|.|-+. .-|++||.|.+.++|..|+.+|||-+++||.|.|.|=+. .|=+-|..-..
T Consensus 472 Eec~k~g~v~hi~vd~n----------s~g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~~~~Y~~~FP~~~~-- 539 (549)
T KOG0147|consen 472 EECGKHGKVCHIFVDKN----------SAGCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLPLERYHSKFPDSKA-- 539 (549)
T ss_pred HHHHhcCCeeEEEEccC----------CCceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEeehhhhhhhCCCccc--
Confidence 66799999999999653 226899999999999999999999999999999999854 88888876543
Q ss_pred CCCCcccccC
Q 001894 211 NPDCLYLHEV 220 (999)
Q Consensus 211 NpdCmYLHE~ 220 (999)
.|+|+|-.
T Consensus 540 --~~~~~~~~ 547 (549)
T KOG0147|consen 540 --APLLFHTN 547 (549)
T ss_pred --ceeeeecc
Confidence 78888854
No 79
>KOG4205 consensus RNA-binding protein musashi/mRNA cleavage and polyadenylation factor I complex, subunit HRP1 [RNA processing and modification]
Probab=97.62 E-value=6.2e-05 Score=82.92 Aligned_cols=86 Identities=20% Similarity=0.305 Sum_probs=69.2
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
-..|||+|||+.+.++++ ++||.|||+|..++++.|+.+.+ +++++||+|.+++.+.++. ...-..+.|+.
T Consensus 97 tkkiFvGG~~~~~~e~~~---r~yfe~~g~v~~~~~~~d~~~~~-----~rgFgfv~~~~e~sVdkv~-~~~f~~~~gk~ 167 (311)
T KOG4205|consen 97 TKKIFVGGLPPDTTEEDF---KDYFEQFGKVADVVIMYDKTTSR-----PRGFGFVTFDSEDSVDKVT-LQKFHDFNGKK 167 (311)
T ss_pred eeEEEecCcCCCCchHHH---hhhhhccceeEeeEEeecccccc-----cccceeeEeccccccceec-ccceeeecCce
Confidence 346999999999987776 49999999999999999987753 5667899999976655544 45777899999
Q ss_pred EEEEEcCCCcccccc
Q 001894 190 LKACFGTTKYCHAWL 204 (999)
Q Consensus 190 LRASFGTTKYCssFL 204 (999)
+.|.-++.|-=...-
T Consensus 168 vevkrA~pk~~~~~~ 182 (311)
T KOG4205|consen 168 VEVKRAIPKEVMQST 182 (311)
T ss_pred eeEeeccchhhcccc
Confidence 999888777665544
No 80
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=97.55 E-value=3.2e-05 Score=83.02 Aligned_cols=79 Identities=18% Similarity=0.475 Sum_probs=67.4
Q ss_pred cCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEcC-----CCccccccCCCCC
Q 001894 135 GQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGT-----TKYCHAWLRNVPC 209 (999)
Q Consensus 135 GQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASFGT-----TKYCssFLRn~~C 209 (999)
-+||+|.+++|-.+..- .-.+.|||.|..+|+|++|++.|||-++.|++|.|.|.. ..-|-.|-++ .|
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 123579999999999999999999999999999999983 3679999999 89
Q ss_pred CC-CCCcccccC
Q 001894 210 TN-PDCLYLHEV 220 (999)
Q Consensus 210 ~N-pdCmYLHE~ 220 (999)
.. ..|-|+|=.
T Consensus 164 ~rG~~CnFmH~k 175 (260)
T KOG2202|consen 164 SRGGACNFMHVK 175 (260)
T ss_pred CCCCcCcchhhh
Confidence 88 699999977
No 81
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=97.51 E-value=0.00021 Score=79.47 Aligned_cols=62 Identities=31% Similarity=0.513 Sum_probs=53.0
Q ss_pred hhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEE--cCCCcccc
Q 001894 132 EYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF--GTTKYCHA 202 (999)
Q Consensus 132 EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASF--GTTKYCss 202 (999)
+--.+||.|.+|+|.-.+ +-|-|=|+|.+.++|..||+.|+|.+++||+|.|+. |+|||-..
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 678899999999997432 335689999999999999999999999999999986 68887653
No 82
>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]
Probab=97.45 E-value=4.9e-05 Score=80.54 Aligned_cols=73 Identities=22% Similarity=0.251 Sum_probs=64.0
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
+|||.+|...+ .|+|| .|+|-|-|.|+||.|...+... +. +|||.|.++-...-||+.+||..+.|+.|+
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 TLLVQNMYSGV-SEELL--SELFIQAGPVYKVGIPSGQDQE------QK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQ 80 (267)
T ss_pred HHHHHhhhhhh-hHHHH--HHHhhccCceEEEeCCCCccCC------Cc-eeeeecccccchhhhhhhcccchhccchhh
Confidence 47999999998 46777 5999999999999999876543 33 899999999999999999999999999999
Q ss_pred EEE
Q 001894 192 ACF 194 (999)
Q Consensus 192 ASF 194 (999)
+.+
T Consensus 81 ~~~ 83 (267)
T KOG4454|consen 81 RTL 83 (267)
T ss_pred ccc
Confidence 875
No 83
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=97.42 E-value=9.8e-05 Score=77.91 Aligned_cols=71 Identities=25% Similarity=0.424 Sum_probs=63.5
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
-|||+.|++...++++- ++|-.||+|.+|.|. . +++||.|.+..||.+||..+||..|.|..+.
T Consensus 3 rv~vg~~~~~~~~~d~E---~~f~~yg~~~d~~mk------------~-gf~fv~fed~rda~Dav~~l~~~~l~~e~~v 66 (216)
T KOG0106|consen 3 RVYIGRLPYRARERDVE---RFFKGYGKIPDADMK------------N-GFGFVEFEDPRDADDAVHDLDGKELCGERLV 66 (216)
T ss_pred ceeecccCCccchhHHH---HHHhhccccccceee------------c-ccceeccCchhhhhcccchhcCceecceeee
Confidence 48999999999999995 899999999999884 1 3469999999999999999999999998899
Q ss_pred EEEcCCC
Q 001894 192 ACFGTTK 198 (999)
Q Consensus 192 ASFGTTK 198 (999)
+.|++.+
T Consensus 67 ve~~r~~ 73 (216)
T KOG0106|consen 67 VEHARGK 73 (216)
T ss_pred eeccccc
Confidence 9988853
No 84
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=97.31 E-value=0.00017 Score=85.63 Aligned_cols=78 Identities=13% Similarity=0.299 Sum_probs=67.1
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
+.|.|-+||...+.+++ +++|+.||.|..|.|++..... ..++++||+|-++.||.+|+.+|.++.|-||.|
T Consensus 614 tKIlVRNipFeAt~rEV---r~LF~aFGqlksvRlPKK~~k~-----a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrL 685 (725)
T KOG0110|consen 614 TKILVRNIPFEATKREV---RKLFTAFGQLKSVRLPKKIGKG-----AHRGFGFVDFLTPREAKNAFDALGSTHLYGRRL 685 (725)
T ss_pred ceeeeeccchHHHHHHH---HHHHhcccceeeeccchhhcch-----hhccceeeeccCcHHHHHHHHhhcccceechhh
Confidence 57999999999988888 5899999999999999862211 135678999999999999999999999999999
Q ss_pred EEEEcC
Q 001894 191 KACFGT 196 (999)
Q Consensus 191 RASFGT 196 (999)
...|+.
T Consensus 686 VLEwA~ 691 (725)
T KOG0110|consen 686 VLEWAK 691 (725)
T ss_pred heehhc
Confidence 988764
No 85
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=97.22 E-value=0.0008 Score=76.33 Aligned_cols=106 Identities=23% Similarity=0.315 Sum_probs=87.0
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
..+|-|.+|.+..-.+|.| .-+||-||.|.+|.|...+. -.|-|.|.+...|.-|+.+|+|..+.|+.
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 6788999998876666766 58999999999999987643 36999999999999999999999999999
Q ss_pred EEEEEcCCCccccccCCCCCCCCCCcccccCCCCCCCccHHHHHhhccccccc
Q 001894 190 LKACFGTTKYCHAWLRNVPCTNPDCLYLHEVGSQEDSFTKDEIISAYTRVQQI 242 (999)
Q Consensus 190 LRASFGTTKYCssFLRn~~C~NpdCmYLHE~g~~~DsfTKeem~~~~tr~~~~ 242 (999)
|||.|.+- .=.-|-.-|.++.-+||+...+..+|+.+.
T Consensus 365 lrvt~SKH---------------~~vqlp~egq~d~glT~dy~~spLhrfkkp 402 (492)
T KOG1190|consen 365 LRVTLSKH---------------TNVQLPREGQEDQGLTKDYGNSPLHRFKKP 402 (492)
T ss_pred EEEeeccC---------------ccccCCCCCCccccccccCCCCchhhccCc
Confidence 99998642 112344456677789999988888887665
No 86
>KOG0116 consensus RasGAP SH3 binding protein rasputin, contains NTF2 and RRM domains [Signal transduction mechanisms]
Probab=97.22 E-value=0.00058 Score=78.04 Aligned_cols=90 Identities=14% Similarity=0.274 Sum_probs=69.4
Q ss_pred ccccccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001894 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (999)
Q Consensus 101 ~LanVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaL 180 (999)
+....|+.-. |||.+||..++..+| .+.|.+||.|++..|....... ... +++||+|.+.+++..||++=
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---EEVFKQFGPIKEGGIQVRSPGG----KNP-CFGFVEFENAAAVQNAIEAS 350 (419)
T ss_pred Ccceeecccc--eEeecCCCCCCHHHH---HHHHhhcccccccceEEeccCC----CcC-ceEEEEEeecchhhhhhhcC
Confidence 3444444433 999999999887775 4999999999999998754222 123 78999999999999999984
Q ss_pred CCCccCCeEEEEEEcCCCccc
Q 001894 181 HGFVLEGKSLKACFGTTKYCH 201 (999)
Q Consensus 181 NGs~LDGRvLRASFGTTKYCs 201 (999)
-..++||.|.|.--.+.|--
T Consensus 351 -p~~ig~~kl~Veek~~~~~g 370 (419)
T KOG0116|consen 351 -PLEIGGRKLNVEEKRPGFRG 370 (419)
T ss_pred -ccccCCeeEEEEeccccccc
Confidence 66789999999865554433
No 87
>KOG1996 consensus mRNA splicing factor [RNA processing and modification]
Probab=97.14 E-value=0.00042 Score=75.99 Aligned_cols=61 Identities=21% Similarity=0.476 Sum_probs=51.6
Q ss_pred hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEc
Q 001894 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFG 195 (999)
Q Consensus 131 ~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASFG 195 (999)
.|-.++||+|.+|+|-....-.. .....+||.|++.|+|.+|+-.|||..++||+++|+|=
T Consensus 304 keEceKyg~V~~viifeip~~p~----deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy 364 (378)
T KOG1996|consen 304 KEECEKYGKVGNVIIFEIPSQPE----DEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY 364 (378)
T ss_pred HHHHHhhcceeeEEEEecCCCcc----chhheeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence 58899999999999976643221 24467899999999999999999999999999999873
No 88
>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=97.12 E-value=0.0015 Score=60.95 Aligned_cols=71 Identities=27% Similarity=0.438 Sum_probs=48.5
Q ss_pred CEEEEeCCCCCCChHHHhhh-hhhhcCCC-ceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 111 NLVYIVGLPLNLGDEDLLQR-REYFGQYG-KVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk-~EyFGQYG-KI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
.+|||.|||.......+-.+ ..++.-+| +|+.|. ++.|+|.|.+.|.|.+|.+-|+|..+.|+
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 58999999999765554222 57887775 666652 24799999999999999999999999999
Q ss_pred EEEEEEcC
Q 001894 189 SLKACFGT 196 (999)
Q Consensus 189 vLRASFGT 196 (999)
.|.|+|..
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 89
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=97.10 E-value=0.00083 Score=76.69 Aligned_cols=72 Identities=22% Similarity=0.420 Sum_probs=59.9
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
-..|+|.+||..++= .+| ++-|-.||.|+-..|+..-. .. .-|.|.++|+|++|+..|||..|+||.
T Consensus 536 a~qIiirNlP~dfTW-qml--rDKfre~G~v~yadime~Gk-------sk---GVVrF~s~edAEra~a~Mngs~l~Gr~ 602 (608)
T KOG4212|consen 536 ACQIIIRNLPFDFTW-QML--RDKFREIGHVLYADIMENGK-------SK---GVVRFFSPEDAERACALMNGSRLDGRN 602 (608)
T ss_pred ccEEEEecCCccccH-HHH--HHHHHhccceehhhhhccCC-------cc---ceEEecCHHHHHHHHHHhccCcccCce
Confidence 455999999999875 455 48999999999998843211 12 279999999999999999999999999
Q ss_pred EEEEE
Q 001894 190 LKACF 194 (999)
Q Consensus 190 LRASF 194 (999)
|+|.|
T Consensus 603 I~V~y 607 (608)
T KOG4212|consen 603 IKVTY 607 (608)
T ss_pred eeeee
Confidence 99987
No 90
>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]
Probab=97.09 E-value=0.00096 Score=70.91 Aligned_cols=84 Identities=12% Similarity=0.216 Sum_probs=73.4
Q ss_pred cccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001894 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (999)
Q Consensus 106 RVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~L 185 (999)
+-+.--.|||+++....+.+++ .+.|.-+|.|..|.|..++.++ .+.++|||.|.+.+.+..|++ |||..+
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---ELHFESCGGINRVTVPKDKFRG-----HPKGFAYVEFSSYELVEEAYK-LDGSEI 167 (231)
T ss_pred hccCCceEEEeccccccccchh---hheeeccCCccceeeeccccCC-----CcceeEEEecccHhhhHHHhh-cCCccc
Confidence 3455567999999999888885 4899999999999999887664 246789999999999999999 999999
Q ss_pred CCeEEEEEEcCCC
Q 001894 186 EGKSLKACFGTTK 198 (999)
Q Consensus 186 DGRvLRASFGTTK 198 (999)
.|+.+.+++-.|+
T Consensus 168 ~~~~i~vt~~r~~ 180 (231)
T KOG4209|consen 168 PGPAIEVTLKRTN 180 (231)
T ss_pred ccccceeeeeeee
Confidence 9999999998877
No 91
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=97.06 E-value=0.00096 Score=72.65 Aligned_cols=76 Identities=22% Similarity=0.435 Sum_probs=64.5
Q ss_pred EEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCc-cCC--eE
Q 001894 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV-LEG--KS 189 (999)
Q Consensus 113 VYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~-LDG--Rv 189 (999)
+||+=|...-.+||++ .+|..||.|.++.|.+...+. ..+.|||.|.+..||..||.+|+|+. +-| .-
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 7898898888899986 699999999999999876653 34579999999999999999999986 455 46
Q ss_pred EEEEEcCC
Q 001894 190 LKACFGTT 197 (999)
Q Consensus 190 LRASFGTT 197 (999)
|.|.|+-|
T Consensus 93 LVVK~ADT 100 (371)
T KOG0146|consen 93 LVVKFADT 100 (371)
T ss_pred eEEEeccc
Confidence 88888866
No 92
>PLN02189 cellulose synthase
Probab=97.01 E-value=0.00033 Score=86.54 Aligned_cols=50 Identities=26% Similarity=0.893 Sum_probs=43.7
Q ss_pred CCCCCcccCCC--cCCCCccccC-CCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 7 KTCPLCAEEMD--LTDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 7 ~~CPLC~EeLD--lTD~~F~PC~-CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
.+|.+|-++++ .+...|..|. |||.+|+.||...+ .+.+..||.|+..|.
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 357899999999997
No 93
>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=96.99 E-value=0.00075 Score=63.86 Aligned_cols=76 Identities=24% Similarity=0.473 Sum_probs=50.2
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEE-EeecCCCcc-cccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCC
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVS-MSRTAAGVI-QQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEG 187 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIv-Inrdk~T~~-qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDG 187 (999)
..-|.|.|.|+.. ...+| ++|++||.|++.. +.++..+-. ...+..+.-++|+|.++.+|.+|++. ||..+.|
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 45677 7999999999986 212111000 01123455789999999999999996 9999998
Q ss_pred eEE
Q 001894 188 KSL 190 (999)
Q Consensus 188 RvL 190 (999)
..|
T Consensus 81 ~~m 83 (100)
T PF05172_consen 81 SLM 83 (100)
T ss_dssp CEE
T ss_pred cEE
Confidence 765
No 94
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=96.97 E-value=0.0017 Score=75.62 Aligned_cols=62 Identities=19% Similarity=0.432 Sum_probs=51.6
Q ss_pred hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEE
Q 001894 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF 194 (999)
Q Consensus 131 ~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASF 194 (999)
+.-+++||.|..|.|++.-.... ..+ ..+.+||.|.+.|++.+|.++|.|..+.||+|.++|
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 56799999999999998732221 122 345799999999999999999999999999999986
No 95
>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]
Probab=96.97 E-value=0.00079 Score=75.19 Aligned_cols=98 Identities=14% Similarity=0.203 Sum_probs=85.0
Q ss_pred cccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceE--------EEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHH
Q 001894 106 RVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVL--------KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCI 177 (999)
Q Consensus 106 RVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~--------KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAI 177 (999)
.+.+...|||-+|+..++..++. ++|.|.|.|. +|.|-++++|.. +.+-|=|||++.-.|+.||
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 48899999999999999877775 9999999995 466777776653 4567899999999999999
Q ss_pred HHhCCCccCCeEEEEEEcCCCccccccCCCCCCC
Q 001894 178 QSVHGFVLEGKSLKACFGTTKYCHAWLRNVPCTN 211 (999)
Q Consensus 178 qaLNGs~LDGRvLRASFGTTKYCssFLRn~~C~N 211 (999)
.-.++..+.|.+|+|++++-+-=-.|.++..|++
T Consensus 134 ~~~agkdf~gn~ikvs~a~~r~~ve~~rg~~~~~ 167 (351)
T KOG1995|consen 134 EWFAGKDFCGNTIKVSLAERRTGVESVRGGYPND 167 (351)
T ss_pred hhhccccccCCCchhhhhhhccCcccccccccCc
Confidence 9999999999999999998777779999999765
No 96
>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=96.81 E-value=0.0021 Score=71.19 Aligned_cols=54 Identities=24% Similarity=0.649 Sum_probs=40.7
Q ss_pred CCCCCCcccCCCc-CCC-CccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 6 EKTCPLCAEEMDL-TDQ-QLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 6 d~~CPLC~EeLDl-TD~-~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
+..||+|...-=+ .+. .+.- +||..+|.-|..+|.. ...+.||.|++++....+
T Consensus 3 ~~~CP~Ck~~~y~np~~kl~i~-~CGH~~C~sCv~~l~~-----~~~~~CP~C~~~lrk~~f 58 (309)
T TIGR00570 3 DQGCPRCKTTKYRNPSLKLMVN-VCGHTLCESCVDLLFV-----RGSGSCPECDTPLRKNNF 58 (309)
T ss_pred CCCCCcCCCCCccCcccccccC-CCCCcccHHHHHHHhc-----CCCCCCCCCCCccchhhc
Confidence 4689999985322 233 3444 9999999999999963 246799999999987765
No 97
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=96.77 E-value=0.0032 Score=72.14 Aligned_cols=78 Identities=18% Similarity=0.357 Sum_probs=65.3
Q ss_pred ccccCE-EEEeCCCCCCChHHHhhhhhhh-cCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCc
Q 001894 107 VIQRNL-VYIVGLPLNLGDEDLLQRREYF-GQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV 184 (999)
Q Consensus 107 VIQRNL-VYVvGLp~~IAdEDLLRk~EyF-GQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~ 184 (999)
|-.|+. |||.+||+.+.-.+|. ++| .+-|+|.-|.+..|..+. .++.|-|+|.++|.+++|++.||-+.
T Consensus 40 ~~~r~R~vfItNIpyd~rWqdLK---dLvrekvGev~yveLl~D~~GK------~rGcavVEFk~~E~~qKa~E~lnk~~ 110 (608)
T KOG4212|consen 40 VAARDRSVFITNIPYDYRWQDLK---DLVREKVGEVEYVELLFDESGK------ARGCAVVEFKDPENVQKALEKLNKYE 110 (608)
T ss_pred cccccceEEEecCcchhhhHhHH---HHHHHhcCceEeeeeecccCCC------cCCceEEEeeCHHHHHHHHHHhhhcc
Confidence 334444 9999999998877762 555 578999999999988764 45679999999999999999999999
Q ss_pred cCCeEEEEE
Q 001894 185 LEGKSLKAC 193 (999)
Q Consensus 185 LDGRvLRAS 193 (999)
+.||.|+|.
T Consensus 111 ~~GR~l~vK 119 (608)
T KOG4212|consen 111 VNGRELVVK 119 (608)
T ss_pred ccCceEEEe
Confidence 999999986
No 98
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=96.72 E-value=0.0055 Score=65.71 Aligned_cols=80 Identities=14% Similarity=0.318 Sum_probs=57.5
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC---C
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE---G 187 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD---G 187 (999)
+++||.|||..+.-.|| |-+|-.|---.-..+..+-... .+. ...|||||.+..+|..|+.+|||..+| |
T Consensus 35 RTLFVSGLP~DvKpREi---ynLFR~f~GYEgslLK~Tsk~~---~~~-~pvaFatF~s~q~A~aamnaLNGvrFDpE~~ 107 (284)
T KOG1457|consen 35 RTLFVSGLPNDVKPREI---YNLFRRFHGYEGSLLKYTSKGD---QVC-KPVAFATFTSHQFALAAMNALNGVRFDPETG 107 (284)
T ss_pred ceeeeccCCcccCHHHH---HHHhccCCCccceeeeeccCCC---ccc-cceEEEEecchHHHHHHHHHhcCeeeccccC
Confidence 46899999999998898 4677666333333332221111 112 247899999999999999999999886 7
Q ss_pred eEEEEEEcCC
Q 001894 188 KSLKACFGTT 197 (999)
Q Consensus 188 RvLRASFGTT 197 (999)
.+|++.+++.
T Consensus 108 stLhiElAKS 117 (284)
T KOG1457|consen 108 STLHIELAKS 117 (284)
T ss_pred ceeEeeehhc
Confidence 8899888754
No 99
>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif
Probab=96.71 E-value=0.0026 Score=53.54 Aligned_cols=52 Identities=23% Similarity=0.621 Sum_probs=42.1
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHH
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCI 177 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAI 177 (999)
+-|=|.|.++... +++| ++|.+||+|.++.+... +-.+||+|.++.+|++|+
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 4577999998864 5666 69999999999988621 236899999999999984
No 100
>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=96.64 E-value=0.00097 Score=54.52 Aligned_cols=47 Identities=34% Similarity=0.911 Sum_probs=36.6
Q ss_pred cCCCCCCcccCCCcCCCCccccCCCCc-chhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 5 GEKTCPLCAEEMDLTDQQLKPCKCGYE-ICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~F~PC~CGYQ-IC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
++..|++|.+.. .|..|.| ||.. +|..|+.+++. ...+||-||+++.
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 3566665 6899 99999999974 5789999999875
No 101
>PLN02436 cellulose synthase A
Probab=96.60 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 001894 7 KTCPLCAEEM--DLTDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 7 ~~CPLC~EeL--DlTD~~F~PC~-CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
.+|.+|-+++ +.+-..|.-|. |||.+|+.||...+ .+.+..||.|+..|+
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 45556789995 99999999999876 357889999999997
No 102
>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=96.60 E-value=0.00058 Score=54.34 Aligned_cols=44 Identities=27% Similarity=0.740 Sum_probs=34.5
Q ss_pred CCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCC
Q 001894 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACR 57 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACR 57 (999)
++||+|+|+|+. +......+||..+|.-|+...+. .+..||-||
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 103
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=96.32 E-value=0.008 Score=56.95 Aligned_cols=58 Identities=26% Similarity=0.457 Sum_probs=37.6
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCC
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGF 183 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs 183 (999)
+|+|.|+...+..++| ++.|.+||.|.-|.+.+.. ..+||.|.+.+.|.+|+.++.-.
T Consensus 3 il~~~g~~~~~~re~i---K~~f~~~g~V~yVD~~~G~-----------~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 3 ILKFSGLGEPTSREDI---KEAFSQFGEVAYVDFSRGD-----------TEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp EEEEEE--SS--HHHH---HHHT-SS--EEEEE--TT------------SEEEEEESS---HHHHHHHHHHT
T ss_pred EEEEecCCCCcCHHHH---HHHHHhcCCcceEEecCCC-----------CEEEEEECCcchHHHHHHHHHhc
Confidence 6899999999988777 4999999999998886531 25899999999999999887654
No 104
>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=96.31 E-value=0.004 Score=47.05 Aligned_cols=45 Identities=31% Similarity=0.834 Sum_probs=33.7
Q ss_pred CCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001894 8 TCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (999)
Q Consensus 8 ~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpY 60 (999)
.|++|.+.+. ..+..-+||..+|.-|+...... ...+||.||+++
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 105
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=96.27 E-value=0.0039 Score=65.20 Aligned_cols=59 Identities=24% Similarity=0.632 Sum_probs=42.1
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhh----------ccccCCCCCCCCCCCcccchh
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAE----------KEETEGRCPACRSPYDKEKIV 66 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~----------K~~~ngrCPACRrpYdEe~i~ 66 (999)
+++.+||+|.+.+ +|... -+||...|+-|..+...... ......+||-||+++....+.
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 4568999999987 35544 36999999999987653210 012356899999999877664
No 106
>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]
Probab=96.22 E-value=0.0068 Score=71.20 Aligned_cols=77 Identities=17% Similarity=0.349 Sum_probs=59.4
Q ss_pred cCEEEEeCCCCCC-ChHHHhhh--hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001894 110 RNLVYIVGLPLNL-GDEDLLQR--REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (999)
Q Consensus 110 RNLVYVvGLp~~I-AdEDLLRk--~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD 186 (999)
.+.|+|-|+|--- +.-+.||. ..+|++||+|++++++.+..++ ..|++|+.|.+..+|..|++.+||..||
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 3568888888532 22234443 7899999999999999887765 2467999999999999999999999987
Q ss_pred C-eEEEE
Q 001894 187 G-KSLKA 192 (999)
Q Consensus 187 G-RvLRA 192 (999)
- .++.|
T Consensus 132 knHtf~v 138 (698)
T KOG2314|consen 132 KNHTFFV 138 (698)
T ss_pred ccceEEe
Confidence 4 34444
No 107
>PHA02929 N1R/p28-like protein; Provisional
Probab=96.09 E-value=0.0054 Score=65.88 Aligned_cols=52 Identities=23% Similarity=0.588 Sum_probs=39.3
Q ss_pred ccCCCCCCcccCCCcCCC----CccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 4 EGEKTCPLCAEEMDLTDQ----QLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~----~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
.++.+||+|+|++..... --...+||...|.-|...-+. ....||-||+++.
T Consensus 172 ~~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~------~~~tCPlCR~~~~ 227 (238)
T PHA02929 172 SKDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKK------EKNTCPVCRTPFI 227 (238)
T ss_pred CCCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHh------cCCCCCCCCCEee
Confidence 356899999999753321 124568999999999887753 4678999999764
No 108
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=96.06 E-value=0.036 Score=64.52 Aligned_cols=111 Identities=14% Similarity=0.289 Sum_probs=79.9
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.|-+-||||..+.+||| ++|+-. +|..++++++.. .+++-|||.|..+||+.+|++. |-..+.-|.|.
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 46678999999999997 899999 688888887632 1456799999999999999985 77888999999
Q ss_pred EEEcCCCccccccCCCCCCCC---CCcccccCCCCCCCccHHHHHhhcc
Q 001894 192 ACFGTTKYCHAWLRNVPCTNP---DCLYLHEVGSQEDSFTKDEIISAYT 237 (999)
Q Consensus 192 ASFGTTKYCssFLRn~~C~Np---dCmYLHE~g~~~DsfTKeem~~~~t 237 (999)
|-=++.+---..+|...-... --..|--+ -=+.|++||.....
T Consensus 80 Vf~~~~~e~d~~~~~~g~~s~~~d~vVRLRGL---Pfscte~dI~~FFa 125 (510)
T KOG4211|consen 80 VFTAGGAEADWVMRPGGPNSSANDGVVRLRGL---PFSCTEEDIVEFFA 125 (510)
T ss_pred EEccCCccccccccCCCCCCCCCCceEEecCC---CccCcHHHHHHHhc
Confidence 887776666555554443331 11111111 12568888877644
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=96.00 E-value=0.046 Score=51.82 Aligned_cols=82 Identities=20% Similarity=0.248 Sum_probs=65.5
Q ss_pred cCEEEEeCCCCCCChHHHhhh-hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC--
Q 001894 110 RNLVYIVGLPLNLGDEDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE-- 186 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk-~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD-- 186 (999)
|.+|=|-|||.+++.++|+.- .+.| .|+.-=+.++.|-.+. ...|+|||.|.+.+.|.+=.++.+|..+.
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 35678999999999999999999999874
Q ss_pred --CeEEEEEEcCCC
Q 001894 187 --GKSLKACFGTTK 198 (999)
Q Consensus 187 --GRvLRASFGTTK 198 (999)
.++..++||+..
T Consensus 74 ~s~Kvc~i~yAriQ 87 (97)
T PF04059_consen 74 NSKKVCEISYARIQ 87 (97)
T ss_pred CCCcEEEEehhHhh
Confidence 577788888654
No 110
>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]
Probab=95.84 E-value=0.0043 Score=67.32 Aligned_cols=78 Identities=21% Similarity=0.333 Sum_probs=59.2
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccC----C--CC-cEEEEEeCCHHHHHHHHHHhC
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFP----N--NT-CSVYITYSKEEEAVRCIQSVH 181 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p----~--~g-gsAYVTFsr~EDA~rAIqaLN 181 (999)
....||+.+||+.+.---| +++|++||.|-.|.+-......+.+.. + .. --+||.|.++..|.++...||
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 4588999999999965444 599999999999999765443100000 0 00 014899999999999999999
Q ss_pred CCccCCeE
Q 001894 182 GFVLEGKS 189 (999)
Q Consensus 182 Gs~LDGRv 189 (999)
|.+|+|+.
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=95.54 E-value=0.012 Score=73.88 Aligned_cols=51 Identities=35% Similarity=1.025 Sum_probs=38.4
Q ss_pred CCC--CCcccCC--CcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001894 7 KTC--PLCAEEM--DLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (999)
Q Consensus 7 ~~C--PLC~EeL--DlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe 63 (999)
..| +-|-... |..-....||.|+|.||+-||-.-+. ..|.||+|+.+|...
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~ 179 (1135)
T PLN02248 125 SSCAMPGCDGKVMRDERGEDLLPCECGFKICRDCYIDAVK------SGGICPGCKEPYKVT 179 (1135)
T ss_pred CcccccCcccccccccccccCCcccccchhHHhHhhhhhh------cCCCCCCCccccccc
Confidence 456 5566655 23335689999999999999987652 389999999999543
No 112
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=95.49 E-value=0.0078 Score=65.85 Aligned_cols=85 Identities=14% Similarity=0.226 Sum_probs=71.1
Q ss_pred EEE-EeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 112 LVY-IVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 112 LVY-VvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
++| |++|+..++.++| +++|+.+|.|+.|.+..++.+.. ..++|||.|....++..|+.. ....++|+.+
T Consensus 186 ~~~~~~~~~f~~~~d~~---~~~~~~~~~i~~~r~~~~~~s~~-----~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~ 256 (285)
T KOG4210|consen 186 TIFFVGELDFSLTRDDL---KEHFVSSGEITSVRLPTDEESGD-----SKGFAYVDFSAGNSKKLALND-QTRSIGGRPL 256 (285)
T ss_pred cceeecccccccchHHH---hhhccCcCcceeeccCCCCCccc-----hhhhhhhhhhhchhHHHHhhc-ccCcccCccc
Confidence 456 9999999987777 38999999999999998877653 346789999999999999998 8899999999
Q ss_pred EEEEcCCC---ccccccC
Q 001894 191 KACFGTTK---YCHAWLR 205 (999)
Q Consensus 191 RASFGTTK---YCssFLR 205 (999)
++.++.-. +|.-|..
T Consensus 257 ~~~~~~~~~~~~~~~~~~ 274 (285)
T KOG4210|consen 257 RLEEDEPRPKSDGGLFGN 274 (285)
T ss_pred ccccCCCCcccccccccc
Confidence 99999654 5555543
No 113
>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=95.27 E-value=0.021 Score=47.66 Aligned_cols=50 Identities=22% Similarity=0.337 Sum_probs=38.1
Q ss_pred CCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 6 d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
+..||+|.+.|+ |.... +||+-+|+-|...... .++.||-|++++..+.+
T Consensus 1 ~~~Cpi~~~~~~--~Pv~~--~~G~v~~~~~i~~~~~------~~~~cP~~~~~~~~~~l 50 (63)
T smart00504 1 EFLCPISLEVMK--DPVIL--PSGQTYERRAIEKWLL------SHGTDPVTGQPLTHEDL 50 (63)
T ss_pred CcCCcCCCCcCC--CCEEC--CCCCEEeHHHHHHHHH------HCCCCCCCcCCCChhhc
Confidence 357999999986 44433 6799988888887763 16899999999865544
No 114
>KOG0120 consensus Splicing factor U2AF, large subunit (RRM superfamily) [RNA processing and modification]
Probab=95.08 E-value=0.016 Score=67.84 Aligned_cols=84 Identities=19% Similarity=0.300 Sum_probs=71.8
Q ss_pred ccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCc
Q 001894 105 VRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV 184 (999)
Q Consensus 105 VRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~ 184 (999)
+=.++.+.+||+|||..+.+..+. |..+-||.+....+.++..++ +..++||-.|.+.-.+..||..|||..
T Consensus 284 ~~~~~~~ki~v~~lp~~l~~~q~~---Ell~~fg~lk~f~lv~d~~~g-----~skg~af~ey~dpsvtd~A~agLnGm~ 355 (500)
T KOG0120|consen 284 DVPDSPNKIFVGGLPLYLTEDQVK---ELLDSFGPLKAFRLVKDSATG-----NSKGFAFCEYCDPSVTDQAIAGLNGMQ 355 (500)
T ss_pred CcccccchhhhccCcCccCHHHHH---HHHHhcccchhheeecccccc-----cccceeeeeeeCCcchhhhhcccchhh
Confidence 346778999999999999877774 888889999888888887654 345689999999999999999999999
Q ss_pred cCCeEEEEEEcC
Q 001894 185 LEGKSLKACFGT 196 (999)
Q Consensus 185 LDGRvLRASFGT 196 (999)
+.++.|.|+.+-
T Consensus 356 lgd~~lvvq~A~ 367 (500)
T KOG0120|consen 356 LGDKKLVVQRAI 367 (500)
T ss_pred hcCceeEeehhh
Confidence 999999988653
No 115
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=95.05 E-value=0.13 Score=58.65 Aligned_cols=76 Identities=20% Similarity=0.314 Sum_probs=64.8
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
--.+-|.||...--+-|.| ..+|-+||+|.+|..++++. +.|-|.+-+.++.++||..||+..+.|..
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 3468899998765566655 58999999999999998753 36899999999999999999999999999
Q ss_pred EEEEEcCC
Q 001894 190 LKACFGTT 197 (999)
Q Consensus 190 LRASFGTT 197 (999)
|.+++..-
T Consensus 355 l~v~~SkQ 362 (494)
T KOG1456|consen 355 LNVCVSKQ 362 (494)
T ss_pred EEEeeccc
Confidence 99987653
No 116
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=95.02 E-value=0.013 Score=62.24 Aligned_cols=75 Identities=23% Similarity=0.374 Sum_probs=57.6
Q ss_pred ccccccccc--CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHH
Q 001894 102 LSSVRVIQR--NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (999)
Q Consensus 102 LanVRVIQR--NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqa 179 (999)
+...+|.-+ --+.|-+|+.++...+| .++|++||++...++. ...+||.|+.++||.+||..
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 33556677777766677 5999999999555542 13589999999999999999
Q ss_pred hCCCccCCeEEEE
Q 001894 180 VHGFVLEGKSLKA 192 (999)
Q Consensus 180 LNGs~LDGRvLRA 192 (999)
|+|..+.|+.|++
T Consensus 153 l~~~~~~~~~l~~ 165 (216)
T KOG0106|consen 153 LDGKKLNGRRISV 165 (216)
T ss_pred ccchhhcCceeee
Confidence 9999999999998
No 117
>KOG1190 consensus Polypyrimidine tract-binding protein [RNA processing and modification]
Probab=94.98 E-value=0.028 Score=64.36 Aligned_cols=69 Identities=22% Similarity=0.343 Sum_probs=53.7
Q ss_pred eCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc-CC-eEEEEE
Q 001894 116 VGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL-EG-KSLKAC 193 (999)
Q Consensus 116 vGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~L-DG-RvLRAS 193 (999)
.++-+.++- |+| +..|++||+|.||+--.. +.+|.|-|.|.+.+.|..|-.+|||.-| +| -.||+.
T Consensus 156 e~m~ypVsl-DVL--HqvFS~fG~VlKIiTF~K---------nn~FQALvQy~d~~sAq~AK~aLdGqnIyngcCtLrId 223 (492)
T KOG1190|consen 156 ENMFYPVSL-DVL--HQVFSKFGFVLKIITFTK---------NNGFQALVQYTDAVSAQAAKLALDGQNIYNGCCTLRID 223 (492)
T ss_pred ccceeeeEH-HHH--HHHHhhcceeEEEEEEec---------ccchhhhhhccchhhHHHHHHhccCCcccCceeEEEee
Confidence 334444433 666 799999999999986532 3578999999999999999999999764 56 488988
Q ss_pred EcC
Q 001894 194 FGT 196 (999)
Q Consensus 194 FGT 196 (999)
|..
T Consensus 224 ~Sk 226 (492)
T KOG1190|consen 224 FSK 226 (492)
T ss_pred hhh
Confidence 864
No 118
>KOG2177 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=94.74 E-value=0.015 Score=57.35 Aligned_cols=48 Identities=31% Similarity=0.696 Sum_probs=39.5
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
+++..||+|.+.|... .--+||.-+|..|...+.. ..-+||.||.++.
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 5679999999999855 5567999999999999964 3579999995444
No 119
>PLN02195 cellulose synthase A
Probab=94.54 E-value=0.026 Score=70.26 Aligned_cols=57 Identities=30% Similarity=0.800 Sum_probs=47.0
Q ss_pred CCcccCCCCCCcccCCCcCC--CCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001894 1 MSDEGEKTCPLCAEEMDLTD--QQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (999)
Q Consensus 1 msDd~d~~CPLC~EeLDlTD--~~F~PC-~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdE 62 (999)
|-+.....|.+|-++++++. ..|.-| .|+|.+|+-||..=+ .+.+-.||-|...|.|
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 34455679999999887765 467889 899999999997654 4688999999999984
No 120
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=94.46 E-value=0.035 Score=63.23 Aligned_cols=81 Identities=21% Similarity=0.431 Sum_probs=62.2
Q ss_pred ccccccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEE---EEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHH
Q 001894 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK---VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCI 177 (999)
Q Consensus 101 ~LanVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~K---IvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAI 177 (999)
+....|+ |+.|-..|||+..+.|||| ++||.|-+-++ |-|..+..+ .+++-|||.|.+.|+|..|.
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 4444444 8999999999999999999 89999987655 334444333 25678999999999999999
Q ss_pred HHhCCCccCCeEEEE
Q 001894 178 QSVHGFVLEGKSLKA 192 (999)
Q Consensus 178 qaLNGs~LDGRvLRA 192 (999)
+..+.....+|+|.+
T Consensus 342 qk~hk~~mk~RYiEv 356 (508)
T KOG1365|consen 342 QKCHKKLMKSRYIEV 356 (508)
T ss_pred HHHHHhhcccceEEE
Confidence 998876665555554
No 121
>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]
Probab=94.23 E-value=0.075 Score=59.18 Aligned_cols=65 Identities=23% Similarity=0.401 Sum_probs=52.4
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
.-|-|.|.++.-. .=+| ..|.+||.|+|.+... .+...||.|..+-+|.+||.. ||..|+|-++
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 3455 6999999999999752 345789999999999999986 9999999765
Q ss_pred E
Q 001894 191 K 191 (999)
Q Consensus 191 R 191 (999)
-
T Consensus 262 i 262 (350)
T KOG4285|consen 262 I 262 (350)
T ss_pred E
Confidence 3
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=94.17 E-value=0.027 Score=44.14 Aligned_cols=39 Identities=31% Similarity=0.980 Sum_probs=29.7
Q ss_pred CCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCC
Q 001894 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (999)
Q Consensus 9 CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPAC 56 (999)
||+|.+.+. | .+.--+||.-+|.-||.+.++ . +.+||.|
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 434578999999999999874 2 5899988
No 123
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=94.09 E-value=0.044 Score=59.86 Aligned_cols=73 Identities=15% Similarity=0.289 Sum_probs=60.3
Q ss_pred EEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEE
Q 001894 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKA 192 (999)
Q Consensus 113 VYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRA 192 (999)
||-+-|.-.+.+ |+| ...|.+|=.-.+-.|.+++.|+. ..++.||.|.+.+|+.+|+..|||..++.|+|++
T Consensus 193 IfcgdlgNevnd-~vl--~raf~Kfpsf~~akviRdkRTgK-----SkgygfVSf~~pad~~rAmrem~gkyVgsrpikl 264 (290)
T KOG0226|consen 193 IFCGDLGNEVND-DVL--ARAFKKFPSFQKAKVIRDKRTGK-----SKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKL 264 (290)
T ss_pred eecccccccccH-HHH--HHHHHhccchhhccccccccccc-----cccceeeeecCHHHHHHHHHhhcccccccchhHh
Confidence 577777777754 555 36999999999999999988763 3346799999999999999999999999999875
Q ss_pred E
Q 001894 193 C 193 (999)
Q Consensus 193 S 193 (999)
-
T Consensus 265 R 265 (290)
T KOG0226|consen 265 R 265 (290)
T ss_pred h
Confidence 4
No 124
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=94.07 E-value=0.12 Score=52.49 Aligned_cols=52 Identities=25% Similarity=0.539 Sum_probs=41.4
Q ss_pred hhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEcCC
Q 001894 132 EYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGTT 197 (999)
Q Consensus 132 EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASFGTT 197 (999)
+.|.+||+++=|++.. ..-+|||.+-+.|.+|+. +||..+.|+.|++..-|+
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 236999999999999887 799999999999997654
No 125
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.91 E-value=0.091 Score=60.32 Aligned_cols=52 Identities=23% Similarity=0.673 Sum_probs=40.1
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
+++..||+|.+.|. +-.. =+||..+|.-|....+. ..+.||.||.++.+..+
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 126
>KOG0320 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=93.85 E-value=0.042 Score=57.32 Aligned_cols=52 Identities=23% Similarity=0.740 Sum_probs=40.9
Q ss_pred CCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 6 d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
-..||+||+.+. .+.-.-=+||.-+|.-|....+. ....||-||+..++..+
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 367999999874 44546679999999999998875 36789999997766544
No 127
>COG5236 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=93.83 E-value=0.037 Score=62.39 Aligned_cols=53 Identities=26% Similarity=0.628 Sum_probs=43.8
Q ss_pred cccCCCCCCcccCCCcCCCCcccc--CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 3 DEGEKTCPLCAEEMDLTDQQLKPC--KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~F~PC--~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
|||++.|-+|.+.+. +-| ||+.|||.-|--|++.+. +..-||-||.+.++-.|
T Consensus 58 DEen~~C~ICA~~~T------Ys~~~PC~H~~CH~Ca~RlRALY----~~K~C~~CrTE~e~V~f 112 (493)
T COG5236 58 DEENMNCQICAGSTT------YSARYPCGHQICHACAVRLRALY----MQKGCPLCRTETEAVVF 112 (493)
T ss_pred ccccceeEEecCCce------EEEeccCCchHHHHHHHHHHHHH----hccCCCccccccceEEE
Confidence 678899999999985 344 789999999999999753 67889999999876433
No 128
>PF14634 zf-RING_5: zinc-RING finger domain
Probab=93.65 E-value=0.069 Score=43.04 Aligned_cols=44 Identities=25% Similarity=0.722 Sum_probs=36.4
Q ss_pred CCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 8 TCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 8 ~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
.|++|.+++ ..+..++-=.||..+|.-|...+. .....||.||+
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 129
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=93.54 E-value=0.064 Score=49.57 Aligned_cols=53 Identities=25% Similarity=0.836 Sum_probs=24.6
Q ss_pred cCCCCCCcccCCCcC--CCCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001894 5 GEKTCPLCAEEMDLT--DQQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (999)
Q Consensus 5 ~d~~CPLC~EeLDlT--D~~F~PC-~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdE 62 (999)
...+|.+|-+.+-++ -..|.-| .|+|-||+-||..=+. +.+-.||-|+.+|..
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 130
>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=93.48 E-value=0.082 Score=38.48 Aligned_cols=39 Identities=31% Similarity=0.872 Sum_probs=29.6
Q ss_pred CCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCC
Q 001894 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (999)
Q Consensus 9 CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPAC 56 (999)
|++|.+.. .....-+||..+|..|+..+.+ .....||.|
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 346789987
No 131
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=92.70 E-value=0.097 Score=52.61 Aligned_cols=57 Identities=26% Similarity=0.785 Sum_probs=44.1
Q ss_pred cccCCCCCCcccCCCcCCCCc-cccCC-CCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccc
Q 001894 3 DEGEKTCPLCAEEMDLTDQQL-KPCKC-GYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEK 64 (999)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~F-~PC~C-GYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~ 64 (999)
|.---+|.+|-|-- +|..| +|=.| ||.||--||-.+-..+ +....||+|+.-|..+.
T Consensus 77 d~~lYeCnIC~etS--~ee~FLKPneCCgY~iCn~Cya~LWK~~---~~ypvCPvCkTSFKss~ 135 (140)
T PF05290_consen 77 DPKLYECNICKETS--AEERFLKPNECCGYSICNACYANLWKFC---NLYPVCPVCKTSFKSSS 135 (140)
T ss_pred CCCceeccCccccc--chhhcCCcccccchHHHHHHHHHHHHHc---ccCCCCCcccccccccc
Confidence 33446899999875 45555 88765 9999999999998754 47899999999775443
No 132
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=92.63 E-value=0.2 Score=58.87 Aligned_cols=69 Identities=22% Similarity=0.327 Sum_probs=58.4
Q ss_pred ccccccccCEEEEeCCCCCCChHHHhhhhhhhc-CCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHH
Q 001894 103 SSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFG-QYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQS 179 (999)
Q Consensus 103 anVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFG-QYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqa 179 (999)
.+..+--|-+|||+|||--++-+||- .+|. -||.|.=+-|-+|.+.+ -+.|.+=|||++...-.+||.+
T Consensus 363 ~sq~lDprrTVFVGgvprpl~A~eLA---~imd~lyGgV~yaGIDtD~k~K-----YPkGaGRVtFsnqqsYi~AIsa 432 (520)
T KOG0129|consen 363 HNQPIDPRRTVFVGGLPRPLTAEELA---MIMEDLFGGVLYVGIDTDPKLK-----YPKGAGRVTFSNQQAYIKAISA 432 (520)
T ss_pred cCcccCccceEEecCCCCcchHHHHH---HHHHHhcCceEEEEeccCcccC-----CCCCcceeeecccHHHHHHHhh
Confidence 45677788999999999999999984 6887 89999999998886654 2566789999999999999986
No 133
>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]
Probab=92.32 E-value=0.089 Score=62.61 Aligned_cols=75 Identities=25% Similarity=0.294 Sum_probs=56.3
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCce-EEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc--
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKV-LKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL-- 185 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI-~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~L-- 185 (999)
--|.|||.||-.-++.-.| .++.|+-|.| ....| |+.- + -+||+|.+.+||..-+.+|+|...
T Consensus 443 ~SnvlhI~nLvRPFTlgQL---kelL~rtgg~Vee~Wm--DkIK--------S-hCyV~yss~eEA~atr~AlhnV~WP~ 508 (718)
T KOG2416|consen 443 PSNVLHIDNLVRPFTLGQL---KELLGRTGGNVEEFWM--DKIK--------S-HCYVSYSSVEEAAATREALHNVQWPP 508 (718)
T ss_pred ccceEeeecccccchHHHH---HHHHhhccCchHHHHH--HHhh--------c-ceeEecccHHHHHHHHHHHhccccCC
Confidence 3589999999988877776 4899955544 44433 2221 1 269999999999999999999875
Q ss_pred -CCeEEEEEEcCC
Q 001894 186 -EGKSLKACFGTT 197 (999)
Q Consensus 186 -DGRvLRASFGTT 197 (999)
+++-|-|.|++.
T Consensus 509 sNPK~L~adf~~~ 521 (718)
T KOG2416|consen 509 SNPKHLIADFVRA 521 (718)
T ss_pred CCCceeEeeecch
Confidence 667888888763
No 134
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=92.24 E-value=0.088 Score=66.11 Aligned_cols=50 Identities=30% Similarity=0.891 Sum_probs=42.4
Q ss_pred CCCCCcccCCCcCCC--Ccccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 7 KTCPLCAEEMDLTDQ--QLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~--~F~PC-~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
.+|.+|-+++.++.. .|.-| .|+|-+|+-||..=+ .+.+-.||.|+..|.
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 67889 899999999997643 467889999999997
No 135
>PHA02926 zinc finger-like protein; Provisional
Probab=92.17 E-value=0.15 Score=54.98 Aligned_cols=57 Identities=23% Similarity=0.532 Sum_probs=38.4
Q ss_pred cCCCCCCcccCCC----cCCCCcc-ccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 5 GEKTCPLCAEEMD----LTDQQLK-PCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 5 ~d~~CPLC~EeLD----lTD~~F~-PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
.|.+|++|+|.+- ..|+.|- .=+|+.-.|.-|...-++..........||-||..+.
T Consensus 169 kE~eCgICmE~I~eK~~~~eRrFGIL~~CnHsFCl~CIr~Wr~~r~~~~~~rsCPiCR~~f~ 230 (242)
T PHA02926 169 KEKECGICYEVVYSKRLENDRYFGLLDSCNHIFCITCINIWHRTRRETGASDNCPICRTRFR 230 (242)
T ss_pred CCCCCccCccccccccccccccccccCCCCchHHHHHHHHHHHhccccCcCCcCCCCcceee
Confidence 4689999999862 3455553 3389999888887776642111122456999999764
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=92.12 E-value=0.095 Score=40.82 Aligned_cols=41 Identities=27% Similarity=0.726 Sum_probs=32.8
Q ss_pred CCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCC
Q 001894 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (999)
Q Consensus 9 CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPAC 56 (999)
||+|.+.+.... ..=+||..+|..|+.++++. .....||-|
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
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=92.09 E-value=0.39 Score=51.68 Aligned_cols=76 Identities=13% Similarity=0.409 Sum_probs=63.3
Q ss_pred cccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC-
Q 001894 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE- 186 (999)
Q Consensus 108 IQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD- 186 (999)
-+.+.+|+.+||.... .++| ..+|.||.--.+|++... .++.|||+|.+...|.-|.+++.|+.+-
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 3467899999999974 4555 489999999999998643 3457999999999999999999999886
Q ss_pred CeEEEEEEcC
Q 001894 187 GKSLKACFGT 196 (999)
Q Consensus 187 GRvLRASFGT 196 (999)
..+++++|+.
T Consensus 211 ~~~m~i~~a~ 220 (221)
T KOG4206|consen 211 KNTMQITFAK 220 (221)
T ss_pred CceEEecccC
Confidence 8888888763
No 138
>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]
Probab=91.94 E-value=0.49 Score=55.79 Aligned_cols=78 Identities=21% Similarity=0.338 Sum_probs=49.8
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCC--cEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNT--CSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~g--gsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
.|||+|||+.|++++|. ..|++||.+ +|.=...... ....+..| ++||+.|+++.....=|.+..- .-+.-.
T Consensus 261 KVFvGGlp~dise~~i~---~~F~~FGs~-~VdWP~k~~~-~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~-~~~~~y 334 (520)
T KOG0129|consen 261 KVFVGGLPWDITEAQIN---ASFGQFGSV-KVDWPGKANS-RGRAPPKGSYGYVFLVFEDERSVQSLLSACSE-GEGNYY 334 (520)
T ss_pred ceeecCCCccccHHHHH---hhcccccce-EeecCCCccc-cccCCCCCcccEEEEEecchHHHHHHHHHHhh-cccceE
Confidence 49999999999888875 799999987 3443321111 11223222 4899999998877666665442 233345
Q ss_pred EEEEEc
Q 001894 190 LKACFG 195 (999)
Q Consensus 190 LRASFG 195 (999)
++|+--
T Consensus 335 f~vss~ 340 (520)
T KOG0129|consen 335 FKVSSP 340 (520)
T ss_pred EEEecC
Confidence 666633
No 139
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=91.93 E-value=0.35 Score=56.74 Aligned_cols=73 Identities=19% Similarity=0.385 Sum_probs=56.0
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEE-EEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK-VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~K-IvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
-.|=+.|||+.++++||. ++|.--=-+.+ |.+..++.. .+++-|||.|+++|.|+.|++. |-..|.-|.
T Consensus 104 ~vVRLRGLPfscte~dI~---~FFaGL~Iv~~gi~l~~d~rg------R~tGEAfVqF~sqe~ae~Al~r-hre~iGhRY 173 (510)
T KOG4211|consen 104 GVVRLRGLPFSCTEEDIV---EFFAGLEIVPDGILLPMDQRG------RPTGEAFVQFESQESAEIALGR-HRENIGHRY 173 (510)
T ss_pred ceEEecCCCccCcHHHHH---HHhcCCcccccceeeeccCCC------CcccceEEEecCHHHHHHHHHH-HHHhhccce
Confidence 357789999999999995 89998855555 334444433 2577899999999999999986 556788888
Q ss_pred EEEE
Q 001894 190 LKAC 193 (999)
Q Consensus 190 LRAS 193 (999)
|-|-
T Consensus 174 IEvF 177 (510)
T KOG4211|consen 174 IEVF 177 (510)
T ss_pred EEee
Confidence 8764
No 140
>PLN02400 cellulose synthase
Probab=91.67 E-value=0.085 Score=66.46 Aligned_cols=49 Identities=22% Similarity=0.885 Sum_probs=42.0
Q ss_pred CCCCcccCCCcCCC--Ccccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 8 TCPLCAEEMDLTDQ--QLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 8 ~CPLC~EeLDlTD~--~F~PC-~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
+|.+|-+++.+|.. .|.-| .|+|-+|+-||..= +.+.+-.||-|+..|.
T Consensus 38 iCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEYE-----RkeGnq~CPQCkTrYk 89 (1085)
T PLN02400 38 ICQICGDDVGVTETGDVFVACNECAFPVCRPCYEYE-----RKDGTQCCPQCKTRYR 89 (1085)
T ss_pred eeeecccccCcCCCCCEEEEEccCCCccccchhhee-----cccCCccCcccCCccc
Confidence 89999999876654 68899 89999999999764 3468889999999997
No 141
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=91.66 E-value=0.39 Score=58.34 Aligned_cols=75 Identities=17% Similarity=0.284 Sum_probs=61.2
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.|-+-|+|.+++-|||+ |||.-|-.|-.-++.+-.+-+ -+++-+-|-|++.|||.+|...+|+..|..|+|.
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 45677999999999998 899999877665554433322 2567789999999999999999999999999998
Q ss_pred EEE
Q 001894 192 ACF 194 (999)
Q Consensus 192 ASF 194 (999)
+-+
T Consensus 941 l~i 943 (944)
T KOG4307|consen 941 LRI 943 (944)
T ss_pred EEe
Confidence 754
No 142
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=91.62 E-value=0.097 Score=65.93 Aligned_cols=50 Identities=22% Similarity=0.799 Sum_probs=42.8
Q ss_pred CCCCCcccCCCcCCC--Ccccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 7 KTCPLCAEEMDLTDQ--QLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~--~F~PC-~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
.+|.+|-+++.+|.. .|.-| .|||-+|+-||..=+ .+.+-.||-|+..|.
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 143
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=91.43 E-value=0.17 Score=54.84 Aligned_cols=64 Identities=14% Similarity=0.327 Sum_probs=49.7
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~L 185 (999)
..++||.||.+++++++| +.+|..|--...+.|-.. +....|||.|+..|.|..|+..|.|+.|
T Consensus 210 cstlfianl~~~~~ed~l---~~~~~~~~gf~~l~~~~~---------~g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 210 CSTLFIANLGPNCTEDEL---KQLLSRYPGFHILKIRAR---------GGMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hhhHhhhccCCCCCHHHH---HHHHHhCCCceEEEEecC---------CCcceEeecHHHHHHHHHHHHHhhccee
Confidence 357899999999876665 378888876655555221 2346799999999999999999999876
No 144
>PF04641 Rtf2: Rtf2 RING-finger
Probab=91.25 E-value=0.23 Score=53.45 Aligned_cols=64 Identities=27% Similarity=0.659 Sum_probs=42.4
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhcccchhHH
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCER 74 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i~~~~~~~ee 74 (999)
+..-.||++..+|.-.=.-.+.-+|| |.||+.-|.++ + ....||.|-.+|.++.|+.+.+..++
T Consensus 111 ~~~~~CPvt~~~~~~~~~fv~l~~cG---~V~s~~alke~--k--~~~~Cp~c~~~f~~~DiI~Lnp~~ee 174 (260)
T PF04641_consen 111 EGRFICPVTGKEFNGKHKFVYLRPCG---CVFSEKALKEL--K--KSKKCPVCGKPFTEEDIIPLNPPEEE 174 (260)
T ss_pred CceeECCCCCcccCCceeEEEEcCCC---CEeeHHHHHhh--c--ccccccccCCccccCCEEEecCCccH
Confidence 44578999999994322233445788 45566655543 2 35679999999998888766554443
No 145
>KOG3002 consensus Zn finger protein [General function prediction only]
Probab=90.64 E-value=0.18 Score=55.98 Aligned_cols=47 Identities=28% Similarity=0.747 Sum_probs=41.2
Q ss_pred cccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
+.+-.+||.|.+.|. ...+-|.=|.-.|-.|--+. ..+||.||.++.
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 78899999999999998765 469999999998
No 146
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=90.61 E-value=0.23 Score=61.52 Aligned_cols=77 Identities=17% Similarity=0.210 Sum_probs=63.8
Q ss_pred ccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001894 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (999)
Q Consensus 107 VIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD 186 (999)
+.--.-++|+||.+.....-++ ..|+.||.|..|.+-+. -.+|||.|+...-|..|...|-|+.++
T Consensus 452 st~ttr~~sgglg~w~p~~~l~---r~fd~fGpir~Idy~hg-----------q~yayi~yes~~~aq~a~~~~rgap~G 517 (975)
T KOG0112|consen 452 STPTTRLQSGGLGPWSPVSRLN---REFDRFGPIRIIDYRHG-----------QPYAYIQYESPPAAQAATHDMRGAPLG 517 (975)
T ss_pred cccceeeccCCCCCCChHHHHH---HHhhccCcceeeecccC-----------CcceeeecccCccchhhHHHHhcCcCC
Confidence 4555678999999998776665 69999999999887321 136899999999999999999999998
Q ss_pred C--eEEEEEEcCC
Q 001894 187 G--KSLKACFGTT 197 (999)
Q Consensus 187 G--RvLRASFGTT 197 (999)
| |.|||.|+.+
T Consensus 518 ~P~~r~rvdla~~ 530 (975)
T KOG0112|consen 518 GPPRRLRVDLASP 530 (975)
T ss_pred CCCcccccccccC
Confidence 7 7799998743
No 147
>PF15227 zf-C3HC4_4: zinc finger of C3HC4-type, RING; PDB: 2EGP_A 2ECV_A 2ECJ_A 2YSL_A 2YSJ_A.
Probab=90.50 E-value=0.2 Score=40.57 Aligned_cols=42 Identities=24% Similarity=0.717 Sum_probs=27.4
Q ss_pred CCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCC
Q 001894 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPAC 56 (999)
Q Consensus 9 CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPAC 56 (999)
||+|.+-|. +=..-+||+..|+.|..++.+.. ......||-|
T Consensus 1 CpiC~~~~~----~Pv~l~CGH~FC~~Cl~~~~~~~--~~~~~~CP~C 42 (42)
T PF15227_consen 1 CPICLDLFK----DPVSLPCGHSFCRSCLERLWKEP--SGSGFSCPEC 42 (42)
T ss_dssp ETTTTSB-S----SEEE-SSSSEEEHHHHHHHHCCS--SSST---SSS
T ss_pred CCccchhhC----CccccCCcCHHHHHHHHHHHHcc--CCcCCCCcCC
Confidence 899999984 34446889999999999997521 2222689987
No 148
>KOG1456 consensus Heterogeneous nuclear ribonucleoprotein L (contains RRM repeats) [RNA processing and modification]
Probab=89.64 E-value=1.3 Score=51.07 Aligned_cols=72 Identities=21% Similarity=0.317 Sum_probs=58.0
Q ss_pred EeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc-CC-eEEEE
Q 001894 115 IVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL-EG-KSLKA 192 (999)
Q Consensus 115 VvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~L-DG-RvLRA 192 (999)
|.+--+.|+. |+| +.+--.-|+|+.|+|.+. .+..|-|+|++.+.|.+|-.+|||..| -| -+||+
T Consensus 127 IlNp~YpItv-DVl--y~Icnp~GkVlRIvIfkk----------ngVQAmVEFdsv~~AqrAk~alNGADIYsGCCTLKI 193 (494)
T KOG1456|consen 127 ILNPQYPITV-DVL--YTICNPQGKVLRIVIFKK----------NGVQAMVEFDSVEVAQRAKAALNGADIYSGCCTLKI 193 (494)
T ss_pred eecCccccch-hhh--hhhcCCCCceEEEEEEec----------cceeeEEeechhHHHHHHHhhcccccccccceeEEE
Confidence 4444456654 556 689999999999999875 246799999999999999999999875 45 69999
Q ss_pred EEcCCCc
Q 001894 193 CFGTTKY 199 (999)
Q Consensus 193 SFGTTKY 199 (999)
.|++.-.
T Consensus 194 eyAkP~r 200 (494)
T KOG1456|consen 194 EYAKPTR 200 (494)
T ss_pred EecCcce
Confidence 9997643
No 149
>PF13445 zf-RING_UBOX: RING-type zinc-finger; PDB: 2CT2_A.
Probab=89.60 E-value=0.22 Score=41.01 Aligned_cols=43 Identities=23% Similarity=0.677 Sum_probs=22.2
Q ss_pred CCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCC
Q 001894 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCP 54 (999)
Q Consensus 9 CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCP 54 (999)
||+|.| ++-++..-+--+||+-||+-|..++.... ....-+||
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 86555544556799999999999997521 12345676
No 150
>KOG0317 consensus Predicted E3 ubiquitin ligase, integral peroxisomal membrane protein [Posttranslational modification, protein turnover, chaperones]
Probab=88.35 E-value=0.4 Score=53.27 Aligned_cols=53 Identities=28% Similarity=0.789 Sum_probs=34.2
Q ss_pred cccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
++....|-||+|.+. |...- |||.-.|++| |++...+ ..-||-||.......+
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 355688999999982 22222 7899855555 5553322 2239999998766554
No 151
>KOG1855 consensus Predicted RNA-binding protein [General function prediction only]
Probab=88.24 E-value=0.47 Score=55.09 Aligned_cols=90 Identities=19% Similarity=0.253 Sum_probs=64.6
Q ss_pred ccccccccc--ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeec---CCCcccccCC------CCcEEEEEeC
Q 001894 100 QQLSSVRVI--QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRT---AAGVIQQFPN------NTCSVYITYS 168 (999)
Q Consensus 100 ~~LanVRVI--QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrd---k~T~~qq~p~------~ggsAYVTFs 168 (999)
..|...+.- |--+|.|-+||..-..|.|+ ++||.+|.|..|.|-+- ....+ +.+. ..-.|+|.|.
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 344554443 77789999999998888886 79999999999999875 22211 1121 2346899999
Q ss_pred CHHHHHHHHHHhCCCccCCeEEEEE
Q 001894 169 KEEEAVRCIQSVHGFVLEGKSLKAC 193 (999)
Q Consensus 169 r~EDA~rAIqaLNGs~LDGRvLRAS 193 (999)
..+.|.+|.+.++....--..|||-
T Consensus 295 ~~~~A~KA~e~~~~e~~wr~glkvk 319 (484)
T KOG1855|consen 295 EVEAARKARELLNPEQNWRMGLKVK 319 (484)
T ss_pred hhHHHHHHHHhhchhhhhhhcchhh
Confidence 9999999999987665433344443
No 152
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=87.40 E-value=0.78 Score=50.52 Aligned_cols=69 Identities=17% Similarity=0.281 Sum_probs=54.9
Q ss_pred cccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhC
Q 001894 104 SVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH 181 (999)
Q Consensus 104 nVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLN 181 (999)
.||.--+--|||++|...+..|.++ +-|.+||.|..-||..|.... .+.-..|.|..+-.|.+|.....
T Consensus 25 r~rfa~~a~l~V~nl~~~~sndll~---~~f~~fg~~e~av~~vD~r~k------~t~eg~v~~~~k~~a~~a~rr~~ 93 (275)
T KOG0115|consen 25 RVRFAMHAELYVVNLMQGASNDLLE---QAFRRFGPIERAVAKVDDRGK------PTREGIVEFAKKPNARKAARRCR 93 (275)
T ss_pred EEEeeccceEEEEecchhhhhHHHH---HhhhhcCccchheeeeccccc------ccccchhhhhcchhHHHHHHHhc
Confidence 3455566889999999998776664 899999999998888775432 23446899999999999998873
No 153
>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=87.35 E-value=0.94 Score=47.33 Aligned_cols=56 Identities=27% Similarity=0.469 Sum_probs=42.7
Q ss_pred hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhC--CCccCCeEEEEEEcCC
Q 001894 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH--GFVLEGKSLKACFGTT 197 (999)
Q Consensus 131 ~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLN--Gs~LDGRvLRASFGTT 197 (999)
.++|.+|+.+..+.+.+.- ..+-|.|.+.++|.+|...++ +..+.|..||+-||..
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 5899999999999887542 247899999999999999999 9999999999999943
No 154
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=87.03 E-value=1.8 Score=38.62 Aligned_cols=56 Identities=27% Similarity=0.543 Sum_probs=43.2
Q ss_pred cccCEEEEeCCCCCCChHHHhhhhhhhcCC----CceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001894 108 IQRNLVYIVGLPLNLGDEDLLQRREYFGQY----GKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (999)
Q Consensus 108 IQRNLVYVvGLp~~IAdEDLLRk~EyFGQY----GKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaL 180 (999)
++-+.|+|.|+. .+..+|++ .||..| + ..+|.-.-| -++=|.|.+.+.|.+|+.+|
T Consensus 3 ~rpeavhirGvd-~lsT~dI~---~y~~~y~~~~~-~~~IEWIdD------------tScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 3 IRPEAVHIRGVD-ELSTDDIK---AYFSEYFDEEG-PFRIEWIDD------------TSCNVVFKDEETAARALVAL 62 (62)
T ss_pred ceeceEEEEcCC-CCCHHHHH---HHHHHhcccCC-CceEEEecC------------CcEEEEECCHHHHHHHHHcC
Confidence 567889999985 46788986 799988 4 345655443 15789999999999999875
No 155
>COG5432 RAD18 RING-finger-containing E3 ubiquitin ligase [Signal transduction mechanisms]
Probab=85.04 E-value=0.41 Score=53.39 Aligned_cols=45 Identities=29% Similarity=0.789 Sum_probs=35.6
Q ss_pred CCCCCcccCCCcCCCCcccc--CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001894 7 KTCPLCAEEMDLTDQQLKPC--KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC--~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe 63 (999)
.-|-+|-+-+. -|| +||.-+|-||-.+-+ ..+..||+||.+.-|.
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 478 899999999977554 3578999999976554
No 156
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=84.97 E-value=0.67 Score=53.23 Aligned_cols=50 Identities=30% Similarity=0.750 Sum_probs=38.1
Q ss_pred cCCCCCCcccCCCcCC---------CCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001894 5 GEKTCPLCAEEMDLTD---------QQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (999)
Q Consensus 5 ~d~~CPLC~EeLDlTD---------~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpY 60 (999)
+|..|.+||+||=-+| ..-|--|||...=+-|...-+| -+--||-||+|.
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 3335579999888888888775 245799999984
No 157
>KOG0802 consensus E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.23 E-value=0.51 Score=55.76 Aligned_cols=54 Identities=22% Similarity=0.539 Sum_probs=40.0
Q ss_pred ccCCCCCCcccCCCcCCCCcccc--CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccc
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPC--KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEK 64 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC--~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~ 64 (999)
..+..|++|.|+|---+. ..|+ +||+..|..|.-.-.+ ..--||-||..+....
T Consensus 289 ~~~~~C~IC~e~l~~~~~-~~~~rL~C~Hifh~~CL~~W~e------r~qtCP~CR~~~~~~~ 344 (543)
T KOG0802|consen 289 LSDELCIICLEELHSGHN-ITPKRLPCGHIFHDSCLRSWFE------RQQTCPTCRTVLYDYV 344 (543)
T ss_pred hcCCeeeeechhhccccc-cccceeecccchHHHHHHHHHH------HhCcCCcchhhhhccc
Confidence 347899999999953322 4444 8999999999887764 2568999999554433
No 158
>KOG2164 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=84.10 E-value=0.76 Score=54.35 Aligned_cols=48 Identities=29% Similarity=0.692 Sum_probs=37.2
Q ss_pred CCCCCCcccCCCcCCCCcccc--CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001894 6 EKTCPLCAEEMDLTDQQLKPC--KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (999)
Q Consensus 6 d~~CPLC~EeLDlTD~~F~PC--~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpY 60 (999)
+..||+|.|+-. .|| .||.-.|.-|.=+..... +-..-+.||=||.-.
T Consensus 186 ~~~CPICL~~~~------~p~~t~CGHiFC~~CiLqy~~~s-~~~~~~~CPiC~s~I 235 (513)
T KOG2164|consen 186 DMQCPICLEPPS------VPVRTNCGHIFCGPCILQYWNYS-AIKGPCSCPICRSTI 235 (513)
T ss_pred CCcCCcccCCCC------cccccccCceeeHHHHHHHHhhh-cccCCccCCchhhhc
Confidence 679999999875 233 499999988887777644 445678999999844
No 159
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=84.01 E-value=0.68 Score=56.42 Aligned_cols=74 Identities=9% Similarity=0.159 Sum_probs=60.3
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEE-EEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLK-VSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~K-IvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
+.|||-+||....+.++. ++|..--.|.+ |.|.+-.... .+.-|||.|.+++++..|..--.-+.++-|.
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 68888778888 7776544332 2456899999999999999887777888899
Q ss_pred EEEE
Q 001894 190 LKAC 193 (999)
Q Consensus 190 LRAS 193 (999)
|||.
T Consensus 506 irv~ 509 (944)
T KOG4307|consen 506 IRVD 509 (944)
T ss_pred EEee
Confidence 9975
No 160
>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=83.58 E-value=1.3 Score=49.59 Aligned_cols=53 Identities=26% Similarity=0.608 Sum_probs=39.9
Q ss_pred CCCCcccCC-CcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 8 TCPLCAEEM-DLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 8 ~CPLC~EeL-DlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
-||.|.-.- =--|.-++-=+|||.+|--|.++|.. ...+.||.|-++.-..++
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 161
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=83.24 E-value=0.54 Score=47.93 Aligned_cols=28 Identities=39% Similarity=1.055 Sum_probs=23.6
Q ss_pred cCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001894 26 CKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (999)
Q Consensus 26 C~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdE 62 (999)
|+| -++|.-|...-. ..+||+|+.||=.
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=82.57 E-value=3.5 Score=39.11 Aligned_cols=56 Identities=14% Similarity=0.422 Sum_probs=42.2
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhC
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH 181 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLN 181 (999)
|.-||-+..|..-...||+ ++|..||.|.=--|+ + .+|||...+++.|..++..++
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 4457888899999999996 899999998644443 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=81.50 E-value=0.96 Score=40.15 Aligned_cols=52 Identities=21% Similarity=0.353 Sum_probs=35.2
Q ss_pred cCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
++-.||||.+.|. |--.- +||+-+|+-|+.+-+. ...+.||-|+++..++.+
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
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=81.33 E-value=1 Score=49.79 Aligned_cols=47 Identities=28% Similarity=0.550 Sum_probs=32.2
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
+.|-.|+||+|++. .+-==+||.-.|++|.--... . ..-..||-||+
T Consensus 213 ~~d~kC~lC~e~~~----~ps~t~CgHlFC~~Cl~~~~t-~---~k~~~CplCRa 259 (271)
T COG5574 213 LADYKCFLCLEEPE----VPSCTPCGHLFCLSCLLISWT-K---KKYEFCPLCRA 259 (271)
T ss_pred ccccceeeeecccC----CcccccccchhhHHHHHHHHH-h---hccccCchhhh
Confidence 45678999999985 222227899977777665332 1 13467999998
No 165
>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]
Probab=80.36 E-value=4.2 Score=47.24 Aligned_cols=69 Identities=22% Similarity=0.364 Sum_probs=48.4
Q ss_pred EEEeCCCCCCChHHHhhhhhhhcCCCc----eEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 113 VYIVGLPLNLGDEDLLQRREYFGQYGK----VLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 113 VYVvGLp~~IAdEDLLRk~EyFGQYGK----I~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
|-..|||+..++.|++ ++|++--. ..+|...+...++ +++-|||.|..+|+|..|+.. |-..++-|
T Consensus 164 vRmRGLPfdat~~dVv---~FF~~~cpv~~g~egvLFV~rpdgr------pTGdAFvlfa~ee~aq~aL~k-hrq~iGqR 233 (508)
T KOG1365|consen 164 VRMRGLPFDATALDVV---EFFGPPCPVTGGTEGVLFVTRPDGR------PTGDAFVLFACEEDAQFALRK-HRQNIGQR 233 (508)
T ss_pred EEecCCCCCcchHHHH---HhcCCCCcccCCccceEEEECCCCC------cccceEEEecCHHHHHHHHHH-HHHHHhHH
Confidence 4457999999999997 99985433 3355555554432 567899999999999999975 33334444
Q ss_pred EEE
Q 001894 189 SLK 191 (999)
Q Consensus 189 vLR 191 (999)
+|.
T Consensus 234 YIE 236 (508)
T KOG1365|consen 234 YIE 236 (508)
T ss_pred HHH
Confidence 443
No 166
>KOG0311 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=79.72 E-value=0.43 Score=54.34 Aligned_cols=50 Identities=20% Similarity=0.587 Sum_probs=36.9
Q ss_pred cCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001894 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (999)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdE 62 (999)
.+..||+|.+-|. +..-.=.|+..||.-|.-.-+. ..+.-||.||+-...
T Consensus 42 ~~v~c~icl~llk---~tmttkeClhrfc~~ci~~a~r-----~gn~ecptcRk~l~S 91 (381)
T KOG0311|consen 42 IQVICPICLSLLK---KTMTTKECLHRFCFDCIWKALR-----SGNNECPTCRKKLVS 91 (381)
T ss_pred hhhccHHHHHHHH---hhcccHHHHHHHHHHHHHHHHH-----hcCCCCchHHhhccc
Confidence 4578999998875 2233347999999999775543 367889999997754
No 167
>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=79.54 E-value=1 Score=33.42 Aligned_cols=20 Identities=35% Similarity=0.795 Sum_probs=18.9
Q ss_pred ccccccCCCCCCCCCCcccc
Q 001894 199 YCHAWLRNVPCTNPDCLYLH 218 (999)
Q Consensus 199 YCssFLRn~~C~NpdCmYLH 218 (999)
-|.+.|+|..|+.++|.|.|
T Consensus 2 lC~yEl~Gg~Cnd~~C~~QH 21 (23)
T PF10650_consen 2 LCPYELTGGVCNDPDCEFQH 21 (23)
T ss_pred CCccccCCCeeCCCCCCccc
Confidence 48999999999999999999
No 168
>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]
Probab=79.45 E-value=0.93 Score=53.30 Aligned_cols=54 Identities=20% Similarity=0.398 Sum_probs=44.4
Q ss_pred hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEcC
Q 001894 131 REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACFGT 196 (999)
Q Consensus 131 ~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASFGT 196 (999)
...|.+||+|..|.|... .-.|-|||.+..||-+|-+ ..|..|++|.||+-|-.
T Consensus 391 n~hfA~fG~i~n~qv~~~-----------~~~a~vTF~t~aeag~a~~-s~~avlnnr~iKl~whn 444 (526)
T KOG2135|consen 391 NPHFAQFGEIENIQVDYS-----------SLHAVVTFKTRAEAGEAYA-SHGAVLNNRFIKLFWHN 444 (526)
T ss_pred hhhhhhcCccccccccCc-----------hhhheeeeeccccccchhc-cccceecCceeEEEEec
Confidence 489999999999998543 1247899999999977754 68999999999998743
No 169
>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=79.01 E-value=2.9 Score=37.58 Aligned_cols=29 Identities=24% Similarity=0.545 Sum_probs=25.7
Q ss_pred EEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 163 VYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 163 AYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
-||.|.+.+||++|..+.||..+.+-.|.
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 170
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=78.65 E-value=2.6 Score=39.81 Aligned_cols=54 Identities=26% Similarity=0.664 Sum_probs=32.6
Q ss_pred cCCCCCCcccCCCcC---------CCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 5 GEKTCPLCAEEMDLT---------DQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 5 ~d~~CPLC~EeLDlT---------D~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
+|+.|++|-.+||.+ |-.+.-+.|+..+-.-|..+=++ ....+++||=||+++.
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 171
>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]
Probab=77.71 E-value=2.2 Score=49.44 Aligned_cols=74 Identities=11% Similarity=0.322 Sum_probs=52.1
Q ss_pred EEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 112 LVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 112 LVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
.|.|.+|.+.++.+.| +-+||-.|+|..+.+.-+.... ..+-..-.+||-|.+...+..|-. |-++.+=|+.|-
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 3569999999999888 4899999999999986532211 122233468999999887776654 555655555443
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=76.77 E-value=4 Score=42.21 Aligned_cols=70 Identities=20% Similarity=0.268 Sum_probs=41.6
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcC-CCceEE--EEE-eecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQ-YGKVLK--VSM-SRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQ-YGKI~K--IvI-nrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~L 185 (999)
+..|-|..||+.+++++++ +.... +|.... .+. ....... .+..-..|||.|.+.+++..=++.+||..+
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 3458889999999999986 55555 555521 111 1111111 111223599999999999999999999764
No 173
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=76.19 E-value=1.1 Score=55.44 Aligned_cols=78 Identities=21% Similarity=0.225 Sum_probs=65.0
Q ss_pred ccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 109 QRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 109 QRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
-|-.|+|-|.|+.-++|++ +.+|.++|.++++.+...+.+. +.+-|||-|.++.+|.+|...+++..+.-+
T Consensus 735 gK~~v~i~g~pf~gt~e~~---k~l~~~~gn~~~~~~vt~r~gk------pkg~a~v~y~~ea~~s~~~~s~d~~~~rE~ 805 (881)
T KOG0128|consen 735 GKISVAISGPPFQGTKEEL---KSLASKTGNVTSLRLVTVRAGK------PKGKARVDYNTEADASRKVASVDVAGKREN 805 (881)
T ss_pred hhhhhheeCCCCCCchHHH---HhhccccCCccccchhhhhccc------cccceeccCCCcchhhhhcccchhhhhhhc
Confidence 3778999999999888887 4899999999999877665543 456799999999999999999998888777
Q ss_pred EEEEEEc
Q 001894 189 SLKACFG 195 (999)
Q Consensus 189 vLRASFG 195 (999)
.+.+.-+
T Consensus 806 ~~~v~vs 812 (881)
T KOG0128|consen 806 NGEVQVS 812 (881)
T ss_pred Ccccccc
Confidence 6666543
No 174
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=76.17 E-value=2.9 Score=48.95 Aligned_cols=76 Identities=26% Similarity=0.346 Sum_probs=59.3
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCc-cCCeE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFV-LEGKS 189 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~-LDGRv 189 (999)
|.+|+++|.+..+..||- ..||.- |+-.+. +.--..++|||.+.++.-|.+||+.++|.. +.|+.
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 678999999999988884 688765 222111 122245689999999999999999999974 89999
Q ss_pred EEEEEcCCCcc
Q 001894 190 LKACFGTTKYC 200 (999)
Q Consensus 190 LRASFGTTKYC 200 (999)
+.+.+...|.-
T Consensus 68 ~e~~~sv~kkq 78 (584)
T KOG2193|consen 68 QEVEHSVPKKQ 78 (584)
T ss_pred eeccchhhHHH
Confidence 99998877654
No 175
>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=75.49 E-value=2.4 Score=37.92 Aligned_cols=47 Identities=21% Similarity=0.622 Sum_probs=30.3
Q ss_pred cCCCCCCcccCCCcC---------CCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCC
Q 001894 5 GEKTCPLCAEEMDLT---------DQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACR 57 (999)
Q Consensus 5 ~d~~CPLC~EeLDlT---------D~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACR 57 (999)
.++.|++|.++|+.. +..+.-=+||.....-|..+-++ .+..||-||
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 11111126899988888777653 344999998
No 176
>KOG4265 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=73.00 E-value=1.8 Score=49.43 Aligned_cols=50 Identities=30% Similarity=0.758 Sum_probs=38.5
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdE 62 (999)
|.-++|=+|+-+- .|....||- -.-+|.-|-.-++ -...+||=||++..+
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 4458999999876 589999993 1227889998886 246899999997754
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=72.22 E-value=0.56 Score=42.73 Aligned_cols=42 Identities=33% Similarity=0.775 Sum_probs=27.2
Q ss_pred CCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001894 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (999)
Q Consensus 6 d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdE 62 (999)
|..||.|-.+|+.++ |--.|..|-.++. ..++||.|..+...
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 468999999999877 5667889998874 57899999998764
No 178
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=71.93 E-value=5.4 Score=48.07 Aligned_cols=84 Identities=18% Similarity=0.310 Sum_probs=57.3
Q ss_pred cccccccC-EEEEeCCCCCCChHHHhhhhhhhcC--CCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001894 104 SVRVIQRN-LVYIVGLPLNLGDEDLLQRREYFGQ--YGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (999)
Q Consensus 104 nVRVIQRN-LVYVvGLp~~IAdEDLLRk~EyFGQ--YGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaL 180 (999)
.||-++|- .|.+.-||.....|++. -+|.- .=+++.+....+ . .-||||++.+||..|.+.|
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 35655554 45566788887777763 56653 345666655332 2 3599999999999999998
Q ss_pred CCC--ccCCeEEEEEEcCCCccccccC
Q 001894 181 HGF--VLEGKSLKACFGTTKYCHAWLR 205 (999)
Q Consensus 181 NGs--~LDGRvLRASFGTTKYCssFLR 205 (999)
-.. ++-|+.|.|-..+ |..|+-
T Consensus 233 reevk~fqgKpImARIKa---intf~p 256 (684)
T KOG2591|consen 233 REEVKTFQGKPIMARIKA---INTFFP 256 (684)
T ss_pred HHHHHhhcCcchhhhhhh---hhcccC
Confidence 764 4889999865444 776653
No 179
>KOG2923 consensus Uncharacterized conserved protein [Function unknown]
Probab=71.83 E-value=1.7 Score=39.25 Aligned_cols=33 Identities=30% Similarity=0.743 Sum_probs=19.9
Q ss_pred CCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 21 QQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 21 ~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
.-++|||||=. |.--++..+.-+.-.+||.|--
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 1111222233456689999964
No 180
>KOG0823 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=70.50 E-value=3 Score=45.36 Aligned_cols=57 Identities=23% Similarity=0.573 Sum_probs=41.1
Q ss_pred cccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchh
Q 001894 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIV 66 (999)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i~ 66 (999)
|...-+|.||.+.-. | .... .||.-.|+=|.|+-+... .....||-|+...++++++
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 389999999999887632 2355689999999988875
No 181
>KOG0112 consensus Large RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=69.04 E-value=1.2 Score=55.56 Aligned_cols=77 Identities=13% Similarity=0.261 Sum_probs=63.3
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
-+||+++|..++++.+| +..|+.||+|.+|.|-+.+... ...+|||.|.+-.-|-.|...+-|..|.--.+
T Consensus 373 rTLf~Gnl~~kl~esei---R~af~e~gkve~VDiKtP~~~~------esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~ 443 (975)
T KOG0112|consen 373 RTLFLGNLDSKLTESEI---RPAFDESGKVEEVDIKTPHIKT------ESAYAFVSLLNTDMTPSAKFEESGPLIGNGTH 443 (975)
T ss_pred hhhhhcCcccchhhhhh---hhhhhhhccccccccccCCCCc------ccchhhhhhhccccCcccchhhcCCccccCcc
Confidence 46899999999998887 4799999999999997654321 23468999999999999999999888766677
Q ss_pred EEEEcC
Q 001894 191 KACFGT 196 (999)
Q Consensus 191 RASFGT 196 (999)
++-||-
T Consensus 444 r~glG~ 449 (975)
T KOG0112|consen 444 RIGLGQ 449 (975)
T ss_pred cccccc
Confidence 777773
No 182
>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]
Probab=68.91 E-value=1.9 Score=49.89 Aligned_cols=51 Identities=29% Similarity=0.725 Sum_probs=44.7
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
+-+..|-+|-|-+-+.|.++.--||...+=.-|.+.|++ .+..-.||+||+
T Consensus 363 e~~L~Cg~CGe~~Glk~e~LqALpCsHIfH~rCl~e~L~----~n~~rsCP~Crk 413 (518)
T KOG1941|consen 363 ETELYCGLCGESIGLKNERLQALPCSHIFHLRCLQEILE----NNGTRSCPNCRK 413 (518)
T ss_pred HHhhhhhhhhhhhcCCcccccccchhHHHHHHHHHHHHH----hCCCCCCccHHH
Confidence 345789999999999999999999999999999999985 356788999995
No 183
>PHA02825 LAP/PHD finger-like protein; Provisional
Probab=68.09 E-value=4 Score=42.45 Aligned_cols=49 Identities=24% Similarity=0.682 Sum_probs=34.1
Q ss_pred ccCCCCCCcccCCCcCCCCccccCC-C-----CcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKC-G-----YEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~C-G-----YQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdE 62 (999)
..+..|-+|.++-+ . -..||.| | .|-|+ .+=.+ ....-+|+-|+.+|.=
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 56789999999965 2 3479999 5 45444 33332 2357799999999963
No 184
>KOG0287 consensus Postreplication repair protein RAD18 [Replication, recombination and repair]
Probab=65.85 E-value=2.2 Score=48.82 Aligned_cols=51 Identities=18% Similarity=0.604 Sum_probs=38.9
Q ss_pred cCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 5 GEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
+-.-|-+|.|-|.+- -+- +|+.-+|-||-...+. ...-||+|+.++.|...
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 346799999988631 223 4999999999887763 57889999998877644
No 185
>PF15023 DUF4523: Protein of unknown function (DUF4523)
Probab=65.32 E-value=23 Score=36.94 Aligned_cols=71 Identities=14% Similarity=0.299 Sum_probs=49.5
Q ss_pred CEEEEeCCCCCCC-hHHHhhh-hhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCe
Q 001894 111 NLVYIVGLPLNLG-DEDLLQR-REYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGK 188 (999)
Q Consensus 111 NLVYVvGLp~~IA-dEDLLRk-~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGR 188 (999)
.+|-|.=|.-++. .||+ +. -...+.||.|..|.+- .+-+|-|+|.+...|-+|+.|..- ..-|.
T Consensus 87 sTIVVRWlkknm~~~edl-~sV~~~Ls~fGpI~SVT~c------------GrqsavVvF~d~~SAC~Av~Af~s-~~pgt 152 (166)
T PF15023_consen 87 STIVVRWLKKNMQPTEDL-KSVIQRLSVFGPIQSVTLC------------GRQSAVVVFKDITSACKAVSAFQS-RAPGT 152 (166)
T ss_pred eeEEeehhhhcCChHHHH-HHHHHHHHhcCCcceeeec------------CCceEEEEehhhHHHHHHHHhhcC-CCCCc
Confidence 4455554444433 2333 22 4678999999998763 234799999999999999998764 67788
Q ss_pred EEEEEEc
Q 001894 189 SLKACFG 195 (999)
Q Consensus 189 vLRASFG 195 (999)
.++|+|-
T Consensus 153 m~qCsWq 159 (166)
T PF15023_consen 153 MFQCSWQ 159 (166)
T ss_pred eEEeecc
Confidence 8888763
No 186
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=65.31 E-value=0.93 Score=56.16 Aligned_cols=69 Identities=17% Similarity=0.244 Sum_probs=54.5
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccC
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD 186 (999)
-+.+||.+|+++++++|| .+.|+.||-|..|.|......+ .-+|.|||.|...++|.+||.-.++..++
T Consensus 667 ~~~~fvsnl~~~~~~~dl---~~~~~~~~~~e~vqi~~h~n~~-----~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g 735 (881)
T KOG0128|consen 667 LIKIFVSNLSPKMSEEDL---SERFSPSGTIEVVQIVIHKNEK-----RFRGKAYVEFLKPEHAGAAVAFRDSCFFG 735 (881)
T ss_pred HHHHHHhhcchhhcCchh---hhhcCccchhhhHHHHHHhhcc-----ccccceeeEeecCCchhhhhhhhhhhhhh
Confidence 367899999999999998 4899999999887776322222 13467999999999999999987765554
No 187
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=64.65 E-value=4.8 Score=46.29 Aligned_cols=51 Identities=22% Similarity=0.729 Sum_probs=40.4
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe 63 (999)
|++..||+|+-.+- ..+.+=.||...|.+|...... ....||+||++..-+
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 3444478999999999998853 278999999976544
No 188
>PF14608 zf-CCCH_2: Zinc finger C-x8-C-x5-C-x3-H type
Probab=61.54 E-value=5.1 Score=28.08 Aligned_cols=16 Identities=38% Similarity=0.841 Sum_probs=12.5
Q ss_pred cccccCCCCCCCC-CCcccc
Q 001894 200 CHAWLRNVPCTNP-DCLYLH 218 (999)
Q Consensus 200 CssFLRn~~C~Np-dCmYLH 218 (999)
|.+|.. |.|. +|.|.|
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
>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=61.04 E-value=3.2 Score=32.40 Aligned_cols=26 Identities=42% Similarity=0.948 Sum_probs=15.4
Q ss_pred CCCCCcccCCCcCCCCcccc-CCCCcc
Q 001894 7 KTCPLCAEEMDLTDQQLKPC-KCGYEI 32 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC-~CGYQI 32 (999)
..||+|-.+....|...+-| .|++|+
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 190
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=59.12 E-value=15 Score=41.87 Aligned_cols=43 Identities=33% Similarity=0.904 Sum_probs=31.0
Q ss_pred CCCCCcccCCCcCCCCcc-ccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 7 KTCPLCAEEMDLTDQQLK-PCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~-PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
..||||--.|- ..-+ || ||.-+|--|....+ -+.+..||+|.|
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 44 89998888887543 246899999988
No 191
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=57.84 E-value=3.4 Score=37.09 Aligned_cols=34 Identities=26% Similarity=0.718 Sum_probs=19.8
Q ss_pred CCCc-cccCCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 20 DQQL-KPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 20 D~~F-~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
.+.| +|||||-+. .--+..++ .-+.-.|||.|--
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 01233333 2345689999965
No 192
>KOG4172 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=56.61 E-value=3.4 Score=36.67 Aligned_cols=47 Identities=32% Similarity=0.772 Sum_probs=33.1
Q ss_pred CCCCCCcccCCCcCCCCccccCCCC-cchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 6 EKTCPLCAEEMDLTDQQLKPCKCGY-EICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 6 d~~CPLC~EeLDlTD~~F~PC~CGY-QIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
+.+|-+|+|- ..|..++.| |. -+|--|--++. .-..|.||-||+|..
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 43 24555555654 347999999999753
No 193
>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=56.50 E-value=4.2 Score=44.86 Aligned_cols=51 Identities=24% Similarity=0.643 Sum_probs=37.4
Q ss_pred CCCCCCcccCCCc-CCCCccccC-CCCcchhhhhHHhHHhhhccccCCCCC--CCCCCCc
Q 001894 6 EKTCPLCAEEMDL-TDQQLKPCK-CGYEICVWCWHHIMDMAEKEETEGRCP--ACRSPYD 61 (999)
Q Consensus 6 d~~CPLC~EeLDl-TD~~F~PC~-CGYQIC~fC~hrI~~~~~K~~~ngrCP--ACRrpYd 61 (999)
|..||+|.-+-=+ -|..|+-=| |=..||--|.+||.. .....|| +|-+-.-
T Consensus 10 d~~CPvCksDrYLnPdik~linPECyHrmCESCvdRIFs-----~GpAqCP~~gC~kILR 64 (314)
T COG5220 10 DRRCPVCKSDRYLNPDIKILINPECYHRMCESCVDRIFS-----RGPAQCPYKGCGKILR 64 (314)
T ss_pred cccCCccccccccCCCeEEEECHHHHHHHHHHHHHHHhc-----CCCCCCCCccHHHHHH
Confidence 4689999765422 245555556 889999999999974 4678999 9977443
No 194
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=53.64 E-value=6.6 Score=35.10 Aligned_cols=53 Identities=30% Similarity=0.590 Sum_probs=19.3
Q ss_pred CCCCCCcccCCC-cCCCCcccc---CCCC---cchhhhhHHhHHhhhcc-----ccCCCCCCCCCCCc
Q 001894 6 EKTCPLCAEEMD-LTDQQLKPC---KCGY---EICVWCWHHIMDMAEKE-----ETEGRCPACRSPYD 61 (999)
Q Consensus 6 d~~CPLC~EeLD-lTD~~F~PC---~CGY---QIC~fC~hrI~~~~~K~-----~~ngrCPACRrpYd 61 (999)
+..|++|++.+. .....-.-| .|+. ..|+.=|=+= .++. -..|.||.|++++.
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 222333444 6764 3455544321 1111 23578999999653
No 195
>KOG2879 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.40 E-value=13 Score=41.88 Aligned_cols=51 Identities=24% Similarity=0.528 Sum_probs=37.7
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
..+.+||+|-|+=. ..+--=+||...|-+|-..-+. .+.--+||+|-.+-.
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 34689999999865 4555567999999999886653 223579999987543
No 196
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.45 E-value=10 Score=43.76 Aligned_cols=57 Identities=26% Similarity=0.592 Sum_probs=38.6
Q ss_pred CCCCCCcc-cCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCC--CCCCCccc
Q 001894 6 EKTCPLCA-EEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPA--CRSPYDKE 63 (999)
Q Consensus 6 d~~CPLC~-EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPA--CRrpYdEe 63 (999)
...|.+|+ |.++ .|..|..+.|+.++|..||.+-.+.........+||. |-.....+
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 47899999 5554 5566669999999999999966654334445556653 44444333
No 197
>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]
Probab=50.17 E-value=9.3 Score=48.04 Aligned_cols=82 Identities=21% Similarity=0.316 Sum_probs=61.6
Q ss_pred ccccccccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHh
Q 001894 101 QLSSVRVIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSV 180 (999)
Q Consensus 101 ~LanVRVIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaL 180 (999)
.+.+|-..|-. .|+-+.+-..+.-.| .-+|.+||+|+.+...++-. -|-|.|...|.|..|..++
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 34444444443 255555555554444 58999999999999877632 4789999999999999999
Q ss_pred CCCcc--CCeEEEEEEcCC
Q 001894 181 HGFVL--EGKSLKACFGTT 197 (999)
Q Consensus 181 NGs~L--DGRvLRASFGTT 197 (999)
.|..+ -|-+.||.|+.+
T Consensus 355 ~gkevs~~g~Ps~V~~ak~ 373 (1007)
T KOG4574|consen 355 QGKEVSVTGAPSRVSFAKT 373 (1007)
T ss_pred cCCcccccCCceeEEeccc
Confidence 99874 688999999977
No 198
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=48.49 E-value=16 Score=42.30 Aligned_cols=74 Identities=12% Similarity=0.168 Sum_probs=50.7
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeE
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKS 189 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRv 189 (999)
|-.+||+||.|..+++|||+--.-.|-- .|.+|+.-.++..+ ...++|.|.........+-++.|--.+|.|..
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 3578999999999999998632222211 34455544343332 14567999999988888888888888888864
No 199
>smart00356 ZnF_C3H1 zinc finger.
Probab=47.83 E-value=16 Score=26.04 Aligned_cols=23 Identities=26% Similarity=0.625 Sum_probs=17.7
Q ss_pred CCccccccCCCCCCC-CCCcccccC
Q 001894 197 TKYCHAWLRNVPCTN-PDCLYLHEV 220 (999)
Q Consensus 197 TKYCssFLRn~~C~N-pdCmYLHE~ 220 (999)
++.|..|+. -.|.. +.|.|+|+.
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 200
>COG5183 SSM4 Protein involved in mRNA turnover and stability [RNA processing and modification]
Probab=45.71 E-value=13 Score=46.67 Aligned_cols=55 Identities=27% Similarity=0.678 Sum_probs=41.2
Q ss_pred ccCCCCCCcccCCCcCCCCccccCCCC------cchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 4 EGEKTCPLCAEEMDLTDQQLKPCKCGY------EICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F~PC~CGY------QIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
||+..|-+|--|=-..|..|-||+|.= |-|+-=|-. .....+|--|.-+|.=++|
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 345999999888878899999999942 446555543 2357899999999865554
No 201
>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]
Probab=44.27 E-value=24 Score=39.30 Aligned_cols=109 Identities=13% Similarity=0.164 Sum_probs=77.5
Q ss_pred CEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEE
Q 001894 111 NLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSL 190 (999)
Q Consensus 111 NLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvL 190 (999)
...||+.+.+.+.+++. ..+|.++|.+....+....... +..+ +.||-|..++.+..|++..-...++++.+
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 34689999888865544 3789999988888887654432 2334 57999999999999999766678999999
Q ss_pred EEEEcCCCccccccCCCCCCCC-----CCccccc-CCCCCCCccHHHHH
Q 001894 191 KACFGTTKYCHAWLRNVPCTNP-----DCLYLHE-VGSQEDSFTKDEII 233 (999)
Q Consensus 191 RASFGTTKYCssFLRn~~C~Np-----dCmYLHE-~g~~~DsfTKeem~ 233 (999)
.+.+.+.+- -+.|+.. .+.+.=. .+.-..+.|++|+.
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 45556678888876
No 202
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=43.74 E-value=12 Score=44.36 Aligned_cols=23 Identities=30% Similarity=0.559 Sum_probs=16.4
Q ss_pred cCCCCCCcccCCCcCCCCccccC
Q 001894 5 GEKTCPLCAEEMDLTDQQLKPCK 27 (999)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~F~PC~ 27 (999)
+-.+||.|.|.||.+=.-+.|=.
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~ 196 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTIL 196 (493)
T ss_pred cCCCcchhHhhcCccccceeeee
Confidence 45799999999996554444433
No 203
>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]
Probab=43.31 E-value=1.3 Score=51.61 Aligned_cols=71 Identities=25% Similarity=0.403 Sum_probs=56.3
Q ss_pred EEEeCCCCCCChHHHhhhhhhhcCCCceEEEEE-eecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEE
Q 001894 113 VYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSM-SRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLK 191 (999)
Q Consensus 113 VYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvI-nrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLR 191 (999)
+-|.++|+.++- ++| ..+.++||.+..+.+ +.+..+ ..+-|||...+.+.-||..++|..+....++
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 556778888765 445 579999999999875 333332 3457899999999999999999999999999
Q ss_pred EEEc
Q 001894 192 ACFG 195 (999)
Q Consensus 192 ASFG 195 (999)
+.|-
T Consensus 151 ~~Yi 154 (584)
T KOG2193|consen 151 VGYI 154 (584)
T ss_pred cccC
Confidence 8863
No 204
>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=42.96 E-value=14 Score=30.64 Aligned_cols=35 Identities=29% Similarity=0.647 Sum_probs=19.8
Q ss_pred ccCCCCCC--cccCCCcCCCCcc---ccC-CCCcchhhhhH
Q 001894 4 EGEKTCPL--CAEEMDLTDQQLK---PCK-CGYEICVWCWH 38 (999)
Q Consensus 4 d~d~~CPL--C~EeLDlTD~~F~---PC~-CGYQIC~fC~h 38 (999)
.+-..||- |-..+-..+..-. -|+ |++++|.-|-.
T Consensus 16 ~~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~fC~~C~~ 56 (64)
T PF01485_consen 16 PNIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEFCFKCGE 56 (64)
T ss_dssp --CC--TTSST---ECS-SSTTS--CCTTSCCSEECSSSTS
T ss_pred CCccCCCCCCCcccEEecCCCCCCeeECCCCCCcCccccCc
Confidence 34468977 9888866666554 698 99998888743
No 205
>COG0068 HypF Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=42.87 E-value=5 Score=49.59 Aligned_cols=52 Identities=31% Similarity=0.690 Sum_probs=29.6
Q ss_pred CCCCCCcccCC-CcCCCCc-cc---c-CCCCcchhhhhHHhHHhh---hcc--ccCCCCCCCCCCCcc
Q 001894 6 EKTCPLCAEEM-DLTDQQL-KP---C-KCGYEICVWCWHHIMDMA---EKE--ETEGRCPACRSPYDK 62 (999)
Q Consensus 6 d~~CPLC~EeL-DlTD~~F-~P---C-~CGYQIC~fC~hrI~~~~---~K~--~~ngrCPACRrpYdE 62 (999)
-.+|+-|.+|| |..++.| || | .||=+ |.-|..+. +.+ ..=.+||.|+++|.+
T Consensus 101 ~a~C~~Cl~Ei~dp~~rrY~YPF~~CT~CGPR-----fTIi~alPYDR~nTsM~~F~lC~~C~~EY~d 163 (750)
T COG0068 101 AATCEDCLEEIFDPNSRRYLYPFINCTNCGPR-----FTIIEALPYDRENTSMADFPLCPFCDKEYKD 163 (750)
T ss_pred hhhhHHHHHHhcCCCCcceeccccccCCCCcc-----eeeeccCCCCcccCccccCcCCHHHHHHhcC
Confidence 46899999887 7777765 44 5 46644 11111100 011 123578888888854
No 206
>KOG4185 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.75 E-value=19 Score=39.03 Aligned_cols=49 Identities=29% Similarity=0.686 Sum_probs=39.6
Q ss_pred CCCCCcccCCCcCCCCc--cccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001894 7 KTCPLCAEEMDLTDQQL--KPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F--~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpY 60 (999)
..|-+|-++++..|..- +--+||.-||..|..++. .+....||=||.+-
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 207
>KOG3039 consensus Uncharacterized conserved protein [Function unknown]
Probab=42.09 E-value=18 Score=40.28 Aligned_cols=51 Identities=20% Similarity=0.516 Sum_probs=44.1
Q ss_pred CCCCCcccCCCcCCCCcccc----CCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhc
Q 001894 7 KTCPLCAEEMDLTDQQLKPC----KCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVG 67 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC----~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i~~ 67 (999)
-.||.|-..|. |--|| +||-.+|.-|-.+++. .++.||-|-+|..|..|..
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 208
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=41.89 E-value=14 Score=35.84 Aligned_cols=49 Identities=24% Similarity=0.588 Sum_probs=32.7
Q ss_pred cCCCCCCcccCCCcCCCCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 5 GEKTCPLCAEEMDLTDQQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~F~PC-~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
++..|.+|..+|.+-+..-..| .|++.||.-|--.. +....-+|-.|.+
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 5689999999998777666777 78888888886653 1223345666654
No 209
>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=41.31 E-value=3.8 Score=30.91 Aligned_cols=28 Identities=32% Similarity=0.815 Sum_probs=15.8
Q ss_pred cchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 31 EICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 31 QIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
+-|.-||+.|.+..........||.|-.
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 210
>KOG1729 consensus FYVE finger containing protein [General function prediction only]
Probab=40.96 E-value=5.8 Score=44.38 Aligned_cols=60 Identities=22% Similarity=0.572 Sum_probs=44.8
Q ss_pred CcccCCCCCCccc-CCCcCCCCcccc-CCCCcchhhhhHHhHHhhh-ccccCCCCCCCCCCCcc
Q 001894 2 SDEGEKTCPLCAE-EMDLTDQQLKPC-KCGYEICVWCWHHIMDMAE-KEETEGRCPACRSPYDK 62 (999)
Q Consensus 2 sDd~d~~CPLC~E-eLDlTD~~F~PC-~CGYQIC~fC~hrI~~~~~-K~~~ngrCPACRrpYdE 62 (999)
-|.+...|+.|.- +|.++++..- | .||..+|..|-+++..+.. .+....-|+.|-..|.+
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 4778899999999 9999998877 8 8999999999998543221 11122268888877754
No 211
>KOG0826 consensus Predicted E3 ubiquitin ligase involved in peroxisome organization [Posttranslational modification, protein turnover, chaperones]
Probab=40.06 E-value=15 Score=42.06 Aligned_cols=44 Identities=27% Similarity=0.676 Sum_probs=31.0
Q ss_pred cCCCCCCcccCCCcCCCCccccCC---CCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001894 5 GEKTCPLCAEEMDLTDQQLKPCKC---GYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (999)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~F~PC~C---GYQIC~fC~hrI~~~~~K~~~ngrCPACRrpY 60 (999)
+...||+|.-.- --||.| ||-.|--|-.+-+. ..|+||---.|-
T Consensus 299 ~~~~CpvClk~r------~Nptvl~vSGyVfCY~Ci~~Yv~------~~~~CPVT~~p~ 345 (357)
T KOG0826|consen 299 DREVCPVCLKKR------QNPTVLEVSGYVFCYPCIFSYVV------NYGHCPVTGYPA 345 (357)
T ss_pred ccccChhHHhcc------CCCceEEecceEEeHHHHHHHHH------hcCCCCccCCcc
Confidence 348999997644 357777 99988888765542 479998655443
No 212
>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=38.81 E-value=9.4 Score=28.45 Aligned_cols=24 Identities=29% Similarity=0.704 Sum_probs=18.7
Q ss_pred CCCccccccCCCCCCC-CCCccccc
Q 001894 196 TTKYCHAWLRNVPCTN-PDCLYLHE 219 (999)
Q Consensus 196 TTKYCssFLRn~~C~N-pdCmYLHE 219 (999)
.|+-|..|++.-.|.. ..|.|+|.
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 213
>KOG0824 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=38.75 E-value=23 Score=40.37 Aligned_cols=49 Identities=24% Similarity=0.548 Sum_probs=31.9
Q ss_pred CCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001894 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (999)
Q Consensus 6 d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe 63 (999)
+.+|++|...+- .. .--+|+...|.-|..--. + +..+-|+-||+|.|+.
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 233678874444444321 2 2344599999999987
No 214
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=37.44 E-value=14 Score=47.19 Aligned_cols=50 Identities=28% Similarity=0.674 Sum_probs=31.9
Q ss_pred ccCCCCCCcccCCCcCCCCc--cccCCCCcchhhhhHHhHH----hhhccccCCCCCCCCCCC
Q 001894 4 EGEKTCPLCAEEMDLTDQQL--KPCKCGYEICVWCWHHIMD----MAEKEETEGRCPACRSPY 60 (999)
Q Consensus 4 d~d~~CPLC~EeLDlTD~~F--~PC~CGYQIC~fC~hrI~~----~~~K~~~ngrCPACRrpY 60 (999)
++-++|++|.-.|+..|+.+ +-| +- |-|++-. --.+...+.+||-||..+
T Consensus 1467 sG~eECaICYsvL~~vdr~lPskrC--~T-----CknKFH~~CLyKWf~Ss~~s~CPlCRsei 1522 (1525)
T COG5219 1467 SGHEECAICYSVLDMVDRSLPSKRC--AT-----CKNKFHTRCLYKWFASSARSNCPLCRSEI 1522 (1525)
T ss_pred CCcchhhHHHHHHHHHhccCCcccc--ch-----hhhhhhHHHHHHHHHhcCCCCCCcccccc
Confidence 46689999999999999988 666 10 0000000 000235688999999754
No 215
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.72 E-value=24 Score=40.70 Aligned_cols=48 Identities=23% Similarity=0.566 Sum_probs=31.6
Q ss_pred CCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCC-CCCCCCCCcc
Q 001894 8 TCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGR-CPACRSPYDK 62 (999)
Q Consensus 8 ~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngr-CPACRrpYdE 62 (999)
.|.+|+|++..-|+.= -.||+...=.-|-+.=+. ...+ ||-|++....
T Consensus 231 ~CaIClEdY~~GdklR-iLPC~H~FH~~CIDpWL~------~~r~~CPvCK~di~~ 279 (348)
T KOG4628|consen 231 TCAICLEDYEKGDKLR-ILPCSHKFHVNCIDPWLT------QTRTFCPVCKRDIRT 279 (348)
T ss_pred eEEEeecccccCCeee-EecCCCchhhccchhhHh------hcCccCCCCCCcCCC
Confidence 9999999997776643 255544433667665542 2334 9999996543
No 216
>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=35.32 E-value=70 Score=28.53 Aligned_cols=59 Identities=12% Similarity=0.236 Sum_probs=31.9
Q ss_pred CCCChHHHhhhhhhhcCCCceE-----EEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEE
Q 001894 120 LNLGDEDLLQRREYFGQYGKVL-----KVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLEGKSLKACF 194 (999)
Q Consensus 120 ~~IAdEDLLRk~EyFGQYGKI~-----KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LDGRvLRASF 194 (999)
..+...+|+ .++..-+.|. +|.|.. . +.||+-.. +.|.+++.+|++..+.||.|++..
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 345666776 5666665554 444431 2 46888877 579999999999999999999875
Q ss_pred c
Q 001894 195 G 195 (999)
Q Consensus 195 G 195 (999)
+
T Consensus 74 A 74 (74)
T PF03880_consen 74 A 74 (74)
T ss_dssp -
T ss_pred C
Confidence 3
No 217
>PRK11595 DNA utilization protein GntX; Provisional
Probab=32.70 E-value=35 Score=36.19 Aligned_cols=40 Identities=28% Similarity=0.639 Sum_probs=27.0
Q ss_pred CCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
..|.+|-+.++.. ...||..|+..+.- ...+||.|-++..
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 218
>PF12773 DZR: Double zinc ribbon
Probab=32.70 E-value=40 Score=27.65 Aligned_cols=42 Identities=19% Similarity=0.536 Sum_probs=23.3
Q ss_pred CCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001894 9 CPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (999)
Q Consensus 9 CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe 63 (999)
||-|-++++.. ..+|.+|=..+.. .+.....||+|.++++..
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 3455566555531 123456788888876543
No 219
>KOG1815 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.46 E-value=64 Score=37.77 Aligned_cols=66 Identities=21% Similarity=0.593 Sum_probs=45.5
Q ss_pred cccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCC--CC--CCCCCCCcccchhcccch
Q 001894 3 DEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEG--RC--PACRSPYDKEKIVGMAAK 71 (999)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ng--rC--PACRrpYdEe~i~~~~~~ 71 (999)
+..+..|.+|++..+. .+.-=.||+.+|..||..-+....-.+..+ .| +.|+...+++.|......
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 469998888888655444
No 220
>KOG1785 consensus Tyrosine kinase negative regulator CBL [Defense mechanisms]
Probab=32.37 E-value=20 Score=42.20 Aligned_cols=46 Identities=33% Similarity=0.764 Sum_probs=36.1
Q ss_pred CCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001894 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpY 60 (999)
+.|-+|.| .|+..+-=+||.-+|--|+..-.+ .++..-||=||-+.
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 467788888999999999987754 33466799999866
No 221
>KOG3161 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=32.36 E-value=22 Score=43.89 Aligned_cols=48 Identities=21% Similarity=0.562 Sum_probs=34.1
Q ss_pred CCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
..|++|+.++=..-.--.--.||.-||.-|...+ .+..|| |.+ ||..+
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 54443
No 222
>PRK04023 DNA polymerase II large subunit; Validated
Probab=32.27 E-value=46 Score=43.19 Aligned_cols=56 Identities=25% Similarity=0.588 Sum_probs=37.5
Q ss_pred cCCCCCCcccCCCcCCCCccccC-CCC-----cchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhcccchhHHH
Q 001894 5 GEKTCPLCAEEMDLTDQQLKPCK-CGY-----EICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVGMAAKCERL 75 (999)
Q Consensus 5 ~d~~CPLC~EeLDlTD~~F~PC~-CGY-----QIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i~~~~~~~eel 75 (999)
+...||-|-.+. ..+.|+ ||- -.|.-|-... ....||.|-.+-... ..+.++..++
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 447899999985 668998 984 4788883332 346799999876543 3334444443
No 223
>KOG1492 consensus C3H1-type Zn-finger protein [General function prediction only]
Probab=30.92 E-value=19 Score=39.43 Aligned_cols=27 Identities=33% Similarity=0.723 Sum_probs=22.1
Q ss_pred CccccccCCCCCCCCCCcccccCCCCCC
Q 001894 198 KYCHAWLRNVPCTNPDCLYLHEVGSQED 225 (999)
Q Consensus 198 KYCssFLRn~~C~NpdCmYLHE~g~~~D 225 (999)
--|.+||-| +|.||+|-|+|-.-.++.
T Consensus 262 pacryfllg-kcnnpncryvhihysena 288 (377)
T KOG1492|consen 262 PACRYFLLG-KCNNPNCRYVHIHYSENA 288 (377)
T ss_pred chhhhhhhc-cCCCCCceEEEEeecCCC
Confidence 358889877 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=30.46 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 001894 111 NLVYIVGLPLNLGD-EDLLQRREYFGQYG-KVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVLE 186 (999)
Q Consensus 111 NLVYVvGLp~~IAd-EDLLRk~EyFGQYG-KI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~LD 186 (999)
..|-|...|+.... ++|+ .+.+.+- .|..++|.++... .++-|-|.|.+.++|..--+..||..+.
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 4453 2333333 4557778776432 4688999999999999999999998763
No 225
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=29.44 E-value=15 Score=46.11 Aligned_cols=55 Identities=16% Similarity=0.325 Sum_probs=0.0
Q ss_pred CCcccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcc
Q 001894 1 MSDEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDK 62 (999)
Q Consensus 1 msDd~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdE 62 (999)
.+-++...||.|.--+ ..-+-.-+=+|+.-+|--|+.-+-. -..-||-||..|++
T Consensus 118 ~~~~~~~~CP~Ci~s~-~DqL~~~~k~c~H~FC~~Ci~sWsR------~aqTCPiDR~EF~~ 172 (1134)
T KOG0825|consen 118 VQTHVENQCPNCLKSC-NDQLEESEKHTAHYFCEECVGSWSR------CAQTCPVDRGEFGE 172 (1134)
T ss_pred hhhhhhhhhhHHHHHH-HHHhhccccccccccHHHHhhhhhh------hcccCchhhhhhhe
No 226
>KOG4159 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.24 E-value=35 Score=40.04 Aligned_cols=48 Identities=27% Similarity=0.686 Sum_probs=35.7
Q ss_pred CCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCccc
Q 001894 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKE 63 (999)
Q Consensus 6 d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe 63 (999)
+-.|-+|+.-|- .--.. +||.-.|.+|.++-++ ...-||-||-+|-+-
T Consensus 84 ef~c~vc~~~l~---~pv~t-pcghs~c~~Cl~r~ld------~~~~cp~Cr~~l~e~ 131 (398)
T KOG4159|consen 84 EFECCVCSRALY---PPVVT-PCGHSFCLECLDRSLD------QETECPLCRDELVEL 131 (398)
T ss_pred hhhhhhhHhhcC---CCccc-cccccccHHHHHHHhc------cCCCCcccccccccc
Confidence 467888865552 22222 8999999999998654 567899999999763
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=29.12 E-value=25 Score=41.25 Aligned_cols=24 Identities=33% Similarity=0.920 Sum_probs=16.6
Q ss_pred CCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 21 QQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 21 ~~F~PC-~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
+..|-| .|||+- ..-.|+||+|+.
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
>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=28.50 E-value=59 Score=27.45 Aligned_cols=46 Identities=24% Similarity=0.675 Sum_probs=28.9
Q ss_pred CCCCcccCCCcCCCCccccCCCC--c-chhhhhHHhHHhhhccccCCCCCCCC
Q 001894 8 TCPLCAEEMDLTDQQLKPCKCGY--E-ICVWCWHHIMDMAEKEETEGRCPACR 57 (999)
Q Consensus 8 ~CPLC~EeLDlTD~~F~PC~CGY--Q-IC~fC~hrI~~~~~K~~~ngrCPACR 57 (999)
.|-+|.++.+..+.-+.||.|.- + +=.-|..+=+.. .....||-|.
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 58899987777788889999941 1 113344444321 1234898884
No 229
>KOG2891 consensus Surface glycoprotein [General function prediction only]
Probab=28.05 E-value=24 Score=39.93 Aligned_cols=90 Identities=18% Similarity=0.348 Sum_probs=57.8
Q ss_pred cCEEEEeCCCCC-----------CChHHHhhhhhhhcCCCceEEEEEeecC---------CCcccccC-C----CCcEEE
Q 001894 110 RNLVYIVGLPLN-----------LGDEDLLQRREYFGQYGKVLKVSMSRTA---------AGVIQQFP-N----NTCSVY 164 (999)
Q Consensus 110 RNLVYVvGLp~~-----------IAdEDLLRk~EyFGQYGKI~KIvInrdk---------~T~~qq~p-~----~ggsAY 164 (999)
-.+||+.|||-+ +..|+.|+ ..|..||.|-.|.|+.-. ..+.|+.. . --+-||
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 468999999843 34567775 699999999999886421 12222111 0 012368
Q ss_pred EEeCCHHHHHHHHHHhCCCcc----CCe----EEEEEEcCCCccc
Q 001894 165 ITYSKEEEAVRCIQSVHGFVL----EGK----SLKACFGTTKYCH 201 (999)
Q Consensus 165 VTFsr~EDA~rAIqaLNGs~L----DGR----vLRASFGTTKYCs 201 (999)
|.|-...--..|+.+|-|..+ +|+ .++|.|-.++.-+
T Consensus 227 vqfmeykgfa~amdalr~~k~akk~d~~ffqanvkvdfdrsrhls 271 (445)
T KOG2891|consen 227 VQFMEYKGFAQAMDALRGMKLAKKGDDGFFQANVKVDFDRSRHLS 271 (445)
T ss_pred HHHHHHHhHHHHHHHHhcchHHhhcCCcccccccccccchhhhhh
Confidence 888777777778888877653 554 5677777666543
No 230
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=27.70 E-value=34 Score=42.66 Aligned_cols=50 Identities=20% Similarity=0.639 Sum_probs=35.3
Q ss_pred CCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCCCcccch
Q 001894 7 KTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKI 65 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i 65 (999)
..||.|-... +.-.-=+||.-+|--|-..-.++ -.-+||.|-+++.-.-|
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 12222389999888888866654 36899999999876544
No 231
>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=27.55 E-value=30 Score=29.25 Aligned_cols=17 Identities=41% Similarity=0.974 Sum_probs=9.4
Q ss_pred cCCCCCCCCCCCcccch
Q 001894 49 TEGRCPACRSPYDKEKI 65 (999)
Q Consensus 49 ~ngrCPACRrpYdEe~i 65 (999)
.+++||-|.|+++++.-
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 232
>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=27.26 E-value=32 Score=29.05 Aligned_cols=39 Identities=28% Similarity=0.571 Sum_probs=23.8
Q ss_pred CCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhHHhhhccccCCCCCCCCCC
Q 001894 6 EKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIMDMAEKEETEGRCPACRSP 59 (999)
Q Consensus 6 d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRrp 59 (999)
.-.||.|-+.+|...+ + .++.+.=..+..+..||-|...
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 233
>PHA02862 5L protein; Provisional
Probab=27.09 E-value=47 Score=34.65 Aligned_cols=48 Identities=21% Similarity=0.696 Sum_probs=30.9
Q ss_pred CCCCCcccCCCcCCCCccccCCC--Cc-chhhhhHHhHHhhhccccCCCCCCCCCCCc
Q 001894 7 KTCPLCAEEMDLTDQQLKPCKCG--YE-ICVWCWHHIMDMAEKEETEGRCPACRSPYD 61 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC~CG--YQ-IC~fC~hrI~~~~~K~~~ngrCPACRrpYd 61 (999)
..|=+|-++=| ....||.|. ++ +=+-|..+=++ ......||-|+.+|.
T Consensus 3 diCWIC~~~~~---e~~~PC~C~GS~K~VHq~CL~~WIn----~S~k~~CeLCkteY~ 53 (156)
T PHA02862 3 DICWICNDVCD---ERNNFCGCNEEYKVVHIKCMQLWIN----YSKKKECNLCKTKYN 53 (156)
T ss_pred CEEEEecCcCC---CCcccccccCcchhHHHHHHHHHHh----cCCCcCccCCCCeEE
Confidence 57999998854 226999992 11 11233333332 346789999999995
No 234
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=27.05 E-value=38 Score=32.27 Aligned_cols=29 Identities=31% Similarity=0.720 Sum_probs=22.5
Q ss_pred CcchhhhhHHhHHhhhccccCCCCCCCCCCCcccchhc
Q 001894 30 YEICVWCWHHIMDMAEKEETEGRCPACRSPYDKEKIVG 67 (999)
Q Consensus 30 YQIC~fC~hrI~~~~~K~~~ngrCPACRrpYdEe~i~~ 67 (999)
-..|..|...+ +|-||.|+.|-|+-++++
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 689999999999888764
No 235
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=26.80 E-value=41 Score=25.54 Aligned_cols=21 Identities=48% Similarity=1.187 Sum_probs=14.2
Q ss_pred CCCCcccCCCcCCCCccccC-CCCc
Q 001894 8 TCPLCAEEMDLTDQQLKPCK-CGYE 31 (999)
Q Consensus 8 ~CPLC~EeLDlTD~~F~PC~-CGYQ 31 (999)
.||-|-.++- ..-+-|+ |||.
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 236
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=26.06 E-value=1.6e+02 Score=35.54 Aligned_cols=66 Identities=17% Similarity=0.375 Sum_probs=55.1
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCC-ceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYG-KVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYG-KI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~L 185 (999)
.++|.|.++|..++--|+|+ |.+.+= .|..|.|.||... .++.+-|+|.+.+||..=-+..||..+
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 78899999999999999984 444442 4788999996543 358999999999999999999999876
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 KOG4213 consensus RNA-binding protein La [RNA processing and modification]
Probab=25.58 E-value=55 Score=35.26 Aligned_cols=64 Identities=25% Similarity=0.251 Sum_probs=40.8
Q ss_pred ccccCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhC
Q 001894 107 VIQRNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVH 181 (999)
Q Consensus 107 VIQRNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLN 181 (999)
-|++-.||.- +..-.-++|+ ++-+ |++..|.+-+..... .+ -.|++||||.+.+.|..|++.-+
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 3555667776 1111223443 4444 999999886544332 11 35689999999999999998643
No 239
>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=25.36 E-value=37 Score=27.42 Aligned_cols=26 Identities=27% Similarity=0.797 Sum_probs=22.9
Q ss_pred CCCCCcccCCCcCCCCcccc-CCCCcc
Q 001894 7 KTCPLCAEEMDLTDQQLKPC-KCGYEI 32 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC-~CGYQI 32 (999)
..|+.|-..+..+|--|+-| .||.|+
T Consensus 9 ~~C~~C~~~~~~~~dG~~yC~~cG~~~ 35 (36)
T PF11781_consen 9 EPCPVCGSRWFYSDDGFYYCDRCGHQS 35 (36)
T ss_pred CcCCCCCCeEeEccCCEEEhhhCceEc
Confidence 34999999999999999999 999874
No 240
>KOG1842 consensus FYVE finger-containing protein [General function prediction only]
Probab=24.84 E-value=26 Score=41.66 Aligned_cols=40 Identities=30% Similarity=0.577 Sum_probs=32.3
Q ss_pred CcccCCCCCCcccCCCcCCCCccccCCCCcchhhhhHHhH
Q 001894 2 SDEGEKTCPLCAEEMDLTDQQLKPCKCGYEICVWCWHHIM 41 (999)
Q Consensus 2 sDd~d~~CPLC~EeLDlTD~~F~PC~CGYQIC~fC~hrI~ 41 (999)
.|-+...||+|.+.|-+|-+..-===||-.||.+|-.-|-
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 4556789999999999987765422799999999998764
No 241
>PRK11823 DNA repair protein RadA; Provisional
Probab=24.54 E-value=37 Score=39.74 Aligned_cols=24 Identities=38% Similarity=0.877 Sum_probs=16.5
Q ss_pred CCcccc-CCCCcchhhhhHHhHHhhhccccCCCCCCCCC
Q 001894 21 QQLKPC-KCGYEICVWCWHHIMDMAEKEETEGRCPACRS 58 (999)
Q Consensus 21 ~~F~PC-~CGYQIC~fC~hrI~~~~~K~~~ngrCPACRr 58 (999)
+..|-| .|||+- ..-.|+||+|..
T Consensus 5 ~~~y~C~~Cg~~~--------------~~~~g~Cp~C~~ 29 (446)
T PRK11823 5 KTAYVCQECGAES--------------PKWLGRCPECGA 29 (446)
T ss_pred CCeEECCcCCCCC--------------cccCeeCcCCCC
Confidence 445668 678872 124689999965
No 242
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=24.41 E-value=1.7e+02 Score=31.95 Aligned_cols=61 Identities=18% Similarity=0.237 Sum_probs=48.4
Q ss_pred cCEEEEeCCCCCCChHHHhhhhhhhcCCCceEEEEEeecCCCcccccCCCCcEEEEEeCCHHHHHHHHHHhCCCcc
Q 001894 110 RNLVYIVGLPLNLGDEDLLQRREYFGQYGKVLKVSMSRTAAGVIQQFPNNTCSVYITYSKEEEAVRCIQSVHGFVL 185 (999)
Q Consensus 110 RNLVYVvGLp~~IAdEDLLRk~EyFGQYGKI~KIvInrdk~T~~qq~p~~ggsAYVTFsr~EDA~rAIqaLNGs~L 185 (999)
...|.|.|||+.-.=.||. +..-+-|.|--..|-+| +..-|.|.+.||-+-||..|+...+
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 4567899999998777873 78888888877766654 2358999999999999999887554
No 243
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=24.29 E-value=41 Score=44.14 Aligned_cols=18 Identities=56% Similarity=1.285 Sum_probs=12.7
Q ss_pred CCCCCCCCCCCCC---CCCCC
Q 001894 777 SAPPGFSVPSRAP---PPGFT 794 (999)
Q Consensus 777 SaPPGFS~psR~P---ppGFS 794 (999)
-.||||-.||.+| |||.-
T Consensus 13 ppppg~epps~pppPppPg~~ 33 (2365)
T COG5178 13 PPPPGFEPPSQPPPPPPPGVN 33 (2365)
T ss_pred ccCCCCCCCCCCCCccCCCcc
Confidence 3588998887655 55875
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=24.12 E-value=42 Score=33.50 Aligned_cols=15 Identities=33% Similarity=0.811 Sum_probs=6.3
Q ss_pred ccccC-CCCCccccCC
Q 001894 974 KFYNG-YEDSKFRMPS 988 (999)
Q Consensus 974 ~~y~g-~e~~kf~mp~ 988 (999)
.|||| |+..++|+-+
T Consensus 97 ~FyPG~y~g~~l~lf~ 112 (126)
T PF08747_consen 97 VFYPGEYDGNSLRLFG 112 (126)
T ss_pred EECCceecCceeEecC
Confidence 44444 3444444433
No 245
>PF12773 DZR: Double zinc ribbon
Probab=24.12 E-value=65 Score=26.40 Aligned_cols=29 Identities=38% Similarity=0.799 Sum_probs=23.5
Q ss_pred cccCCCCCCcccCCCcCCCCcccc-CCCCc
Q 001894 3 DEGEKTCPLCAEEMDLTDQQLKPC-KCGYE 31 (999)
Q Consensus 3 Dd~d~~CPLC~EeLDlTD~~F~PC-~CGYQ 31 (999)
+++...||.|-.+|...+...+.| .||+.
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 246
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=22.95 E-value=40 Score=32.89 Aligned_cols=20 Identities=25% Similarity=0.659 Sum_probs=8.9
Q ss_pred CCCCcccCCCcCCCCccccC
Q 001894 8 TCPLCAEEMDLTDQQLKPCK 27 (999)
Q Consensus 8 ~CPLC~EeLDlTD~~F~PC~ 27 (999)
.|+-|-..+.+.+..+++||
T Consensus 72 ~C~~Cg~~~~~~~~~~~~CP 91 (114)
T PRK03681 72 WCETCQQYVTLLTQRVRRCP 91 (114)
T ss_pred EcccCCCeeecCCccCCcCc
Confidence 35555544444444334443
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=22.71 E-value=36 Score=29.66 Aligned_cols=26 Identities=31% Similarity=0.994 Sum_probs=18.8
Q ss_pred CCCCCcccCC--------CcCCCCc-cccCCCCcc
Q 001894 7 KTCPLCAEEM--------DLTDQQL-KPCKCGYEI 32 (999)
Q Consensus 7 ~~CPLC~EeL--------DlTD~~F-~PC~CGYQI 32 (999)
..||-|-.+. .+.|--| +.|+||+.|
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
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=21.63 E-value=73 Score=30.30 Aligned_cols=54 Identities=26% Similarity=0.741 Sum_probs=28.3
Q ss_pred CCCCCCcccCCCcCCCC--c--cccCCCCcchhhhhHH--hHH-hhhccccCCCCCCCCCCC
Q 001894 6 EKTCPLCAEEMDLTDQQ--L--KPCKCGYEICVWCWHH--IMD-MAEKEETEGRCPACRSPY 60 (999)
Q Consensus 6 d~~CPLC~EeLDlTD~~--F--~PC~CGYQIC~fC~hr--I~~-~~~K~~~ngrCPACRrpY 60 (999)
+++|-||--+||-+=.. | --||==.-+|.-++|. |.+ .+.++ .++.||-||+.+
T Consensus 20 ~e~CGiCRm~Fdg~Cp~Ck~PgDdCPLv~G~C~h~fh~hCI~~wl~~~t-sq~~CPmcRq~~ 80 (84)
T KOG1493|consen 20 DETCGICRMPFDGCCPDCKLPGDDCPLVWGYCLHAFHAHCILKWLNTPT-SQGQCPMCRQTW 80 (84)
T ss_pred CCccceEecccCCcCCCCcCCCCCCccHHHHHHHHHHHHHHHHHhcCcc-ccccCCcchhee
Confidence 34666666555532110 0 0133223367777773 333 33333 459999999965
No 249
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=21.39 E-value=53 Score=27.34 Aligned_cols=34 Identities=32% Similarity=0.759 Sum_probs=24.2
Q ss_pred cCCCCC--CcccCCCcC---CCCcccc-CCCCcchhhhhH
Q 001894 5 GEKTCP--LCAEEMDLT---DQQLKPC-KCGYEICVWCWH 38 (999)
Q Consensus 5 ~d~~CP--LC~EeLDlT---D~~F~PC-~CGYQIC~fC~h 38 (999)
.-.-|| -|-..+... +....-| .||+.+|.-|-.
T Consensus 17 ~~~~CP~~~C~~~~~~~~~~~~~~v~C~~C~~~fC~~C~~ 56 (64)
T smart00647 17 DLKWCPAPDCSAAIIVTEEEGCNRVTCPKCGFSFCFRCKV 56 (64)
T ss_pred CccCCCCCCCcceEEecCCCCCCeeECCCCCCeECCCCCC
Confidence 345698 887666554 4567889 899998877743
No 250
>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=20.06 E-value=35 Score=43.44 Aligned_cols=41 Identities=32% Similarity=0.863 Sum_probs=0.0
Q ss_pred CCCCCcccCCCcCCCCccccC-CCCc-----chhhhhHHhHHhhhccccCCCCCCCCCCC
Q 001894 7 KTCPLCAEEMDLTDQQLKPCK-CGYE-----ICVWCWHHIMDMAEKEETEGRCPACRSPY 60 (999)
Q Consensus 7 ~~CPLC~EeLDlTD~~F~PC~-CGYQ-----IC~fC~hrI~~~~~K~~~ngrCPACRrpY 60 (999)
..||-|-.+ ..+.-|+ ||-. .|..|-...- ...||.|.++-
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 568888665 4566784 8644 6777777652 34788887753
Done!